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
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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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
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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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,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
31551,SRR28470424,SRX24073368,SRS20863756,SRP498116,PRJNA1092543,ROS CALR and TLR3 B2m signaling balance eat me and do not eat me signals for HSC quality assurance by macrophages,PRJNA1092543,Other,Macrophage quality assures normal blood stem cells use one of these eat me signals that isimportant to determine the number of hematopoietic clones that participate in adult hematopoiesis.Macrophages either engulf a stem cell completely referred to as dooming or capture portions of thestem cell cellular material referred to as grooming. In the latter case  the stem cell continues to divide.This interaction is mediated by a signal called calreticulin Calr on the surface of hematopoietic stem andprogenitor cells HSPCs  known as an eat me signal. Surface Calr levels are increased in stem cells withhigher levels of reactive oxygen species ROS  but the specific molecular cues that regulate the doomingversus grooming behavior are still unknown. We found that b2 microglobulin B2m is a do not eat memolecule and show that both Calr and B2m must balance the eat me and do not eat me cues to qualityassure hematopoietic stem cells.,,,,,CPR 001 Control 1,,strain:runx1+ mCherry|age:3 dpf|dev stage:embryo|collection date:2002 10 10|geo loc name:USA|sex:NA|tissue:CHT|biomaterial provider:sorted runx1 from animals treated with DMSO|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of DMSO treated 3 dpf zf,/Control 2 R1 001,/Control 2 R1 001,runx1+ sorted cells from CHT,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP498116,,,Control-2_R1_001.fastq.gz Control-2_R2_001.fastq.gz,fastq fastq,24736098600.0,82453662.0,Control 2 R1 001.fastq.gz,0:150 1:150,A:6999861692;C:5326359223;G:5714641460;T:6691982936;N:3253289,150,150,,,6999861692,5326359223,5714641460,6691982936,3253289,SRX24073368,SRS20863756,SRA1834365,Harvard|Stem cells,Harvard,,,,,,,,,,,,T,T,mates < 9% mapping rate,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2024-03-27,Larval,Larval,Embryo Imprecise,All anatomical structures
31552,SRR28470425,SRX24073367,SRS20863756,SRP498116,PRJNA1092543,ROS CALR and TLR3 B2m signaling balance eat me and do not eat me signals for HSC quality assurance by macrophages,PRJNA1092543,Other,Macrophage quality assures normal blood stem cells use one of these eat me signals that isimportant to determine the number of hematopoietic clones that participate in adult hematopoiesis.Macrophages either engulf a stem cell completely referred to as dooming or capture portions of thestem cell cellular material referred to as grooming. In the latter case  the stem cell continues to divide.This interaction is mediated by a signal called calreticulin Calr on the surface of hematopoietic stem andprogenitor cells HSPCs  known as an eat me signal. Surface Calr levels are increased in stem cells withhigher levels of reactive oxygen species ROS  but the specific molecular cues that regulate the doomingversus grooming behavior are still unknown. We found that b2 microglobulin B2m is a do not eat memolecule and show that both Calr and B2m must balance the eat me and do not eat me cues to qualityassure hematopoietic stem cells.,,,,,CPR 001 Control 1,,strain:runx1+ mCherry|age:3 dpf|dev stage:embryo|collection date:2002 10 10|geo loc name:USA|sex:NA|tissue:CHT|biomaterial provider:sorted runx1 from animals treated with DMSO|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of DMSO treated 3 dpf zf,Control 3 R1 001,Control 3 R1 001,runx1+ sorted cells from CHT,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP498116,,,Control-3_R1_001.fastq.gz Control-3_R2_001.fastq.gz,fastq fastq,5724566400.0,19081888.0,Control 3 R1 001.fastq.gz,0:150 1:150,A:1620230764;C:1228106743;G:1321973648;T:1553493613;N:761632,150,150,,,1620230764,1228106743,1321973648,1553493613,761632,SRX24073367,SRS20863756,SRA1834365,Harvard|Stem cells,Harvard,,,,,,,,,,,,T,T,mates < 9% mapping rate,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2024-03-27,Larval,Larval,Embryo Imprecise,All anatomical structures
31553,SRR28470426,SRX24073366,SRS20863757,SRP498116,PRJNA1092543,ROS CALR and TLR3 B2m signaling balance eat me and do not eat me signals for HSC quality assurance by macrophages,PRJNA1092543,Other,Macrophage quality assures normal blood stem cells use one of these eat me signals that isimportant to determine the number of hematopoietic clones that participate in adult hematopoiesis.Macrophages either engulf a stem cell completely referred to as dooming or capture portions of thestem cell cellular material referred to as grooming. In the latter case  the stem cell continues to divide.This interaction is mediated by a signal called calreticulin Calr on the surface of hematopoietic stem andprogenitor cells HSPCs  known as an eat me signal. Surface Calr levels are increased in stem cells withhigher levels of reactive oxygen species ROS  but the specific molecular cues that regulate the doomingversus grooming behavior are still unknown. We found that b2 microglobulin B2m is a do not eat memolecule and show that both Calr and B2m must balance the eat me and do not eat me cues to qualityassure hematopoietic stem cells.,,,,,CPR 001 DL T1,,strain:runx1+ mCherry|age:3 dpf|dev stage:embryo|collection date:2002 10 10|geo loc name:USA|sex:NA|tissue:CHT|biomaterial provider:sorted runx1 from animals treated with DL theo PPMP|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of DL theo PPMP treated 3 dpf zf,DL 1 R1 001,DL 1 R1 001,runx1+ sorted cells from CHT,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP498116,,,DL-1_R1_001.fastq.gz DL-1_R2_001.fastq.gz,fastq fastq,2202665700.0,7342219.0,DL 1 R1 001.fastq.gz,0:150 1:150,A:630467370;C:468353801;G:496188268;T:607360659;N:295602,150,150,,,630467370,468353801,496188268,607360659,295602,SRX24073366,SRS20863757,SRA1834365,Harvard|Stem cells,Harvard,,,,,,,,,,,,T,T,mates < 9% mapping rate,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2024-03-27,Larval,Larval,Embryo Imprecise,All anatomical structures
31554,SRR28470427,SRX24073365,SRS20863757,SRP498116,PRJNA1092543,ROS CALR and TLR3 B2m signaling balance eat me and do not eat me signals for HSC quality assurance by macrophages,PRJNA1092543,Other,Macrophage quality assures normal blood stem cells use one of these eat me signals that isimportant to determine the number of hematopoietic clones that participate in adult hematopoiesis.Macrophages either engulf a stem cell completely referred to as dooming or capture portions of thestem cell cellular material referred to as grooming. In the latter case  the stem cell continues to divide.This interaction is mediated by a signal called calreticulin Calr on the surface of hematopoietic stem andprogenitor cells HSPCs  known as an eat me signal. Surface Calr levels are increased in stem cells withhigher levels of reactive oxygen species ROS  but the specific molecular cues that regulate the doomingversus grooming behavior are still unknown. We found that b2 microglobulin B2m is a do not eat memolecule and show that both Calr and B2m must balance the eat me and do not eat me cues to qualityassure hematopoietic stem cells.,,,,,CPR 001 DL T1,,strain:runx1+ mCherry|age:3 dpf|dev stage:embryo|collection date:2002 10 10|geo loc name:USA|sex:NA|tissue:CHT|biomaterial provider:sorted runx1 from animals treated with DL theo PPMP|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of DL theo PPMP treated 3 dpf zf,DL 2 R1 001,DL 2 R1 001,runx1+ sorted cells from CHT,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP498116,,,DL-2_R1_001.fastq.gz DL-2_R2_001.fastq.gz,fastq fastq,240708900.0,802363.0,DL 2 R1 001.fastq.gz,0:150 1:150,A:68710578;C:51315587;G:54565553;T:66085206;N:31976,150,150,,,68710578,51315587,54565553,66085206,31976,SRX24073365,SRS20863757,SRA1834365,Harvard|Stem cells,Harvard,,,,,,,,,,,,T,T,mates < 9% mapping rate,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2024-03-27,Larval,Larval,Embryo Imprecise,All anatomical structures
31555,SRR28470428,SRX24073364,SRS20863756,SRP498116,PRJNA1092543,ROS CALR and TLR3 B2m signaling balance eat me and do not eat me signals for HSC quality assurance by macrophages,PRJNA1092543,Other,Macrophage quality assures normal blood stem cells use one of these eat me signals that isimportant to determine the number of hematopoietic clones that participate in adult hematopoiesis.Macrophages either engulf a stem cell completely referred to as dooming or capture portions of thestem cell cellular material referred to as grooming. In the latter case  the stem cell continues to divide.This interaction is mediated by a signal called calreticulin Calr on the surface of hematopoietic stem andprogenitor cells HSPCs  known as an eat me signal. Surface Calr levels are increased in stem cells withhigher levels of reactive oxygen species ROS  but the specific molecular cues that regulate the doomingversus grooming behavior are still unknown. We found that b2 microglobulin B2m is a do not eat memolecule and show that both Calr and B2m must balance the eat me and do not eat me cues to qualityassure hematopoietic stem cells.,,,,,CPR 001 Control 1,,strain:runx1+ mCherry|age:3 dpf|dev stage:embryo|collection date:2002 10 10|geo loc name:USA|sex:NA|tissue:CHT|biomaterial provider:sorted runx1 from animals treated with DMSO|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of DMSO treated 3 dpf zf,Control 1 R1 001,Control 1 R1 001,runx1+ sorted cells from CHT,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP498116,,,Control-1_R1_001.fastq.gz Control-1_R2_001.fastq.gz,fastq fastq,41305561500.0,137685205.0,Control 1 R1 001.fastq.gz,0:150 1:150,A:11621027280;C:8943142144;G:9721464840;T:11014594154;N:5333082,150,150,,,11621027280,8943142144,9721464840,11014594154,5333082,SRX24073364,SRS20863756,SRA1834365,Harvard|Stem cells,Harvard,,,,,,,,,,,,T,T,mates < 9% mapping rate,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2024-03-27,Larval,Larval,Embryo Imprecise,All anatomical structures
31556,SRR28470429,SRX24073363,SRS20863757,SRP498116,PRJNA1092543,ROS CALR and TLR3 B2m signaling balance eat me and do not eat me signals for HSC quality assurance by macrophages,PRJNA1092543,Other,Macrophage quality assures normal blood stem cells use one of these eat me signals that isimportant to determine the number of hematopoietic clones that participate in adult hematopoiesis.Macrophages either engulf a stem cell completely referred to as dooming or capture portions of thestem cell cellular material referred to as grooming. In the latter case  the stem cell continues to divide.This interaction is mediated by a signal called calreticulin Calr on the surface of hematopoietic stem andprogenitor cells HSPCs  known as an eat me signal. Surface Calr levels are increased in stem cells withhigher levels of reactive oxygen species ROS  but the specific molecular cues that regulate the doomingversus grooming behavior are still unknown. We found that b2 microglobulin B2m is a do not eat memolecule and show that both Calr and B2m must balance the eat me and do not eat me cues to qualityassure hematopoietic stem cells.,,,,,CPR 001 DL T1,,strain:runx1+ mCherry|age:3 dpf|dev stage:embryo|collection date:2002 10 10|geo loc name:USA|sex:NA|tissue:CHT|biomaterial provider:sorted runx1 from animals treated with DL theo PPMP|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of DL theo PPMP treated 3 dpf zf,DL 3 R1 001,DL 3 R1 001,runx1+ sorted cells from CHT,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP498116,,,DL-3_R1_001.fastq.gz DL-3_R2_001.fastq.gz,fastq fastq,9449747100.0,31499157.0,DL 3 R1 001.fastq.gz,0:150 1:150,A:2694917481;C:2014601981;G:2174677811;T:2564346933;N:1202894,150,150,,,2694917481,2014601981,2174677811,2564346933,1202894,SRX24073363,SRS20863757,SRA1834365,Harvard|Stem cells,Harvard,,,,,,,,,,,,T,T,mates < 9% mapping rate,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2024-03-27,Larval,Larval,Embryo Imprecise,All anatomical structures
33877,SRR30831722,SRX26231007,SRS22772579,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Mo glulb,Mo glulb3,,strain:Zebrafish|isolate:glulb knock low and repeat3|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:knockdown glulb|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,B3,B3,Three dpf zebrafish  injected with glulb MO embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,glulb-mo-3_combined_R1.fastq.gzip glulb-mo-3_combined_R2.fastq.gzip,fastq fastq,6765297900.0,22550993.0,glulb mo 3 combined R1.fastq.gzip,0:150 1:150,A:1696049453;C:1697070390;G:1692526372;T:1679586337;N:65348,150,150,,,1696049453,1697070390,1692526372,1679586337,65348,SRX26231007,SRS22772579,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33878,SRR30831723,SRX26231006,SRS22772578,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Mo glulb,Mo glulb2,,strain:Zebrafish|isolate:glulb knock low and repeat2|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:knockdown glulb|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,B2,B2,Three dpf zebrafish  injected with glulb MO embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,glulb-mo-2_combined_R1.fastq.gzip glulb-mo-2_combined_R2.fastq.gzip,fastq fastq,6386883900.0,21289613.0,glulb mo 2 combined R1.fastq.gzip,0:150 1:150,A:1576196344;C:1624473486;G:1627410496;T:1558744733;N:58841,150,150,,,1576196344,1624473486,1627410496,1558744733,58841,SRX26231006,SRS22772578,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33879,SRR30831724,SRX26231005,SRS22772577,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Mo glulb,Mo glulb1,,strain:Zebrafish|isolate:glulb knock low and repeat1|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:knockdown glulb|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,B1,B1,Three dpf zebrafish  injected with glulb MO embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,glulb-mo-1_combined_R1.fastq.gzip glulb-mo-1_combined_R2.fastq.gzip,fastq fastq,6189078000.0,20630260.0,glulb mo 1 combined R1.fastq.gzip,0:150 1:150,A:1551726203;C:1551232858;G:1550706768;T:1535352301;N:59870,150,150,,,1551726203,1551232858,1550706768,1535352301,59870,SRX26231005,SRS22772577,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33880,SRR30831725,SRX26231004,SRS22772576,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Mo glula,Mo glula3,,strain:Zebrafish|isolate:glula knock low and repeat3|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:knockdown glula|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,A3,A3,Three dpf zebrafish  injected with glula MO embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,glula3_combined_R1.fastq.gzip glula3_combined_R2.fastq.gzip,fastq fastq,6886259700.0,22954199.0,glula3 combined R1.fastq.gzip,0:150 1:150,A:1750907873;C:1697443208;G:1703063531;T:1734791274;N:53814,150,150,,,1750907873,1697443208,1703063531,1734791274,53814,SRX26231004,SRS22772576,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33881,SRR30831726,SRX26231003,SRS22772575,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Mo glula,Mo glula2,,strain:Zebrafish|isolate:glula knock low and repeat2|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:knockdown glula|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,A2,A2,Three dpf zebrafish  injected with glula MO embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,glula2_combined_R1.fastq.gzip glula2_combined_R2.fastq.gzip,fastq fastq,7317702600.0,24392342.0,glula2 combined R1.fastq.gzip,0:150 1:150,A:1861704662;C:1804143353;G:1805887975;T:1845908506;N:58104,150,150,,,1861704662,1804143353,1805887975,1845908506,58104,SRX26231003,SRS22772575,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33882,SRR30831727,SRX26231002,SRS22772574,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Mo glula,Mo glula1,,strain:Zebrafish|isolate:glula knock low and repeat1|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:knockdown glula|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,A1,A1,Three dpf zebrafish  injected with glula MO embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,glula1_combined_R1.fastq.gzip glula1_combined_R2.fastq.gzip,fastq fastq,7783121100.0,25943737.0,glula1 combined R1.fastq.gzip,0:150 1:150,A:1968987375;C:1929316460;G:1937336741;T:1947419068;N:61456,150,150,,,1968987375,1929316460,1937336741,1947419068,61456,SRX26231002,SRS22772574,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33883,SRR30831728,SRX26231001,SRS22772573,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Control,Control3,,strain:Zebrafish|isolate:Control repeat3|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,C3,C3,Three dpf wild type zebrafish  embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,ctrl-3_combined_R1.fastq.gzip ctrl-3_combined_R2.fastq.gzip,fastq fastq,6812057100.0,22706857.0,ctrl 3 combined R1.fastq.gzip,0:150 1:150,A:1728100118;C:1686773941;G:1686729022;T:1710385294;N:68725,150,150,,,1728100118,1686773941,1686729022,1710385294,68725,SRX26231001,SRS22772573,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33884,SRR30831729,SRX26231000,SRS22772572,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Control,Control2,,strain:Zebrafish|isolate:Control repeat2|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,C2,C2,Three dpf wild type zebrafish  embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,ctrl-2_combined_R1.fastq.gzip ctrl-2_combined_R2.fastq.gzip,fastq fastq,5993621400.0,19978738.0,ctrl 2 combined R1.fastq.gzip,0:150 1:150,A:1520391153;C:1484716627;G:1483642840;T:1504813156;N:57624,150,150,,,1520391153,1484716627,1483642840,1504813156,57624,SRX26231000,SRS22772572,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
33885,SRR30831730,SRX26230999,SRS22772571,SRP535562,PRJNA1166865,Transcriptome data of zebrafish with glula knockdown and glulb knockdown,PRJNA1166865,Other,To investigate global changes in gene expression following the knockdown of glula or glulb in zebrafish  we employed RNA sequencing to analyze the whole genome transcriptomes of glula or glulb knockdown zebrafish. Three dpf wild type zebrafish and zebrafish injected with glula MO and glulb MO were prepared for analysis  with three independent replicates performed for each treatment. The total RNA extraction was performed using TRIzol reagent Invitrogen  United States according to the manufacturer's protocol. Subsequently  the quality and quantity of total RNAs were assessed using a Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit Agilent  CA  United States  ensuring that the RIN values exceeded 7.0. The RNA samples were subsequently submitted to GENEWIZ Science Suzhou  China for deep sequencing using an Illumina Hiseq2500 platform.,,,,Control,Control1,,strain:Zebrafish|isolate:Control repeat1|age:3 days|dev stage:embryo|collection date:2020|geo loc name:China: Jiangsu|sex:pooled male and female|tissue:embryo|cell type:embryo|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,C1,C1,Three dpf wild type zebrafish  embryo,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP535562,,,ctrl-1_combined_R1.fastq.gzip ctrl-1_combined_R2.fastq.gzip,fastq fastq,6318652500.0,21062175.0,ctrl 1 combined R1.fastq.gzip,0:150 1:150,A:1580302980;C:1585719144;G:1587977522;T:1564611148;N:41706,150,150,,,1580302980,1585719144,1587977522,1564611148,41706,SRX26230999,SRS22772571,SRA1981714,Nantong University|School of Life Sciences,Nantong University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,full_length,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-29,Larval,Larval,Embryo Imprecise,All anatomical structures
38358,SRR1790101,SRX866154,SRS837238,SRP053202,PRJNA274440,Danio rerio strain:ZF4 cell Transcriptome or Gene expression,PRJNA274440,Other,Zebrafish ZF4 cell exposed to MMS.,,,zebrafish ZF4 cell exposed to PBS at xxxh control group,PBS,PBS,,strain:ZF4|age:24h|sex:not applicable|tissue:1 dpf zebrafish embryos|treatment:PBS control|BioSampleModel:Model organism or animal,,,,,,,,,zebrafish ZF4 cell post PBS treatment at 24h,PBS,PBS,Library construction: Illumina HiSeq 2000 protocol. Experimental design: MMS Sigma  USA was dissolved in phosphate buffered saline PBS just before use. Zebrafish ZF4 cells ATCC CRL 2050 derived from 1 dpf zebrafish embryos were routinely maintained in a humidified chamber 28C  5% CO2 in DMEM/F 12 medium GIBICO  USA  with 10% v/v fetal bovine serum GIBICO  USA  100 U/ml penicillin and 100 mg/ml streptomycin GIBICO  USA. When confluence reached 70–80 %  cells were treated with 639.16μM MMS or an equal volume of PBS control group and incubated for 24 h. Cells were washed 3 times with cold PBS and detached from the culture plate using trypsin GIBICO  USA for further experiments.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>180</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>91</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP053202,,,PBS_L1_2.fq.gz PBS_L1_1.fq.gz,fastq fastq,4633368120.0,25740934.0,PBS,,,,,,,,,,,,SRX866154,SRS837238,SRA236279,Institute of hydrobiology Chinese academy of scie|Protein Engineering,Institute of hydrobiology Chinese academy of sciences,2,0.9231,0.91127,0.12733,0.12547,0.73547,0.7371,0.54875,0.54758,90,90,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2016-02-04,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
38359,SRR1789379,SRX865976,SRS837148,SRP053202,PRJNA274440,Danio rerio strain:ZF4 cell Transcriptome or Gene expression,PRJNA274440,Other,Zebrafish ZF4 cell exposed to MMS.,,,zebrafish ZF4 cell post MMS treatment at 24h,MMS,MMS,,strain:ZF4|age:24h|sex:missing|tissue:1 dpf zebrafish embryos|cell line:ZF4|BioSampleModel:Model organism or animal,,,,,,,,,The toxicogenomic response of ZF4 cells to methyl methanesulfonate,zebrafish ZF4 cell exposed to MMS,MMS,Library construction: Illumina HiSeq 2000 protocol. Experimental design: MMS Sigma  USA was dissolved in phosphate buffered saline PBS just before use. Zebrafish ZF4 cells ATCC CRL 2050 derived from 1 dpf zebrafish embryos were routinely maintained in a humidified chamber 28C  5% CO2 in DMEM/F 12 medium GIBICO  USA  with 10% v/v fetal bovine serum GIBICO  USA  100 U/ml penicillin and 100 mg/ml streptomycin GIBICO  USA. When confluence reached 70–80 %  cells were treated with 639.16μM MMS or an equal volume of PBS control group and incubated for 24 h. Cells were washed 3 times with cold PBS and detached from the culture plate using trypsin GIBICO  USA for further experiments.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>180</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>91</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP053202,,,MMS_L1_1.fq.gz MMS_L1_2.fq.gz,fastq fastq,4836388500.0,26868825.0,Zebrafish ZF4 cell expoused to MMS,0:90 1:90,A:1311355914;C:1078740323;G:1136692368;T:1309518802;N:81093,90,90,,,1311355914,1078740323,1136692368,1309518802,81093,SRX865976,SRS837148,SRA236279,Institute of hydrobiology Chinese academy of scie|Protein Engineering,Institute of hydrobiology Chinese academy of sciences,2,0.93126,0.9293,0.13504,0.13462,0.74008,0.74253,0.55923,0.53956,90,90,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2016-02-04,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
61824,SRR12998953,SRX9450376,SRS7663343,SRP291417,PRJNA675020,The genome wide impact of nipblb loss of function on zebrafish gene expression,PRJNA675020,Other,Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity  such as the cohesin genes and their regulator NIPBL. In our previous studies  using a zebrafish model for nipblb knock down  we described the effect of nipblb loss of function in specific contexts such as central nervous system development and hematopoiesis. However  the genome wide transcriptional impact of nipblb loss of function in zebrafish embryos at diverse developmental stages remains under investigated. By RNA seq analyses in zebrafish embryos at 24 hpf  we examined genome wide effects of nipblb haploinsufficiency on transcriptional programs. Differential gene expression analysis revealed that nipblb loss of function has a major impact on gene expression at 24 hpf  and that this massive transcriptional dysregulation is rescued by specific back up mechanisms that counteract the transcriptional patterns induced by nipblb silencing. Moreover  we unraveled a connection between nipblb dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes  enforcing our previous evidences on the involvement of NIPBL related transcriptional dysregulation in hematological malignancies.,,,total RNA from zebrafish embryos,,Nipblb 24h 3,,strain:AB|age:24 hpf stage:embryo|sex:not determined|tissue:embryos|biomaterial provider:Prof. Anna Pistocchi  Dept. of Medical Biotechnology and Translational Medicine  University of Milan|replicate:3|genotype:mutated|sample type:whole organism|store cond:immediate extration|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio  Nipblb MO mutated at 24 hpf  replicate 3,Illumina Nipblb 24h 3,Illumina Nipblb 24h 3,RNA extracted from  nipblb MO embryos at 24 hpf were used to prepare Illumina TruSeq Stranded mRNA Library  then sequenced on  Illumina HiSeq 4000 platform by paired end run,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP291417,,,Nipblb_24h_3_R1.fastq.gz Nipblb_24h_3_R2.fastq.gz,fastq fastq,8181438210.0,27090855.0,Nipblb 24h 3 R1.fastq.gz,0:151 1:151,A:2132944325;C:1957634133;G:2049091890;T:2041642294;N:125568,151,151,,,2132944325,1957634133,2049091890,2041642294,125568,SRX9450376,SRS7663343,SRA1155106,National Research Council (CNR)|Institute of Biomedical Technologies,"National Research Council (CNR) Prof. Anna Pistocchi, Dept. of Medical Biotechnology and Translational Medicine -University of Milan",2,0.95635,0.95634,0.04249,0.04194,0.71114,0.71463,0.46258,0.46355,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Italy,2020-11-06,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
61825,SRR12998954,SRX9450375,SRS7663342,SRP291417,PRJNA675020,The genome wide impact of nipblb loss of function on zebrafish gene expression,PRJNA675020,Other,Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity  such as the cohesin genes and their regulator NIPBL. In our previous studies  using a zebrafish model for nipblb knock down  we described the effect of nipblb loss of function in specific contexts such as central nervous system development and hematopoiesis. However  the genome wide transcriptional impact of nipblb loss of function in zebrafish embryos at diverse developmental stages remains under investigated. By RNA seq analyses in zebrafish embryos at 24 hpf  we examined genome wide effects of nipblb haploinsufficiency on transcriptional programs. Differential gene expression analysis revealed that nipblb loss of function has a major impact on gene expression at 24 hpf  and that this massive transcriptional dysregulation is rescued by specific back up mechanisms that counteract the transcriptional patterns induced by nipblb silencing. Moreover  we unraveled a connection between nipblb dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes  enforcing our previous evidences on the involvement of NIPBL related transcriptional dysregulation in hematological malignancies.,,,total RNA from zebrafish embryos,,Nipblb 24h 2,,strain:AB|age:24 hpf stage:embryo|sex:not determined|tissue:embryos|biomaterial provider:Prof. Anna Pistocchi  Dept. of Medical Biotechnology and Translational Medicine  University of Milan|replicate:2|genotype:mutated|sample type:whole organism|store cond:immediate extration|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio  Nipblb MO mutated at 24 hpf  replicate 2,Illumina Nipblb 24h 2,Illumina Nipblb 24h 2,RNA extracted from  nipblb MO embryos at 24 hpf were used to prepare Illumina TruSeq Stranded mRNA Library  then sequenced on  Illumina HiSeq 4000 platform by paired end run,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP291417,,,Nipblb_24h_2_R1.fastq.gz Nipblb_24h_2_R2.fastq.gz,fastq fastq,12849588714.0,42548307.0,Nipblb 24h 2 R1.fastq.gz,0:151 1:151,A:3338078330;C:3079930308;G:3247195790;T:3184188818;N:195468,151,151,,,3338078330,3079930308,3247195790,3184188818,195468,SRX9450375,SRS7663342,SRA1155106,National Research Council (CNR)|Institute of Biomedical Technologies,"National Research Council (CNR) Prof. Anna Pistocchi, Dept. of Medical Biotechnology and Translational Medicine -University of Milan",2,0.95823,0.95812,0.04147,0.04104,0.71108,0.71386,0.47215,0.4694,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Italy,2020-11-06,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
61826,SRR12998955,SRX9450374,SRS7663341,SRP291417,PRJNA675020,The genome wide impact of nipblb loss of function on zebrafish gene expression,PRJNA675020,Other,Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity  such as the cohesin genes and their regulator NIPBL. In our previous studies  using a zebrafish model for nipblb knock down  we described the effect of nipblb loss of function in specific contexts such as central nervous system development and hematopoiesis. However  the genome wide transcriptional impact of nipblb loss of function in zebrafish embryos at diverse developmental stages remains under investigated. By RNA seq analyses in zebrafish embryos at 24 hpf  we examined genome wide effects of nipblb haploinsufficiency on transcriptional programs. Differential gene expression analysis revealed that nipblb loss of function has a major impact on gene expression at 24 hpf  and that this massive transcriptional dysregulation is rescued by specific back up mechanisms that counteract the transcriptional patterns induced by nipblb silencing. Moreover  we unraveled a connection between nipblb dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes  enforcing our previous evidences on the involvement of NIPBL related transcriptional dysregulation in hematological malignancies.,,,total RNA from zebrafish embryos,,Nipblb 24h 1,,strain:AB|age:24 hpf stage:embryo|sex:not determined|tissue:embryos|biomaterial provider:Prof. Anna Pistocchi  Dept. of Medical Biotechnology and Translational Medicine  University of Milan|replicate:1|genotype:mutated|sample type:whole organism|store cond:immediate extration|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio  Nipblb MO mutated at 24 hpf  replicate 1,Illumina Nipblb 24h 1,Illumina Nipblb 24h 1,RNA extracted from  nipblb MO embryos at 24 hpf were used to prepare Illumina TruSeq Stranded mRNA Library  then sequenced on  Illumina HiSeq 4000 platform by paired end run,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP291417,,,Nipblb_24h_1_R1.fastq.gz Nipblb_24h_1_R2.fastq.gz,fastq fastq,10997889606.0,36416853.0,Nipblb 24h 1 R1.fastq.gz,0:151 1:151,A:2901814647;C:2598572158;G:2704147610;T:2793193400;N:161791,151,151,,,2901814647,2598572158,2704147610,2793193400,161791,SRX9450374,SRS7663341,SRA1155106,National Research Council (CNR)|Institute of Biomedical Technologies,"National Research Council (CNR) Prof. Anna Pistocchi, Dept. of Medical Biotechnology and Translational Medicine -University of Milan",2,0.95506,0.9539,0.05267,0.05169,0.70954,0.7139,0.47629,0.47367,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Italy,2020-11-06,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
61827,SRR12998959,SRX9450370,SRS7663337,SRP291417,PRJNA675020,The genome wide impact of nipblb loss of function on zebrafish gene expression,PRJNA675020,Other,Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity  such as the cohesin genes and their regulator NIPBL. In our previous studies  using a zebrafish model for nipblb knock down  we described the effect of nipblb loss of function in specific contexts such as central nervous system development and hematopoiesis. However  the genome wide transcriptional impact of nipblb loss of function in zebrafish embryos at diverse developmental stages remains under investigated. By RNA seq analyses in zebrafish embryos at 24 hpf  we examined genome wide effects of nipblb haploinsufficiency on transcriptional programs. Differential gene expression analysis revealed that nipblb loss of function has a major impact on gene expression at 24 hpf  and that this massive transcriptional dysregulation is rescued by specific back up mechanisms that counteract the transcriptional patterns induced by nipblb silencing. Moreover  we unraveled a connection between nipblb dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes  enforcing our previous evidences on the involvement of NIPBL related transcriptional dysregulation in hematological malignancies.,,,total RNA from zebrafish embryos,,CTRL 24h 3,,strain:AB|age:24 hpf stage:embryo|sex:not determined|tissue:embryos|biomaterial provider:Prof. Anna Pistocchi  Dept. of Medical Biotechnology and Translational Medicine  University of Milan|replicate:3|genotype:wild type|sample type:whole organism|store cond:immediate extration|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio  control MO wild type at 24 hpf  replicate 3,Illumina CTRL 24h 3,Illumina CTRL 24h 3,RNA extracted from  ctrl MO embryos at 24 hpf were used to prepare Illumina TruSeq Stranded mRNA Library  then sequenced on  Illumina HiSeq 4000 platform by paired end run,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP291417,,,CTRL_24h_3_R1.fastq.gz CTRL_24h_3_R2.fastq.gz,fastq fastq,11743125342.0,38884521.0,CTRL 24h 3 R1.fastq.gz,0:151 1:151,A:3020506340;C:2830362106;G:2947603520;T:2944481126;N:172250,151,151,,,3020506340,2830362106,2947603520,2944481126,172250,SRX9450370,SRS7663337,SRA1155106,National Research Council (CNR)|Institute of Biomedical Technologies,"National Research Council (CNR) Prof. Anna Pistocchi, Dept. of Medical Biotechnology and Translational Medicine -University of Milan",2,0.95692,0.95604,0.05664,0.05614,0.67375,0.6786,0.4617,0.45912,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Italy,2020-11-06,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
61828,SRR12998962,SRX9450367,SRS7663334,SRP291417,PRJNA675020,The genome wide impact of nipblb loss of function on zebrafish gene expression,PRJNA675020,Other,Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity  such as the cohesin genes and their regulator NIPBL. In our previous studies  using a zebrafish model for nipblb knock down  we described the effect of nipblb loss of function in specific contexts such as central nervous system development and hematopoiesis. However  the genome wide transcriptional impact of nipblb loss of function in zebrafish embryos at diverse developmental stages remains under investigated. By RNA seq analyses in zebrafish embryos at 24 hpf  we examined genome wide effects of nipblb haploinsufficiency on transcriptional programs. Differential gene expression analysis revealed that nipblb loss of function has a major impact on gene expression at 24 hpf  and that this massive transcriptional dysregulation is rescued by specific back up mechanisms that counteract the transcriptional patterns induced by nipblb silencing. Moreover  we unraveled a connection between nipblb dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes  enforcing our previous evidences on the involvement of NIPBL related transcriptional dysregulation in hematological malignancies.,,,total RNA from zebrafish embryos,,CTRL 24h 2,,strain:AB|age:24 hpf stage:embryo|sex:not determined|tissue:embryos|biomaterial provider:Prof. Anna Pistocchi  Dept. of Medical Biotechnology and Translational Medicine  University of Milan|replicate:2|genotype:wild type|sample type:whole organism|store cond:immediate extration|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio  control MO wild type at 24 hpf  replicate 2,Illumina CTRL 24h 2,Illumina CTRL 24h 2,RNA extracted from  ctrl MO embryos at 24 hpf were used to prepare Illumina TruSeq Stranded mRNA Library  then sequenced on  Illumina HiSeq 4000 platform by paired end run,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP291417,,,CTRL_24h_2_R1.fastq.gz CTRL_24h_2_R2.fastq.gz,fastq fastq,12249006146.0,40559623.0,CTRL 24h 2 R1.fastq.gz,0:151 1:151,A:3182596147;C:2937226102;G:3070822194;T:3058177433;N:184270,151,151,,,3182596147,2937226102,3070822194,3058177433,184270,SRX9450367,SRS7663334,SRA1155106,National Research Council (CNR)|Institute of Biomedical Technologies,"National Research Council (CNR) Prof. Anna Pistocchi, Dept. of Medical Biotechnology and Translational Medicine -University of Milan",2,0.95517,0.95635,0.05877,0.05793,0.67687,0.67976,0.44921,0.45064,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Italy,2020-11-06,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures
61829,SRR12998963,SRX9450366,SRS7663333,SRP291417,PRJNA675020,The genome wide impact of nipblb loss of function on zebrafish gene expression,PRJNA675020,Other,Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity  such as the cohesin genes and their regulator NIPBL. In our previous studies  using a zebrafish model for nipblb knock down  we described the effect of nipblb loss of function in specific contexts such as central nervous system development and hematopoiesis. However  the genome wide transcriptional impact of nipblb loss of function in zebrafish embryos at diverse developmental stages remains under investigated. By RNA seq analyses in zebrafish embryos at 24 hpf  we examined genome wide effects of nipblb haploinsufficiency on transcriptional programs. Differential gene expression analysis revealed that nipblb loss of function has a major impact on gene expression at 24 hpf  and that this massive transcriptional dysregulation is rescued by specific back up mechanisms that counteract the transcriptional patterns induced by nipblb silencing. Moreover  we unraveled a connection between nipblb dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes  enforcing our previous evidences on the involvement of NIPBL related transcriptional dysregulation in hematological malignancies.,,,total RNA from zebrafish embryos,,CTRL 24h 1,,strain:AB|age:24 hpf stage:embryo|sex:not determined|tissue:embryos|biomaterial provider:Prof. Anna Pistocchi  Dept. of Medical Biotechnology and Translational Medicine  University of Milan|replicate:1|genotype:wild type|sample type:whole organism|store cond:immediate extration|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio  control MO wild type at 24 hpf  replicate 1,Illumina CTRL 24h 1,Illumina CTRL 24h 1,RNA extracted from  ctrl MO embryos at 24 hpf were used to prepare Illumina TruSeq Stranded mRNA Library  then sequenced on  Illumina HiSeq 4000 platform by paired end run,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP291417,,,CTRL_24h_1_R1.fastq.gz CTRL_24h_1_R2.fastq.gz,fastq fastq,15075335358.0,49918329.0,CTRL 24h 1 R1.fastq.gz,0:151 1:151,A:3961053626;C:3558857892;G:3704787969;T:3850418311;N:217560,151,151,,,3961053626,3558857892,3704787969,3850418311,217560,SRX9450366,SRS7663333,SRA1155106,National Research Council (CNR)|Institute of Biomedical Technologies,"National Research Council (CNR) Prof. Anna Pistocchi, Dept. of Medical Biotechnology and Translational Medicine -University of Milan",2,0.95337,0.95326,0.06617,0.06479,0.67312,0.67596,0.46164,0.46562,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Italy,2020-11-06,Pharyngula,Embryo,Embryo Imprecise,All anatomical structures