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"SRS21589517", "SRP513315", "PRJNA1122875", "Transcriptome of zebrafish Danio rerio larvae exposed to MPs at xxx dpf", "PRJNA1122875", "Other", "This study aims to figure out the NPs toxicity on zebrafish at early stages  especially on visual system development.", null, null, null, null, "NPs1", null, "strain:TU|isolate:NPs1|age:5dpf|collection date:2023 07 30|geo loc name:China:Zhejiang|sex:pooled male and female|tissue:the front part of larvae|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish larvae", "NPs1", "NPs1", "A total amount of 6 g RNA per sample was used as input material for the RNA sample preparations. 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were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP513315", null, null, "Unknown_BO623-04T0024_good_1.fq.gz Unknown_BO623-04T0024_good_2.fq.gz", "fastq fastq", 6819262402.0, 22797722.0, "Unknown BO623 04T0024 good 1.fq.gz", "0:149.56 1:149.56", "A:1781861689;C:1629655448;G:1645382478;T:1762184452;N:178335", 149, 149, null, null, 1781861689, 1629655448, 1645382478, 1762184452, 178335, "SRX24880735", "SRS21589512", "SRA1896007", "Zhejiang University|College of Animal Science", "Zhejiang University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-06-11", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [32626, "SRR29366303", "SRX24880734", "SRS21589511", "SRP513315", "PRJNA1122875", "Transcriptome of zebrafish Danio rerio larvae exposed to MPs at xxx dpf", "PRJNA1122875", "Other", "This study aims to figure out the NPs toxicity on zebrafish at early stages  especially on visual system development.", null, null, null, null, "NPs5", null, "strain:TU|isolate:NPs5|age:5dpf|collection date:2023 07 30|geo loc name:China:Zhejiang|sex:pooled male and female|tissue:the front part of larvae|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish larvae", "NPs5", "NPs5", "A total amount of10 g RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using Hieff NGS Ultima Dual mode mRNA Library Prep Kit for Illumina Yeasen Biotechnology Shanghai Co.  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were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP513315", null, null, "Unknown_BO623-04T0023_good_1.fq.gz Unknown_BO623-04T0023_good_2.fq.gz", "fastq fastq", 6773730348.0, 22673915.0, "Unknown BO623 04T0023 good 1.fq.gz", "0:149.37 1:149.37", "A:1779182337;C:1607164031;G:1624141377;T:1763062617;N:179986", 149, 149, null, null, 1779182337, 1607164031, 1624141377, 1763062617, 179986, "SRX24880734", "SRS21589511", "SRA1896007", "Zhejiang University|College of Animal Science", "Zhejiang University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-06-11", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [32627, "SRR29366304", "SRX24880733", "SRS21589509", "SRP513315", "PRJNA1122875", "Transcriptome of zebrafish Danio rerio larvae exposed to MPs at xxx dpf", "PRJNA1122875", "Other", "This study aims to figure out the NPs toxicity on zebrafish at early stages  especially on visual system development.", null, null, null, null, "C2", null, "strain:TU|isolate:Control2|age:5dpf|collection date:2023 07 30|geo loc name:China:Zhejiang|sex:pooled male and female|tissue:the front part of larvae|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish larvae", "C2", "C2", "A total amount of 1 g RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using Hieff NGS Ultima Dual mode mRNA Library Prep Kit for Illumina Yeasen Biotechnology Shanghai Co.  Ltd. following manufacturers recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads.First strand cDNA was synthesized and second strand cDNA synthesis was subsequently performed. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of 3 ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. The library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 l USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37C for 15 min followed by 5 min at 95C before PCR. Then PCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP513315", null, null, "Unknown_BO623-04T0014_good_1.fq.gz Unknown_BO623-04T0014_good_2.fq.gz", "fastq fastq", 6805354296.0, 22755187.0, "Unknown BO623 04T0014 good 1.fq.gz", "0:149.53 1:149.53", "A:1742825793;C:1651738009;G:1677448209;T:1733168084;N:174201", 149, 149, null, null, 1742825793, 1651738009, 1677448209, 1733168084, 174201, "SRX24880733", "SRS21589509", "SRA1896007", "Zhejiang University|College of Animal Science", "Zhejiang University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "poly_a", "nebnext", "bulk", "unknown", "unknown", null, "China", "2024-06-11", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [32628, "SRR29366305", "SRX24880732", "SRS21589510", "SRP513315", "PRJNA1122875", "Transcriptome of zebrafish Danio rerio larvae exposed to MPs at xxx dpf", "PRJNA1122875", "Other", "This study aims to figure out the NPs toxicity on zebrafish at early stages  especially on visual system development.", null, null, null, null, "C1", null, "strain:TU|isolate:Control1|age:5dpf|collection date:2023 07 30|geo loc name:China:Zhejiang|sex:pooled male and female|tissue:the front part of larvae|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish larvae", "C1", "C1", "A total amount of 0 g RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using Hieff NGS Ultima Dual mode mRNA Library Prep Kit for Illumina Yeasen Biotechnology Shanghai Co.  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were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP513315", null, null, "Unknown_BO623-04T0013_good_1.fq.gz Unknown_BO623-04T0013_good_2.fq.gz", "fastq fastq", 6546144006.0, 21896126.0, "Unknown BO623 04T0013 good 1.fq.gz", "0:149.48 1:149.48", "A:1688579059;C:1582023304;G:1598552166;T:1676633897;N:355580", 149, 149, null, null, 1688579059, 1582023304, 1598552166, 1676633897, 355580, "SRX24880732", "SRS21589510", "SRA1896007", "Zhejiang University|College of Animal Science", "Zhejiang University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2024-06-11", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [36695, "SRR831692", "SRX269410", "SRS415075", "SRP021210", "PRJNA197389", "Danio rerio strain:Wildtype strains AB  WIK  and AB/Tueb Transcriptome or Gene expression", "PRJNA197389", "Transcriptome Analysis", "Gene expression profiling of several wildtype strains of zebrafish embryos. The samples were pooled from several developmental stages ranging from 2 dpf to 7 dpf This breadth of sampling gives a broad idea of genes expressed during early development and SNPs associated with wildtype strains.", null, "pubmed:23299976", null, "RNA seq from Fred Hutchinscon AB strain of Danio rerio", "AB FH.bam", null, "geo loc name:USA: Seattle  WA|isolation source:zebrafish embryos|subspecf gen lin:AB from Fred Hutchinson|dev stage:mix of 2 dpf 7 dpf type:pool of multiple embryos from each develomental stage|strain:AB", null, null, null, null, null, null, null, null, "AB FH", "AB FH", "1", "1", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>100</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>51</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP021210", null, null, "FH_AB.bam", "bam", 2246623442.0, 24070720.0, "AB FH", "0:49 1:49", "A:574600075;C:551290408;G:541354340;T:579331239;N:47380", 49, 49, null, null, 574600075, 551290408, 541354340, 579331239, 47380, "SRX269410", "SRS415075", "SRA073810", "Fred Hutchinson Cancer Research Center|Moens", "Fred Hutchinson Cancer Research Center", 2, 0.96858, 0.96855, 0.08369, 0.08397, 0.67953, 0.67959, 0.45983, 0.44926, 49, 49, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "United States", "2014-04-19", "Multi-stage", "Multi-stage", "Whole Organism", "All anatomical structures"], [42451, "SRR5590336", "SRX2847138", "SRS2220119", "SRP115073", "PRJNA387549", "zebrafish Raw sequence reads", "PRJNA387549", "Metagenomics", "The study was to unravel the complex toxic effects of chemical contaminants on the health of organisms as based on different levels of biological profling.", null, null, null, "without xxx and with difenoconazole", "CK D 50 D 500", null, "strain:AB|isolate:embryo|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|sex:pooled male and female|tissue:whole individual|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Sequencing in zebrafish without xxx and with difenoconazole", "zebrafish RNA Sequencing project", "1", "1", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "SINGLE", "ILLUMINA", "Illumina HiSeq 2500", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>6</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></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP115073", null, null, "CK_1_1.fq.gz CK_1_2.fq.gz CK_2_1.fq.gz CK_3_1.fq.gz CK_3_2.fq.gz D_500_1_1.fq.gz D_500_1_2.fq.gz D_500_2_1.fq.gz D_500_2_2.fq.gz D_500_3_1.fq.gz D_500_3_2.fq.gz D_50_1_1.fq.gz D_50_1_2.fq.gz D_50_3_2.fq.gz D_50_3_1.fq.gz D_50_2_2.fq.gz D_50_2_1.fq.gz CK_2_2.fq.gz", "fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq", 81797448900.0, 272658163.0, "zebrafish RNA Seq", "0:150 1:150", "A:21743331485;C:19042575463;G:19378823851;T:21630253992;N:2464109", 150, 150, null, null, 21743331485, 19042575463, 19378823851, 21630253992, 2464109, "SRX2847138", "SRS2220119", "SRA564978", "China Agricultural University|College of Science", "China Agricultural University", 2, 0.91941, 0.92018, 0.10515, 0.10533, 0.67939, 0.68552, 0.46739, 0.46494, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-04-14", "Undetermined", "Embryo", "Whole Organism", "All anatomical structures"], [47607, "SRR6996532", "SRX3931184", "SRS3164482", "SRP137031", "PRJNA432757", "zebrafish Transcriptome on embryo of WT and MZmarcksb at shield stage", "PRJNA432757", "Other", "To better understand the compensation network in MZmarcksb  we carried out RNA seq analysis of the MZmarcksb mutants at shield stage.", null, null, null, "maternal zygotic mutant of marcksb whole embryos at shield stage from Danio rerio replicate 2", "marcksbMZ shield rep2", null, "strain:AB|dev stage:shield|sex:not applicable|tissue:whole embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rerio: MZmarcksb embryos at shield stage replicate 2", "MZmarcksb shield PE150 rep2", "MZmarcksb shield PE150 rep2", "The RNA was extracted using Trizol according to the manufacturer s manual. Then the RNA was purified using RNA purification kit Tiangen  China. The RNA samples were quantified and integrity was assessed by the Agilent 2100 Bioanalyser. The RNA integrity Numbers RIN of all RNA samples were >8.0. The RNA libraries were prepared using the Illumina TruSeq RNA sample preparation kit v2. The amount of input RNA is 1  g. The average final library size is 309 bp.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina MiSeq", null, "SRP137031", null, null, "marcksbMZ2_shield_R1.fastq.bz2 marcksbMZ2_shield_R2.fastq.bz2", "fastq fastq", 957075410.0, 3388133.0, "marcksbMZ2 shield R2.fastq.bz2", "0:141.21 1:141.27", "A:252634407;C:225426820;G:225127111;T:253882486;N:4586", 141, 141, null, null, 252634407, 225426820, 225127111, 253882486, 4586, "SRX3931184", "SRS3164482", "SRA688612", "Institute of Hydrobiology, Chinese Academy of Sciences|State Key Laboratory of Freshwater Ecology and Bio", "Institute of Hydrobiology, Chinese Academy of Sciences", 2, 0.9602, 0.96488, 0.04777, 0.04815, 0.76753, 0.7697, 0.48813, 0.4867, 150, 151, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "other", "trueseq", "bulk", "unknown", "unknown", null, "China", "2018-04-12", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [47608, "SRR6996479", "SRX3931150", "SRS3164467", "SRP137031", "PRJNA432757", "zebrafish Transcriptome on embryo of WT and MZmarcksb at shield stage", "PRJNA432757", "Other", "To better understand the compensation network in MZmarcksb  we carried out RNA seq analysis of the MZmarcksb mutants at shield stage.", null, null, null, "maternal zygotic mutant of marcksb whole embryos at shield stage from Danio rerio replicate 1", "marcksbMZ shield rep1", null, "strain:AB|dev stage:shield|sex:not applicable|tissue:whole embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rerio: MZmarcksb embryos at shield stage replicate 1", "MZmarcksb shield PE150 rep1", "MZmarcksb shield PE150 rep1", "The RNA was extracted using Trizol according to the manufacturer s manual. Then the RNA was purified using RNA purification kit Tiangen  China. The RNA samples were quantified and integrity was assessed by the Agilent 2100 Bioanalyser. The RNA integrity Numbers RIN of all RNA samples were >8.0. The RNA libraries were prepared using the Illumina TruSeq RNA sample preparation kit v2. The amount of input RNA is 1  g. The average final library size is 309 bp.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina MiSeq", null, "SRP137031", null, null, "marcksbMZ1_shield_R2.fastq.bz2 marcksbMZ1_shield_R1.fastq.bz2", "fastq fastq", 1298313857.0, 4880467.0, "marcksbMZ1 shield R2.fastq.bz2", "0:132.94 1:133.09", "A:343658239;C:305189492;G:304679186;T:344779644;N:7296", 132, 133, null, null, 343658239, 305189492, 304679186, 344779644, 7296, "SRX3931150", "SRS3164467", "SRA688589", "Institute of Hydrobiology, Chinese Academy of Sciences|State Key Laboratory of Freshwater Ecology and Bio", "Institute of Hydrobiology, Chinese Academy of Sciences", 2, 0.95673, 0.96117, 0.05347, 0.05421, 0.76751, 0.76936, 0.48125, 0.48179, 130, 130, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "other", "trueseq", "bulk", "unknown", "unknown", null, "China", "2018-04-12", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [47609, "SRR6987273", "SRX3926781", "SRS3160495", "SRP137031", "PRJNA432757", "zebrafish Transcriptome on embryo of WT and MZmarcksb at shield stage", "PRJNA432757", "Other", "To better understand the compensation network in MZmarcksb  we carried out RNA seq analysis of the MZmarcksb mutants at shield stage.", null, null, null, "WT whole embryos at shield stage from Danio rerio", "WT1 shield", null, "strain:AB|dev stage:shield|sex:not applicable|tissue:whole embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rerio: WT embryos at shield stage replicate 2", "wt shield PE rep2", "wt shield PE rep2", "The RNA was extracted using Trizol according to the manufacturer s manual. Then the RNA was purified using RNA purification kit Tiangen  China. The RNA samples were quantified and integrity was assessed by the Agilent 2100 Bioanalyser. The RNA integrity Numbers RIN of all RNA samples were >8.0. The RNA libraries were prepared using the Illumina TruSeq RNA sample preparation kit v2. The amount of input RNA is 1  g. The average final library size is 309 bp.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina MiSeq", null, "SRP137031", null, null, "WT2_shield_R1.fastq.bz2 WT2_shield_R2.fastq.bz2", "fastq fastq", 1076081986.0, 3852554.0, "WT2 shield R1.fastq.bz2", "0:139.62 1:139.70", "A:280164367;C:257377429;G:257794541;T:280730273;N:15376", 139, 139, null, null, 280164367, 257377429, 257794541, 280730273, 15376, "SRX3926781", "SRS3160495", "SRA687978", "Institute of Hydrobiology, Chinese Academy of Sciences|State Key Laboratory of Freshwater Ecology and Bio", "Institute of Hydrobiology, Chinese Academy of Sciences", 2, 0.93567, 0.94244, 0.04042, 0.04049, 0.77455, 0.77697, 0.48487, 0.47998, 151, 151, "B", "B", "biological fallback assumption", "illumina", "miseq", "unknown", "other", "trueseq", "bulk", "unknown", "unknown", null, "China", "2018-04-12", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [47610, "SRR6933827", "SRX3878878", "SRS3118690", "SRP137031", "PRJNA432757", "zebrafish Transcriptome on embryo of WT and MZmarcksb at shield stage", "PRJNA432757", "Other", "To better understand the compensation network in MZmarcksb  we carried out RNA seq analysis of the MZmarcksb mutants at shield stage.", null, null, null, null, "WT1 shield rep1", null, "strain:AB|dev stage:shield stage|sex:not applicable|tissue:whole embryo|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of Danio rerio: WT embryos at shield stage replicate 1", "wt shield PE rep1", "wt shield PE rep1", "The RNA was extracted using Trizol according to the manufacturer s manual. Then the RNA was purified using RNA purification kit Tiangen  China. The RNA samples were quantified and integrity was assessed by the Agilent 2100 Bioanalyser. The RNA integrity Numbers RIN of all RNA samples were >8.0. The RNA libraries were prepared using the Illumina TruSeq RNA sample preparation kit v2. The amount of input RNA is 1  g. The average final library size is 309 bp.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "NextSeq 500", null, "SRP137031", null, null, "WT1_shield_R1.fastq.bz2 WT1_shield_R2.fastq.bz2", "fastq fastq", 892273276.0, 3407597.0, "WT1 shield R1.fastq.bz2", "0:130.75 1:131.10", "A:235694986;C:210056075;G:210344332;T:236174033;N:3850", 130, 131, null, null, 235694986, 210056075, 210344332, 236174033, 3850, "SRX3878878", "SRS3118690", "SRA681078", "Institute of Hydrobiology, Chinese Academy of Sciences|State Key Laboratory of Freshwater Ecology and Bio", "Institute of Hydrobiology, Chinese Academy of Sciences", 2, 0.95143, 0.95581, 0.04389, 0.04405, 0.77143, 0.77319, 0.48336, 0.48263, 118, 118, "B", "B", "biological fallback assumption", "illumina", "nextseq", "unknown", "other", "trueseq", "bulk", "unknown", "unknown", null, "China", "2018-04-03", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [51069, "SRR8926593", "SRX5707650", "SRS4646935", "SRP192957", "PRJNA515990", "zebrafish miR 430 KO transcriptome", "PRJNA515990", "Other", "MiR 430 is considered an important regulator during embryonic development  but genetic loss of function study is still lacking. Here we demonstrated that genetic deletion of the miR 430 cluster resulted in developmental defects in cell movement  germ layer specification  axis patterning and organ progenitor formation in zebrafish. To identify miR 430 targets  we collected the WT  miR 430 /  and rescued embryos at shield stage and performed transcriptome sequencing.", null, null, "miR 430 /  embryos were injected with miR 430 rescued  20 embryos at shield stage were collected for RNA seq analsysis", "Rescued", "R6", null, "strain:AB|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:Hong Kong|age:6 hpf stage:shield stage|sex:pooled male and female|tissue:embyos|phenotype:MiR 430 / |sample type:embryos|treatment:Rescued by miR 430 injection|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish miR 430 KO", "5065335", "5065335", "high throughtput sequencing", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP192957", null, null, "R6_GTGGCC_L001_R1_001.fastq.gz R6_GTGGCC_L001_R2_001.fastq.gz R6_GTGGCC_L002_R1_001.fastq.gz R6_GTGGCC_L002_R2_001.fastq.gz", "fastq fastq fastq fastq", 3784504800.0, 18922524.0, "R6 GTGGCC L001 R1 001.fastq.gz", "0:100 1:100", "A:998174818;C:911994688;G:866970560;T:1007223918;N:140816", 100, 100, null, null, 998174818, 911994688, 866970560, 1007223918, 140816, "SRX5707650", "SRS4646935", "SRA876443", "Sun Yat-Sen University|School of Life Sciences", "Sun Yat-Sen University", 2, 0.95548, 0.95511, 0.07794, 0.079, 0.75603, 0.75933, 0.48812, 0.48112, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2019-04-18", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [51070, "SRR8926594", "SRX5707649", "SRS4646934", "SRP192957", "PRJNA515990", "zebrafish miR 430 KO transcriptome", "PRJNA515990", "Other", "MiR 430 is considered an important regulator during embryonic development  but genetic loss of function study is still lacking. Here we demonstrated that genetic deletion of the miR 430 cluster resulted in developmental defects in cell movement  germ layer specification  axis patterning and organ progenitor formation in zebrafish. To identify miR 430 targets  we collected the WT  miR 430 /  and rescued embryos at shield stage and performed transcriptome sequencing.", null, null, "20 miR 430 /  embryos at shield stage were collected for RNA seq analsysis", "MiR 430 / ", "M6", null, "strain:AB|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:Hong Kong|age:6 hpf stage:shield stage|sex:pooled male and female|tissue:embyos|phenotype:MiR 430 / |sample type:embryos|treatment:miR 430 was deleted by TALENs|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish miR 430 KO", "5065334", "5065334", "high throughtput sequencing", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP192957", null, null, "M6_GTGAAA_L002_R2_001.fastq.gz M6_GTGAAA_L002_R1_001.fastq.gz M6_GTGAAA_L001_R2_001.fastq.gz M6_GTGAAA_L001_R1_001.fastq.gz", "fastq fastq fastq fastq", 3957356200.0, 19786781.0, "M6 GTGAAA L001 R1 001.fastq.gz", "0:100 1:100", "A:1047013756;C:951740713;G:905354408;T:1053098995;N:148328", 100, 100, null, null, 1047013756, 951740713, 905354408, 1053098995, 148328, "SRX5707649", "SRS4646934", "SRA876443", "Sun Yat-Sen University|School of Life Sciences", "Sun Yat-Sen University", 2, 0.9588, 0.95721, 0.07699, 0.07822, 0.75422, 0.75903, 0.47996, 0.48477, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2019-04-18", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [51071, "SRR8926595", "SRX5707648", "SRS4646933", "SRP192957", "PRJNA515990", "zebrafish miR 430 KO transcriptome", "PRJNA515990", "Other", "MiR 430 is considered an important regulator during embryonic development  but genetic loss of function study is still lacking. Here we demonstrated that genetic deletion of the miR 430 cluster resulted in developmental defects in cell movement  germ layer specification  axis patterning and organ progenitor formation in zebrafish. To identify miR 430 targets  we collected the WT  miR 430 /  and rescued embryos at shield stage and performed transcriptome sequencing.", null, null, "20 WT embryos at shield stage were collected for RNA seq analsysis", "WT", "W6", null, "strain:AB|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:Hong Kong|age:6 hpf stage:shield stage|sex:pooled male and female|tissue:embyos|phenotype:WT|sample type:embryos|treatment:Control|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of zebrafish miR 430 KO", "5065333", "5065333", "high throughtput sequencing", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP192957", null, null, "W6_GTCCGC_L001_R2_001.fastq.gz W6_GTCCGC_L002_R1_001.fastq.gz W6_GTCCGC_L002_R2_001.fastq.gz W6_GTCCGC_L001_R1_001.fastq.gz", "fastq fastq fastq fastq", 3409986400.0, 17049932.0, "W6 GTCCGC L001 R1 001.fastq.gz", "0:100 1:100", "A:898095172;C:823280875;G:782808699;T:905676163;N:125491", 100, 100, null, null, 898095172, 823280875, 782808699, 905676163, 125491, "SRX5707648", "SRS4646933", "SRA876443", "Sun Yat-Sen University|School of Life Sciences", "Sun Yat-Sen University", 2, 0.95598, 0.95417, 0.07794, 0.07924, 0.76063, 0.7627, 0.47632, 0.47729, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "China", "2019-04-18", "Gastrula", "Embryo", "Whole Organism", "All anatomical structures"], [58872, "SRR11510448", "SRX8082500", "SRS6450585", "SRP255712", "PRJNA623798", "Single cell lineage tracing on endogenous scarring sites scLOESS", "PRJNA623798", "Other", "Lineage recording of zebrafish embryogenesis reveals early cell fate commitment", null, null, "The developmental history of a whole zebrafish organism were recording by LOESS Lineage tracing Of Endogenous Scarring Sites technique.  And both cell lineage histories and cell molecular profile were reconstructed by single cell RNA Seq profiling  with the help of single cell sequencing methods and self developed analysis strategies.", "Single Cell RNA Seq of a whole organism of zebrafish larva", "SC", null, "strain:AB line|age:7dpf|dev stage:larvae|sex:not applicable|tissue:Whole organism|collection date:2018 07 26|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Single Cell RNA Seq of a whole organism of zebrafish larva", "SC L3", "SC L3", "Zebrafish embryo at one cell stage were micro injected with gRNA pool and Cas9 mRNA mixture  and growth at standard condiction ttwo xxxdpf. Then a single larva were lysis into single cell suspension and the RNA profile were obtained by 10x Genomics Chromium Single Cell three prime Reagent Kits v2 Chemistry.", null, null, "RNA-Seq", "TRANSCRIPTOMIC SINGLE CELL", "RT-PCR", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP255712", null, null, "SC-I1_S1_L001_R1_001.fastq.gz SC-I1_S1_L001_R2_001.fastq.gz SC-I1_S1_L002_R1_001.fastq.gz SC-I1_S1_L002_R2_001.fastq.gz SC-I1_S1_L003_R1_001.fastq.gz SC-I1_S1_L003_R2_001.fastq.gz SC-I2_S1_L001_R1_001.fastq.gz SC-I2_S1_L001_R2_001.fastq.gz SC-I2_S1_L002_R1_001.fastq.gz SC-I2_S1_L002_R2_001.fastq.gz SC-I2_S1_L003_R1_001.fastq.gz SC-I2_S1_L003_R2_001.fastq.gz SC-I3_S1_L001_R1_001.fastq.gz SC-I3_S1_L001_R2_001.fastq.gz SC-I3_S1_L002_R1_001.fastq.gz SC-I3_S1_L002_R2_001.fastq.gz SC-I3_S1_L003_R1_001.fastq.gz SC-I3_S1_L003_R2_001.fastq.gz SC-I4_S1_L001_R1_001.fastq.gz SC-I4_S1_L001_R2_001.fastq.gz SC-I4_S1_L002_R1_001.fastq.gz SC-I4_S1_L002_R2_001.fastq.gz SC-I4_S1_L003_R1_001.fastq.gz SC-I4_S1_L003_R2_001.fastq.gz", "fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq", 86925323584.0, 493893884.0, "SC I1 S1 L001 R1 001.fastq.gz", "0:26 1:150", "A:24075189135;C:19816237204;G:21200277502;T:21828035227;N:5584516", 26, 150, null, null, 24075189135, 19816237204, 21200277502, 21828035227, 5584516, "SRX8082500", "SRS6450585", "SRA1063827", "Sun Yat- sen University|Life Sicence School", "Sun Yat- sen University", 2, 0.00528, 0.77254, 0.00115, 0.06529, 0.98729, 0.8158, 0.41854, 0.50141, 26, 150, "T", "B", "sc-like readlen", "illumina", "hiseq_era", "unknown", "other", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2020-04-11", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [67034, "SRR16991903", "SRX13182261", "SRS11111533", "SRP347063", "PRJNA782235", "Nano Palladium free transcriptomic analysis in a non human model organism  Danio rerio", "PRJNA782235", "Other", "The effects of free nano palladium in zebrafish  Danio rerio  was determined using transcriptome sequencing. The purity of mRNA from the control fishes were checked and the processed reads were mapped with the reference genome of Danio rerio. Around 67835 genes were expressed in control with respect to the total reads. The expressed genes showed no changes in their behaviour which is evident that the fishes without xxx exposure of xenobiotics caused no changes.", null, null, null, null, "BUANControl", null, "strain:AB strain  Wild type|age:6 month|dev stage:adult|sex:male|tissue:Whole fish tissue|collection date:2021 03 06|store cond:Liquid Nitrogen|treatment:Nil|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "NP free study on Zebrafish", "C1 Control NPfree Zebrafish", "C1 Control NPfree Zebrafish", "Palladium nanoparticles Pd NPs have been the reliable substitutes as conventional catalysts for its high efficiency and conversion of CO  hydrocarbons  and NO into less harmful CO2  water and nitrogen. Due to surface abrasion of converters  Pd as ultrafine/nanoparticles are liberated into the environment causing possible health effects. Also  Pd might reach the aquatic system through heavy precipitation and runoff. Here  we aimed to profile the transcriptome of Danio rerio exposed to nano palladium at environmentally relevant concentrations with control. 500 ng of total RNA of nano Pd free fishes Control was isolated and the enriched mRNAs were reverse transcribed to form cDNA. The purified amplified cDNA library was eluted in the TE buffer. The concentrations above 2 ng/\u00b5L were used for the transcriptome analysis with the reference genome. In the control group  67835 genes were expressed which showed no changes in their behavior.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP347063", null, null, "Control_R1.fastq Control_R2.fastq", "fastq fastq", 4526842200.0, 15089474.0, "Control R1.fastq", "0:150 1:150", "A:1257431594;C:1009220672;G:1028452096;T:1231606739;N:131099", 150, 150, null, null, 1257431594, 1009220672, 1028452096, 1231606739, 131099, "SRX13182261", "SRS11111533", "SRA1332407", "Bharathiar University|Zoology", "Bharathiar University", 2, 0.84019, 0.84256, 0.12963, 0.12905, 0.70266, 0.70761, 0.54173, 0.54265, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "India", "2021-11-21", "Adult", "Adult", "Whole Organism", "All anatomical structures"], [67036, "SRR17001172", "SRX13191392", "SRS11119484", "SRP347216", "PRJNA782554", "Transcriptome profiling of environmental relevant low concentrations 0.4 ng/L of nano Palladium in Danio rerio", "PRJNA782554", "Other", "The effects of nano palladium 0.4 ng per L in zebrafish  Danio rerio  was determined using transcriptome sequencing. The purity of mRNA from the control and nano Pd exposed fishes were checked and the processed reads were mapped with the reference genome of Danio rerio. Around 64792 genes were expressed in Treatment II respectively with respect to the total reads. There were 3153 differentially expressed genes in Control vs Treatment II with 2900 up regulated and 253 down regulated genes. Also  for Treatment I vs Treatment II  3347 genes were significantly differentially expressed with 2101 up regulated and 1246 down regulated genes. The up regulation and down regulation of the genes were evident that the nano Pd can affect the physiological and endocrine functions of zebrafish.", null, null, null, null, "BUANNPd0.4ng", null, "strain:AB strain Wild Type|age:6 mpf|dev stage:Adult|sex:male|tissue:Whole Fish Tissue|collection date:2021 03 06|store cond:Liquid Nitrogen|treatment:0.4 ng/L nano Palladium|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "0.4 ng/L nano Pd exposed Zebrafish", "nano Pd0.4ng", "nano Pd0.4ng", "Palladium nanoparticles Pd NPs have been the reliable substitutes as conventional catalysts for its high efficiency and conversion of CO  hydrocarbons  and NO into less harmful CO2  water and nitrogen. Due to surface abrasion of converters  Pd as ultrafine/nanoparticles are liberated into the environment causing possible health effects. Also  Pd leaches to the aquatic system through heavy precipitation and runoff. Here  we aimed to profile the transcriptome of Danio rerio exposed to nano palladium at xxx.4 ng/L environmental concentration. 500 ng of total RNA of 0.4 ng/L nano Pd fish was isolated and the enriched mRNAs were reverse transcribed to form cDNA. The concentrations above 2 ng/L were used for the transcriptome analysis with the reference genome. Around 64792 genes were expressed in 0.4 ng/L. There were 3153 DEGs in Control vs 0.4 ng/L with 2900 up regulated and 253 down regulated genes. Also  for 22 ng/L vs 0.4 ng/L  3347 genes were significantly expressed with 2101 up regulated and 1246 down regulated genes. The transcriptome screening is evident that nano Pd can cause possible effects in organisms even at low concentrations.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP347216", null, null, "Treated2_R1.fastq Treated2_R2.fastq", "fastq fastq", 4185717300.0, 13952391.0, "Treated2 R1.fastq", "0:150 1:150", "A:1131532349;C:966052110;G:976209681;T:1111787487;N:135673", 150, 150, null, null, 1131532349, 966052110, 976209681, 1111787487, 135673, "SRX13191392", "SRS11119484", "SRA1332836", "ANILA P ASHOKAN|BHARATHIAR UNIVERSITY ZOOLOGY DEPARTEMNT", "ANILA P ASHOKAN", 2, 0.90097, 0.90521, 0.05086, 0.0512, 0.71969, 0.72403, 0.45845, 0.45942, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2021-11-22", "Adult", "Adult", "Whole Organism", "All anatomical structures"], [68542, "SRR17994489", "SRX14150133", "SRS11975603", "SRP359470", "PRJNA806206", "RNA seq for psip1a knockdown", "PRJNA806206", "Other", "Transcription coactivators function in a variety of ways which effectively facilitate the process of transcription and play an essential role in gene regulation. Among them  Psip1  the gene codes LEDGF/p75  has been implicated in cancer  autoimmune diseases and HIV pathogenesis. However  the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a.", null, null, null, null, "psip1aMO 3", null, "strain:EKW|isolate:embryos injected with psip1a MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish embryos psip1a MO", "psip1a MO3", "psip1a MO3", "The cDNA Library construction and quality control were coordinated by Novogen co.  Ltd", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP359470", null, "assembly:GRCz10", "PSIP1AMO_experiment3_sorted.bam", "bam", 8445901500.0, 28153005.0, "PSIP1AMO experiment3 sorted.bam", "0:150 1:150", "A:2261122354;C:1981306733;G:1972898831;T:2230317126;N:256456", 150, 150, null, null, 2261122354, 1981306733, 1972898831, 2230317126, 256456, "SRX14150133", "SRS11975603", "SRA1370574", "UC Merced|Bioengineering", "UC Merced", 2, 0.94991, 0.94968, 0.08913, 0.0893, 0.68525, 0.68621, 0.46191, 0.46633, 150, 150, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "United States", "2022-02-11", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [68543, "SRR17994490", "SRX14150132", "SRS11975602", "SRP359470", "PRJNA806206", "RNA seq for psip1a knockdown", "PRJNA806206", "Other", "Transcription coactivators function in a variety of ways which effectively facilitate the process of transcription and play an essential role in gene regulation. Among them  Psip1  the gene codes LEDGF/p75  has been implicated in cancer  autoimmune diseases and HIV pathogenesis. However  the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a.", null, null, null, null, "psip1aMO 2", null, "strain:EKW|isolate:embryos injected with psip1a MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish embryos psip1a MO", "psip1a MO2", "psip1a MO2", "The cDNA Library construction and quality control were coordinated by Novogen co.  Ltd", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP359470", null, "assembly:GRCz10", "PSIP1AMO_experiment2_sorted.bam", "bam", 7506678900.0, 25022263.0, "PSIP1AMO experiment2 sorted.bam", "0:150 1:150", "A:1988273906;C:1776222092;G:1777720261;T:1964233379;N:229262", 150, 150, null, null, 1988273906, 1776222092, 1777720261, 1964233379, 229262, "SRX14150132", "SRS11975602", "SRA1370574", "UC Merced|Bioengineering", "UC Merced", 2, 0.95224, 0.95202, 0.07188, 0.07212, 0.68, 0.6789, 0.46391, 0.46353, 150, 150, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "United States", "2022-02-11", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [68544, "SRR17994491", "SRX14150131", "SRS11975601", "SRP359470", "PRJNA806206", "RNA seq for psip1a knockdown", "PRJNA806206", "Other", "Transcription coactivators function in a variety of ways which effectively facilitate the process of transcription and play an essential role in gene regulation. Among them  Psip1  the gene codes LEDGF/p75  has been implicated in cancer  autoimmune diseases and HIV pathogenesis. However  the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a.", null, null, null, null, "psip1aMO 1", null, "strain:EKW|isolate:embryos injected with psip1a MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish embryos psip1a MO", "psip1a MO1", "psip1a MO1", "The cDNA Library construction and quality control were coordinated by Novogen co.  Ltd", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP359470", null, "assembly:GRCz10", "PSIP1AMO_experiment1_sorted.bam", "bam", 6695117700.0, 22317059.0, "PSIP1AMO experiment1 sorted.bam", "0:150 1:150", "A:1786397578;C:1577152264;G:1568675842;T:1762687628;N:204388", 150, 150, null, null, 1786397578, 1577152264, 1568675842, 1762687628, 204388, "SRX14150131", "SRS11975601", "SRA1370574", "UC Merced|Bioengineering", "UC Merced", 2, 0.95203, 0.95199, 0.07618, 0.07659, 0.6845, 0.68495, 0.46729, 0.46789, 150, 150, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "United States", "2022-02-11", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [68545, "SRR17994492", "SRX14150130", "SRS11975600", "SRP359470", "PRJNA806206", "RNA seq for psip1a knockdown", "PRJNA806206", "Other", "Transcription coactivators function in a variety of ways which effectively facilitate the process of transcription and play an essential role in gene regulation. Among them  Psip1  the gene codes LEDGF/p75  has been implicated in cancer  autoimmune diseases and HIV pathogenesis. However  the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a.", null, null, null, null, "mispairedMO 3", null, "strain:EKW|isolate:embryos injected with control MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish embryos control MO", "control MO3", "control MO3", "The cDNA Library construction and quality control were coordinated by Novogen co.  Ltd", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP359470", null, "assembly:GRCz10", "mispairedMO_experiment3_sorted.bam", "bam", 7624971600.0, 25416572.0, "mispairedMO experiment3 sorted.bam", "0:150 1:150", "A:2025714467;C:1802766527;G:1804286259;T:1991972887;N:231460", 150, 150, null, null, 2025714467, 1802766527, 1804286259, 1991972887, 231460, "SRX14150130", "SRS11975600", "SRA1370574", "UC Merced|Bioengineering", "UC Merced", 2, 0.95243, 0.95241, 0.08077, 0.08052, 0.69323, 0.69422, 0.47383, 0.47347, 150, 150, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "United States", "2022-02-11", "Multi-stage", "Embryo", "Whole Organism", "All anatomical structures"], [68546, "SRR17994493", "SRX14150129", "SRS11975599", "SRP359470", "PRJNA806206", "RNA seq for psip1a knockdown", "PRJNA806206", "Other", "Transcription coactivators function in a variety of ways which effectively facilitate the process of transcription and play an essential role in gene regulation. Among them  Psip1  the gene codes LEDGF/p75  has been implicated in cancer  autoimmune diseases and HIV pathogenesis. However  the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a.", null, null, null, null, "mispairedMO 2", null, "strain:EKW|isolate:embryos injected with control MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish embryos control MO", "control MO2", "control MO2", "The cDNA Library construction and quality control were coordinated by Novogen co.  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Among them  Psip1  the gene codes LEDGF/p75  has been implicated in cancer  autoimmune diseases and HIV pathogenesis. However  the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a.", null, null, null, null, "mispairedMO 1", null, "strain:EKW|isolate:embryos injected with control MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of zebrafish embryos control MO", "control MO1", "control MO1", "The cDNA Library construction and quality control were coordinated by Novogen co.  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Previously  CACF has been proven the anti diabetes effect on HFD treatment mice model. In this study  we used zebrafish model to observe whether CACF have anti cancer effect or not.", null, null, null, "Model organism or animal sample from Danio rerio Normal diet 1 1", "CD36 normal diet 1 1", null, "ecotype:Taiwan  ROC|age:15 dpf|dev stage:larvae|sex:not determined|tissue:whole fish|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of CD36 normal diet fish 1 1", "C15D 12 1 1", "C15D 12 1 1", "the zebrafish larvae fed with normal diet from 5dpf to 15 dpf and fast for two days  then sacrificed to extract the total RNA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiScanSQ", null, "SRP400746", null, null, "C15D_12_1_1_paired C15D_12_1_2_paired", "fastq fastq", 5223003761.0, 17590299.0, "C15D 12 1 1 paired", "0:148.55 1:148.38", "A:1369931254;C:1227975299;G:1223263204;T:1401778621;N:55383", 148, 148, null, null, 1369931254, 1227975299, 1223263204, 1401778621, 55383, "SRX17779292", "SRS15305447", "SRA1511182", "National Health Research Institutes|Institute of Molecular and Genomic Medicine", "National Health Research Institutes", 2, 0.94554, 0.94659, 0.11224, 0.11161, 0.71898, 0.71849, 0.56127, 0.55388, 151, 151, "B", "B", "biological fallback assumption", "illumina", "early_illumina", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "Taiwan", "2022-10-03", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [71546, "SRR21784853", "SRX17779291", "SRS15305446", "SRP400746", "PRJNA883515", "Danio rerio Transcriptome or Gene expression", "PRJNA883515", "Other", "Carassius auratus complex formula CACF is a combination prescription of traditional Chinese medicine composed of extracts from C. auratus  Rhizoma dioscoreae  Lycium chinense  and Rehmannia glutinosa Libosch. 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In this study  we used zebrafish model to observe whether CACF have anti cancer effect or not.", null, null, null, "Model organism or animal sample from Danio rerio CACF 2 1", "CD36 CACF 2 1", null, "ecotype:Taiwan  ROC|age:15 dpf|dev stage:larvae|sex:not determined|tissue:whole fish|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of CD36 with CACF treatment fish 1 1", "T15D 24 C 2 1", "T15D 24 C 2 1", "the zebrafish larvae fed with hight fat diet and treat with CACF everyday from 5dpf to 15 dpf and fast for two days  then sacrificed to extract the total RNA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiScanSQ", null, "SRP400746", null, null, "T15D_24_C_2_1_paired T15D_24_C_2_2_paired", "fastq fastq", 3981831028.0, 13417594.0, "T15D 24 C 2 1 paired", "0:148.59 1:148.17", "A:1093541197;C:886197071;G:886629442;T:1115421463;N:41855", 148, 148, null, null, 1093541197, 886197071, 886629442, 1115421463, 41855, "SRX17779291", "SRS15305446", "SRA1511182", "National Health Research Institutes|Institute of Molecular and Genomic Medicine", "National Health Research Institutes", 2, 0.94081, 0.94152, 0.10901, 0.10793, 0.70964, 0.70855, 0.602, 0.60183, 151, 151, "B", "B", "biological fallback assumption", "illumina", "early_illumina", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "Taiwan", "2022-10-03", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [71547, "SRR21784854", "SRX17779290", "SRS15305445", "SRP400746", "PRJNA883515", "Danio rerio Transcriptome or Gene expression", "PRJNA883515", "Other", "Carassius auratus complex formula CACF is a combination prescription of traditional Chinese medicine composed of extracts from C. auratus  Rhizoma dioscoreae  Lycium chinense  and Rehmannia glutinosa Libosch. 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In this study  we used zebrafish model to observe whether CACF have anti cancer effect or not.", null, null, null, "Model organism or animal sample from Danio rerio CACF 4 1", "CD36 CACF 4 1", null, "ecotype:Taiwan  ROC|age:15 dpf|dev stage:larvae|sex:not determined|tissue:whole fish|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of CD36 with CACF treatment fish 2 1", "T15D 24 C 4 1", "T15D 24 C 4 1", "the zebrafish larvae fed with hight fat diet and treat with CACF everyday from 5dpf to 15 dpf and fast for two days  then sacrificed to extract the total RNA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiScanSQ", null, "SRP400746", null, null, "T15D_24_C_4_1_paired T15D_24_C_4_2_paired", "fastq fastq", 4676812747.0, 15766218.0, "T15D 24 C 4 1 paired", "0:148.04 1:148.60", "A:1264847140;C:1061075206;G:1060248997;T:1290593882;N:47522", 148, 148, null, null, 1264847140, 1061075206, 1060248997, 1290593882, 47522, "SRX17779290", "SRS15305445", "SRA1511182", "National Health Research Institutes|Institute of Molecular and Genomic Medicine", "National Health Research Institutes", 2, 0.92949, 0.93109, 0.12219, 0.12166, 0.70343, 0.70122, 0.56431, 0.56468, 151, 151, "B", "B", "biological fallback assumption", "illumina", "early_illumina", "unknown", "other", "unknown", "bulk", "unknown", "unknown", null, "Taiwan", "2022-10-03", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [71548, "SRR21784855", "SRX17779289", "SRS15305444", "SRP400746", "PRJNA883515", "Danio rerio Transcriptome or Gene expression", "PRJNA883515", "Other", "Carassius auratus complex formula CACF is a combination prescription of traditional Chinese medicine composed of extracts from C. auratus  Rhizoma dioscoreae  Lycium chinense  and Rehmannia glutinosa Libosch. Previously  CACF has been proven the anti diabetes effect on HFD treatment mice model. In this study  we used zebrafish model to observe whether CACF have anti cancer effect or not.", null, null, null, "Model organism or animal sample from Danio rerio Normal diet 2 1", "CD36 normal diet 2 1", null, "ecotype:Taiwan  ROC|age:15 dpf|dev stage:larvae|sex:not determined|tissue:whole fish|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of CD36 normal diet fish 2 1", "C15D 12 2 1", "C15D 12 2 1", "the zebrafish larvae fed with normal diet from 5dpf to 15 dpf and fast for two days  then sacrificed to extract the total RNA", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RT-PCR", "PAIRED", "ILLUMINA", "Illumina HiScanSQ", null, "SRP400746", null, null, "C15D_12_2_1_paired C15D_12_2_2_paired", "fastq fastq", 4709835299.0, 15889935.0, "C15D 12 2 1 paired", "0:148.38 1:148.02", "A:1276830997;C:1066019825;G:1064609195;T:1302325802;N:49480", 148, 148, null, null, 1276830997, 1066019825, 1064609195, 1302325802, 49480, "SRX17779289", 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