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run_metadata

988 rows where experiment.library_layout = "PAIRED", experiment.platform = "ILLUMINA" and tissue_curation_coarse = "Reproductive System"

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experiment.library_selection 10

devstage_curation 10

technology 7

devstage_curation_coarse 6

experiment.library_strategy 4

tissue_curation 2

experiment.library_source 2

tissue_curation_coarse 1

  • Reproductive System · 988 ✖

experiment.platform 1

  • ILLUMINA · 988 ✖

experiment.library_layout 1

  • PAIRED · 988 ✖
Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
3203 3203 ERR1397031 ERX1468290 ERS1021954 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool12 SAMEA3714805 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714805|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:24Z|INSDC status:public|Submitter Id:87bdea10 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GACGGATT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87bdea10 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#23 15566205 Illumina sequencing of library 15566205 constructed from sample accession ERS1021954 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence GACGGATT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#23.cram cram 751198110.0 5778447.0 SC RUN 18715 6#23 0:55 1:75 A:191946991;C:126344381;G:122669421;T:310228892;N:8425 55 75     191946991 126344381 122669421 310228892 8425 ERX1468290 ERS1021954 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.37206 0.64235 0.28439 0.15879 0.97015 0.87708 0.68528 0.61585 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3204 3204 ERR1397030 ERX1468289 ERS1021953 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool11 SAMEA3714804 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714804|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:24Z|INSDC status:public|Submitter Id:87b585a0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GTGTCCTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87b585a0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#22 15566204 Illumina sequencing of library 15566204 constructed from sample accession ERS1021953 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence GTGTCCTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#22.cram cram 1159876120.0 8922124.0 SC RUN 18715 6#22 0:55 1:75 A:304674273;C:183994340;G:185216530;T:485977582;N:13395 55 75     304674273 183994340 185216530 485977582 13395 ERX1468289 ERS1021953 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.40213 0.64451 0.31242 0.11835 0.97126 0.88087 0.71598 0.66829 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3205 3205 ERR1397029 ERX1468288 ERS1021952 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool10 SAMEA3714803 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714803|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:23Z|INSDC status:public|Submitter Id:87af9230 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GATCTCTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87af9230 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#21 15566203 Illumina sequencing of library 15566203 constructed from sample accession ERS1021952 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence GATCTCTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#21.cram cram 1018285580.0 7832966.0 SC RUN 18715 6#21 0:55 1:75 A:260710092;C:168088728;G:168174700;T:421293207;N:18853 55 75     260710092 168088728 168174700 421293207 18853 ERX1468288 ERS1021952 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.36283 0.65286 0.23946 0.10637 0.96759 0.87505 0.77472 0.67244 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3206 3206 ERR1397028 ERX1468287 ERS1021951 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool9 SAMEA3714802 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714802|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:23Z|INSDC status:public|Submitter Id:87a99ec0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GGTGAGTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87a99ec0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#20 15566202 Illumina sequencing of library 15566202 constructed from sample accession ERS1021951 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence GGTGAGTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#20.cram cram 1411977710.0 10861367.0 SC RUN 18715 6#20 0:55 1:75 A:374589648;C:225886715;G:220197104;T:591287724;N:16519 55 75     374589648 225886715 220197104 591287724 16519 ERX1468287 ERS1021951 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.39416 0.64764 0.28305 0.12053 0.96893 0.87436 0.7641 0.65481 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3207 3207 ERR1397027 ERX1468286 ERS1021950 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool8 SAMEA3714801 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714801|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:22Z|INSDC status:public|Submitter Id:87a3d260 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGCGTGAA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87a3d260 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#19 15566201 Illumina sequencing of library 15566201 constructed from sample accession ERS1021950 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGCGTGAA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#19.cram cram 1016290080.0 7817616.0 SC RUN 18715 6#19 0:55 1:75 A:260240299;C:171478739;G:166987743;T:417571647;N:11652 55 75     260240299 171478739 166987743 417571647 11652 ERX1468286 ERS1021950 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.35515 0.63046 0.24442 0.11538 0.96613 0.87612 0.72922 0.65047 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3208 3208 ERR1397026 ERX1468285 ERS1021949 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool7 SAMEA3714800 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714800|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:22Z|INSDC status:public|Submitter Id:879e0600 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TACCACCA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:879e0600 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#18 15566200 Illumina sequencing of library 15566200 constructed from sample accession ERS1021949 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TACCACCA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#18.cram cram 1180619440.0 9081688.0 SC RUN 18715 6#18 0:55 1:75 A:298946933;C:194315152;G:193000429;T:494333293;N:23633 55 75     298946933 194315152 193000429 494333293 23633 ERX1468285 ERS1021949 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.34912 0.63575 0.24923 0.09867 0.9681 0.8731 0.70291 0.6486 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3209 3209 ERR1397025 ERX1468284 ERS1021948 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool6 SAMEA3714799 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714799|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:22Z|INSDC status:public|Submitter Id:879860b0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGAAGCCA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:879860b0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#17 15566199 Illumina sequencing of library 15566199 constructed from sample accession ERS1021948 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGAAGCCA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#17.cram cram 1238519100.0 9527070.0 SC RUN 18715 6#17 0:55 1:75 A:315239597;C:209430294;G:203803110;T:510032418;N:13681 55 75     315239597 209430294 203803110 510032418 13681 ERX1468284 ERS1021948 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.32728 0.62755 0.22767 0.11416 0.96623 0.87495 0.69918 0.64115 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3210 3210 ERR1397024 ERX1468283 ERS1021947 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool5 SAMEA3714798 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714798|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:21Z|INSDC status:public|Submitter Id:87926d40 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTGTTCCA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87926d40 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#16 15566198 Illumina sequencing of library 15566198 constructed from sample accession ERS1021947 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TTGTTCCA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#16.cram cram 872236560.0 6709512.0 SC RUN 18715 6#16 0:55 1:75 A:224098038;C:143410693;G:142553470;T:362157991;N:16368 55 75     224098038 143410693 142553470 362157991 16368 ERX1468283 ERS1021947 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.37381 0.63381 0.27114 0.09529 0.96737 0.87505 0.70827 0.66169 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3211 3211 ERR1397023 ERX1468282 ERS1021946 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool4 SAMEA3714797 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714797|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:21Z|INSDC status:public|Submitter Id:878ca0e0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCTCTTCA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:878ca0e0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#15 15566197 Illumina sequencing of library 15566197 constructed from sample accession ERS1021946 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TCTCTTCA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#15.cram cram 1444840280.0 11114156.0 SC RUN 18715 6#15 0:55 1:75 A:364072031;C:248315030;G:251492773;T:580934557;N:25889 55 75     364072031 248315030 251492773 580934557 25889 ERX1468282 ERS1021946 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.32171 0.65405 0.21207 0.10921 0.96449 0.8748 0.71299 0.6567 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3212 3212 ERR1397022 ERX1468281 ERS1021945 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool3 SAMEA3714796 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714796|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:20Z|INSDC status:public|Submitter Id:8786ad70 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGTGAAGA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:8786ad70 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#14 15566196 Illumina sequencing of library 15566196 constructed from sample accession ERS1021945 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGTGAAGA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#14.cram cram 864754670.0 6651959.0 SC RUN 18715 6#14 0:55 1:75 A:226263835;C:141780516;G:138005932;T:358694688;N:9699 55 75     226263835 141780516 138005932 358694688 9699 ERX1468281 ERS1021945 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.40415 0.62565 0.29154 0.13216 0.96889 0.87418 0.73048 0.62315 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3213 3213 ERR1397021 ERX1468280 ERS1021944 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool2 SAMEA3714795 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714795|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:20Z|INSDC status:public|Submitter Id:8780ba00 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TAGACGGA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:8780ba00 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#13 15566195 Illumina sequencing of library 15566195 constructed from sample accession ERS1021944 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TAGACGGA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#13.cram cram 1399844160.0 10768032.0 SC RUN 18715 6#13 0:55 1:75 A:359307834;C:233072864;G:226850737;T:580596206;N:16519 55 75     359307834 233072864 226850737 580596206 16519 ERX1468280 ERS1021944 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.36668 0.65848 0.27012 0.12398 0.96879 0.87643 0.69036 0.63461 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3214 3214 ERR1397020 ERX1468279 ERS1021943 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 pool1 SAMEA3714794 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714794|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:20Z|INSDC status:public|Submitter Id:877b14b0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGCTGATA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:877b14b0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#12 15566194 Illumina sequencing of library 15566194 constructed from sample accession ERS1021943 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGCTGATA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#12.cram cram 1546978550.0 11899835.0 SC RUN 18715 6#12 0:55 1:75 A:397883553;C:254195206;G:250537948;T:644343834;N:18009 55 75     397883553 254195206 250537948 644343834 18009 ERX1468279 ERS1021943 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.36347 0.66398 0.27957 0.12542 0.96855 0.87844 0.67369 0.3952 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3215 3215 ERR1397019 ERX1468278 ERS1021942 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 12 SAMEA3714793 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714793|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:19Z|INSDC status:public|Submitter Id:8774d320 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCATCCTA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:8774d320 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#11 15566193 Illumina sequencing of library 15566193 constructed from sample accession ERS1021942 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TCATCCTA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#11.cram cram 1553469710.0 11949767.0 SC RUN 18715 6#11 0:55 1:75 A:410422871;C:242077431;G:241118250;T:659820188;N:30970 55 75     410422871 242077431 241118250 659820188 30970 ERX1468278 ERS1021942 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.36479 0.64667 0.29935 0.12757 0.96917 0.87227 0.64824 0.63863 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3216 3216 ERR1397018 ERX1468277 ERS1021941 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 11 SAMEA3714792 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714792|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:19Z|INSDC status:public|Submitter Id:876f2dd0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TAGAACAC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:876f2dd0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#10 15566192 Illumina sequencing of library 15566192 constructed from sample accession ERS1021941 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TAGAACAC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#10.cram cram 1747864820.0 13445114.0 SC RUN 18715 6#10 0:55 1:75 A:454905458;C:284063384;G:281324493;T:727536453;N:35032 55 75     454905458 284063384 281324493 727536453 35032 ERX1468277 ERS1021941 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.38095 0.6331 0.28202 0.12055 0.97011 0.8787 0.68499 0.63949 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3217 3217 ERR1397017 ERX1468276 ERS1021940 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 10 SAMEA3714791 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714791|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:18Z|INSDC status:public|Submitter Id:87698880 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGACAGAC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87698880 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#9 15566191 Illumina sequencing of library 15566191 constructed from sample accession ERS1021940 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGACAGAC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#9.cram cram 2968310670.0 22833159.0 SC RUN 18715 6#9 0:55 1:75 A:786070434;C:461542812;G:455677789;T:1264985671;N:33964 55 75     786070434 461542812 455677789 1264985671 33964 ERX1468276 ERS1021940 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.40674 0.64588 0.3161 0.13423 0.96901 0.87852 0.72136 0.65008 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3218 3218 ERR1397016 ERX1468275 ERS1021939 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 9 SAMEA3714790 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714790|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:18Z|INSDC status:public|Submitter Id:8763bc20 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCTACGAC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:8763bc20 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#8 15566190 Illumina sequencing of library 15566190 constructed from sample accession ERS1021939 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TCTACGAC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#8.cram cram 1264137940.0 9724138.0 SC RUN 18715 6#8 0:55 1:75 A:321772810;C:212453760;G:212260765;T:517629125;N:21480 55 75     321772810 212453760 212260765 517629125 21480 ERX1468275 ERS1021939 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.40133 0.63937 0.27066 0.11274 0.9696 0.88404 0.75812 0.68883 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3219 3219 ERR1397015 ERX1468274 ERS1021938 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 7 SAMEA3714789 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714789|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:17Z|INSDC status:public|Submitter Id:875defc0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTCGCACC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:875defc0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#7 15566189 Illumina sequencing of library 15566189 constructed from sample accession ERS1021938 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TTCGCACC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#7.cram cram 2145444470.0 16503419.0 SC RUN 18715 6#7 0:55 1:75 A:558755365;C:340430203;G:341169142;T:905048345;N:41415 55 75     558755365 340430203 341169142 905048345 41415 ERX1468274 ERS1021938 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.39609 0.65119 0.29356 0.11961 0.96895 0.87886 0.76521 0.66797 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3220 3220 ERR1397014 ERX1468273 ERS1021937 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 6 SAMEA3714788 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714788|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:17Z|INSDC status:public|Submitter Id:87589890 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGTTCTCC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87589890 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#6 15566188 Illumina sequencing of library 15566188 constructed from sample accession ERS1021937 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGTTCTCC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#6.cram cram 1857946090.0 14291893.0 SC RUN 18715 6#6 0:55 1:75 A:482538187;C:300422854;G:305707647;T:769243854;N:33548 55 75     482538187 300422854 305707647 769243854 33548 ERX1468273 ERS1021937 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.36615 0.64353 0.26326 0.09871 0.96924 0.88116 0.75711 0.69297 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3221 3221 ERR1397013 ERX1468272 ERS1021936 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 5 SAMEA3714787 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714787|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:16Z|INSDC status:public|Submitter Id:8753b690 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TACCGAGC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:8753b690 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#5 15566187 Illumina sequencing of library 15566187 constructed from sample accession ERS1021936 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TACCGAGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#5.cram cram 1450038850.0 11154145.0 SC RUN 18715 6#5 0:55 1:75 A:379594186;C:230638380;G:227148310;T:612642023;N:15951 55 75     379594186 230638380 227148310 612642023 15951 ERX1468272 ERS1021936 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.4114 0.65677 0.32123 0.13279 0.96952 0.87907 0.72172 0.64605 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3222 3222 ERR1397012 ERX1468271 ERS1021935 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 4 SAMEA3714786 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714786|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:16Z|INSDC status:public|Submitter Id:874ead80 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCGTTAGC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:874ead80 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#4 15566186 Illumina sequencing of library 15566186 constructed from sample accession ERS1021935 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TCGTTAGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#4.cram cram 1523480790.0 11719083.0 SC RUN 18715 6#4 0:55 1:75 A:393691721;C:252740898;G:250763730;T:626266644;N:17797 55 75     393691721 252740898 250763730 626266644 17797 ERX1468271 ERS1021935 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.3797 0.64999 0.27703 0.12907 0.96814 0.87907 0.72685 0.6588 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3223 3223 ERR1397011 ERX1468270 ERS1021934 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 3 SAMEA3714785 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714785|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:15Z|INSDC status:public|Submitter Id:8749a470 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTACTCGC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:8749a470 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#3 15566185 Illumina sequencing of library 15566185 constructed from sample accession ERS1021934 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TTACTCGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#3.cram cram 1483867580.0 11414366.0 SC RUN 18715 6#3 0:55 1:75 A:380806763;C:243701446;G:246396186;T:612935776;N:27409 55 75     380806763 243701446 246396186 612935776 27409 ERX1468270 ERS1021934 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.40078 0.64587 0.27052 0.1065 0.97043 0.8813 0.77713 0.68758 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3224 3224 ERR1397010 ERX1468269 ERS1021933 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 2 SAMEA3714784 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714784|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:15Z|INSDC status:public|Submitter Id:87447450 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TATGTGGC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87447450 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#2 15566184 Illumina sequencing of library 15566184 constructed from sample accession ERS1021933 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TATGTGGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#2.cram cram 1845932010.0 14199477.0 SC RUN 18715 6#2 0:55 1:75 A:477476751;C:306218695;G:297857678;T:764357925;N:20961 55 75     477476751 306218695 297857678 764357925 20961 ERX1468269 ERS1021933 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.36646 0.65342 0.2654 0.11005 0.96491 0.87746 0.69525 0.64533 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3225 3225 ERR1397009 ERX1468268 ERS1021932 ERP013756 PRJEB12296 Baseline expression from transcriptional profiling of zebrafish developmental stages 2 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 453     ZMP phenotype 133 1 1 SAMEA3714783 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714783|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:43:14Z|INSDC status:public|Submitter Id:873b9ab0 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single wild type zebrafish embryo from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGTCTATC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:873b9ab0 a001 11e5 a811 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 6#1 15566183 Illumina sequencing of library 15566183 constructed from sample accession ERS1021932 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGTCTATC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_6#1.cram cram 854726730.0 6574821.0 SC RUN 18715 6#1 0:55 1:75 A:222766562;C:136578435;G:135999020;T:359366824;N:15889 55 75     222766562 136578435 135999020 359366824 15889 ERX1468268 ERS1021932 ERA612386 European Nucleotide Archive Wellcome Sanger Institute 2 0.44286 0.64442 0.34166 0.14342 0.97201 0.88185 0.76908 0.68272 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-16 Zygote Embryo Oocyte Reproductive System
3768 3768 ERR1442920 ERX1513297 ERS1079244 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 G SAMEA3892110 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892110|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 2#90 16564927 Illumina sequencing of library 16564927 constructed from sample accession ERS1079244 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 2. This submission includes reads tagged with the sequence GCAATCCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_2#90.cram cram 270090000.0 1350450.0 SC RUN 19912 2#90 0:100 1:100 A:72757906;C:61880266;G:62367072;T:72660239;N:424517 100 100     72757906 61880266 62367072 72660239 424517 ERX1513297 ERS1079244 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96643 0.96553 0.12217 0.12441 0.81907 0.81978 0.60328 0.60195 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3769 3769 ERR1442919 ERX1513296 ERS1079243 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 F SAMEA3892109 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892109|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 2#89 16564915 Illumina sequencing of library 16564915 constructed from sample accession ERS1079243 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 2. This submission includes reads tagged with the sequence GTGTGTCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_2#89.cram cram 342286600.0 1711433.0 SC RUN 19912 2#89 0:100 1:100 A:91263739;C:79506625;G:79929353;T:91027277;N:559606 100 100     91263739 79506625 79929353 91027277 559606 ERX1513296 ERS1079243 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.9682 0.96068 0.11817 0.11963 0.82029 0.82085 0.60354 0.6043 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3770 3770 ERR1442918 ERX1513295 ERS1079241 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 E SAMEA3892107 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892107|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:751b0810 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:751b0810 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 2#88 16564998 Illumina sequencing of library 16564998 constructed from sample accession ERS1079241 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 2. This submission includes reads tagged with the sequence GATAGAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_2#88.cram cram 338250200.0 1691251.0 SC RUN 19912 2#88 0:100 1:100 A:89540311;C:79403769;G:79345334;T:89426632;N:534154 100 100     89540311 79403769 79345334 89426632 534154 ERX1513295 ERS1079241 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96441 0.96812 0.13227 0.13586 0.81996 0.82059 0.61024 0.60659 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3771 3771 ERR1442917 ERX1513294 ERS1079240 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 D SAMEA3892106 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892106|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:750f4840 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:750f4840 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 2#87 16564986 Illumina sequencing of library 16564986 constructed from sample accession ERS1079240 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 2. This submission includes reads tagged with the sequence GGATTAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_2#87.cram cram 304577400.0 1522887.0 SC RUN 19912 2#87 0:100 1:100 A:80089516;C:72073422;G:72141004;T:79786478;N:486980 100 100     80089516 72073422 72141004 79786478 486980 ERX1513294 ERS1079240 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96573 0.97011 0.11062 0.11325 0.81611 0.81641 0.59749 0.59437 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3772 3772 ERR1442916 ERX1513293 ERS1079239 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 B SAMEA3892105 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892105|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:15Z|INSDC status:public|Submitter Id:7503af80 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7503af80 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 2#86 16564974 Illumina sequencing of library 16564974 constructed from sample accession ERS1079239 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 2. This submission includes reads tagged with the sequence GTTGTCGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_2#86.cram cram 351891200.0 1759456.0 SC RUN 19912 2#86 0:100 1:100 A:91843350;C:84096205;G:84086198;T:91311021;N:554426 100 100     91843350 84096205 84086198 91311021 554426 ERX1513293 ERS1079239 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96675 0.97075 0.1101 0.11304 0.81606 0.81734 0.43196 0.60106 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3858 3858 ERR1442830 ERX1513207 ERS1079244 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 G SAMEA3892110 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892110|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 1#90 16564927 Illumina sequencing of library 16564927 constructed from sample accession ERS1079244 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 1. This submission includes reads tagged with the sequence GCAATCCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_1#90.cram cram 269916800.0 1349584.0 SC RUN 19912 1#90 0:100 1:100 A:72721683;C:61845258;G:62335991;T:72647788;N:366080 100 100     72721683 61845258 62335991 72647788 366080 ERX1513207 ERS1079244 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96682 0.95748 0.12056 0.12166 0.81872 0.81925 0.60651 0.60479 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3859 3859 ERR1442829 ERX1513206 ERS1079243 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 F SAMEA3892109 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892109|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 1#89 16564915 Illumina sequencing of library 16564915 constructed from sample accession ERS1079243 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 1. This submission includes reads tagged with the sequence GTGTGTCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_1#89.cram cram 342648200.0 1713241.0 SC RUN 19912 1#89 0:100 1:100 A:91413074;C:79572025;G:80044490;T:91145580;N:473031 100 100     91413074 79572025 80044490 91145580 473031 ERX1513206 ERS1079243 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96841 0.96093 0.11881 0.12039 0.81974 0.82083 0.60603 0.60402 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3860 3860 ERR1442828 ERX1513205 ERS1079241 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 E SAMEA3892107 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892107|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:751b0810 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:751b0810 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 1#88 16564998 Illumina sequencing of library 16564998 constructed from sample accession ERS1079241 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 1. This submission includes reads tagged with the sequence GATAGAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_1#88.cram cram 338436600.0 1692183.0 SC RUN 19912 1#88 0:100 1:100 A:89633077;C:79469750;G:79417724;T:89445236;N:470813 100 100     89633077 79469750 79417724 89445236 470813 ERX1513205 ERS1079241 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96459 0.96391 0.13273 0.13557 0.81874 0.8201 0.60673 0.60424 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3861 3861 ERR1442827 ERX1513204 ERS1079240 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 D SAMEA3892106 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892106|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:750f4840 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:750f4840 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 1#87 16564986 Illumina sequencing of library 16564986 constructed from sample accession ERS1079240 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 1. This submission includes reads tagged with the sequence GGATTAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_1#87.cram cram 303787800.0 1518939.0 SC RUN 19912 1#87 0:100 1:100 A:79901033;C:71909681;G:71979523;T:79588132;N:409431 100 100     79901033 71909681 71979523 79588132 409431 ERX1513204 ERS1079240 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96574 0.96946 0.11013 0.1127 0.816 0.81712 0.59784 0.5984 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3862 3862 ERR1442826 ERX1513203 ERS1079239 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 B SAMEA3892105 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892105|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:15Z|INSDC status:public|Submitter Id:7503af80 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7503af80 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19912 1#86 16564974 Illumina sequencing of library 16564974 constructed from sample accession ERS1079239 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19912 1. This submission includes reads tagged with the sequence GTTGTCGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19912_1#86.cram cram 351349000.0 1756745.0 SC RUN 19912 1#86 0:100 1:100 A:91724055;C:83967254;G:83988668;T:91196786;N:472237 100 100     91724055 83967254 83988668 91196786 472237 ERX1513203 ERS1079239 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96684 0.97025 0.11064 0.11348 0.81836 0.81945 0.43415 0.605 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3948 3948 ERR1442740 ERX1513117 ERS1079244 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 G SAMEA3892110 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892110|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 2#90 16564927 Illumina sequencing of library 16564927 constructed from sample accession ERS1079244 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 2. This submission includes reads tagged with the sequence GCAATCCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_2#90.cram cram 275555000.0 1377775.0 SC RUN 19850 2#90 0:100 1:100 A:74326778;C:63222081;G:63706996;T:74199258;N:99887 100 100     74326778 63222081 63706996 74199258 99887 ERX1513117 ERS1079244 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96724 0.95789 0.12097 0.12281 0.81836 0.81832 0.60216 0.60501 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3949 3949 ERR1442739 ERX1513116 ERS1079243 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 F SAMEA3892109 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892109|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 2#89 16564915 Illumina sequencing of library 16564915 constructed from sample accession ERS1079243 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 2. This submission includes reads tagged with the sequence GTGTGTCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_2#89.cram cram 347745600.0 1738728.0 SC RUN 19850 2#89 0:100 1:100 A:92864496;C:80867902;G:81296751;T:92591110;N:125341 100 100     92864496 80867902 81296751 92591110 125341 ERX1513116 ERS1079243 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96912 0.96133 0.11955 0.12111 0.81955 0.82043 0.60488 0.60806 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3950 3950 ERR1442738 ERX1513115 ERS1079241 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 E SAMEA3892107 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892107|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:751b0810 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:751b0810 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 2#88 16564998 Illumina sequencing of library 16564998 constructed from sample accession ERS1079241 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 2. This submission includes reads tagged with the sequence GATAGAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_2#88.cram cram 343463400.0 1717317.0 SC RUN 19850 2#88 0:100 1:100 A:91038987;C:80745982;G:80675114;T:90875884;N:127433 100 100     91038987 80745982 80675114 90875884 127433 ERX1513115 ERS1079241 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96377 0.9674 0.13245 0.13574 0.81927 0.81976 0.60923 0.60888 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3951 3951 ERR1442737 ERX1513114 ERS1079240 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 D SAMEA3892106 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892106|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:750f4840 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:750f4840 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 2#87 16564986 Illumina sequencing of library 16564986 constructed from sample accession ERS1079240 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 2. This submission includes reads tagged with the sequence GGATTAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_2#87.cram cram 309356400.0 1546782.0 SC RUN 19850 2#87 0:100 1:100 A:81442981;C:73325873;G:73368663;T:81110081;N:108802 100 100     81442981 73325873 73368663 81110081 108802 ERX1513114 ERS1079240 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.966 0.96975 0.11085 0.11412 0.81625 0.81706 0.6001 0.59604 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
3952 3952 ERR1442736 ERX1513113 ERS1079239 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 B SAMEA3892105 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892105|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:15Z|INSDC status:public|Submitter Id:7503af80 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7503af80 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 2#86 16564974 Illumina sequencing of library 16564974 constructed from sample accession ERS1079239 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 2. This submission includes reads tagged with the sequence GTTGTCGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_2#86.cram cram 357707600.0 1788538.0 SC RUN 19850 2#86 0:100 1:100 A:93485940;C:85590637;G:85565243;T:92944872;N:120908 100 100     93485940 85590637 85565243 92944872 120908 ERX1513113 ERS1079239 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96703 0.97078 0.10993 0.11268 0.81596 0.81661 0.4358 0.60626 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
4038 4038 ERR1442650 ERX1513027 ERS1079244 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 G SAMEA3892110 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892110|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7532fce0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 1#90 16564927 Illumina sequencing of library 16564927 constructed from sample accession ERS1079244 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 1. This submission includes reads tagged with the sequence GCAATCCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_1#90.cram cram 274905400.0 1374527.0 SC RUN 19850 1#90 0:100 1:100 A:74156011;C:63092972;G:63579884;T:74016061;N:60472 100 100     74156011 63092972 63579884 74016061 60472 ERX1513027 ERS1079244 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96797 0.95885 0.12183 0.12328 0.8198 0.82031 0.60068 0.60452 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
4039 4039 ERR1442649 ERX1513026 ERS1079243 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 F SAMEA3892109 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892109|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:17Z|INSDC status:public|Submitter Id:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7526eef0 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 1#89 16564915 Illumina sequencing of library 16564915 constructed from sample accession ERS1079243 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 1. This submission includes reads tagged with the sequence GTGTGTCG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_1#89.cram cram 348545200.0 1742726.0 SC RUN 19850 1#89 0:100 1:100 A:93096834;C:81051629;G:81526826;T:92799990;N:69921 100 100     93096834 81051629 81526826 92799990 69921 ERX1513026 ERS1079243 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96879 0.96163 0.11954 0.12154 0.81974 0.82071 0.60048 0.40498 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
4040 4040 ERR1442648 ERX1513025 ERS1079241 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 E SAMEA3892107 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892107|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:751b0810 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:751b0810 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 1#88 16564998 Illumina sequencing of library 16564998 constructed from sample accession ERS1079241 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 1. This submission includes reads tagged with the sequence GATAGAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_1#88.cram cram 344050800.0 1720254.0 SC RUN 19850 1#88 0:100 1:100 A:91216092;C:80890293;G:80848768;T:91022379;N:73268 100 100     91216092 80890293 80848768 91022379 73268 ERX1513025 ERS1079241 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96487 0.96563 0.13174 0.13502 0.82057 0.82067 0.60354 0.60122 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
4041 4041 ERR1442647 ERX1513024 ERS1079240 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 D SAMEA3892106 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892106|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:16Z|INSDC status:public|Submitter Id:750f4840 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:750f4840 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 1#87 16564986 Illumina sequencing of library 16564986 constructed from sample accession ERS1079240 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 1. This submission includes reads tagged with the sequence GGATTAGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_1#87.cram cram 309692400.0 1548462.0 SC RUN 19850 1#87 0:100 1:100 A:81564704;C:73408944;G:73475164;T:81181091;N:62497 100 100     81564704 73408944 73475164 81181091 62497 ERX1513024 ERS1079240 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.9656 0.96949 0.11053 0.11317 0.8154 0.81629 0.60019 0.59208 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
4042 4042 ERR1442646 ERX1513023 ERS1079239 ERP014517 PRJEB12982 Baseline expression from transcriptional profiling of zebrafish developmental stages 3 Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_3-sc-4130 Transcriptome Analysis RNA Seq data was generated from RNA of wild type zebrafish embryo pools at different stages of development for baseline transcriptional profiling ArrayExpress:E ERAD 475     ZMP phenotype 133 B SAMEA3892105 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 06|ENA last update:2016 03 10|External Id:SAMEA3892105|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 06T15:24:12Z|INSDC last update:2016 03 10T13:38:15Z|INSDC status:public|Submitter Id:7503af80 e60c 11e5 bc69 3c4a9275d6c6|common name:zebrafish|sample description:RNA from a pool of 12 single wild type zebrafish embryos plus ERCC spike mix 2 Ambion. The sample has been DNAse treated.|sample name:7503af80 e60c 11e5 bc69 3c4a9275d6c6|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 19850 1#86 16564974 Illumina sequencing of library 16564974 constructed from sample accession ERS1079239 for study accession ERP014517. This is part of an Illumina multiplexed sequencing run 19850 1. This submission includes reads tagged with the sequence GTTGTCGG. RNA seq dUTP eukaryotic   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP014517 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2016 06 06|ENA LAST UPDATE:2018 11 16 19850_1#86.cram cram 357902600.0 1789513.0 SC RUN 19850 1#86 0:100 1:100 A:93545963;C:85638026;G:85651846;T:92987348;N:79417 100 100     93545963 85638026 85651846 92987348 79417 ERX1513023 ERS1079239 ERA648700 European Nucleotide Archive Wellcome Sanger Institute 2 0.96751 0.97104 0.1091 0.11151 0.81716 0.81799 0.60553 0.60479 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2016-03-10 Zygote Embryo Oocyte Reproductive System
4407 4407 ERR1427376 ERX1497908 ERS1183210 ERP015799 PRJEB14175 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E-MTAB-4617 Transcriptome Analysis Transcriptome data from individual lck:GFP expressing cells isolated from adult Zebrafish spleen. LCK is a marker of lymphocytes and here we identified two major subpopulations corresponding to T cells and NK like and a minor one of myeloid like cells. Single cell transcriptomes are matched with FACS index sorting data GFP forward and side light scatter and dead cell staining ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2016 05 26|ArrayExpress:E MTAB 4617   Protocols: The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. LCK 7#48 SAMEA4012100 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics ENA first public:2016 12 01|ENA last update:2016 05 26|External Id:SAMEA4012100|INSDC center alias:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC center name:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC first public:2016 12 01T17:01:24Z|INSDC last update:2016 05 26T17:59:14Z|INSDC status:public|Submitter Id:E MTAB 4617:LCK 7#48|broker name:ArrayExpress|common name:zebrafish|fsc:NaN|gfp:NaN|individual:2|pi:NaN|plate:7|sample name:E MTAB 4617:LCK 7#48|ssc:NaN|tissue:Testes|well:H6                 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E MTAB 4617:LCK 7#48 LCK 7#48 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. Experimental Factor: Testes:tissue|Experimental Factor: NaN:fsc|Experimental Factor: NaN:ssc|Experimental Factor: NaN:gfp RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>250</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>126</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP015799 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2018 11 16 LCK_7_48_mod.bam LCK_7_48.cram bam cram     E MTAB 4617:LCK 7#48 0:125 1:125 A:84706839;C:81480882;G:75512683;T:89639016;N:40330 125 125     84706839 81480882 75512683 89639016 40330 ERX1497908   ERA631093 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive 2 0.19405 0.19075 0.02782 0.02779 0.9795 0.98013 0.73205 0.73409 125 125 B B biological fallback assumption illumina hiseq_era full_length random_priming unknown sc single_cell_plate smartseq   Switzerland 2016-05-26 Adult Adult Gonad Reproductive System
4415 4415 ERR1427368 ERX1497900 ERS1183202 ERP015799 PRJEB14175 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E-MTAB-4617 Transcriptome Analysis Transcriptome data from individual lck:GFP expressing cells isolated from adult Zebrafish spleen. LCK is a marker of lymphocytes and here we identified two major subpopulations corresponding to T cells and NK like and a minor one of myeloid like cells. Single cell transcriptomes are matched with FACS index sorting data GFP forward and side light scatter and dead cell staining ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2016 05 26|ArrayExpress:E MTAB 4617   Protocols: The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. LCK 7#40 SAMEA4012092 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics ENA first public:2016 12 01|ENA last update:2016 05 26|External Id:SAMEA4012092|INSDC center alias:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC center name:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC first public:2016 12 01T17:01:24Z|INSDC last update:2016 05 26T17:59:14Z|INSDC status:public|Submitter Id:E MTAB 4617:LCK 7#40|broker name:ArrayExpress|common name:zebrafish|fsc:NaN|gfp:NaN|individual:2|pi:NaN|plate:7|sample name:E MTAB 4617:LCK 7#40|ssc:NaN|tissue:Testes|well:H5                 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E MTAB 4617:LCK 7#40 LCK 7#40 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. Experimental Factor: Testes:tissue|Experimental Factor: NaN:fsc|Experimental Factor: NaN:ssc|Experimental Factor: NaN:gfp RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>250</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>126</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP015799 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2018 11 16 LCK_7_40_mod.bam LCK_7_40.cram bam cram     E MTAB 4617:LCK 7#40 0:125 1:125 A:98690446;C:95653530;G:87621123;T:105368805;N:43346 125 125     98690446 95653530 87621123 105368805 43346 ERX1497900   ERA631093 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive 2 0.20112 0.19727 0.01661 0.01621 0.9797 0.9806 0.44206 0.42908 125 125 B B biological fallback assumption illumina hiseq_era full_length random_priming unknown sc single_cell_plate smartseq   Switzerland 2016-05-26 Adult Adult Gonad Reproductive System
4424 4424 ERR1427359 ERX1497891 ERS1183193 ERP015799 PRJEB14175 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E-MTAB-4617 Transcriptome Analysis Transcriptome data from individual lck:GFP expressing cells isolated from adult Zebrafish spleen. LCK is a marker of lymphocytes and here we identified two major subpopulations corresponding to T cells and NK like and a minor one of myeloid like cells. Single cell transcriptomes are matched with FACS index sorting data GFP forward and side light scatter and dead cell staining ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2016 05 26|ArrayExpress:E MTAB 4617   Protocols: The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. LCK 7#32 SAMEA4012083 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics ENA first public:2016 12 01|ENA last update:2016 05 26|External Id:SAMEA4012083|INSDC center alias:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC center name:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC first public:2016 12 01T17:01:24Z|INSDC last update:2016 05 26T17:59:13Z|INSDC status:public|Submitter Id:E MTAB 4617:LCK 7#32|broker name:ArrayExpress|common name:zebrafish|fsc:NaN|gfp:NaN|individual:2|pi:NaN|plate:7|sample name:E MTAB 4617:LCK 7#32|ssc:NaN|tissue:Testes|well:H4                 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E MTAB 4617:LCK 7#32 LCK 7#32 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. Experimental Factor: Testes:tissue|Experimental Factor: NaN:fsc|Experimental Factor: NaN:ssc|Experimental Factor: NaN:gfp RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>250</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>126</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP015799 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2018 11 16 LCK_7_32_mod.bam LCK_7_32.cram bam cram     E MTAB 4617:LCK 7#32 0:125 1:125 A:102670073;C:105552903;G:96042262;T:111286167;N:48595 125 125     102670073 105552903 96042262 111286167 48595 ERX1497891   ERA631093 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive 2 0.0367 0.03586 0.00293 0.00297 0.99316 0.99387 0.82316 0.80581 125 125 T T mates < 9% mapping rate illumina hiseq_era full_length random_priming unknown sc single_cell_plate smartseq   Switzerland 2016-05-26 Adult Adult Gonad Reproductive System
4433 4433 ERR1427350 ERX1497882 ERS1183184 ERP015799 PRJEB14175 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E-MTAB-4617 Transcriptome Analysis Transcriptome data from individual lck:GFP expressing cells isolated from adult Zebrafish spleen. LCK is a marker of lymphocytes and here we identified two major subpopulations corresponding to T cells and NK like and a minor one of myeloid like cells. Single cell transcriptomes are matched with FACS index sorting data GFP forward and side light scatter and dead cell staining ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2016 05 26|ArrayExpress:E MTAB 4617   Protocols: The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. LCK 7#24 SAMEA4012074 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics ENA first public:2016 12 01|ENA last update:2016 05 26|External Id:SAMEA4012074|INSDC center alias:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC center name:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC first public:2016 12 01T17:01:24Z|INSDC last update:2016 05 26T17:59:13Z|INSDC status:public|Submitter Id:E MTAB 4617:LCK 7#24|broker name:ArrayExpress|common name:zebrafish|fsc:NaN|gfp:NaN|individual:2|pi:NaN|plate:7|sample name:E MTAB 4617:LCK 7#24|ssc:NaN|tissue:Testes|well:H3                 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E MTAB 4617:LCK 7#24 LCK 7#24 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. Experimental Factor: Testes:tissue|Experimental Factor: NaN:fsc|Experimental Factor: NaN:ssc|Experimental Factor: NaN:gfp RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>250</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>126</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP015799 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2018 11 16 LCK_7_24_mod.bam LCK_7_24.cram bam cram     E MTAB 4617:LCK 7#24 0:125 1:125 A:97411995;C:91321821;G:84912221;T:100868660;N:45803 125 125     97411995 91321821 84912221 100868660 45803 ERX1497882   ERA631093 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive 2 0.25757 0.25144 0.03087 0.02958 0.97642 0.97695 0.71128 0.71145 125 125 B B biological fallback assumption illumina hiseq_era full_length random_priming unknown sc single_cell_plate smartseq   Switzerland 2016-05-26 Adult Adult Gonad Reproductive System
4442 4442 ERR1427341 ERX1497873 ERS1183175 ERP015799 PRJEB14175 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E-MTAB-4617 Transcriptome Analysis Transcriptome data from individual lck:GFP expressing cells isolated from adult Zebrafish spleen. LCK is a marker of lymphocytes and here we identified two major subpopulations corresponding to T cells and NK like and a minor one of myeloid like cells. Single cell transcriptomes are matched with FACS index sorting data GFP forward and side light scatter and dead cell staining ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2016 05 26|ArrayExpress:E MTAB 4617   Protocols: The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. LCK 7#16 SAMEA4012065 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics ENA first public:2016 12 01|ENA last update:2016 05 26|External Id:SAMEA4012065|INSDC center alias:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC center name:Ludwig Center for Cancer Research University of Lausanne Lausanne Switzerland Swiss Institute of Bioinformatics|INSDC first public:2016 12 01T17:01:24Z|INSDC last update:2016 05 26T17:59:13Z|INSDC status:public|Submitter Id:E MTAB 4617:LCK 7#16|broker name:ArrayExpress|common name:zebrafish|fsc:NaN|gfp:NaN|individual:2|pi:NaN|plate:7|sample name:E MTAB 4617:LCK 7#16|ssc:NaN|tissue:Testes|well:H2                 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish E MTAB 4617:LCK 7#16 LCK 7#16 Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish The spleen from a heterozygous Tglck:EGFP or wild type fish was dissected and passed through a 40μm cell strainer using the plunger of a 1 mL syringe and cells were collected in cold 1xPBS/5% FBS. A non transgenic line was used to set up the gating and exclude autofluorescent cells. Propidium iodide PI staining was used to exclude dead cells. Individual cells were sorted using a Becton Dickinson Influx sorter with 488 and 561 nm lasers Schulte et al. 2015 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. The size granularity and level of fluorescence for each cell were simultaneously recorded. The Smart seq2 protocol Picelli et al. 2014 was used to amplify the whole transcriptome and prepare libraries. Twenty five cycles of PCR amplification were performed. Experimental Factor: Testes:tissue|Experimental Factor: NaN:fsc|Experimental Factor: NaN:ssc|Experimental Factor: NaN:gfp RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>250</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>126</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP015799 Illumina HiSeq 2500 paired end sequencing; Single cell RNA sequencing of spleen derived LCK cells from adult Zebrafish ENA FIRST PUBLIC:2016 12 01|ENA LAST UPDATE:2018 11 16 LCK_7_16_mod.bam LCK_7_16.cram bam cram     E MTAB 4617:LCK 7#16 0:125 1:125 A:81321616;C:79315899;G:72476597;T:85676964;N:38424 125 125     81321616 79315899 72476597 85676964 38424 ERX1497873   ERA631093 Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive Ludwig Center for Cancer Research, University of Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics|European Nucleotide Archive 2 0.20776 0.20306 0.02431 0.02397 0.9654 0.96621 0.66321 0.66592 125 125 B B biological fallback assumption illumina hiseq_era full_length random_priming unknown sc single_cell_plate smartseq   Switzerland 2016-05-26 Adult Adult Gonad Reproductive System
5793 5793 ERR1955208 ERX2020800 ERS1697077 ERP017053 PRJEB15333 Transposon driven transcription is a conserved feature of vertebrate spermatogenesis and transcript evolution ena-STUDY-EMBL EUROPEAN BIOINFORMATICS INSTITUTE-07-09-2016-10:25:55:499-247 Other In order to better understand the features associated with male germline transcription we profiled the RNA expression in a number of germline cell types. These include spermatogonial stem cells spermatocytes and round spermatids in mouse and spermatocytes in rat. We also profiled the transcription in zebrafish testes. As a consequence it became apparent that transposable elements are driving considerable lncRNA expression in the later stages of spermatogenesis. This is particularly apparent in the case of endogenous retroviruses in rodents. ENA FIRST PUBLIC:2017 01 31|ENA LAST UPDATE:2017 05 08     Transcriptional profiling of zebrafish testes for analysis of conserved repeat element associations SAMEA104033184 EMBL EUROPEAN BIOINFORMATICS INSTITUTE ENA FIRST PUBLIC:2017 05 10T17:01:28Z|ENA LAST UPDATE:2017 04 28T10:34:37Z|External Id:SAMEA104033184|INSDC center name:EMBL EUROPEAN BIOINFORMATICS INSTITUTE|INSDC first public:2017 05 10T17:01:28Z|INSDC last update:2017 04 28T10:34:37Z|INSDC status:public|Submitter Id:Zebrafish.Testis 2|common name:zebrafish|sample name:Zebrafish.Testis 2|scientific name:Danio rerio|strain:AB|tissue type:testis                 Illumina HiSeq 2000 paired end sequencing ena EXPERIMENT EMBL EUROPEAN BIOINFORMATICS INSTITUTE 03 05 2017 17:32:41:660 16 unspecified 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP017053 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2017 05 10|ENA LAST UPDATE:2018 11 16 zebrafish_testis_2.conserved.1.fastq.gz zebrafish_testis_2.conserved.2.fastq.gz fastq fastq 46555372886.0 230472143.0 ena RUN EMBL EUROPEAN BIOINFORMATICS INSTITUTE 03 05 2017 17:32:41:660 16 0:101 1:101 A:12260062264;C:10888457642;G:11605642683;T:11637267744;N:163942553 101 101     12260062264 10888457642 11605642683 11637267744 163942553 ERX2020800 ERS1697077 ERA904389 EMBL EUROPEAN BIOINFORMATICS INSTITUTE|European Nucleotide Archive EMBL EUROPEAN BIOINFORMATICS INSTITUTE 2 0.93165 0.92785 0.29822 0.32141 0.71386 0.71971 0.66173 0.63843 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2017-01-31 Undetermined Undetermined Gonad Reproductive System
5794 5794 ERR1955207 ERX2020799 ERS1697076 ERP017053 PRJEB15333 Transposon driven transcription is a conserved feature of vertebrate spermatogenesis and transcript evolution ena-STUDY-EMBL EUROPEAN BIOINFORMATICS INSTITUTE-07-09-2016-10:25:55:499-247 Other In order to better understand the features associated with male germline transcription we profiled the RNA expression in a number of germline cell types. These include spermatogonial stem cells spermatocytes and round spermatids in mouse and spermatocytes in rat. We also profiled the transcription in zebrafish testes. As a consequence it became apparent that transposable elements are driving considerable lncRNA expression in the later stages of spermatogenesis. This is particularly apparent in the case of endogenous retroviruses in rodents. ENA FIRST PUBLIC:2017 01 31|ENA LAST UPDATE:2017 05 08     Transcriptional profiling of zebrafish testes for analysis of conserved repeat element associations SAMEA104033183 EMBL EUROPEAN BIOINFORMATICS INSTITUTE ENA FIRST PUBLIC:2017 05 10T17:01:28Z|ENA LAST UPDATE:2017 04 28T10:34:37Z|External Id:SAMEA104033183|INSDC center name:EMBL EUROPEAN BIOINFORMATICS INSTITUTE|INSDC first public:2017 05 10T17:01:28Z|INSDC last update:2017 04 28T10:34:37Z|INSDC status:public|Submitter Id:Zebrafish.Testis 1|common name:zebrafish|sample name:Zebrafish.Testis 1|scientific name:Danio rerio|strain:AB|tissue type:testis                 Illumina HiSeq 2000 paired end sequencing ena EXPERIMENT EMBL EUROPEAN BIOINFORMATICS INSTITUTE 03 05 2017 17:32:41:660 15 unspecified 1     RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP017053 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2017 05 10|ENA LAST UPDATE:2018 11 16 zebrafish_testis_1.conserved.1.fastq.gz zebrafish_testis_1.conserved.2.fastq.gz fastq fastq 41056086708.0 203247954.0 ena RUN EMBL EUROPEAN BIOINFORMATICS INSTITUTE 03 05 2017 17:32:41:660 15 0:101 1:101 A:10675591750;C:9672762387;G:10139834713;T:10380949257;N:186948601 101 101     10675591750 9672762387 10139834713 10380949257 186948601 ERX2020799 ERS1697076 ERA904389 EMBL EUROPEAN BIOINFORMATICS INSTITUTE|European Nucleotide Archive EMBL EUROPEAN BIOINFORMATICS INSTITUTE 2 0.92308 0.9157 0.30221 0.31293 0.68276 0.68836 0.56114 0.5857 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2017-01-31 Undetermined Undetermined Gonad Reproductive System
7949 7949 ERR015566 ERX005931 ERS000090 ERP000263 PRJEB2208 Zebrafish gene three prime end pull down for genome annotation E-MTAB-308 Transcriptome Analysis         ZF ovary sample1 SAMEA708832 Wellcome Sanger Institute Alias:ZF ovary sample1|Description:RNA extracted from adult zebrafish ovary|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2010 02 26T10:44:13Z|INSDC last update:2018 03 08T15:24:37Z|INSDC status:public|SRA accession:ERS000090|Sample Name:ERS000090|Sex:female|Strain:Tuebingen|Title:Danio rerio                 Illumina Genome Analyzer II paired end sequencing; Zebrafish gene 3 prime end pull down for genome annotation E MTAB 308:Illumina Genome Analyzer II sequencing of adult Zebrafish ovary dpf three prime pull down paired end 250 to 300 bp insert Zebrafish adult ovary mRNA three prime end Zebrafish gene three prime end pull down for genome annotation 20 ug of total RNA was fragmented using RNA Fragmentation Reagent Ambion for 5 minutes at 70 C and ethanol precipitated with glycogen and LiCl. RNA was annealed to the oligo stBPM1polyT22 biotin GGCCAGTCCTGGAGTTTTTTTTTTTTTTTTTTTTTTVN and bound to streptavidin magnetic beads. post washing by pull down on a magnet the bound RNA was reverse transcribed with SuperScript II Invitrogen and a second strand synthesised with DNA polymerase I Promega and RNase H NEB. post further washing the double strand cDNA was released from the beads with BpmI NEB. The cDNA was recovered with the QIAgen PCR Purification Kit and made into a standard Illumina library following the manufacturer's protocol with a fragment size of 250 to 300 bp. Experimental Factor: DEVELOPMENTAL STAGE:adult|Experimental Factor: ORGANISM PART:ovary|Experimental Factor: SEX:female RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina Genome Analyzer II   ERP000263 Illumina Genome Analyzer II paired end sequencing; Zebrafish gene three prime end pull down for genome annotation ENA FIRST PUBLIC:2010 08 19|ENA LAST UPDATE:2018 11 16 3444_6.srf srf 1150193272.0 7567061.0 E MTAB 308:Illumina Genome Analyzer II sequencing of adult Zebrafish ovary dpf three prime pull down paired end 250 to 300 bp insert 0:76 1:76 A:280621121;C:291623460;G:285422205;T:273609496;N:18916990 76 76     280621121 291623460 285422205 273609496 18916990 ERX005931 ERS000090 ERA010603 SC|Wellcome Trust Sanger Institute SC|Wellcome Trust Sanger Institute 2 0.96663 0.96605 0.0126 0.01249 0.82272 0.82548 0.45602 0.45286 76 76 B B biological fallback assumption illumina early_illumina 3prime other unknown bulk unknown unknown   United Kingdom 2010-02-26 Adult Adult Gonad Reproductive System
9192 9192 ERR223602 ERX198262 ERS164632 ERP001280 PRJEB2925 maternal to Zygotic Transition maternal_to_Zygotic_Transition-sc-2012-03-12T11:38:43Z-599 Transcriptome Analysis During early stages of embryonic development the genome is transcriptionally inactive and cells are under the control of maternally provided mRNA and proteins. At a key point in development known as the maternal to zygotic transition MZT the genome becomes activated and the maternally provided mRNAs begin to degrade. We plan to map the mRNA profiles of genes during the maternal to zygotic transition by using solexa sequencing.         SAMEA1689746 SC ArrayExpress Genotype:Wildtype|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 01 21T17:01:50Z|ENA LAST UPDATE:2018 03 08T15:53:38Z|External Id:SAMEA1689746|INSDC center name:SC|INSDC first public:2013 01 21T17:01:50Z|INSDC last update:2018 03 08T15:53:38Z|INSDC status:public|Submitter Id:oocyte 4 sc 2013 10 01T10:29:01Z 1471965|common name:zebrafish|sample description:RNA from oocytes|sample name:oocyte 4 sc 2013 10 01T10:29:01Z 1471965|scientific name:Danio rerio|strain:T/LF                 1 SC EXP 8527 4#4 5919327 Illumina sequencing of library 5919327 constructed from sample accession ERS164632 for study accession ERP001280. This is part of an Illumina multiplexed sequencing run 8527 4. This submission includes reads tagged with the sequence TGACCA. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001280 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 01 21|ENA LAST UPDATE:2018 11 16 8527_4#4.bam bam 4501651650.0 30011011.0 SC RUN 8527 4#4 0:75 1:75 A:1178674458;C:1092876888;G:1065584604;T:1161496281;N:3019419 75 75     1178674458 1092876888 1065584604 1161496281 3019419 ERX198262 ERS164632 ERA189990 SC Wellcome Sanger Institute 2 0.94561 0.94664 0.08582 0.08696 0.76138 0.76209 0.53176 0.53048 75 75 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-01-21 Zygote Embryo Oocyte Reproductive System
9193 9193 ERR223601 ERX198261 ERS164631 ERP001280 PRJEB2925 maternal to Zygotic Transition maternal_to_Zygotic_Transition-sc-2012-03-12T11:38:43Z-599 Transcriptome Analysis During early stages of embryonic development the genome is transcriptionally inactive and cells are under the control of maternally provided mRNA and proteins. At a key point in development known as the maternal to zygotic transition MZT the genome becomes activated and the maternally provided mRNAs begin to degrade. We plan to map the mRNA profiles of genes during the maternal to zygotic transition by using solexa sequencing.         SAMEA1689747 SC ArrayExpress Genotype:Wildtype|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 01 21T17:01:50Z|ENA LAST UPDATE:2018 03 08T15:54:08Z|External Id:SAMEA1689747|INSDC center name:SC|INSDC first public:2013 01 21T17:01:50Z|INSDC last update:2018 03 08T15:54:08Z|INSDC status:public|Submitter Id:oocyte 3 sc 2013 10 01T10:28:48Z 1471964|common name:zebrafish|sample description:RNA from oocytes|sample name:oocyte 3 sc 2013 10 01T10:28:48Z 1471964|scientific name:Danio rerio|strain:T/LF                 1 SC EXP 8527 4#3 5919326 Illumina sequencing of library 5919326 constructed from sample accession ERS164631 for study accession ERP001280. This is part of an Illumina multiplexed sequencing run 8527 4. This submission includes reads tagged with the sequence TTAGGC. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001280 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 01 21|ENA LAST UPDATE:2018 11 16 8527_4#3.bam bam 5568567900.0 37123786.0 SC RUN 8527 4#3 0:75 1:75 A:1465046903;C:1328645470;G:1303745131;T:1467407999;N:3722397 75 75     1465046903 1328645470 1303745131 1467407999 3722397 ERX198261 ERS164631 ERA189990 SC Wellcome Sanger Institute 2 0.94501 0.94442 0.0444 0.04437 0.75028 0.75142 0.50196 0.5009 75 75 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-01-21 Zygote Embryo Oocyte Reproductive System
9194 9194 ERR223600 ERX198260 ERS164630 ERP001280 PRJEB2925 maternal to Zygotic Transition maternal_to_Zygotic_Transition-sc-2012-03-12T11:38:43Z-599 Transcriptome Analysis During early stages of embryonic development the genome is transcriptionally inactive and cells are under the control of maternally provided mRNA and proteins. At a key point in development known as the maternal to zygotic transition MZT the genome becomes activated and the maternally provided mRNAs begin to degrade. We plan to map the mRNA profiles of genes during the maternal to zygotic transition by using solexa sequencing.         SAMEA1689745 SC ArrayExpress Genotype:Wildtype|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 01 21T17:01:50Z|ENA LAST UPDATE:2018 03 08T15:54:21Z|External Id:SAMEA1689745|INSDC center name:SC|INSDC first public:2013 01 21T17:01:50Z|INSDC last update:2018 03 08T15:54:21Z|INSDC status:public|Submitter Id:oocyte 2 sc 2013 10 01T10:28:52Z 1471963|common name:zebrafish|sample description:RNA from oocytes|sample name:oocyte 2 sc 2013 10 01T10:28:52Z 1471963|scientific name:Danio rerio|strain:T/LF                 1 SC EXP 8527 4#2 5919325 Illumina sequencing of library 5919325 constructed from sample accession ERS164630 for study accession ERP001280. This is part of an Illumina multiplexed sequencing run 8527 4. This submission includes reads tagged with the sequence CGATGT. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001280 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 01 21|ENA LAST UPDATE:2018 11 16 8527_4#2.bam bam 9763542150.0 65090281.0 SC RUN 8527 4#2 0:75 1:75 A:2562287706;C:2331596084;G:2286050048;T:2577061123;N:6547189 75 75     2562287706 2331596084 2286050048 2577061123 6547189 ERX198260 ERS164630 ERA189990 SC Wellcome Sanger Institute 2 0.94483 0.94307 0.03225 0.03213 0.75164 0.75248 0.48826 0.48786 75 75 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-01-21 Zygote Embryo Oocyte Reproductive System
9195 9195 ERR223599 ERX198259 ERS164629 ERP001280 PRJEB2925 maternal to Zygotic Transition maternal_to_Zygotic_Transition-sc-2012-03-12T11:38:43Z-599 Transcriptome Analysis During early stages of embryonic development the genome is transcriptionally inactive and cells are under the control of maternally provided mRNA and proteins. At a key point in development known as the maternal to zygotic transition MZT the genome becomes activated and the maternally provided mRNAs begin to degrade. We plan to map the mRNA profiles of genes during the maternal to zygotic transition by using solexa sequencing.         SAMEA1689749 SC ArrayExpress Genotype:Wildtype|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 01 21T17:01:50Z|ENA LAST UPDATE:2018 03 08T15:53:38Z|External Id:SAMEA1689749|INSDC center name:SC|INSDC first public:2013 01 21T17:01:50Z|INSDC last update:2018 03 08T15:53:38Z|INSDC status:public|Submitter Id:oocyte 1 sc 2013 10 01T10:28:56Z 1471962|common name:zebrafish|sample description:RNA from oocytes|sample name:oocyte 1 sc 2013 10 01T10:28:56Z 1471962|scientific name:Danio rerio|strain:T/LF                 1 SC EXP 8527 4#1 5919324 Illumina sequencing of library 5919324 constructed from sample accession ERS164629 for study accession ERP001280. This is part of an Illumina multiplexed sequencing run 8527 4. This submission includes reads tagged with the sequence ATCACG. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001280 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 01 21|ENA LAST UPDATE:2018 11 16 8527_4#1.bam bam 5085964200.0 33906428.0 SC RUN 8527 4#1 0:75 1:75 A:1339062677;C:1215755875;G:1185193585;T:1342619451;N:3332612 75 75     1339062677 1215755875 1185193585 1342619451 3332612 ERX198259 ERS164629 ERA189990 SC Wellcome Sanger Institute 2 0.94181 0.94057 0.02819 0.02816 0.76528 0.76589 0.48801 0.48528 75 75 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-01-21 Zygote Embryo Oocyte Reproductive System
9197 9197 ERR247040 ERX221574 ERS199652 ERP001280 PRJEB2925 maternal to Zygotic Transition maternal_to_Zygotic_Transition-sc-2012-03-12T11:38:43Z-599 Transcriptome Analysis During early stages of embryonic development the genome is transcriptionally inactive and cells are under the control of maternally provided mRNA and proteins. At a key point in development known as the maternal to zygotic transition MZT the genome becomes activated and the maternally provided mRNAs begin to degrade. We plan to map the mRNA profiles of genes during the maternal to zygotic transition by using solexa sequencing.         SAMEA1710141 SC ArrayExpress Genotype:Wildtype|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 03 25T17:04:29Z|ENA LAST UPDATE:2018 03 08T16:11:05Z|External Id:SAMEA1710141|INSDC center name:SC|INSDC first public:2013 03 25T17:04:29Z|INSDC last update:2018 03 08T16:11:05Z|INSDC status:public|Submitter Id:oocyteFraction strand specific sc 2012 12 18T11:01:05Z 1528879|common name:zebrafish|sample description:RNA from oocytes|sample name:oocyteFraction strand specific sc 2012 12 18T11:01:05Z 1528879|scientific name:Danio rerio|strain:T/LF                 1 SC EXP 9059 1 6378827 Illumina sequencing of library 6378827 constructed from sample accession ERS199652 for study accession ERP001280. Pre quality controlled   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP001280 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2013 03 25|ENA LAST UPDATE:2018 11 16 9059_1.bam bam 5753899800.0 19179666.0 SC RUN 9059 1 0:150 1:150 A:1244815314;C:1614707066;G:1630780426;T:1257755311;N:5841683 150 150     1244815314 1614707066 1630780426 1257755311 5841683 ERX221574 ERS199652 ERA203591 SC Wellcome Sanger Institute 2 0.92925 0.92503 0.31746 0.31669 0.86752 0.8714 0.76375 0.7364 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-03-25 Zygote Embryo Oocyte Reproductive System
9198 9198 ERR217291 ERX191956 ERS177087 ERP001280 PRJEB2925 maternal to Zygotic Transition maternal_to_Zygotic_Transition-sc-2012-03-12T11:38:43Z-599 Transcriptome Analysis During early stages of embryonic development the genome is transcriptionally inactive and cells are under the control of maternally provided mRNA and proteins. At a key point in development known as the maternal to zygotic transition MZT the genome becomes activated and the maternally provided mRNAs begin to degrade. We plan to map the mRNA profiles of genes during the maternal to zygotic transition by using solexa sequencing.         SAMEA1689748 SC ArrayExpress Genotype:Wildtype|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 01 09T08:46:36Z|ENA LAST UPDATE:2018 03 08T15:58:37Z|External Id:SAMEA1689748|INSDC center name:SC|INSDC first public:2013 01 09T08:46:36Z|INSDC last update:2018 03 08T15:58:37Z|INSDC status:public|Submitter Id:oocyteFraction sc 2012 09 25T08:20:48Z 1484035|common name:zebrafish|sample description:RNA from oocytes|sample name:oocyteFraction sc 2012 09 25T08:20:48Z 1484035|scientific name:Danio rerio|strain:T/LF                 1 SC EXP 8567 1 5956007 Illumina sequencing of library 5956007 constructed from sample accession ERS177087 for study accession ERP001280. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP001280 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2013 01 08|ENA LAST UPDATE:2018 11 16 8567_1.bam bam 700846400.0 14016928.0 SC RUN 8567 1 0:25 1:25 A:156856071;C:189943304;G:186494044;T:167363835;N:189146 25 25     156856071 189943304 186494044 167363835 189146 ERX191956 ERS177087 ERA182300 SC Wellcome Sanger Institute 2 0.92873 0.92719 0.33189 0.33319 0.87691 0.88361 0.67468 0.67237 25 25 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-01-08 Zygote Embryo Oocyte Reproductive System
9357 9357 ERR2983451 ERX2986067 ERS2955655 ERP112513 PRJEB30097 RNA Seq of Danionine species E-MTAB-7476 Transcriptome Analysis Tissues specific transcriptomes of Danio rerio Danio albolineatus and Danio aesculapii Brain Liver and Gonads. ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05   Protocols: Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. R2wG SAMEA5147910 University of Hamburg, Institute of Zoology, Molecular Animal Physiology ENA FIRST PUBLIC:2018 12 05T17:02:27Z|ENA LAST UPDATE:2018 12 05T10:01:48Z|External Id:SAMEA5147910|INSDC center name:University of Hamburg Institute of Zoology Molecular Animal Physiology|INSDC first public:2018 12 05T17:02:27Z|INSDC last update:2018 12 05T10:01:48Z|INSDC status:public|Submitter Id:E MTAB 7476:R2wG|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|individual:2|organism part:gonad|sample name:E MTAB 7476:R2wG|scientific name:Danio rerio|sex:female|strain:tu                 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danio9 species E MTAB 7476:R2wG p R2wG p RNA Seq of Danionine species Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. Experimental Factor: organism:Danio rerio|Experimental Factor: organism part:gonad RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP112513 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danionine species ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05 FCHNW2WBBXX_L6_HKZEBodsEAAFRAAPEI-209_1.fq.gz FCHNW2WBBXX_L6_HKZEBodsEAAFRAAPEI-209_2.fq.gz fastq fastq 4276100600.0 21380503.0 E MTAB 7476:FCHNW2WBBXX L6 HKZEBodsEAAFRAAPEI 209 0:100 1:100 A:1108098396;C:1033423434;G:1019885778;T:1113782383;N:910609 100 100     1108098396 1033423434 1019885778 1113782383 910609 ERX2986067 ERS2955655 ERA1674470 University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive 2 0.9444 0.94495 0.02624 0.02606 0.74959 0.7512 0.48453 0.48539 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2018-12-05 Adult Adult Gonad Reproductive System
9359 9359 ERR2983449 ERX2986065 ERS2955653 ERP112513 PRJEB30097 RNA Seq of Danionine species E-MTAB-7476 Transcriptome Analysis Tissues specific transcriptomes of Danio rerio Danio albolineatus and Danio aesculapii Brain Liver and Gonads. ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05   Protocols: Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. R1wG SAMEA5147908 University of Hamburg, Institute of Zoology, Molecular Animal Physiology ENA FIRST PUBLIC:2018 12 05T17:02:27Z|ENA LAST UPDATE:2018 12 05T10:01:48Z|External Id:SAMEA5147908|INSDC center name:University of Hamburg Institute of Zoology Molecular Animal Physiology|INSDC first public:2018 12 05T17:02:27Z|INSDC last update:2018 12 05T10:01:48Z|INSDC status:public|Submitter Id:E MTAB 7476:R1wG|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|individual:1|organism part:gonad|sample name:E MTAB 7476:R1wG|scientific name:Danio rerio|sex:female|strain:tu                 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danio9 species E MTAB 7476:R1wG p R1wG p RNA Seq of Danionine species Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. Experimental Factor: organism:Danio rerio|Experimental Factor: organism part:gonad RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP112513 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danionine species ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05 FCHNW2WBBXX_L6_HKZEBodsEAAERAAPEI-208_1.fq.gz FCHNW2WBBXX_L6_HKZEBodsEAAERAAPEI-208_2.fq.gz fastq fastq 3574419200.0 17872096.0 E MTAB 7476:FCHNW2WBBXX L6 HKZEBodsEAAERAAPEI 208 0:100 1:100 A:927454175;C:863033369;G:844910972;T:938253904;N:766780 100 100     927454175 863033369 844910972 938253904 766780 ERX2986065 ERS2955653 ERA1674470 University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive 2 0.93851 0.93973 0.02799 0.02809 0.72701 0.72914 0.48827 0.48841 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2018-12-05 Adult Adult Gonad Reproductive System
11399 11399 ERR573450 ERX532220 ERS431107 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444568 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444568|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919822|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CTTGTACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919822|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#12 9907558 Illumina sequencing of library 9907558 constructed from sample accession ERS431107 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence CTTGTACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#12.cram cram 650186196.0 4925653.0 SC RUN 12780 2#12 0:75 1:57 A:198560783;C:115580503;G:114032117;T:209420318;N:12592475 75 57     198560783 115580503 114032117 209420318 12592475 ERX532220 ERS431107 ERA340772 SC Wellcome Sanger Institute 2 0.78647 0.06669 0.02926 0.0112 0.85064 0.97431 0.84336 0.84061 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11400 11400 ERR573449 ERX532219 ERS431106 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444567 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444567|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919821|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GGCTACAG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919821|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#11 9907557 Illumina sequencing of library 9907557 constructed from sample accession ERS431106 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence GGCTACAG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#11.cram cram 549446964.0 4162477.0 SC RUN 12780 2#11 0:75 1:57 A:163838700;C:98149189;G:96793504;T:179982523;N:10683048 75 57     163838700 98149189 96793504 179982523 10683048 ERX532219 ERS431106 ERA340772 SC Wellcome Sanger Institute 2 0.76412 0.07382 0.0424 0.01354 0.8295 0.9711 0.74271 0.79164 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11401 11401 ERR573448 ERX532218 ERS431105 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444566 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444566|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919820|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TAGCTTGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919820|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#10 9907556 Illumina sequencing of library 9907556 constructed from sample accession ERS431105 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence TAGCTTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#10.cram cram 586547544.0 4443542.0 SC RUN 12780 2#10 0:75 1:57 A:177436547;C:103345736;G:103704110;T:190942186;N:11118965 75 57     177436547 103345736 103704110 190942186 11118965 ERX532218 ERS431105 ERA340772 SC Wellcome Sanger Institute 2 0.74998 0.0811 0.0405 0.01459 0.83818 0.9713 0.76069 0.82754 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11402 11402 ERR573447 ERX532217 ERS431104 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444565 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444565|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919819|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GATCAGCG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919819|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#9 9907555 Illumina sequencing of library 9907555 constructed from sample accession ERS431104 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence GATCAGCG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#9.cram cram 432315576.0 3275118.0 SC RUN 12780 2#9 0:75 1:57 A:125670509;C:76069749;G:79204404;T:143041262;N:8329652 75 57     125670509 76069749 79204404 143041262 8329652 ERX532217 ERS431104 ERA340772 SC Wellcome Sanger Institute 2 0.7937 0.09715 0.06324 0.02353 0.81416 0.9666 0.67184 0.7568 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11403 11403 ERR573446 ERX532216 ERS431103 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444564 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444564|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919818|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACTTGATG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919818|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#8 9907554 Illumina sequencing of library 9907554 constructed from sample accession ERS431103 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence ACTTGATG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#8.cram cram 634513968.0 4806924.0 SC RUN 12780 2#8 0:75 1:57 A:191583244;C:112011649;G:110647017;T:208010330;N:12261728 75 57     191583244 112011649 110647017 208010330 12261728 ERX532216 ERS431103 ERA340772 SC Wellcome Sanger Institute 2 0.76842 0.07425 0.04471 0.01661 0.83191 0.97177 0.74527 0.7838 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11404 11404 ERR573445 ERX532215 ERS431102 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444563 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444563|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919817|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CAGATCTG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919817|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#7 9907553 Illumina sequencing of library 9907553 constructed from sample accession ERS431102 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence CAGATCTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#7.cram cram 529421640.0 4010770.0 SC RUN 12780 2#7 0:75 1:57 A:157284974;C:93721720;G:94294422;T:174054157;N:10066367 75 57     157284974 93721720 94294422 174054157 10066367 ERX532215 ERS431102 ERA340772 SC Wellcome Sanger Institute 2 0.76842 0.08469 0.05354 0.02047 0.827 0.96948 0.73126 0.78711 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11405 11405 ERR573444 ERX532214 ERS431101 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444562 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444562|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919816|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GCCAATGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919816|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#6 9907552 Illumina sequencing of library 9907552 constructed from sample accession ERS431101 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence GCCAATGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#6.cram cram 486628692.0 3686581.0 SC RUN 12780 2#6 0:75 1:57 A:144305837;C:84311114;G:87382505;T:161179806;N:9449430 75 57     144305837 84311114 87382505 161179806 9449430 ERX532214 ERS431101 ERA340772 SC Wellcome Sanger Institute 2 0.75492 0.08763 0.05943 0.02467 0.82605 0.97106 0.73066 0.78416 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11406 11406 ERR573443 ERX532213 ERS431100 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444561 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444561|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919815|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACAGTGGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919815|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#5 9907551 Illumina sequencing of library 9907551 constructed from sample accession ERS431100 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence ACAGTGGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#5.cram cram 434346528.0 3290504.0 SC RUN 12780 2#5 0:75 1:57 A:130606283;C:75668370;G:76854195;T:142733687;N:8483993 75 57     130606283 75668370 76854195 142733687 8483993 ERX532213 ERS431100 ERA340772 SC Wellcome Sanger Institute 2 0.73502 0.08212 0.05107 0.02177 0.83319 0.97319 0.75608 0.78055 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11407 11407 ERR573442 ERX532212 ERS431099 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444560 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444560|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919814|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TGACCACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919814|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#4 9907550 Illumina sequencing of library 9907550 constructed from sample accession ERS431099 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence TGACCACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#4.cram cram 582567480.0 4413390.0 SC RUN 12780 2#4 0:75 1:57 A:172199820;C:102401712;G:105588046;T:191114176;N:11263726 75 57     172199820 102401712 105588046 191114176 11263726 ERX532212 ERS431099 ERA340772 SC Wellcome Sanger Institute 2 0.77445 0.0772 0.04947 0.01892 0.83155 0.97331 0.76537 0.81314 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11408 11408 ERR573441 ERX532211 ERS431098 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444559 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444559|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919813|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TTAGGCAT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919813|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#3 9907549 Illumina sequencing of library 9907549 constructed from sample accession ERS431098 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence TTAGGCAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#3.cram cram 418546128.0 3170804.0 SC RUN 12780 2#3 0:75 1:57 A:126035986;C:73630368;G:74294092;T:136405774;N:8179908 75 57     126035986 73630368 74294092 136405774 8179908 ERX532211 ERS431098 ERA340772 SC Wellcome Sanger Institute 2 0.74027 0.07644 0.04632 0.01645 0.83678 0.97268 0.28642 0.81578 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11409 11409 ERR573440 ERX532210 ERS431097 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444558 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:18Z|External Id:SAMEA2444558|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:18Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919812|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CGATGTTT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919812|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#2 9907548 Illumina sequencing of library 9907548 constructed from sample accession ERS431097 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence CGATGTTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#2.cram cram 566231292.0 4289631.0 SC RUN 12780 2#2 0:75 1:57 A:172561187;C:99465885;G:100279317;T:182857908;N:11066995 75 57     172561187 99465885 100279317 182857908 11066995 ERX532210 ERS431097 ERA340772 SC Wellcome Sanger Institute 2 0.73628 0.0719 0.04526 0.01748 0.8409 0.97396 0.78089 0.79994 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11410 11410 ERR573439 ERX532209 ERS431096 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444557 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T16:22:51Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444557|INSDC center name:SC|INSDC first public:2014 07 23T16:22:51Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919811|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ATCACGTT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919811|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 2#1 9907547 Illumina sequencing of library 9907547 constructed from sample accession ERS431096 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 2. This submission includes reads tagged with the sequence ATCACGTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_2#1.cram cram 558495036.0 4231023.0 SC RUN 12780 2#1 0:75 1:57 A:166379866;C:98567486;G:99036358;T:183804488;N:10706838 75 57     166379866 98567486 99036358 183804488 10706838 ERX532209 ERS431096 ERA340772 SC Wellcome Sanger Institute 2 0.78243 0.07302 0.04903 0.01801 0.83226 0.97273 0.29206 0.7973 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11423 11423 ERR573426 ERX532196 ERS431107 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444568 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444568|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919822|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CTTGTACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919822|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#12 9907558 Illumina sequencing of library 9907558 constructed from sample accession ERS431107 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence CTTGTACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#12.cram cram 654778344.0 4960442.0 SC RUN 12780 1#12 0:75 1:57 A:199961179;C:116391535;G:114824807;T:212851466;N:10749357 75 57     199961179 116391535 114824807 212851466 10749357 ERX532196 ERS431107 ERA340772 SC Wellcome Sanger Institute 2 0.74507 0.06932 0.03573 0.01136 0.85027 0.97313 0.79723 0.84985 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11424 11424 ERR573425 ERX532195 ERS431106 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444567 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444567|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919821|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GGCTACAG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919821|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#11 9907557 Illumina sequencing of library 9907557 constructed from sample accession ERS431106 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence GGCTACAG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#11.cram cram 552668028.0 4186879.0 SC RUN 12780 1#11 0:75 1:57 A:164846379;C:98733933;G:97317366;T:182667385;N:9102965 75 57     164846379 98733933 97317366 182667385 9102965 ERX532195 ERS431106 ERA340772 SC Wellcome Sanger Institute 2 0.76181 0.07914 0.04128 0.0144 0.83013 0.96897 0.74524 0.78224 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11425 11425 ERR573424 ERX532194 ERS431105 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444566 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444566|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919820|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TAGCTTGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919820|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#10 9907556 Illumina sequencing of library 9907556 constructed from sample accession ERS431105 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence TAGCTTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#10.cram cram 589676736.0 4467248.0 SC RUN 12780 1#10 0:75 1:57 A:178387736;C:103918537;G:104224904;T:193658136;N:9487423 75 57     178387736 103918537 104224904 193658136 9487423 ERX532194 ERS431105 ERA340772 SC Wellcome Sanger Institute 2 0.74908 0.08524 0.04 0.01437 0.8378 0.96924 0.75837 0.81424 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11426 11426 ERR573423 ERX532193 ERS431104 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444565 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444565|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919819|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GATCAGCG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919819|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#9 9907555 Illumina sequencing of library 9907555 constructed from sample accession ERS431104 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence GATCAGCG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#9.cram cram 434687352.0 3293086.0 SC RUN 12780 1#9 0:75 1:57 A:126325992;C:76537956;G:79653493;T:145073554;N:7096357 75 57     126325992 76537956 79653493 145073554 7096357 ERX532193 ERS431104 ERA340772 SC Wellcome Sanger Institute 2 0.79218 0.10515 0.06403 0.02516 0.81554 0.96516 0.67398 0.75854 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11427 11427 ERR573422 ERX532192 ERS431103 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444564 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444564|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919818|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACTTGATG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919818|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#8 9907554 Illumina sequencing of library 9907554 constructed from sample accession ERS431103 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence ACTTGATG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#8.cram cram 638979132.0 4840751.0 SC RUN 12780 1#8 0:75 1:57 A:192909825;C:112805839;G:111453868;T:211361149;N:10448451 75 57     192909825 112805839 111453868 211361149 10448451 ERX532192 ERS431103 ERA340772 SC Wellcome Sanger Institute 2 0.76792 0.07939 0.04571 0.01779 0.83149 0.97159 0.74544 0.78986 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11428 11428 ERR573421 ERX532191 ERS431102 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444563 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444563|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919817|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CAGATCTG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919817|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#7 9907553 Illumina sequencing of library 9907553 constructed from sample accession ERS431102 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence CAGATCTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#7.cram cram 532095168.0 4031024.0 SC RUN 12780 1#7 0:75 1:57 A:158055606;C:94244016;G:94782105;T:176432826;N:8580615 75 57     158055606 94244016 94782105 176432826 8580615 ERX532191 ERS431102 ERA340772 SC Wellcome Sanger Institute 2 0.7682 0.08982 0.05249 0.02037 0.82873 0.96721 0.7268 0.77896 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11429 11429 ERR573420 ERX532190 ERS431101 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444562 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444562|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919816|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GCCAATGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919816|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#6 9907552 Illumina sequencing of library 9907552 constructed from sample accession ERS431101 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence GCCAATGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#6.cram cram 489881304.0 3711222.0 SC RUN 12780 1#6 0:75 1:57 A:145269938;C:84906659;G:87933679;T:163722375;N:8048653 75 57     145269938 84906659 87933679 163722375 8048653 ERX532190 ERS431101 ERA340772 SC Wellcome Sanger Institute 2 0.75436 0.09382 0.05843 0.02595 0.82629 0.96948 0.7281 0.79376 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11430 11430 ERR573419 ERX532189 ERS431100 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444561 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444561|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919815|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACAGTGGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919815|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#5 9907551 Illumina sequencing of library 9907551 constructed from sample accession ERS431100 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence ACAGTGGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#5.cram cram 437026920.0 3310810.0 SC RUN 12780 1#5 0:75 1:57 A:131416104;C:76151440;G:77308895;T:144919262;N:7231219 75 57     131416104 76151440 77308895 144919262 7231219 ERX532189 ERS431100 ERA340772 SC Wellcome Sanger Institute 2 0.73572 0.08868 0.05166 0.02301 0.83402 0.97112 0.75407 0.784 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11431 11431 ERR573418 ERX532188 ERS431099 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444560 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444560|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919814|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TGACCACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919814|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#4 9907550 Illumina sequencing of library 9907550 constructed from sample accession ERS431099 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence TGACCACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#4.cram cram 585274536.0 4433898.0 SC RUN 12780 1#4 0:75 1:57 A:173020599;C:102926893;G:106068831;T:193675894;N:9582319 75 57     173020599 102926893 106068831 193675894 9582319 ERX532188 ERS431099 ERA340772 SC Wellcome Sanger Institute 2 0.7739 0.08287 0.05031 0.0203 0.83321 0.97151 0.76806 0.81586 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11432 11432 ERR573417 ERX532187 ERS431098 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444559 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444559|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919813|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TTAGGCAT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919813|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#3 9907549 Illumina sequencing of library 9907549 constructed from sample accession ERS431098 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence TTAGGCAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#3.cram cram 421320768.0 3191824.0 SC RUN 12780 1#3 0:75 1:57 A:126882438;C:74124163;G:74793703;T:138548372;N:6972092 75 57     126882438 74124163 74793703 138548372 6972092 ERX532187 ERS431098 ERA340772 SC Wellcome Sanger Institute 2 0.73961 0.08107 0.04649 0.01778 0.83707 0.971 0.76667 0.3852 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11433 11433 ERR573416 ERX532186 ERS431097 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444558 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:18Z|External Id:SAMEA2444558|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:18Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919812|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CGATGTTT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919812|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#2 9907548 Illumina sequencing of library 9907548 constructed from sample accession ERS431097 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence CGATGTTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#2.cram cram 568896240.0 4309820.0 SC RUN 12780 1#2 0:75 1:57 A:173367419;C:99949404;G:100711583;T:185441801;N:9426033 75 57     173367419 99949404 100711583 185441801 9426033 ERX532186 ERS431097 ERA340772 SC Wellcome Sanger Institute 2 0.73933 0.07666 0.04615 0.01873 0.84449 0.97143 0.78045 0.81201 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11434 11434 ERR573415 ERX532185 ERS431096 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444557 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T16:22:51Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444557|INSDC center name:SC|INSDC first public:2014 07 23T16:22:51Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919811|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ATCACGTT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919811|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12780 1#1 9907547 Illumina sequencing of library 9907547 constructed from sample accession ERS431096 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12780 1. This submission includes reads tagged with the sequence ATCACGTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 08 04|ENA LAST UPDATE:2018 11 16 12780_1#1.cram cram 561408276.0 4253093.0 SC RUN 12780 1#1 0:75 1:57 A:167257802;C:99072946;G:99537162;T:186409516;N:9130850 75 57     167257802 99072946 99537162 186409516 9130850 ERX532185 ERS431096 ERA340772 SC Wellcome Sanger Institute 2 0.78234 0.07725 0.04864 0.01803 0.8324 0.97106 0.76276 0.80786 75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11447 11447 ERR569509 ERX528498 ERS431107 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444568 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444568|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919822|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CTTGTACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919822|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#12 9907558 Illumina sequencing of library 9907558 constructed from sample accession ERS431107 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence CTTGTACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#12.cram cram 982461744.0 7442892.0 SC RUN 12667 2#12 0:75 1:57 A:296481362;C:179307177;G:177971204;T:242584851;N:86117150 75 57     296481362 179307177 177971204 242584851 86117150 ERX528498 ERS431107 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11448 11448 ERR569508 ERX528497 ERS431106 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444567 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444567|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919821|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GGCTACAG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919821|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#11 9907557 Illumina sequencing of library 9907557 constructed from sample accession ERS431106 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence GGCTACAG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#11.cram cram 819880908.0 6211219.0 SC RUN 12667 2#11 0:75 1:57 A:239945288;C:149495771;G:150744824;T:207841296;N:71853729 75 57     239945288 149495771 150744824 207841296 71853729 ERX528497 ERS431106 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11449 11449 ERR569507 ERX528496 ERS431105 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444566 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444566|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919820|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TAGCTTGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919820|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#10 9907556 Illumina sequencing of library 9907556 constructed from sample accession ERS431105 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence TAGCTTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#10.cram cram 867273396.0 6570253.0 SC RUN 12667 2#10 0:75 1:57 A:256525320;C:158066159;G:158327270;T:218444938;N:75909709 75 57     256525320 158066159 158327270 218444938 75909709 ERX528496 ERS431105 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11450 11450 ERR569506 ERX528495 ERS431104 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444565 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444565|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919819|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GATCAGCG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919819|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#9 9907555 Illumina sequencing of library 9907555 constructed from sample accession ERS431104 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence GATCAGCG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#9.cram cram 638169972.0 4834621.0 SC RUN 12667 2#9 0:75 1:57 A:178874509;C:115944169;G:121541625;T:165914541;N:55895128 75 57     178874509 115944169 121541625 165914541 55895128 ERX528495 ERS431104 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11451 11451 ERR569505 ERX528494 ERS431103 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444564 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444564|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919818|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACTTGATG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919818|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#8 9907554 Illumina sequencing of library 9907554 constructed from sample accession ERS431103 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence ACTTGATG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#8.cram cram 956534568.0 7246474.0 SC RUN 12667 2#8 0:75 1:57 A:283108829;C:173218537;G:173900730;T:242479623;N:83826849 75 57     283108829 173218537 173900730 242479623 83826849 ERX528494 ERS431103 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11452 11452 ERR569504 ERX528493 ERS431102 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444563 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444563|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919817|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CAGATCTG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919817|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#7 9907553 Illumina sequencing of library 9907553 constructed from sample accession ERS431102 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence CAGATCTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#7.cram cram 802586532.0 6080201.0 SC RUN 12667 2#7 0:75 1:57 A:233541667;C:144624483;G:149025771;T:205115198;N:70279413 75 57     233541667 144624483 149025771 205115198 70279413 ERX528493 ERS431102 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11453 11453 ERR569503 ERX528492 ERS431101 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444562 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444562|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919816|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GCCAATGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919816|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#6 9907552 Illumina sequencing of library 9907552 constructed from sample accession ERS431101 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence GCCAATGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#6.cram cram 733241256.0 5554858.0 SC RUN 12667 2#6 0:75 1:57 A:211104317;C:130864541;G:136777935;T:190226993;N:64267470 75 57     211104317 130864541 136777935 190226993 64267470 ERX528492 ERS431101 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11454 11454 ERR569502 ERX528491 ERS431100 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444561 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444561|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919815|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACAGTGGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919815|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#5 9907551 Illumina sequencing of library 9907551 constructed from sample accession ERS431100 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence ACAGTGGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#5.cram cram 645745716.0 4892013.0 SC RUN 12667 2#5 0:75 1:57 A:189090784;C:116092712;G:119494272;T:164458997;N:56608951 75 57     189090784 116092712 119494272 164458997 56608951 ERX528491 ERS431100 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11455 11455 ERR569501 ERX528490 ERS431099 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444560 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444560|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919814|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TGACCACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919814|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#4 9907550 Illumina sequencing of library 9907550 constructed from sample accession ERS431099 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence TGACCACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#4.cram cram 882264768.0 6683824.0 SC RUN 12667 2#4 0:75 1:57 A:255531040;C:159252879;G:165939493;T:224224246;N:77317110 75 57     255531040 159252879 165939493 224224246 77317110 ERX528490 ERS431099 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11456 11456 ERR569500 ERX528489 ERS431098 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444559 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444559|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919813|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TTAGGCAT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919813|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#3 9907549 Illumina sequencing of library 9907549 constructed from sample accession ERS431098 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence TTAGGCAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#3.cram cram 632041476.0 4788193.0 SC RUN 12667 2#3 0:75 1:57 A:186766977;C:113872733;G:116558958;T:159420645;N:55422163 75 57     186766977 113872733 116558958 159420645 55422163 ERX528489 ERS431098 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11457 11457 ERR569499 ERX528488 ERS431097 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444558 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:18Z|External Id:SAMEA2444558|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:18Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919812|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CGATGTTT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919812|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#2 9907548 Illumina sequencing of library 9907548 constructed from sample accession ERS431097 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence CGATGTTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#2.cram cram 844857288.0 6400434.0 SC RUN 12667 2#2 0:75 1:57 A:252606194;C:152622733;G:154830520;T:210725305;N:74072536 75 57     252606194 152622733 154830520 210725305 74072536 ERX528488 ERS431097 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11458 11458 ERR569498 ERX528487 ERS431096 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444557 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T16:22:51Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444557|INSDC center name:SC|INSDC first public:2014 07 23T16:22:51Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919811|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ATCACGTT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919811|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 2#1 9907547 Illumina sequencing of library 9907547 constructed from sample accession ERS431096 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 2. This submission includes reads tagged with the sequence ATCACGTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_2#1.cram cram 854419632.0 6472876.0 SC RUN 12667 2#1 0:75 1:57 A:249971280;C:155387886;G:157247396;T:216942080;N:74870990 75 57     249971280 155387886 157247396 216942080 74870990 ERX528487 ERS431096 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11471 11471 ERR569485 ERX528474 ERS431107 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444568 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444568|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919822|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence CTTGTACT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919822|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 1#12 9907558 Illumina sequencing of library 9907558 constructed from sample accession ERS431107 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 1. This submission includes reads tagged with the sequence CTTGTACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_1#12.cram cram 973526928.0 7375204.0 SC RUN 12667 1#12                       ERX528474 ERS431107 ERA335056 SC Wellcome Sanger Institute 2 0.71562 0.0 0.03456 0.0 0.84516 1.0 0.79921   75 57 B T mate2 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11472 11472 ERR569484 ERX528473 ERS431106 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444567 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444567|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919821|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GGCTACAG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919821|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 1#11 9907557 Illumina sequencing of library 9907557 constructed from sample accession ERS431106 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 1. This submission includes reads tagged with the sequence GGCTACAG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_1#11.cram cram 813181644.0 6160467.0 SC RUN 12667 1#11 0:75 1:57 A:238848827;C:149020215;G:147541215;T:207304748;N:70466639 75 57     238848827 149020215 147541215 207304748 70466639 ERX528473 ERS431106 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11473 11473 ERR569483 ERX528472 ERS431105 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444566 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:26Z|External Id:SAMEA2444566|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:26Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919820|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence TAGCTTGT is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919820|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 1#10 9907556 Illumina sequencing of library 9907556 constructed from sample accession ERS431105 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 1. This submission includes reads tagged with the sequence TAGCTTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_1#10.cram cram 861606900.0 6527325.0 SC RUN 12667 1#10 0:75 1:57 A:256020295;C:157619732;G:155401345;T:217997809;N:74567719 75 57     256020295 157619732 155401345 217997809 74567719 ERX528472 ERS431105 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11474 11474 ERR569482 ERX528471 ERS431104 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444565 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:20:17Z|External Id:SAMEA2444565|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:20:17Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919819|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence GATCAGCG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919819|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 1#9 9907555 Illumina sequencing of library 9907555 constructed from sample accession ERS431104 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 1. This submission includes reads tagged with the sequence GATCAGCG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_1#9.cram cram 633237528.0 4797254.0 SC RUN 12667 1#9 0:75 1:57 A:178580440;C:115465234;G:119070608;T:165285380;N:54835866 75 57     178580440 115465234 119070608 165285380 54835866 ERX528471 ERS431104 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System
11475 11475 ERR569481 ERX528470 ERS431103 ERP005516 PRJEB6054 Baseline expression from transcriptional profiling of zebrafish developmental stages Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages-sc-3053 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling         SAMEA2444564 SC ArrayExpress DevelopmentalStage:ZFS:0000001|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 07 23T17:01:06Z|ENA LAST UPDATE:2018 03 08T17:24:27Z|External Id:SAMEA2444564|INSDC center name:SC|INSDC first public:2014 07 23T17:01:06Z|INSDC last update:2018 03 08T17:24:27Z|INSDC status:public|Submitter Id:wild type 0hpf sc 1919818|common name:zebrafish|sample description:3 prime end enriched mRNA from wild type zebrafish embryo pools collected at zygote 1 cell stage 0 hpf. A 8 base indexing sequence ACTTGATG is bases 11 to 18 of non index read 2 followed by CG and polyT.|sample name:wild type 0hpf sc 1919818|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 12667 1#8 9907554 Illumina sequencing of library 9907554 constructed from sample accession ERS431103 for study accession ERP005516. This is part of an Illumina multiplexed sequencing run 12667 1. This submission includes reads tagged with the sequence ACTTGATG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP005516 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 07 23|ENA LAST UPDATE:2018 11 16 12667_1#8.cram cram 948733896.0 7187378.0 SC RUN 12667 1#8 0:75 1:57 A:281906051;C:172551817;G:170209732;T:241857913;N:82208383 75 57     281906051 172551817 170209732 241857913 82208383 ERX528470 ERS431103 ERA335056 SC Wellcome Sanger Institute                             illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-07-23 Zygote Embryo Oocyte Reproductive System

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;