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Our research provide a basal gene expression profile in adult zebrafish liver.", null, null, null, "Transcriptome of female Danio rerio liver", "SAMD00153247", null, "sample name:transcriptome zebrafish female|sex:female|strain:RIKEN WT|tissue:liver", null, null, null, null, null, null, null, null, "NextSeq 500 paired end sequencing of SAMD00153247", "DRX151936", "f", "1", "1", null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "PAIRED", "ILLUMINA", "NextSeq 500", "1520Application ReadForward11Application ReadReverse77", "DRP005084", "NextSeq 500 paired end sequencing of SAMD00153247", null, null, null, 2338564937.0, 15498367.0, "DRR161311", "0:75.45 1:75.44", "A:613899755;C:541756858;G:548366901;T:633083422;N:1458001", 75, 75, null, null, 613899755, 541756858, 548366901, 633083422, 1458001, "DRX151936", "DRS095335", "DRA007652", "OBICHIKU|Laboratory of Toxicology, Department of Veterinary Medicine, Obihiro University of Agriculture and Veterinary Medicine", "Laboratory of Toxicology, Department of Veterinary Medicine, Obihiro University of Agriculture and Veterinary Medicine", 2, 0.95814, 0.96362, 0.05394, 0.04517, 0.77932, 0.7834, 0.37385, 0.37264, 76, 76, "B", "B", "biological fallback assumption", "illumina", "nextseq", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Japan", "2019-05-20", "Undetermined", "Adult", "Liver", "Liver and Biliary System"], [281, "DRR161310", "DRX151935", "DRS095334", "DRP005084", "PRJDB7735", "Gene expression profile in adult zebrafish liver", "DRP005084", "Transcriptome Analysis", "Increasing use of zebrafish in toxicological researches requires knowledge on gene expression profile in liver that play a major role in xenobiotic metabolism. Our research provide a basal gene expression profile in adult zebrafish liver.", null, null, null, "Transcriptome of male Danio rerio liver", "SAMD00153246", null, "sample name:transcriptome zebrafish male|sex:male|strain:RIKEN WT|tissue:liver", null, null, null, null, null, null, null, null, "NextSeq 500 paired end sequencing of SAMD00153246", "DRX151935", "m", "1", "1", null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "PAIRED", "ILLUMINA", "NextSeq 500", "1520Application ReadForward11Application ReadReverse77", "DRP005084", "NextSeq 500 paired end sequencing of SAMD00153246", null, null, null, 2506978527.0, 16611154.0, "DRR161310", "0:75.48 1:75.44", "A:672321355;C:568289588;G:569411670;T:695545626;N:1410288", 75, 75, null, null, 672321355, 568289588, 569411670, 695545626, 1410288, "DRX151935", "DRS095334", "DRA007652", "OBICHIKU|Laboratory of Toxicology, Department of Veterinary Medicine, Obihiro University of Agriculture and Veterinary Medicine", "Laboratory of Toxicology, Department of Veterinary Medicine, Obihiro University of Agriculture and Veterinary Medicine", 2, 0.94746, 0.95115, 0.07899, 0.06363, 0.80837, 0.8115, 0.52008, 0.58743, 76, 76, "B", "B", "biological fallback assumption", "illumina", "nextseq", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Japan", "2019-05-20", "Undetermined", "Adult", "Liver", "Liver and Biliary System"], [2319, "ERR1289947", "ERX1361553", "ERS954843", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647694", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:23:00Z|External Id:SAMEA3647694|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:23:00Z|INSDC status:public|Submitter Id:ATH5 2 sc 2454965|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:ATH5 2 sc 2454965|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#12", "15249493", "Illumina sequencing of library 15249493 constructed from sample accession ERS954843 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence TAGGCATGAGAGTAGA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#12.cram", "cram", 2492206600.0, 12461033.0, "SC RUN 18222 2#12", "0:100 1:100", "A:661236051;C:588399772;G:571478215;T:671080581;N:11981", 100, 100, null, null, 661236051, 588399772, 571478215, 671080581, 11981, "ERX1361553", "ERS954843", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94054, 0.94077, 0.10025, 0.10255, 0.75779, 0.76019, 0.4807, 0.47966, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2320, "ERR1289946", "ERX1361552", "ERS954842", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647693", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:23:00Z|External Id:SAMEA3647693|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:23:00Z|INSDC status:public|Submitter Id:WT ctrl sc 2454964|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:WT ctrl sc 2454964|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#11", "15249492", "Illumina sequencing of library 15249492 constructed from sample accession ERS954842 for study accession ERP012920. 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This submission includes reads tagged with the sequence TAGGCATGTATCCTCT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#11.cram", "cram", 2748114600.0, 13740573.0, "SC RUN 18222 2#11", "0:100 1:100", "A:747132237;C:630918171;G:613637334;T:756413030;N:13828", 100, 100, null, null, 747132237, 630918171, 613637334, 756413030, 13828, "ERX1361552", "ERS954842", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.91201, 0.911, 0.09071, 0.09156, 0.88994, 0.88988, 0.47118, 0.49948, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2321, "ERR1289945", "ERX1361551", "ERS954841", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647692", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:59Z|External Id:SAMEA3647692|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:59Z|INSDC status:public|Submitter Id:RX2 ATH5 GFP3 sc 2454963|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ATH5 GFP3 sc 2454963|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#10", "15249491", "Illumina sequencing of library 15249491 constructed from sample accession ERS954841 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence TAGGCATGCTCTCTAT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#10.cram", "cram", 3366968000.0, 16834840.0, "SC RUN 18222 2#10", "0:100 1:100", "A:881918684;C:806052916;G:790157920;T:888821188;N:17292", 100, 100, null, null, 881918684, 806052916, 790157920, 888821188, 17292, "ERX1361551", "ERS954841", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94171, 0.94098, 0.0849, 0.08607, 0.74862, 0.75024, 0.50963, 0.50955, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2322, "ERR1289944", "ERX1361550", "ERS954840", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647691", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647691|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:RX2 ATH5 GFP2 sc 2454962|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ATH5 GFP2 sc 2454962|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#9", "15249490", "Illumina sequencing of library 15249490 constructed from sample accession ERS954840 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence TAGGCATGTAGATCGC.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#9.cram", "cram", 3222261000.0, 16111305.0, "SC RUN 18222 2#9", "0:100 1:100", "A:819997366;C:795302699;G:777099203;T:829845734;N:15998", 100, 100, null, null, 819997366, 795302699, 777099203, 829845734, 15998, "ERX1361550", "ERS954840", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94529, 0.94495, 0.0603, 0.06143, 0.76157, 0.76238, 0.48847, 0.4882, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2323, "ERR1289943", "ERX1361549", "ERS954839", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647690", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647690|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 GFP2 high sc 2454961|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 GFP2 high sc 2454961|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#8", "15249489", "Illumina sequencing of library 15249489 constructed from sample accession ERS954839 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTCTAAGCCT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#8.cram", "cram", 3834749800.0, 19173749.0, "SC RUN 18222 2#8", "0:100 1:100", "A:992673645;C:929008642;G:906766397;T:1006281701;N:19415", 100, 100, null, null, 992673645, 929008642, 906766397, 1006281701, 19415, "ERX1361549", "ERS954839", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94351, 0.94297, 0.08055, 0.08157, 0.72853, 0.73095, 0.52148, 0.51755, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2324, "ERR1289942", "ERX1361548", "ERS954838", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647689", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647689|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 GFP2 low sc 2454960|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 GFP2 low sc 2454960|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#7", "15249488", "Illumina sequencing of library 15249488 constructed from sample accession ERS954838 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTAAGGAGTA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#7.cram", "cram", 1076581000.0, 5382905.0, "SC RUN 18222 2#7", "0:100 1:100", "A:285946062;C:254142940;G:242866633;T:293619980;N:5385", 100, 100, null, null, 285946062, 254142940, 242866633, 293619980, 5385, "ERX1361548", "ERS954838", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.89818, 0.89819, 0.1022, 0.10292, 0.89919, 0.89852, 0.51448, 0.51223, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2325, "ERR1289941", "ERX1361547", "ERS954837", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647688", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647688|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:GFAP ATH5 GFP2 sc 2454959|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:GFAP ATH5 GFP2 sc 2454959|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#6", "15249487", "Illumina sequencing of library 15249487 constructed from sample accession ERS954837 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTACTGCATA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#6.cram", "cram", 3172834800.0, 15864174.0, "SC RUN 18222 2#6", "0:100 1:100", "A:841262183;C:748974758;G:730474017;T:852107947;N:15895", 100, 100, null, null, 841262183, 748974758, 730474017, 852107947, 15895, "ERX1361547", "ERS954837", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.93515, 0.93517, 0.10079, 0.10267, 0.73403, 0.73511, 0.49831, 0.47169, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2326, "ERR1289940", "ERX1361546", "ERS954836", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647687", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647687|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:ATH5 1 sc 2454958|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:ATH5 1 sc 2454958|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#5", "15249486", "Illumina sequencing of library 15249486 constructed from sample accession ERS954836 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTGTAAGGAG.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#5.cram", "cram", 1188728400.0, 5943642.0, "SC RUN 18222 2#5", "0:100 1:100", "A:322290258;C:273659598;G:266021599;T:326751009;N:5936", 100, 100, null, null, 322290258, 273659598, 266021599, 326751009, 5936, "ERX1361546", "ERS954836", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.92438, 0.92391, 0.12338, 0.1251, 0.76288, 0.76479, 0.48734, 0.47777, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2327, "ERR1289939", "ERX1361545", "ERS954835", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647686", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647686|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:GFAP ATH5 GFP1 sc 2454957|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:GFAP ATH5 GFP1 sc 2454957|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#4", "15249485", "Illumina sequencing of library 15249485 constructed from sample accession ERS954835 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTAGAGTAGA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#4.cram", "cram", 2335470400.0, 11677352.0, "SC RUN 18222 2#4", "0:100 1:100", "A:611730664;C:560095252;G:541373953;T:622259122;N:11409", 100, 100, null, null, 611730664, 560095252, 541373953, 622259122, 11409, "ERX1361545", "ERS954835", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.93481, 0.93465, 0.10573, 0.10811, 0.77135, 0.77303, 0.50016, 0.50137, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2328, "ERR1289938", "ERX1361544", "ERS954834", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647685", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647685|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 ATH5 GFP1 sc 2454956|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ATH5 GFP1 sc 2454956|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#3", "15249484", "Illumina sequencing of library 15249484 constructed from sample accession ERS954834 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTTATCCTCT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#3.cram", "cram", 2932765000.0, 14663825.0, "SC RUN 18222 2#3", "0:100 1:100", "A:762543647;C:708033363;G:692599413;T:769573475;N:15102", 100, 100, null, null, 762543647, 708033363, 692599413, 769573475, 15102, "ERX1361544", "ERS954834", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94442, 0.94374, 0.07322, 0.07439, 0.74383, 0.74531, 0.50604, 0.51608, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2329, "ERR1289937", "ERX1361543", "ERS954833", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647684", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:15Z|External Id:SAMEA3647684|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:15Z|INSDC status:public|Submitter Id:RX2 GFP1 sc 2454955|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 GFP1 sc 2454955|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#2", "15249483", "Illumina sequencing of library 15249483 constructed from sample accession ERS954833 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTCTCTCTAT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#2.cram", "cram", 2432398000.0, 12161990.0, "SC RUN 18222 2#2", "0:100 1:100", "A:624543123;C:594774023;G:581130641;T:631937939;N:12274", 100, 100, null, null, 624543123, 594774023, 581130641, 631937939, 12274, "ERX1361543", "ERS954833", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94225, 0.94103, 0.08221, 0.0823, 0.79289, 0.79383, 0.51106, 0.5129, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2330, "ERR1289936", "ERX1361542", "ERS954832", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647683", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647683|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 ctrl noGFP sc 2454954|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ctrl noGFP sc 2454954|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 2#1", "15249482", "Illumina sequencing of library 15249482 constructed from sample accession ERS954832 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 2. This submission includes reads tagged with the sequence GGACTCCTTAGATCGC.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_2#1.cram", "cram", 361900800.0, 1809504.0, "SC RUN 18222 2#1", "0:100 1:100", "A:84553945;C:97259075;G:92615955;T:87470072;N:1753", 100, 100, null, null, 84553945, 97259075, 92615955, 87470072, 1753, "ERX1361542", "ERS954832", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94897, 0.95014, 0.07743, 0.07772, 0.71969, 0.72058, 0.43784, 0.44067, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2331, "ERR1289935", "ERX1361541", "ERS954843", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647694", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:23:00Z|External Id:SAMEA3647694|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:23:00Z|INSDC status:public|Submitter Id:ATH5 2 sc 2454965|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:ATH5 2 sc 2454965|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#12", "15249493", "Illumina sequencing of library 15249493 constructed from sample accession ERS954843 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence TAGGCATGAGAGTAGA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#12.cram", "cram", 2487554200.0, 12437771.0, "SC RUN 18222 1#12", "0:100 1:100", "A:660028585;C:587257902;G:570415230;T:669842822;N:9661", 100, 100, null, null, 660028585, 587257902, 570415230, 669842822, 9661, "ERX1361541", "ERS954843", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94059, 0.9397, 0.09914, 0.1011, 0.75597, 0.75862, 0.48558, 0.48548, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2332, "ERR1289934", "ERX1361540", "ERS954842", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647693", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:23:00Z|External Id:SAMEA3647693|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:23:00Z|INSDC status:public|Submitter Id:WT ctrl sc 2454964|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:WT ctrl sc 2454964|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#11", "15249492", "Illumina sequencing of library 15249492 constructed from sample accession ERS954842 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence TAGGCATGTATCCTCT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#11.cram", "cram", 2740851200.0, 13704256.0, "SC RUN 18222 1#11", "0:100 1:100", "A:745054545;C:629082779;G:612051041;T:754652050;N:10785", 100, 100, null, null, 745054545, 629082779, 612051041, 754652050, 10785, "ERX1361540", "ERS954842", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.91349, 0.91229, 0.09216, 0.09351, 0.88962, 0.89043, 0.48978, 0.5028, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2333, "ERR1289933", "ERX1361539", "ERS954841", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647692", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:59Z|External Id:SAMEA3647692|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:59Z|INSDC status:public|Submitter Id:RX2 ATH5 GFP3 sc 2454963|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ATH5 GFP3 sc 2454963|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#10", "15249491", "Illumina sequencing of library 15249491 constructed from sample accession ERS954841 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence TAGGCATGCTCTCTAT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#10.cram", "cram", 3357950400.0, 16789752.0, "SC RUN 18222 1#10", "0:100 1:100", "A:879637755;C:803810252;G:787961249;T:886528291;N:12853", 100, 100, null, null, 879637755, 803810252, 787961249, 886528291, 12853, "ERX1361539", "ERS954841", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94064, 0.94017, 0.08377, 0.08517, 0.74909, 0.75136, 0.50723, 0.50903, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2334, "ERR1289932", "ERX1361538", "ERS954840", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647691", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647691|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:RX2 ATH5 GFP2 sc 2454962|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ATH5 GFP2 sc 2454962|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#9", "15249490", "Illumina sequencing of library 15249490 constructed from sample accession ERS954840 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence TAGGCATGTAGATCGC.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#9.cram", "cram", 3206581200.0, 16032906.0, "SC RUN 18222 1#9", "0:100 1:100", "A:816111545;C:791236086;G:773298814;T:825922398;N:12357", 100, 100, null, null, 816111545, 791236086, 773298814, 825922398, 12357, "ERX1361538", "ERS954840", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94549, 0.94564, 0.06037, 0.06105, 0.76043, 0.76171, 0.48313, 0.49555, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2335, "ERR1289931", "ERX1361537", "ERS954839", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647690", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647690|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 GFP2 high sc 2454961|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 GFP2 high sc 2454961|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#8", "15249489", "Illumina sequencing of library 15249489 constructed from sample accession ERS954839 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTCTAAGCCT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#8.cram", "cram", 3822332200.0, 19111661.0, "SC RUN 18222 1#8", "0:100 1:100", "A:989542225;C:925823012;G:903835738;T:1003115980;N:15245", 100, 100, null, null, 989542225, 925823012, 903835738, 1003115980, 15245, "ERX1361537", "ERS954839", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94289, 0.94174, 0.07966, 0.08004, 0.72764, 0.72906, 0.51976, 0.52464, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2336, "ERR1289930", "ERX1361536", "ERS954838", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647689", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647689|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 GFP2 low sc 2454960|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 GFP2 low sc 2454960|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#7", "15249488", "Illumina sequencing of library 15249488 constructed from sample accession ERS954838 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTAAGGAGTA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#7.cram", "cram", 1072510200.0, 5362551.0, "SC RUN 18222 1#7", "0:100 1:100", "A:284863902;C:253046005;G:241968135;T:292627849;N:4309", 100, 100, null, null, 284863902, 253046005, 241968135, 292627849, 4309, "ERX1361536", "ERS954838", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.89703, 0.89873, 0.10191, 0.10317, 0.89921, 0.8984, 0.50884, 0.51319, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2337, "ERR1289929", "ERX1361535", "ERS954837", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647688", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647688|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:GFAP ATH5 GFP2 sc 2454959|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:GFAP ATH5 GFP2 sc 2454959|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#6", "15249487", "Illumina sequencing of library 15249487 constructed from sample accession ERS954837 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTACTGCATA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#6.cram", "cram", 3159715800.0, 15798579.0, "SC RUN 18222 1#6", "0:100 1:100", "A:837700548;C:745877706;G:727508293;T:848616717;N:12536", 100, 100, null, null, 837700548, 745877706, 727508293, 848616717, 12536, "ERX1361535", "ERS954837", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.93397, 0.93362, 0.10011, 0.10205, 0.73474, 0.73612, 0.49003, 0.49085, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2338, "ERR1289928", "ERX1361534", "ERS954836", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647687", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647687|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:ATH5 1 sc 2454958|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:ATH5 1 sc 2454958|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#5", "15249486", "Illumina sequencing of library 15249486 constructed from sample accession ERS954836 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTGTAAGGAG.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#5.cram", "cram", 1184332600.0, 5921663.0, "SC RUN 18222 1#5", "0:100 1:100", "A:321129432;C:272595945;G:264945795;T:325656767;N:4661", 100, 100, null, null, 321129432, 272595945, 264945795, 325656767, 4661, "ERX1361534", "ERS954836", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.92372, 0.92353, 0.12445, 0.12616, 0.76339, 0.76495, 0.48995, 0.48259, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2339, "ERR1289927", "ERX1361533", "ERS954835", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647686", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:54Z|External Id:SAMEA3647686|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:54Z|INSDC status:public|Submitter Id:GFAP ATH5 GFP1 sc 2454957|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:GFAP ATH5 GFP1 sc 2454957|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#4", "15249485", "Illumina sequencing of library 15249485 constructed from sample accession ERS954835 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTAGAGTAGA.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#4.cram", "cram", 2331489600.0, 11657448.0, "SC RUN 18222 1#4", "0:100 1:100", "A:610715735;C:559128165;G:540406653;T:621229940;N:9107", 100, 100, null, null, 610715735, 559128165, 540406653, 621229940, 9107, "ERX1361533", "ERS954835", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.9338, 0.93348, 0.10518, 0.10783, 0.77155, 0.77374, 0.49506, 0.49808, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2340, "ERR1289926", "ERX1361532", "ERS954834", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647685", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647685|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 ATH5 GFP1 sc 2454956|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ATH5 GFP1 sc 2454956|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#3", "15249484", "Illumina sequencing of library 15249484 constructed from sample accession ERS954834 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTTATCCTCT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#3.cram", "cram", 2923134800.0, 14615674.0, "SC RUN 18222 1#3", "0:100 1:100", "A:760057089;C:705694497;G:690249046;T:767122385;N:11783", 100, 100, null, null, 760057089, 705694497, 690249046, 767122385, 11783, "ERX1361532", "ERS954834", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94509, 0.94377, 0.07431, 0.07512, 0.74367, 0.74525, 0.50981, 0.51595, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2341, "ERR1289925", "ERX1361531", "ERS954833", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647684", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:25:15Z|External Id:SAMEA3647684|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:25:15Z|INSDC status:public|Submitter Id:RX2 GFP1 sc 2454955|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 GFP1 sc 2454955|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#2", "15249483", "Illumina sequencing of library 15249483 constructed from sample accession ERS954833 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTCTCTCTAT.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#2.cram", "cram", 2423614200.0, 12118071.0, "SC RUN 18222 1#2", "0:100 1:100", "A:622254096;C:592596967;G:579007199;T:629746522;N:9416", 100, 100, null, null, 622254096, 592596967, 579007199, 629746522, 9416, "ERX1361531", "ERS954833", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.94151, 0.94151, 0.08127, 0.08228, 0.79091, 0.79235, 0.51421, 0.50953, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2342, "ERR1289924", "ERX1361530", "ERS954832", "ERP012920", "PRJEB11523", "Zebrafish eye populations transcriptomics", "Zebrafish_eye_populations_transcriptomics-sc-3967", "Transcriptome Analysis", "To characterise the transcriptome of the stem cells and the proliferative progenitors in the retina of 5 dpf zebrafish Danio rerio eyes were prepared as follows: 20 30 eyes per condition were collected dissociated and FACS sorted. The samples were collected to RLT buffer and RNA extraction was immediately performed. cDNA and Nextera XT libraries were generated and subsequent sequencing was carried out using the Illumina HiSeq 2500 platform.", "ArrayExpress:E ERAD 441", null, null, null, "SAMEA3647683", "SC", "ArrayExpress OrganismPart:eye cell populations|ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2016 02 23T15:26:28Z|ENA LAST UPDATE:2018 03 09T09:22:57Z|External Id:SAMEA3647683|INSDC center name:SC|INSDC first public:2016 02 23T15:26:28Z|INSDC last update:2018 03 09T09:22:57Z|INSDC status:public|Submitter Id:RX2 ctrl noGFP sc 2454954|common name:zebrafish|sample description:eye cell populations from zebrafish embryo|sample name:RX2 ctrl noGFP sc 2454954|scientific name:Danio rerio", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing", "SC EXP 18222 1#1", "15249482", "Illumina sequencing of library 15249482 constructed from sample accession ERS954832 for study accession ERP012920. This is part of an Illumina multiplexed sequencing run 18222 1. This submission includes reads tagged with the sequence GGACTCCTTAGATCGC.", "Nextera dual index qPCR only", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "ERP012920", "Illumina HiSeq 2500 paired end sequencing", "ENA FIRST PUBLIC:2016 02 23|ENA LAST UPDATE:2018 11 16", "18222_1#1.cram", "cram", 359779800.0, 1798899.0, "SC RUN 18222 1#1", "0:100 1:100", "A:84065568;C:96668644;G:92071125;T:86973168;N:1295", 100, 100, null, null, 84065568, 96668644, 92071125, 86973168, 1295, "ERX1361530", "ERS954832", "ERA565862", "European Nucleotide Archive", "Wellcome Sanger Institute", 2, 0.9502, 0.9506, 0.07759, 0.07791, 0.71772, 0.71827, 0.44568, 0.45005, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "nextera", "bulk", "unknown", "unknown", null, "United Kingdom", "2016-02-23", "Undetermined", "Embryo", "Eye", "Sensory System"], [2343, "ERR1125090", "ERX1204289", "ERS959300", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H9", "SAMEA3652151", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:46Z|External Id:SAMEA3652151|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:46Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H9|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:913.0|experiment:Original|fsc:30951.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H9|scientific name:Danio rerio|ssc:120.0|well:H9", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H9", "HIGH 2 H9", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 913.0:egfp fluorescence|Experimental Factor: 30951.0:fsc|Experimental Factor: 120.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H9_1.fq.gz HIGH_2_H9_2.fq.gz", "fastq fastq", 512023000.0, 2048092.0, "E MTAB 3947:HIGH 2 H9 ", "0:125 1:125", "A:140308299;C:119943911;G:107010121;T:144702244;N:58425", 125, 125, null, null, 140308299, 119943911, 107010121, 144702244, 58425, "ERX1204289", "ERS959300", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.69292, 0.58147, 0.39048, 0.32294, 0.95422, 0.95773, 0.56684, 0.55802, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2344, "ERR1125089", "ERX1204288", "ERS959299", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H8", "SAMEA3652150", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:46Z|External Id:SAMEA3652150|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:46Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H8|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:998.0|experiment:Original|fsc:20186.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H8|scientific name:Danio rerio|ssc:119.0|well:H8", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H8", "HIGH 2 H8", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 998.0:egfp fluorescence|Experimental Factor: 20186.0:fsc|Experimental Factor: 119.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H8_1.fq.gz HIGH_2_H8_2.fq.gz", "fastq fastq", 748858750.0, 2995435.0, "E MTAB 3947:HIGH 2 H8 ", "0:125 1:125", "A:202958013;C:177925445;G:163584543;T:204300253;N:90496", 125, 125, null, null, 202958013, 177925445, 163584543, 204300253, 90496, "ERX1204288", "ERS959299", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.65867, 0.54592, 0.42603, 0.34824, 0.9441, 0.94957, 0.594, 0.58243, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2345, "ERR1125088", "ERX1204287", "ERS959298", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H7", "SAMEA3652149", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:46Z|External Id:SAMEA3652149|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:46Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H7|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2221.0|experiment:Original|fsc:33199.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H7|scientific name:Danio rerio|ssc:116.0|well:H7", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H7", "HIGH 2 H7", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2221.0:egfp fluorescence|Experimental Factor: 33199.0:fsc|Experimental Factor: 116.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H7_1.fq.gz HIGH_2_H7_2.fq.gz", "fastq fastq", 285237750.0, 1140951.0, "E MTAB 3947:HIGH 2 H7 ", "0:125 1:125", "A:80046402;C:65911990;G:56070317;T:83174302;N:34739", 125, 125, null, null, 80046402, 65911990, 56070317, 83174302, 34739, "ERX1204287", "ERS959298", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.61645, 0.50639, 0.391, 0.31746, 0.94769, 0.95341, 0.54299, 0.5457, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2346, "ERR1125087", "ERX1204286", "ERS959297", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H6", "SAMEA3652148", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:52Z|External Id:SAMEA3652148|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:52Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H6|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:465.0|experiment:Original|fsc:29094.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H6|scientific name:Danio rerio|ssc:89.0|well:H6", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H6", "HIGH 2 H6", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 465.0:egfp fluorescence|Experimental Factor: 29094.0:fsc|Experimental Factor: 89.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H6_1.fq.gz HIGH_2_H6_2.fq.gz", "fastq fastq", 638624000.0, 2554496.0, "E MTAB 3947:HIGH 2 H6 ", "0:125 1:125", "A:175532916;C:147934323;G:135438512;T:179644376;N:73873", 125, 125, null, null, 175532916, 147934323, 135438512, 179644376, 73873, "ERX1204286", "ERS959297", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.76122, 0.64398, 0.31116, 0.25959, 0.94192, 0.94621, 0.56148, 0.56441, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2347, "ERR1125086", "ERX1204285", "ERS959296", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H5", "SAMEA3652147", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:46Z|External Id:SAMEA3652147|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:46Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H5|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:889.0|experiment:Original|fsc:22845.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H5|scientific name:Danio rerio|ssc:110.0|well:H5", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H5", "HIGH 2 H5", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 889.0:egfp fluorescence|Experimental Factor: 22845.0:fsc|Experimental Factor: 110.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H5_1.fq.gz HIGH_2_H5_2.fq.gz", "fastq fastq", 503866750.0, 2015467.0, "E MTAB 3947:HIGH 2 H5 ", "0:125 1:125", "A:141839569;C:113778792;G:100790228;T:147398469;N:59692", 125, 125, null, null, 141839569, 113778792, 100790228, 147398469, 59692, "ERX1204285", "ERS959296", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.69291, 0.56946, 0.50139, 0.40831, 0.93531, 0.94087, 0.54026, 0.52906, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2348, "ERR1125085", "ERX1204284", "ERS959295", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H4", "SAMEA3652146", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:52Z|External Id:SAMEA3652146|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:52Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H4|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:705.0|experiment:Original|fsc:28750.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H4|scientific name:Danio rerio|ssc:130.0|well:H4", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H4", "HIGH 2 H4", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 705.0:egfp fluorescence|Experimental Factor: 28750.0:fsc|Experimental Factor: 130.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H4_1.fq.gz HIGH_2_H4_2.fq.gz", "fastq fastq", 559149250.0, 2236597.0, "E MTAB 3947:HIGH 2 H4 ", "0:125 1:125", "A:155538823;C:128853235;G:113767154;T:160924124;N:65914", 125, 125, null, null, 155538823, 128853235, 113767154, 160924124, 65914, "ERX1204284", "ERS959295", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.67927, 0.5685, 0.39459, 0.32681, 0.9539, 0.95791, 0.55659, 0.56782, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2349, "ERR1125084", "ERX1204283", "ERS959294", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H3", "SAMEA3652145", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652145|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H3|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1001.0|experiment:Original|fsc:29702.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H3|scientific name:Danio rerio|ssc:111.0|well:H3", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H3", "HIGH 2 H3", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1001.0:egfp fluorescence|Experimental Factor: 29702.0:fsc|Experimental Factor: 111.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H3_1.fq.gz HIGH_2_H3_2.fq.gz", "fastq fastq", 318391750.0, 1273567.0, "E MTAB 3947:HIGH 2 H3 ", "0:125 1:125", "A:92362404;C:70641903;G:63273746;T:92076705;N:36992", 125, 125, null, null, 92362404, 70641903, 63273746, 92076705, 36992, "ERX1204283", "ERS959294", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.66681, 0.55179, 0.37708, 0.30712, 0.95057, 0.95517, 0.56608, 0.56086, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2350, "ERR1125083", "ERX1204282", "ERS959293", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H2", "SAMEA3652144", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652144|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H2|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:3681.0|experiment:Original|fsc:24503.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H2|scientific name:Danio rerio|ssc:120.0|well:H2", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H2", "HIGH 2 H2", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 3681.0:egfp fluorescence|Experimental Factor: 24503.0:fsc|Experimental Factor: 120.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H2_1.fq.gz HIGH_2_H2_2.fq.gz", "fastq fastq", 1817650750.0, 7270603.0, "E MTAB 3947:HIGH 2 H2 ", "0:125 1:125", "A:488811409;C:431331917;G:395349978;T:501936461;N:220985", 125, 125, null, null, 488811409, 431331917, 395349978, 501936461, 220985, "ERX1204282", "ERS959293", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.61268, 0.53203, 0.29604, 0.25901, 0.98506, 0.98555, 0.48851, 0.47275, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2351, "ERR1125082", "ERX1204281", "ERS959292", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H12", "SAMEA3652143", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652143|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H12|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:381.0|experiment:Original|fsc:35415.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H12|scientific name:Danio rerio|ssc:70.0|well:H12", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H12", "HIGH 2 H12", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 381.0:egfp fluorescence|Experimental Factor: 35415.0:fsc|Experimental Factor: 70.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H12_1.fq.gz HIGH_2_H12_2.fq.gz", "fastq fastq", 547785000.0, 2191140.0, "E MTAB 3947:HIGH 2 H12 ", "0:125 1:125", "A:152103377;C:124659105;G:116512220;T:154445053;N:65245", 125, 125, null, null, 152103377, 124659105, 116512220, 154445053, 65245, "ERX1204281", "ERS959292", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.83057, 0.71086, 0.22657, 0.18894, 0.9287, 0.93275, 0.60907, 0.63864, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2352, "ERR1125081", "ERX1204280", "ERS959291", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H11", "SAMEA3652142", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652142|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H11|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1377.0|experiment:Original|fsc:34116.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H11|scientific name:Danio rerio|ssc:126.0|well:H11", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H11", "HIGH 2 H11", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1377.0:egfp fluorescence|Experimental Factor: 34116.0:fsc|Experimental Factor: 126.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H11_1.fq.gz HIGH_2_H11_2.fq.gz", "fastq fastq", 564139250.0, 2256557.0, "E MTAB 3947:HIGH 2 H11 ", "0:125 1:125", "A:162185525;C:126637668;G:113969658;T:161280891;N:65508", 125, 125, null, null, 162185525, 126637668, 113969658, 161280891, 65508, "ERX1204280", "ERS959291", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.69685, 0.58593, 0.39239, 0.32847, 0.95931, 0.96262, 0.54396, 0.55248, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2353, "ERR1125080", "ERX1204279", "ERS959290", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H10", "SAMEA3652141", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:52Z|External Id:SAMEA3652141|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:52Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H10|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2138.0|experiment:Original|fsc:24294.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H10|scientific name:Danio rerio|ssc:256.0|well:H10", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H10", "HIGH 2 H10", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2138.0:egfp fluorescence|Experimental Factor: 24294.0:fsc|Experimental Factor: 256.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H10_1.fq.gz HIGH_2_H10_2.fq.gz", "fastq fastq", 444255000.0, 1777020.0, "E MTAB 3947:HIGH 2 H10 ", "0:125 1:125", "A:123690892;C:101773143;G:92417709;T:126320727;N:52529", 125, 125, null, null, 123690892, 101773143, 92417709, 126320727, 52529, "ERX1204279", "ERS959290", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.69249, 0.57925, 0.39113, 0.32374, 0.95599, 0.95962, 0.5265, 0.49492, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2354, "ERR1125079", "ERX1204278", "ERS959289", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 H1", "SAMEA3652140", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:52Z|External Id:SAMEA3652140|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:52Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 H1|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1274.0|experiment:Original|fsc:25937.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 H1|scientific name:Danio rerio|ssc:80.0|well:H1", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 H1", "HIGH 2 H1", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1274.0:egfp fluorescence|Experimental Factor: 25937.0:fsc|Experimental Factor: 80.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_H1_1.fq.gz HIGH_2_H1_2.fq.gz", "fastq fastq", 439078750.0, 1756315.0, "E MTAB 3947:HIGH 2 H1 ", "0:125 1:125", "A:124340384;C:99221881;G:89989919;T:125475523;N:51043", 125, 125, null, null, 124340384, 99221881, 89989919, 125475523, 51043, "ERX1204278", "ERS959289", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.6883, 0.57301, 0.40963, 0.3371, 0.95814, 0.96258, 0.5723, 0.57772, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2355, "ERR1125078", "ERX1204277", "ERS959288", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G9", "SAMEA3652139", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652139|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G9|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:458.0|experiment:Original|fsc:32057.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G9|scientific name:Danio rerio|ssc:106.0|well:G9", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G9", "HIGH 2 G9", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 458.0:egfp fluorescence|Experimental Factor: 32057.0:fsc|Experimental Factor: 106.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G9_1.fq.gz HIGH_2_G9_2.fq.gz", "fastq fastq", 459419750.0, 1837679.0, "E MTAB 3947:HIGH 2 G9 ", "0:125 1:125", "A:124965253;C:109515316;G:94767411;T:130118835;N:52935", 125, 125, null, null, 124965253, 109515316, 94767411, 130118835, 52935, "ERX1204277", "ERS959288", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.78681, 0.6729, 0.28283, 0.23694, 0.94966, 0.95235, 0.45373, 0.63151, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2356, "ERR1125077", "ERX1204276", "ERS959287", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G8", "SAMEA3652138", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652138|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G8|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:971.0|experiment:Original|fsc:23872.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G8|scientific name:Danio rerio|ssc:78.0|well:G8", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G8", "HIGH 2 G8", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 971.0:egfp fluorescence|Experimental Factor: 23872.0:fsc|Experimental Factor: 78.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G8_1.fq.gz HIGH_2_G8_2.fq.gz", "fastq fastq", 575080750.0, 2300323.0, "E MTAB 3947:HIGH 2 G8 ", "0:125 1:125", "A:158832969;C:136424495;G:117844174;T:161912153;N:66959", 125, 125, null, null, 158832969, 136424495, 117844174, 161912153, 66959, "ERX1204276", "ERS959287", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.67294, 0.56042, 0.36371, 0.29887, 0.94199, 0.94815, 0.52948, 0.48976, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2357, "ERR1125076", "ERX1204275", "ERS959286", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G7", "SAMEA3652137", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652137|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G7|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:732.0|experiment:Original|fsc:20684.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G7|scientific name:Danio rerio|ssc:118.0|well:G7", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G7", "HIGH 2 G7", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 732.0:egfp fluorescence|Experimental Factor: 20684.0:fsc|Experimental Factor: 118.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G7_1.fq.gz HIGH_2_G7_2.fq.gz", "fastq fastq", 1047728000.0, 4190912.0, "E MTAB 3947:HIGH 2 G7 ", "0:125 1:125", "A:278741929;C:255515134;G:223466753;T:289885657;N:118527", 125, 125, null, null, 278741929, 255515134, 223466753, 289885657, 118527, "ERX1204275", "ERS959286", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.88624, 0.77051, 0.17524, 0.151, 0.92585, 0.92906, 0.57938, 0.48524, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2358, "ERR1125075", "ERX1204274", "ERS959285", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G6", "SAMEA3652136", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652136|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G6|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:513.0|experiment:Original|fsc:55609.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G6|scientific name:Danio rerio|ssc:289.0|well:G6", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G6", "HIGH 2 G6", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 513.0:egfp fluorescence|Experimental Factor: 55609.0:fsc|Experimental Factor: 289.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G6_1.fq.gz HIGH_2_G6_2.fq.gz", "fastq fastq", 827454750.0, 3309819.0, "E MTAB 3947:HIGH 2 G6 ", "0:125 1:125", "A:227586441;C:192249391;G:170692002;T:236829325;N:97591", 125, 125, null, null, 227586441, 192249391, 170692002, 236829325, 97591, "ERX1204274", "ERS959285", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.79015, 0.6601, 0.39392, 0.32355, 0.92346, 0.92936, 0.46424, 0.60593, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2359, "ERR1125074", "ERX1204273", "ERS959284", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G5", "SAMEA3652135", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652135|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G5|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2309.0|experiment:Original|fsc:28317.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G5|scientific name:Danio rerio|ssc:119.0|well:G5", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G5", "HIGH 2 G5", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2309.0:egfp fluorescence|Experimental Factor: 28317.0:fsc|Experimental Factor: 119.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G5_1.fq.gz HIGH_2_G5_2.fq.gz", "fastq fastq", 710441250.0, 2841765.0, "E MTAB 3947:HIGH 2 G5 ", "0:125 1:125", "A:193023736;C:169567853;G:145782205;T:201982364;N:85092", 125, 125, null, null, 193023736, 169567853, 145782205, 201982364, 85092, "ERX1204273", "ERS959284", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.71466, 0.59939, 0.38234, 0.3158, 0.95428, 0.95765, 0.55915, 0.52948, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2360, "ERR1125073", "ERX1204272", "ERS959283", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G4", "SAMEA3652134", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652134|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G4|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:3232.0|experiment:Original|fsc:27085.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G4|scientific name:Danio rerio|ssc:153.0|well:G4", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G4", "HIGH 2 G4", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 3232.0:egfp fluorescence|Experimental Factor: 27085.0:fsc|Experimental Factor: 153.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G4_1.fq.gz HIGH_2_G4_2.fq.gz", "fastq fastq", 481548750.0, 1926195.0, "E MTAB 3947:HIGH 2 G4 ", "0:125 1:125", "A:134258673;C:112027431;G:94702679;T:140510643;N:49324", 125, 125, null, null, 134258673, 112027431, 94702679, 140510643, 49324, "ERX1204272", "ERS959283", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.693, 0.57366, 0.44712, 0.36776, 0.95207, 0.95643, 0.55781, 0.55513, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2361, "ERR1125072", "ERX1204271", "ERS959282", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G3", "SAMEA3652133", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652133|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G3|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1147.0|experiment:Original|fsc:21062.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G3|scientific name:Danio rerio|ssc:163.0|well:G3", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G3", "HIGH 2 G3", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1147.0:egfp fluorescence|Experimental Factor: 21062.0:fsc|Experimental Factor: 163.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G3_1.fq.gz HIGH_2_G3_2.fq.gz", "fastq fastq", 580950500.0, 2323802.0, "E MTAB 3947:HIGH 2 G3 ", "0:125 1:125", "A:166020999;C:131541373;G:114686700;T:168631560;N:69868", 125, 125, null, null, 166020999, 131541373, 114686700, 168631560, 69868, "ERX1204271", "ERS959282", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.74429, 0.62191, 0.4281, 0.35388, 0.9489, 0.95302, 0.57486, 0.57113, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2362, "ERR1125071", "ERX1204270", "ERS959281", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G2", "SAMEA3652132", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652132|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G2|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1260.0|experiment:Original|fsc:19085.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G2|scientific name:Danio rerio|ssc:258.0|well:G2", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G2", "HIGH 2 G2", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1260.0:egfp fluorescence|Experimental Factor: 19085.0:fsc|Experimental Factor: 258.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G2_1.fq.gz HIGH_2_G2_2.fq.gz", "fastq fastq", 981968750.0, 3927875.0, "E MTAB 3947:HIGH 2 G2 ", "0:125 1:125", "A:269236295;C:232331615;G:201687129;T:278600621;N:113090", 125, 125, null, null, 269236295, 232331615, 201687129, 278600621, 113090, "ERX1204270", "ERS959281", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.76104, 0.64535, 0.39808, 0.33408, 0.95962, 0.96347, 0.58431, 0.58783, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2363, "ERR1125070", "ERX1204269", "ERS959280", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G12", "SAMEA3652131", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652131|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G12|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:496.0|experiment:Original|fsc:30728.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G12|scientific name:Danio rerio|ssc:74.0|well:G12", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G12", "HIGH 2 G12", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 496.0:egfp fluorescence|Experimental Factor: 30728.0:fsc|Experimental Factor: 74.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G12_1.fq.gz HIGH_2_G12_2.fq.gz", "fastq fastq", 1018091000.0, 4072364.0, "E MTAB 3947:HIGH 2 G12 ", "0:125 1:125", "A:282601299;C:235501274;G:209565850;T:290299755;N:122822", 125, 125, null, null, 282601299, 235501274, 209565850, 290299755, 122822, "ERX1204269", "ERS959280", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.74885, 0.63685, 0.40559, 0.34365, 0.95946, 0.96305, 0.57059, 0.57898, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2364, "ERR1125069", "ERX1204268", "ERS959279", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G11", "SAMEA3652130", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652130|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G11|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1223.0|experiment:Original|fsc:29091.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G11|scientific name:Danio rerio|ssc:107.0|well:G11", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G11", "HIGH 2 G11", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1223.0:egfp fluorescence|Experimental Factor: 29091.0:fsc|Experimental Factor: 107.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G11_1.fq.gz HIGH_2_G11_2.fq.gz", "fastq fastq", 538346500.0, 2153386.0, "E MTAB 3947:HIGH 2 G11 ", "0:125 1:125", "A:153448853;C:123870390;G:106224297;T:154741718;N:61242", 125, 125, null, null, 153448853, 123870390, 106224297, 154741718, 61242, "ERX1204268", "ERS959279", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.69048, 0.59053, 0.29294, 0.25224, 0.96944, 0.97143, 0.53644, 0.53596, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2365, "ERR1125068", "ERX1204267", "ERS959278", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G10", "SAMEA3652129", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:41Z|External Id:SAMEA3652129|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:41Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G10|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2387.0|experiment:Original|fsc:25703.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G10|scientific name:Danio rerio|ssc:105.0|well:G10", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G10", "HIGH 2 G10", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2387.0:egfp fluorescence|Experimental Factor: 25703.0:fsc|Experimental Factor: 105.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G10_1.fq.gz HIGH_2_G10_2.fq.gz", "fastq fastq", 515389500.0, 2061558.0, "E MTAB 3947:HIGH 2 G10 ", "0:125 1:125", "A:142747105;C:120191159;G:104738517;T:147652040;N:60679", 125, 125, null, null, 142747105, 120191159, 104738517, 147652040, 60679, "ERX1204267", "ERS959278", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.7361, 0.6268, 0.32462, 0.27366, 0.95897, 0.9624, 0.60978, 0.45744, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2366, "ERR1125067", "ERX1204266", "ERS959277", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 G1", "SAMEA3652128", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652128|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 G1|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:433.0|experiment:Original|fsc:30363.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 G1|scientific name:Danio rerio|ssc:160.0|well:G1", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 G1", "HIGH 2 G1", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 433.0:egfp fluorescence|Experimental Factor: 30363.0:fsc|Experimental Factor: 160.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_G1_1.fq.gz HIGH_2_G1_2.fq.gz", "fastq fastq", 1038747250.0, 4154989.0, "E MTAB 3947:HIGH 2 G1 ", "0:125 1:125", "A:288549918;C:239664221;G:218176409;T:292239189;N:117513", 125, 125, null, null, 288549918, 239664221, 218176409, 292239189, 117513, "ERX1204266", "ERS959277", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.91376, 0.8013, 0.14576, 0.12583, 0.90532, 0.91015, 0.58217, 0.58053, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2367, "ERR1125066", "ERX1204265", "ERS959276", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F9", "SAMEA3652127", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652127|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F9|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1159.0|experiment:Original|fsc:33914.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F9|scientific name:Danio rerio|ssc:86.0|well:F9", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F9", "HIGH 2 F9", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1159.0:egfp fluorescence|Experimental Factor: 33914.0:fsc|Experimental Factor: 86.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F9_1.fq.gz HIGH_2_F9_2.fq.gz", "fastq fastq", 375664250.0, 1502657.0, "E MTAB 3947:HIGH 2 F9 ", "0:125 1:125", "A:104160254;C:87140047;G:76475791;T:107842008;N:46150", 125, 125, null, null, 104160254, 87140047, 76475791, 107842008, 46150, "ERX1204265", "ERS959276", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.67321, 0.55971, 0.39094, 0.3217, 0.95576, 0.96008, 0.55917, 0.55154, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2368, "ERR1125065", "ERX1204264", "ERS959275", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F8", "SAMEA3652126", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652126|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F8|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2626.0|experiment:Original|fsc:31408.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F8|scientific name:Danio rerio|ssc:123.0|well:F8", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F8", "HIGH 2 F8", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2626.0:egfp fluorescence|Experimental Factor: 31408.0:fsc|Experimental Factor: 123.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F8_1.fq.gz HIGH_2_F8_2.fq.gz", "fastq fastq", 627584250.0, 2510337.0, "E MTAB 3947:HIGH 2 F8 ", "0:125 1:125", "A:171232891;C:149087394;G:134913860;T:172276861;N:73244", 125, 125, null, null, 171232891, 149087394, 134913860, 172276861, 73244, "ERX1204264", "ERS959275", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.65263, 0.54254, 0.40577, 0.33392, 0.95716, 0.96106, 0.51257, 0.51973, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2369, "ERR1125064", "ERX1204263", "ERS959274", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F7", "SAMEA3652125", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652125|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F7|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2187.0|experiment:Original|fsc:24219.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F7|scientific name:Danio rerio|ssc:110.0|well:F7", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F7", "HIGH 2 F7", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2187.0:egfp fluorescence|Experimental Factor: 24219.0:fsc|Experimental Factor: 110.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F7_1.fq.gz HIGH_2_F7_2.fq.gz", "fastq fastq", 479393250.0, 1917573.0, "E MTAB 3947:HIGH 2 F7 ", "0:125 1:125", "A:130417494;C:114686632;G:98752118;T:135482075;N:54931", 125, 125, null, null, 130417494, 114686632, 98752118, 135482075, 54931, "ERX1204263", "ERS959274", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.6207, 0.51096, 0.40173, 0.32857, 0.9567, 0.96209, 0.55385, 0.54813, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2370, "ERR1125063", "ERX1204262", "ERS959273", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F6", "SAMEA3652124", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:35Z|External Id:SAMEA3652124|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:35Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F6|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1050.0|experiment:Original|fsc:22592.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F6|scientific name:Danio rerio|ssc:79.0|well:F6", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F6", "HIGH 2 F6", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1050.0:egfp fluorescence|Experimental Factor: 22592.0:fsc|Experimental Factor: 79.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F6_1.fq.gz HIGH_2_F6_2.fq.gz", "fastq fastq", 1044289250.0, 4177157.0, "E MTAB 3947:HIGH 2 F6 ", "0:125 1:125", "A:287995598;C:239955378;G:219257648;T:296959565;N:121061", 125, 125, null, null, 287995598, 239955378, 219257648, 296959565, 121061, "ERX1204262", "ERS959273", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.76336, 0.63064, 0.59117, 0.48599, 0.93618, 0.94186, 0.55558, 0.54831, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2371, "ERR1125062", "ERX1204261", "ERS959272", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F5", "SAMEA3652123", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652123|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F5|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:3369.0|experiment:Original|fsc:41743.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F5|scientific name:Danio rerio|ssc:152.0|well:F5", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F5", "HIGH 2 F5", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 3369.0:egfp fluorescence|Experimental Factor: 41743.0:fsc|Experimental Factor: 152.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F5_1.fq.gz HIGH_2_F5_2.fq.gz", "fastq fastq", 808296750.0, 3233187.0, "E MTAB 3947:HIGH 2 F5 ", "0:125 1:125", "A:217965654;C:192224466;G:173071476;T:224941585;N:93569", 125, 125, null, null, 217965654, 192224466, 173071476, 224941585, 93569, "ERX1204261", "ERS959272", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73306, 0.62033, 0.4006, 0.33584, 0.95909, 0.9625, 0.53447, 0.5403, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2372, "ERR1125061", "ERX1204260", "ERS959271", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F4", "SAMEA3652122", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:49Z|External Id:SAMEA3652122|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:49Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F4|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1040.0|experiment:Original|fsc:23136.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F4|scientific name:Danio rerio|ssc:176.0|well:F4", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F4", "HIGH 2 F4", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1040.0:egfp fluorescence|Experimental Factor: 23136.0:fsc|Experimental Factor: 176.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F4_1.fq.gz HIGH_2_F4_2.fq.gz", "fastq fastq", 684758500.0, 2739034.0, "E MTAB 3947:HIGH 2 F4 ", "0:125 1:125", "A:191204926;C:156704038;G:137681431;T:199089228;N:78877", 125, 125, null, null, 191204926, 156704038, 137681431, 199089228, 78877, "ERX1204260", "ERS959271", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73464, 0.6009, 0.56069, 0.45592, 0.92874, 0.936, 0.56652, 0.56984, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2373, "ERR1125060", "ERX1204259", "ERS959270", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F3", "SAMEA3652121", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652121|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F3|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:466.0|experiment:Original|fsc:29321.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F3|scientific name:Danio rerio|ssc:105.0|well:F3", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F3", "HIGH 2 F3", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 466.0:egfp fluorescence|Experimental Factor: 29321.0:fsc|Experimental Factor: 105.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F3_1.fq.gz HIGH_2_F3_2.fq.gz", "fastq fastq", 631831750.0, 2527327.0, "E MTAB 3947:HIGH 2 F3 ", "0:125 1:125", "A:176511026;C:145144478;G:132625105;T:177477974;N:73167", 125, 125, null, null, 176511026, 145144478, 132625105, 177477974, 73167, "ERX1204259", "ERS959270", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.7961, 0.67398, 0.31039, 0.25659, 0.93545, 0.93955, 0.55903, 0.57192, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2374, "ERR1125059", "ERX1204258", "ERS959269", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F2", "SAMEA3652120", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652120|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F2|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1762.0|experiment:Original|fsc:32483.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F2|scientific name:Danio rerio|ssc:160.0|well:F2", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F2", "HIGH 2 F2", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1762.0:egfp fluorescence|Experimental Factor: 32483.0:fsc|Experimental Factor: 160.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F2_1.fq.gz HIGH_2_F2_2.fq.gz", "fastq fastq", 792024500.0, 3168098.0, "E MTAB 3947:HIGH 2 F2 ", "0:125 1:125", "A:216898622;C:185945515;G:166158006;T:222930188;N:92169", 125, 125, null, null, 216898622, 185945515, 166158006, 222930188, 92169, "ERX1204258", "ERS959269", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.67742, 0.56577, 0.36086, 0.29693, 0.96015, 0.96325, 0.46955, 0.50053, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2375, "ERR1125058", "ERX1204257", "ERS959268", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F12", "SAMEA3652119", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652119|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F12|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:947.0|experiment:Original|fsc:65535.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F12|scientific name:Danio rerio|ssc:1166.0|well:F12", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F12", "HIGH 2 F12", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 947.0:egfp fluorescence|Experimental Factor: 65535.0:fsc|Experimental Factor: 1166.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F12_1.fq.gz HIGH_2_F12_2.fq.gz", "fastq fastq", 687760000.0, 2751040.0, "E MTAB 3947:HIGH 2 F12 ", "0:125 1:125", "A:190873427;C:157656613;G:144460249;T:194688401;N:81310", 125, 125, null, null, 190873427, 157656613, 144460249, 194688401, 81310, "ERX1204257", "ERS959268", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73646, 0.61046, 0.32015, 0.26493, 0.94592, 0.95055, 0.63296, 0.63645, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2376, "ERR1125057", "ERX1204256", "ERS959267", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F11", "SAMEA3652118", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652118|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F11|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1347.0|experiment:Original|fsc:20073.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F11|scientific name:Danio rerio|ssc:92.0|well:F11", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F11", "HIGH 2 F11", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1347.0:egfp fluorescence|Experimental Factor: 20073.0:fsc|Experimental Factor: 92.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F11_1.fq.gz HIGH_2_F11_2.fq.gz", "fastq fastq", 626744500.0, 2506978.0, "E MTAB 3947:HIGH 2 F11 ", "0:125 1:125", "A:175730345;C:144656405;G:130504517;T:175782178;N:71055", 125, 125, null, null, 175730345, 144656405, 130504517, 175782178, 71055, "ERX1204256", "ERS959267", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.66424, 0.55168, 0.35564, 0.29132, 0.95996, 0.96439, 0.51242, 0.53231, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2377, "ERR1125056", "ERX1204255", "ERS959266", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F10", "SAMEA3652117", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652117|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F10|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:862.0|experiment:Original|fsc:35214.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F10|scientific name:Danio rerio|ssc:109.0|well:F10", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F10", "HIGH 2 F10", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 862.0:egfp fluorescence|Experimental Factor: 35214.0:fsc|Experimental Factor: 109.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F10_1.fq.gz HIGH_2_F10_2.fq.gz", "fastq fastq", 519439750.0, 2077759.0, "E MTAB 3947:HIGH 2 F10 ", "0:125 1:125", "A:143192126;C:120188838;G:109094271;T:146904293;N:60222", 125, 125, null, null, 143192126, 120188838, 109094271, 146904293, 60222, "ERX1204255", "ERS959266", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.72897, 0.60737, 0.41624, 0.34359, 0.95398, 0.95777, 0.53614, 0.53515, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2378, "ERR1125055", "ERX1204254", "ERS959265", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 F1", "SAMEA3652116", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652116|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 F1|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1855.0|experiment:Original|fsc:31068.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 F1|scientific name:Danio rerio|ssc:76.0|well:F1", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 F1", "HIGH 2 F1", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1855.0:egfp fluorescence|Experimental Factor: 31068.0:fsc|Experimental Factor: 76.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_F1_1.fq.gz HIGH_2_F1_2.fq.gz", "fastq fastq", 600950250.0, 2403801.0, "E MTAB 3947:HIGH 2 F1 ", "0:125 1:125", "A:166807507;C:139033939;G:126409681;T:168629741;N:69382", 125, 125, null, null, 166807507, 139033939, 126409681, 168629741, 69382, "ERX1204254", "ERS959265", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.74055, 0.63081, 0.36303, 0.30846, 0.96662, 0.96942, 0.55632, 0.56237, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2379, "ERR1125054", "ERX1204253", "ERS959264", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E9", "SAMEA3652115", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652115|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E9|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:532.0|experiment:Original|fsc:27121.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E9|scientific name:Danio rerio|ssc:72.0|well:E9", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E9", "HIGH 2 E9", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 532.0:egfp fluorescence|Experimental Factor: 27121.0:fsc|Experimental Factor: 72.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E9_1.fq.gz HIGH_2_E9_2.fq.gz", "fastq fastq", 187484500.0, 749938.0, "E MTAB 3947:HIGH 2 E9 ", "0:125 1:125", "A:51434671;C:44934503;G:37255767;T:53838087;N:21472", 125, 125, null, null, 51434671, 44934503, 37255767, 53838087, 21472, "ERX1204253", "ERS959264", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.66473, 0.554, 0.43891, 0.36489, 0.95789, 0.96084, 0.53896, 0.54575, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2380, "ERR1125053", "ERX1204252", "ERS959263", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E8", "SAMEA3652114", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652114|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E8|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1875.0|experiment:Original|fsc:25042.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E8|scientific name:Danio rerio|ssc:134.0|well:E8", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E8", "HIGH 2 E8", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1875.0:egfp fluorescence|Experimental Factor: 25042.0:fsc|Experimental Factor: 134.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E8_1.fq.gz HIGH_2_E8_2.fq.gz", "fastq fastq", 876355250.0, 3505421.0, "E MTAB 3947:HIGH 2 E8 ", "0:125 1:125", "A:237393091;C:210793475;G:186228956;T:241839031;N:100697", 125, 125, null, null, 237393091, 210793475, 186228956, 241839031, 100697, "ERX1204252", "ERS959263", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73851, 0.61987, 0.46723, 0.38952, 0.9568, 0.96136, 0.54404, 0.54092, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2381, "ERR1125052", "ERX1204251", "ERS959262", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E7", "SAMEA3652113", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652113|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E7|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1059.0|experiment:Original|fsc:14223.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E7|scientific name:Danio rerio|ssc:117.0|well:E7", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E7", "HIGH 2 E7", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1059.0:egfp fluorescence|Experimental Factor: 14223.0:fsc|Experimental Factor: 117.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E7_1.fq.gz HIGH_2_E7_2.fq.gz", "fastq fastq", 501706250.0, 2006825.0, "E MTAB 3947:HIGH 2 E7 ", "0:125 1:125", "A:135325209;C:121579138;G:102670085;T:142073920;N:57898", 125, 125, null, null, 135325209, 121579138, 102670085, 142073920, 57898, "ERX1204251", "ERS959262", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.71512, 0.60628, 0.42465, 0.35806, 0.95777, 0.96226, 0.56261, 0.55962, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2382, "ERR1125051", "ERX1204250", "ERS959261", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E6", "SAMEA3652112", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652112|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E6|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1130.0|experiment:Original|fsc:13402.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E6|scientific name:Danio rerio|ssc:136.0|well:E6", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E6", "HIGH 2 E6", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1130.0:egfp fluorescence|Experimental Factor: 13402.0:fsc|Experimental Factor: 136.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E6_1.fq.gz HIGH_2_E6_2.fq.gz", "fastq fastq", 390029250.0, 1560117.0, "E MTAB 3947:HIGH 2 E6 ", "0:125 1:125", "A:104987389;C:93901036;G:81049566;T:110046887;N:44372", 125, 125, null, null, 104987389, 93901036, 81049566, 110046887, 44372, "ERX1204250", "ERS959261", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.6907, 0.58093, 0.61893, 0.52232, 0.96203, 0.96802, 0.64719, 0.65774, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2383, "ERR1125050", "ERX1204249", "ERS959260", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E5", "SAMEA3652111", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652111|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E5|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:747.0|experiment:Original|fsc:15709.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E5|scientific name:Danio rerio|ssc:61.0|well:E5", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E5", "HIGH 2 E5", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 747.0:egfp fluorescence|Experimental Factor: 15709.0:fsc|Experimental Factor: 61.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E5_1.fq.gz HIGH_2_E5_2.fq.gz", "fastq fastq", 560963000.0, 2243852.0, "E MTAB 3947:HIGH 2 E5 ", "0:125 1:125", "A:147718067;C:139609684;G:118562561;T:155008803;N:63885", 125, 125, null, null, 147718067, 139609684, 118562561, 155008803, 63885, "ERX1204249", "ERS959260", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.63449, 0.5312, 0.49742, 0.41545, 0.96964, 0.97258, 0.68819, 0.69503, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2384, "ERR1125049", "ERX1204248", "ERS959259", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E4", "SAMEA3652110", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652110|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E4|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1631.0|experiment:Original|fsc:26215.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E4|scientific name:Danio rerio|ssc:83.0|well:E4", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E4", "HIGH 2 E4", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1631.0:egfp fluorescence|Experimental Factor: 26215.0:fsc|Experimental Factor: 83.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E4_1.fq.gz HIGH_2_E4_2.fq.gz", "fastq fastq", 525117250.0, 2100469.0, "E MTAB 3947:HIGH 2 E4 ", "0:125 1:125", "A:142914307;C:126324808;G:106185175;T:149634797;N:58163", 125, 125, null, null, 142914307, 126324808, 106185175, 149634797, 58163, "ERX1204248", "ERS959259", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.71092, 0.59914, 0.41274, 0.34488, 0.95696, 0.9601, 0.54284, 0.5638, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2385, "ERR1125048", "ERX1204247", "ERS959258", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E3", "SAMEA3652109", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652109|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E3|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:849.0|experiment:Original|fsc:28706.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E3|scientific name:Danio rerio|ssc:105.0|well:E3", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E3", "HIGH 2 E3", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 849.0:egfp fluorescence|Experimental Factor: 28706.0:fsc|Experimental Factor: 105.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E3_1.fq.gz HIGH_2_E3_2.fq.gz", "fastq fastq", 627639500.0, 2510558.0, "E MTAB 3947:HIGH 2 E3 ", "0:125 1:125", "A:173942067;C:147827595;G:129015836;T:176783406;N:70596", 125, 125, null, null, 173942067, 147827595, 129015836, 176783406, 70596, "ERX1204247", "ERS959258", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.70206, 0.58547, 0.40534, 0.3338, 0.95599, 0.95948, 0.54209, 0.46412, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2386, "ERR1125047", "ERX1204246", "ERS959257", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E2", "SAMEA3652108", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:20Z|External Id:SAMEA3652108|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:20Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E2|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:959.0|experiment:Original|fsc:29913.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E2|scientific name:Danio rerio|ssc:65.0|well:E2", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E2", "HIGH 2 E2", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 959.0:egfp fluorescence|Experimental Factor: 29913.0:fsc|Experimental Factor: 65.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E2_1.fq.gz HIGH_2_E2_2.fq.gz", "fastq fastq", 792161250.0, 3168645.0, "E MTAB 3947:HIGH 2 E2 ", "0:125 1:125", "A:215870277;C:188878534;G:163314847;T:224007577;N:90015", 125, 125, null, null, 215870277, 188878534, 163314847, 224007577, 90015, "ERX1204246", "ERS959257", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73698, 0.61661, 0.42238, 0.34998, 0.95755, 0.96118, 0.56067, 0.57279, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2387, "ERR1125046", "ERX1204245", "ERS959256", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E12", "SAMEA3652107", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:18Z|External Id:SAMEA3652107|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:18Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E12|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1247.0|experiment:Original|fsc:37953.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E12|scientific name:Danio rerio|ssc:79.0|well:E12", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E12", "HIGH 2 E12", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1247.0:egfp fluorescence|Experimental Factor: 37953.0:fsc|Experimental Factor: 79.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E12_1.fq.gz HIGH_2_E12_2.fq.gz", "fastq fastq", 788729750.0, 3154919.0, "E MTAB 3947:HIGH 2 E12 ", "0:125 1:125", "A:218153507;C:183757145;G:162306106;T:224424051;N:88941", 125, 125, null, null, 218153507, 183757145, 162306106, 224424051, 88941, "ERX1204245", "ERS959256", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73027, 0.61432, 0.38289, 0.31853, 0.95584, 0.95868, 0.55225, 0.49473, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2388, "ERR1125045", "ERX1204244", "ERS959255", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E11", "SAMEA3652106", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652106|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E11|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1177.0|experiment:Original|fsc:34414.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E11|scientific name:Danio rerio|ssc:127.0|well:E11", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E11", "HIGH 2 E11", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1177.0:egfp fluorescence|Experimental Factor: 34414.0:fsc|Experimental Factor: 127.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E11_1.fq.gz HIGH_2_E11_2.fq.gz", "fastq fastq", 511486250.0, 2045945.0, "E MTAB 3947:HIGH 2 E11 ", "0:125 1:125", "A:144668385;C:117705552;G:101783406;T:147271313;N:57594", 125, 125, null, null, 144668385, 117705552, 101783406, 147271313, 57594, "ERX1204244", "ERS959255", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.7158, 0.59048, 0.45882, 0.37406, 0.93839, 0.94371, 0.54766, 0.54436, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2389, "ERR1125044", "ERX1204243", "ERS959254", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E10", "SAMEA3652105", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:18Z|External Id:SAMEA3652105|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:18Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E10|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:849.0|experiment:Original|fsc:36542.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E10|scientific name:Danio rerio|ssc:119.0|well:E10", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E10", "HIGH 2 E10", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 849.0:egfp fluorescence|Experimental Factor: 36542.0:fsc|Experimental Factor: 119.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E10_1.fq.gz HIGH_2_E10_2.fq.gz", "fastq fastq", 411904750.0, 1647619.0, "E MTAB 3947:HIGH 2 E10 ", "0:125 1:125", "A:113115595;C:97711878;G:83747481;T:117282071;N:47725", 125, 125, null, null, 113115595, 97711878, 83747481, 117282071, 47725, "ERX1204243", "ERS959254", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.70307, 0.59003, 0.43501, 0.36371, 0.95891, 0.96288, 0.57044, 0.57958, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2390, "ERR1125043", "ERX1204242", "ERS959253", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 E1", "SAMEA3652104", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:45Z|External Id:SAMEA3652104|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:45Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 E1|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:962.0|experiment:Original|fsc:21930.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 E1|scientific name:Danio rerio|ssc:184.0|well:E1", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 E1", "HIGH 2 E1", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 962.0:egfp fluorescence|Experimental Factor: 21930.0:fsc|Experimental Factor: 184.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_E1_1.fq.gz HIGH_2_E1_2.fq.gz", "fastq fastq", 610366500.0, 2441466.0, "E MTAB 3947:HIGH 2 E1 ", "0:125 1:125", "A:169301384;C:142276900;G:124701466;T:174014261;N:72489", 125, 125, null, null, 169301384, 142276900, 124701466, 174014261, 72489, "ERX1204242", "ERS959253", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.76142, 0.64488, 0.35538, 0.29968, 0.95158, 0.95465, 0.59421, 0.5893, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2391, "ERR1125042", "ERX1204241", "ERS959252", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D9", "SAMEA3652103", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652103|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D9|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:389.0|experiment:Original|fsc:33044.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D9|scientific name:Danio rerio|ssc:90.0|well:D9", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D9", "HIGH 2 D9", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 389.0:egfp fluorescence|Experimental Factor: 33044.0:fsc|Experimental Factor: 90.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D9_1.fq.gz HIGH_2_D9_2.fq.gz", "fastq fastq", 773947000.0, 3095788.0, "E MTAB 3947:HIGH 2 D9 ", "0:125 1:125", "A:207149087;C:187591047;G:163006079;T:216107138;N:93649", 125, 125, null, null, 207149087, 187591047, 163006079, 216107138, 93649, "ERX1204241", "ERS959252", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.77315, 0.64743, 0.43084, 0.3564, 0.94231, 0.94852, 0.56204, 0.55905, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2392, "ERR1125041", "ERX1204240", "ERS959251", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D8", "SAMEA3652102", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:34Z|External Id:SAMEA3652102|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:34Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D8|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1738.0|experiment:Original|fsc:14264.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D8|scientific name:Danio rerio|ssc:186.0|well:D8", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D8", "HIGH 2 D8", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1738.0:egfp fluorescence|Experimental Factor: 14264.0:fsc|Experimental Factor: 186.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D8_1.fq.gz HIGH_2_D8_2.fq.gz", "fastq fastq", 772715000.0, 3090860.0, "E MTAB 3947:HIGH 2 D8 ", "0:125 1:125", "A:208112215;C:186695249;G:165717839;T:212096791;N:92906", 125, 125, null, null, 208112215, 186695249, 165717839, 212096791, 92906, "ERX1204240", "ERS959251", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.72445, 0.61392, 0.49615, 0.42224, 0.9586, 0.96311, 0.53308, 0.537, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2393, "ERR1125040", "ERX1204239", "ERS959250", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D7", "SAMEA3652101", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652101|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D7|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2231.0|experiment:Original|fsc:39432.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D7|scientific name:Danio rerio|ssc:118.0|well:D7", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D7", "HIGH 2 D7", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2231.0:egfp fluorescence|Experimental Factor: 39432.0:fsc|Experimental Factor: 118.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D7_1.fq.gz HIGH_2_D7_2.fq.gz", "fastq fastq", 638914250.0, 2555657.0, "E MTAB 3947:HIGH 2 D7 ", "0:125 1:125", "A:173591457;C:153344648;G:131413605;T:180487805;N:76735", 125, 125, null, null, 173591457, 153344648, 131413605, 180487805, 76735, "ERX1204239", "ERS959250", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.74423, 0.64152, 0.31699, 0.27653, 0.96899, 0.97177, 0.51422, 0.53472, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2394, "ERR1125039", "ERX1204238", "ERS959249", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D6", "SAMEA3652100", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:18Z|External Id:SAMEA3652100|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:18Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D6|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1396.0|experiment:Original|fsc:26170.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D6|scientific name:Danio rerio|ssc:155.0|well:D6", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D6", "HIGH 2 D6", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1396.0:egfp fluorescence|Experimental Factor: 26170.0:fsc|Experimental Factor: 155.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D6_1.fq.gz HIGH_2_D6_2.fq.gz", "fastq fastq", 750059000.0, 3000236.0, "E MTAB 3947:HIGH 2 D6 ", "0:125 1:125", "A:202887309;C:178977639;G:157262690;T:210842722;N:88640", 125, 125, null, null, 202887309, 178977639, 157262690, 210842722, 88640, "ERX1204238", "ERS959249", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.70502, 0.59278, 0.39558, 0.33132, 0.95418, 0.95958, 0.55404, 0.54722, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2395, "ERR1125038", "ERX1204237", "ERS959248", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D5", "SAMEA3652099", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652099|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D5|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:964.0|experiment:Original|fsc:15292.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D5|scientific name:Danio rerio|ssc:130.0|well:D5", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D5", "HIGH 2 D5", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 964.0:egfp fluorescence|Experimental Factor: 15292.0:fsc|Experimental Factor: 130.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D5_1.fq.gz HIGH_2_D5_2.fq.gz", "fastq fastq", 543768500.0, 2175074.0, "E MTAB 3947:HIGH 2 D5 ", "0:125 1:125", "A:148137359;C:129956618;G:110971408;T:154637980;N:65135", 125, 125, null, null, 148137359, 129956618, 110971408, 154637980, 65135, "ERX1204237", "ERS959248", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.71658, 0.60321, 0.38889, 0.32735, 0.96063, 0.96493, 0.51871, 0.5223, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2396, "ERR1125037", "ERX1204236", "ERS959247", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D4", "SAMEA3652098", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652098|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D4|broker name:ArrayExpress|cells:0.0|common name:zebrafish|condition:EGFP high|experiment:Original|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D4|scientific name:Danio rerio|well:D4", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D4", "HIGH 2 D4", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D4_1.fq.gz HIGH_2_D4_2.fq.gz", "fastq fastq", 312928750.0, 1251715.0, "E MTAB 3947:HIGH 2 D4 ", "0:125 1:125", "A:85281040;C:76897881;G:61603254;T:89108903;N:37672", 125, 125, null, null, 85281040, 76897881, 61603254, 89108903, 37672, "ERX1204236", "ERS959247", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.35115, 0.31089, 0.35025, 0.3107, 0.99776, 0.99957, 0.61718, 0.54545, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2397, "ERR1125036", "ERX1204235", "ERS959246", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D3", "SAMEA3652097", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:25:18Z|External Id:SAMEA3652097|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:25:18Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D3|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:803.0|experiment:Original|fsc:31420.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D3|scientific name:Danio rerio|ssc:140.0|well:D3", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D3", "HIGH 2 D3", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 803.0:egfp fluorescence|Experimental Factor: 31420.0:fsc|Experimental Factor: 140.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D3_1.fq.gz HIGH_2_D3_2.fq.gz", "fastq fastq", 723847000.0, 2895388.0, "E MTAB 3947:HIGH 2 D3 ", "0:125 1:125", "A:200458575;C:169877197;G:150167810;T:203256930;N:86488", 125, 125, null, null, 200458575, 169877197, 150167810, 203256930, 86488, "ERX1204235", "ERS959246", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.75419, 0.64034, 0.36984, 0.3151, 0.95708, 0.96039, 0.53095, 0.50284, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2398, "ERR1125035", "ERX1204234", "ERS959245", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D2", "SAMEA3652096", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652096|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D2|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:662.0|experiment:Original|fsc:32552.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D2|scientific name:Danio rerio|ssc:95.0|well:D2", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D2", "HIGH 2 D2", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 662.0:egfp fluorescence|Experimental Factor: 32552.0:fsc|Experimental Factor: 95.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D2_1.fq.gz HIGH_2_D2_2.fq.gz", "fastq fastq", 694990250.0, 2779961.0, "E MTAB 3947:HIGH 2 D2 ", "0:125 1:125", "A:189494688;C:165653500;G:143769621;T:195989087;N:83354", 125, 125, null, null, 189494688, 165653500, 143769621, 195989087, 83354, "ERX1204234", "ERS959245", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.72644, 0.61252, 0.34721, 0.29373, 0.95793, 0.96286, 0.55784, 0.55774, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2399, "ERR1125034", "ERX1204233", "ERS959244", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D12", "SAMEA3652095", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:42Z|External Id:SAMEA3652095|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:42Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D12|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:881.0|experiment:Original|fsc:24648.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D12|scientific name:Danio rerio|ssc:112.0|well:D12", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D12", "HIGH 2 D12", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 881.0:egfp fluorescence|Experimental Factor: 24648.0:fsc|Experimental Factor: 112.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D12_1.fq.gz HIGH_2_D12_2.fq.gz", "fastq fastq", 536311000.0, 2145244.0, "E MTAB 3947:HIGH 2 D12 ", "0:125 1:125", "A:148855015;C:124341852;G:110168969;T:152881254;N:63910", 125, 125, null, null, 148855015, 124341852, 110168969, 152881254, 63910, "ERX1204233", "ERS959244", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.6808, 0.56959, 0.35128, 0.29335, 0.95797, 0.96297, 0.51258, 0.53501, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2400, "ERR1125033", "ERX1204232", "ERS959243", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D11", "SAMEA3652094", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:42Z|External Id:SAMEA3652094|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:42Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D11|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1138.0|experiment:Original|fsc:32961.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D11|scientific name:Danio rerio|ssc:94.0|well:D11", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D11", "HIGH 2 D11", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1138.0:egfp fluorescence|Experimental Factor: 32961.0:fsc|Experimental Factor: 94.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D11_1.fq.gz HIGH_2_D11_2.fq.gz", "fastq fastq", 785209000.0, 3140836.0, "E MTAB 3947:HIGH 2 D11 ", "0:125 1:125", "A:218915810;C:183612565;G:162058033;T:220524632;N:97960", 125, 125, null, null, 218915810, 183612565, 162058033, 220524632, 97960, "ERX1204232", "ERS959243", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.75119, 0.6416, 0.35343, 0.30303, 0.9651, 0.96775, 0.52168, 0.49655, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2401, "ERR1125032", "ERX1204231", "ERS959242", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D10", "SAMEA3652093", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:42Z|External Id:SAMEA3652093|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:42Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D10|broker name:ArrayExpress|cells:0.0|common name:zebrafish|condition:EGFP high|experiment:Original|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D10|scientific name:Danio rerio|well:D10", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D10", "HIGH 2 D10", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D10_1.fq.gz HIGH_2_D10_2.fq.gz", "fastq fastq", 341083750.0, 1364335.0, "E MTAB 3947:HIGH 2 D10 ", "0:125 1:125", "A:92845013;C:83124811;G:69465399;T:95608900;N:39627", 125, 125, null, null, 92845013, 83124811, 69465399, 95608900, 39627, "ERX1204231", "ERS959242", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.42413, 0.3739, 0.42374, 0.37379, 0.99898, 0.99975, 0.52727, 0.58333, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2402, "ERR1125031", "ERX1204230", "ERS959241", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 D1", "SAMEA3652092", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:42Z|External Id:SAMEA3652092|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:42Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 D1|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:854.0|experiment:Original|fsc:24493.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 D1|scientific name:Danio rerio|ssc:70.0|well:D1", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 D1", "HIGH 2 D1", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 854.0:egfp fluorescence|Experimental Factor: 24493.0:fsc|Experimental Factor: 70.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_D1_1.fq.gz HIGH_2_D1_2.fq.gz", "fastq fastq", 703674500.0, 2814698.0, "E MTAB 3947:HIGH 2 D1 ", "0:125 1:125", "A:192729540;C:165871361;G:147990040;T:197001546;N:82013", 125, 125, null, null, 192729540, 165871361, 147990040, 197001546, 82013, "ERX1204230", "ERS959241", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.76596, 0.65254, 0.33452, 0.2849, 0.95609, 0.96065, 0.52949, 0.51289, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2403, "ERR1125030", "ERX1204229", "ERS959240", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 C9", "SAMEA3652091", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652091|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 C9|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:681.0|experiment:Original|fsc:32999.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 C9|scientific name:Danio rerio|ssc:88.0|well:C9", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 C9", "HIGH 2 C9", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 681.0:egfp fluorescence|Experimental Factor: 32999.0:fsc|Experimental Factor: 88.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_C9_1.fq.gz HIGH_2_C9_2.fq.gz", "fastq fastq", 324213000.0, 1296852.0, "E MTAB 3947:HIGH 2 C9 ", "0:125 1:125", "A:89823850;C:75398434;G:68056324;T:90896536;N:37856", 125, 125, null, null, 89823850, 75398434, 68056324, 90896536, 37856, "ERX1204229", "ERS959240", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.70874, 0.59092, 0.49105, 0.4067, 0.94714, 0.9511, 0.48605, 0.50381, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2404, "ERR1125029", "ERX1204228", "ERS959239", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 C8", "SAMEA3652090", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652090|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 C8|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1528.0|experiment:Original|fsc:30264.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 C8|scientific name:Danio rerio|ssc:107.0|well:C8", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 C8", "HIGH 2 C8", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1528.0:egfp fluorescence|Experimental Factor: 30264.0:fsc|Experimental Factor: 107.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_C8_1.fq.gz HIGH_2_C8_2.fq.gz", "fastq fastq", 688682500.0, 2754730.0, "E MTAB 3947:HIGH 2 C8 ", "0:125 1:125", "A:193110334;C:157931387;G:146467846;T:191091131;N:81802", 125, 125, null, null, 193110334, 157931387, 146467846, 191091131, 81802, "ERX1204228", "ERS959239", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.7339, 0.60975, 0.44186, 0.36143, 0.94274, 0.94821, 0.55287, 0.55823, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2405, "ERR1125028", "ERX1204227", "ERS959238", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 C7", "SAMEA3652089", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:24:42Z|External Id:SAMEA3652089|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:24:42Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 C7|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:913.0|experiment:Original|fsc:29661.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 C7|scientific name:Danio rerio|ssc:63.0|well:C7", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 C7", "HIGH 2 C7", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 913.0:egfp fluorescence|Experimental Factor: 29661.0:fsc|Experimental Factor: 63.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_C7_1.fq.gz HIGH_2_C7_2.fq.gz", "fastq fastq", 792417750.0, 3169671.0, "E MTAB 3947:HIGH 2 C7 ", "0:125 1:125", "A:219415176;C:185644798;G:165135543;T:222129339;N:92894", 125, 125, null, null, 219415176, 185644798, 165135543, 222129339, 92894, "ERX1204227", "ERS959238", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.73766, 0.63147, 0.33446, 0.28572, 0.96065, 0.96284, 0.54318, 0.54753, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2406, "ERR1125027", "ERX1204226", "ERS959237", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 C6", "SAMEA3652088", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652088|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 C6|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1738.0|experiment:Original|fsc:13568.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 C6|scientific name:Danio rerio|ssc:164.0|well:C6", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 C6", "HIGH 2 C6", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1738.0:egfp fluorescence|Experimental Factor: 13568.0:fsc|Experimental Factor: 164.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_C6_1.fq.gz HIGH_2_C6_2.fq.gz", "fastq fastq", 728036250.0, 2912145.0, "E MTAB 3947:HIGH 2 C6 ", "0:125 1:125", "A:204037509;C:165727645;G:152568040;T:205614870;N:88186", 125, 125, null, null, 204037509, 165727645, 152568040, 205614870, 88186, "ERX1204226", "ERS959237", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.72442, 0.60735, 0.43746, 0.3648, 0.95057, 0.95383, 0.53184, 0.55502, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2407, "ERR1125026", "ERX1204225", "ERS959236", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 C5", "SAMEA3652087", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:29Z|External Id:SAMEA3652087|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:29Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 C5|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:2724.0|experiment:Original|fsc:14570.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 C5|scientific name:Danio rerio|ssc:106.0|well:C5", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 C5", "HIGH 2 C5", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 2724.0:egfp fluorescence|Experimental Factor: 14570.0:fsc|Experimental Factor: 106.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_C5_1.fq.gz HIGH_2_C5_2.fq.gz", "fastq fastq", 598501500.0, 2394006.0, "E MTAB 3947:HIGH 2 C5 ", "0:125 1:125", "A:166754428;C:138610770;G:124906293;T:168161078;N:68931", 125, 125, null, null, 166754428, 138610770, 124906293, 168161078, 68931, "ERX1204225", "ERS959236", "ERA533479", "EMBL-EBI|European Nucleotide Archive", "EMBL-EBI|European Nucleotide Archive", 2, 0.70493, 0.59542, 0.36454, 0.30514, 0.96088, 0.96366, 0.48714, 0.48943, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "full_length", "poly_a", "unknown", "sc", "single_cell_plate", "smartseq", null, "United Kingdom", "2016-01-08", "Undetermined", "Undetermined", "Multi-tissue", "Multi-system"], [2408, "ERR1125025", "ERX1204224", "ERS959235", "ERP013160", "PRJEB11748", "Analysis of single CD41 cell transcriptomes from Zebrafish", "E-MTAB-3947", "Transcriptome Analysis", "Transcriptome data from individual CD41 expressing cells isolated from kidney and heart of zebrafish. CD41 is a marker both for HSCs and thrombocytes and with this data we study thrombocyte development as a continuous process. Single cell transcriptomes are matched with flourescence of a CD41:GFP reporter.", "ArrayExpress:E MTAB 3947", null, "Protocols: A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "HIGH 2 C4", "SAMEA3652086", "EMBL-EBI", "ENA FIRST PUBLIC:2016 01 08T17:01:53Z|ENA LAST UPDATE:2018 03 09T09:26:23Z|External Id:SAMEA3652086|INSDC center name:EMBL EBI|INSDC first public:2016 01 08T17:01:53Z|INSDC last update:2018 03 09T09:26:23Z|INSDC status:public|Submitter Id:E MTAB 3947:HIGH 2 C4|broker name:ArrayExpress|cells:1.0|common name:zebrafish|condition:EGFP high|egfp fluorescence:1245.0|experiment:Original|fsc:27370.0|location:Kidney|plate:HIGH 2|sample name:E MTAB 3947:HIGH 2 C4|scientific name:Danio rerio|ssc:143.0|well:C4", null, null, null, null, null, null, null, null, "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "E MTAB 3947:HIGH 2 C4", "HIGH 2 C4", "Analysis of single CD41 cell transcriptomes from Zebrafish", "A single kidney from heterozygous Tgcd41:EGFP or wild type fish was dissected and carefully passed through a strainer using the plunger of a 1 mL syringe. In the follow up experiment circulating GFP positive cells were collected from the dissected heart of the same fish. Cells were collected in cold 1xPBS/5% FBS. The kidney of a non transgenic line was used to set up the gating and exclude autofluorescent cells. Dead cells were excluded based on propidium iodide PI staining. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers 26 and collected in a single well of a 96 well plate containing 2.3 uL of 0.2 % Triton X 100 supplemented with 1 U/uL SUPERase In RNAse inhibitor Ambion. At the same time information about cell size and granularity as well as the level of the fluorescence were recorded. Whole transcriptome amplification and library preparation was performed using the Smart seq2 protocol 27 28 with ERCC spike in controls added at the same time as the oligo dT and dNTP mixture.", "Experimental Factor: Kidney:location|Experimental Factor: EGFP high:condition|Experimental Factor: 1245.0:egfp fluorescence|Experimental Factor: 27370.0:fsc|Experimental Factor: 143.0:ssc", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", "2500FApplication ReadForward11RApplication ReadReverse126", "ERP013160", "Illumina HiSeq 2500 paired end sequencing; Analysis of single CD41 cell transcriptomes from Zebrafish", "ENA FIRST PUBLIC:2016 01 08|ENA LAST UPDATE:2018 11 16", "HIGH_2_C4_1.fq.gz HIGH_2_C4_2.fq.gz", "fastq fastq", 531855500.0, 2127422.0, "E MTAB 3947:HIGH 2 C4 ", "0:125 1:125", "A:148952396;C:122496758;G:109850705;T:150491572;N:64069", 125, 125, null, null, 148952396, 122496758, 109850705, 150491572, 64069, "ERX1204224", "ERS959235", "ERA533479", 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