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
38,DRR408248,DRX393854,DRS407179,DRP012042,PRJDB14275,Zebrafish EN/ENCDC RNA seq,DRP012042,Transcriptome Analysis,A project to find differential expressed genes between enteric neurons ENs and enteric neural crest derived cells ENCDCs in larval zebrafish gut. We dissected guts of transgenic line  TgSAGFFLF217B; uas:gfp for ENs and Tgsox10:cre; EF1alpha:loxP gfp loxP dsred for ENCDCs  and isolated GFP+ ENs and dsRed+ ENCDCs.  Three duplicates for each of ENs and ENCDCs are prepared. Libraries for NGS are prepared using SMART Seq V4 Ultra Low Input RNA Kit.,,,zebrafish 5 day DsRed positive enteric neural crest derived cells replicate 3,zebrafish ENCDC replicate 3,SAMD00529468,,sample name:zebrafish ENCDC replicate 3|biological replicate:enteric neural crest derived cells 3|strain:Tgsox10:cre; EF3alpha:loxP gfp loxP dsred,,,,,,,,,NextSeq 550 paired end sequencing of SAMD00529468,DRX393854,190326ENvsNC N706 5day;NeuralCrestDerivedCell;rep3,1,1,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,NextSeq 550,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>81</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP012042,NextSeq 550 paired end sequencing of SAMD00529468,,,,3803721121.0,24526633.0,DRR408248,0:77.54 1:77.54,A:999106107;C:897663781;G:921501114;T:979486853;N:5963266,77,77,,,999106107,897663781,921501114,979486853,5963266,DRX393854,DRS407179,DRA014886,"NIBB|NIBB core research facilities, National Institute for Basic Biology",University of Hyogo,,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,unknown,unknown,,Japan,2024-09-22,Undetermined,Larval,Brain,Nervous System
39,DRR408247,DRX393853,DRS407178,DRP012042,PRJDB14275,Zebrafish EN/ENCDC RNA seq,DRP012042,Transcriptome Analysis,A project to find differential expressed genes between enteric neurons ENs and enteric neural crest derived cells ENCDCs in larval zebrafish gut. We dissected guts of transgenic line  TgSAGFFLF217B; uas:gfp for ENs and Tgsox10:cre; EF1alpha:loxP gfp loxP dsred for ENCDCs  and isolated GFP+ ENs and dsRed+ ENCDCs.  Three duplicates for each of ENs and ENCDCs are prepared. Libraries for NGS are prepared using SMART Seq V4 Ultra Low Input RNA Kit.,,,zebrafish 5 day DsRed positive enteric neural crest derived cells replicate 2,zebrafish ENCDC replicate 2,SAMD00529467,,sample name:zebrafish ENCDC replicate 2|biological replicate:enteric neural crest derived cells 2|strain:Tgsox10:cre; EF2alpha:loxP gfp loxP dsred,,,,,,,,,NextSeq 550 paired end sequencing of SAMD00529467,DRX393853,190326ENvsNC N705 5day;NeuralCrestDerivedCell;rep2,1,1,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,NextSeq 550,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>81</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP012042,NextSeq 550 paired end sequencing of SAMD00529467,,,,3436798274.0,22156202.0,DRR408247,0:77.56 1:77.56,A:900848174;C:812031426;G:832960423;T:885671203;N:5287048,77,77,,,900848174,812031426,832960423,885671203,5287048,DRX393853,DRS407178,DRA014886,"NIBB|NIBB core research facilities, National Institute for Basic Biology",University of Hyogo,,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,unknown,unknown,,Japan,2024-09-22,Undetermined,Larval,Brain,Nervous System
40,DRR408246,DRX393852,DRS407177,DRP012042,PRJDB14275,Zebrafish EN/ENCDC RNA seq,DRP012042,Transcriptome Analysis,A project to find differential expressed genes between enteric neurons ENs and enteric neural crest derived cells ENCDCs in larval zebrafish gut. We dissected guts of transgenic line  TgSAGFFLF217B; uas:gfp for ENs and Tgsox10:cre; EF1alpha:loxP gfp loxP dsred for ENCDCs  and isolated GFP+ ENs and dsRed+ ENCDCs.  Three duplicates for each of ENs and ENCDCs are prepared. Libraries for NGS are prepared using SMART Seq V4 Ultra Low Input RNA Kit.,,,zebrafish 5 day DsRed positive enteric neural crest derived cells replicate 1,zebrafish ENCDC replicate 1,SAMD00529466,,sample name:zebrafish ENCDC replicate 1|biological replicate:enteric neural crest derived cells 1|strain:Tgsox10:cre; EF1alpha:loxP gfp loxP dsred,,,,,,,,,NextSeq 550 paired end sequencing of SAMD00529466,DRX393852,190326ENvsNC N704 5day;NeuralCrestDerivedCell;rep1,1,1,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,NextSeq 550,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>81</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP012042,NextSeq 550 paired end sequencing of SAMD00529466,,,,3582073512.0,23135170.0,DRR408246,0:77.41 1:77.42,A:943152815;C:841972211;G:863627245;T:927361159;N:5960082,77,77,,,943152815,841972211,863627245,927361159,5960082,DRX393852,DRS407177,DRA014886,"NIBB|NIBB core research facilities, National Institute for Basic Biology",University of Hyogo,,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,unknown,unknown,,Japan,2024-09-22,Undetermined,Larval,Brain,Nervous System
41,DRR408245,DRX393851,DRS407176,DRP012042,PRJDB14275,Zebrafish EN/ENCDC RNA seq,DRP012042,Transcriptome Analysis,A project to find differential expressed genes between enteric neurons ENs and enteric neural crest derived cells ENCDCs in larval zebrafish gut. We dissected guts of transgenic line  TgSAGFFLF217B; uas:gfp for ENs and Tgsox10:cre; EF1alpha:loxP gfp loxP dsred for ENCDCs  and isolated GFP+ ENs and dsRed+ ENCDCs.  Three duplicates for each of ENs and ENCDCs are prepared. Libraries for NGS are prepared using SMART Seq V4 Ultra Low Input RNA Kit.,,,zebrafish 5 day GFP positive enteric neurons replicate 3,zebrafish EN replicate 3,SAMD00529465,,sample name:zebrafish EN replicate 3|biological replicate:eneteric neurons 3|strain:TgSAGFFLF219B; uas:gfp,,,,,,,,,NextSeq 550 paired end sequencing of SAMD00529465,DRX393851,190326ENvsNC N703 5day;EntericNeuron;rep3,1,1,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,NextSeq 550,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>81</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP012042,NextSeq 550 paired end sequencing of SAMD00529465,,,,3729799291.0,23985772.0,DRR408245,0:77.75 1:77.75,A:978752781;C:879988139;G:903976580;T:962122970;N:4958821,77,77,,,978752781,879988139,903976580,962122970,4958821,DRX393851,DRS407176,DRA014886,"NIBB|NIBB core research facilities, National Institute for Basic Biology",University of Hyogo,,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,unknown,unknown,,Japan,2024-09-22,Undetermined,Larval,Undetermined,Undetermined
42,DRR408244,DRX393850,DRS407175,DRP012042,PRJDB14275,Zebrafish EN/ENCDC RNA seq,DRP012042,Transcriptome Analysis,A project to find differential expressed genes between enteric neurons ENs and enteric neural crest derived cells ENCDCs in larval zebrafish gut. We dissected guts of transgenic line  TgSAGFFLF217B; uas:gfp for ENs and Tgsox10:cre; EF1alpha:loxP gfp loxP dsred for ENCDCs  and isolated GFP+ ENs and dsRed+ ENCDCs.  Three duplicates for each of ENs and ENCDCs are prepared. Libraries for NGS are prepared using SMART Seq V4 Ultra Low Input RNA Kit.,,,zebrafish 5 day GFP positive enteric neurons replicate 2,zebrafish EN replicate 2,SAMD00529464,,sample name:zebrafish EN replicate 2|biological replicate:eneteric neurons 2|strain:TgSAGFFLF218B; uas:gfp,,,,,,,,,NextSeq 550 paired end sequencing of SAMD00529464,DRX393850,190326ENvsNC N702 5day;EntericNeuron;rep2,1,1,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,NextSeq 550,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>81</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP012042,NextSeq 550 paired end sequencing of SAMD00529464,,,,3315994810.0,21477755.0,DRR408244,0:77.19 1:77.20,A:873970427;C:778042505;G:798459853;T:859611841;N:5910184,77,77,,,873970427,778042505,798459853,859611841,5910184,DRX393850,DRS407175,DRA014886,"NIBB|NIBB core research facilities, National Institute for Basic Biology",University of Hyogo,,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,unknown,unknown,,Japan,2024-09-22,Undetermined,Larval,Undetermined,Undetermined
43,DRR408243,DRX393849,DRS407174,DRP012042,PRJDB14275,Zebrafish EN/ENCDC RNA seq,DRP012042,Transcriptome Analysis,A project to find differential expressed genes between enteric neurons ENs and enteric neural crest derived cells ENCDCs in larval zebrafish gut. We dissected guts of transgenic line  TgSAGFFLF217B; uas:gfp for ENs and Tgsox10:cre; EF1alpha:loxP gfp loxP dsred for ENCDCs  and isolated GFP+ ENs and dsRed+ ENCDCs.  Three duplicates for each of ENs and ENCDCs are prepared. Libraries for NGS are prepared using SMART Seq V4 Ultra Low Input RNA Kit.,,,zebrafish 5 day GFP positive enteric neurons replicate 1,zebrafish EN replicate 1,SAMD00529463,,sample name:zebrafish EN replicate 1|biological replicate:eneteric neurons 1|strain:TgSAGFFLF217B; uas:gfp,,,,,,,,,NextSeq 550 paired end sequencing of SAMD00529463,DRX393849,190326ENvsNC N701 5day;EntericNeuron;rep1,1,1,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,NextSeq 550,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>81</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP012042,NextSeq 550 paired end sequencing of SAMD00529463,,,,2999501518.0,19455440.0,DRR408243,0:77.08 1:77.09,A:788053541;C:705895776;G:724185148;T:775760738;N:5606315,77,77,,,788053541,705895776,724185148,775760738,5606315,DRX393849,DRS407174,DRA014886,"NIBB|NIBB core research facilities, National Institute for Basic Biology",University of Hyogo,,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,unknown,unknown,,Japan,2024-09-22,Undetermined,Larval,Undetermined,Undetermined
10391,ERR8516975,ERX8083451,ERS10521298,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Sibling neurite,SAMEA12922152,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922152|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Sibling neurite|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq sibling +/+ and +/ |growth condition:transwell culture|organism part:neurite|sample name:E MTAB 11431:Sibling neurite,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Sibling neurite p,Sibling neurite p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq sibling +/+ and +/ |Experimental Factor: organism part:neurite,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X4_190227_A00421_38_AH7523DRXX_S56_R1_001.fastq.gz 15812X4_190227_A00421_38_AH7523DRXX_S56_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X4 190227 A00421 38 AH7523DRXX S56 R,0:51 1:51,A:1077092958;C:949537387;G:955020348;T:1099432979;N:20556852,51,51,,,1077092958,949537387,955020348,1099432979,20556852,ERX8083451,ERS10521298,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.9053,0.9259,0.21658,0.22155,0.69369,0.69179,0.50726,0.50871,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10392,ERR8516976,ERX8083451,ERS10521298,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Sibling neurite,SAMEA12922152,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922152|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Sibling neurite|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq sibling +/+ and +/ |growth condition:transwell culture|organism part:neurite|sample name:E MTAB 11431:Sibling neurite,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Sibling neurite p,Sibling neurite p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq sibling +/+ and +/ |Experimental Factor: organism part:neurite,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X5_190227_A00421_38_AH7523DRXX_S55_R1_001.fastq.gz 15812X5_190227_A00421_38_AH7523DRXX_S55_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X5 190227 A00421 38 AH7523DRXX S55 R,0:51 1:51,A:972081222;C:890179393;G:888655698;T:998443264;N:18934747,51,51,,,972081222,890179393,888655698,998443264,18934747,ERX8083451,ERS10521298,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.86107,0.87807,0.22063,0.23029,0.70859,0.70561,0.51656,0.51946,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10393,ERR8516977,ERX8083451,ERS10521298,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Sibling neurite,SAMEA12922152,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922152|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Sibling neurite|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq sibling +/+ and +/ |growth condition:transwell culture|organism part:neurite|sample name:E MTAB 11431:Sibling neurite,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Sibling neurite p,Sibling neurite p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq sibling +/+ and +/ |Experimental Factor: organism part:neurite,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X6_190227_A00421_38_AH7523DRXX_S54_R1_001.fastq.gz 15812X6_190227_A00421_38_AH7523DRXX_S54_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X6 190227 A00421 38 AH7523DRXX S54 R,0:51 1:51,A:728798881;C:962223604;G:958876331;T:735449513;N:17094231,51,51,,,728798881,962223604,958876331,735449513,17094231,ERX8083451,ERS10521298,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.54616,0.55881,0.13313,0.14036,0.84295,0.84185,0.64193,0.59762,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10394,ERR8516972,ERX8083450,ERS10521297,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Sibling cellular,SAMEA12922151,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922151|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Sibling cellular|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq sibling +/+ and +/ |growth condition:transwell culture|organism part:neuron|sample name:E MTAB 11431:Sibling cellular,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Sibling cellular p,Sibling cellular p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq sibling +/+ and +/ |Experimental Factor: organism part:neuron,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X1_190227_A00421_38_AH7523DRXX_S59_R1_001.fastq.gz 15812X1_190227_A00421_38_AH7523DRXX_S59_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X1 190227 A00421 38 AH7523DRXX S59 R,0:51 1:51,A:837274632;C:1062368015;G:1049892288;T:853310517;N:19213786,51,51,,,837274632,1062368015,1049892288,853310517,19213786,ERX8083450,ERS10521297,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.5726,0.57788,0.13781,0.14082,0.80616,0.80452,0.61581,0.60389,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10395,ERR8516973,ERX8083450,ERS10521297,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Sibling cellular,SAMEA12922151,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922151|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Sibling cellular|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq sibling +/+ and +/ |growth condition:transwell culture|organism part:neuron|sample name:E MTAB 11431:Sibling cellular,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Sibling cellular p,Sibling cellular p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq sibling +/+ and +/ |Experimental Factor: organism part:neuron,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X2_190227_A00421_38_AH7523DRXX_S58_R1_001.fastq.gz 15812X2_190227_A00421_38_AH7523DRXX_S58_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X2 190227 A00421 38 AH7523DRXX S58 R,0:51 1:51,A:897813231;C:796012893;G:794839496;T:923696030;N:17221274,51,51,,,897813231,796012893,794839496,923696030,17221274,ERX8083450,ERS10521297,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.92095,0.94156,0.18892,0.20024,0.6901,0.68905,0.49377,0.50086,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10396,ERR8516974,ERX8083450,ERS10521297,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Sibling cellular,SAMEA12922151,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922151|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Sibling cellular|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq sibling +/+ and +/ |growth condition:transwell culture|organism part:neuron|sample name:E MTAB 11431:Sibling cellular,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Sibling cellular p,Sibling cellular p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq sibling +/+ and +/ |Experimental Factor: organism part:neuron,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X3_190227_A00421_38_AH7523DRXX_S57_R1_001.fastq.gz 15812X3_190227_A00421_38_AH7523DRXX_S57_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X3 190227 A00421 38 AH7523DRXX S57 R,0:51 1:51,A:951912827;C:1107150666;G:1086060798;T:973791571;N:20785248,51,51,,,951912827,1107150666,1086060798,973791571,20785248,ERX8083450,ERS10521297,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.63792,0.62667,0.18547,0.18671,0.78756,0.78549,0.59274,0.55478,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10397,ERR8516969,ERX8083449,ERS10521296,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Null neurite,SAMEA12922150,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922150|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Null neurite|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq null  / |growth condition:transwell culture|organism part:neurite|sample name:E MTAB 11431:Null neurite,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Null neurite p,Null neurite p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq null  / |Experimental Factor: organism part:neurite,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X10_190227_A00421_38_AH7523DRXX_S48_R1_001.fastq.gz 15812X10_190227_A00421_38_AH7523DRXX_S48_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X10 190227 A00421 38 AH7523DRXX S48 R,0:51 1:51,A:925784769;C:934445856;G:959155668;T:924080408;N:18878983,51,51,,,925784769,934445856,959155668,924080408,18878983,ERX8083449,ERS10521296,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.59503,0.61112,0.1947,0.20225,0.76512,0.76337,0.54584,0.54345,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10398,ERR8516970,ERX8083449,ERS10521296,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Null neurite,SAMEA12922150,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922150|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Null neurite|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq null  / |growth condition:transwell culture|organism part:neurite|sample name:E MTAB 11431:Null neurite,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Null neurite p,Null neurite p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq null  / |Experimental Factor: organism part:neurite,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X11_190227_A00421_38_AH7523DRXX_S52_R1_001.fastq.gz 15812X11_190227_A00421_38_AH7523DRXX_S52_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X11 190227 A00421 38 AH7523DRXX S52 R,0:51 1:51,A:991755033;C:864808531;G:892202564;T:992188806;N:18881958,51,51,,,991755033,864808531,892202564,992188806,18881958,ERX8083449,ERS10521296,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.86612,0.88689,0.26181,0.2728,0.7094,0.7091,0.53639,0.53906,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10399,ERR8516971,ERX8083449,ERS10521296,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Null neurite,SAMEA12922150,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922150|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Null neurite|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq null  / |growth condition:transwell culture|organism part:neurite|sample name:E MTAB 11431:Null neurite,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Null neurite p,Null neurite p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq null  / |Experimental Factor: organism part:neurite,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X12_190227_A00421_38_AH7523DRXX_S50_R1_001.fastq.gz 15812X12_190227_A00421_38_AH7523DRXX_S50_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X12 190227 A00421 38 AH7523DRXX S50 R,0:51 1:51,A:766707527;C:798667604;G:818782599;T:773280942;N:15938306,51,51,,,766707527,798667604,818782599,773280942,15938306,ERX8083449,ERS10521296,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.88811,0.92834,0.21869,0.22669,0.72878,0.72604,0.55598,0.57831,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10400,ERR8516966,ERX8083448,ERS10521295,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Null cellular,SAMEA12922149,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922149|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Null cellular|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq null  / |growth condition:transwell culture|organism part:neuron|sample name:E MTAB 11431:Null cellular,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Null cellular p,Null cellular p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq null  / |Experimental Factor: organism part:neuron,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X7_190227_A00421_38_AH7523DRXX_S53_R1_001.fastq.gz 15812X7_190227_A00421_38_AH7523DRXX_S53_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X7 190227 A00421 38 AH7523DRXX S53 R,0:51 1:51,A:774360373;C:720215184;G:719479745;T:796239200;N:15182374,51,51,,,774360373,720215184,719479745,796239200,15182374,ERX8083448,ERS10521295,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.79643,0.81194,0.25554,0.2603,0.72236,0.72021,0.51775,0.51678,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10401,ERR8516967,ERX8083448,ERS10521295,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Null cellular,SAMEA12922149,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922149|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Null cellular|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq null  / |growth condition:transwell culture|organism part:neuron|sample name:E MTAB 11431:Null cellular,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Null cellular p,Null cellular p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq null  / |Experimental Factor: organism part:neuron,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X8_190227_A00421_38_AH7523DRXX_S51_R1_001.fastq.gz 15812X8_190227_A00421_38_AH7523DRXX_S51_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X8 190227 A00421 38 AH7523DRXX S51 R,0:51 1:51,A:739921027;C:667375549;G:663864111;T:764302396;N:14288091,51,51,,,739921027,667375549,663864111,764302396,14288091,ERX8083448,ERS10521295,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.90817,0.92909,0.23387,0.24814,0.70088,0.69842,0.51238,0.51267,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
10402,ERR8516968,ERX8083448,ERS10521295,ERP135383,PRJEB50776,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E-MTAB-11431,Other,Zebrafish primary neurons either sfpq sibling/control +/+  +/  or null  /  were cultured in transwell inserts. At DIV2  for each genotype  cellular and neurite tissues were separately isolated  RNA extracted and total RNAseq performed.,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19,,Protocols: Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Null cellular,SAMEA12922149,"Centre for Developmental Neurobiology, King's College London",ENA first public:2022 02 19|ENA last update:2022 02 19|External Id:SAMEA12922149|INSDC center alias:Centre for Developmental Neurobiology  King's College London|INSDC center name:Centre for Developmental Neurobiology  King's College London|INSDC first public:2022 02 19T00:15:43Z|INSDC last update:2022 02 19T00:15:43Z|INSDC status:public|Submitter Id:E MTAB 11431:Null cellular|broker name:ArrayExpress|common name:zebrafish|genotype:sfpq null  / |growth condition:transwell culture|organism part:neuron|sample name:E MTAB 11431:Null cellular,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,E MTAB 11431:Null cellular p,Null cellular p,Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,Cellular and neurite tissues cultured in transwell inserts were collected separately. Cellular tissue by swabbing  and neurite tissue using a cell scraper Qiagen RNeasy Micro Kit TruSeq Stranded Total RNA Library Prep Gold kit with Ribo Zero Gold depleteion,Experimental Factor: genotype:sfpq null  / |Experimental Factor: organism part:neuron,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP135383,Illumina NovaSeq 6000 paired end sequencing; Total RNAseq of sfpq sibling +/+  +/  and null  /  primary zebrafish neuron cellular and neurite tissue,ENA FIRST PUBLIC:2022 02 19|ENA LAST UPDATE:2022 02 19|loader:fastq load.py,15812X9_190227_A00421_38_AH7523DRXX_S49_R1_001.fastq.gz 15812X9_190227_A00421_38_AH7523DRXX_S49_R2_001.fastq.gz,fastq fastq,,,E MTAB 11431:15812X9 190227 A00421 38 AH7523DRXX S49 R,0:51 1:51,A:882831441;C:935213418;G:957033335;T:879085993;N:18444957,51,51,,,882831441,935213418,957033335,879085993,18444957,ERX8083448,ERS10521295,ERA8932807,"Centre for Developmental Neurobiology, King","Centre for Developmental Neurobiology, King",2,0.76218,0.7682,0.18357,0.18521,0.74444,0.74272,0.46714,0.55518,51,51,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,ribozero,bulk,bulk,bulk,,United Kingdom,2022-02-19,Undetermined,Undetermined,Brain,Nervous System
34282,SRR31640757,SRX27004210,SRS23468967,SRP550004,PRJNA1195374,Cortex Dictamni induces retinitis pigmentosa in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2,PRJNA1195374,Other,Ethnopharmacological relevance: Cortex Dictamni CD is the dried root skin of Dictamnus dasycarpus Turcz  widely used in the field of traditional Chinese medicine. mainly for the treatment of skin diseases. Recent adverse reactions to CD limited the clinical application in combination with other traditional Chinese medicines.Aim of the study: To investigate the retinitis pigmentosa RP effects of CD using the zebrafish model and elucidate the underlying molecular mechanism of CD induced RP in zebrafish.Materials and methods: The 3 dpf zebrafish larvae were divided into control and CD group. RNA sequencing followed  with qRT PCR validating miRNAs and mRNAs. Dual luciferase reporter assay confirmed mmu mir 6240 p3 2's interaction with pde6a. HT22 cells were transfected  treated with CD  and evaluated for migration  invasion  malondialdehyde level  superoxide dismutase and acetylcholine activities.Results: The results showed 6228 differentially expressed genes and 66 miRNAs differentially expressed in zebrafish exposed to CD. The personal correlation coefficient results showed that mmu mir 6240 p3 2 had the highest correlation coefficient with pde6a and had a negative regulatory relationship. The results of dual luciferase reporter gene further showed that pde6a gene was the direct target of mmu mir 6240 p3 2. Cell experiment results showed that inhibiting mir 6240 p3 2 can upregulate pde6a expression  alleviate HT22 cell injury  and reverse the inhibition of cell migration and invasion induced by CD.Conclusions: CD induces RP in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2. These findings have important implications for understanding the potential side effects of CD and for developing safer therapeutic strategies involving traditional Chinese medicines.,,,,,CD1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:not applicable|tissue:not applicable|treatment:Experiment group replicate1|BioSampleModel:Model organism or animal,,,,,,,,,microRNA seq of Danio rerio: Experiment group,BXP 1,BXP 1,,,,miRNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP550004,,,BXP_1.fq.gz,fastq,816499035.0,16009785.0,BXP 1.fq.gz,0:51,A:191280900;C:189440771;G:247005615;T:188686493;N:85256,51,,,,191280900,189440771,247005615,188686493,85256,SRX27004210,SRS23468967,SRA2029520,Heilongjiang University of Chinese Medicine|College of Traditional Chinese Medicine,Heilongjiang University of Chinese Medicine,,,,,,,,,,,,T,,under 1.2% mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-12-07,Undetermined,Larval,Undetermined,Undetermined
34283,SRR31640758,SRX27004209,SRS23468966,SRP550004,PRJNA1195374,Cortex Dictamni induces retinitis pigmentosa in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2,PRJNA1195374,Other,Ethnopharmacological relevance: Cortex Dictamni CD is the dried root skin of Dictamnus dasycarpus Turcz  widely used in the field of traditional Chinese medicine. mainly for the treatment of skin diseases. Recent adverse reactions to CD limited the clinical application in combination with other traditional Chinese medicines.Aim of the study: To investigate the retinitis pigmentosa RP effects of CD using the zebrafish model and elucidate the underlying molecular mechanism of CD induced RP in zebrafish.Materials and methods: The 3 dpf zebrafish larvae were divided into control and CD group. RNA sequencing followed  with qRT PCR validating miRNAs and mRNAs. Dual luciferase reporter assay confirmed mmu mir 6240 p3 2's interaction with pde6a. HT22 cells were transfected  treated with CD  and evaluated for migration  invasion  malondialdehyde level  superoxide dismutase and acetylcholine activities.Results: The results showed 6228 differentially expressed genes and 66 miRNAs differentially expressed in zebrafish exposed to CD. The personal correlation coefficient results showed that mmu mir 6240 p3 2 had the highest correlation coefficient with pde6a and had a negative regulatory relationship. The results of dual luciferase reporter gene further showed that pde6a gene was the direct target of mmu mir 6240 p3 2. Cell experiment results showed that inhibiting mir 6240 p3 2 can upregulate pde6a expression  alleviate HT22 cell injury  and reverse the inhibition of cell migration and invasion induced by CD.Conclusions: CD induces RP in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2. These findings have important implications for understanding the potential side effects of CD and for developing safer therapeutic strategies involving traditional Chinese medicines.,,,,,Control3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:not applicable|tissue:not applicable|treatment:Control group replicate3|BioSampleModel:Model organism or animal,,,,,,,,,microRNA seq of Danio rerio: Control group,Control 3,Control 3,,,,miRNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP550004,,,Control_3.fq.gz,fastq,662560023.0,12991373.0,Control 3.fq.gz,0:51,A:151053320;C:152811933;G:203340354;T:155283230;N:71186,51,,,,151053320,152811933,203340354,155283230,71186,SRX27004209,SRS23468966,SRA2029520,Heilongjiang University of Chinese Medicine|College of Traditional Chinese Medicine,Heilongjiang University of Chinese Medicine,,,,,,,,,,,,T,,under 1.2% mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-12-07,Undetermined,Larval,Undetermined,Undetermined
34284,SRR31640759,SRX27004208,SRS23468963,SRP550004,PRJNA1195374,Cortex Dictamni induces retinitis pigmentosa in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2,PRJNA1195374,Other,Ethnopharmacological relevance: Cortex Dictamni CD is the dried root skin of Dictamnus dasycarpus Turcz  widely used in the field of traditional Chinese medicine. mainly for the treatment of skin diseases. Recent adverse reactions to CD limited the clinical application in combination with other traditional Chinese medicines.Aim of the study: To investigate the retinitis pigmentosa RP effects of CD using the zebrafish model and elucidate the underlying molecular mechanism of CD induced RP in zebrafish.Materials and methods: The 3 dpf zebrafish larvae were divided into control and CD group. RNA sequencing followed  with qRT PCR validating miRNAs and mRNAs. Dual luciferase reporter assay confirmed mmu mir 6240 p3 2's interaction with pde6a. HT22 cells were transfected  treated with CD  and evaluated for migration  invasion  malondialdehyde level  superoxide dismutase and acetylcholine activities.Results: The results showed 6228 differentially expressed genes and 66 miRNAs differentially expressed in zebrafish exposed to CD. The personal correlation coefficient results showed that mmu mir 6240 p3 2 had the highest correlation coefficient with pde6a and had a negative regulatory relationship. The results of dual luciferase reporter gene further showed that pde6a gene was the direct target of mmu mir 6240 p3 2. Cell experiment results showed that inhibiting mir 6240 p3 2 can upregulate pde6a expression  alleviate HT22 cell injury  and reverse the inhibition of cell migration and invasion induced by CD.Conclusions: CD induces RP in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2. These findings have important implications for understanding the potential side effects of CD and for developing safer therapeutic strategies involving traditional Chinese medicines.,,,,,Control2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:not applicable|tissue:not applicable|treatment:Control group replicate2|BioSampleModel:Model organism or animal,,,,,,,,,microRNA seq of Danio rerio: Control group,Control 2,Control 2,,,,miRNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP550004,,,Control_2.fq.gz,fastq,648856119.0,12722669.0,Control 2.fq.gz,0:51,A:149869576;C:151844056;G:195830503;T:151241215;N:70769,51,,,,149869576,151844056,195830503,151241215,70769,SRX27004208,SRS23468963,SRA2029520,Heilongjiang University of Chinese Medicine|College of Traditional Chinese Medicine,Heilongjiang University of Chinese Medicine,,,,,,,,,,,,T,,under 1.2% mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-12-07,Undetermined,Larval,Undetermined,Undetermined
34285,SRR31640760,SRX27004207,SRS23468962,SRP550004,PRJNA1195374,Cortex Dictamni induces retinitis pigmentosa in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2,PRJNA1195374,Other,Ethnopharmacological relevance: Cortex Dictamni CD is the dried root skin of Dictamnus dasycarpus Turcz  widely used in the field of traditional Chinese medicine. mainly for the treatment of skin diseases. Recent adverse reactions to CD limited the clinical application in combination with other traditional Chinese medicines.Aim of the study: To investigate the retinitis pigmentosa RP effects of CD using the zebrafish model and elucidate the underlying molecular mechanism of CD induced RP in zebrafish.Materials and methods: The 3 dpf zebrafish larvae were divided into control and CD group. RNA sequencing followed  with qRT PCR validating miRNAs and mRNAs. Dual luciferase reporter assay confirmed mmu mir 6240 p3 2's interaction with pde6a. HT22 cells were transfected  treated with CD  and evaluated for migration  invasion  malondialdehyde level  superoxide dismutase and acetylcholine activities.Results: The results showed 6228 differentially expressed genes and 66 miRNAs differentially expressed in zebrafish exposed to CD. The personal correlation coefficient results showed that mmu mir 6240 p3 2 had the highest correlation coefficient with pde6a and had a negative regulatory relationship. The results of dual luciferase reporter gene further showed that pde6a gene was the direct target of mmu mir 6240 p3 2. Cell experiment results showed that inhibiting mir 6240 p3 2 can upregulate pde6a expression  alleviate HT22 cell injury  and reverse the inhibition of cell migration and invasion induced by CD.Conclusions: CD induces RP in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2. These findings have important implications for understanding the potential side effects of CD and for developing safer therapeutic strategies involving traditional Chinese medicines.,,,,,Control1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:not applicable|tissue:not applicable|treatment:Control group replicate1|BioSampleModel:Model organism or animal,,,,,,,,,microRNA seq of Danio rerio: Control group,Control 1,Control 1,,,,miRNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP550004,,,Control_1.fq.gz,fastq,835887501.0,16389951.0,Control 1.fq.gz,0:51,A:193253330;C:196900031;G:252690178;T:192797500;N:246462,51,,,,193253330,196900031,252690178,192797500,246462,SRX27004207,SRS23468962,SRA2029520,Heilongjiang University of Chinese Medicine|College of Traditional Chinese Medicine,Heilongjiang University of Chinese Medicine,,,,,,,,,,,,T,,under 1.2% mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-12-07,Undetermined,Larval,Undetermined,Undetermined
34290,SRR31640765,SRX27004202,SRS23468965,SRP550004,PRJNA1195374,Cortex Dictamni induces retinitis pigmentosa in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2,PRJNA1195374,Other,Ethnopharmacological relevance: Cortex Dictamni CD is the dried root skin of Dictamnus dasycarpus Turcz  widely used in the field of traditional Chinese medicine. mainly for the treatment of skin diseases. Recent adverse reactions to CD limited the clinical application in combination with other traditional Chinese medicines.Aim of the study: To investigate the retinitis pigmentosa RP effects of CD using the zebrafish model and elucidate the underlying molecular mechanism of CD induced RP in zebrafish.Materials and methods: The 3 dpf zebrafish larvae were divided into control and CD group. RNA sequencing followed  with qRT PCR validating miRNAs and mRNAs. Dual luciferase reporter assay confirmed mmu mir 6240 p3 2's interaction with pde6a. HT22 cells were transfected  treated with CD  and evaluated for migration  invasion  malondialdehyde level  superoxide dismutase and acetylcholine activities.Results: The results showed 6228 differentially expressed genes and 66 miRNAs differentially expressed in zebrafish exposed to CD. The personal correlation coefficient results showed that mmu mir 6240 p3 2 had the highest correlation coefficient with pde6a and had a negative regulatory relationship. The results of dual luciferase reporter gene further showed that pde6a gene was the direct target of mmu mir 6240 p3 2. Cell experiment results showed that inhibiting mir 6240 p3 2 can upregulate pde6a expression  alleviate HT22 cell injury  and reverse the inhibition of cell migration and invasion induced by CD.Conclusions: CD induces RP in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2. These findings have important implications for understanding the potential side effects of CD and for developing safer therapeutic strategies involving traditional Chinese medicines.,,,,,CD3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:not applicable|tissue:not applicable|treatment:Experiment group replicate3|BioSampleModel:Model organism or animal,,,,,,,,,microRNA seq of Danio rerio: Experiment group,BXP 3,BXP 3,,,,miRNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP550004,,,BXP_3.fq.gz,fastq,656139327.0,12865477.0,BXP 3.fq.gz,0:51,A:152349522;C:156353407;G:196379918;T:150985088;N:71392,51,,,,152349522,156353407,196379918,150985088,71392,SRX27004202,SRS23468965,SRA2029520,Heilongjiang University of Chinese Medicine|College of Traditional Chinese Medicine,Heilongjiang University of Chinese Medicine,,,,,,,,,,,,T,,under 1.2% mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-12-07,Undetermined,Larval,Undetermined,Undetermined
34291,SRR31640766,SRX27004201,SRS23468964,SRP550004,PRJNA1195374,Cortex Dictamni induces retinitis pigmentosa in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2,PRJNA1195374,Other,Ethnopharmacological relevance: Cortex Dictamni CD is the dried root skin of Dictamnus dasycarpus Turcz  widely used in the field of traditional Chinese medicine. mainly for the treatment of skin diseases. Recent adverse reactions to CD limited the clinical application in combination with other traditional Chinese medicines.Aim of the study: To investigate the retinitis pigmentosa RP effects of CD using the zebrafish model and elucidate the underlying molecular mechanism of CD induced RP in zebrafish.Materials and methods: The 3 dpf zebrafish larvae were divided into control and CD group. RNA sequencing followed  with qRT PCR validating miRNAs and mRNAs. Dual luciferase reporter assay confirmed mmu mir 6240 p3 2's interaction with pde6a. HT22 cells were transfected  treated with CD  and evaluated for migration  invasion  malondialdehyde level  superoxide dismutase and acetylcholine activities.Results: The results showed 6228 differentially expressed genes and 66 miRNAs differentially expressed in zebrafish exposed to CD. The personal correlation coefficient results showed that mmu mir 6240 p3 2 had the highest correlation coefficient with pde6a and had a negative regulatory relationship. The results of dual luciferase reporter gene further showed that pde6a gene was the direct target of mmu mir 6240 p3 2. Cell experiment results showed that inhibiting mir 6240 p3 2 can upregulate pde6a expression  alleviate HT22 cell injury  and reverse the inhibition of cell migration and invasion induced by CD.Conclusions: CD induces RP in zebrafish by inhibiting pde6a post transcriptional activity via mmu mir 6240 p3 2. These findings have important implications for understanding the potential side effects of CD and for developing safer therapeutic strategies involving traditional Chinese medicines.,,,,,CD2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:not applicable|tissue:not applicable|treatment:Experiment group replicate2|BioSampleModel:Model organism or animal,,,,,,,,,microRNA seq of Danio rerio: Experiment group,BXP 2,BXP 2,,,,miRNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP550004,,,BXP_2.fq.gz,fastq,644434827.0,12635977.0,BXP 2.fq.gz,0:51,A:151820167;C:153674905;G:190467723;T:148402934;N:69098,51,,,,151820167,153674905,190467723,148402934,69098,SRX27004201,SRS23468964,SRA2029520,Heilongjiang University of Chinese Medicine|College of Traditional Chinese Medicine,Heilongjiang University of Chinese Medicine,,,,,,,,,,,,T,,under 1.2% mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-12-07,Undetermined,Larval,Undetermined,Undetermined
42197,SRR5485641,SRX2768777,SRS2152486,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,A 3.0.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:3.0.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,A 3.0.2,A 3.0.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_4.A_R1.fastq.gz HI.4096.008.Index_4.A_R1.fastq.gz,fastq fastq,2072387100.0,20723871.0,HI.4079.001.Index 4.A R1.fastq.gz,0:100 1:0,A:539231555;C:478779687;G:466992364;T:587014266;N:369228,100,0,,,539231555,478779687,466992364,587014266,369228,SRX2768777,SRS2152486,SRA557480,Brandon University|Biology,Brandon University,1,0.94094,,0.13282,,0.67566,,0.46135,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42198,SRR5485640,SRX2768776,SRS2152485,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,B 3.5.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:3.5.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,B 3.5.2,B 3.5.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_5.B_R1.fastq.gz HI.4096.008.Index_5.B_R1.fastq.gz,fastq fastq,2236492200.0,22364922.0,HI.4079.001.Index 5.B R1.fastq.gz,0:100 1:0,A:580646206;C:518191209;G:502712894;T:634542622;N:399269,100,0,,,580646206,518191209,502712894,634542622,399269,SRX2768776,SRS2152485,SRA557480,Brandon University|Biology,Brandon University,1,0.94188,,0.13073,,0.67653,,0.4635,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42199,SRR5485639,SRX2768775,SRS2152484,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,C 3.20.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:3.20.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,C 3.20.2,C 3.20.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_12.C_R1.fastq.gz HI.4096.008.Index_12.C_R1.fastq.gz,fastq fastq,1979628000.0,19796280.0,HI.4079.001.Index 12.C R1.fastq.gz,0:100 1:0,A:519406228;C:453563284;G:442115002;T:564195493;N:347993,100,0,,,519406228,453563284,442115002,564195493,347993,SRX2768775,SRS2152484,SRA557480,Brandon University|Biology,Brandon University,1,0.93946,,0.14364,,0.6759,,0.46247,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42200,SRR5485638,SRX2768774,SRS2152483,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,D 3.0.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:3.0.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,D 3.0.14,D 3.0.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_19.D_R1.fastq.gz HI.4096.008.Index_19.D_R1.fastq.gz,fastq fastq,1856095600.0,18560956.0,HI.4079.001.Index 19.D R1.fastq.gz,0:100 1:0,A:492424946;C:416504198;G:409645413;T:537196088;N:324955,100,0,,,492424946,416504198,409645413,537196088,324955,SRX2768774,SRS2152483,SRA557480,Brandon University|Biology,Brandon University,1,0.9288,,0.15497,,0.69232,,0.46842,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42201,SRR5485637,SRX2768773,SRS2152481,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,E 3.5.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:3.5.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,E 3.5.14,E 3.5.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4096.008.Index_1.E_R1.fastq.gz HI.4079.001.Index_1.E_R1.fastq.gz,fastq fastq,2936761500.0,29367615.0,HI.4079.001.Index 1.E R1.fastq.gz,0:100 1:0,A:762661816;C:675701333;G:661832769;T:836033713;N:531869,100,0,,,762661816,675701333,661832769,836033713,531869,SRX2768773,SRS2152481,SRA557480,Brandon University|Biology,Brandon University,1,0.93957,,0.12499,,0.67714,,0.4697,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2017-05-08,Undetermined,Multi-stage,Trunk,Surface Structure
42202,SRR5485636,SRX2768772,SRS2152480,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,F 3.20.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:3.20.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,F 3.20.14,F 3.20.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_3.F_R1.fastq.gz HI.4096.008.Index_3.F_R1.fastq.gz,fastq fastq,2169884500.0,21698845.0,HI.4079.001.Index 3.F R1.fastq.gz,0:100 1:0,A:566808272;C:496620769;G:487930959;T:618144722;N:379778,100,0,,,566808272,496620769,487930959,618144722,379778,SRX2768772,SRS2152480,SRA557480,Brandon University|Biology,Brandon University,1,0.93678,,0.13131,,0.67635,,0.47972,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42203,SRR5485635,SRX2768771,SRS2152482,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,G 4.0.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:4.0.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,G 4.0.2,G 4.0.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_9.G_R1.fastq.gz HI.4096.008.Index_9.G_R1.fastq.gz,fastq fastq,2008051800.0,20080518.0,HI.4079.001.Index 9.G R1.fastq.gz,0:100 1:0,A:518304309;C:466602325;G:455957803;T:566834696;N:352667,100,0,,,518304309,466602325,455957803,566834696,352667,SRX2768771,SRS2152482,SRA557480,Brandon University|Biology,Brandon University,1,0.94445,,0.12419,,0.68201,,0.46743,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42204,SRR5485634,SRX2768770,SRS2152479,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,H 4.5.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:4.5.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,H 4.5.2,H 4.5.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_8.H_R1.fastq.gz HI.4096.008.Index_8.H_R1.fastq.gz,fastq fastq,1908097900.0,19080979.0,HI.4079.001.Index 8.H R1.fastq.gz,0:100 1:0,A:494318032;C:441931870;G:431477592;T:540030651;N:339755,100,0,,,494318032,441931870,431477592,540030651,339755,SRX2768770,SRS2152479,SRA557480,Brandon University|Biology,Brandon University,1,0.94216,,0.1306,,0.68195,,0.45834,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42205,SRR5485633,SRX2768769,SRS2152477,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,I 4.20.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:4.20.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,I 4.20.2,I 4.20.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_10.I_R1.fastq.gz HI.4096.008.Index_10.I_R1.fastq.gz,fastq fastq,2059931100.0,20599311.0,HI.4079.001.Index 10.I R1.fastq.gz,0:100 1:0,A:536731862;C:475769707;G:462890515;T:584183211;N:355805,100,0,,,536731862,475769707,462890515,584183211,355805,SRX2768769,SRS2152477,SRA557480,Brandon University|Biology,Brandon University,1,0.93561,,0.13393,,0.68225,,0.46489,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42206,SRR5485632,SRX2768768,SRS2152478,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,J 4.0.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:4.0.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,J 4.0.14,J 4.0.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_11.J_R1.fastq.gz HI.4096.008.Index_11.J_R1.fastq.gz,fastq fastq,2199504800.0,21995048.0,HI.4079.001.Index 11.J R1.fastq.gz,0:100 1:0,A:579625731;C:499663817;G:489173373;T:630657278;N:384601,100,0,,,579625731,499663817,489173373,630657278,384601,SRX2768768,SRS2152478,SRA557480,Brandon University|Biology,Brandon University,1,0.93523,,0.13836,,0.68655,,0.47839,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42207,SRR5485631,SRX2768767,SRS2152475,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,K 4.5.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:4.5.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,K 4.5.14,K 4.5.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_20.K_R1.fastq.gz HI.4096.008.Index_20.K_R1.fastq.gz,fastq fastq,2154282200.0,21542822.0,HI.4079.001.Index 20.K R1.fastq.gz,0:100 1:0,A:563358732;C:494058898;G:482596638;T:613890813;N:377119,100,0,,,563358732,494058898,482596638,613890813,377119,SRX2768767,SRS2152475,SRA557480,Brandon University|Biology,Brandon University,1,0.93863,,0.12932,,0.67801,,0.46426,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42208,SRR5485630,SRX2768766,SRS2152476,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,L 4.20.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:4.20.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,L 4.20.14,L 4.20.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4096.008.Index_22.L_R1.fastq.gz HI.4079.001.Index_22.L_R1.fastq.gz,fastq fastq,2702515700.0,27025157.0,HI.4079.001.Index 22.L R1.fastq.gz,0:100 1:0,A:708045960;C:615042366;G:603133757;T:775807969;N:485648,100,0,,,708045960,615042366,603133757,775807969,485648,SRX2768766,SRS2152476,SRA557480,Brandon University|Biology,Brandon University,1,0.93316,,0.14421,,0.68915,,0.47027,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2017-05-08,Undetermined,Multi-stage,Trunk,Surface Structure
42209,SRR5485629,SRX2768765,SRS2152474,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,M 5.0.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:5.0.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,M 5.0.2,M 5.0.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_25.M_R1.fastq.gz HI.4096.008.Index_25.M_R1.fastq.gz,fastq fastq,1999183400.0,19991834.0,HI.4079.001.Index 25.M R1.fastq.gz,0:100 1:0,A:526344986;C:456726468;G:447467581;T:568292150;N:352215,100,0,,,526344986,456726468,447467581,568292150,352215,SRX2768765,SRS2152474,SRA557480,Brandon University|Biology,Brandon University,1,0.9374,,0.14185,,0.67665,,0.47249,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42210,SRR5485628,SRX2768764,SRS2152473,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,N 5.5.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:5.5.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,N 5.5.2,N 5.5.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_21.N_R1.fastq.gz HI.4096.008.Index_21.N_R1.fastq.gz,fastq fastq,2097386100.0,20973861.0,HI.4079.001.Index 21.N R1.fastq.gz,0:100 1:0,A:551586521;C:479609380;G:467572413;T:598246436;N:371350,100,0,,,551586521,479609380,467572413,598246436,371350,SRX2768764,SRS2152473,SRA557480,Brandon University|Biology,Brandon University,1,0.93984,,0.13949,,0.68219,,0.46921,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42211,SRR5485627,SRX2768763,SRS2152472,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,O 5.20.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:5.20.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,O 5.20.2,O 5.20.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_23.O_R1.fastq.gz HI.4096.008.Index_23.O_R1.fastq.gz,fastq fastq,2003835800.0,20038358.0,HI.4079.001.Index 23.O R1.fastq.gz,0:100 1:0,A:529075084;C:456810826;G:444441300;T:573155538;N:353052,100,0,,,529075084,456810826,444441300,573155538,353052,SRX2768763,SRS2152472,SRA557480,Brandon University|Biology,Brandon University,1,0.93635,,0.15287,,0.67712,,0.45807,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42212,SRR5485626,SRX2768762,SRS2152471,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,P 5.0.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:5.0.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,P 5.0.14,P 5.0.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_27.P_R1.fastq.gz HI.4096.008.Index_27.P_R1.fastq.gz,fastq fastq,1799355500.0,17993555.0,HI.4079.001.Index 27.P R1.fastq.gz,0:100 1:0,A:485156399;C:399414298;G:389730888;T:524733869;N:320046,100,0,,,485156399,399414298,389730888,524733869,320046,SRX2768762,SRS2152471,SRA557480,Brandon University|Biology,Brandon University,1,0.92813,,0.15749,,0.67943,,0.47424,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42213,SRR5485625,SRX2768761,SRS2152470,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,Q 5.5.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:5.5.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,Q 5.5.14,Q 5.5.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_2.Q_R1.fastq.gz HI.4096.008.Index_2.Q_R1.fastq.gz,fastq fastq,2260494100.0,22604941.0,HI.4079.001.Index 2.Q R1.fastq.gz,0:100 1:0,A:602519260;C:506296484;G:495685951;T:655587703;N:404702,100,0,,,602519260,506296484,495685951,655587703,404702,SRX2768761,SRS2152470,SRA557480,Brandon University|Biology,Brandon University,1,0.92524,,0.14979,,0.6859,,0.47957,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42214,SRR5485624,SRX2768760,SRS2152469,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,R 5.20.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:5.20.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,R 5.20.14,R 5.20.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_13.R_R1.fastq.gz HI.4096.008.Index_13.R_R1.fastq.gz,fastq fastq,1975297900.0,19752979.0,HI.4079.001.Index 13.R R1.fastq.gz,0:100 1:0,A:527732232;C:440160233;G:430962427;T:576091914;N:351094,100,0,,,527732232,440160233,430962427,576091914,351094,SRX2768760,SRS2152469,SRA557480,Brandon University|Biology,Brandon University,1,0.92785,,0.15864,,0.6814,,0.47773,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42215,SRR5485623,SRX2768759,SRS2152468,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,S 6.0.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:S 6.0.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,S 6.0.2,S 6.0.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_6.S_R1.fastq.gz HI.4096.008.Index_6.S_R1.fastq.gz,fastq fastq,2690628500.0,26906285.0,HI.4079.001.Index 6.S R1.fastq.gz,0:100 1:0,A:713021693;C:609779787;G:594591832;T:772745072;N:490116,100,0,,,713021693,609779787,594591832,772745072,490116,SRX2768759,SRS2152468,SRA557480,Brandon University|Biology,Brandon University,1,0.93405,,0.15472,,0.68505,,0.45796,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42216,SRR5485622,SRX2768758,SRS2152466,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,T 6.5.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:6.5.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,T 6.5.2,T 6.5.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_15.T_R1.fastq.gz HI.4096.008.Index_15.T_R1.fastq.gz,fastq fastq,1949043500.0,19490435.0,HI.4079.001.Index 15.T R1.fastq.gz,0:100 1:0,A:515794596;C:441198348;G:430323928;T:561379111;N:347517,100,0,,,515794596,441198348,430323928,561379111,347517,SRX2768758,SRS2152466,SRA557480,Brandon University|Biology,Brandon University,1,0.93579,,0.16207,,0.68473,,0.44993,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42217,SRR5485621,SRX2768757,SRS2152467,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,U 6.20.2,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:6.20.2|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,U 6.20.2,U 6.20.2,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_7.U_R1.fastq.gz HI.4096.008.Index_7.U_R1.fastq.gz,fastq fastq,1754851900.0,17548519.0,HI.4079.001.Index 7.U R1.fastq.gz,0:100 1:0,A:464191451;C:397313933;G:387262108;T:505777499;N:306909,100,0,,,464191451,397313933,387262108,505777499,306909,SRX2768757,SRS2152467,SRA557480,Brandon University|Biology,Brandon University,1,0.93016,,0.16163,,0.68329,,0.47088,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42218,SRR5485620,SRX2768756,SRS2152463,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,V 6.0.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:6.0.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,V 6.0.14,V 6.0.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_18.V_R1.fastq.gz HI.4096.008.Index_18.V_R1.fastq.gz,fastq fastq,2027423200.0,20274232.0,HI.4079.001.Index 18.V R1.fastq.gz,0:100 1:0,A:542440452;C:449399743;G:440389586;T:594839784;N:353635,100,0,,,542440452,449399743,440389586,594839784,353635,SRX2768756,SRS2152463,SRA557480,Brandon University|Biology,Brandon University,1,0.92441,,0.16974,,0.6842,,0.48209,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42219,SRR5485619,SRX2768755,SRS2152464,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,W 6.5.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:6.5.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,W 6.5.14,W 6.5.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_14.W_R1.fastq.gz HI.4096.008.Index_14.W_R1.fastq.gz,fastq fastq,2139528300.0,21395283.0,HI.4079.001.Index 14.W R1.fastq.gz,0:100 1:0,A:569259910;C:478055273;G:469309420;T:622525486;N:378211,100,0,,,569259910,478055273,469309420,622525486,378211,SRX2768755,SRS2152464,SRA557480,Brandon University|Biology,Brandon University,1,0.92551,,0.15358,,0.68136,,0.47093,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
42220,SRR5485618,SRX2768754,SRS2152465,SRP105410,PRJNA384462,Danio rerio Transcriptome or Gene expression,PRJNA384462,Whole Genome Sequencing,5 dpf larval zebrafish Danio rerio were exposed to 0  5 and 20mg/L of virgin polyethylene microparticles in dechlorinated water for up to 14 days. Fish were maintained at 26C throughout the experiment and fed at libitum. Whole RNA was extracted from 4 replicates of 35 pooled embryos from each treatment at day 2 and day 14 post exposure with RNeasy kit QIAGEN. The NEB libraries generated from these extracted RNA were then sequenced on 2 Illumina HiSeq 2500 SR 100bp lanes.,,,,,X 6.20.14,,ecotype:Growth Chamber|sex:male and female|tissue:Whole body|treatment:6.20.14|age:newborn|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,X 6.20.14,X 6.20.14,Illumina HiSeq read information to generate gene expression values,,,WGS,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP105410,,,HI.4079.001.Index_16.X_R1.fastq.gz HI.4096.008.Index_16.X_R1.fastq.gz,fastq fastq,1768110400.0,17681104.0,HI.4079.001.Index 16.X R1.fastq.gz,0:100 1:0,A:472810124;C:392555880;G:382616900;T:519817796;N:309700,100,0,,,472810124,392555880,382616900,519817796,309700,SRX2768754,SRS2152465,SRA557480,Brandon University|Biology,Brandon University,1,0.92486,,0.16073,,0.69041,,0.48403,,100,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,Canada,2018-09-11,Undetermined,Multi-stage,Trunk,Surface Structure
48909,SRR7615221,SRX4479802,SRS3604791,SRP155604,PRJNA479418,Lariat intronic RNAs in the cytoplasm of vertebrate cells,PRJNA479418,Other,Introns are non coding DNA sequences interspersed among the coding sequences of genes. Shortly post transcription  the intronic sequences are spliced out of the primary RNA transcript as lariat RNAs circular molecules with a short tail. Most of these lariats are destroyed within minutes in the cell nucleus. We report here that many such intronic RNAs are  in fact  exported to the cytoplasm  where they remain as stable circular molecules. These cytoplasmic introns are derived from hundreds of different genes of widely different functions. We find them in cells of human  mouse  chicken  frog  and zebrafish. The widespread occurrence of so many stable lariat RNAs in the cytoplasm suggests that they play some as yet unexpected role in cell metabolism.,,,,,zebrafish eggs plusRNaseR,,strain:AB strain|dev stage:Germline|sex:female|tissue:Egg|treatment:n1|rna treatment:rRNA depletion and RNase R|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq of Zebrafish egg plus RNaseR,Zf pR,Zf pR,rRNA depletion ribozero fellowed by TruSeq Stranded Total RNA illumina,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,,SRP155604,,,150112_Zebrafish_egg_plusRNaseR_50bp.fastq,fastq,1453087900.0,29061758.0,150112 Zebrafish egg plusRNaseR 50bp.fastq,0:50,A:316388483;C:426462939;G:363020331;T:347178488;N:37659,50,,,,316388483,426462939,363020331,347178488,37659,SRX4479802,SRS3604791,SRA746415,Carnegie Institution for Science|Department of Embryology,Carnegie Institution for Science,1,0.83263,,0.31979,,0.81592,,0.51542,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,ribozero,bulk,unknown,unknown,,United States,2018-07-28,Undetermined,Undetermined,Undetermined,Undetermined
48910,SRR7615223,SRX4479800,SRS3604789,SRP155604,PRJNA479418,Lariat intronic RNAs in the cytoplasm of vertebrate cells,PRJNA479418,Other,Introns are non coding DNA sequences interspersed among the coding sequences of genes. Shortly post transcription  the intronic sequences are spliced out of the primary RNA transcript as lariat RNAs circular molecules with a short tail. Most of these lariats are destroyed within minutes in the cell nucleus. We report here that many such intronic RNAs are  in fact  exported to the cytoplasm  where they remain as stable circular molecules. These cytoplasmic introns are derived from hundreds of different genes of widely different functions. We find them in cells of human  mouse  chicken  frog  and zebrafish. The widespread occurrence of so many stable lariat RNAs in the cytoplasm suggests that they play some as yet unexpected role in cell metabolism.,,,,,zebrafish eggs minusRNaseR,,strain:AB strain|dev stage:Germline|sex:female|tissue:Egg|treatment:n1|rna treatment:rRNA depletion|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq of Zebrafish egg minus RNaseR,Zf mR,Zf mR,rRNA depletion ribozero fellowed by TruSeq Stranded Total RNA illumina,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,,SRP155604,,,150112_Zebrafish_egg_minusRNaseR_50bp.fastq,fastq,2440809700.0,48816194.0,150112 Zebrafish egg minusRNaseR 50bp.fastq,0:50,A:588729472;C:623954878;G:556893764;T:671166713;N:64873,50,,,,588729472,623954878,556893764,671166713,64873,SRX4479800,SRS3604789,SRA746415,Carnegie Institution for Science|Department of Embryology,Carnegie Institution for Science,1,0.92096,,0.07705,,0.72861,,0.50081,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,ribozero,bulk,unknown,unknown,,United States,2018-07-28,Undetermined,Undetermined,Undetermined,Undetermined
51318,SRR8735311,SRX5528099,SRS4494644,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample1,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:Un injected|id:1|BioSampleModel:Model organism or animal,,,,,,,,,Un injected1,1,1,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,1_2.fastq.gz 1_1.fastq.gz,fastq fastq,6454568216.0,31953308.0,1 1.fastq.gz,0:101 1:101,A:1711842196;C:1499359338;G:1512713745;T:1727020570;N:3632367,101,101,,,1711842196,1499359338,1512713745,1727020570,3632367,SRX5528099,SRS4494644,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.92197,0.92401,0.20455,0.20573,0.72452,0.72943,0.63778,0.63469,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51319,SRR8735312,SRX5528098,SRS4494643,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample2,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:p53MO|id:2|BioSampleModel:Model organism or animal,,,,,,,,,p53MO2,2,2,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,2_2.fastq.gz 2_1.fastq.gz,fastq fastq,7923312236.0,39224318.0,2 1.fastq.gz,0:101 1:101,A:2115145426;C:1843204267;G:1845223955;T:2117945529;N:1793059,101,101,,,2115145426,1843204267,1845223955,2117945529,1793059,SRX5528098,SRS4494643,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.93137,0.93358,0.18665,0.18693,0.7025,0.70421,0.55171,0.55971,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2019-03-16,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51320,SRR8735313,SRX5528097,SRS4494642,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample3,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:p53MO dachbMOss|id:3|BioSampleModel:Model organism or animal,,,,,,,,,p53MO dachbMOss3,3,3,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,3_2.fastq.gz 3_1.fastq.gz,fastq fastq,7167410460.0,35482230.0,3 1.fastq.gz,0:101 1:101,A:1924009959;C:1637729174;G:1671772822;T:1929836302;N:4062203,101,101,,,1924009959,1637729174,1671772822,1929836302,4062203,SRX5528097,SRS4494642,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.91551,0.91609,0.20076,0.20036,0.70956,0.71244,0.62871,0.62479,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51321,SRR8735314,SRX5528096,SRS4494641,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample4,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:Un injected|id:4|BioSampleModel:Model organism or animal,,,,,,,,,Un injected4,4,4,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,4_1.fastq.gz 4_2.fastq.gz,fastq fastq,7730990460.0,38272230.0,4 1.fastq.gz,0:101 1:101,A:2077362460;C:1785598181;G:1793240660;T:2073032897;N:1756262,101,101,,,2077362460,1785598181,1793240660,2073032897,1756262,SRX5528096,SRS4494641,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.93365,0.93546,0.1884,0.18821,0.70299,0.70364,0.57943,0.5807,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51322,SRR8735315,SRX5528095,SRS4494640,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample5,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:p53MO|id:5|BioSampleModel:Model organism or animal,,,,,,,,,p53MO5,5,5,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,5_1.fastq.gz 5_2.fastq.gz,fastq fastq,6268848608.0,31033904.0,5 1.fastq.gz,0:101 1:101,A:1714288048;C:1406856986;G:1416719545;T:1727415480;N:3568549,101,101,,,1714288048,1406856986,1416719545,1727415480,3568549,SRX5528095,SRS4494640,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.91571,0.91742,0.22322,0.2243,0.71187,0.71417,0.63484,0.63493,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51323,SRR8735316,SRX5528094,SRS4494639,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample6,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:p53MO dachbMOss|id:6|BioSampleModel:Model organism or animal,,,,,,,,,p53MO dachbMOss6,6,6,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,6_1.fastq.gz 6_2.fastq.gz,fastq fastq,7551147638.0,37381919.0,6 1.fastq.gz,0:101 1:101,A:2055603662;C:1718965994;G:1723927649;T:2050926435;N:1723898,101,101,,,2055603662,1718965994,1723927649,2050926435,1723898,SRX5528094,SRS4494639,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.92834,0.93211,0.19289,0.19294,0.697,0.69895,0.60804,0.60183,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51324,SRR8735317,SRX5528093,SRS4494638,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample7,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:Un injected|id:7|BioSampleModel:Model organism or animal,,,,,,,,,Un injected7,7,7,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,7_1.fastq.gz 7_2.fastq.gz,fastq fastq,8054903318.0,39875759.0,7 1.fastq.gz,0:101 1:101,A:2179527852;C:1844086452;G:1846868174;T:2182591371;N:1829469,101,101,,,2179527852,1844086452,1846868174,2182591371,1829469,SRX5528093,SRS4494638,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.93087,0.93266,0.20658,0.20582,0.70465,0.70656,0.5697,0.57048,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
51325,SRR8735318,SRX5528092,SRS4494637,SRP188580,PRJNA527366,Characterization of the key role of dachshund b in the development of the pancreatic islet in zebrafish Danio rerio,PRJNA527366,Other,In this study  we characterized the function of dachb  the zebrafish homologue of human DACH1  in developing zebrafish embryos. Morpholino MO  mediated knock down of dachb resulted in impaired islet cell development  with a significant decrease in both the ß cell and islet cell numbers.,,,,,sample8,,strain:NA|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:NA|sex:NA|tissue:embryos|genotype:p53MO dachbMOss|id:8|BioSampleModel:Model organism or animal,,,,,,,,,p53MO dachbMOss8,8,8,rRNA depletion,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP188580,,,8_1.fastq.gz 8_2.fastq.gz,fastq fastq,7770765472.0,38469136.0,8 1.fastq.gz,0:101 1:101,A:2070852269;C:1791977628;G:1814751519;T:2088768678;N:4415378,101,101,,,2070852269,1791977628,1814751519,2088768678,4415378,SRX5528092,SRS4494637,SRA861332,The Chinese University of Hong Kong|Department of Medicine and Therapeutics,The Chinese University of Hong Kong,2,0.91409,0.9159,0.23811,0.23792,0.71804,0.72088,0.66221,0.66365,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2020-01-27,Undetermined,Embryo,Embryo Imprecise,All anatomical structures
66804,SRR16647484,SRX12848204,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Geosmin Group,Geosmin5,Geosmin5,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Geos_9_2.fastq.gz Geos_9_1.fastq.gz,fastq fastq,6334215404.0,31357502.0,Geos 9 1.fastq.gz,0:101 1:101,A:1660680129;C:1502146962;G:1509550327;T:1661764270;N:73716,101,101,,,1660680129,1502146962,1509550327,1661764270,73716,SRX12848204,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.9606,0.96446,0.06247,0.06142,0.68024,0.67868,0.46945,0.48301,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66805,SRR16647485,SRX12848203,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Geosmin Group,Geosmin4,Geosmin4,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Geos_8_2.fastq.gz Geos_8_1.fastq.gz,fastq fastq,4083342938.0,20214569.0,Geos 8 1.fastq.gz,0:101 1:101,A:1059060815;C:981147486;G:980661533;T:1062425066;N:48038,101,101,,,1059060815,981147486,980661533,1062425066,48038,SRX12848203,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95947,0.96443,0.05387,0.05331,0.66395,0.66419,0.49093,0.48488,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66806,SRR16647486,SRX12848202,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Geosmin Group,Geosmin3,Geosmin3,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Geos_7_1.fastq.gz Geos_7_2.fastq.gz,fastq fastq,6351796272.0,31444536.0,Geos 7 1.fastq.gz,0:101 1:101,A:1666018762;C:1507166887;G:1508718223;T:1669818164;N:74236,101,101,,,1666018762,1507166887,1508718223,1669818164,74236,SRX12848202,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95901,0.96323,0.05991,0.05856,0.66703,0.6663,0.47986,0.48189,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66807,SRR16647487,SRX12848201,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Geosmin Group,Geosmin2,Geosmin2,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Geos_5_2.fastq.gz Geos_5_1.fastq.gz,fastq fastq,5034600934.0,24923767.0,Geos 5 1.fastq.gz,0:101 1:101,A:1324246402;C:1190124296;G:1192268426;T:1327901769;N:60041,101,101,,,1324246402,1190124296,1192268426,1327901769,60041,SRX12848201,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95626,0.96096,0.06801,0.06708,0.67292,0.67109,0.47788,0.48168,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66808,SRR16647488,SRX12848200,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Geosmin Group,Geosmin1,Geosmin1,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Geos_2_1.fastq.gz Geos_2_2.fastq.gz,fastq fastq,5540468928.0,27428064.0,Geos 2 1.fastq.gz,0:101 1:101,A:1453397068;C:1314496546;G:1318965254;T:1453545221;N:64839,101,101,,,1453397068,1314496546,1318965254,1453545221,64839,SRX12848200,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96164,0.96533,0.0572,0.056,0.68712,0.68682,0.47672,0.48134,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66809,SRR16647489,SRX12848199,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Control Group,Control5,Control5,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Control_10_2.fastq.gz Control_10_1.fastq.gz,fastq fastq,4443325118.0,21996659.0,Control 10 1.fastq.gz,0:101 1:101,A:1166167313;C:1050165932;G:1062683912;T:1164256629;N:51332,101,101,,,1166167313,1050165932,1062683912,1164256629,51332,SRX12848199,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96096,0.96463,0.06551,0.06521,0.68091,0.67884,0.46365,0.47531,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66810,SRR16647490,SRX12848198,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Control Group,Control4,Control4,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Control_9_1.fastq.gz Control_9_2.fastq.gz,fastq fastq,4929324190.0,24402595.0,Control 9 1.fastq.gz,0:101 1:101,A:1284447529;C:1179260179;G:1182075889;T:1283482794;N:57799,101,101,,,1284447529,1179260179,1182075889,1283482794,57799,SRX12848198,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96315,0.96562,0.0579,0.05684,0.6872,0.6854,0.4698,0.47885,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66811,SRR16647491,SRX12848197,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Control group,Control3,Control3,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Control_7_1.fastq.gz Control_7_2.fastq.gz,fastq fastq,5451223308.0,26986254.0,Control 7 1.fastq.gz,0:101 1:101,A:1430742224;C:1290445675;G:1297973588;T:1431995526;N:66295,101,101,,,1430742224,1290445675,1297973588,1431995526,66295,SRX12848197,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95748,0.96139,0.06511,0.06325,0.6786,0.67683,0.48371,0.47809,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66812,SRR16647492,SRX12848196,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,MCLR Group,Microcystin5,Microcystin5,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,MCLR_9_2.fastq.gz MCLR_9_1.fastq.gz,fastq fastq,6319760688.0,31285944.0,MCLR 9 1.fastq.gz,0:101 1:101,A:1651386984;C:1506636394;G:1503844710;T:1657818616;N:73984,101,101,,,1651386984,1506636394,1503844710,1657818616,73984,SRX12848196,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96138,0.9653,0.06138,0.06096,0.68527,0.68375,0.47357,0.47623,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66813,SRR16647493,SRX12848195,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,MCLR Group,Microcystin4,Microcystin4,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,MCLR_6_1.fastq.gz MCLR_6_2.fastq.gz,fastq fastq,5958169780.0,29495890.0,MCLR 6 1.fastq.gz,0:101 1:101,A:1554274821;C:1422499065;G:1422743047;T:1558582611;N:70236,101,101,,,1554274821,1422499065,1422743047,1558582611,70236,SRX12848195,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96155,0.96352,0.05329,0.05208,0.67838,0.67671,0.46412,0.46602,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66814,SRR16647494,SRX12848194,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,MCLR Group,Microcystin3,Microcystin3,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,MCLR_4_1.fastq.gz MCLR_4_2.fastq.gz,fastq fastq,4299813410.0,21286205.0,MCLR 4 1.fastq.gz,0:101 1:101,A:1130530424;C:1017015892;G:1018283950;T:1133933238;N:49906,101,101,,,1130530424,1017015892,1018283950,1133933238,49906,SRX12848194,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95994,0.96417,0.06438,0.06329,0.68164,0.68024,0.46908,0.45721,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66815,SRR16647495,SRX12848193,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,MCLR Group,Microcystin2,Microcystin2,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,MCLR_2_1.fastq.gz MCLR_2_2.fastq.gz,fastq fastq,4423131582.0,21896691.0,MCLR 2 1.fastq.gz,0:101 1:101,A:1149883296;C:1057886123;G:1061611354;T:1153698579;N:52230,101,101,,,1149883296,1057886123,1061611354,1153698579,52230,SRX12848193,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95613,0.95907,0.05023,0.04906,0.66797,0.66728,0.46443,0.47031,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66816,SRR16647496,SRX12848192,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,MCLR Group,Microcystin1,Microcystin1,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,MCLR_1_1.fastq.gz MCLR_1_2.fastq.gz,fastq fastq,4515806556.0,22355478.0,MCLR 1 1.fastq.gz,0:101 1:101,A:1182700971;C:1072987233;G:1076179047;T:1183885831;N:53474,101,101,,,1182700971,1072987233,1076179047,1183885831,53474,SRX12848192,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96333,0.96773,0.05947,0.05827,0.68674,0.68592,0.48455,0.48382,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66817,SRR16647497,SRX12848191,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Control group,Control2,Control2,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Control_4_2.fastq.gz Control_4_1.fastq.gz,fastq fastq,5751744364.0,28473982.0,Control 4 1.fastq.gz,0:101 1:101,A:1506277501;C:1366270345;G:1370493240;T:1508634723;N:68555,101,101,,,1506277501,1366270345,1370493240,1508634723,68555,SRX12848191,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.95986,0.96351,0.06011,0.05885,0.66849,0.66665,0.48168,0.48854,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
66818,SRR16647498,SRX12848190,SRS10791664,SRP343938,PRJNA776643,RNAseq study for assessed the microcystin LR and geosmin differential gene expression modulation in zebrafish larvae 30 dph,PRJNA776643,Other,Microcystin LR and Geosmin effects over whole body zebrafish Danio rerio larvae transcriptome,,,,Cyanotoxins exposition,Cyanotoxins,,strain:Wild|dev stage:31 dph|sex:Not collected|tissue:whole body|BioSampleModel:Model organism or animal,,,,,,,,,Control group,Control1,Control1,TruSeq stranded mRNA library,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP343938,,,Control_1_1.fastq.gz Control_1_2.fastq.gz,fastq fastq,5858177356.0,29000878.0,Control 1 1.fastq.gz,0:101 1:101,A:1526389428;C:1399991038;G:1403067225;T:1528661140;N:68525,101,101,,,1526389428,1399991038,1403067225,1528661140,68525,SRX12848190,SRS10791664,SRA1320158,University of Chile|INTA,University of Chile,2,0.96083,0.96528,0.05769,0.05658,0.67393,0.67294,0.4684,0.46759,101,101,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,Chile,2021-10-31,Undetermined,Larval,Trunk,Surface Structure
68109,SRR17600926,SRX13769748,SRS11649751,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,WT+E.coli1,WT+E.coli1,GF WT E1,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:WT+E.coli1|ID:10|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF WT E1,GF WT E1,WT+E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_WT_E1_Clean_Data1.fq.gz GF_WT_E1_Clean_Data2.fq.gz,fastq fastq,5722208611.0,20607920.0,GF WT E1 Clean Data1.fq.gz,0:138.84 1:138.83,A:1540223471;C:1318102846;G:1330098519;T:1533783551;N:224,138,138,,,1540223471,1318102846,1330098519,1533783551,224,SRX13769748,SRS11649751,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.94934,0.95004,0.10193,0.10143,0.67375,0.67298,0.47471,0.47424,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68110,SRR17600927,SRX13769747,SRS11649750,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,luxS+E.coli3,luxS+E.coli3,GF KO E3,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:luxS+E.coli3|ID:9|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF KO E3,GF KO E3,KO+E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_KO_E3_Clean_Data1.fq.gz GF_KO_E3_Clean_Data2.fq.gz,fastq fastq,5889250016.0,21144775.0,GF KO E3 Clean Data1.fq.gz,0:139.26 1:139.26,A:1620329671;C:1324010520;G:1330595847;T:1614313735;N:243,139,139,,,1620329671,1324010520,1330595847,1614313735,243,SRX13769747,SRS11649750,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.94698,0.94852,0.11876,0.11831,0.67495,0.67517,0.47639,0.48061,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68111,SRR17600928,SRX13769746,SRS11649749,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,luxS+E.coli2,luxS+E.coli2,GF KO E2,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:luxS+E.coli2|ID:8|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF KO E2,GF KO E2,KO+E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_KO_E2_Clean_Data1.fq.gz GF_KO_E2_Clean_Data2.fq.gz,fastq fastq,6504274425.0,23249789.0,GF KO E2 Clean Data1.fq.gz,0:139.88 1:139.87,A:1766001900;C:1480404718;G:1494298349;T:1763569217;N:241,139,139,,,1766001900,1480404718,1494298349,1763569217,241,SRX13769746,SRS11649749,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.94738,0.94849,0.10481,0.10434,0.67022,0.66918,0.46937,0.46181,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68112,SRR17600929,SRX13769745,SRS11649748,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,luxS+E.coli1,luxS+E.coli1,GF KO E1,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:luxS+E.coli1|ID:7|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF KO E1,GF KO E1,KO+E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_KO_E1_Clean_Data1.fq.gz GF_KO_E1_Clean_Data2.fq.gz,fastq fastq,6723052797.0,24155410.0,GF KO E1 Clean Data1.fq.gz,0:139.16 1:139.16,A:1841129365;C:1517886618;G:1529873607;T:1834162936;N:271,139,139,,,1841129365,1517886618,1529873607,1834162936,271,SRX13769745,SRS11649748,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.94667,0.94708,0.11716,0.11601,0.67521,0.67414,0.47792,0.47067,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68113,SRR17600930,SRX13769744,SRS11649747,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,E.coli3,E.coli3,GF E3,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:E.coli3|ID:6|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF E3,GF E3,E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_E3_Clean_Data1.fq.gz GF_E3_Clean_Data2.fq.gz,fastq fastq,4907699666.0,17532965.0,GF E3 Clean Data1.fq.gz,0:139.96 1:139.95,A:1313371994;C:1137331297;G:1142894993;T:1314101187;N:195,139,139,,,1313371994,1137331297,1142894993,1314101187,195,SRX13769744,SRS11649747,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.95257,0.95317,0.08924,0.08818,0.65906,0.65782,0.49004,0.49077,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68114,SRR17600931,SRX13769743,SRS11649746,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,E.coli2,E.coli2,GF E2,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:E.coli2|ID:5|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF E2,GF E2,E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_E2_Clean_Data1.fq.gz GF_E2_Clean_Data2.fq.gz,fastq fastq,5297962158.0,18917352.0,GF E2 Clean Data1.fq.gz,0:140.03 1:140.03,A:1418683575;C:1225022840;G:1234832199;T:1419423335;N:209,140,140,,,1418683575,1225022840,1234832199,1419423335,209,SRX13769743,SRS11649746,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.9504,0.95145,0.08893,0.08853,0.65884,0.65758,0.47798,0.48072,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68115,SRR17600932,SRX13769742,SRS11649745,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,E.coli1,E.coli1,GF E1,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:E.coli1|ID:4|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF E1,GF E1,E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_E1_Clean_Data1.fq.gz GF_E1_Clean_Data2.fq.gz,fastq fastq,5071249140.0,18130619.0,GF E1 Clean Data1.fq.gz,0:139.86 1:139.85,A:1349570050;C:1179084754;G:1191487646;T:1351106481;N:209,139,139,,,1349570050,1179084754,1191487646,1351106481,209,SRX13769742,SRS11649745,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.94788,0.95007,0.08632,0.08584,0.66312,0.66186,0.48354,0.47951,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68116,SRR17600933,SRX13769741,SRS11649744,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,CON3,CON3,GF3,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:germ free|ID:3|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF3,GF3,con,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF3_Clean_Data1.fq.gz GF3_Clean_Data2.fq.gz,fastq fastq,6819708063.0,24463230.0,GF3 Clean Data1.fq.gz,0:139.39 1:139.39,A:1807598117;C:1598304151;G:1610340377;T:1803465151;N:267,139,139,,,1807598117,1598304151,1610340377,1803465151,267,SRX13769741,SRS11649744,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.95386,0.95433,0.09938,0.09846,0.6759,0.67517,0.49818,0.49068,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68117,SRR17600934,SRX13769740,SRS11649743,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,WT+E.coli3,WT+E.coli3,GF WT E3,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:WT+E.coli3|ID:12|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF WT E3,GF WT E3,WT+E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_WT_E3_Clean_Data1.fq.gz GF_WT_E3_Clean_Data2.fq.gz,fastq fastq,6793678785.0,24320155.0,GF WT E3 Clean Data1.fq.gz,0:139.67 1:139.67,A:1830160129;C:1563893212;G:1574235384;T:1825389791;N:269,139,139,,,1830160129,1563893212,1574235384,1825389791,269,SRX13769740,SRS11649743,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.95157,0.95265,0.10564,0.10461,0.67233,0.67205,0.48987,0.48557,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68118,SRR17600935,SRX13769739,SRS11649742,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,WT+E.coli2,WT+E.coli2,GF WT E2,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:WT+E.coli2|ID:11|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF WT E2,GF WT E2,WT+E.coli,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF_WT_E2_Clean_Data1.fq.gz GF_WT_E2_Clean_Data2.fq.gz,fastq fastq,6659933953.0,23885221.0,GF WT E2 Clean Data1.fq.gz,0:139.42 1:139.41,A:1814190188;C:1513460121;G:1524770881;T:1807512517;N:246,139,139,,,1814190188,1513460121,1524770881,1807512517,246,SRX13769739,SRS11649742,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.94902,0.95042,0.10269,0.10195,0.67377,0.67332,0.48466,0.48375,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68119,SRR17600936,SRX13769738,SRS11649741,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,CON2,CON2,GF2,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:germ free|ID:2|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF2,GF2,con,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF2_Clean_Data2.fq.gz GF2_Clean_Data1.fq.gz,fastq fastq,6890754909.0,24743699.0,GF2 Clean Data1.fq.gz,0:139.24 1:139.24,A:1835444319;C:1603941435;G:1619476893;T:1831892000;N:262,139,139,,,1835444319,1603941435,1619476893,1831892000,262,SRX13769738,SRS11649741,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.95084,0.95124,0.09039,0.08916,0.66746,0.66663,0.48741,0.48096,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
68120,SRR17600937,SRX13769737,SRS11649740,SRP354867,PRJNA796827,Transcriptome sequencing of LGG fed zebrafish,PRJNA796827,Other,We aimed to reveal the relationship between biofilm and intestinal immunity.,,,CON1,CON1,GF1,,strain:not applicable|isolate:not applicable|dev stage:not applicable|sex:pooled male and female|tissue:Danio rerio|collection date:2020 06 20|treatment:germ free|ID:1|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio,GF1,GF1,con,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP354867,,,GF1_Clean_Data2.fq.gz GF1_Clean_Data1.fq.gz,fastq fastq,7112715446.0,25432945.0,GF1 Clean Data1.fq.gz,0:139.84 1:139.83,A:1910488450;C:1639359800;G:1654695811;T:1908171095;N:290,139,139,,,1910488450,1639359800,1654695811,1908171095,290,SRX13769737,SRS11649740,SRA1356218,zhejiang university|School of Animal Sciences,zhejiang university,2,0.95046,0.9513,0.0921,0.09027,0.66929,0.66912,0.47172,0.47162,141,141,B,B,biological fallback assumption,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-01-13,Undetermined,Undetermined,Whole Organism,All anatomical structures
74405,SRR23816189,SRX19638186,SRS17007061,SRP426733,PRJNA940583,A study of the transcriptome of zebrafish brain tissue,PRJNA940583,Other,Neurobiology of the zebrafish,,,,,C3,,collection date:2022 01|geo loc name:China:Beijing|lat lon:39.56 N 116.20 E|age:missing|breed:missing|cultivar:missing|dev stage:missing|ecotype:missing|isolate:missing|sex:missing|strain:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,brain of the zebrafish,C3,C3,Materials and methods,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP426733,,,C3.raw_1.fastq.gz C3.raw_2.fastq.gz,fastq fastq,11050626900.0,36835423.0,C3.raw 1.fastq.gz,0:150 1:150,A:2865145780;C:2642886672;G:2675064008;T:2866540089;N:990351,150,150,,,2865145780,2642886672,2675064008,2866540089,990351,SRX19638186,SRS17007061,SRA1601531,Chinese Academy of Agricultural Sciences|Institute of Quality Standard and Testing Technolo,Chinese Academy of Agricultural Sciences,2,0.9531,0.95272,0.06997,0.07085,0.6634,0.66393,0.48771,0.49045,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-11,Undetermined,Undetermined,Brain,Nervous System
74406,SRR23816190,SRX19638185,SRS17007060,SRP426733,PRJNA940583,A study of the transcriptome of zebrafish brain tissue,PRJNA940583,Other,Neurobiology of the zebrafish,,,,,C2,,collection date:2022 01|geo loc name:China:Beijing|lat lon:39.56 N 116.20 E|age:missing|breed:missing|cultivar:missing|dev stage:missing|ecotype:missing|isolate:missing|sex:missing|strain:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,brain of the zebrafish,C2,C2,Materials and methods,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP426733,,,C2.raw_1.fastq.gz C2.raw_2.fastq.gz,fastq fastq,9161220600.0,30537402.0,C2.raw 1.fastq.gz,0:150 1:150,A:2362480503;C:2178221545;G:2247509752;T:2372225007;N:783793,150,150,,,2362480503,2178221545,2247509752,2372225007,783793,SRX19638185,SRS17007060,SRA1601531,Chinese Academy of Agricultural Sciences|Institute of Quality Standard and Testing Technolo,Chinese Academy of Agricultural Sciences,2,0.95704,0.95351,0.06583,0.06694,0.66951,0.67034,0.50451,0.50466,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-11,Undetermined,Undetermined,Brain,Nervous System
74407,SRR23816191,SRX19638184,SRS17007059,SRP426733,PRJNA940583,A study of the transcriptome of zebrafish brain tissue,PRJNA940583,Other,Neurobiology of the zebrafish,,,,,C1,,collection date:2022 01|geo loc name:China:Beijing|lat lon:39.56 N 116.20 E|age:missing|breed:missing|cultivar:missing|dev stage:missing|ecotype:missing|isolate:missing|sex:missing|strain:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,brain of the zebrafish,C1,C1,Materials and methods,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP426733,,,C1.raw_1.fastq.gz C1.raw_2.fastq.gz,fastq fastq,6557456400.0,21858188.0,C1.raw 1.fastq.gz,0:150 1:150,A:1700751272;C:1563561339;G:1593294702;T:1699335261;N:513826,150,150,,,1700751272,1563561339,1593294702,1699335261,513826,SRX19638184,SRS17007059,SRA1601531,Chinese Academy of Agricultural Sciences|Institute of Quality Standard and Testing Technolo,Chinese Academy of Agricultural Sciences,2,0.9468,0.95291,0.0719,0.07405,0.6706,0.66914,0.46316,0.47396,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-11,Undetermined,Undetermined,Brain,Nervous System
74408,SRR23816192,SRX19638183,SRS17007058,SRP426733,PRJNA940583,A study of the transcriptome of zebrafish brain tissue,PRJNA940583,Other,Neurobiology of the zebrafish,,,,,C H3,,collection date:2022 01|geo loc name:China:Beijing|lat lon:39.56 N 116.20 E|age:missing|breed:missing|cultivar:missing|dev stage:missing|ecotype:missing|isolate:missing|sex:missing|strain:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,brain of the zebrafish,C H3,C H3,Materials and methods,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP426733,,,C_H3.raw_1.fastq.gz C_H3.raw_2.fastq.gz,fastq fastq,9295081800.0,30983606.0,C H3.raw 1.fastq.gz,0:150 1:150,A:2420308728;C:2209690139;G:2245386913;T:2418963797;N:732223,150,150,,,2420308728,2209690139,2245386913,2418963797,732223,SRX19638183,SRS17007058,SRA1601531,Chinese Academy of Agricultural Sciences|Institute of Quality Standard and Testing Technolo,Chinese Academy of Agricultural Sciences,2,0.94656,0.9521,0.07155,0.07386,0.66383,0.66391,0.48502,0.48282,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-11,Undetermined,Undetermined,Brain,Nervous System
74409,SRR23816193,SRX19638182,SRS17007057,SRP426733,PRJNA940583,A study of the transcriptome of zebrafish brain tissue,PRJNA940583,Other,Neurobiology of the zebrafish,,,,,C H2,,collection date:2022 01|geo loc name:China:Beijing|lat lon:39.56 N 116.20 E|age:missing|breed:missing|cultivar:missing|dev stage:missing|ecotype:missing|isolate:missing|sex:missing|strain:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,brain of the zebrafish,C H2,C H2,Materials and methods,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP426733,,,C_H2.raw_1.fastq.gz C_H2.raw_2.fastq.gz,fastq fastq,10811531700.0,36038439.0,C H2.raw 1.fastq.gz,0:150 1:150,A:2802038157;C:2586697803;G:2620325966;T:2801538702;N:931072,150,150,,,2802038157,2586697803,2620325966,2801538702,931072,SRX19638182,SRS17007057,SRA1601531,Chinese Academy of Agricultural Sciences|Institute of Quality Standard and Testing Technolo,Chinese Academy of Agricultural Sciences,2,0.95404,0.95031,0.06755,0.06783,0.66703,0.66766,0.48371,0.48209,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-11,Undetermined,Undetermined,Brain,Nervous System
74410,SRR23816194,SRX19638181,SRS17007056,SRP426733,PRJNA940583,A study of the transcriptome of zebrafish brain tissue,PRJNA940583,Other,Neurobiology of the zebrafish,,,,,C H1,,collection date:2022 01|geo loc name:China:Beijing|lat lon:39.56 N 116.20 E|age:missing|breed:missing|cultivar:missing|dev stage:missing|ecotype:missing|isolate:missing|sex:missing|strain:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,brain of the zebrafish,C H1,C H1,Materials and methods,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP426733,,,C_H1.raw_1.fastq.gz C_H1.raw_2.fastq.gz,fastq fastq,7084951800.0,23616506.0,C H1.raw 1.fastq.gz,0:150 1:150,A:1848926248;C:1674901289;G:1707752429;T:1852765799;N:606035,150,150,,,1848926248,1674901289,1707752429,1852765799,606035,SRX19638181,SRS17007056,SRA1601531,Chinese Academy of Agricultural Sciences|Institute of Quality Standard and Testing Technolo,Chinese Academy of Agricultural Sciences,2,0.95273,0.94995,0.07309,0.07329,0.66576,0.66616,0.48159,0.47398,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-03-11,Undetermined,Undetermined,Brain,Nervous System