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run_metadata

5,278 rows where experiment.library_layout = "PAIRED", experiment.library_source = "TRANSCRIPTOMIC" and tissue_curation = "Embryo Imprecise"

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technology 10

experiment.library_selection >10

devstage_curation >10

experiment.library_strategy 8

experiment.platform 4

devstage_curation_coarse 4

tissue_curation_coarse 1

tissue_curation 1

  • Embryo Imprecise · 5,278 ✖

experiment.library_source 1

  • TRANSCRIPTOMIC · 5,278 ✖

experiment.library_layout 1

  • PAIRED · 5,278 ✖
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
8055 8055 ERR022484 ERX008924 ERS017427 ERP000400 PRJEB2333 Sequencing the Zebrafish transcriptome form a range of tissues and developmental stages using the Illumina Genome Analyzer E-MTAB-434 Other         E MTAB 434:ZF 2cells SAMEA898400 Wellcome Sanger Institute Alias:E MTAB 434:ZF 2cells|Broker name:ArrayExpress|Description:Protocols: Zebrafish embyos or tissues were collected from a Tuebingen strain incross and grown at 28 C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were resuspended RNase free 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Total RNA was made into an RNAseq Illumina library following the manufacturer's protocol including a DNase treatment between to 2 rounds of polyA pull down. The libraries have fragment size of 250 to 300 bp.|DevelopmentalStage:embryo|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2011 03 10T17:55:05Z|INSDC last update:2018 03 08T15:25:14Z|INSDC status:public|SRA accession:ERS017427|Sample Name:ERS017427|Sex:mixed|StrainOrLine:Tuebingen|Title:ZF 2cells                 Illumina Genome Analyzer II paired end sequencing; Sequencing the Zebrafish transcriptome form a range of tissues and developmental stages using the Illumina Genome Analyzer E MTAB 434:sequencing of Zebrafish embryo 2cells RNA from Zebrafish embryo 2cells Sequencing the Zebrafish transcriptome form a range of tissues and developmental stages using the Illumina Genome Analyzer Zebrafish embyos or tissues were collected from a Tuebingen strain incross and grown at 28 C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were resuspended RNase free 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Total RNA was made into an RNAseq Illumina library following the manufacturer's protocol including a DNase treatment between to 2 rounds of polyA pull down. The libraries have fragment size of 250 to 300 bp. Experimental Factor: DEVELPOMENTAL STAGE:embryo|Experimental Factor: ORGANISM PART:cell FL-cDNA TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina Genome Analyzer II   ERP000400 Illumina Genome Analyzer II paired end sequencing; Sequencing the Zebrafish transcriptome form a range of tissues and developmental stages using the Illumina Genome Analyzer ENA FIRST PUBLIC:2011 03 10|ENA LAST UPDATE:2018 11 16 4946_5.srf srf 3947547008.0 25970704.0 E MTAB 434:4946 5.srf 0:76 1:76 A:1069302461;C:914233601;G:902631356;T:1055986090;N:5393500 76 76     1069302461 914233601 902631356 1055986090 5393500 ERX008924 ERS017427 ERA015179 SC|Wellcome Trust Sanger Institute SC|Wellcome Trust Sanger Institute 2 0.93356 0.93346 0.03988 0.04022 0.79135 0.79198 0.48864 0.48464 76 76 B B biological fallback assumption illumina early_illumina unknown poly_a unknown bulk unknown unknown   United Kingdom 2011-03-10 Cleavage Embryo Embryo Imprecise All anatomical structures
9419 9419 ERR273825 ERX248101 ERS092357 ERP001559 PRJEB3118 Zebrafish transcript profiling Zebrafish_transcript_profiling-sc-2012-06-28T15:47:32Z-82 Transcriptome Analysis Paired end sequence data from the Illumina Genome Analyzer was prepared from normal and mutant zebrafish embryos for transcript profiling. This includes pilot studies for transcript indexing within the sequence reads.         SAMEA1888984 SC ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 05 13T11:13:14Z|ENA LAST UPDATE:2018 03 08T15:36:21Z|External Id:SAMEA1888984|INSDC center name:SC|INSDC first public:2013 05 13T11:13:14Z|INSDC last update:2018 03 08T15:36:21Z|INSDC status:public|Submitter Id:hu2117 mutant vs wild type sc 2012 02 06T13:11:11Z 1107268|common name:zebrafish|sample description:3 prime end enriched mRNA from 3 morphological mutant hu2117 embryo samples and 3 matched sibling wild type samples. A 6 base indexing sequence is bases 5 to 10 of read 1 followed by polyT.|sample name:hu2117 mutant vs wild type sc 2012 02 06T13:11:11Z 1107268|scientific name:Danio rerio                 1 SC EXP 6316 8 2387558 Illumina sequencing of library 2387558 constructed from sample accession ERS092357 for study accession ERP001559. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001559 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 05 13|ENA LAST UPDATE:2018 11 16 6316_8.bam bam 12715227300.0 84768182.0 SC RUN 6316 8 0:75 1:75 A:3986328155;C:1983554902;G:2466211000;T:4277430579;N:1702664 75 75     3986328155 1983554902 2466211000 4277430579 1702664 ERX248101 ERS092357 ERA212579 SC Wellcome Sanger Institute 2 0.06657 0.60346 0.04569 0.19203 0.9767 0.82014 0.52373 0.4048 75 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-05-13 Undetermined Embryo Embryo Imprecise All anatomical structures
9420 9420 ERR273824 ERX248100 ERS092356 ERP001559 PRJEB3118 Zebrafish transcript profiling Zebrafish_transcript_profiling-sc-2012-06-28T15:47:32Z-82 Transcriptome Analysis Paired end sequence data from the Illumina Genome Analyzer was prepared from normal and mutant zebrafish embryos for transcript profiling. This includes pilot studies for transcript indexing within the sequence reads.         SAMEA1889000 SC ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 05 13T11:13:13Z|ENA LAST UPDATE:2018 03 08T15:36:25Z|External Id:SAMEA1889000|INSDC center name:SC|INSDC first public:2013 05 13T11:13:13Z|INSDC last update:2018 03 08T15:36:25Z|INSDC status:public|Submitter Id:e48 mutant vs wild type sc 2012 02 06T13:11:09Z 1107267|common name:zebrafish|sample description:3 prime end enriched mRNA from 3 morphological mutant e48 embryo samples and 3 matched sibling wild type samples. A 6 base indexing sequence is bases 5 to 10 of read 1 followed by polyT.|sample name:e48 mutant vs wild type sc 2012 02 06T13:11:09Z 1107267|scientific name:Danio rerio                 1 SC EXP 6316 7 2387557 Illumina sequencing of library 2387557 constructed from sample accession ERS092356 for study accession ERP001559. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001559 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 05 13|ENA LAST UPDATE:2018 11 16 6316_7.bam bam 17475932100.0 116506214.0 SC RUN 6316 7 0:75 1:75 A:5548228936;C:2693024343;G:3365940794;T:5867204994;N:1533033 75 75     5548228936 2693024343 3365940794 5867204994 1533033 ERX248100 ERS092356 ERA212579 SC Wellcome Sanger Institute 2 0.05939 0.59457 0.04089 0.19671 0.98068 0.838 0.46304 0.62741 75 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-05-13 Undetermined Embryo Embryo Imprecise All anatomical structures
9421 9421 ERR273823 ERX248099 ERS092354 ERP001559 PRJEB3118 Zebrafish transcript profiling Zebrafish_transcript_profiling-sc-2012-06-28T15:47:32Z-82 Transcriptome Analysis Paired end sequence data from the Illumina Genome Analyzer was prepared from normal and mutant zebrafish embryos for transcript profiling. This includes pilot studies for transcript indexing within the sequence reads.         SAMEA1889008 SC ArrayExpress Sex:mixed|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 05 13T11:13:13Z|ENA LAST UPDATE:2018 03 08T15:36:21Z|External Id:SAMEA1889008|INSDC center name:SC|INSDC first public:2013 05 13T11:13:13Z|INSDC last update:2018 03 08T15:36:21Z|INSDC status:public|Submitter Id:hu3332 mutant vs wild type sc 2012 02 06T13:11:07Z 1107265|common name:zebrafish|sample description:3 prime end enriched mRNA from 3 morphological mutant hu3332 embryo samples and 3 matched sibling wild type samples. A 6 base indexing sequence is bases 5 to 10 of read 1 followed by polyT.|sample name:hu3332 mutant vs wild type sc 2012 02 06T13:11:07Z 1107265|scientific name:Danio rerio                 1 SC EXP 6316 5 2387555 Illumina sequencing of library 2387555 constructed from sample accession ERS092354 for study accession ERP001559. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP001559 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 05 13|ENA LAST UPDATE:2018 11 16 6316_5.bam bam 13995917850.0 93306119.0 SC RUN 6316 5 0:75 1:75 A:4367273029;C:2176748810;G:2714026832;T:4736121060;N:1748119 75 75     4367273029 2176748810 2714026832 4736121060 1748119 ERX248099 ERS092354 ERA212579 SC Wellcome Sanger Institute 2 0.06401 0.62019 0.04224 0.18728 0.97723 0.81071 0.461 0.55379 75 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-05-13 Undetermined Embryo Embryo Imprecise All anatomical structures
9422 9422 ERR273822 ERX248098 ERS092063 ERP001559 PRJEB3118 Zebrafish transcript profiling Zebrafish_transcript_profiling-sc-2012-06-28T15:47:32Z-82 Transcriptome Analysis Paired end sequence data from the Illumina Genome Analyzer was prepared from normal and mutant zebrafish embryos for transcript profiling. This includes pilot studies for transcript indexing within the sequence reads.         SAMEA1888996 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 05 13T11:13:13Z|ENA LAST UPDATE:2018 03 08T15:36:13Z|External Id:SAMEA1888996|INSDC center name:SC|INSDC first public:2013 05 13T11:13:13Z|INSDC last update:2018 03 08T15:36:13Z|INSDC status:public|Submitter Id:sa0058 mutant vs wild type sc 2012 02 06T13:05:07Z 265521|common name:zebrafish|sample description:33 prime end enriched mRNA from 3 morphological mutant sa0058 embryo samples and 3 matched sibling wild type samples. A 6 base indexing sequence is bases 5 to 10 of read 1 followed by polyT.|sample name:sa0058 mutant vs wild type sc 2012 02 06T13:05:07Z 265521|scientific name:Danio rerio                 1 SC EXP 5287 7 449230 Illumina sequencing of library 449230 constructed from sample accession ERS092063 for study accession ERP001559. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina Genome Analyzer II   ERP001559 Illumina Genome Analyzer II paired end sequencing ENA FIRST PUBLIC:2013 05 13|ENA LAST UPDATE:2018 11 16 5287_7.bam bam 2216402460.0 20522245.0 SC RUN 5287 7 0:54 1:54 A:646882787;C:346392353;G:394060191;T:827745173;N:1321956 54 54     646882787 346392353 394060191 827745173 1321956 ERX248098 ERS092063 ERA212579 SC Wellcome Sanger Institute 2 0.02565 0.72009 0.01691 0.21429 0.98725 0.78944 0.62084 0.61278 54 54 T B mate1 technical by mapping diff illumina early_illumina 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-05-13 Undetermined Embryo Embryo Imprecise All anatomical structures
9892 9892 ERR4172795 ERX4136409 ERS4580819 ERP121885 PRJEB38455 RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E-MTAB-9113 Transcriptome Analysis RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22   Protocols: Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion sibling 3 SAMEA6853229 Centre for Developmental Neurobiology King's College London ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853229|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sibling 3|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|sample name:E MTAB 9113:sibling 3|scientific name:Danio rerio                 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E MTAB 9113:sibling 3 p sibling 3 p RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 2500   ERP121885 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19 UCLGNS1141-gfp-sibs-3_S6_R1.fastq.gz UCLGNS1141-gfp-sibs-3_S6_R2.fastq.gz fastq fastq     E MTAB 9113:UCLGNS1141 gfp sibs 3 S6 R 0:81 1:81 A:1144578958;C:1113109875;G:1138809559;T:1117038434;N:213932 81 81     1144578958 1113109875 1138809559 1117038434 213932 ERX4136409 ERS4580819 ERA2625401 Centre for Developmental Neurobiology King Centre for Developmental Neurobiology King 2 0.96684 0.96492 0.03244 0.0317 0.71236 0.71514 0.45871 0.46189 81 81 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United Kingdom 2020-05-22 Multi-stage Multi-stage Embryo Imprecise All anatomical structures
9893 9893 ERR4172794 ERX4136408 ERS4580818 ERP121885 PRJEB38455 RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E-MTAB-9113 Transcriptome Analysis RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22   Protocols: Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion sibling 2 SAMEA6853228 Centre for Developmental Neurobiology King's College London ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853228|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sibling 2|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|sample name:E MTAB 9113:sibling 2|scientific name:Danio rerio                 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E MTAB 9113:sibling 2 p sibling 2 p RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 2500   ERP121885 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19 UCLGNS1141-gfp-sibs-2_S4_R1.fastq.gz UCLGNS1141-gfp-sibs-2_S4_R2.fastq.gz fastq fastq     E MTAB 9113:UCLGNS1141 gfp sibs 2 S4 R 0:81 1:81 A:1056280368;C:1036355469;G:1045429486;T:1035773622;N:189389 81 81     1056280368 1036355469 1045429486 1035773622 189389 ERX4136408 ERS4580818 ERA2625401 Centre for Developmental Neurobiology King Centre for Developmental Neurobiology King 2 0.95511 0.95696 0.02941 0.02903 0.71492 0.71628 0.45765 0.46537 81 81 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United Kingdom 2020-05-22 Multi-stage Multi-stage Embryo Imprecise All anatomical structures
9894 9894 ERR4172793 ERX4136407 ERS4580817 ERP121885 PRJEB38455 RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E-MTAB-9113 Transcriptome Analysis RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22   Protocols: Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion sibling 1 SAMEA6853227 Centre for Developmental Neurobiology King's College London ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853227|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sibling 1|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|sample name:E MTAB 9113:sibling 1|scientific name:Danio rerio                 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E MTAB 9113:sibling 1 p sibling 1 p RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 2500   ERP121885 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19 UCLGNS1141-gfp-sibs-1_S2_R1.fastq.gz UCLGNS1141-gfp-sibs-1_S2_R2.fastq.gz fastq fastq     E MTAB 9113:UCLGNS1141 gfp sibs 1 S2 R 0:81 1:81 A:1121176859;C:1093927654;G:1108608188;T:1101082277;N:209264 81 81     1121176859 1093927654 1108608188 1101082277 209264 ERX4136407 ERS4580817 ERA2625401 Centre for Developmental Neurobiology King Centre for Developmental Neurobiology King 2 0.95795 0.96004 0.02885 0.02854 0.71648 0.71756 0.44348 0.43956 81 81 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United Kingdom 2020-05-22 Multi-stage Multi-stage Embryo Imprecise All anatomical structures
9895 9895 ERR4172792 ERX4136406 ERS4580816 ERP121885 PRJEB38455 RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E-MTAB-9113 Transcriptome Analysis RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22   Protocols: Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion sfpq 3 SAMEA6853226 Centre for Developmental Neurobiology King's College London ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853226|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sfpq 3|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:sfpq / |sample name:E MTAB 9113:sfpq 3|scientific name:Danio rerio                 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E MTAB 9113:sfpq 3 p sfpq 3 p RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion Experimental Factor: genotype:sfpq / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 2500   ERP121885 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19 UCLGNS1141-gfp-neg_3_S5_R1.fastq.gz UCLGNS1141-gfp-neg_3_S5_R2.fastq.gz fastq fastq     E MTAB 9113:UCLGNS1141 gfp neg 3 S5 R 0:81 1:81 A:845849249;C:772302798;G:911660213;T:787409272;N:154042 81 81     845849249 772302798 911660213 787409272 154042 ERX4136406 ERS4580816 ERA2625401 Centre for Developmental Neurobiology King Centre for Developmental Neurobiology King 2 0.96298 0.95486 0.03415 0.03476 0.7167 0.73503 0.4665 0.45947 81 81 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United Kingdom 2020-05-22 Multi-stage Multi-stage Embryo Imprecise All anatomical structures
9896 9896 ERR4172791 ERX4136405 ERS4580815 ERP121885 PRJEB38455 RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E-MTAB-9113 Transcriptome Analysis RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22   Protocols: Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion sfpq 2 SAMEA6853225 Centre for Developmental Neurobiology King's College London ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853225|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sfpq 2|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:sfpq / |sample name:E MTAB 9113:sfpq 2|scientific name:Danio rerio                 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E MTAB 9113:sfpq 2 p sfpq 2 p RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion Experimental Factor: genotype:sfpq / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 2500   ERP121885 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19 UCLGNS1141-gfp-neg-2_S3_R1.fastq.gz UCLGNS1141-gfp-neg-2_S3_R2.fastq.gz fastq fastq     E MTAB 9113:UCLGNS1141 gfp neg 2 S3 R 0:81 1:81 A:961156886;C:917011292;G:942713581;T:936109877;N:157724 81 81     961156886 917011292 942713581 936109877 157724 ERX4136405 ERS4580815 ERA2625401 Centre for Developmental Neurobiology King Centre for Developmental Neurobiology King 2 0.96276 0.96147 0.03436 0.03382 0.71892 0.72021 0.4581 0.46402 81 81 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United Kingdom 2020-05-22 Multi-stage Multi-stage Embryo Imprecise All anatomical structures
9897 9897 ERR4172790 ERX4136404 ERS4580814 ERP121885 PRJEB38455 RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E-MTAB-9113 Transcriptome Analysis RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22   Protocols: Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion sfpq 1 SAMEA6853224 Centre for Developmental Neurobiology King's College London ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853224|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sfpq 1|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:sfpq / |sample name:E MTAB 9113:sfpq 1|scientific name:Danio rerio                 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf E MTAB 9113:sfpq 1 p sfpq 1 p RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf Embryos were collected from in crosses of sfpq+/ adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion Experimental Factor: genotype:sfpq / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 2500   ERP121885 Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq / zebrafish embryos and siblings at 24 hpf ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19 UCLGNS1141-gfp-neg-1_S1_R1.fastq.gz UCLGNS1141-gfp-neg-1_S1_R2.fastq.gz fastq fastq     E MTAB 9113:UCLGNS1141 gfp neg 1 S1 R 0:81 1:81 A:1046317524;C:1014946275;G:1036910299;T:1023619857;N:185237 81 81     1046317524 1014946275 1036910299 1023619857 185237 ERX4136404 ERS4580814 ERA2625401 Centre for Developmental Neurobiology King Centre for Developmental Neurobiology King 2 0.96015 0.96173 0.03114 0.03098 0.7175 0.71865 0.46666 0.46399 81 81 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United Kingdom 2020-05-22 Multi-stage Multi-stage Embryo Imprecise All anatomical structures
10285 10285 ERR7132868 ERX6700306 ERS8071630 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Oxy 6 SAMEA10418786 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418786|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Oxy 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:6|sample name:E MTAB 11086:Oxy 6|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Oxy 6 p Oxy 6 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:oxycod1|Experimental Factor: dose:1.14 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.B11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.B11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2330698400.0 23306984.0 E MTAB 11086:SLX 19351.B11.HMLG7DRXX.s 2.r 0:50 1:50 A:619569172;C:544582535;G:551543197;T:614938437;N:65059 50 50     619569172 544582535 551543197 614938437 65059 ERX6700306 ERS8071630 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.9448 0.95044 0.1029 0.09965 0.67152 0.66864 0.46844 0.47553 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10286 10286 ERR7132867 ERX6700305 ERS8071629 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Oxy 5 SAMEA10418785 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418785|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Oxy 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:5|sample name:E MTAB 11086:Oxy 5|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Oxy 5 p Oxy 5 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:oxycod1|Experimental Factor: dose:1.14 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.H9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.H9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2005314000.0 20053140.0 E MTAB 11086:SLX 19351.H9.HMLG7DRXX.s 2.r 0:50 1:50 A:533671597;C:466449227;G:473126638;T:532010412;N:56126 50 50     533671597 466449227 473126638 532010412 56126 ERX6700305 ERS8071629 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94406 0.94793 0.11192 0.10798 0.66184 0.66074 0.4603 0.4683 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10287 10287 ERR7132866 ERX6700304 ERS8071628 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Oxy 4 SAMEA10418784 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418784|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Oxy 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:4|sample name:E MTAB 11086:Oxy 4|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Oxy 4 p Oxy 4 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:oxycod1|Experimental Factor: dose:1.14 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.A9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.A9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2036392600.0 20363926.0 E MTAB 11086:SLX 19351.A9.HMLG7DRXX.s 2.r 0:50 1:50 A:547586305;C:468797712;G:476477515;T:543474510;N:56558 50 50     547586305 468797712 476477515 543474510 56558 ERX6700304 ERS8071628 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94235 0.94873 0.11388 0.11054 0.67655 0.67294 0.47135 0.47234 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10288 10288 ERR7132865 ERX6700303 ERS8071627 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Oxy 3 SAMEA10418783 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418783|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Oxy 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:3|sample name:E MTAB 11086:Oxy 3|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Oxy 3 p Oxy 3 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:oxycod1|Experimental Factor: dose:1.14 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.B9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.B9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2409819000.0 24098190.0 E MTAB 11086:SLX 19351.B9.HMLG7DRXX.s 2.r 0:50 1:50 A:641053989;C:561685242;G:569693271;T:637320302;N:66196 50 50     641053989 561685242 569693271 637320302 66196 ERX6700303 ERS8071627 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94407 0.94902 0.10789 0.10496 0.66478 0.66387 0.47154 0.47373 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10289 10289 ERR7132864 ERX6700302 ERS8071626 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Oxy 2 SAMEA10418782 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418782|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Oxy 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:2|sample name:E MTAB 11086:Oxy 2|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Oxy 2 p Oxy 2 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:oxycod1|Experimental Factor: dose:1.14 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.A11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.A11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2068575200.0 20685752.0 E MTAB 11086:SLX 19351.A11.HMLG7DRXX.s 2.r 0:50 1:50 A:547986796;C:484533693;G:490663629;T:545334125;N:56957 50 50     547986796 484533693 490663629 545334125 56957 ERX6700302 ERS8071626 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94539 0.95188 0.10373 0.10116 0.66718 0.66584 0.46991 0.47611 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10290 10290 ERR7132863 ERX6700301 ERS8071625 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Oxy 1 SAMEA10418781 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418781|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Oxy 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:1|sample name:E MTAB 11086:Oxy 1|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Oxy 1 p Oxy 1 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:oxycod1|Experimental Factor: dose:1.14 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.G9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.G9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2101607900.0 21016079.0 E MTAB 11086:SLX 19351.G9.HMLG7DRXX.s 2.r 0:50 1:50 A:557420271;C:491161431;G:497494262;T:555471610;N:60326 50 50     557420271 491161431 497494262 555471610 60326 ERX6700301 ERS8071625 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94378 0.94916 0.10779 0.10431 0.66507 0.66377 0.45477 0.4679 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10291 10291 ERR7132862 ERX6700300 ERS8071624 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Nic 6 SAMEA10418780 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418780|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Nic 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:6|sample name:E MTAB 11086:Nic 6|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Nic 6 p Nic 6 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:nicotine|Experimental Factor: dose:5 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.H11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.H11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2236235700.0 22362357.0 E MTAB 11086:SLX 19351.H11.HMLG7DRXX.s 2.r 0:50 1:50 A:597573047;C:518264376;G:525314754;T:595021334;N:62189 50 50     597573047 518264376 525314754 595021334 62189 ERX6700300 ERS8071624 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94255 0.94893 0.11268 0.10955 0.66819 0.66687 0.46882 0.47485 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10292 10292 ERR7132861 ERX6700299 ERS8071623 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Nic 5 SAMEA10418779 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418779|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Nic 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:5|sample name:E MTAB 11086:Nic 5|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Nic 5 p Nic 5 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:nicotine|Experimental Factor: dose:5 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.D10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.D10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 1904348300.0 19043483.0 E MTAB 11086:SLX 19351.D10.HMLG7DRXX.s 2.r 0:50 1:50 A:506678821;C:443756285;G:450118827;T:503742221;N:52146 50 50     506678821 443756285 450118827 503742221 52146 ERX6700299 ERS8071623 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94468 0.95019 0.10313 0.10023 0.66762 0.66513 0.47749 0.47611 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10293 10293 ERR7132860 ERX6700298 ERS8071622 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Nic 4 SAMEA10418778 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418778|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Nic 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:4|sample name:E MTAB 11086:Nic 4|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Nic 4 p Nic 4 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:nicotine|Experimental Factor: dose:5 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.C10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.C10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2134565600.0 21345656.0 E MTAB 11086:SLX 19351.C10.HMLG7DRXX.s 2.r 0:50 1:50 A:568799307;C:496480840;G:503115671;T:566109163;N:60619 50 50     568799307 496480840 503115671 566109163 60619 ERX6700298 ERS8071622 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94279 0.94878 0.11466 0.1122 0.66291 0.66176 0.46991 0.47168 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10294 10294 ERR7132859 ERX6700297 ERS8071621 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Nic 3 SAMEA10418777 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418777|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Nic 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:3|sample name:E MTAB 11086:Nic 3|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Nic 3 p Nic 3 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:nicotine|Experimental Factor: dose:5 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.B10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.B10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2409355400.0 24093554.0 E MTAB 11086:SLX 19351.B10.HMLG7DRXX.s 2.r 0:50 1:50 A:643046449;C:559571909;G:567748411;T:638920943;N:67688 50 50     643046449 559571909 567748411 638920943 67688 ERX6700297 ERS8071621 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94305 0.94796 0.11097 0.10766 0.66149 0.65888 0.46643 0.47512 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10295 10295 ERR7132858 ERX6700296 ERS8071620 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Nic 2 SAMEA10418776 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418776|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Nic 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:2|sample name:E MTAB 11086:Nic 2|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Nic 2 p Nic 2 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:nicotine|Experimental Factor: dose:5 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.F10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.F10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2046910800.0 20469108.0 E MTAB 11086:SLX 19351.F10.HMLG7DRXX.s 2.r 0:50 1:50 A:547096034;C:475610002;G:481041169;T:543104402;N:59193 50 50     547096034 475610002 481041169 543104402 59193 ERX6700296 ERS8071620 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94391 0.94965 0.10824 0.10557 0.66241 0.65963 0.47747 0.47375 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10296 10296 ERR7132857 ERX6700295 ERS8071619 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Nic 1 SAMEA10418775 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418775|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Nic 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:1|sample name:E MTAB 11086:Nic 1|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Nic 1 p Nic 1 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:nicotine|Experimental Factor: dose:5 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.G10.HMLG7DRXX.s_2.r_2.fq.gz SLX-19351.G10.HMLG7DRXX.s_2.r_1.fq.gz fastq fastq 2001312600.0 20013126.0 E MTAB 11086:SLX 19351.G10.HMLG7DRXX.s 2.r 0:50 1:50 A:535065614;C:463328218;G:468900497;T:533963156;N:55115 50 50     535065614 463328218 468900497 533963156 55115 ERX6700295 ERS8071619 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94179 0.9477 0.11455 0.11139 0.66697 0.66569 0.45749 0.47217 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10297 10297 ERR7132856 ERX6700294 ERS8071618 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Cnt 6 SAMEA10418774 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418774|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Cnt 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:6|sample name:E MTAB 11086:Cnt 6|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Cnt 6 p Cnt 6 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:n1 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.C11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.C11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2311609400.0 23116094.0 E MTAB 11086:SLX 19351.C11.HMLG7DRXX.s 2.r 0:50 1:50 A:616569709;C:538286683;G:545161394;T:611525546;N:66068 50 50     616569709 538286683 545161394 611525546 66068 ERX6700294 ERS8071618 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94486 0.95028 0.1097 0.10661 0.66703 0.6644 0.47311 0.47453 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10298 10298 ERR7132855 ERX6700293 ERS8071617 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Cnt 5 SAMEA10418773 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418773|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Cnt 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:5|sample name:E MTAB 11086:Cnt 5|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Cnt 5 p Cnt 5 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:n1 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.G11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.G11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 1590322800.0 15903228.0 E MTAB 11086:SLX 19351.G11.HMLG7DRXX.s 2.r 0:50 1:50 A:407583907;C:385496371;G:392945463;T:404250386;N:46673 50 50     407583907 385496371 392945463 404250386 46673 ERX6700293 ERS8071617 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94942 0.95571 0.10693 0.10576 0.69329 0.69063 0.46419 0.4826 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10299 10299 ERR7132854 ERX6700292 ERS8071616 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Cnt 4 SAMEA10418772 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418772|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Cnt 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:4|sample name:E MTAB 11086:Cnt 4|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Cnt 4 p Cnt 4 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:n1 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.C9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.C9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2079441500.0 20794415.0 E MTAB 11086:SLX 19351.C9.HMLG7DRXX.s 2.r 0:50 1:50 A:555430147;C:483109623;G:489773903;T:551069513;N:58314 50 50     555430147 483109623 489773903 551069513 58314 ERX6700292 ERS8071616 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94258 0.9491 0.10928 0.10545 0.66561 0.66279 0.46967 0.47237 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10300 10300 ERR7132853 ERX6700291 ERS8071615 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Cnt 3 SAMEA10418771 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418771|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Cnt 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:3|sample name:E MTAB 11086:Cnt 3|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Cnt 3 p Cnt 3 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:n1 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.H10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.H10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2606680900.0 26066809.0 E MTAB 11086:SLX 19351.H10.HMLG7DRXX.s 2.r 0:50 1:50 A:698010494;C:604285893;G:612505273;T:691805693;N:73547 50 50     698010494 604285893 612505273 691805693 73547 ERX6700291 ERS8071615 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94271 0.94917 0.11288 0.10987 0.67115 0.66827 0.4729 0.4736 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10301 10301 ERR7132852 ERX6700290 ERS8071614 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Cnt 2 SAMEA10418770 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418770|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Cnt 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:2|sample name:E MTAB 11086:Cnt 2|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Cnt 2 p Cnt 2 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:n1 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.E11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.E11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2248468400.0 22484684.0 E MTAB 11086:SLX 19351.E11.HMLG7DRXX.s 2.r 0:50 1:50 A:601914808;C:521501189;G:527610060;T:597380501;N:61842 50 50     601914808 521501189 527610060 597380501 61842 ERX6700290 ERS8071614 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94347 0.94939 0.11234 0.10984 0.66689 0.66342 0.46711 0.46831 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10302 10302 ERR7132851 ERX6700289 ERS8071613 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Cnt 1 SAMEA10418769 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418769|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Cnt 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:1|sample name:E MTAB 11086:Cnt 1|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Cnt 1 p Cnt 1 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:n1 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.D11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.D11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 1958517300.0 19585173.0 E MTAB 11086:SLX 19351.D11.HMLG7DRXX.s 2.r 0:50 1:50 A:523101436;C:454540970;G:459925156;T:520895141;N:54597 50 50     523101436 454540970 459925156 520895141 54597 ERX6700289 ERS8071613 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94413 0.95047 0.10482 0.10253 0.67044 0.66782 0.47233 0.4771 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10303 10303 ERR7132850 ERX6700288 ERS8071612 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Amp 6 SAMEA10418768 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418768|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Amp 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:6|sample name:E MTAB 11086:Amp 6|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Amp 6 p Amp 6 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:amphetamine|Experimental Factor: dose:25 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.E9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.E9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 1712505000.0 17125050.0 E MTAB 11086:SLX 19351.E9.HMLG7DRXX.s 2.r 0:50 1:50 A:455641002;C:398314392;G:404466444;T:454036255;N:46907 50 50     455641002 398314392 404466444 454036255 46907 ERX6700288 ERS8071612 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94358 0.94966 0.10681 0.1037 0.66665 0.66373 0.46688 0.47225 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10304 10304 ERR7132849 ERX6700287 ERS8071611 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Amp 5 SAMEA10418767 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418767|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Amp 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:5|sample name:E MTAB 11086:Amp 5|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Amp 5 p Amp 5 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:amphetamine|Experimental Factor: dose:25 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.A10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.A10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2007519200.0 20075192.0 E MTAB 11086:SLX 19351.A10.HMLG7DRXX.s 2.r 0:50 1:50 A:534568558;C:467539630;G:473805079;T:531550688;N:55245 50 50     534568558 467539630 473805079 531550688 55245 ERX6700287 ERS8071611 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94408 0.9499 0.10888 0.10604 0.66797 0.66458 0.46039 0.46669 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10305 10305 ERR7132848 ERX6700286 ERS8071610 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Amp 4 SAMEA10418766 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418766|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Amp 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:4|sample name:E MTAB 11086:Amp 4|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Amp 4 p Amp 4 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:amphetamine|Experimental Factor: dose:25 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.F11.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.F11.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 1845345300.0 18453453.0 E MTAB 11086:SLX 19351.F11.HMLG7DRXX.s 2.r 0:50 1:50 A:490920758;C:430637266;G:435667744;T:488067453;N:52079 50 50     490920758 430637266 435667744 488067453 52079 ERX6700286 ERS8071610 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94484 0.9504 0.10472 0.10237 0.66618 0.66336 0.46903 0.47774 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10306 10306 ERR7132847 ERX6700285 ERS8071609 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Amp 3 SAMEA10418765 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418765|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Amp 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:3|sample name:E MTAB 11086:Amp 3|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Amp 3 p Amp 3 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:amphetamine|Experimental Factor: dose:25 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.F9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.F9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2195415300.0 21954153.0 E MTAB 11086:SLX 19351.F9.HMLG7DRXX.s 2.r 0:50 1:50 A:583956682;C:511927452;G:518373455;T:581095379;N:62332 50 50     583956682 511927452 518373455 581095379 62332 ERX6700285 ERS8071609 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94571 0.95178 0.10567 0.10288 0.6688 0.66661 0.4677 0.47288 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10307 10307 ERR7132846 ERX6700284 ERS8071608 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Amp 2 SAMEA10418764 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418764|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Amp 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:2|sample name:E MTAB 11086:Amp 2|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Amp 2 p Amp 2 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:amphetamine|Experimental Factor: dose:25 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.D9.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.D9.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2093635000.0 20936350.0 E MTAB 11086:SLX 19351.D9.HMLG7DRXX.s 2.r 0:50 1:50 A:556451381;C:488314672;G:495691630;T:553118514;N:58803 50 50     556451381 488314672 495691630 553118514 58803 ERX6700284 ERS8071608 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94407 0.95012 0.11198 0.10872 0.66651 0.66352 0.46901 0.47198 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
10308 10308 ERR7132845 ERX6700283 ERS8071607 ERP132573 PRJEB48231 RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs E-MTAB-11086 Transcriptome Analysis RNA seq of wild type Tüpfel long fin TLF zebrafish embryos developmentally exposed to three addictive drugs 5 µM nicotine 1.14 µM oxycodone and 5 µM amphetamine. Each of the 24 samples 6 samples per drug plus 6 control samples represents RNA from a pool of seven 5 dpf zebrafish embryos exposed to the drug between 1 dpf and 5 dpf. ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24   Protocols: Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Amp 1 SAMEA10418763 Cambridge Institute of Therapeutic Immunology & Infectious Disease ENA first public:2022 01 24|ENA last update:2022 01 24|External Id:SAMEA10418763|INSDC center alias:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC center name:Cambridge Institute of Therapeutic Immunology & Infectious Disease|INSDC first public:2022 01 24T16:27:32Z|INSDC last update:2022 01 24T16:27:32Z|INSDC status:public|Submitter Id:E MTAB 11086:Amp 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval day 5|genotype:wild type genotype|individual:pool of 7 embryos|organism part:whole organism|replicate:1|sample name:E MTAB 11086:Amp 1|sex:not available|strain:Tüpfel long fin TLF                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to 3 addictive drugs E MTAB 11086:Amp 1 p Amp 1 p RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs Zebrafish embryos were exposed to a drug from xxx dpf ttwo xxx dpf and at the end of the exposure period larvae were collected as 6 pools of 7 embryos per condition for RNA extraction. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was removed without xxx the beads. Whilst still on the magnet beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalogue number M0303L. Illumina TruSeq Stranded mRNA Sample Prep Kit. Experimental Factor: compound:amphetamine|Experimental Factor: dose:25 RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP132573 Illumina NovaSeq 6000 paired end sequencing; RNA seq of wild type zebrafish embryos developmentally exposed to three addictive drugs ENA FIRST PUBLIC:2022 01 24|ENA LAST UPDATE:2022 01 24 SLX-19351.E10.HMLG7DRXX.s_2.r_1.fq.gz SLX-19351.E10.HMLG7DRXX.s_2.r_2.fq.gz fastq fastq 2254130000.0 22541300.0 E MTAB 11086:SLX 19351.E10.HMLG7DRXX.s 2.r 0:50 1:50 A:599784010;C:525655199;G:531849347;T:596777643;N:63801 50 50     599784010 525655199 531849347 596777643 63801 ERX6700283 ERS8071607 ERA6757821 Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive Cambridge Institute of Therapeutic Immunology & Infectious Disease|European Nucleotide Archive 2 0.94449 0.95026 0.10608 0.10323 0.66758 0.66257 0.46869 0.47045 50 50 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   United Kingdom 2022-01-24 Larval Larval Embryo Imprecise All anatomical structures
11245 11245 ERR10851251 ERX10296231 ERS14601258 ERP144652 PRJEB59599 Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E-MTAB-12577 Transcriptome Analysis Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17   Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified WT3 cd41pflt1p48hpf SAMEA112483908 Department of Hematology cancer institute ErasmusMC ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483908|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:WT3 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 1|organism part:liver|sample name:E MTAB 12577:WT3 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP WT                 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E MTAB 12577:WT3 cd41pflt1p48hpf p WT3 cd41pflt1p48hpf p Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP144652 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 WT3_cd41pflt1p48hpf_R1.fastq.gz WT3_cd41pflt1p48hpf_R2.fastq.gz fastq fastq 2865896816.0 14187608.0 E MTAB 12577:WT3 cd41pflt1p48hpf R 0:101 1:101 A:766433553;C:631932872;G:660672891;T:806849737;N:7763 101 101     766433553 631932872 660672891 806849737 7763 ERX10296231 ERS14601258 ERA20429817 Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive 2 0.90501 0.85042 0.09405 0.09335 0.87286 0.87943 0.48423 0.47904 101 101 B B biological fallback assumption illumina novaseq_era full_length cdna_unspecified smarter bulk unknown unknown   Netherlands 2023-02-17 Hatching Embryo Embryo Imprecise All anatomical structures
11246 11246 ERR10851250 ERX10296230 ERS14601257 ERP144652 PRJEB59599 Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E-MTAB-12577 Transcriptome Analysis Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17   Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified WT2 cd41pflt1p48hpf SAMEA112483907 Department of Hematology cancer institute ErasmusMC ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483907|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:WT2 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 5|organism part:liver|sample name:E MTAB 12577:WT2 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP WT                 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E MTAB 12577:WT2 cd41pflt1p48hpf p WT2 cd41pflt1p48hpf p Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP144652 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 WT2_cd41pflt1p48hpf_R1.fastq.gz WT2_cd41pflt1p48hpf_R2.fastq.gz fastq fastq 2929743360.0 14503680.0 E MTAB 12577:WT2 cd41pflt1p48hpf R 0:101 1:101 A:803775344;C:639485652;G:661899077;T:824575679;N:7608 101 101     803775344 639485652 661899077 824575679 7608 ERX10296230 ERS14601257 ERA20429817 Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive 2 0.94558 0.90768 0.09379 0.09399 0.79058 0.79833 0.48216 0.47743 101 101 B B biological fallback assumption illumina novaseq_era full_length cdna_unspecified smarter bulk unknown unknown   Netherlands 2023-02-17 Hatching Embryo Embryo Imprecise All anatomical structures
11247 11247 ERR10851249 ERX10296229 ERS14601256 ERP144652 PRJEB59599 Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E-MTAB-12577 Transcriptome Analysis Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17   Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified WT1 cd41pflt1p48hpf SAMEA112483906 Department of Hematology cancer institute ErasmusMC ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483906|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:WT1 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 4|organism part:liver|sample name:E MTAB 12577:WT1 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP WT                 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E MTAB 12577:WT1 cd41pflt1p48hpf p WT1 cd41pflt1p48hpf p Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP144652 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 WT1_cd41pflt1p48hpf_R1.fastq.gz WT1_cd41pflt1p48hpf_R2.fastq.gz fastq fastq 3248647426.0 16082413.0 E MTAB 12577:WT1 cd41pflt1p48hpf R 0:101 1:101 A:883030193;C:725566673;G:750551574;T:889489774;N:9212 101 101     883030193 725566673 750551574 889489774 9212 ERX10296229 ERS14601256 ERA20429817 Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive 2 0.91568 0.8915 0.09819 0.09602 0.86634 0.8706 0.48887 0.48731 101 101 B B biological fallback assumption illumina novaseq_era full_length cdna_unspecified smarter bulk unknown unknown   Netherlands 2023-02-17 Hatching Embryo Embryo Imprecise All anatomical structures
11248 11248 ERR10851248 ERX10296228 ERS14601255 ERP144652 PRJEB59599 Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E-MTAB-12577 Transcriptome Analysis Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17   Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Het3 cd41pflt1p48hpf SAMEA112483905 Department of Hematology cancer institute ErasmusMC ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483905|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:Het3 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:Gata2b +/ |immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 3|organism part:liver|sample name:E MTAB 12577:Het3 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP Gata2b KO                 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E MTAB 12577:Het3 cd41pflt1p48hpf p Het3 cd41pflt1p48hpf p Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Experimental Factor: genotype:Gata2b +/ RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP144652 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 Het3_cd41pflt1p48hpf_R1.fastq.gz Het3_cd41pflt1p48hpf_R2.fastq.gz fastq fastq 2826011512.0 13990156.0 E MTAB 12577:Het3 cd41pflt1p48hpf R 0:101 1:101 A:777245323;C:622387331;G:640520737;T:785850577;N:7544 101 101     777245323 622387331 640520737 785850577 7544 ERX10296228 ERS14601255 ERA20429817 Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive 2 0.92716 0.90121 0.10896 0.10895 0.76739 0.77628 0.47007 0.46569 101 101 B B biological fallback assumption illumina novaseq_era full_length cdna_unspecified smarter bulk unknown unknown   Netherlands 2023-02-17 Hatching Embryo Embryo Imprecise All anatomical structures
11249 11249 ERR10851247 ERX10296227 ERS14601254 ERP144652 PRJEB59599 Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E-MTAB-12577 Transcriptome Analysis Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17   Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Het2 cd41pflt1p48hpf SAMEA112483904 Department of Hematology cancer institute ErasmusMC ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483904|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:Het2 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:Gata2b +/ |immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 2|organism part:liver|sample name:E MTAB 12577:Het2 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP Gata2b KO                 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E MTAB 12577:Het2 cd41pflt1p48hpf p Het2 cd41pflt1p48hpf p Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Experimental Factor: genotype:Gata2b +/ RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP144652 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 Het2_cd41pflt1p48hpf_R1.fastq.gz Het2_cd41pflt1p48hpf_R2.fastq.gz fastq fastq 2999149954.0 14847277.0 E MTAB 12577:Het2 cd41pflt1p48hpf R 0:101 1:101 A:822247269;C:656610849;G:681974696;T:838308917;N:8223 101 101     822247269 656610849 681974696 838308917 8223 ERX10296227 ERS14601254 ERA20429817 Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive 2 0.94678 0.91473 0.10277 0.10053 0.76686 0.77684 0.46042 0.47202 101 101 B B biological fallback assumption illumina novaseq_era full_length cdna_unspecified smarter bulk unknown unknown   Netherlands 2023-02-17 Hatching Embryo Embryo Imprecise All anatomical structures
11250 11250 ERR10851246 ERX10296226 ERS14601253 ERP144652 PRJEB59599 Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E-MTAB-12577 Transcriptome Analysis Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17   Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Het1 cd41pflt1p48hpf SAMEA112483903 Department of Hematology cancer institute ErasmusMC ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483903|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:Het1 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:Gata2b +/ |immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 1|organism part:liver|sample name:E MTAB 12577:Het1 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP Gata2b KO                 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 E MTAB 12577:Het1 cd41pflt1p48hpf p Het1 cd41pflt1p48hpf p Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified Experimental Factor: genotype:Gata2b +/ RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP144652 Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 Het1_cd41pflt1p48hpf_R1.fastq.gz Het1_cd41pflt1p48hpf_R2.fastq.gz fastq fastq 36682350994.0 181595797.0 E MTAB 12577:Het1 cd41pflt1p48hpf R 0:101 1:101 A:10130106739;C:7969045717;G:8373740062;T:10209360741;N:97735 101 101     10130106739 7969045717 8373740062 10209360741 97735 ERX10296226 ERS14601253 ERA20429817 Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive 2 0.94302 0.91104 0.11873 0.11597 0.7554 0.76579 0.48813 0.47764 101 101 B B biological fallback assumption illumina novaseq_era full_length cdna_unspecified smarter bulk unknown unknown   Netherlands 2023-02-17 Hatching Embryo Embryo Imprecise All anatomical structures
11723 11723 ERR11422840 ERX10830011 ERS15422295 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 het 1 SAMEA113427169 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427169|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 het 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/ |individual:pool of 3 embryos 1|organism part:embryo|replicate:1|sample name:E MTAB 12934:srpk3 hom ttn1 het 1|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 het 1 p srpk3 hom ttn1 het 1 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.C4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.C4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 5201588100.0 17338627.0 E MTAB 12934:SLX 21419.C4.HV2TTDRXY.s 2.r 0:150 1:150 A:1395812979;C:1209220590;G:1233107747;T:1363200419;N:246365 150 150     1395812979 1209220590 1233107747 1363200419 246365 ERX10830011 ERS15422295 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11724 11724 ERR11422856 ERX10830027 ERS15422311 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 het 8 SAMEA113427185 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427185|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 het 8|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/ |individual:pool of 3 embryos 8|organism part:embryo|replicate:8|sample name:E MTAB 12934:srpk3 wt ttn1 het 8|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 het 8 p srpk3 wt ttn1 het 8 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.C5.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.C5.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6243031800.0 20810106.0 E MTAB 12934:SLX 21419.C5.HV2TTDRXY.s 2.r 0:150 1:150 A:1678428066;C:1448795147;G:1483028868;T:1632478253;N:301466 150 150     1678428066 1448795147 1483028868 1632478253 301466 ERX10830027 ERS15422311 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11725 11725 ERR11422863 ERX10830034 ERS15422318 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 wt 7 SAMEA113427192 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427192|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 wt 7|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/+|individual:pool of 3 embryos 7|organism part:embryo|replicate:7|sample name:E MTAB 12934:srpk3 wt ttn1 wt 7|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 wt 7 p srpk3 wt ttn1 wt 7 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.G3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.G3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 7924538100.0 26415127.0 E MTAB 12934:SLX 21419.G3.HV2TTDRXY.s 2.r 0:150 1:150 A:2128544326;C:1844570027;G:1875605207;T:2075443615;N:374925 150 150     2128544326 1844570027 1875605207 2075443615 374925 ERX10830034 ERS15422318 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11726 11726 ERR11422862 ERX10830033 ERS15422317 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 wt 6 SAMEA113427191 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427191|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 wt 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/+|individual:pool of 3 embryos 6|organism part:embryo|replicate:6|sample name:E MTAB 12934:srpk3 wt ttn1 wt 6|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 wt 6 p srpk3 wt ttn1 wt 6 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.D5.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.D5.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 8652848700.0 28842829.0 E MTAB 12934:SLX 21419.D5.HV2TTDRXY.s 2.r 0:150 1:150 A:2323784475;C:2011287942;G:2055678520;T:2261686116;N:411647 150 150     2323784475 2011287942 2055678520 2261686116 411647 ERX10830033 ERS15422317 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11727 11727 ERR11422852 ERX10830023 ERS15422307 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 het 1 SAMEA113427181 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427181|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 het 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/ |individual:pool of 3 embryos 1|organism part:embryo|replicate:1|sample name:E MTAB 12934:srpk3 wt ttn1 het 1|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 het 1 p srpk3 wt ttn1 het 1 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.E3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.E3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 5595162300.0 18650541.0 E MTAB 12934:SLX 21419.E3.HV2TTDRXY.s 2.r 0:150 1:150 A:1500582422;C:1301393746;G:1326420086;T:1466508237;N:257809 150 150     1500582422 1301393746 1326420086 1466508237 257809 ERX10830023 ERS15422307 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11728 11728 ERR11422841 ERX10830012 ERS15422296 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 het 10 SAMEA113427170 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427170|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 het 10|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/ |individual:pool of 3 embryos 10|organism part:embryo|replicate:10|sample name:E MTAB 12934:srpk3 hom ttn1 het 10|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 het 10 p srpk3 hom ttn1 het 10 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.F2.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.F2.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6163159800.0 20543866.0 E MTAB 12934:SLX 21419.F2.HV2TTDRXY.s 2.r 0:150 1:150 A:1651051246;C:1435397149;G:1465377920;T:1611039390;N:294095 150 150     1651051246 1435397149 1465377920 1611039390 294095 ERX10830012 ERS15422296 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11729 11729 ERR11422858 ERX10830029 ERS15422313 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 wt 2 SAMEA113427187 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427187|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 wt 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/+|individual:pool of 3 embryos 2|organism part:embryo|replicate:2|sample name:E MTAB 12934:srpk3 wt ttn1 wt 2|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 wt 2 p srpk3 wt ttn1 wt 2 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.E4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.E4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 4948755000.0 16495850.0 E MTAB 12934:SLX 21419.E4.HV2TTDRXY.s 2.r 0:150 1:150 A:1328315519;C:1150664187;G:1172962823;T:1296576134;N:236337 150 150     1328315519 1150664187 1172962823 1296576134 236337 ERX10830029 ERS15422313 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11730 11730 ERR11422853 ERX10830024 ERS15422308 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 het 2 SAMEA113427182 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427182|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 het 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/ |individual:pool of 3 embryos 2|organism part:embryo|replicate:2|sample name:E MTAB 12934:srpk3 wt ttn1 het 2|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 het 2 p srpk3 wt ttn1 het 2 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.A5.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.A5.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 5172515100.0 17241717.0 E MTAB 12934:SLX 21419.A5.HV2TTDRXY.s 2.r 0:150 1:150 A:1390660856;C:1200693628;G:1226597252;T:1354312680;N:250684 150 150     1390660856 1200693628 1226597252 1354312680 250684 ERX10830024 ERS15422308 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11731 11731 ERR11422842 ERX10830013 ERS15422297 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 het 2 SAMEA113427171 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427171|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 het 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/ |individual:pool of 3 embryos 2|organism part:embryo|replicate:2|sample name:E MTAB 12934:srpk3 hom ttn1 het 2|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 het 2 p srpk3 hom ttn1 het 2 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.B3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.B3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 7596727500.0 25322425.0 E MTAB 12934:SLX 21419.B3.HV2TTDRXY.s 2.r 0:150 1:150 A:2040744877;C:1765753859;G:1800431343;T:1989434039;N:363382 150 150     2040744877 1765753859 1800431343 1989434039 363382 ERX10830013 ERS15422297 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11732 11732 ERR11422854 ERX10830025 ERS15422309 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 het 3 SAMEA113427183 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427183|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 het 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/ |individual:pool of 3 embryos 3|organism part:embryo|replicate:3|sample name:E MTAB 12934:srpk3 wt ttn1 het 3|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 het 3 p srpk3 wt ttn1 het 3 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.B4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.B4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 4147455600.0 13824852.0 E MTAB 12934:SLX 21419.B4.HV2TTDRXY.s 2.r 0:150 1:150 A:1111933168;C:965101703;G:986324158;T:1083898570;N:198001 150 150     1111933168 965101703 986324158 1083898570 198001 ERX10830025 ERS15422309 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11733 11733 ERR11422855 ERX10830026 ERS15422310 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 het 7 SAMEA113427184 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427184|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 het 7|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/ |individual:pool of 3 embryos 7|organism part:embryo|replicate:7|sample name:E MTAB 12934:srpk3 wt ttn1 het 7|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 het 7 p srpk3 wt ttn1 het 7 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.C3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.C3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 7815347400.0 26051158.0 E MTAB 12934:SLX 21419.C3.HV2TTDRXY.s 2.r 0:150 1:150 A:2105543787;C:1810060936;G:1848658748;T:2050709339;N:374590 150 150     2105543787 1810060936 1848658748 2050709339 374590 ERX10830026 ERS15422310 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11734 11734 ERR11422847 ERX10830018 ERS15422302 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 wt 4 SAMEA113427176 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427176|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 wt 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/+|individual:pool of 3 embryos 4|organism part:embryo|replicate:4|sample name:E MTAB 12934:srpk3 hom ttn1 wt 4|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 wt 4 p srpk3 hom ttn1 wt 4 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.F4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.F4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 5552048400.0 18506828.0 E MTAB 12934:SLX 21419.F4.HV2TTDRXY.s 2.r 0:150 1:150 A:1494691750;C:1287655327;G:1313223405;T:1456215647;N:262271 150 150     1494691750 1287655327 1313223405 1456215647 262271 ERX10830018 ERS15422302 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11735 11735 ERR11422843 ERX10830014 ERS15422298 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 het 7 SAMEA113427172 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427172|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 het 7|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/ |individual:pool of 3 embryos 7|organism part:embryo|replicate:7|sample name:E MTAB 12934:srpk3 hom ttn1 het 7|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 het 7 p srpk3 hom ttn1 het 7 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.G2.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.G2.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6130593900.0 20435313.0 E MTAB 12934:SLX 21419.G2.HV2TTDRXY.s 2.r 0:150 1:150 A:1646268883;C:1426071699;G:1453474221;T:1604484627;N:294470 150 150     1646268883 1426071699 1453474221 1604484627 294470 ERX10830014 ERS15422298 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11736 11736 ERR11422857 ERX10830028 ERS15422312 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 het 9 SAMEA113427186 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427186|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 het 9|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/ |individual:pool of 3 embryos 9|organism part:embryo|replicate:9|sample name:E MTAB 12934:srpk3 wt ttn1 het 9|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 het 9 p srpk3 wt ttn1 het 9 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.A3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.A3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 7955802600.0 26519342.0 E MTAB 12934:SLX 21419.A3.HV2TTDRXY.s 2.r 0:150 1:150 A:2139048525;C:1844468923;G:1881094685;T:2090808427;N:382040 150 150     2139048525 1844468923 1881094685 2090808427 382040 ERX10830028 ERS15422312 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11737 11737 ERR11422844 ERX10830015 ERS15422299 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 het 8 SAMEA113427173 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427173|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 het 8|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/ |individual:pool of 3 embryos 8|organism part:embryo|replicate:8|sample name:E MTAB 12934:srpk3 hom ttn1 het 8|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 het 8 p srpk3 hom ttn1 het 8 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.H2.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.H2.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 4707444000.0 15691480.0 E MTAB 12934:SLX 21419.H2.HV2TTDRXY.s 2.r 0:150 1:150 A:1266769556;C:1091810198;G:1114454117;T:1234185729;N:224400 150 150     1266769556 1091810198 1114454117 1234185729 224400 ERX10830015 ERS15422299 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11738 11738 ERR11422850 ERX10830021 ERS15422305 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 wt 7 SAMEA113427179 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427179|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 wt 7|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/+|individual:pool of 3 embryos 7|organism part:embryo|replicate:7|sample name:E MTAB 12934:srpk3 hom ttn1 wt 7|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 wt 7 p srpk3 hom ttn1 wt 7 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.G4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.G4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6262379700.0 20874599.0 E MTAB 12934:SLX 21419.G4.HV2TTDRXY.s 2.r 0:150 1:150 A:1681113096;C:1456657472;G:1485545256;T:1638760380;N:303496 150 150     1681113096 1456657472 1485545256 1638760380 303496 ERX10830021 ERS15422305 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11739 11739 ERR11422846 ERX10830017 ERS15422301 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 wt 1 SAMEA113427175 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427175|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 wt 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/+|individual:pool of 3 embryos 1|organism part:embryo|replicate:1|sample name:E MTAB 12934:srpk3 hom ttn1 wt 1|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 wt 1 p srpk3 hom ttn1 wt 1 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.A4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.A4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6071901300.0 20239671.0 E MTAB 12934:SLX 21419.A4.HV2TTDRXY.s 2.r 0:150 1:150 A:1629141748;C:1412963306;G:1441970376;T:1587528201;N:297669 150 150     1629141748 1412963306 1441970376 1587528201 297669 ERX10830017 ERS15422301 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11740 11740 ERR11422860 ERX10830031 ERS15422315 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 wt 4 SAMEA113427189 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427189|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 wt 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/+|individual:pool of 3 embryos 4|organism part:embryo|replicate:4|sample name:E MTAB 12934:srpk3 wt ttn1 wt 4|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 wt 4 p srpk3 wt ttn1 wt 4 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.H4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.H4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 8552416200.0 28508054.0 E MTAB 12934:SLX 21419.H4.HV2TTDRXY.s 2.r 0:150 1:150 A:2292742388;C:1992671634;G:2031906776;T:2234679447;N:415955 150 150     2292742388 1992671634 2031906776 2234679447 415955 ERX10830031 ERS15422315 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11741 11741 ERR11422851 ERX10830022 ERS15422306 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 wt 8 SAMEA113427180 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427180|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 wt 8|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/+|individual:pool of 3 embryos 8|organism part:embryo|replicate:8|sample name:E MTAB 12934:srpk3 hom ttn1 wt 8|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 wt 8 p srpk3 hom ttn1 wt 8 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.D4.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.D4.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 4693977900.0 15646593.0 E MTAB 12934:SLX 21419.D4.HV2TTDRXY.s 2.r 0:150 1:150 A:1260530822;C:1090058889;G:1111595821;T:1231573984;N:218384 150 150     1260530822 1090058889 1111595821 1231573984 218384 ERX10830022 ERS15422306 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11742 11742 ERR11422849 ERX10830020 ERS15422304 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 wt 6 SAMEA113427178 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427178|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 wt 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/+|individual:pool of 3 embryos 6|organism part:embryo|replicate:6|sample name:E MTAB 12934:srpk3 hom ttn1 wt 6|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 wt 6 p srpk3 hom ttn1 wt 6 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.E2.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.E2.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 8212296300.0 27374321.0 E MTAB 12934:SLX 21419.E2.HV2TTDRXY.s 2.r 0:150 1:150 A:2208490788;C:1905530286;G:1945454560;T:2152431537;N:389129 150 150     2208490788 1905530286 1945454560 2152431537 389129 ERX10830020 ERS15422304 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11743 11743 ERR11422845 ERX10830016 ERS15422300 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 het 9 SAMEA113427174 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427174|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 het 9|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/ |individual:pool of 3 embryos 9|organism part:embryo|replicate:9|sample name:E MTAB 12934:srpk3 hom ttn1 het 9|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 het 9 p srpk3 hom ttn1 het 9 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.H3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.H3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6498128700.0 21660429.0 E MTAB 12934:SLX 21419.H3.HV2TTDRXY.s 2.r 0:150 1:150 A:1747443944;C:1508729516;G:1535387292;T:1706266342;N:301606 150 150     1747443944 1508729516 1535387292 1706266342 301606 ERX10830016 ERS15422300 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11744 11744 ERR11422861 ERX10830032 ERS15422316 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 wt 5 SAMEA113427190 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427190|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 wt 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/+|individual:pool of 3 embryos 5|organism part:embryo|replicate:5|sample name:E MTAB 12934:srpk3 wt ttn1 wt 5|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 wt 5 p srpk3 wt ttn1 wt 5 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.B5.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.B5.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 5670094800.0 18900316.0 E MTAB 12934:SLX 21419.B5.HV2TTDRXY.s 2.r 0:150 1:150 A:1520345271;C:1320386106;G:1349261719;T:1479832706;N:268998 150 150     1520345271 1320386106 1349261719 1479832706 268998 ERX10830032 ERS15422316 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11745 11745 ERR11422848 ERX10830019 ERS15422303 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 hom ttn1 wt 5 SAMEA113427177 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427177|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 hom ttn1 wt 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 / ; ttn.1 +/+|individual:pool of 3 embryos 5|organism part:embryo|replicate:5|sample name:E MTAB 12934:srpk3 hom ttn1 wt 5|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 hom ttn1 wt 5 p srpk3 hom ttn1 wt 5 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 / ; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.D3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.D3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 4627365300.0 15424551.0 E MTAB 12934:SLX 21419.D3.HV2TTDRXY.s 2.r 0:150 1:150 A:1240390225;C:1077656611;G:1099301867;T:1209799382;N:217215 150 150     1240390225 1077656611 1099301867 1209799382 217215 ERX10830019 ERS15422303 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
11746 11746 ERR11422859 ERX10830030 ERS15422314 ERP147133 PRJEB62042 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E-MTAB-12934 Transcriptome Analysis RNA seq of zebrafish embryos with mutations in srpk3 sa1890 allele and/or ttn.1 sa5562 allele. Each of the 24 samples six samples for each of four genotypes represents RNA from a pool of three 5 dpf zebrafish embryos. ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09   Protocols: Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. srpk3 wt ttn1 wt 3 SAMEA113427188 QMUL ENA FIRST PUBLIC:2024 02 09T16:00:07Z|ENA LAST UPDATE:2024 02 09T16:00:07Z|External Id:SAMEA113427188|INSDC center name:QMUL|INSDC first public:2024 02 09T16:00:07Z|INSDC last update:2024 02 09T16:00:07Z|INSDC status:public|Submitter Id:E MTAB 12934:srpk3 wt ttn1 wt 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:srpk3 +/+; ttn.1 +/+|individual:pool of 3 embryos 3|organism part:embryo|replicate:3|sample name:E MTAB 12934:srpk3 wt ttn1 wt 3|scientific name:Danio rerio|sex:not available|strain:Tüpfel long fin                 RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein E MTAB 12934:srpk3 wt ttn1 wt 3 p srpk3 wt ttn1 wt 3 p RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein Zebrafish embryos were collected for DNA and RNA extraction at 5 dpf in 6 pools of 3 embryos per genotype. Samples were lysed in 110 μl RLT buffer Qiagen containing 1.1 μl of 14.3 M β mercaptoethanol Sigma. The lysate was allowed to bind to 450 μl of Agencourt AMPure XP beads Beckman Coulter for 15 minutes. The tubes were left on a magnet Invitrogen until the solutions cleared and the supernatant was then removed without xxx the beads. Whilst still on the magnet the beads were washed three times with 70% ethanol and allowed to dry for 20 minutes. Total nucleic acid was eluted from the beads following the manufacturer's instructions and treated with DNase I NEB Catalog number M0303L. NEBNext Ultra II DNA Library Prep Kit for Illumina. Experimental Factor: genotype:srpk3 +/+; ttn.1 +/+ RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP147133 Illumina NovaSeq 6000 paired end sequencing; RNA seq of zebrafish embryos with mutations in a muscle specific kinase and the giant titin protein ENA FIRST PUBLIC:2024 02 09|ENA LAST UPDATE:2024 02 09 SLX-21419.F3.HV2TTDRXY.s_2.r_1.fq.gz SLX-21419.F3.HV2TTDRXY.s_2.r_2.fq.gz fastq fastq 6046705800.0 20155686.0 E MTAB 12934:SLX 21419.F3.HV2TTDRXY.s 2.r 0:150 1:150 A:1628067770;C:1402636688;G:1430886037;T:1584821803;N:293502 150 150     1628067770 1402636688 1430886037 1584821803 293502 ERX10830030 ERS15422314 ERA23329494 European Bioinformatics Institute|European Nucleotide Archive European Bioinformatics Institute|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era unknown poly_a nebnext bulk unknown unknown   United Kingdom 2024-02-09 Larval Larval Embryo Imprecise All anatomical structures
16526 16526 ERR667398 ERX622886 ERS463339 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548493 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548493|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf control 4 sc 1972462|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 0.1% v/v ethanol.A 8 base indexing sequence TCAGGAGG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf control 4 sc 1972462|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#36 10517312 Illumina sequencing of library 10517312 constructed from sample accession ERS463339 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCAGGAGG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#36.cram cram 170828190.0 1314063.0 SC RUN 13256 1#36 0:55 1:75 A:44768263;C:34386047;G:35500778;T:56156162;N:16940 55 75     44768263 34386047 35500778 56156162 16940 ERX622886 ERS463339 ERA375333 SC Wellcome Sanger Institute 2 0.13166 0.8204 0.06755 0.19006 0.95753 0.81655 0.76236 0.68533 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16527 16527 ERR667397 ERX622885 ERS463338 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548492 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:34Z|External Id:SAMEA2548492|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:34Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf control 3 sc 1972461|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 0.1% v/v ethanol.A 8 base indexing sequence TCTCACGG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf control 3 sc 1972461|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#35 10517311 Illumina sequencing of library 10517311 constructed from sample accession ERS463338 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCTCACGG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#35.cram cram 261820650.0 2014005.0 SC RUN 13256 1#35 0:55 1:75 A:72670470;C:50112031;G:54263310;T:84750983;N:23856 55 75     72670470 50112031 54263310 84750983 23856 ERX622885 ERS463338 ERA375333 SC Wellcome Sanger Institute 2 0.17465 0.75166 0.11391 0.1792 0.95937 0.84238 0.73795 0.70275 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16528 16528 ERR667396 ERX622884 ERS463337 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548491 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:17Z|External Id:SAMEA2548491|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:17Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf control 2 sc 1972460|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 0.1% v/v ethanol.A 8 base indexing sequence TACTTCGG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf control 2 sc 1972460|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#34 10517310 Illumina sequencing of library 10517310 constructed from sample accession ERS463337 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TACTTCGG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#34.cram cram 291378100.0 2241370.0 SC RUN 13256 1#34 0:55 1:75 A:80660045;C:56367784;G:60328044;T:93993547;N:28680 55 75     80660045 56367784 60328044 93993547 28680 ERX622884 ERS463337 ERA375333 SC Wellcome Sanger Institute 2 0.16274 0.76681 0.10005 0.16164 0.95994 0.84228 0.77601 0.72125 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16529 16529 ERR667395 ERX622883 ERS463336 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548490 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548490|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 12 sc 1972459|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TGAACTGG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 12 sc 1972459|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#33 10517309 Illumina sequencing of library 10517309 constructed from sample accession ERS463336 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGAACTGG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#33.cram cram 159495050.0 1226885.0 SC RUN 13256 1#33 0:55 1:75 A:44526945;C:31107840;G:32400438;T:51444629;N:15198 55 75     44526945 31107840 32400438 51444629 15198 ERX622883 ERS463336 ERA375333 SC Wellcome Sanger Institute 2 0.14405 0.72387 0.09685 0.16934 0.96585 0.84476 0.75451 0.71348 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16530 16530 ERR667394 ERX622882 ERS463335 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548489 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548489|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 11 sc 1972458|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TTGGTATG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 11 sc 1972458|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#32 10517308 Illumina sequencing of library 10517308 constructed from sample accession ERS463335 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTGGTATG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#32.cram cram 230733620.0 1774874.0 SC RUN 13256 1#32 0:55 1:75 A:65923552;C:43534910;G:44813128;T:76440148;N:21882 55 75     65923552 43534910 44813128 76440148 21882 ERX622882 ERS463335 ERA375333 SC Wellcome Sanger Institute 2 0.16493 0.71702 0.10319 0.16046 0.96035 0.83364 0.7605 0.69357 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16531 16531 ERR667393 ERX622881 ERS463334 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548488 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:17Z|External Id:SAMEA2548488|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:17Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 10 sc 1972457|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TAACGCTG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 10 sc 1972457|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#31 10517307 Illumina sequencing of library 10517307 constructed from sample accession ERS463334 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TAACGCTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#31.cram cram 169693940.0 1305338.0 SC RUN 13256 1#31 0:55 1:75 A:47216999;C:32233282;G:34303404;T:55924495;N:15760 55 75     47216999 32233282 34303404 55924495 15760 ERX622881 ERS463334 ERA375333 SC Wellcome Sanger Institute 2 0.15711 0.76441 0.09573 0.15362 0.96185 0.83625 0.78358 0.43248 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16532 16532 ERR667392 ERX622880 ERS463333 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548487 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548487|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 9 sc 1972456|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TCGAAGTG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 9 sc 1972456|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#30 10517306 Illumina sequencing of library 10517306 constructed from sample accession ERS463333 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCGAAGTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#30.cram cram 246126400.0 1893280.0 SC RUN 13256 1#30 0:55 1:75 A:64877434;C:48807745;G:51055789;T:81362490;N:22942 55 75     64877434 48807745 51055789 81362490 22942 ERX622880 ERS463333 ERA375333 SC Wellcome Sanger Institute 2 0.13616 0.81131 0.0854 0.19973 0.96556 0.82757 0.74775 0.70258 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16533 16533 ERR667391 ERX622879 ERS463332 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548486 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548486|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 8 sc 1972455|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TTCCATTG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 8 sc 1972455|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#29 10517305 Illumina sequencing of library 10517305 constructed from sample accession ERS463332 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTCCATTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#29.cram cram 237043690.0 1823413.0 SC RUN 13256 1#29 0:55 1:75 A:68761865;C:43795810;G:47113828;T:77348945;N:23242 55 75     68761865 43795810 47113828 77348945 23242 ERX622879 ERS463332 ERA375333 SC Wellcome Sanger Institute 2 0.13798 0.71442 0.08126 0.13596 0.95712 0.83751 0.72277 0.7226 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16534 16534 ERR667390 ERX622878 ERS463331 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548485 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:17Z|External Id:SAMEA2548485|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:17Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 7 sc 1972454|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TAGTCTTG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 7 sc 1972454|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#28 10517304 Illumina sequencing of library 10517304 constructed from sample accession ERS463331 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TAGTCTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#28.cram cram 394343300.0 3033410.0 SC RUN 13256 1#28 0:55 1:75 A:111651222;C:75521035;G:80020655;T:127113022;N:37366 55 75     111651222 75521035 80020655 127113022 37366 ERX622878 ERS463331 ERA375333 SC Wellcome Sanger Institute 2 0.13408 0.74717 0.07471 0.14051 0.95958 0.83467 0.75125 0.70647 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16535 16535 ERR667389 ERX622877 ERS463330 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548484 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548484|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 6 sc 1972453|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TGTGGTTG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 6 sc 1972453|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#27 10517303 Illumina sequencing of library 10517303 constructed from sample accession ERS463330 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGTGGTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#27.cram cram 284205350.0 2186195.0 SC RUN 13256 1#27 0:55 1:75 A:81760893;C:54722204;G:55386801;T:92306336;N:29116 55 75     81760893 54722204 55386801 92306336 29116 ERX622877 ERS463330 ERA375333 SC Wellcome Sanger Institute 2 0.15161 0.71556 0.08596 0.14319 0.95868 0.8392 0.77754 0.71796 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16536 16536 ERR667388 ERX622876 ERS463329 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548483 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548483|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 5 sc 1972452|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TCCTCAAT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 5 sc 1972452|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#26 10517302 Illumina sequencing of library 10517302 constructed from sample accession ERS463329 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCCTCAAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#26.cram cram 330810350.0 2544695.0 SC RUN 13256 1#26 0:55 1:75 A:93408226;C:61812207;G:69176898;T:106383919;N:29100 55 75     93408226 61812207 69176898 106383919 29100 ERX622876 ERS463329 ERA375333 SC Wellcome Sanger Institute 2 0.13377 0.69577 0.07532 0.14875 0.95781 0.8383 0.72303 0.71175 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16537 16537 ERR667387 ERX622875 ERS463328 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548482 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:16Z|External Id:SAMEA2548482|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:16Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 4 sc 1972451|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TACAGGAT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 4 sc 1972451|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#25 10517301 Illumina sequencing of library 10517301 constructed from sample accession ERS463328 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TACAGGAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#25.cram cram 474507020.0 3650054.0 SC RUN 13256 1#25 0:55 1:75 A:131496123;C:90613341;G:97290951;T:155059153;N:47452 55 75     131496123 90613341 97290951 155059153 47452 ERX622875 ERS463328 ERA375333 SC Wellcome Sanger Institute 2 0.13262 0.73888 0.07276 0.15006 0.96451 0.83479 0.78366 0.72049 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16550 16550 ERR667386 ERX622874 ERS463327 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548481 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548481|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 3 sc 1972450|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TAGTGACT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 3 sc 1972450|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#24 10517300 Illumina sequencing of library 10517300 constructed from sample accession ERS463327 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TAGTGACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#24.cram cram 296075650.0 2277505.0 SC RUN 13256 1#24 0:55 1:75 A:82935889;C:56062979;G:59762388;T:97286073;N:28321 55 75     82935889 56062979 59762388 97286073 28321 ERX622874 ERS463327 ERA375333 SC Wellcome Sanger Institute 2 0.1437 0.74103 0.08347 0.14393 0.96325 0.83684 0.81783 0.70771 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16551 16551 ERR667385 ERX622873 ERS463326 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548480 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548480|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 2 sc 1972449|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TTCCTGCT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 2 sc 1972449|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#23 10517299 Illumina sequencing of library 10517299 constructed from sample accession ERS463326 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTCCTGCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#23.cram cram 443750710.0 3413467.0 SC RUN 13256 1#23 0:55 1:75 A:124952195;C:85586617;G:94833109;T:138341796;N:36993 55 75     124952195 85586617 94833109 138341796 36993 ERX622873 ERS463326 ERA375333 SC Wellcome Sanger Institute 2 0.15245 0.72135 0.07368 0.15151 0.95568 0.84449 0.77081 0.72424 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16552 16552 ERR667384 ERX622872 ERS463325 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548479 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:16Z|External Id:SAMEA2548479|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:16Z|INSDC status:public|Submitter Id:50Cyclop 0 1EtOH 24hpf treated 1 sc 1972448|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 50 micromolar cyclopamine in 0.1% v/v ethanol. A 8 base indexing sequence TGCGATCT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:50Cyclop 0 1EtOH 24hpf treated 1 sc 1972448|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#22 10517298 Illumina sequencing of library 10517298 constructed from sample accession ERS463325 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGCGATCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#22.cram cram 298785370.0 2298349.0 SC RUN 13256 1#22 0:55 1:75 A:82163853;C:59663280;G:63342361;T:93589112;N:26764 55 75     82163853 59663280 63342361 93589112 26764 ERX622872 ERS463325 ERA375333 SC Wellcome Sanger Institute 2 0.13397 0.72614 0.07209 0.16108 0.96303 0.85188 0.78255 0.73973 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16553 16553 ERR667383 ERX622871 ERS463324 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548478 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548478|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 12 sc 1972447|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TTGACTCT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 12 sc 1972447|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#21 10517297 Illumina sequencing of library 10517297 constructed from sample accession ERS463324 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTGACTCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#21.cram cram 140774920.0 1082884.0 SC RUN 13256 1#21 0:55 1:75 A:39481115;C:27348433;G:30029240;T:43903005;N:13127 55 75     39481115 27348433 30029240 43903005 13127 ERX622871 ERS463324 ERA375333 SC Wellcome Sanger Institute 2 0.14879 0.72247 0.08143 0.15522 0.96118 0.84867 0.78965 0.74254 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16554 16554 ERR667382 ERX622870 ERS463323 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548477 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548477|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 11 sc 1972446|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TGCATAGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 11 sc 1972446|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#20 10517296 Illumina sequencing of library 10517296 constructed from sample accession ERS463323 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGCATAGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#20.cram cram 178794590.0 1375343.0 SC RUN 13256 1#20 0:55 1:75 A:50890564;C:34618169;G:37008888;T:56258907;N:18062 55 75     50890564 34618169 37008888 56258907 18062 ERX622870 ERS463323 ERA375333 SC Wellcome Sanger Institute 2 0.15828 0.68013 0.10522 0.16411 0.96301 0.85147 0.77788 0.71946 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16555 16555 ERR667381 ERX622869 ERS463322 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548476 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:16Z|External Id:SAMEA2548476|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:16Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 10 sc 1972445|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TGATACGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 10 sc 1972445|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#19 10517295 Illumina sequencing of library 10517295 constructed from sample accession ERS463322 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGATACGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#19.cram cram 152796020.0 1175354.0 SC RUN 13256 1#19 0:55 1:75 A:43164178;C:28497500;G:30636978;T:50482443;N:14921 55 75     43164178 28497500 30636978 50482443 14921 ERX622869 ERS463322 ERA375333 SC Wellcome Sanger Institute 2 0.17338 0.74214 0.11412 0.17188 0.95954 0.83475 0.77599 0.69646 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16556 16556 ERR667380 ERX622868 ERS463321 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548475 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548475|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 9 sc 1972444|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TCGAGCGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 9 sc 1972444|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#18 10517294 Illumina sequencing of library 10517294 constructed from sample accession ERS463321 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCGAGCGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#18.cram cram 246614290.0 1897033.0 SC RUN 13256 1#18 0:55 1:75 A:65847226;C:48649826;G:51891861;T:80201978;N:23399 55 75     65847226 48649826 51891861 80201978 23399 ERX622868 ERS463321 ERA375333 SC Wellcome Sanger Institute 2 0.12616 0.80609 0.07386 0.19379 0.96566 0.82942 0.80786 0.70582 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16557 16557 ERR667379 ERX622867 ERS463320 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548474 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548474|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 8 sc 1972443|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TTGGAGGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 8 sc 1972443|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#17 10517293 Illumina sequencing of library 10517293 constructed from sample accession ERS463320 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTGGAGGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#17.cram cram 192037820.0 1477214.0 SC RUN 13256 1#17 0:55 1:75 A:52262399;C:38034317;G:39394465;T:62328424;N:18215 55 75     52262399 38034317 39394465 62328424 18215 ERX622867 ERS463320 ERA375333 SC Wellcome Sanger Institute 2 0.13419 0.77104 0.06619 0.15595 0.96234 0.83431 0.80856 0.7337 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16558 16558 ERR667378 ERX622866 ERS463319 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548473 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:16Z|External Id:SAMEA2548473|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:16Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 7 sc 1972442|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TCTGCTGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 7 sc 1972442|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#16 10517292 Illumina sequencing of library 10517292 constructed from sample accession ERS463319 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCTGCTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#16.cram cram 131783210.0 1013717.0 SC RUN 13256 1#16 0:55 1:75 A:36740307;C:25906782;G:28184476;T:40940400;N:11245 55 75     36740307 25906782 28184476 40940400 11245 ERX622866 ERS463319 ERA375333 SC Wellcome Sanger Institute 2 0.1814 0.75096 0.0779 0.15257 0.94408 0.83615 0.73999 0.70358 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16559 16559 ERR667377 ERX622865 ERS463318 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548472 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548472|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 6 sc 1972441|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TTCTGTGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 6 sc 1972441|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#15 10517291 Illumina sequencing of library 10517291 constructed from sample accession ERS463318 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTCTGTGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#15.cram cram 297275420.0 2286734.0 SC RUN 13256 1#15 0:55 1:75 A:80591742;C:58460335;G:62097495;T:96099260;N:26588 55 75     80591742 58460335 62097495 96099260 26588 ERX622865 ERS463318 ERA375333 SC Wellcome Sanger Institute 2 0.14856 0.79328 0.08045 0.18298 0.95388 0.82524 0.74068 0.69319 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16560 16560 ERR667376 ERX622864 ERS463317 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548471 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548471|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 5 sc 1972440|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TGTACCTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 5 sc 1972440|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#14 10517290 Illumina sequencing of library 10517290 constructed from sample accession ERS463317 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGTACCTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#14.cram cram 242173750.0 1862875.0 SC RUN 13256 1#14 0:55 1:75 A:72439393;C:44966903;G:51788847;T:72956754;N:21853 55 75     72439393 44966903 51788847 72956754 21853 ERX622864 ERS463317 ERA375333 SC Wellcome Sanger Institute 2 0.13638 0.61957 0.09812 0.16019 0.97009 0.87127 0.57527 0.73119 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16561 16561 ERR667375 ERX622863 ERS463316 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548470 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:16Z|External Id:SAMEA2548470|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:16Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 4 sc 1972439|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TCCGTCTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 4 sc 1972439|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#13 10517289 Illumina sequencing of library 10517289 constructed from sample accession ERS463316 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCCGTCTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#13.cram cram 236289560.0 1817612.0 SC RUN 13256 1#13 0:55 1:75 A:65497839;C:45569980;G:50614556;T:74585065;N:22120 55 75     65497839 45569980 50614556 74585065 22120 ERX622863 ERS463316 ERA375333 SC Wellcome Sanger Institute 2 0.16763 0.7428 0.08432 0.16616 0.95217 0.83857 0.73569 0.69906 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16574 16574 ERR667374 ERX622862 ERS463315 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548469 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548469|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 3 sc 1972438|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TAAGCGTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 3 sc 1972438|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#12 10517288 Illumina sequencing of library 10517288 constructed from sample accession ERS463315 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TAAGCGTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#12.cram cram 381482400.0 2934480.0 SC RUN 13256 1#12 0:55 1:75 A:108129259;C:71762350;G:76804777;T:124748024;N:37990 55 75     108129259 71762350 76804777 124748024 37990 ERX622862 ERS463315 ERA375333 SC Wellcome Sanger Institute 2 0.15494 0.73749 0.08887 0.16382 0.95747 0.83211 0.76336 0.69077 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16575 16575 ERR667373 ERX622861 ERS463314 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548468 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548468|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 2 sc 1972437|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TCTCGGTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 2 sc 1972437|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#11 10517287 Illumina sequencing of library 10517287 constructed from sample accession ERS463314 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TCTCGGTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#11.cram cram 219975210.0 1692117.0 SC RUN 13256 1#11 0:55 1:75 A:62730862;C:43360964;G:45653286;T:68211390;N:18708 55 75     62730862 43360964 45653286 68211390 18708 ERX622861 ERS463314 ERA375333 SC Wellcome Sanger Institute 2 0.1335 0.67379 0.05402 0.14367 0.96319 0.84877 0.81344 0.7263 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16576 16576 ERR667372 ERX622860 ERS463313 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548467 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:05Z|External Id:SAMEA2548467|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:05Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf control 1 sc 1972436|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 05% v/v ethanol.A 8 base indexing sequence TGGTTGTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf control 1 sc 1972436|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#10 10517286 Illumina sequencing of library 10517286 constructed from sample accession ERS463313 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGGTTGTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#10.cram cram 289606330.0 2227741.0 SC RUN 13256 1#10 0:55 1:75 A:83619693;C:55715592;G:57603582;T:92639222;N:28241 55 75     83619693 55715592 57603582 92639222 28241 ERX622860 ERS463313 ERA375333 SC Wellcome Sanger Institute 2 0.14312 0.69479 0.08173 0.15101 0.96185 0.84439 0.78182 0.7265 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16577 16577 ERR667371 ERX622859 ERS463312 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548466 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548466|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 12 sc 1972435|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence GATCAGCG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 12 sc 1972435|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#9 10517285 Illumina sequencing of library 10517285 constructed from sample accession ERS463312 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence GATCAGCG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#9.cram cram 179568740.0 1381298.0 SC RUN 13256 1#9 0:55 1:75 A:48952176;C:34402129;G:36985871;T:59212722;N:15842 55 75     48952176 34402129 36985871 59212722 15842 ERX622859 ERS463312 ERA375333 SC Wellcome Sanger Institute 2 0.16345 0.77594 0.10069 0.16964 0.95864 0.83045 0.78521 0.7004 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16578 16578 ERR667370 ERX622858 ERS463311 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548465 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:04Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548465|INSDC center name:SC|INSDC first public:2014 11 04T16:19:04Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 11 sc 1972434|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence ACTTGATG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 11 sc 1972434|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#8 10517284 Illumina sequencing of library 10517284 constructed from sample accession ERS463311 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence ACTTGATG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#8.cram cram 137020910.0 1054007.0 SC RUN 13256 1#8 0:55 1:75 A:38049625;C:26414574;G:28139253;T:44406481;N:10977 55 75     38049625 26414574 28139253 44406481 10977 ERX622858 ERS463311 ERA375333 SC Wellcome Sanger Institute 2 0.1402 0.74335 0.08322 0.1663 0.96268 0.84043 0.77733 0.71859 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16579 16579 ERR667369 ERX622857 ERS463310 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548464 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:05Z|External Id:SAMEA2548464|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:05Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 10 sc 1972433|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence CAGATCTG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 10 sc 1972433|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#7 10517283 Illumina sequencing of library 10517283 constructed from sample accession ERS463310 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence CAGATCTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#7.cram cram 198153410.0 1524257.0 SC RUN 13256 1#7 0:55 1:75 A:52670252;C:39254438;G:42385338;T:63824260;N:19122 55 75     52670252 39254438 42385338 63824260 19122 ERX622857 ERS463310 ERA375333 SC Wellcome Sanger Institute 2 0.12556 0.78468 0.07074 0.18847 0.964 0.83526 0.78795 0.71023 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16580 16580 ERR667368 ERX622856 ERS463309 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548463 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548463|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 9 sc 1972432|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence GCCAATGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 9 sc 1972432|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#6 10517282 Illumina sequencing of library 10517282 constructed from sample accession ERS463309 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence GCCAATGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#6.cram cram 311861420.0 2398934.0 SC RUN 13256 1#6 0:55 1:75 A:83917355;C:60106233;G:64499135;T:103308448;N:30249 55 75     83917355 60106233 64499135 103308448 30249 ERX622856 ERS463309 ERA375333 SC Wellcome Sanger Institute 2 0.12297 0.80619 0.0593 0.15961 0.96234 0.82248 0.79929 0.70162 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16581 16581 ERR667367 ERX622855 ERS463308 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548462 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548462|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 8 sc 1972431|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence ACAGTGGT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 8 sc 1972431|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#5 10517281 Illumina sequencing of library 10517281 constructed from sample accession ERS463308 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence ACAGTGGT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#5.cram cram 319355660.0 2456582.0 SC RUN 13256 1#5 0:55 1:75 A:84900314;C:64205253;G:67464229;T:102759467;N:26397 55 75     84900314 64205253 67464229 102759467 26397 ERX622855 ERS463308 ERA375333 SC Wellcome Sanger Institute 2 0.11383 0.78215 0.05838 0.17935 0.96619 0.83727 0.7861 0.72598 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16582 16582 ERR667366 ERX622854 ERS463307 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548461 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:05Z|External Id:SAMEA2548461|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:05Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 7 sc 1972430|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence TGACCACT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 7 sc 1972430|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#4 10517280 Illumina sequencing of library 10517280 constructed from sample accession ERS463307 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TGACCACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#4.cram cram 354540160.0 2727232.0 SC RUN 13256 1#4 0:55 1:75 A:97757414;C:68003475;G:75993436;T:112753315;N:32520 55 75     97757414 68003475 75993436 112753315 32520 ERX622854 ERS463307 ERA375333 SC Wellcome Sanger Institute 2 0.12969 0.72947 0.07042 0.14757 0.9614 0.84017 0.78018 0.71871 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16583 16583 ERR667365 ERX622853 ERS463306 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548460 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:42:43Z|External Id:SAMEA2548460|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:42:43Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 6 sc 1972429|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence TTAGGCAT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 6 sc 1972429|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#3 10517279 Illumina sequencing of library 10517279 constructed from sample accession ERS463306 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence TTAGGCAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#3.cram cram 602820270.0 4637079.0 SC RUN 13256 1#3 0:55 1:75 A:165474925;C:115590273;G:123825630;T:197870518;N:58924 55 75     165474925 115590273 123825630 197870518 58924 ERX622853 ERS463306 ERA375333 SC Wellcome Sanger Institute 2 0.141 0.74407 0.08834 0.15443 0.96475 0.83958 0.78331 0.7194 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures
16584 16584 ERR667364 ERX622852 ERS463305 ERP008536 PRJEB7614 Screening zebrafish embryos treated with small molecules by transcriptome profiling Screening_zebrafish_embryos_treated_with_small_molecules_by_transcriptome_profiling-sc-3143 Transcriptome Analysis Paired end sequence data from the Illumina HiSeq was prepared from RNA of zebrafish embryos treated with small molecules and their corresponding solvent treated and untreated controls.         SAMEA2548459 SC ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 11 04T16:19:03Z|ENA LAST UPDATE:2018 03 08T17:41:33Z|External Id:SAMEA2548459|INSDC center name:SC|INSDC first public:2014 11 04T16:19:03Z|INSDC last update:2018 03 08T17:41:33Z|INSDC status:public|Submitter Id:25Cyclop 05EtOH 24hpf treated 4 sc 1972428|common name:zebrafish|sample description:3 prime end enriched mRNA from single wild type 24hpf embryo treated with 25 micromolar cyclopamine in 05% v/v ethanol. A 8 base indexing sequence CGATGTTT is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:25Cyclop 05EtOH 24hpf treated 4 sc 1972428|scientific name:Danio rerio|strain:mixed                 Illumina HiSeq 2500 paired end sequencing SC EXP 13256 1#2 10517278 Illumina sequencing of library 10517278 constructed from sample accession ERS463305 for study accession ERP008536. This is part of an Illumina multiplexed sequencing run 13256 1. This submission includes reads tagged with the sequence CGATGTTT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500   ERP008536 Illumina HiSeq 2500 paired end sequencing ENA FIRST PUBLIC:2014 11 04|ENA LAST UPDATE:2018 11 16 13256_1#2.cram cram 192840440.0 1483388.0 SC RUN 13256 1#2 0:55 1:75 A:53469380;C:37747264;G:40238127;T:61365974;N:19695 55 75     53469380 37747264 40238127 61365974 19695 ERX622852 ERS463305 ERA375333 SC Wellcome Sanger Institute 2 0.14229 0.74015 0.07887 0.16243 0.96357 0.84687 0.7426 0.72806 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-11-04 Pharyngula Embryo Embryo Imprecise All anatomical structures

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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");;