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
9361,ERR3011947,ERX3014407,ERS2994081,ERP112907,PRJEB30451,Effects of anti androgenic compounds on zebrafish insulin mutants,E-MTAB-7283,Transcriptome Analysis,Aiming to identify insulin independent modulators of glucose homeostasis  we performed a drug screen on zebrafish insulin ins mutants and identified androgen receptor AR antagonists.  To investigate how AR antagonism mediates glucose level reduction in ins mutants  we evaluated the effects of antagonist treatment using transcriptomic studies.  RNA Seq analyses were performed on 120 hpf ins mutants treated with Flutamide or Cyproterone starting at 84 hpf compared to vehicle DMSO treated mutants.,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,,Protocols: insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water. 10 animals per sample were pooled  water was removed and Trizol was added. Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf. Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Flutamide 2,SAMEA5186582,Max Planck Institute for Heart and Lung Research,ENA FIRST PUBLIC:2018 12 21T17:03:09Z|ENA LAST UPDATE:2018 12 18T09:28:56Z|External Id:SAMEA5186582|INSDC center name:Max Planck Institute for Heart and Lung Research|INSDC first public:2018 12 21T17:03:09Z|INSDC last update:2018 12 18T09:28:56Z|INSDC status:public|Submitter Id:E MTAB 7283:Flutamide 2|age:120|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:ins CRISPR/Cas9 mediated knockout|individual:mixed pool of 10 embryos|organism part:whole organism|sample name:E MTAB 7283:Flutamide 2|scientific name:Danio rerio|strain:ins bns102,,,,,,,,,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,E MTAB 7283:Flutamide 2 s,Flutamide 2 s,Effects of anti androgenic compounds on zebrafish insulin mutants,insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water.  10 animals per sample were pooled  water was removed and Trizol was added.  Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf.  Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Experimental Factor: compound:flutamide|Experimental Factor: dose:10,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,ERP112907,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,Teja_Flutamide_2_R1.fastq.gz,fastq,1754963940.0,23552243.0,E MTAB 7283:Flutamide 2,0:74.51 1:0,A:455444321;C:410713896;G:385640226;T:503155736;N:9761,74,0,,,455444321,410713896,385640226,503155736,9761,ERX3014407,ERS2994081,ERA1697296,European Nucleotide Archive,European Nucleotide Archive,1,0.94351,,0.11595,,0.67483,,0.48762,,73,,B,,usable mapping rate,illumina,nextseq,unknown,poly_a,trueseq,bulk,unknown,unknown,,Unknown,2018-12-18,Larval,Larval,Embryo Imprecise,All anatomical structures
9362,ERR3011946,ERX3014406,ERS2994080,ERP112907,PRJEB30451,Effects of anti androgenic compounds on zebrafish insulin mutants,E-MTAB-7283,Transcriptome Analysis,Aiming to identify insulin independent modulators of glucose homeostasis  we performed a drug screen on zebrafish insulin ins mutants and identified androgen receptor AR antagonists.  To investigate how AR antagonism mediates glucose level reduction in ins mutants  we evaluated the effects of antagonist treatment using transcriptomic studies.  RNA Seq analyses were performed on 120 hpf ins mutants treated with Flutamide or Cyproterone starting at 84 hpf compared to vehicle DMSO treated mutants.,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,,Protocols: insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water. 10 animals per sample were pooled  water was removed and Trizol was added. Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf. Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Flutamide 1,SAMEA5186581,Max Planck Institute for Heart and Lung Research,ENA FIRST PUBLIC:2018 12 21T17:03:09Z|ENA LAST UPDATE:2018 12 18T09:28:56Z|External Id:SAMEA5186581|INSDC center name:Max Planck Institute for Heart and Lung Research|INSDC first public:2018 12 21T17:03:09Z|INSDC last update:2018 12 18T09:28:56Z|INSDC status:public|Submitter Id:E MTAB 7283:Flutamide 1|age:120|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:ins CRISPR/Cas9 mediated knockout|individual:mixed pool of 10 embryos|organism part:whole organism|sample name:E MTAB 7283:Flutamide 1|scientific name:Danio rerio|strain:ins bns102,,,,,,,,,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,E MTAB 7283:Flutamide 1 s,Flutamide 1 s,Effects of anti androgenic compounds on zebrafish insulin mutants,insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water.  10 animals per sample were pooled  water was removed and Trizol was added.  Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf.  Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Experimental Factor: compound:flutamide|Experimental Factor: dose:10,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,ERP112907,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,Teja_Flutamide_1_R1.fastq.gz,fastq,1631102863.0,21898245.0,E MTAB 7283:Flutamide 1,0:74.49 1:0,A:424378341;C:380806325;G:358128992;T:467779945;N:9260,74,0,,,424378341,380806325,358128992,467779945,9260,ERX3014406,ERS2994080,ERA1697296,European Nucleotide Archive,European Nucleotide Archive,1,0.94332,,0.11797,,0.67596,,0.48847,,75,,B,,usable mapping rate,illumina,nextseq,unknown,poly_a,trueseq,bulk,unknown,unknown,,Unknown,2018-12-18,Larval,Larval,Embryo Imprecise,All anatomical structures
9363,ERR3011945,ERX3014405,ERS2994079,ERP112907,PRJEB30451,Effects of anti androgenic compounds on zebrafish insulin mutants,E-MTAB-7283,Transcriptome Analysis,Aiming to identify insulin independent modulators of glucose homeostasis  we performed a drug screen on zebrafish insulin ins mutants and identified androgen receptor AR antagonists.  To investigate how AR antagonism mediates glucose level reduction in ins mutants  we evaluated the effects of antagonist treatment using transcriptomic studies.  RNA Seq analyses were performed on 120 hpf ins mutants treated with Flutamide or Cyproterone starting at 84 hpf compared to vehicle DMSO treated mutants.,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,,Protocols: insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water. 10 animals per sample were pooled  water was removed and Trizol was added. Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf. Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,DMSO 2,SAMEA5186580,Max Planck Institute for Heart and Lung Research,ENA FIRST PUBLIC:2018 12 21T17:03:09Z|ENA LAST UPDATE:2018 12 18T09:28:56Z|External Id:SAMEA5186580|INSDC center name:Max Planck Institute for Heart and Lung Research|INSDC first public:2018 12 21T17:03:09Z|INSDC last update:2018 12 18T09:28:56Z|INSDC status:public|Submitter Id:E MTAB 7283:DMSO 2|age:120|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:ins CRISPR/Cas9 mediated knockout|individual:mixed pool of 10 embryos|organism part:whole organism|sample name:E MTAB 7283:DMSO 2|scientific name:Danio rerio|strain:ins bns102,,,,,,,,,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,E MTAB 7283:DMSO 2 s,DMSO 2 s,Effects of anti androgenic compounds on zebrafish insulin mutants,insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water.  10 animals per sample were pooled  water was removed and Trizol was added.  Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf.  Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Experimental Factor: compound:dimethyl sulfoxide|Experimental Factor: dose:1,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,ERP112907,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,Teja_DMSO_2_R1.fastq.gz,fastq,1811573293.0,24316929.0,E MTAB 7283:DMSO 2,0:74.50 1:0,A:470888315;C:423635861;G:396796840;T:520242179;N:10098,74,0,,,470888315,423635861,396796840,520242179,10098,ERX3014405,ERS2994079,ERA1697296,European Nucleotide Archive,European Nucleotide Archive,1,0.94219,,0.12305,,0.67184,,0.47704,,75,,B,,usable mapping rate,illumina,nextseq,unknown,poly_a,trueseq,bulk,unknown,unknown,,Unknown,2018-12-18,Larval,Larval,Embryo Imprecise,All anatomical structures
9364,ERR3011944,ERX3014404,ERS2994078,ERP112907,PRJEB30451,Effects of anti androgenic compounds on zebrafish insulin mutants,E-MTAB-7283,Transcriptome Analysis,Aiming to identify insulin independent modulators of glucose homeostasis  we performed a drug screen on zebrafish insulin ins mutants and identified androgen receptor AR antagonists.  To investigate how AR antagonism mediates glucose level reduction in ins mutants  we evaluated the effects of antagonist treatment using transcriptomic studies.  RNA Seq analyses were performed on 120 hpf ins mutants treated with Flutamide or Cyproterone starting at 84 hpf compared to vehicle DMSO treated mutants.,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,,Protocols: insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water. 10 animals per sample were pooled  water was removed and Trizol was added. Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf. Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,DMSO 1,SAMEA5186579,Max Planck Institute for Heart and Lung Research,ENA FIRST PUBLIC:2018 12 21T17:03:09Z|ENA LAST UPDATE:2018 12 18T09:28:56Z|External Id:SAMEA5186579|INSDC center name:Max Planck Institute for Heart and Lung Research|INSDC first public:2018 12 21T17:03:09Z|INSDC last update:2018 12 18T09:28:56Z|INSDC status:public|Submitter Id:E MTAB 7283:DMSO 1|age:120|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:ins CRISPR/Cas9 mediated knockout|individual:mixed pool of 10 embryos|organism part:whole organism|sample name:E MTAB 7283:DMSO 1|scientific name:Danio rerio|strain:ins bns102,,,,,,,,,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,E MTAB 7283:DMSO 1 s,DMSO 1 s,Effects of anti androgenic compounds on zebrafish insulin mutants,insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water.  10 animals per sample were pooled  water was removed and Trizol was added.  Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf.  Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Experimental Factor: compound:dimethyl sulfoxide|Experimental Factor: dose:1,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,ERP112907,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,Teja_DMSO_1_R1.fastq.gz,fastq,1609807409.0,21611475.0,E MTAB 7283:DMSO 1,0:74.49 1:0,A:420253680;C:374436301;G:352526427;T:462581933;N:9068,74,0,,,420253680,374436301,352526427,462581933,9068,ERX3014404,ERS2994078,ERA1697296,European Nucleotide Archive,European Nucleotide Archive,1,0.94094,,0.12292,,0.67006,,0.48442,,75,,B,,usable mapping rate,illumina,nextseq,unknown,poly_a,trueseq,bulk,unknown,unknown,,Unknown,2018-12-18,Larval,Larval,Embryo Imprecise,All anatomical structures
9365,ERR3011943,ERX3014403,ERS2994077,ERP112907,PRJEB30451,Effects of anti androgenic compounds on zebrafish insulin mutants,E-MTAB-7283,Transcriptome Analysis,Aiming to identify insulin independent modulators of glucose homeostasis  we performed a drug screen on zebrafish insulin ins mutants and identified androgen receptor AR antagonists.  To investigate how AR antagonism mediates glucose level reduction in ins mutants  we evaluated the effects of antagonist treatment using transcriptomic studies.  RNA Seq analyses were performed on 120 hpf ins mutants treated with Flutamide or Cyproterone starting at 84 hpf compared to vehicle DMSO treated mutants.,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,,Protocols: insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water. 10 animals per sample were pooled  water was removed and Trizol was added. Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf. Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Cyproter1 2,SAMEA5186578,Max Planck Institute for Heart and Lung Research,ENA FIRST PUBLIC:2018 12 21T17:03:09Z|ENA LAST UPDATE:2018 12 18T09:28:56Z|External Id:SAMEA5186578|INSDC center name:Max Planck Institute for Heart and Lung Research|INSDC first public:2018 12 21T17:03:09Z|INSDC last update:2018 12 18T09:28:56Z|INSDC status:public|Submitter Id:E MTAB 7283:Cyproter1 2|age:120|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:ins CRISPR/Cas9 mediated knockout|individual:mixed pool of 10 embryos|organism part:whole organism|sample name:E MTAB 7283:Cyproter1 2|scientific name:Danio rerio|strain:ins bns102,,,,,,,,,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,E MTAB 7283:Cyproterone 2 s,Cyproterone 2 s,Effects of anti androgenic compounds on zebrafish insulin mutants,insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water.  10 animals per sample were pooled  water was removed and Trizol was added.  Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf.  Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Experimental Factor: compound:cyproter1|Experimental Factor: dose:10,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,ERP112907,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,Teja_Cyproterone_2_R1.fastq.gz,fastq,1823142918.0,24468337.0,E MTAB 7283:Cyproterone 2,0:74.51 1:0,A:469387174;C:428783310;G:403791044;T:521171021;N:10369,74,0,,,469387174,428783310,403791044,521171021,10369,ERX3014403,ERS2994077,ERA1697296,European Nucleotide Archive,European Nucleotide Archive,1,0.9432,,0.11718,,0.67389,,0.4768,,74,,B,,usable mapping rate,illumina,nextseq,unknown,poly_a,trueseq,bulk,unknown,unknown,,Unknown,2018-12-18,Larval,Larval,Embryo Imprecise,All anatomical structures
9366,ERR3011942,ERX3014402,ERS2994076,ERP112907,PRJEB30451,Effects of anti androgenic compounds on zebrafish insulin mutants,E-MTAB-7283,Transcriptome Analysis,Aiming to identify insulin independent modulators of glucose homeostasis  we performed a drug screen on zebrafish insulin ins mutants and identified androgen receptor AR antagonists.  To investigate how AR antagonism mediates glucose level reduction in ins mutants  we evaluated the effects of antagonist treatment using transcriptomic studies.  RNA Seq analyses were performed on 120 hpf ins mutants treated with Flutamide or Cyproterone starting at 84 hpf compared to vehicle DMSO treated mutants.,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,,Protocols: insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water. 10 animals per sample were pooled  water was removed and Trizol was added. Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf. Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Cyproter1 1,SAMEA5186577,Max Planck Institute for Heart and Lung Research,ENA FIRST PUBLIC:2018 12 21T17:03:09Z|ENA LAST UPDATE:2018 12 18T09:28:56Z|External Id:SAMEA5186577|INSDC center name:Max Planck Institute for Heart and Lung Research|INSDC first public:2018 12 21T17:03:09Z|INSDC last update:2018 12 18T09:28:56Z|INSDC status:public|Submitter Id:E MTAB 7283:Cyproter1 1|age:120|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:ins CRISPR/Cas9 mediated knockout|individual:mixed pool of 10 embryos|organism part:whole organism|sample name:E MTAB 7283:Cyproter1 1|scientific name:Danio rerio|strain:ins bns102,,,,,,,,,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,E MTAB 7283:Cyproterone 1 s,Cyproterone 1 s,Effects of anti androgenic compounds on zebrafish insulin mutants,insulin mutant embryos were obtained from two different crosses biological replicates. Embryos were grown at 28 degrees C in egg water.  10 animals per sample were pooled  water was removed and Trizol was added.  Animals were treated with 1% DMSO or Flutamide 10 micromolar or Cyproterone 10 micromolar from 84 hpf to 120 hpf.  Total RNA was isolated from 120 hpf zebrafish using the RNA Clean & Concentrator kit Zymo Research combined with DNase digestion RNase free DNase Set  Promega to avoid contamination by genomic DNA. 3µg of total RNA was used as input for Truseq Stranded mRNA Library preparation following manufacture's low sample protocol Illumina,Experimental Factor: compound:cyproter1|Experimental Factor: dose:10,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,ERP112907,NextSeq 500 sequencing; Effects of anti androgenic compounds on zebrafish insulin mutants,ENA FIRST PUBLIC:2018 12 21|ENA LAST UPDATE:2018 12 18,Teja_Cyproterone_1_R1.fastq.gz,fastq,1901027130.0,25512731.0,E MTAB 7283:Cyproterone 1,0:74.51 1:0,A:487302419;C:449208827;G:422183780;T:542321577;N:10527,74,0,,,487302419,449208827,422183780,542321577,10527,ERX3014402,ERS2994076,ERA1697296,European Nucleotide Archive,European Nucleotide Archive,1,0.94427,,0.11318,,0.67294,,0.47183,,75,,B,,usable mapping rate,illumina,nextseq,unknown,poly_a,trueseq,bulk,unknown,unknown,,Unknown,2018-12-18,Larval,Larval,Embryo Imprecise,All anatomical structures
11041,ERR9995536,ERX9536682,ERS12521224,ERP138294,PRJEB53494,Nano3P seq: transcriptome wide analysis of gene expression and tail dynamics using end capture nanopore cDNA sequencing,94bf5509-4622-4d5f-b7c5-6a14bdfac340,Other,RNA polyadenylation plays a central role in RNA maturation  fate  and stability. In response to developmental cues  polyA tail lengths can vary  affecting the translation efficiency and stability of mRNAs. Here  we develop Nanopore three prime end capture sequencing Nano3P seq  a novel method that relies on nanopore cDNA sequencing to simultaneously quantify RNA abundance  tail composition and tail length dynamics at per read resolution. By employing a template switching based sequencing protocol  Nano3P seq can sequence any given RNA molecule from its three prime end  regardless of its polyadenylation status  without xxx need for PCR amplification or ligation of RNA adapters. We demonstrate that Nano3P seq captures a wide diversity of RNA biotypes  providing quantitative estimates of RNA abundance and tail lengths in mRNA  lncRNA  sn/snoRNA  scaRNA  and rRNA molecules. We find that  in addition to mRNA and lncRNA  polyA tails can be identified in 16S mitochondrial rRNA in both mouse and zebrafish models. Moreover  we show that mRNA tail lengths are dynamically regulated during vertebrate embryogenesis at an isoform specific level  correlating with mRNA decay. Finally  we identify non A bases within polyA tails of various lengths and reveal their distribution during vertebrate embryogenesis.  Overall  Nano3P seq is a simple and robust method for accurately estimating transcript levels  tail lengths  and tail composition heterogeneity in individual reads  with minimal library preparation biases  both in the coding and non coding transcriptome.,ENA FIRST PUBLIC:2022 10 10|ENA LAST UPDATE:2022 10 10,,dRNA seq of 4hpf Zebrafish embryos,Zebrafish dRNA 4hpf,SAMEA110422854,CENTER FOR GENOMIC REGULATION (CRG),ENA FIRST PUBLIC:2022 10 10|ENA LAST UPDATE:2022 10 10|External Id:SAMEA110422854|INSDC center alias:CENTER FOR GENOMIC REGULATION CRG|INSDC center name:CENTER FOR GENOMIC REGULATION CRG|INSDC first public:2022 10 10T00:21:01Z|INSDC last update:2022 10 10T00:21:01Z|INSDC status:public|Submitter Id:Zebrafish dRNA 4hpf|common name:zebrafish|sample name:Zebrafish dRNA 4hpf,,,,,,,,,MinION sequencing,ena EXPERIMENT TAB 27 07 2022 11:41:43:673 3,Zebrafish dRNA 4hpf,1,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,OXFORD_NANOPORE,MinION,,ERP138294,MinION sequencing,ENA FIRST PUBLIC:2022 10 10|ENA LAST UPDATE:2022 10 10|instrument model:PromethION,PDBN042841_dRNA_4hpf.tar.gz,nanopore,772304625.0,897768.0,ena RUN TAB 27 07 2022 11:41:43:690 4,0:860.25,A:224977035;C:165273397;G:156659356;T:225394837;N:0,860,,,,224977035,165273397,156659356,225394837,0,ERX9536682,ERS12521224,ERA16500713,CENTER FOR GENOMIC REGULATION (CRG)|European Nucleotide Archive,CENTER FOR GENOMIC REGULATION (CRG),,,,,,,,,,,,,,,ont,ont,3prime,poly_a,unknown,bulk,unknown,unknown,,Spain,2022-10-10,Blastula,Embryo,Embryo Imprecise,All anatomical structures
26499,SRR26031755,SRX21749012,SRS18856550,SRP459729,PRJNA1015262,Rtf1 dependent transcriptional pausing regulates cardiogenesis,PRJNA1015262,Other,During heart development  an evolutionarily conserved network of cardiac transcription factors collaborate to define the precise timing and location of cardiac progenitor specification. Accumulating evidence suggests that cardiac progenitor specification is subject to transcriptional control beyond the level of transcription initiation. The PAF1C component Rtf1 is a multifunctional transcription regulatory protein that modulates pausing and elongation of RNA Pol II  as well as histone epigenetic modifications. By transient knockdown and CRISPR mutagenesis  we found that Rtf1 is essential for cardiogenesis and that without xxx activity  cardiac progenitors arrest in an immature state. This role in early cardiogenesis was evolutionarily conserved between fish and mammals. We also found that Rtf1's Plus3 domain  which confers interaction with the pausing/elongation factor Spt5  was required for Rtf1's ability to support cardiac progenitor formation  while other regions of the protein were dispensable. We examined the occupancy of RNA Pol II at cardiac genes in rtf1 morphants using ChIP seq and found that Pol II signals at the TSS of genes was reduced  suggesting a reduction in transcriptional pausing. Intriguingly  pharmacological or morpholino antisense reduction of pause release in rtf1 morphants and mutants restored the formation of cardiac cells and improved Pol II occupancy at the TSS of key cardiac genes. Our findings highlight the crucial role that transcriptional pausing plays in promoting normal levels of gene expression in a cardiac developmental context.,,,,,RNAseq hand2FACS rtf1MO 3,,strain:TgBAChand2:EGFPpd24|dev stage:10 12 somite stage|collection date:2020 07 14|geo loc name:USA:California Los Angeles|sex:n/a|tissue:hand2:GFP positive cells|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of hand2:GFP positive cells from 10 12 somite stage zebrafish embryos,M3,MO3,NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina from 5 10 ng input RNA,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP459729,,,RNAseq_hand2FACS_rtf1MO_3.fastq,fastq,793876754.0,15197870.0,RNAseq hand2FACS rtf1MO 3.fastq,0:52.24,A:208793415;C:174763420;G:174630814;T:235479388;N:209717,52,,,,208793415,174763420,174630814,235479388,209717,SRX21749012,SRS18856550,SRA1709841,"University of California, Los Angeles|Molecular, Cell, and Developmental Biology","University of California, Los Angeles",1,0.88868,,0.1097,,0.77644,,0.51136,,53,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,nebnext,bulk,unknown,unknown,,United States,2023-09-11,Segmentation,Embryo,Embryo Imprecise,All anatomical structures
26500,SRR26031756,SRX21749011,SRS18856545,SRP459729,PRJNA1015262,Rtf1 dependent transcriptional pausing regulates cardiogenesis,PRJNA1015262,Other,During heart development  an evolutionarily conserved network of cardiac transcription factors collaborate to define the precise timing and location of cardiac progenitor specification. Accumulating evidence suggests that cardiac progenitor specification is subject to transcriptional control beyond the level of transcription initiation. The PAF1C component Rtf1 is a multifunctional transcription regulatory protein that modulates pausing and elongation of RNA Pol II  as well as histone epigenetic modifications. By transient knockdown and CRISPR mutagenesis  we found that Rtf1 is essential for cardiogenesis and that without xxx activity  cardiac progenitors arrest in an immature state. This role in early cardiogenesis was evolutionarily conserved between fish and mammals. We also found that Rtf1's Plus3 domain  which confers interaction with the pausing/elongation factor Spt5  was required for Rtf1's ability to support cardiac progenitor formation  while other regions of the protein were dispensable. We examined the occupancy of RNA Pol II at cardiac genes in rtf1 morphants using ChIP seq and found that Pol II signals at the TSS of genes was reduced  suggesting a reduction in transcriptional pausing. Intriguingly  pharmacological or morpholino antisense reduction of pause release in rtf1 morphants and mutants restored the formation of cardiac cells and improved Pol II occupancy at the TSS of key cardiac genes. Our findings highlight the crucial role that transcriptional pausing plays in promoting normal levels of gene expression in a cardiac developmental context.,,,,,RNAseq hand2FACS rtf1MO 2,,strain:TgBAChand2:EGFPpd24|dev stage:10 12 somite stage|collection date:2020 07 07|geo loc name:USA:California Los Angeles|sex:n/a|tissue:hand2:GFP positive cells|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of hand2:GFP positive cells from 10 12 somite stage zebrafish embryos,M2,MO2,NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina from 5 10 ng input RNA,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP459729,,,RNAseq_hand2FACS_rtf1MO_2.fastq,fastq,864787205.0,16568310.0,RNAseq hand2FACS rtf1MO 2.fastq,0:52.20,A:227648729;C:189720880;G:190025417;T:257026454;N:365725,52,,,,227648729,189720880,190025417,257026454,365725,SRX21749011,SRS18856545,SRA1709841,"University of California, Los Angeles|Molecular, Cell, and Developmental Biology","University of California, Los Angeles",1,0.87433,,0.10781,,0.77366,,0.50792,,53,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,nebnext,bulk,unknown,unknown,,United States,2023-09-11,Segmentation,Embryo,Embryo Imprecise,All anatomical structures
26501,SRR26031757,SRX21749010,SRS18856549,SRP459729,PRJNA1015262,Rtf1 dependent transcriptional pausing regulates cardiogenesis,PRJNA1015262,Other,During heart development  an evolutionarily conserved network of cardiac transcription factors collaborate to define the precise timing and location of cardiac progenitor specification. Accumulating evidence suggests that cardiac progenitor specification is subject to transcriptional control beyond the level of transcription initiation. The PAF1C component Rtf1 is a multifunctional transcription regulatory protein that modulates pausing and elongation of RNA Pol II  as well as histone epigenetic modifications. By transient knockdown and CRISPR mutagenesis  we found that Rtf1 is essential for cardiogenesis and that without xxx activity  cardiac progenitors arrest in an immature state. This role in early cardiogenesis was evolutionarily conserved between fish and mammals. We also found that Rtf1's Plus3 domain  which confers interaction with the pausing/elongation factor Spt5  was required for Rtf1's ability to support cardiac progenitor formation  while other regions of the protein were dispensable. We examined the occupancy of RNA Pol II at cardiac genes in rtf1 morphants using ChIP seq and found that Pol II signals at the TSS of genes was reduced  suggesting a reduction in transcriptional pausing. Intriguingly  pharmacological or morpholino antisense reduction of pause release in rtf1 morphants and mutants restored the formation of cardiac cells and improved Pol II occupancy at the TSS of key cardiac genes. Our findings highlight the crucial role that transcriptional pausing plays in promoting normal levels of gene expression in a cardiac developmental context.,,,,,RNAseq hand2FACS rtf1MO 1,,strain:TgBAChand2:EGFPpd24|dev stage:10 12 somite stage|collection date:2020 03 04|geo loc name:USA:California Los Angeles|sex:n/a|tissue:hand2:GFP positive cells|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of hand2:GFP positive cells from 10 12 somite stage zebrafish embryos,M1,MO1,NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina from 5 10 ng input RNA,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP459729,,,RNAseq_hand2FACS_rtf1MO_1.fastq,fastq,821983134.0,15737564.0,RNAseq hand2FACS rtf1MO 1.fastq,0:52.23,A:216610704;C:179969953;G:180145537;T:245093230;N:163710,52,,,,216610704,179969953,180145537,245093230,163710,SRX21749010,SRS18856549,SRA1709841,"University of California, Los Angeles|Molecular, Cell, and Developmental Biology","University of California, Los Angeles",1,0.88099,,0.09837,,0.78007,,0.50262,,53,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,nebnext,bulk,unknown,unknown,,United States,2023-09-11,Segmentation,Embryo,Embryo Imprecise,All anatomical structures
26502,SRR26031758,SRX21749009,SRS18856546,SRP459729,PRJNA1015262,Rtf1 dependent transcriptional pausing regulates cardiogenesis,PRJNA1015262,Other,During heart development  an evolutionarily conserved network of cardiac transcription factors collaborate to define the precise timing and location of cardiac progenitor specification. Accumulating evidence suggests that cardiac progenitor specification is subject to transcriptional control beyond the level of transcription initiation. The PAF1C component Rtf1 is a multifunctional transcription regulatory protein that modulates pausing and elongation of RNA Pol II  as well as histone epigenetic modifications. By transient knockdown and CRISPR mutagenesis  we found that Rtf1 is essential for cardiogenesis and that without xxx activity  cardiac progenitors arrest in an immature state. This role in early cardiogenesis was evolutionarily conserved between fish and mammals. We also found that Rtf1's Plus3 domain  which confers interaction with the pausing/elongation factor Spt5  was required for Rtf1's ability to support cardiac progenitor formation  while other regions of the protein were dispensable. We examined the occupancy of RNA Pol II at cardiac genes in rtf1 morphants using ChIP seq and found that Pol II signals at the TSS of genes was reduced  suggesting a reduction in transcriptional pausing. Intriguingly  pharmacological or morpholino antisense reduction of pause release in rtf1 morphants and mutants restored the formation of cardiac cells and improved Pol II occupancy at the TSS of key cardiac genes. Our findings highlight the crucial role that transcriptional pausing plays in promoting normal levels of gene expression in a cardiac developmental context.,,,,,RNAseq hand2FACS control 3,,strain:TgBAChand2:EGFPpd24|dev stage:10 12 somite stage|collection date:2020 02 26|geo loc name:USA:California Los Angeles|sex:n/a|tissue:hand2:GFP positive cells|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of hand2:GFP positive cells from 10 12 somite stage zebrafish embryos,C3,CTL3,NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina from 5 10 ng input RNA,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP459729,,,RNAseq_hand2FACS_control_3.fastq,fastq,880285441.0,16931477.0,RNAseq hand2FACS control 3.fastq,0:51.99,A:233959122;C:192477087;G:190893530;T:262700285;N:255417,51,,,,233959122,192477087,190893530,262700285,255417,SRX21749009,SRS18856546,SRA1709841,"University of California, Los Angeles|Molecular, Cell, and Developmental Biology","University of California, Los Angeles",1,0.90285,,0.10232,,0.76982,,0.50837,,53,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,nebnext,bulk,unknown,unknown,,United States,2023-09-11,Segmentation,Embryo,Embryo Imprecise,All anatomical structures
26503,SRR26031759,SRX21749008,SRS18856548,SRP459729,PRJNA1015262,Rtf1 dependent transcriptional pausing regulates cardiogenesis,PRJNA1015262,Other,During heart development  an evolutionarily conserved network of cardiac transcription factors collaborate to define the precise timing and location of cardiac progenitor specification. Accumulating evidence suggests that cardiac progenitor specification is subject to transcriptional control beyond the level of transcription initiation. The PAF1C component Rtf1 is a multifunctional transcription regulatory protein that modulates pausing and elongation of RNA Pol II  as well as histone epigenetic modifications. By transient knockdown and CRISPR mutagenesis  we found that Rtf1 is essential for cardiogenesis and that without xxx activity  cardiac progenitors arrest in an immature state. This role in early cardiogenesis was evolutionarily conserved between fish and mammals. We also found that Rtf1's Plus3 domain  which confers interaction with the pausing/elongation factor Spt5  was required for Rtf1's ability to support cardiac progenitor formation  while other regions of the protein were dispensable. We examined the occupancy of RNA Pol II at cardiac genes in rtf1 morphants using ChIP seq and found that Pol II signals at the TSS of genes was reduced  suggesting a reduction in transcriptional pausing. Intriguingly  pharmacological or morpholino antisense reduction of pause release in rtf1 morphants and mutants restored the formation of cardiac cells and improved Pol II occupancy at the TSS of key cardiac genes. Our findings highlight the crucial role that transcriptional pausing plays in promoting normal levels of gene expression in a cardiac developmental context.,,,,,RNAseq hand2FACS control 2,,strain:TgBAChand2:EGFPpd24|dev stage:10 12 somite stage|collection date:2019 12 19|geo loc name:USA:California Los Angeles|sex:n/a|tissue:hand2:GFP positive cells|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of hand2:GFP positive cells from 10 12 somite stage zebrafish embryos,C2,CTL2,NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina from 5 10 ng input RNA,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP459729,,,RNAseq_hand2FACS_control_2.fastq,fastq,317458963.0,6417814.0,RNAseq hand2FACS control 2.fastq,0:49.47,A:83925064;C:70621123;G:68872886;T:93923129;N:116761,49,,,,83925064,70621123,68872886,93923129,116761,SRX21749008,SRS18856548,SRA1709841,"University of California, Los Angeles|Molecular, Cell, and Developmental Biology","University of California, Los Angeles",1,0.85587,,0.08493,,0.75558,,0.51678,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,nebnext,bulk,unknown,unknown,,United States,2023-09-11,Segmentation,Embryo,Embryo Imprecise,All anatomical structures
26504,SRR26031760,SRX21749007,SRS18856543,SRP459729,PRJNA1015262,Rtf1 dependent transcriptional pausing regulates cardiogenesis,PRJNA1015262,Other,During heart development  an evolutionarily conserved network of cardiac transcription factors collaborate to define the precise timing and location of cardiac progenitor specification. Accumulating evidence suggests that cardiac progenitor specification is subject to transcriptional control beyond the level of transcription initiation. The PAF1C component Rtf1 is a multifunctional transcription regulatory protein that modulates pausing and elongation of RNA Pol II  as well as histone epigenetic modifications. By transient knockdown and CRISPR mutagenesis  we found that Rtf1 is essential for cardiogenesis and that without xxx activity  cardiac progenitors arrest in an immature state. This role in early cardiogenesis was evolutionarily conserved between fish and mammals. We also found that Rtf1's Plus3 domain  which confers interaction with the pausing/elongation factor Spt5  was required for Rtf1's ability to support cardiac progenitor formation  while other regions of the protein were dispensable. We examined the occupancy of RNA Pol II at cardiac genes in rtf1 morphants using ChIP seq and found that Pol II signals at the TSS of genes was reduced  suggesting a reduction in transcriptional pausing. Intriguingly  pharmacological or morpholino antisense reduction of pause release in rtf1 morphants and mutants restored the formation of cardiac cells and improved Pol II occupancy at the TSS of key cardiac genes. Our findings highlight the crucial role that transcriptional pausing plays in promoting normal levels of gene expression in a cardiac developmental context.,,,,,RNAseq hand2FACS control 1,,strain:TgBAChand2:EGFPpd24|dev stage:10 12 somite stage|collection date:2019 11 29|geo loc name:USA:California Los Angeles|sex:n/a|tissue:hand2:GFP positive cells|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of hand2:GFP positive cells from 10 12 somite stage zebrafish embryos,C1,CTL1,NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina from 5 10 ng input RNA,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP459729,,,RNAseq_hand2FACS_control_1.fastq,fastq,448273888.0,9055865.0,RNAseq hand2FACS control 1.fastq,0:49.50,A:119317727;C:99863109;G:96352533;T:132659621;N:80898,49,,,,119317727,99863109,96352533,132659621,80898,SRX21749007,SRS18856543,SRA1709841,"University of California, Los Angeles|Molecular, Cell, and Developmental Biology","University of California, Los Angeles",1,0.88622,,0.09573,,0.76086,,0.42689,,49,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,nebnext,bulk,unknown,unknown,,United States,2023-09-11,Segmentation,Embryo,Embryo Imprecise,All anatomical structures
28538,SRR26395012,SRX22100922,SRS19166048,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,50% epiboly Iso seq,,strain:AB x India|age:5.3 hpf|dev stage:50% epiboly|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 10|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: 50% epiboly,DR 010,DR 010,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,50epiboly.ccs.fq.gz,fastq,6994871304.0,1739615.0,50epiboly.ccs.fq.gz,0:4020.93,A:1886646970;C:1618863911;G:1609321304;T:1880039119;N:0,4020,,,,1886646970,1618863911,1609321304,1880039119,0,SRX22100922,SRS19166048,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.2059,,0.00164,,0.92101,,0.06119,,3367,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
28539,SRR26395013,SRX22100921,SRS19166047,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,zfs:0000015 Iso seq,,strain:AB x India|age:4.7 hpf|dev stage:zfs:0000015|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 9|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: zfs:0000015,DR 009,DR 009,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,30epiboly.ccs.fq.gz,fastq,5233736965.0,1358516.0,zfs:0000015.ccs.fq.gz,0:3852.54,A:1425421240;C:1199630062;G:1191034759;T:1417650904;N:0,3852,,,,1425421240,1199630062,1191034759,1417650904,0,SRX22100921,SRS19166047,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.40862,,0.00581,,0.86123,,0.47684,,3440,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Blastula,Embryo,Embryo Imprecise,All anatomical structures
28540,SRR26395014,SRX22100920,SRS19166046,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,dome Iso seq,,strain:AB x India|age:4.3 hpf|dev stage:dome|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 8|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: dome,DR 008,DR 008,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,dome.ccs.fq.gz,fastq,6426069602.0,1667809.0,dome.ccs.fq.gz,0:3853.00,A:1735630855;C:1486999783;G:1476424228;T:1727014736;N:0,3853,,,,1735630855,1486999783,1476424228,1727014736,0,SRX22100920,SRS19166046,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.20197,,0.00145,,0.91388,,0.06247,,6938,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Blastula,Embryo,Embryo Imprecise,All anatomical structures
28541,SRR26395015,SRX22100919,SRS19166045,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,sphere Iso seq,,strain:AB x India|age:4 hpf|dev stage:sphere|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 7|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: sphere,DR 007,DR 007,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,sphere.ccs.fq.gz,fastq,7456522395.0,2030744.0,sphere.ccs.fq.gz,0:3671.82,A:2009379061;C:1725915606;G:1718055774;T:2003171954;N:0,3671,,,,2009379061,1725915606,1718055774,2003171954,0,SRX22100919,SRS19166045,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.41317,,0.00317,,0.85504,,0.46671,,5517,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Blastula,Embryo,Embryo Imprecise,All anatomical structures
28543,SRR26395017,SRX22100916,SRS19166042,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,oblong Iso seq,,strain:AB x India|age:3.7 hpf|dev stage:oblong|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 6|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: oblong,DR 006,DR 006,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,oblong.ccs.fq.gz,fastq,5138806264.0,1450821.0,oblong.ccs.fq.gz,0:3542.00,A:1387179645;C:1186984765;G:1181776562;T:1382865292;N:0,3542,,,,1387179645,1186984765,1181776562,1382865292,0,SRX22100916,SRS19166042,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.41494,,0.0019,,0.85267,,0.45513,,8789,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Blastula,Embryo,Embryo Imprecise,All anatomical structures
28554,SRR26395028,SRX22100905,SRS19166031,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,high Iso seq,,strain:AB x India|age:3.3 hpf|dev stage:high|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 5|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: high,DR 005,DR 005,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,high.ccs.fq.gz,fastq,6811221417.0,1785766.0,high.ccs.fq.gz,0:3814.17,A:1820349159;C:1592171013;G:1583702800;T:1814998445;N:0,3814,,,,1820349159,1592171013,1583702800,1814998445,0,SRX22100905,SRS19166031,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.42981,,0.00073,,0.86182,,0.47846,,4404,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Blastula,Embryo,Embryo Imprecise,All anatomical structures
28565,SRR26395039,SRX22100894,SRS19166020,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,1k cell Iso seq,,strain:AB x India|age:3 hpf|dev stage:1k cell|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 4|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: 1k cell,DR 004,DR 004,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,1k.ccs.fq.gz,fastq,8036121763.0,2087907.0,1k.ccs.fq.gz,0:3848.89,A:2152838341;C:1873567602;G:1863627936;T:2146087884;N:0,3848,,,,2152838341,1873567602,1863627936,2146087884,0,SRX22100894,SRS19166020,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.43117,,0.00077,,0.86352,,0.48891,,2071,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Blastula,Embryo,Embryo Imprecise,All anatomical structures
28576,SRR26395050,SRX22100883,SRS19166009,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,64 cell Iso seq,,strain:AB x India|age:2 hpf|dev stage:64 cell|collection date:2018 12|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 3|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: 64 cell,DR 003,DR 003,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel,,SRP466518,,,cell64_1.ccs.fq.gz cell64_2.ccs.fq.gz,fastq fastq,2829660788.0,1238867.0,cell64 1.ccs.fq.gz,0:2284.07,A:765802910;C:646754322;G:668768985;T:748334571;N:0,2284,,,,765802910,646754322,668768985,748334571,0,SRX22100883,SRS19166009,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.37504,,0.00108,,0.91149,,0.48939,,1913,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Cleavage,Embryo,Embryo Imprecise,All anatomical structures
28586,SRR26395062,SRX22100872,SRS19165998,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,Shield Iso seq,,strain:AB x India|age:6 hpf|dev stage:shield|collection date:2021 01|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 11|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: shield,DR 011,DR 011,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel II,,SRP466518,,,shield.ccs.fq.gz,fastq,7256029471.0,1854553.0,shield.ccs.fq.gz,0:3912.55,A:1984833012;C:1651523494;G:1642156033;T:1977516932;N:0,3912,,,,1984833012,1651523494,1642156033,1977516932,0,SRX22100872,SRS19165998,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.2041,,0.00298,,0.91837,,0.08263,,2962,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
28587,SRR26395063,SRX22100871,SRS19165997,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,1 cell Iso seq,,strain:AB x India|age:0.5 hpf|dev stage:1cell|collection date:2018 12|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 2|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: 1 cell,DR 002,DR 002,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel,,SRP466518,,,cell1_1.ccs.fq.gz cell1_2.ccs.fq.gz,fastq fastq,2076576705.0,1053386.0,cell1 1.ccs.fq.gz,0:1971.34,A:560055059;C:479061015;G:485136981;T:552323650;N:0,1971,,,,560055059,479061015,485136981,552323650,0,SRX22100871,SRS19165997,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.44892,,0.00258,,0.90114,,0.50832,,32,,B,,usable mapping rate,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Zygote,Embryo,Embryo Imprecise,All anatomical structures
28588,SRR26395064,SRX22100870,SRS19165996,SRP466518,PRJNA1028258,Zygotic activation of transposable elements during zebrafish early embryogenesis,PRJNA1028258,Other,Here we leverage high quality long reads plus manual annotation to establish a high resolution landscape of TE activation and transcription at the levels of locus  transcript  and allele over zebrafish early embryonic development. Moreover  we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation ZTA in zebrafish  where extensive variation exists among TE families  subfamilies  loci  transcripts and alleles with respect to evolutionary age.,,pubmed:40246845,,,fertilized egg Iso seq,,strain:AB x India|age:0 hpf|dev stage:fertilized egg|collection date:2018 12|geo loc name:China:Beijing|sex:N/A|tissue:embryo|source material identifier:LR 1|BioSampleModel:Model organism or animal,,,,,,,,,PacBio Iso seq of zebrafish: fertilized egg,DR 001,DR 001,Total RNA was isolated from each developmental stages of zebrafish embryos using TRIzolTM Reagent Invitrogen. RNA purity and concentration were assessed with the NanoPhotometer spectrophotometer IMPLEN  CA  USA and the Qubit RNA Assay Kit in the Qubit 3.0 Fluorometer Life Technologies  CA  USA. The RNA integrity number RIN was determined using the RNA Nano 6000 Assay Kit and Agilent Bioanalyzer 2100 system Agilent Technologies  CA  USA. RNA samples with a RIN  8 were used to synthesize cDNA with SMARTerPCR cDNA Synthesis Kit Takara Bio USA  Inc.  Mountain View  CA  USA. PCR amplification was performed using a KAPA HiFi PCR Kit Kapa Biosystems  Wilmington  MA  USA with the optimized number of cycles. Size selection of PCR products cDNA for each sample was applied using the BluePippin System: <3 kb and >3 kb. Subsequently  two cDNA libraries <3 kb  >3 kb were prepared using a SMRTbell Template Prep Kit 1.0 Pacific Biosciences  Menlo Park  CA  USA and sequenced on the PacBio sequel II platform.,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,PACBIO_SMRT,Sequel,,SRP466518,,,cell0_1.ccs.fq.gz cell0_2.ccs.fq.gz cell0_3.ccs.fq.gz,fastq fastq fastq,3550605210.0,2083545.0,cell0 1.ccs.fq.gz,0:1704.12,A:990393181;C:795168216;G:861389798;T:903654015;N:0,1704,,,,990393181,795168216,861389798,903654015,0,SRX22100870,SRS19165996,SRA1731898,University of Michigan|Computational Medicine and Bioinformatics,University of Michigan,1,0.33296,,0.00275,,0.95548,,0.552,,1155,,T,,long read,pacbio,pacbio_modern,full_length,poly_a,unknown,bulk,unknown,unknown,,United States,2023-10-16,Zygote,Embryo,Embryo Imprecise,All anatomical structures
29718,SRR27485663,SRX23156886,SRS20107307,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,4 cell R3,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:1 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:3|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 1 hpf  rep4,EV06010,EV06010,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06010.R1.fastq.gz,fastq,620142356.0,8227837.0,EV06010.R1.fastq.gz,0:75.37,A:186029536;C:118842640;G:134072972;T:181171903;N:25305,75,,,,186029536,118842640,134072972,181171903,25305,SRX23156886,SRS20107307,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.90656,,0.06918,,0.80192,,0.72472,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Cleavage,Embryo,Whole Organism,All anatomical structures
29721,SRR27485666,SRX23156883,SRS20107304,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,24h R2,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:24 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:2|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 24 hpf  rep4,EV06007,EV06007,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06007.R1.fastq.gz,fastq,758984715.0,10062029.0,EV06007.R1.fastq.gz,0:75.43,A:221215464;C:148997667;G:167225079;T:221520231;N:26274,75,,,,221215464,148997667,167225079,221520231,26274,SRX23156883,SRS20107304,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.90914,,0.18457,,0.77782,,0.38818,,75,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Pharyngula,Embryo,Whole Organism,All anatomical structures
29722,SRR27485667,SRX23156882,SRS20107303,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,Bud R2,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:10 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:2|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 10 hpf  rep4,EV06006,EV06006,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06006.R1.fastq.gz,fastq,734373761.0,9740919.0,EV06006.R1.fastq.gz,0:75.39,A:217249501;C:141011173;G:161749180;T:214341396;N:22511,75,,,,217249501,141011173,161749180,214341396,22511,SRX23156882,SRS20107303,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.902,,0.14583,,0.80937,,0.67478,,75,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Gastrula,Embryo,Whole Organism,All anatomical structures
29723,SRR27485668,SRX23156881,SRS20107302,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,Dome R2,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:5 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:2|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 5 hpf  rep4,EV06005,EV06005,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06005.R1.fastq.gz,fastq,776568876.0,10317721.0,EV06005.R1.fastq.gz,0:75.27,A:238745211;C:151859247;G:171793387;T:214113382;N:57649,75,,,,238745211,151859247,171793387,214113382,57649,SRX23156881,SRS20107302,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.87227,,0.14085,,0.81797,,0.72906,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Blastula,Embryo,Whole Organism,All anatomical structures
29724,SRR27485669,SRX23156880,SRS20107301,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,1K cell R2,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:3 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:2|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 3 hpf  rep4,EV06004,EV06004,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06004.R1.fastq.gz,fastq,682509965.0,9050328.0,EV06004.R1.fastq.gz,0:75.41,A:196111480;C:138950038;G:156032208;T:191368964;N:47275,75,,,,196111480,138950038,156032208,191368964,47275,SRX23156880,SRS20107301,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.91494,,0.12926,,0.80044,,0.71156,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Blastula,Embryo,Whole Organism,All anatomical structures
29725,SRR27485670,SRX23156879,SRS20107300,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,4 cell R2,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:1 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:2|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 1 hpf  rep4,EV06003,EV06003,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06003.R1.fastq.gz,fastq,706095550.0,9366364.0,EV06003.R1.fastq.gz,0:75.39,A:204324355;C:140058731;G:159377323;T:202282197;N:52944,75,,,,204324355,140058731,159377323,202282197,52944,SRX23156879,SRS20107300,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.90788,,0.10297,,0.80168,,0.71073,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Cleavage,Embryo,Whole Organism,All anatomical structures
29726,SRR27485671,SRX23156878,SRS20107299,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,24h R3,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:24 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:3|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 24 hpf  rep4,EV06014,EV06014,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06014.R1.fastq.gz,fastq,708984998.0,9425445.0,EV06014.R1.fastq.gz,0:75.22,A:219626080;C:141270902;G:161722995;T:186246245;N:118776,75,,,,219626080,141270902,161722995,186246245,118776,SRX23156878,SRS20107299,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.84881,,0.17975,,0.79693,,0.44149,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Pharyngula,Embryo,Whole Organism,All anatomical structures
29727,SRR27485672,SRX23156877,SRS20107298,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,Bud R3,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:10 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:3|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 10 hpf  rep4,EV06013,EV06013,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06013.R1.fastq.gz,fastq,569494672.0,7557761.0,EV06013.R1.fastq.gz,0:75.35,A:170266388;C:110739260;G:124536859;T:163915551;N:36614,75,,,,170266388,110739260,124536859,163915551,36614,SRX23156877,SRS20107298,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.90037,,0.16195,,0.81308,,0.71641,,75,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Gastrula,Embryo,Whole Organism,All anatomical structures
29728,SRR27485673,SRX23156876,SRS20107297,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,Dome R3,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:5 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:3|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 5 hpf  rep4,EV06012,EV06012,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06012.R1.fastq.gz,fastq,612322255.0,8128508.0,EV06012.R1.fastq.gz,0:75.33,A:190142665;C:119966127;G:131824584;T:170353082;N:35797,75,,,,190142665,119966127,131824584,170353082,35797,SRX23156876,SRS20107297,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.89638,,0.12215,,0.8196,,0.79176,,75,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Blastula,Embryo,Whole Organism,All anatomical structures
29729,SRR27485674,SRX23156875,SRS20107296,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,1K cell R3,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:3 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:3|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 3 hpf  rep4,EV06011,EV06011,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV06011.R1.fastq.gz,fastq,516168257.0,6849932.0,EV06011.R1.fastq.gz,0:75.35,A:157131780;C:98595108;G:111327650;T:149089977;N:23742,75,,,,157131780,98595108,111327650,149089977,23742,SRX23156875,SRS20107296,SRA1783314,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.89456,,0.0693,,0.80306,,0.73611,,75,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-11,Blastula,Embryo,Whole Organism,All anatomical structures
29732,SRR27477292,SRX23148655,SRS20099371,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,24h R4,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:24 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:4|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 24 hpf  rep4,EV09007,EV09007,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV09007.R1.fastq.gz,fastq,693872355.0,9217545.0,EV09007.R1.fastq.gz,0:75.28,A:207207066;C:136288214;G:150585299;T:199742228;N:49548,75,,,,207207066,136288214,150585299,199742228,49548,SRX23148655,SRS20099371,SRA1782413,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.89376,,0.11471,,0.79192,,0.60125,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-10,Pharyngula,Embryo,Whole Organism,All anatomical structures
29733,SRR27477293,SRX23148654,SRS20099366,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,Bud R4,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:10 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:4|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 10 hpf  rep4,EV09006,EV09006,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV09006.R1.fastq.gz,fastq,476216388.0,6331468.0,EV09006.R1.fastq.gz,0:75.21,A:146002765;C:93329508;G:104039751;T:132799091;N:45273,75,,,,146002765,93329508,104039751,132799091,45273,SRX23148654,SRS20099366,SRA1782413,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.88768,,0.12305,,0.82696,,0.67338,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-10,Gastrula,Embryo,Whole Organism,All anatomical structures
29734,SRR27477294,SRX23148653,SRS20099369,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,Dome R4,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:5 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:4|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 5 hpf  rep4,EV09005,EV09005,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV09005.R1.fastq.gz,fastq,1231107704.0,16463264.0,EV09005.R1.fastq.gz,0:74.78,A:408948044;C:228823967;G:256397453;T:336404532;N:533708,74,,,,408948044,228823967,256397453,336404532,533708,SRX23148653,SRS20099369,SRA1782413,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.84006,,0.08028,,0.80647,,0.73016,,73,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-10,Blastula,Embryo,Whole Organism,All anatomical structures
29735,SRR27477295,SRX23148652,SRS20099365,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,1K cell R4,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:3 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:4|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 3 hpf  rep4,EV09004,EV09004,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV09004.R1.fastq.gz,fastq,471461315.0,6271281.0,EV09004.R1.fastq.gz,0:75.18,A:148103215;C:93173628;G:103496734;T:126647635;N:40103,75,,,,148103215,93173628,103496734,126647635,40103,SRX23148652,SRS20099365,SRA1782413,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.87715,,0.11105,,0.80606,,0.74204,,75,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-10,Blastula,Embryo,Whole Organism,All anatomical structures
29736,SRR27477296,SRX23148651,SRS20099370,SRP482074,PRJNA1061456,tRAM seq: tRNA abundance and modification analysis during zebrafish embryo development,PRJNA1061456,Other,,,,,,4 cell R4,,strain:TLAB fish|isolate:NA|breed:cross of zebrafish AB and the natural variant TL Tupfel Longfin|cultivar:NA|ecotype:NA|dev stage:1 hpf|collection date:2022|geo loc name:Austria|sex:mixed|tissue:whole embryo|replicate:4|BioSampleModel:Model organism or animal,,,,,,,,,mRNA seq of zebrafish: embryo 1 hpf  rep4,EV09003,EV09003,RNA was extracted with Trizol and processed with QuantSeq three prime mRNA Seq Library Prep Kit FWD for Illumina Lexogen. 500 ng total RNA per sample. Single indexed QuantSeq libraries were QC checked on a Bioanalyzer 2100 Agilent using a High Sensitivity DNA Kit for correct insert size and quantified using Qubit dsDNA HS Assay Invitrogen. Pooled libraries were sequenced on a NextSeq500 instrument Illumina in 1x75bp single end sequencing mode,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,NextSeq 500,,SRP482074,,,EV09003.R1.fastq.gz,fastq,438955973.0,5837128.0,EV09003.R1.fastq.gz,0:75.20,A:134628611;C:87460856;G:98199538;T:118638244;N:28724,75,,,,134628611,87460856,98199538,118638244,28724,SRX23148651,SRS20099370,SRA1782413,Medical University of Vienna|Cell and Developmental Biology,Medical University of Vienna,1,0.89029,,0.11994,,0.80833,,0.72581,,76,,B,,usable mapping rate,illumina,nextseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,Austria,2024-01-10,Cleavage,Embryo,Whole Organism,All anatomical structures
44053,SRR6251100,SRX3358055,SRS2657115,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,20uM TPHP C,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,20uM TPHP C,20uM TPHP C,20uM TPHP C,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-20-3_S9_L001_R1_001.fastq.gz,fastq,291749595.0,3873229.0,TPHP 20 3 S9 L001 R1 001.fastq.gz,0:75.32 1:0,A:89301033;C:53833033;G:75829093;T:72641496;N:144940,75,0,,,89301033,53833033,75829093,72641496,144940,SRX3358055,SRS2657115,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85139,,0.25057,,0.79764,,0.58803,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44054,SRR6251101,SRX3358054,SRS2657114,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,20uM TPHP B,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,20uM TPHP B,20uM TPHP B,20uM TPHP B,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-20-2_S4_L001_R1_001.fastq.gz,fastq,177550799.0,2356911.0,TPHP 20 2 S4 L001 R1 001.fastq.gz,,,,,,,,,,,,SRX3358054,SRS2657114,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.77491,,0.22492,,0.80973,,0.59243,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44055,SRR6251102,SRX3358053,SRS2657113,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,20uM TPHP A,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,20uM TPHP A,20uM TPHP A,20uM TPHP A,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-20-1_S11_L001_R1_001.fastq.gz,fastq,94389539.0,1257331.0,TPHP 20 1 S11 L001 R1 001.fastq.gz,0:75.07 1:0,A:29822453;C:17028628;G:27081536;T:20132201;N:324721,75,0,,,29822453,17028628,27081536,20132201,324721,SRX3358053,SRS2657113,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.78306,,0.26427,,0.8242,,0.61278,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44056,SRR6251103,SRX3358052,SRS2657112,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,10uM TPHP C,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,10uM TPHP C,10uM TPHP C,10uM TPHP C,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-10-4_S10_L001_R1_001.fastq.gz,fastq,149688177.0,1984801.0,TPHP 10 4 S10 L001 R1 001.fastq.gz,0:75.42 1:0,A:43028100;C:28026256;G:37606766;T:40982811;N:44244,75,0,,,43028100,28026256,37606766,40982811,44244,SRX3358052,SRS2657112,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.8945,,0.19305,,0.77897,,0.57319,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44057,SRR6251104,SRX3358051,SRS2657111,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,10uM TPHP B,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,10uM TPHP B,10uM TPHP B,10uM TPHP B,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-10-1_S3_L001_R1_001.fastq.gz,fastq,146740193.0,1947479.0,TPHP 10 1 S3 L001 R1 001.fastq.gz,0:75.35 1:0,A:44061187;C:26995641;G:39757847;T:35840733;N:84785,75,0,,,44061187,26995641,39757847,35840733,84785,SRX3358051,SRS2657111,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.84874,,0.22522,,0.79334,,0.55665,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44058,SRR6251105,SRX3358050,SRS2657110,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,10uM TPHP A,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,10uM TPHP A,10uM TPHP A,10uM TPHP A,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-10-2_S6_L001_R1_001.fastq.gz,fastq,106842369.0,1420158.0,TPHP 10 2 S6 L001 R1 001.fastq.gz,0:75.23 1:0,A:33818865;C:18914622;G:30384789;T:23592147;N:131946,75,0,,,33818865,18914622,30384789,23592147,131946,SRX3358050,SRS2657110,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.78602,,0.24117,,0.81324,,0.5305,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44059,SRR6251106,SRX3358049,SRS2657109,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,5uM TPHP C,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,5uM TPHP C,5uM TPHP C,5uM TPHP C,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-5-4_S8_L001_R1_001.fastq.gz,fastq,167887110.0,2229220.0,TPHP 5 4 S8 L001 R1 001.fastq.gz,0:75.31 1:0,A:51329529;C:29574257;G:44951644;T:41911589;N:120091,75,0,,,51329529,29574257,44951644,41911589,120091,SRX3358049,SRS2657109,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.84041,,0.17552,,0.78691,,0.54053,,73,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44060,SRR6251107,SRX3358048,SRS2657108,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,5uM TPHP B,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,5uM TPHP B,5uM TPHP B,5uM TPHP B,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-5-3_S5_L001_R1_001.fastq.gz,fastq,128293812.0,1701231.0,TPHP 5 3 S5 L001 R1 001.fastq.gz,0:75.41 1:0,A:38537387;C:23633923;G:32363285;T:33730392;N:28825,75,0,,,38537387,23633923,32363285,33730392,28825,SRX3358048,SRS2657108,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85994,,0.17505,,0.77869,,0.56251,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44061,SRR6251108,SRX3358047,SRS2657107,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,5uM TPHP A,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,5uM TPHP A,5uM TPHP A,5uM TPHP A,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,TPHP-5-2_S2_L001_R1_001.fastq.gz,fastq,162955700.0,2165615.0,TPHP 5 2 S2 L001 R1 001.fastq.gz,0:75.25 1:0,A:51637705;C:29664042;G:43422661;T:38048944;N:182348,75,0,,,51637705,29664042,43422661,38048944,182348,SRX3358047,SRS2657107,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.80738,,0.20922,,0.79442,,0.5615,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44062,SRR6251109,SRX3358046,SRS2657106,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,DMSO C,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,DMSO C,DMSO C,DMSO C,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,VC-4_S1_L001_R1_001.fastq.gz,fastq,209150095.0,2775941.0,VC 4 S1 L001 R1 001.fastq.gz,0:75.34 1:0,A:63625345;C:38299921;G:55605411;T:51492104;N:127314,75,0,,,63625345,38299921,55605411,51492104,127314,SRX3358046,SRS2657106,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.837,,0.24675,,0.79356,,0.58267,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44063,SRR6251110,SRX3358045,SRS2657105,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,DMSO B,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,DMSO B,DMSO B,DMSO B,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,VC-3_S7_L001_R1_001.fastq.gz,fastq,122492605.0,1625801.0,VC 3 S7 L001 R1 001.fastq.gz,0:75.34 1:0,A:37723840;C:22066289;G:30552199;T:32078290;N:71987,75,0,,,37723840,22066289,30552199,32078290,71987,SRX3358045,SRS2657105,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85293,,0.18322,,0.78551,,0.55803,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
44064,SRR6251111,SRX3358044,SRS2657104,SRP123530,PRJNA416833,Nuclear Receptor Disruption Alters Triphenyl Phosphate Induced Cardiotoxicity in Zebrafish Embryos,PRJNA416833,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that triphenyl phosphate TPHP interferes with nuclear receptor signaling pathways involved in cardiac development during zebrafish embryogenesis.,,,,,DMSO A,,strain:5D|dev stage:72 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,DMSO A,DMSO A,DMSO A,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP123530,,,VC-2_S12_L001_R1_001.fastq.gz,fastq,123296331.0,1638666.0,VC 2 S12 L001 R1 001.fastq.gz,0:75.24 1:0,A:38487335;C:21529684;G:35888348;T:27204977;N:185987,75,0,,,38487335,21529684,35888348,27204977,185987,SRX3358044,SRS2657104,SRA627929,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.82094,,0.23726,,0.80375,,0.55819,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-03-06,Larval,Larval,Embryo Imprecise,All anatomical structures
48142,SRR7749219,SRX4605277,SRS3709857,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 5 3 S4,,strain:fli1:egfp|isolate:21|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 5 3 S4,Nic MZT 2 5 3 S4,Nic MZT 2 5 3 S4,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-5-3_S4_L001_R1_001.fastq.gz,fastq,190984911.0,2538295.0,Nic MZT 2 5 3 S4 L001 R1 001.fastq.gz,0:75.24 1:0,A:52519966;C:35180627;G:44833152;T:58082446;N:368720,75,0,,,52519966,35180627,44833152,58082446,368720,SRX4605277,SRS3709857,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86935,,0.17725,,0.78815,,0.59475,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48143,SRR7749220,SRX4605276,SRS3709856,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 6 1 S5,,strain:fli1:egfp|isolate:22|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 6 1 S5,Nic MZT 2 6 1 S5,Nic MZT 2 6 1 S5,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-6-1_S5_L001_R1_001.fastq.gz,fastq,181723567.0,2410040.0,Nic MZT 2 6 1 S5 L001 R1 001.fastq.gz,0:75.40 1:0,A:50610352;C:32058223;G:41337996;T:57677255;N:39741,75,0,,,50610352,32058223,41337996,57677255,39741,SRX4605276,SRS3709856,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86999,,0.12718,,0.77617,,0.57549,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48144,SRR7749221,SRX4605275,SRS3709855,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 6 2 S7,,strain:fli1:egfp|isolate:23|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 6 2 S7,Nic MZT 2 6 2 S7,Nic MZT 2 6 2 S7,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-6-2_S7_L001_R1_001.fastq.gz,fastq,190795572.0,2530583.0,Nic MZT 2 6 2 S7 L001 R1 001.fastq.gz,0:75.40 1:0,A:52076842;C:35745252;G:45706922;T:57224496;N:42060,75,0,,,52076842,35745252,45706922,57224496,42060,SRX4605275,SRS3709855,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86754,,0.21705,,0.78127,,0.57026,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48145,SRR7749222,SRX4605274,SRS3709854,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 6 3 S9,,strain:fli1:egfp|isolate:24|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 6 3 S9,Nic MZT 2 6 3 S9,Nic MZT 2 6 3 S9,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-6-3_S9_L001_R1_001.fastq.gz,fastq,181419310.0,2408112.0,Nic MZT 2 6 3 S9 L001 R1 001.fastq.gz,0:75.34 1:0,A:51152048;C:32647313;G:42332210;T:55156489;N:131250,75,0,,,51152048,32647313,42332210,55156489,131250,SRX4605274,SRS3709854,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86164,,0.15888,,0.78035,,0.59081,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48146,SRR7749223,SRX4605273,SRS3709853,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 3 1 S2,,strain:fli1:egfp|isolate:25|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 3 1 S2,VC MZT 2 3 1 S2,VC MZT 2 3 1 S2,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-3-1_S2_L001_R1_001.fastq.gz,fastq,216452142.0,2876354.0,VC MZT 2 3 1 S2 L001 R1 001.fastq.gz,0:75.25 1:0,A:60903928;C:39226752;G:51669562;T:64341249;N:310651,75,0,,,60903928,39226752,51669562,64341249,310651,SRX4605273,SRS3709853,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86514,,0.1422,,0.78646,,0.58224,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48147,SRR7749224,SRX4605272,SRS3709852,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 3 2 S11,,strain:fli1:egfp|isolate:26|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 3 2 S11,VC MZT 2 3 2 S11,VC MZT 2 3 2 S11,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-3-2_S11_L001_R1_001.fastq.gz,fastq,207054287.0,2756810.0,VC MZT 2 3 2 S11 L001 R1 001.fastq.gz,0:75.11 1:0,A:58709487;C:38032924;G:50500441;T:59230236;N:581199,75,0,,,58709487,38032924,50500441,59230236,581199,SRX4605272,SRS3709852,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85735,,0.1637,,0.78585,,0.57361,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48148,SRR7749225,SRX4605271,SRS3709851,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 3 3 S7,,strain:fli1:egfp|isolate:27|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 3 3 S7,VC MZT 2 3 3 S7,VC MZT 2 3 3 S7,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-3-3_S7_L001_R1_001.fastq.gz,fastq,224805060.0,2985681.0,VC MZT 2 3 3 S7 L001 R1 001.fastq.gz,0:75.29 1:0,A:63036025;C:40177999;G:52296880;T:69035252;N:258904,75,0,,,63036025,40177999,52296880,69035252,258904,SRX4605271,SRS3709851,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85674,,0.14259,,0.78397,,0.56291,,73,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48149,SRR7749226,SRX4605270,SRS3709850,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 4 1 S6,,strain:fli1:egfp|isolate:28|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 4 1 S6,VC MZT 2 4 1 S6,VC MZT 2 4 1 S6,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-4-1_S6_L001_R1_001.fastq.gz,fastq,196560073.0,2612538.0,VC MZT 2 4 1 S6 L001 R1 001.fastq.gz,0:75.24 1:0,A:55590560;C:35929491;G:46273909;T:58445414;N:320699,75,0,,,55590560,35929491,46273909,58445414,320699,SRX4605270,SRS3709850,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86257,,0.15594,,0.78494,,0.59594,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48150,SRR7749227,SRX4605269,SRS3709849,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 4 2 S4,,strain:fli1:egfp|isolate:29|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 4 2 S4,VC MZT 2 4 2 S4,VC MZT 2 4 2 S4,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-4-2_S4_L001_R1_001.fastq.gz,fastq,200868190.0,2672201.0,VC MZT 2 4 2 S4 L001 R1 001.fastq.gz,0:75.17 1:0,A:56786559;C:36707934;G:48827549;T:58051418;N:494730,75,0,,,56786559,36707934,48827549,58051418,494730,SRX4605269,SRS3709849,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86377,,0.16671,,0.7847,,0.58211,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48151,SRR7749228,SRX4605268,SRS3709848,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 4 3 S9,,strain:fli1:egfp|isolate:30|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 4 3 S9,VC MZT 2 4 3 S9,VC MZT 2 4 3 S9,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-4-3_S9_L001_R1_001.fastq.gz,fastq,237062601.0,3150637.0,VC MZT 2 4 3 S9 L001 R1 001.fastq.gz,0:75.24 1:0,A:68207913;C:41991938;G:55581570;T:70949241;N:331939,75,0,,,68207913,41991938,55581570,70949241,331939,SRX4605268,SRS3709848,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85256,,0.13608,,0.78307,,0.5771,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48152,SRR7749229,SRX4605267,SRS3709847,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC 2 6 2 S4,,strain:fli1:egfp|isolate:8|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC 2 6 2 S4,VC 2 6 2 S4,VC 2 6 2 S4,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-2-6-2_S4_L001_R1_001.fastq.gz,fastq,239229743.0,3174916.0,VC 2 6 2 S4 L001 R1 001.fastq.gz,0:75.35 1:0,A:72662262;C:42382026;G:56831938;T:67294133;N:59384,75,0,,,72662262,42382026,56831938,67294133,59384,SRX4605267,SRS3709847,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.89978,,0.13525,,0.81016,,0.69544,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48153,SRR7749230,SRX4605266,SRS3709846,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC 2 6 1 S8,,strain:fli1:egfp|isolate:7|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC 2 6 1 S8,VC 2 6 1 S8,VC 2 6 1 S8,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-2-6-1_S8_L001_R1_001.fastq.gz,fastq,196111070.0,2600026.0,VC 2 6 1 S8 L001 R1 001.fastq.gz,0:75.43 1:0,A:55576430;C:35928732;G:47651577;T:56920006;N:34325,75,0,,,55576430,35928732,47651577,56920006,34325,SRX4605266,SRS3709846,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.90124,,0.15947,,0.80036,,0.63492,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48154,SRR7749231,SRX4605265,SRS3709845,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,03125 4 6 3 S7,,strain:fli1:egfp|isolate:6|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,03125 4 6 3 S7,03125 4 6 3 S7,03125 4 6 3 S7,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,03125-4-6-3_S7_L001_R1_001.fastq.gz,fastq,203342420.0,2698739.0,03125 4 6 3 S7 L001 R1 001.fastq.gz,0:75.35 1:0,A:61321390;C:36224152;G:49426052;T:56323126;N:47700,75,0,,,61321390,36224152,49426052,56323126,47700,SRX4605265,SRS3709845,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88457,,0.14063,,0.79784,,0.67862,,72,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48155,SRR7749232,SRX4605264,SRS3709844,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,03125 4 6 2 S5,,strain:fli1:egfp|isolate:5|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,03125 4 6 2 S5,03125 4 6 2 S5,03125 4 6 2 S5,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,03125-4-6-2_S5_L001_R1_001.fastq.gz,fastq,234645188.0,3113027.0,03125 4 6 2 S5 L001 R1 001.fastq.gz,0:75.38 1:0,A:69197262;C:42398883;G:57916581;T:65084851;N:47611,75,0,,,69197262,42398883,57916581,65084851,47611,SRX4605264,SRS3709844,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.89575,,0.14923,,0.79841,,0.66857,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48156,SRR7749233,SRX4605263,SRS3709843,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,03125 4 6 1 S3,,strain:fli1:egfp|isolate:4|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,03125 4 6 1 S3,03125 4 6 1 S3,03125 4 6 1 S3,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,03125-4-6-1_S3_L001_R1_001.fastq.gz,fastq,187729928.0,2491920.0,03125 4 6 1 S3 L001 R1 001.fastq.gz,0:75.34 1:0,A:56813366;C:34064495;G:45757702;T:51033088;N:61277,75,0,,,56813366,34064495,45757702,51033088,61277,SRX4605263,SRS3709843,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.87381,,0.17103,,0.79841,,0.68008,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48157,SRR7749234,SRX4605262,SRS3709842,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,03125 2 6 3 S1,,strain:fli1:egfp|isolate:3|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,03125 2 6 3 S1,03125 2 6 3 S1,03125 2 6 3 S1,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,03125-2-6-3_S1_L001_R1_001.fastq.gz,fastq,186162298.0,2471424.0,03125 2 6 3 S1 L001 R1 001.fastq.gz,0:75.33 1:0,A:57602542;C:32910462;G:45574849;T:50044021;N:30424,75,0,,,57602542,32910462,45574849,50044021,30424,SRX4605262,SRS3709842,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86833,,0.12525,,0.80369,,0.67162,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48158,SRR7749235,SRX4605261,SRS3709871,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,03125 2 6 2 S2,,strain:fli1:egfp|isolate:2|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,03125 2 6 2 S2,03125 2 6 2 S2,03125 2 6 2 S2,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,03125-2-6-2_S2_L001_R1_001.fastq.gz,fastq,218942247.0,2905538.0,03125 2 6 2 S2 L001 R1 001.fastq.gz,0:75.35 1:0,A:65765201;C:38374780;G:53326160;T:61410927;N:65179,75,0,,,65765201,38374780,53326160,61410927,65179,SRX4605261,SRS3709871,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88267,,0.11546,,0.79983,,0.65678,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48159,SRR7749236,SRX4605260,SRS3709841,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,03125 2 6 1 S10,,strain:fli1:egfp|isolate:1|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,03125 2 6 1 S10,03125 2 6 1 S10,03125 2 6 1 S10,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,03125-2-6-1_S10_L001_R1_001.fastq.gz,fastq,191547333.0,2541416.0,03125 2 6 1 S10 L001 R1 001.fastq.gz,0:75.37 1:0,A:55616994;C:35250635;G:47319627;T:53314809;N:45268,75,0,,,55616994,35250635,47319627,53314809,45268,SRX4605260,SRS3709841,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88736,,0.15019,,0.80046,,0.65647,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48160,SRR7749237,SRX4605259,SRS3709840,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC 4 6 1 S12,,strain:fli1:egfp|isolate:10|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC 4 6 1 S12,VC 4 6 1 S12,VC 4 6 1 S12,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-4-6-1_S12_L001_R1_001.fastq.gz,fastq,177868424.0,2360162.0,VC 4 6 1 S12 L001 R1 001.fastq.gz,0:75.36 1:0,A:52166984;C:32837655;G:43461310;T:49346370;N:56105,75,0,,,52166984,32837655,43461310,49346370,56105,SRX4605259,SRS3709840,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88565,,0.17213,,0.80434,,0.64628,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48161,SRR7749238,SRX4605258,SRS3709839,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC 2 6 3 S11,,strain:fli1:egfp|isolate:9|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC 2 6 3 S11,VC 2 6 3 S11,VC 2 6 3 S11,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-2-6-3_S11_L001_R1_001.fastq.gz,fastq,215746255.0,2862478.0,VC 2 6 3 S11 L001 R1 001.fastq.gz,0:75.37 1:0,A:64271105;C:39306711;G:51480809;T:60643406;N:44224,75,0,,,64271105,39306711,51480809,60643406,44224,SRX4605258,SRS3709839,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.89434,,0.1658,,0.80643,,0.67569,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48162,SRR7749239,SRX4605257,SRS3709838,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 5 2 S2,,strain:fli1:egfp|isolate:20|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 5 2 S2,Nic MZT 2 5 2 S2,Nic MZT 2 5 2 S2,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-5-2_S2_L001_R1_001.fastq.gz,fastq,228343941.0,3248772.0,Nic MZT 2 5 2 S2 L001 R1 001.fastq.gz,0:70.29 1:0,A:60629793;C:39805191;G:52288409;T:61401411;N:14219137,70,0,,,60629793,39805191,52288409,61401411,14219137,SRX4605257,SRS3709838,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.84429,,0.1886,,0.79543,,0.57141,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48163,SRR7749240,SRX4605256,SRS3709836,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 5 1 S11,,strain:fli1:egfp|isolate:19|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 5 1 S11,Nic MZT 2 5 1 S11,Nic MZT 2 5 1 S11,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-5-1_S11_L001_R1_001.fastq.gz,fastq,196739500.0,2610819.0,Nic MZT 2 5 1 S11 L001 R1 001.fastq.gz,0:75.36 1:0,A:55885989;C:35230770;G:46961398;T:58619981;N:41362,75,0,,,55885989,35230770,46961398,58619981,41362,SRX4605256,SRS3709836,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85659,,0.15782,,0.7822,,0.56944,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48164,SRR7749241,SRX4605255,SRS3709837,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 4 1 S12,,strain:fli1:egfp|isolate:16|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 4 1 S12,Nic MZT 2 4 1 S12,Nic MZT 2 4 1 S12,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-4-1_S12_L001_R1_001.fastq.gz,fastq,168124767.0,2237589.0,Nic MZT 2 4 1 S12 L001 R1 001.fastq.gz,0:75.14 1:0,A:47761110;C:29995745;G:39784927;T:50158423;N:424562,75,0,,,47761110,29995745,39784927,50158423,424562,SRX4605255,SRS3709837,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85535,,0.11973,,0.78888,,0.58883,,73,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48165,SRR7749242,SRX4605254,SRS3709835,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 3 3 S10,,strain:fli1:egfp|isolate:15|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 3 3 S10,Nic MZT 2 3 3 S10,Nic MZT 2 3 3 S10,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-3-3_S10_L001_R1_001.fastq.gz,fastq,229729299.0,3053357.0,Nic MZT 2 3 3 S10 L001 R1 001.fastq.gz,0:75.24 1:0,A:67340068;C:39924445;G:52760077;T:69473944;N:230765,75,0,,,67340068,39924445,52760077,69473944,230765,SRX4605254,SRS3709835,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.83377,,0.11349,,0.78614,,0.57112,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48166,SRR7749243,SRX4605253,SRS3709834,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 4 3 S3,,strain:fli1:egfp|isolate:18|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 4 3 S3,Nic MZT 2 4 3 S3,Nic MZT 2 4 3 S3,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-4-3_S3_L001_R1_001.fastq.gz,fastq,223794298.0,2977123.0,Nic MZT 2 4 3 S3 L001 R1 001.fastq.gz,0:75.17 1:0,A:63929699;C:41423893;G:54434009;T:63590150;N:416547,75,0,,,63929699,41423893,54434009,63590150,416547,SRX4605253,SRS3709834,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.84607,,0.17747,,0.78936,,0.58227,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48167,SRR7749244,SRX4605252,SRS3709833,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 4 2 S1,,strain:fli1:egfp|isolate:17|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 4 2 S1,Nic MZT 2 4 2 S1,Nic MZT 2 4 2 S1,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-4-2_S1_L001_R1_001.fastq.gz,fastq,210398084.0,2914697.0,Nic MZT 2 4 2 S1 L001 R1 001.fastq.gz,0:72.19 1:0,A:58211804;C:36832049;G:49094384;T:58258750;N:8001097,72,0,,,58211804,36832049,49094384,58258750,8001097,SRX4605252,SRS3709833,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85163,,0.14959,,0.78918,,0.57721,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48168,SRR7749245,SRX4605251,SRS3709832,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC 4 6 3 S9,,strain:fli1:egfp|isolate:12|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC 4 6 3 S9,VC 4 6 3 S9,VC 4 6 3 S9,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-4-6-3_S9_L001_R1_001.fastq.gz,fastq,225865372.0,2994679.0,VC 4 6 3 S9 L001 R1 001.fastq.gz,0:75.42 1:0,A:64930778;C:39262490;G:51036299;T:70598352;N:37453,75,0,,,64930778,39262490,51036299,70598352,37453,SRX4605251,SRS3709832,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.89219,,0.10919,,0.79596,,0.6178,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48169,SRR7749246,SRX4605250,SRS3709831,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC 4 6 2 S6,,strain:fli1:egfp|isolate:11|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC 4 6 2 S6,VC 4 6 2 S6,VC 4 6 2 S6,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-4-6-2_S6_L001_R1_001.fastq.gz,fastq,230440431.0,3056449.0,VC 4 6 2 S6 L001 R1 001.fastq.gz,0:75.39 1:0,A:68110707;C:40187027;G:52674190;T:69429360;N:39147,75,0,,,68110707,40187027,52674190,69429360,39147,SRX4605250,SRS3709831,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.90049,,0.10088,,0.80071,,0.6637,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48170,SRR7749247,SRX4605249,SRS3709830,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 3 2 S5,,strain:fli1:egfp|isolate:14|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 3 2 S5,Nic MZT 2 3 2 S5,Nic MZT 2 3 2 S5,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-3-2_S5_L001_R1_001.fastq.gz,fastq,221834813.0,2950768.0,Nic MZT 2 3 2 S5 L001 R1 001.fastq.gz,0:75.18 1:0,A:63583282;C:40135960;G:54069616;T:63589492;N:456463,75,0,,,63583282,40135960,54069616,63589492,456463,SRX4605249,SRS3709830,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85997,,0.14382,,0.78583,,0.59094,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48171,SRR7749248,SRX4605248,SRS3709829,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,Nic MZT 2 3 1 S8,,strain:fli1:egfp|isolate:13|dev stage:3 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,Nic MZT 2 3 1 S8,Nic MZT 2 3 1 S8,Nic MZT 2 3 1 S8,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,Nic-MZT-2-3-1_S8_L001_R1_001.fastq.gz,fastq,241186165.0,3203437.0,Nic MZT 2 3 1 S8 L001 R1 001.fastq.gz,,,,,,,,,,,,SRX4605248,SRS3709829,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.83297,,0.13241,,0.781,,0.58041,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48172,SRR7749249,SRX4605247,SRS3709828,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 6 3 S8,,strain:fli1:egfp|isolate:36|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 6 3 S8,VC MZT 2 6 3 S8,VC MZT 2 6 3 S8,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-6-3_S8_L001_R1_001.fastq.gz,fastq,196860248.0,2617033.0,VC MZT 2 6 3 S8 L001 R1 001.fastq.gz,0:75.22 1:0,A:57307650;C:35804977;G:46003926;T:57575713;N:167982,75,0,,,57307650,35804977,46003926,57575713,167982,SRX4605247,SRS3709828,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.83421,,0.20129,,0.76686,,0.57081,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48173,SRR7749250,SRX4605246,SRS3709827,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 6 2 S6,,strain:fli1:egfp|isolate:35|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 6 2 S6,VC MZT 2 6 2 S6,VC MZT 2 6 2 S6,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-6-2_S6_L001_R1_001.fastq.gz,fastq,181519041.0,2407329.0,VC MZT 2 6 2 S6 L001 R1 001.fastq.gz,0:75.40 1:0,A:51182855;C:32829646;G:42797315;T:54674414;N:34811,75,0,,,51182855,32829646,42797315,54674414,34811,SRX4605246,SRS3709827,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86974,,0.17179,,0.77906,,0.60101,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48174,SRR7749251,SRX4605245,SRS3709826,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 6 1 S1,,strain:fli1:egfp|isolate:34|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 6 1 S1,VC MZT 2 6 1 S1,VC MZT 2 6 1 S1,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-6-1_S1_L001_R1_001.fastq.gz,fastq,191982868.0,2546767.0,VC MZT 2 6 1 S1 L001 R1 001.fastq.gz,0:75.38 1:0,A:53563325;C:35014006;G:45474560;T:57891998;N:38979,75,0,,,53563325,35014006,45474560,57891998,38979,SRX4605245,SRS3709826,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86215,,0.18267,,0.78169,,0.58689,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48175,SRR7749252,SRX4605244,SRS3709825,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 5 3 S3,,strain:fli1:egfp|isolate:33|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 5 3 S3,VC MZT 2 5 3 S3,VC MZT 2 5 3 S3,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-5-3_S3_L001_R1_001.fastq.gz,fastq,185035483.0,2456598.0,VC MZT 2 5 3 S3 L001 R1 001.fastq.gz,0:75.32 1:0,A:52646449;C:34075268;G:44706296;T:53569169;N:38301,75,0,,,52646449,34075268,44706296,53569169,38301,SRX4605244,SRS3709825,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.84618,,0.20107,,0.7824,,0.57961,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48176,SRR7749253,SRX4605243,SRS3709824,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 5 2 S12,,strain:fli1:egfp|isolate:32|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 5 2 S12,VC MZT 2 5 2 S12,VC MZT 2 5 2 S12,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-5-2_S12_L001_R1_001.fastq.gz,fastq,216220033.0,2872561.0,VC MZT 2 5 2 S12 L001 R1 001.fastq.gz,0:75.27 1:0,A:62300868;C:38871548;G:50500253;T:64281124;N:266240,75,0,,,62300868,38871548,50500253,64281124,266240,SRX4605243,SRS3709824,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85911,,0.16399,,0.77682,,0.60489,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48177,SRR7749254,SRX4605242,SRS3709823,SRP158697,PRJNA454154,Niclosamide Induces Epiboly Delay During Early Zebrafish Embryogenesis,PRJNA454154,Other,The objective of this project was to rely on mRNA sequencing to test the hypothesis that niclosamide interferes with pathways involved in epib progression during early zebrafish embryogenesis.,,,,,VC MZT 2 5 1 S10,,strain:fli1:egfp|isolate:31|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,VC MZT 2 5 1 S10,VC MZT 2 5 1 S10,VC MZT 2 5 1 S10,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP158697,,,VC-MZT-2-5-1_S10_L001_R1_001.fastq.gz,fastq,194194071.0,2575694.0,VC MZT 2 5 1 S10 L001 R1 001.fastq.gz,0:75.39 1:0,A:54224879;C:35623663;G:45642248;T:58656854;N:46427,75,0,,,54224879,35623663,45642248,58656854,46427,SRX4605242,SRS3709823,SRA762665,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.87423,,0.18128,,0.78313,,0.60759,,75,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-08-23,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48666,SRR7789520,SRX4644483,SRS3742550,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 312uM 5hpf 3 S8,,strain:5D|isolate:30|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 312uM 5hpf 3 S8,TDCIPP 312uM 5hpf 3 S8,TDCIPP 312uM 5hpf 3 S8,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-312uM-5hpf-3_S8_L001_R1_001.fastq.gz,fastq,301434957.0,4000726.0,TDCIPP 312uM 5hpf 3 S8 L001 R1 001.fastq.gz,0:75.35 1:0,A:90915678;C:56603137;G:73971383;T:79863909;N:80850,75,0,,,90915678,56603137,73971383,79863909,80850,SRX4644483,SRS3742550,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86911,,0.19808,,0.80868,,0.71573,,74,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48667,SRR7789521,SRX4644482,SRS3742551,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 312uM 5hpf 2 S1,,strain:5D|isolate:29|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 312uM 5hpf 2 S1,TDCIPP 312uM 5hpf 2 S1,TDCIPP 312uM 5hpf 2 S1,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-312uM-5hpf-2_S1_L001_R1_001.fastq.gz,fastq,197729597.0,2624276.0,TDCIPP 312uM 5hpf 2 S1 L001 R1 001.fastq.gz,0:75.35 1:0,A:59990473;C:36880022;G:47774885;T:53026728;N:57489,75,0,,,59990473,36880022,47774885,53026728,57489,SRX4644482,SRS3742551,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88116,,0.18324,,0.82353,,0.75625,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48668,SRR7789522,SRX4644481,SRS3742552,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 156uM 5hpf 2 S2,,strain:5D|isolate:26|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 156uM 5hpf 2 S2,TDCIPP 156uM 5hpf 2 S2,TDCIPP 156uM 5hpf 2 S2,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-156uM-5hpf-2_S2_L001_R1_001.fastq.gz,fastq,228760747.0,3035366.0,TDCIPP 156uM 5hpf 2 S2 L001 R1 001.fastq.gz,0:75.37 1:0,A:67940152;C:42350669;G:54760175;T:63660181;N:49570,75,0,,,67940152,42350669,54760175,63660181,49570,SRX4644481,SRS3742552,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88323,,0.17216,,0.80975,,0.25459,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48669,SRR7789523,SRX4644480,SRS3742549,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 156uM 5hpf 1 S4,,strain:5D|isolate:25|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 156uM 5hpf 1 S4,TDCIPP 156uM 5hpf 1 S4,TDCIPP 156uM 5hpf 1 S4,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-156uM-5hpf-1_S4_L001_R1_001.fastq.gz,fastq,205893759.0,2733551.0,TDCIPP 156uM 5hpf 1 S4 L001 R1 001.fastq.gz,0:75.32 1:0,A:64189308;C:36820569;G:48195100;T:56594732;N:94050,75,0,,,64189308,36820569,48195100,56594732,94050,SRX4644480,SRS3742549,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86498,,0.16183,,0.80695,,0.72251,,74,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48670,SRR7789524,SRX4644479,SRS3742547,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 312uM 5hpf 1 S9,,strain:5D|isolate:28|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 312uM 5hpf 1 S9,TDCIPP 312uM 5hpf 1 S9,TDCIPP 312uM 5hpf 1 S9,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-312uM-5hpf-1_S9_L001_R1_001.fastq.gz,fastq,224057988.0,2972207.0,TDCIPP 312uM 5hpf 1 S9 L001 R1 001.fastq.gz,0:75.38 1:0,A:65475098;C:41906772;G:54178001;T:62455453;N:42664,75,0,,,65475098,41906772,54178001,62455453,42664,SRX4644479,SRS3742547,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.8943,,0.18439,,0.81276,,0.73409,,74,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48671,SRR7789525,SRX4644478,SRS3742548,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 156uM 5hpf 3 S6,,strain:5D|isolate:27|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 156uM 5hpf 3 S6,TDCIPP 156uM 5hpf 3 S6,TDCIPP 156uM 5hpf 3 S6,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-156uM-5hpf-3_S6_L001_R1_001.fastq.gz,fastq,347180868.0,4609877.0,TDCIPP 156uM 5hpf 3 S6 L001 R1 001.fastq.gz,0:75.31 1:0,A:106565301;C:63385652;G:83390705;T:93736030;N:103180,75,0,,,106565301,63385652,83390705,93736030,103180,SRX4644478,SRS3742548,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.85874,,0.19122,,0.80935,,0.7272,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48672,SRR7789526,SRX4644477,SRS3742546,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,DMSO 5hpf 1 S5,,strain:5D|isolate:22|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,DMSO 5hpf 1 S5,DMSO 5hpf 1 S5,DMSO 5hpf 1 S5,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,DMSO-5hpf-1_S5_L001_R1_001.fastq.gz,fastq,208900499.0,2771964.0,DMSO 5hpf 1 S5 L001 R1 001.fastq.gz,0:75.36 1:0,A:63534935;C:38365890;G:50190881;T:56743855;N:64938,75,0,,,63534935,38365890,50190881,56743855,64938,SRX4644477,SRS3742546,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88006,,0.17161,,0.80771,,0.73152,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48673,SRR7789527,SRX4644476,SRS3742545,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 312uM 4hpf 3 S6,,strain:5D|isolate:21|dev stage:4 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 312uM 4hpf 3 S6,TDCIPP 312uM 4hpf 3 S6,TDCIPP 312uM 4hpf 3 S6,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-312uM-4hpf-3_S6_L001_R1_001.fastq.gz,fastq,228701324.0,3045230.0,TDCIPP 312uM 4hpf 3 S6 L001 R1 001.fastq.gz,0:75.10 1:0,A:73866161;C:40812016;G:54842384;T:59038900;N:141863,75,0,,,73866161,40812016,54842384,59038900,141863,SRX4644476,SRS3742545,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.8046,,0.15954,,0.78338,,0.65047,,74,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48674,SRR7789528,SRX4644475,SRS3742544,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,DMSO 5hpf 3 S7,,strain:5D|isolate:24|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,DMSO 5hpf 3 S7,DMSO 5hpf 3 S7,DMSO 5hpf 3 S7,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,DMSO-5hpf-3_S7_L001_R1_001.fastq.gz,fastq,218445719.0,2899888.0,DMSO 5hpf 3 S7 L001 R1 001.fastq.gz,0:75.33 1:0,A:64208224;C:42349017;G:55033374;T:56778155;N:76949,75,0,,,64208224,42349017,55033374,56778155,76949,SRX4644475,SRS3742544,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.86641,,0.24238,,0.81379,,0.70979,,74,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48675,SRR7789529,SRX4644474,SRS3742543,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,DMSO 5hpf 2 S3,,strain:5D|isolate:23|dev stage:5 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,DMSO 5hpf 2 S3,DMSO 5hpf 2 S3,DMSO 5hpf 2 S3,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,DMSO-5hpf-2_S3_L001_R1_001.fastq.gz,fastq,193446245.0,2566417.0,DMSO 5hpf 2 S3 L001 R1 001.fastq.gz,0:75.38 1:0,A:56091052;C:37003463;G:48017663;T:52298069;N:35998,75,0,,,56091052,37003463,48017663,52298069,35998,SRX4644474,SRS3742543,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88878,,0.21723,,0.81757,,0.72402,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Blastula,Embryo,Embryo Imprecise,All anatomical structures
48676,SRR7789530,SRX4644473,SRS3742541,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 156uM 6hpf 3 S2,,strain:5D|isolate:39|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 156uM 6hpf 3 S2,TDCIPP 156uM 6hpf 3 S2,TDCIPP 156uM 6hpf 3 S2,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-156uM-6hpf-3_S2_L001_R1_001.fastq.gz,fastq,146721941.0,1946057.0,TDCIPP 156uM 6hpf 3 S2 L001 R1 001.fastq.gz,0:75.39 1:0,A:41904864;C:26299084;G:36125770;T:42365277;N:26946,75,0,,,41904864,26299084,36125770,42365277,26946,SRX4644473,SRS3742541,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.88799,,0.15952,,0.8056,,0.6836,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48677,SRR7789531,SRX4644472,SRS3742542,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 312uM 6hpf 1 S8,,strain:5D|isolate:40|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 312uM 6hpf 1 S8,TDCIPP 312uM 6hpf 1 S8,TDCIPP 312uM 6hpf 1 S8,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-312uM-6hpf-1_S8_L001_R1_001.fastq.gz,fastq,180273932.0,2390809.0,TDCIPP 312uM 6hpf 1 S8 L001 R1 001.fastq.gz,0:75.40 1:0,A:51578893;C:34120194;G:43861384;T:50683177;N:30284,75,0,,,51578893,34120194,43861384,50683177,30284,SRX4644472,SRS3742542,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.89416,,0.20081,,0.81085,,0.7028,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Gastrula,Embryo,Embryo Imprecise,All anatomical structures
48678,SRR7789532,SRX4644471,SRS3742540,SRP159670,PRJNA475635,Tris1 3 dichloro 2 propyl phosphate Exposure During Early Blastula Alters the Normal Trajectory of Zebrafish Embryogenesis,PRJNA475635,Other,The objective of this project was to rely on mRNA sequencing and amplicon sequencing to test the hypothesis that tris1 3 dichloro 2 propyl phosphate TDCIPP interferes with pathways involved in early zebrafish embryogenesis.,,,,,TDCIPP 156uM 6hpf 1 S10,,strain:5D|isolate:37|dev stage:6 hpf|sex:not applicable|tissue:embryo|BioSampleModel:Model organism or animal,,,,,,,,,TDCIPP 156uM 6hpf 1 S10,TDCIPP 156uM 6hpf 1 S10,TDCIPP 156uM 6hpf 1 S10,QuantSeq three prime mRNA Seq Library Prep Kit FWD,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiniSeq,,SRP159670,,,TDCIPP-156uM-6hpf-1_S10_L001_R1_001.fastq.gz,fastq,160386815.0,2126525.0,TDCIPP 156uM 6hpf 1 S10 L001 R1 001.fastq.gz,0:75.42 1:0,A:45117312;C:30385234;G:39214225;T:45644737;N:25307,75,0,,,45117312,30385234,39214225,45644737,25307,SRX4644471,SRS3742540,SRA767209,"University of California, Riverside|Environmental Sciences","University of California, Riverside",1,0.89503,,0.20578,,0.81126,,0.69059,,76,,B,,usable mapping rate,illumina,miseq,3prime,poly_a,lexogen,bulk,unknown,unknown,,United States,2018-09-05,Gastrula,Embryo,Embryo Imprecise,All anatomical structures