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140 rows where experiment.library_selection = "PCR", experiment.platform = "ILLUMINA" and tissue_curation = "Whole Organism"

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devstage_curation 5

devstage_curation_coarse 4

technology 2

experiment.library_strategy 2

experiment.library_source 2

tissue_curation_coarse 1

tissue_curation 1

  • Whole Organism · 140 ✖

experiment.platform 1

  • ILLUMINA · 140 ✖

experiment.library_selection 1

  • PCR · 140 ✖

experiment.library_layout 1

Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
33871 33871 SRR30814554 SRX26215071 SRS22758079 SRP535175 PRJNA1165428 Danio rerio Transcriptome or Gene expression PRJNA1165428 Other RNA seq analysis reveals that genes associated with neural cell survival and differentiation are specifically affected in rfc2 KO zebrafish.       KO3 KO3   strain:AB|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:4 dpf|collection date:2024 07 14|geo loc name:South Korea: Daejeon|sex:NA|tissue:Whole Organism|BioSampleModel:Model organism or animal                 RNA seq of zebrafish rfc2 ko03 zf ko 03 zf ko 03 Paired end sequencing reads were generated on the Illumina sequencing NovaSeq platform. Cleaned reads were aligned to the Danio rerio GRCz11 using HISAT v2.1.0.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X   SRP535175     KO3_1.fastq KO3_2.fastq fastq fastq 6572467676.0 21763138.0 KO3 1.fastq 0:151 1:151 A:1814369939;C:1452368734;G:1505310751;T:1800408231;N:10021 151 151     1814369939 1452368734 1505310751 1800408231 10021 SRX26215071 SRS22758079 SRA1980706 Chungnam National University|Department of Biology Chungnam National University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   South Korea 2024-09-27 Larval Larval Whole Organism All anatomical structures
33872 33872 SRR30814555 SRX26215070 SRS22758078 SRP535175 PRJNA1165428 Danio rerio Transcriptome or Gene expression PRJNA1165428 Other RNA seq analysis reveals that genes associated with neural cell survival and differentiation are specifically affected in rfc2 KO zebrafish.       KO2 KO2   strain:AB|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:4 dpf|collection date:2024 07 12|geo loc name:South Korea: Daejeon|sex:NA|tissue:Whole Organism|BioSampleModel:Model organism or animal                 RNA seq of zebrafish rfc2 ko02 zf ko 02 zf ko 02 Paired end sequencing reads were generated on the Illumina sequencing NovaSeq platform. Cleaned reads were aligned to the Danio rerio GRCz11 using HISAT v2.1.0.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X   SRP535175     KO2_1.fastq KO2_2.fastq fastq fastq 6712882576.0 22228088.0 KO2 1.fastq 0:151 1:151 A:1809986030;C:1515597384;G:1598845682;T:1788443120;N:10360 151 151     1809986030 1515597384 1598845682 1788443120 10360 SRX26215070 SRS22758078 SRA1980706 Chungnam National University|Department of Biology Chungnam National University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   South Korea 2024-09-27 Larval Larval Whole Organism All anatomical structures
33873 33873 SRR30814556 SRX26215069 SRS22758076 SRP535175 PRJNA1165428 Danio rerio Transcriptome or Gene expression PRJNA1165428 Other RNA seq analysis reveals that genes associated with neural cell survival and differentiation are specifically affected in rfc2 KO zebrafish.       KO1 KO1   strain:AB|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:4 dpf|collection date:2024 07 10|geo loc name:South Korea: Daejeon|sex:NA|tissue:Whole Organism|BioSampleModel:Model organism or animal                 RNA seq of zebrafish rfc2 ko01 zf ko 01 zf ko 01 Paired end sequencing reads were generated on the Illumina sequencing NovaSeq platform. Cleaned reads were aligned to the Danio rerio GRCz11 using HISAT v2.1.0.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X   SRP535175     KO1_1.fastq KO1_2.fastq fastq fastq 6172941004.0 20440202.0 KO1 1.fastq 0:151 1:151 A:1700989337;C:1362585978;G:1431740094;T:1677616401;N:9194 151 151     1700989337 1362585978 1431740094 1677616401 9194 SRX26215069 SRS22758076 SRA1980706 Chungnam National University|Department of Biology Chungnam National University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   South Korea 2024-09-27 Larval Larval Whole Organism All anatomical structures
33874 33874 SRR30814557 SRX26215068 SRS22758077 SRP535175 PRJNA1165428 Danio rerio Transcriptome or Gene expression PRJNA1165428 Other RNA seq analysis reveals that genes associated with neural cell survival and differentiation are specifically affected in rfc2 KO zebrafish.       WT3 WT3   strain:AB|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:4 dpf|collection date:2024 07 08|geo loc name:South Korea: Daejeon|sex:NA|tissue:Whole Organism|BioSampleModel:Model organism or animal                 RNA seq of zebrafish rfc2 wt03 zf wt 03 zf wt 03 Paired end sequencing reads were generated on the Illumina sequencing NovaSeq platform. Cleaned reads were aligned to the Danio rerio GRCz11 using HISAT v2.1.0.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X   SRP535175     WT3_1.fastq WT3_2.fastq fastq fastq 7481914402.0 24774551.0 WT3 1.fastq 0:151 1:151 A:2053911721;C:1669466343;G:1724274989;T:2034249790;N:11559 151 151     2053911721 1669466343 1724274989 2034249790 11559 SRX26215068 SRS22758077 SRA1980706 Chungnam National University|Department of Biology Chungnam National University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   South Korea 2024-09-27 Larval Larval Whole Organism All anatomical structures
33875 33875 SRR30814558 SRX26215067 SRS22758074 SRP535175 PRJNA1165428 Danio rerio Transcriptome or Gene expression PRJNA1165428 Other RNA seq analysis reveals that genes associated with neural cell survival and differentiation are specifically affected in rfc2 KO zebrafish.       WT2 WT2   strain:AB|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:4 dpf|collection date:2024 07 06|geo loc name:South Korea: Daejeon|sex:NA|tissue:Whole Organism|BioSampleModel:Model organism or animal                 RNA seq of zebrafish rfc2 wt02 zf wt 02 zf wt 02 Paired end sequencing reads were generated on the Illumina sequencing NovaSeq platform. Cleaned reads were aligned to the Danio rerio GRCz11 using HISAT v2.1.0.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X   SRP535175     WT2_1.fastq WT2_2.fastq fastq fastq 7406291488.0 24524144.0 WT2 1.fastq 0:151 1:151 A:2028130386;C:1659349646;G:1712132015;T:2006666583;N:12858 151 151     2028130386 1659349646 1712132015 2006666583 12858 SRX26215067 SRS22758074 SRA1980706 Chungnam National University|Department of Biology Chungnam National University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   South Korea 2024-09-27 Larval Larval Whole Organism All anatomical structures
33876 33876 SRR30814559 SRX26215066 SRS22758075 SRP535175 PRJNA1165428 Danio rerio Transcriptome or Gene expression PRJNA1165428 Other RNA seq analysis reveals that genes associated with neural cell survival and differentiation are specifically affected in rfc2 KO zebrafish.       WT1 WT1   strain:AB|isolate:NA|breed:NA|cultivar:NA|ecotype:NA|age:NA|dev stage:4 dpf|collection date:2024 07 04|geo loc name:South Korea: Daejeon|sex:NA|tissue:Whole Organism|BioSampleModel:Model organism or animal                 RNA seq of zebrafish rfc2 wt01 zf wt 01 zf wt 01 Paired end sequencing reads were generated on the Illumina sequencing NovaSeq platform. Cleaned reads were aligned to the Danio rerio GRCz11 using HISAT v2.1.0.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X   SRP535175     WT1_1.fastq WT1_2.fastq fastq fastq 7226611756.0 23929178.0 WT1 1.fastq 0:151 1:151 A:1947187816;C:1649828636;G:1705449995;T:1924134231;N:11078 151 151     1947187816 1649828636 1705449995 1924134231 11078 SRX26215066 SRS22758075 SRA1980706 Chungnam National University|Department of Biology Chungnam National University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   South Korea 2024-09-27 Larval Larval Whole Organism All anatomical structures
33952 33952 SRR31021716 SRX26408835 SRS22928744 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 1 1 P120 SME 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B335|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B335 B335 B335 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B335_S35_R1_001.fastq.gz B335_S35_R2_001.fastq.gz fastq fastq 1692783800.0 16927838.0 B335 S35 R1 001.fastq.gz 0:50 1:50 A:435169158;C:407357709;G:414261716;T:435986654;N:8563 50 50     435169158 407357709 414261716 435986654 8563 SRX26408835 SRS22928744 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33953 33953 SRR31021717 SRX26408834 SRS22928745 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 0.1 3 P120 SLO 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B334|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B334 B334 B334 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B334_S34_R1_001.fastq.gz B334_S34_R2_001.fastq.gz fastq fastq 1886363200.0 18863632.0 B334 S34 R1 001.fastq.gz 0:50 1:50 A:490356255;C:449743241;G:455258475;T:490994958;N:10271 50 50     490356255 449743241 455258475 490994958 10271 SRX26408834 SRS22928745 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33954 33954 SRR31021718 SRX26408833 SRS22928747 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 0.1 2 P120 SLO 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B333|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B333 B333 B333 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B333_S2_R1_001.fastq.gz B333_S2_R2_001.fastq.gz fastq fastq 2051063200.0 20510632.0 B333 S2 R1 001.fastq.gz 0:50 1:50 A:537236574;C:487312859;G:489581035;T:536921586;N:11146 50 50     537236574 487312859 489581035 536921586 11146 SRX26408833 SRS22928747 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33955 33955 SRR31021719 SRX26408832 SRS22928741 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 0.1 1 P120 SLO 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B332|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B332 B332 B332 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B332_S32_R1_001.fastq.gz B332_S32_R2_001.fastq.gz fastq fastq 1902518500.0 19025185.0 B332 S32 R1 001.fastq.gz 0:50 1:50 A:496999311;C:450985865;G:457467495;T:497055262;N:10567 50 50     496999311 450985865 457467495 497055262 10567 SRX26408832 SRS22928741 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33956 33956 SRR31021720 SRX26408831 SRS22928742 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 10 3 N120 WHI 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B358|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B358 B358 B358 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B358_S58_R1_001.fastq.gz B358_S58_R2_001.fastq.gz fastq fastq 3412618400.0 34126184.0 B358 S58 R1 001.fastq.gz 0:50 1:50 A:882127346;C:817215325;G:830793970;T:882463986;N:17773 50 50     882127346 817215325 830793970 882463986 17773 SRX26408831 SRS22928742 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33957 33957 SRR31021721 SRX26408830 SRS22928743 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 10 2 N120 WHI 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B357|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B357 B357 B357 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B357_S57_R1_001.fastq.gz B357_S57_R2_001.fastq.gz fastq fastq 2930483600.0 29304836.0 B357 S57 R1 001.fastq.gz 0:50 1:50 A:758920208;C:700274298;G:712310919;T:758962702;N:15473 50 50     758920208 700274298 712310919 758962702 15473 SRX26408830 SRS22928743 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33958 33958 SRR31021722 SRX26408829 SRS22928746 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 10 1 N120 WHI 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B356|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B356 B356 B356 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B356_S56_R1_001.fastq.gz B356_S56_R2_001.fastq.gz fastq fastq 2284414000.0 22844140.0 B356 S56 R1 001.fastq.gz 0:50 1:50 A:594288899;C:544894478;G:551263068;T:593955741;N:11814 50 50     594288899 544894478 551263068 593955741 11814 SRX26408829 SRS22928746 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33959 33959 SRR31021723 SRX26408828 SRS22928740 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 1 3 N120 WME 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B355|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B355 B355 B355 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B355_S55_R1_001.fastq.gz B355_S55_R2_001.fastq.gz fastq fastq 2176173500.0 21761735.0 B355 S55 R1 001.fastq.gz 0:50 1:50 A:566136122;C:518747894;G:524997369;T:566280934;N:11181 50 50     566136122 518747894 524997369 566280934 11181 SRX26408828 SRS22928740 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33960 33960 SRR31021724 SRX26408827 SRS22928739 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 1 2 N120 WME 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B354|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B354 B354 B354 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B354_S54_R1_001.fastq.gz B354_S54_R2_001.fastq.gz fastq fastq 1453456700.0 14534567.0 B354 S54 R1 001.fastq.gz 0:50 1:50 A:372508432;C:352568689;G:356955359;T:371416134;N:8086 50 50     372508432 352568689 356955359 371416134 8086 SRX26408827 SRS22928739 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33961 33961 SRR31021725 SRX26408826 SRS22928748 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 1 1 N120 WME 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B353|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B353 B353 B353 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B353_S53_R1_001.fastq.gz B353_S53_R2_001.fastq.gz fastq fastq 1650491800.0 16504918.0 B353 S53 R1 001.fastq.gz 0:50 1:50 A:425690515;C:395504907;G:402582077;T:426705722;N:8579 50 50     425690515 395504907 402582077 426705722 8579 SRX26408826 SRS22928748 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33962 33962 SRR31021726 SRX26408825 SRS22928738 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 0.1 3 N120 WLO 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B352|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B352 B352 B352 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B352_S52_R1_001.fastq.gz B352_S52_R2_001.fastq.gz fastq fastq 1346045100.0 13460451.0 B352 S52 R1 001.fastq.gz 0:50 1:50 A:346386405;C:323951010;G:329014244;T:346686818;N:6623 50 50     346386405 323951010 329014244 346686818 6623 SRX26408825 SRS22928738 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33963 33963 SRR31021727 SRX26408824 SRS22928737 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 0.1 2 N120 WLO 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B351|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B351 B351 B351 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B351_S51_R1_001.fastq.gz B351_S51_R2_001.fastq.gz fastq fastq 1506763300.0 15067633.0 B351 S51 R1 001.fastq.gz 0:50 1:50 A:388854340;C:361527972;G:367405227;T:388967763;N:7998 50 50     388854340 361527972 367405227 388967763 7998 SRX26408824 SRS22928737 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33964 33964 SRR31021728 SRX26408823 SRS22928735 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       NH2 0.1 1 N120 WLO 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B350|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B350 B350 B350 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B350_S50_R1_001.fastq.gz B350_S50_R2_001.fastq.gz fastq fastq 1428442600.0 14284426.0 B350 S50 R1 001.fastq.gz 0:50 1:50 A:366939696;C:343871821;G:350258778;T:367364804;N:7501 50 50     366939696 343871821 350258778 367364804 7501 SRX26408823 SRS22928735 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33965 33965 SRR31021729 SRX26408822 SRS22928736 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 10 3 C120 THI 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B349|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B349 B349 B349 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B349_S49_R1_001.fastq.gz B349_S49_R2_001.fastq.gz fastq fastq 1550515000.0 15505150.0 B349 S49 R1 001.fastq.gz 0:50 1:50 A:403378506;C:368600965;G:373988430;T:404539249;N:7850 50 50     403378506 368600965 373988430 404539249 7850 SRX26408822 SRS22928736 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33966 33966 SRR31021730 SRX26408821 SRS22928734 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       Control 3 Z120 C 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B331|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B331 B331 B331 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B331_S31_R1_001.fastq.gz B331_S31_R2_001.fastq.gz fastq fastq 2108365300.0 21083653.0 B331 S31 R1 001.fastq.gz 0:50 1:50 A:542633636;C:506240722;G:516054000;T:543425824;N:11118 50 50     542633636 506240722 516054000 543425824 11118 SRX26408821 SRS22928734 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33967 33967 SRR31021731 SRX26408820 SRS22928733 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 10 2 C120 THI 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B348|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B348 B348 B348 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B348_S48_R1_001.fastq.gz B348_S48_R2_001.fastq.gz fastq fastq 1606689800.0 16066898.0 B348 S48 R1 001.fastq.gz 0:50 1:50 A:417464063;C:382987928;G:388189552;T:418040054;N:8203 50 50     417464063 382987928 388189552 418040054 8203 SRX26408820 SRS22928733 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33968 33968 SRR31021732 SRX26408819 SRS22928728 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 10 1 C120 THI 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B347|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B347 B347 B347 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B347_S47_R1_001.fastq.gz B347_S47_R2_001.fastq.gz fastq fastq 2913827500.0 29138275.0 B347 S47 R1 001.fastq.gz 0:50 1:50 A:761302997;C:691474819;G:698510506;T:762523760;N:15418 50 50     761302997 691474819 698510506 762523760 15418 SRX26408819 SRS22928728 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33969 33969 SRR31021733 SRX26408818 SRS22928725 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 1 3 C120 TME 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B346|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B346 B346 B346 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B346_S46_R1_001.fastq.gz B346_S46_R2_001.fastq.gz fastq fastq 3160750400.0 31607504.0 B346 S46 R1 001.fastq.gz 0:50 1:50 A:813674918;C:759351240;G:773075909;T:814631535;N:16798 50 50     813674918 759351240 773075909 814631535 16798 SRX26408818 SRS22928725 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33970 33970 SRR31021734 SRX26408817 SRS22928732 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 1 2 C120 TME 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B345|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B345 B345 B345 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B345_S45_R1_001.fastq.gz B345_S45_R2_001.fastq.gz fastq fastq 2914635800.0 29146358.0 B345 S45 R1 001.fastq.gz 0:50 1:50 A:746949857;C:703501695;G:715761917;T:748406578;N:15753 50 50     746949857 703501695 715761917 748406578 15753 SRX26408817 SRS22928732 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33971 33971 SRR31021735 SRX26408816 SRS22928731 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 1 1 C120 TME 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B344|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B344 B344 B344 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B344_S44_R1_001.fastq.gz B344_S44_R2_001.fastq.gz fastq fastq 4554368900.0 45543689.0 B344 S44 R1 001.fastq.gz 0:50 1:50 A:1165101493;C:1101095529;G:1122931150;T:1165217834;N:22894 50 50     1165101493 1101095529 1122931150 1165217834 22894 SRX26408816 SRS22928731 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33972 33972 SRR31021736 SRX26408815 SRS22928729 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 0.1 3 C120 TLO 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B343|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B343 B343 B343 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B343_S43_R1_001.fastq.gz B343_S43_R2_001.fastq.gz fastq fastq 2380475200.0 23804752.0 B343 S43 R1 001.fastq.gz 0:50 1:50 A:607581751;C:575091547;G:590138251;T:607650992;N:12659 50 50     607581751 575091547 590138251 607650992 12659 SRX26408815 SRS22928729 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33973 33973 SRR31021737 SRX26408814 SRS22928730 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 0.1 2 C120 TLO 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B342|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B342 B342 B342 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B342_S42_R1_001.fastq.gz B342_S42_R2_001.fastq.gz fastq fastq 3651867700.0 36518677.0 B342 S42 R1 001.fastq.gz 0:50 1:50 A:932588654;C:882930334;G:902681378;T:933649498;N:17836 50 50     932588654 882930334 902681378 933649498 17836 SRX26408814 SRS22928730 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33974 33974 SRR31021738 SRX26408813 SRS22928723 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       COOH 0.1 1 C120 TLO 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B341|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B341 B341 B341 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B341_S3_R1_001.fastq.gz B341_S3_R2_001.fastq.gz fastq fastq 2777695600.0 27776956.0 B341 S3 R1 001.fastq.gz 0:50 1:50 A:703256824;C:685127064;G:689608205;T:699688785;N:14722 50 50     703256824 685127064 689608205 699688785 14722 SRX26408813 SRS22928723 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33975 33975 SRR31021739 SRX26408812 SRS22928727 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 10 3 P120 SHI 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B340|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B340 B340 B340 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B340_S40_R1_001.fastq.gz B340_S40_R2_001.fastq.gz fastq fastq 2893779400.0 28937794.0 B340 S40 R1 001.fastq.gz 0:50 1:50 A:751721935;C:690399655;G:699481416;T:752160975;N:15419 50 50     751721935 690399655 699481416 752160975 15419 SRX26408812 SRS22928727 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33976 33976 SRR31021740 SRX26408811 SRS22928720 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 10 1 P120 SHI 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B338|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B338 B338 B338 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B338_S38_R1_001.fastq.gz B338_S38_R2_001.fastq.gz fastq fastq 2525250300.0 25252503.0 B338 S38 R1 001.fastq.gz 0:50 1:50 A:654388023;C:601232675;G:613558159;T:656058712;N:12731 50 50     654388023 601232675 613558159 656058712 12731 SRX26408811 SRS22928720 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33977 33977 SRR31021741 SRX26408810 SRS22928724 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 1 3 P120 SME 3   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B337|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B337 B337 B337 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B337_S37_R1_001.fastq.gz B337_S37_R2_001.fastq.gz fastq fastq 2482377400.0 24823774.0 B337 S37 R1 001.fastq.gz 0:50 1:50 A:643559426;C:592015685;G:602120561;T:644668977;N:12751 50 50     643559426 592015685 602120561 644668977 12751 SRX26408810 SRS22928724 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33978 33978 SRR31021742 SRX26408809 SRS22928722 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 1 2 P120 SME 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B336|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B336 B336 B336 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B336_S36_R1_001.fastq.gz B336_S36_R2_001.fastq.gz fastq fastq 1946578400.0 19465784.0 B336 S36 R1 001.fastq.gz 0:50 1:50 A:504859512;C:464724973;G:471834380;T:505149326;N:10209 50 50     504859512 464724973 471834380 505149326 10209 SRX26408809 SRS22928722 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33979 33979 SRR31021743 SRX26408808 SRS22928726 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       PS 10 2 P120 SHI 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B339|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B339 B339 B339 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B339_S39_R1_001.fastq.gz B339_S39_R2_001.fastq.gz fastq fastq 2199002900.0 21990029.0 B339 S39 R1 001.fastq.gz 0:50 1:50 A:570993329;C:523663058;G:532594297;T:571740868;N:11348 50 50     570993329 523663058 532594297 571740868 11348 SRX26408808 SRS22928726 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33980 33980 SRR31021744 SRX26408807 SRS22928721 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       Control 2 Z120 C 2   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B330|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B330 B330 B330 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B330_S1_R1_001.fastq.gz B330_S1_R2_001.fastq.gz fastq fastq 2070472100.0 20704721.0 B330 S1 R1 001.fastq.gz 0:50 1:50 A:537760107;C:494573795;G:500793218;T:537333858;N:11122 50 50     537760107 494573795 500793218 537333858 11122 SRX26408807 SRS22928721 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
33981 33981 SRR31021745 SRX26408806 SRS22928719 SRP539040 PRJNA1173915 Revealing hidden plastics using Trinal Oviparous Omics Model TriOOL PRJNA1173915 Other This project builds on strong interdisciplinary technologies and international expertise to explore frontiers of nanoplastic pollution issues by integrating comparative model embryos cutting edge bioimaging omics and hazard modelLing. The project will provide unprecedented insights into understanding the potential hazards posed by nanoplastics and corresponding mechanisms and launch a new chapter in the toxicological assessment of nanopollutant mixtures.       Control 1 Z120 C 1   strain:Wide AB|isolate:Wide type AB strain|breed:live Artemia and dry flake food|cultivar:missing|ecotype:Denmark|age:120 hpf|dev stage:larvae|collection date:2022 04|geo loc name:Denmark: Odense|sex:pooled male and female|tissue:whole organism|source material id:B329|BioSampleModel:Model organism or animal                 RNA Seq of zebrafish: B329 B329 B329 RNA was isolated and purified by the RNeasy Mini Kit Qiagen Germany with three replicates per group. Total RNA quality was assessed using RNA agarose gel electrophoresis and RNA quantity was determined using a spectrofluorometer MySpec VWR Radnor United States. Complementary DNA cDNA and the generated libraries were prepared according to the manufacture protocol and sequenced using the Illumina NovaSeq 6000sequencing platforms at the University of Southern Denmark.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina MiSeq   SRP539040     B329_S29_R1_001.fastq.gz B329_S29_R2_001.fastq.gz fastq fastq 2846303000.0 28463030.0 B329 S29 R1 001.fastq.gz 0:50 1:50 A:732723326;C:679449612;G:698675459;T:735439047;N:15556 50 50     732723326 679449612 698675459 735439047 15556 SRX26408806 SRS22928719 SRA1992799 University of Southern Denmark|Department of Biology University of Southern Denmark                       B B biological fallback assumption illumina miseq unknown random_priming unknown bulk unknown unknown   Denmark 2024-10-17 Larval Larval Whole Organism All anatomical structures
48115 48115 SRR7252252 SRX4156979 SRS3369496 SRP149646 PRJNA453111 Danio rerio Transcriptome or Gene expression PRJNA453111 Other The effect of oligosaccharides on zebrafish genes       Model organism or animal sample from Danio rerio 02 zebrafish 2   breed:zebrafish|dev stage:sexual maturity|sex:not determined|tissue:the whole fish|BioSampleModel:Model organism or animal                 Danio rerio Raw sequence reads T02 T02 Liver of FOS exposure     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP149646     Zebrafish_G017-T02_good_2.fq Zebrafish_G017-T02_good_1.fq fastq fastq 14376728630.0 48016590.0 Zebrafish G017 T02 good 2.fq 0:149.71 1:149.71 A:3691193836;C:3492856068;G:3505759208;T:3686065491;N:854027 149 149     3691193836 3492856068 3505759208 3686065491 854027 SRX4156979 SRS3369496 SRA714653 Henan University of Scientific and Technology|College of Animal Science and Technology Henan University of Scientific and Technology 2 0.91739 0.92142 0.02484 0.02505 0.6873 0.69402 0.47704 0.47922 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-06-04 Undetermined Undetermined Whole Organism All anatomical structures
48116 48116 SRR7252253 SRX4156978 SRS3369495 SRP149646 PRJNA453111 Danio rerio Transcriptome or Gene expression PRJNA453111 Other The effect of oligosaccharides on zebrafish genes       Model organism or animal sample from Danio rerio zebrafish   breed:zebrafish|dev stage:sexual maturity|sex:not determined|tissue:the whole fish|BioSampleModel:Model organism or animal                 Danio rerio Raw sequence reads T01 T01 Liver of control     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP149646     Zebrafish_G017-T01_good_1.fq Zebrafish_G017-T01_good_2.fq fastq fastq 14807578386.0 49468651.0 Zebrafish G017 T01 good 2.fq 0:149.67 1:149.67 A:3802207986;C:3595045362;G:3614407174;T:3795034464;N:883400 149 149     3802207986 3595045362 3614407174 3795034464 883400 SRX4156978 SRS3369495 SRA714653 Henan University of Scientific and Technology|College of Animal Science and Technology Henan University of Scientific and Technology 2 0.92048 0.92419 0.03167 0.03195 0.67105 0.67489 0.43695 0.44187 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-06-04 Undetermined Undetermined Whole Organism All anatomical structures
48313 48313 SRR7223661 SRX4130205 SRS3344559 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         TrisCDPS1   strain:Danio rerio|age:14 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of TrisCDPS treated zf: 5 day larvae TrisCDPS1 TrisCDPS1 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     TrisCDPS1_2.fq.gz TrisCDPS1_1.fq.gz fastq fastq 7552017900.0 25173393.0 TrisCDPS1 2.fq.gz 0:150 1:150 A:2064740694;C:1718323084;G:1724225343;T:2043708648;N:1020131 150 150     2064740694 1718323084 1724225343 2043708648 1020131 SRX4130205 SRS3344559 SRA711726 University of Jinan|Environment University of Jinan 2 0.92864 0.92381 0.09537 0.09435 0.71086 0.71467 0.47551 0.47766 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48314 48314 SRR7223662 SRX4130204 SRS3344558 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         DCDPS3   strain:Danio rerio|age:13 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of DCDPS treated zf: 5 day larvae DCDPS3 DCDPS3 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     DCDPS3_1.fq.gz DCDPS3_2.fq.gz fastq fastq 8882830500.0 29609435.0 DCDPS3 2.fq.gz 0:150 1:150 A:2427234479;C:2021300509;G:2031701758;T:2401395227;N:1198527 150 150     2427234479 2021300509 2031701758 2401395227 1198527 SRX4130204 SRS3344558 SRA711726 University of Jinan|Environment University of Jinan 2 0.92596 0.91455 0.09347 0.09189 0.7108 0.71478 0.47276 0.48212 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48315 48315 SRR7223663 SRX4130203 SRS3344557 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         TCDPS1   strain:Danio rerio|age:8 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of TCDPS treated zf: 5 day larvae TCDPS1 TCDPS1 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     TCDPS1_1.fq.gz TCDPS1_2.fq.gz fastq fastq 7523076900.0 25076923.0 TCDPS1 1.fq.gz 0:150 1:150 A:2038154575;C:1731802031;G:1735048059;T:2017093917;N:978318 150 150     2038154575 1731802031 1735048059 2017093917 978318 SRX4130203 SRS3344557 SRA711726 University of Jinan|Environment University of Jinan 2 0.92608 0.92913 0.08659 0.08656 0.71425 0.71721 0.46846 0.46712 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48316 48316 SRR7223664 SRX4130202 SRS3344556 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         C3   strain:Danio rerio|age:7 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of zf: 5 day larvae C3 C3 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     C3_1.fq.gz C3_2.fq.gz fastq fastq 6543797400.0 21812658.0 C3 2.fq.gz 0:150 1:150 A:1738781839;C:1536296581;G:1551651858;T:1716817665;N:249457 150 150     1738781839 1536296581 1551651858 1716817665 249457 SRX4130202 SRS3344556 SRA711726 University of Jinan|Environment University of Jinan 2 0.93202 0.93617 0.06777 0.06811 0.71064 0.71892 0.47813 0.47374 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48317 48317 SRR7223665 SRX4130201 SRS3344555 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         C2   strain:Danio rerio|age:6 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of zf: 5 day larvae C2 C2 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     C2_1.fq.gz C2_2.fq.gz fastq fastq 7622981400.0 25409938.0 C2 1.fq.gz 0:150 1:150 A:2078412920;C:1740455140;G:1746462300;T:2056660891;N:990149 150 150     2078412920 1740455140 1746462300 2056660891 990149 SRX4130201 SRS3344555 SRA711726 University of Jinan|Environment University of Jinan 2 0.92699 0.92374 0.09404 0.09306 0.71234 0.71622 0.46627 0.46522 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48318 48318 SRR7223666 SRX4130200 SRS3344554 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         C1   strain:Danio rerio|age:5 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of zf: 5 day larvae C1 C1 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     C1_1.fq.gz C1_2.fq.gz fastq fastq 6629787900.0 22099293.0 C1 1.fq.gz 0:150 1:150 A:1835589982;C:1485010662;G:1491104537;T:1817331587;N:751132 150 150     1835589982 1485010662 1491104537 1817331587 751132 SRX4130200 SRS3344554 SRA711726 University of Jinan|Environment University of Jinan 2 0.89108 0.88492 0.09317 0.09156 0.718 0.7233 0.47294 0.47377 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48319 48319 SRR7223667 SRX4130199 SRS3344553 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         DCDPS2   strain:Danio rerio|age:12 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of DCDPS treated zf: 5 day larvae DCDPS2 DCDPS2 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     DCDPS2_1.fq.gz DCDPS2_2.fq.gz fastq fastq 8040624600.0 26802082.0 DCDPS2 1.fq.gz 0:150 1:150 A:2205838635;C:1822959368;G:1832567991;T:2178177040;N:1081566 150 150     2205838635 1822959368 1832567991 2178177040 1081566 SRX4130199 SRS3344553 SRA711726 University of Jinan|Environment University of Jinan 2 0.92586 0.92198 0.09355 0.09254 0.71078 0.71652 0.47953 0.47275 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48320 48320 SRR7223668 SRX4130198 SRS3344552 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         DCDPS1   strain:Danio rerio|age:11 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of DCDPS treated zf: 5 day larvae DCDPS1 DCDPS1 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     DCDPS1_2.fq.gz DCDPS1_1.fq.gz fastq fastq 8599461900.0 28664873.0 DCDPS1 2.fq.gz 0:150 1:150 A:2345534916;C:1963958724;G:1968901667;T:2319904936;N:1161657 150 150     2345534916 1963958724 1968901667 2319904936 1161657 SRX4130198 SRS3344552 SRA711726 University of Jinan|Environment University of Jinan 2 0.92368 0.92723 0.08764 0.08731 0.71547 0.71971 0.4813 0.47995 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-05-27 Larval Larval Whole Organism All anatomical structures
48321 48321 SRR7223669 SRX4130197 SRS3344551 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         TCDPS3   strain:Danio rerio|age:10 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of TCDPS treated zf: 5 day larvae TCDPS3 TCDPS3 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     TCDPS3_1.fq.gz TCDPS3_2.fq.gz fastq fastq 7963502100.0 26545007.0 TCDPS3 2.fq.gz 0:150 1:150 A:2163154757;C:1827132936;G:1831483410;T:2140658978;N:1072019 150 150     2163154757 1827132936 1831483410 2140658978 1072019 SRX4130197 SRS3344551 SRA711726 University of Jinan|Environment University of Jinan 2 0.92803 0.92935 0.08694 0.08709 0.71157 0.71543 0.4691 0.46764 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48322 48322 SRR7223670 SRX4130196 SRS3344550 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         TCDPS2   strain:Danio rerio|age:9 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of TCDPS treated zf: 5 day larvae TCDPS2 TCDPS2 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     TCDPS2_1.fq.gz TCDPS2_2.fq.gz fastq fastq 8080785600.0 26935952.0 TCDPS2 2.fq.gz 0:150 1:150 A:2207688944;C:1842341306;G:1846129472;T:2183533934;N:1091944 150 150     2207688944 1842341306 1846129472 2183533934 1091944 SRX4130196 SRS3344550 SRA711726 University of Jinan|Environment University of Jinan 2 0.92773 0.92439 0.09326 0.09299 0.71447 0.71877 0.4689 0.4801 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48323 48323 SRR7223671 SRX4130195 SRS3344549 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         TrisCDPS3   strain:Danio rerio|age:16 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of TrisCDPS treated zf: 5 day larvae TrisCDPS3 TrisCDPS3 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     TrisCDPS3_1.fq.gz TrisCDPS3_2.fq.gz fastq fastq 9172719000.0 30575730.0 TrisCDPS3 1.fq.gz 0:150 1:150 A:2507937903;C:2088057682;G:2095938157;T:2479548210;N:1237048 150 150     2507937903 2088057682 2095938157 2479548210 1237048 SRX4130195 SRS3344549 SRA711726 University of Jinan|Environment University of Jinan 2 0.92421 0.92576 0.09405 0.09332 0.71082 0.7148 0.47786 0.47144 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-12-31 Larval Larval Whole Organism All anatomical structures
48324 48324 SRR7223672 SRX4130194 SRS3344548 SRP149041 PRJNA473201 Danio rerio Genome sequencing PRJNA473201 Other To explore the potential mechanisms underlying wavy notochord caused in zebrafish embryos following exposure to polychlorinated diphenylsulfides         TrisCDPS2   strain:Danio rerio|age:15 days|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal                 RNA Seq of TrisCDPS treated zf: 5 day larvae TrisCDPS2 TrisCDPS2 TopHat FPKM FDR<0.05     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP149041     TrisCDPS2_2.fq.gz TrisCDPS2_1.fq.gz fastq fastq 7161083100.0 23870277.0 TrisCDPS2 1.fq.gz 0:150 1:150 A:1958680431;C:1628149492;G:1635229167;T:1937833061;N:1190949 150 150     1958680431 1628149492 1635229167 1937833061 1190949 SRX4130194 SRS3344548 SRA711726 University of Jinan|Environment University of Jinan 2 0.92545 0.92016 0.09453 0.09357 0.70883 0.71401 0.47093 0.47799 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-05-27 Larval Larval Whole Organism All anatomical structures
49058 49058 SRR7637828 SRX4501382 SRS3622149 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         FiberTwo   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut11|BioSampleModel:Model organism or animal                 Fiber2 FiberTwo FiberTwo Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     SFb2_20180308_CTCAAT_S41_L002_R1_001.fastq.gz SFb2_20180308_CTCAAT_S41_L002_R2_001.fastq.gz fastq fastq 10494618988.0 34750394.0 SFb2 20180308 CTCAAT S41 L002 R2 001.fastq.gz 0:151 1:151 A:2756954289;C:2479858860;G:2559922727;T:2697539679;N:343433 151 151     2756954289 2479858860 2559922727 2697539679 343433 SRX4501382 SRS3622149 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94475 0.94746 0.03971 0.03937 0.75771 0.76108 0.54085 0.52797 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-08-02 Adult Adult Whole Organism All anatomical structures
49059 49059 SRR7637829 SRX4501381 SRS3622148 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         BeadThree   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut9|BioSampleModel:Model organism or animal                 Bead3 BeadThree BeadThree Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     MB3_20180308_CGACTG_S39_L002_R2_001.fastq.gz MB3_20180308_CGACTG_S39_L002_R1_001.fastq.gz fastq fastq 5583089402.0 18487051.0 MB3 20180308 CGACTG S39 L002 R1 001.fastq.gz 0:151 1:151 A:1460792721;C:1322839967;G:1369668696;T:1429612084;N:175934 151 151     1460792721 1322839967 1369668696 1429612084 175934 SRX4501381 SRS3622148 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94237 0.9468 0.04223 0.04177 0.74194 0.74499 0.54818 0.55571 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49060 49060 SRR7637830 SRX4501380 SRS3622147 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         FiberOne   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut10|BioSampleModel:Model organism or animal                 Fiber1 FiberOne FiberOne Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     SFb1_20180308_CGCATA_S40_L002_R2_001.fastq.gz SFb1_20180308_CGCATA_S40_L002_R1_001.fastq.gz fastq fastq 7368174860.0 24397930.0 SFb1 20180308 CGCATA S40 L002 R2 001.fastq.gz 0:151 1:151 A:1936361048;C:1742614765;G:1801958963;T:1887001771;N:238313 151 151     1936361048 1742614765 1801958963 1887001771 238313 SRX4501380 SRS3622147 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94421 0.94804 0.04014 0.03969 0.75501 0.75775 0.52951 0.54195 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49061 49061 SRR7637831 SRX4501379 SRS3622146 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         ControlTwo   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut2|BioSampleModel:Model organism or animal                 Control2 ControlTwo ControlTwo Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     ck2_20180308N_CAGCGT_S80_R2_001.fastq.gz ck2_20180308N_CAGCGT_S80_R1_001.fastq.gz fastq fastq 9368247776.0 31020688.0 ck2 20180308N CAGCGT S80 R1 001.fastq.gz 0:151 1:151 A:2460392017;C:2207268196;G:2315640897;T:2384916572;N:30094 151 151     2460392017 2207268196 2315640897 2384916572 30094 SRX4501379 SRS3622146 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94874 0.81138 0.04085 0.0318 0.74093 0.75442 0.52969 0.52322 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49062 49062 SRR7637832 SRX4501378 SRS3622145 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         ControlThree   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut3|BioSampleModel:Model organism or animal                 Control3 ControlThree ControlThree Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     ck3_20180308N_CATACC_S81_R2_001.fastq.gz ck3_20180308N_CATACC_S81_R1_001.fastq.gz fastq fastq 8156423852.0 27008026.0 ck3 20180308N CATACC S81 R2 001.fastq.gz 0:151 1:151 A:2141586323;C:1928412128;G:2019757092;T:2066642037;N:26272 151 151     2141586323 1928412128 2019757092 2066642037 26272 SRX4501378 SRS3622145 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94991 0.80786 0.03753 0.02937 0.743 0.7581 0.52953 0.51767 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49063 49063 SRR7637833 SRX4501377 SRS3622143 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         FragmentOne   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut4|BioSampleModel:Model organism or animal                 Fragment1 FragmentOne FragmentOne Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     FG1_20180308N_CCAGTT_S82_R1_001.fastq.gz FG1_20180308N_CCAGTT_S82_R2_001.fastq.gz fastq fastq 10309384268.0 34137034.0 FG1 20180308N CCAGTT S82 R2 001.fastq.gz 0:151 1:151 A:2711920404;C:2428019743;G:2538726593;T:2630683876;N:33652 151 151     2711920404 2428019743 2538726593 2630683876 33652 SRX4501377 SRS3622143 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.95319 0.81466 0.0366 0.02838 0.76729 0.78139 0.54501 0.54542 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2018-08-02 Adult Adult Whole Organism All anatomical structures
49064 49064 SRR7637834 SRX4501376 SRS3622144 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         ControlOne   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut1|BioSampleModel:Model organism or animal                 Control1 ControlOne ControlOne Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     ck1_20180308N_CACTTC_S79_R1_001.fastq.gz ck1_20180308N_CACTTC_S79_R2_001.fastq.gz fastq fastq 8302376526.0 27491313.0 ck1 20180308N CACTTC S79 R1 001.fastq.gz 0:151 1:151 A:2185378613;C:1951420825;G:2049874039;T:2115676173;N:26876 151 151     2185378613 1951420825 2049874039 2115676173 26876 SRX4501376 SRS3622144 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.9485 0.80065 0.04239 0.03302 0.74172 0.7567 0.52236 0.53217 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49065 49065 SRR7637835 SRX4501375 SRS3622142 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         FiberThree   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut12|BioSampleModel:Model organism or animal                 Fiber3 FiberThree FiberThree Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     SFb3_20180308_CTGAGC_S42_L002_R2_001.fastq.gz SFb3_20180308_CTGAGC_S42_L002_R1_001.fastq.gz fastq fastq 8052778660.0 26664830.0 SFb3 20180308 CTGAGC S42 L002 R2 001.fastq.gz 0:151 1:151 A:2108582357;C:1909439595;G:1976426950;T:2058076799;N:252959 151 151     2108582357 1909439595 1976426950 2058076799 252959 SRX4501375 SRS3622142 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94666 0.94941 0.03962 0.0395 0.75408 0.75737 0.52613 0.54345 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49066 49066 SRR7637836 SRX4501374 SRS3622141 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         BeadOne   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut7|BioSampleModel:Model organism or animal                 Bead1 BeadOne BeadOne Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     MB1_20180308_CCTCCT_S37_L002_R1_001.fastq.gz MB1_20180308_CCTCCT_S37_L002_R2_001.fastq.gz fastq fastq 6907591036.0 22872818.0 MB1 20180308 CCTCCT S37 L002 R2 001.fastq.gz 0:151 1:151 A:1796574129;C:1649557969;G:1702822523;T:1758411861;N:224554 151 151     1796574129 1649557969 1702822523 1758411861 224554 SRX4501374 SRS3622141 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.94402 0.94831 0.03903 0.03905 0.74444 0.74799 0.55334 0.55731 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49067 49067 SRR7637837 SRX4501373 SRS3622140 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         BeadTwo   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut8|BioSampleModel:Model organism or animal                 Bead2 BeadTwo BeadTwo Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     MB2_20180308_CGAACT_S38_L002_R1_001.fastq.gz MB2_20180308_CGAACT_S38_L002_R2_001.fastq.gz fastq fastq 8790666132.0 29108166.0 MB2 20180308 CGAACT S38 L002 R2 001.fastq.gz 0:151 1:151 A:2308382253;C:2076549882;G:2139570034;T:2265871851;N:292112 151 151     2308382253 2076549882 2139570034 2265871851 292112 SRX4501373 SRS3622140 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.9414 0.94541 0.04298 0.04231 0.74162 0.74578 0.54352 0.54266 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49068 49068 SRR7637838 SRX4501372 SRS3622137 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         FragmentTwo   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut5|BioSampleModel:Model organism or animal                 Fragment2 FragmentTwo FragmentTwo Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     FG2_20180308N_CCGAAG_S83_R1_001.fastq.gz FG2_20180308N_CCGAAG_S83_R2_001.fastq.gz fastq fastq 9210063196.0 30496898.0 FG2 20180308N CCGAAG S83 R2 001.fastq.gz 0:151 1:151 A:2407480323;C:2183272173;G:2291489636;T:2327790772;N:30292 151 151     2407480323 2183272173 2291489636 2327790772 30292 SRX4501372 SRS3622137 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.95304 0.81491 0.03815 0.03093 0.75532 0.7696 0.52024 0.54303 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49069 49069 SRR7637839 SRX4501371 SRS3622139 SRP156164 PRJNA484127 Danio rerio Raw sequence reads PRJNA484127 Whole Genome Sequencing The toxic of MPs on Danio rerio gut.         FragmentThree   strain:not collected|age:Adult|sex:pooled male and female|tissue:Gut6|BioSampleModel:Model organism or animal                 Fragment3 FragmentThree FragmentThree Analysis the zebrafish gut DEGs post uptake MPs with different shapes     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP156164     FG3_20180308N_CCGTGA_S84_R1_001.fastq.gz FG3_20180308N_CCGTGA_S84_R2_001.fastq.gz fastq fastq 7568963788.0 25062794.0 FG3 20180308N CCGTGA S84 R1 001.fastq.gz 0:151 1:151 A:1979865584;C:1789546939;G:1882858707;T:1916667688;N:24870 151 151     1979865584 1789546939 1882858707 1916667688 24870 SRX4501371 SRS3622139 SRA750253 Nanjing University|School of Environment Nanjing University 2 0.95309 0.81064 0.03664 0.02853 0.75499 0.77001 0.53024 0.54512 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-09-01 Adult Adult Whole Organism All anatomical structures
49243 49243 SRR7824324 SRX4675365 SRS3769144 SRP161624 PRJNA490559 GLDC KO ZEBRAFISH PRJNA490559 Other Differential Gene expression of 7 dpf larvae comparing +/+ and / GLDC KO larvae         WT   strain:TL|dev stage:7 dpf|sex:not determined|tissue:whole embryo|genotype:gldc+/+|BioSampleModel:Model organism or animal                 Danio Rerio 7 dpf GLDC+/+ GLDC WT GLDC WT Library preparation was performed using the Truseq RNA Illumina. 13 PCR cycles were required to amplify cDNA libraries. Libraries were quantified by Nanodrop and BioAnalyzer. All libraries were diluted to 10 nM and normalized with the Miseq SR50 v2. Libraries were pooled to equimolar concentration and multiplexed by 6 samples per lane.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   SRP161624   assembly:GRCz10 genome|loader:fastq load.py ._GLDC_whole7dpf_WT3_S8_L002_R2_001.fastq ._GLDC_whole7dpf_WT3_S8_L003_R1_001.fastq ._GLDC_whole7dpf_WT3_S8_L003_R2_001.fastq ._GLDC_whole7dpf_WT3_S8_L004_R2_001.fastq ._GLDC_whole7dpf_WT3_S8_L002_R1_001.fastq GLDC_whole7dpf_WT2_S7_L001_R2_001.fastq GLDC_whole7dpf_WT2_S7_L002_R1_001.fastq GLDC_whole7dpf_WT2_S7_L002_R2_001.fastq GLDC_whole7dpf_WT2_S7_L003_R1_001.fastq GLDC_whole7dpf_WT2_S7_L004_R1_001.fastq GLDC_whole7dpf_WT2_S7_L004_R2_001.fastq GLDC_whole7dpf_WT3_S8_L001_R1_001.fastq GLDC_whole7dpf_WT3_S8_L001_R2_001.fastq GLDC_whole7dpf_WT3_S8_L002_R1_001.fastq GLDC_whole7dpf_WT3_S8_L002_R2_001.fastq GLDC_whole7dpf_WT3_S8_L003_R1_001.fastq GLDC_whole7dpf_WT3_S8_L003_R2_001.fastq GLDC_whole7dpf_WT3_S8_L004_R2_001.fastq ._GLDC_whole7dpf_WT3_S8_L001_R2_001.fastq ._GLDC_whole7dpf_WT3_S8_L001_R1_001.fastq ._GLDC_whole7dpf_WT2_S7_L004_R2_001.fastq ._GLDC_whole7dpf_WT2_S7_L004_R1_001.fastq ._GLDC_whole7dpf_WT2_S7_L003_R1_001.fastq ._GLDC_whole7dpf_WT2_S7_L002_R2_001.fastq ._GLDC_whole7dpf_WT2_S7_L002_R1_001.fastq ._GLDC_whole7dpf_WT2_S7_L001_R2_001.fastq ._GLDC_whole7dpf_WT2_S7_L001_R1_001.fastq ._GLDC_whole7dpf_WT1_S6_L004_R2_001.fastq ._GLDC_whole7dpf_WT1_S6_L003_R2_001.fastq ._GLDC_whole7dpf_WT1_S6_L002_R1_001.fastq ._GLDC_whole7dpf_WT1_S6_L001_R2_001.fastq ._GLDC_whole7dpf_WT1_S6_L001_R1_001.fastq GLDC_whole7dpf_WT2_S7_L001_R1_001.fastq GLDC_whole7dpf_WT1_S6_L004_R2_001.fastq GLDC_whole7dpf_WT1_S6_L003_R2_001.fastq GLDC_whole7dpf_WT1_S6_L002_R1_001.fastq GLDC_whole7dpf_WT1_S6_L001_R2_001.fastq GLDC_whole7dpf_WT1_S6_L001_R1_001.fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq 450528.0 3744.0 WT.zip.tar   A:109616;C:106322;G:107396;T:108223;N:18971         109616 106322 107396 108223 18971 SRX4675365 SRS3769144 SRA772670 CRCHUM|NEUROSCIENCES CRCHUM 2 0.91448 0.93765 0.05757 0.05369 0.98117 0.98135 0.49734 0.48404 76 76 B B biological fallback assumption illumina nextseq unknown random_priming trueseq bulk unknown unknown   Canada 2021-02-25 Larval Larval Whole Organism All anatomical structures
49244 49244 SRR7824325 SRX4675364 SRS3769145 SRP161624 PRJNA490559 GLDC KO ZEBRAFISH PRJNA490559 Other Differential Gene expression of 7 dpf larvae comparing +/+ and / GLDC KO larvae         HM   strain:TL|dev stage:7 dpf|sex:not determined|tissue:whole embryo|genotype:gldc / |BioSampleModel:Model organism or animal                 Danio Rerio 7 dpf GLDC / GLDC HM GLDC HM Library preparation was performed using the Truseq RNA Illumina. 13 PCR cycles were required to amplify cDNA libraries. Libraries were quantified by Nanodrop and BioAnalyzer. All libraries were diluted to 10 nM and normalized with the Miseq SR50 v2. Libraries were pooled to equimolar concentration and multiplexed by 6 samples per lane.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   SRP161624   assembly:GRCz10 genome|loader:fastq load.py ._GLDC_whole7dpf_HM1_S9_L001_R1_001.fastq ._GLDC_whole7dpf_HM1_S9_L001_R2_001.fastq ._GLDC_whole7dpf_HM1_S9_L002_R1_001.fastq ._GLDC_whole7dpf_HM1_S9_L002_R2_001.fastq ._GLDC_whole7dpf_HM1_S9_L003_R1_001.fastq ._GLDC_whole7dpf_HM1_S9_L003_R2_001.fastq ._GLDC_whole7dpf_HM1_S9_L004_R1_001.fastq ._GLDC_whole7dpf_HM1_S9_L004_R2_001.fastq ._GLDC_whole7dpf_HM2_S10_L001_R1_001.fastq ._GLDC_whole7dpf_HM2_S10_L001_R2_001.fastq ._GLDC_whole7dpf_HM2_S10_L002_R1_001.fastq ._GLDC_whole7dpf_HM2_S10_L002_R2_001.fastq ._GLDC_whole7dpf_HM2_S10_L003_R1_001.fastq ._GLDC_whole7dpf_HM2_S10_L003_R2_001.fastq ._GLDC_whole7dpf_HM2_S10_L004_R2_001.fastq ._GLDC_whole7dpf_HM3_S11_L001_R1_001.fastq ._GLDC_whole7dpf_HM3_S11_L001_R2_001.fastq ._GLDC_whole7dpf_HM3_S11_L002_R1_001.fastq ._GLDC_whole7dpf_HM3_S11_L003_R1_001.fastq ._GLDC_whole7dpf_HM3_S11_L003_R2_001.fastq ._GLDC_whole7dpf_HM3_S11_L004_R1_001.fastq GLDC_whole7dpf_HM1_S9_L001_R1_001.fastq GLDC_whole7dpf_HM1_S9_L001_R2_001.fastq GLDC_whole7dpf_HM1_S9_L002_R1_001.fastq GLDC_whole7dpf_HM1_S9_L002_R2_001.fastq GLDC_whole7dpf_HM1_S9_L003_R1_001.fastq GLDC_whole7dpf_HM1_S9_L003_R2_001.fastq GLDC_whole7dpf_HM1_S9_L004_R1_001.fastq GLDC_whole7dpf_HM1_S9_L004_R2_001.fastq GLDC_whole7dpf_HM2_S10_L001_R1_001.fastq GLDC_whole7dpf_HM2_S10_L001_R2_001.fastq GLDC_whole7dpf_HM2_S10_L002_R1_001.fastq GLDC_whole7dpf_HM2_S10_L002_R2_001.fastq GLDC_whole7dpf_HM2_S10_L003_R1_001.fastq GLDC_whole7dpf_HM2_S10_L003_R2_001.fastq GLDC_whole7dpf_HM2_S10_L004_R2_001.fastq GLDC_whole7dpf_HM3_S11_L001_R1_001.fastq GLDC_whole7dpf_HM3_S11_L001_R2_001.fastq GLDC_whole7dpf_HM3_S11_L002_R1_001.fastq GLDC_whole7dpf_HM3_S11_L003_R1_001.fastq GLDC_whole7dpf_HM3_S11_L003_R2_001.fastq GLDC_whole7dpf_HM3_S11_L004_R1_001.fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq fastq 497952.0 3744.0 HM.zip.tar   A:121192;C:118254;G:118009;T:121857;N:18640         121192 118254 118009 121857 18640 SRX4675364 SRS3769145 SRA772670 CRCHUM|NEUROSCIENCES CRCHUM 2 0.91422 0.92397 0.0656 0.06743 0.97528 0.97555 0.47174 0.47422 76 76 B B biological fallback assumption illumina nextseq unknown random_priming trueseq bulk unknown unknown   Canada 2021-02-25 Larval Larval Whole Organism All anatomical structures
52147 52147 SRR8953735 SRX5733574 SRS4646934 SRP193814 PRJNA535392 Transcriptome analysis and identification of insecticide metabolism related genes post exposure to insecticide in Sitobion avenae PRJNA535392 Other Aphids causes serious lost in the production of wheat. Grain aphid Sitobion avenae is the dominant species of aphid in all wheat region of China and this species is also considered resistant to a variety of insecticides including imidacloprid and chlorpyrifos. However the resistance and metabolize mechanism of insecticides for S. avenae is still unclear. This study employed transcriptome analysis to compare the expression patterns of stress response genes under imidacloprid and chlorpyrifos for 15min 3h and 36h'exposure. post compared insecticide treated samples of different time duration to control sample we obtained 60 to 2267 Differential Express Unigenes DEUs among these DEUs 31 790 unigenes was classified into 66 786 categories of GO function group and 24 to 760 DEUs could be mapped into 54 to 268 KEGG pathways. The expression of DEUs related to insecticide metabolism related genes were analyzed. In the insecticide metabolism related genes cuticle protein is the largest group in DEUs and the second largest is ABC transporter. Our study will facilitate molecular research on insecticide resistance in S. avenae as well as in other wheat aphids.     20 miR 430 / embryos at shield stage were collected for RNA seq analsysis MiR 430 / M6   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                 Transcriptome analysis and identification of insecticidemetabolism related genes post exposure to insecticide in Sitobion avenae CH36h 3 CH36h 3 CH36h 3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA HiSeq X Ten   SRP193814     CH36h_3_S108_L004_R1_001.fastq.gz CH36h_3_S108_L004_R2_001.fastq.gz fastq fastq 7952910884.0 26334142.0 CH36h 3 S108 L004 R1 001.fastq.gz 0:151 1:151 A:2299365607;C:1663413532;G:1659057469;T:2331018176;N:56100 151 151     2299365607 1663413532 1659057469 2331018176 56100 SRX5733574 SRS4646934 SRA879464 Institute of Plant Protection and Agro-Products Safety|Anhui Academy of Agricultural Sciences Institute of Plant Protection and Agro-Products Safety 2 7e-05 6e-05 1e-05 2e-05 0.99987 0.99989 0.44444 0.66666 151 151 T T mates < 9% mapping rate illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-01-24 Gastrula Embryo Whole Organism All anatomical structures
52148 52148 SRR8953736 SRX5733573 SRS4646933 SRP193814 PRJNA535392 Transcriptome analysis and identification of insecticide metabolism related genes post exposure to insecticide in Sitobion avenae PRJNA535392 Other Aphids causes serious lost in the production of wheat. Grain aphid Sitobion avenae is the dominant species of aphid in all wheat region of China and this species is also considered resistant to a variety of insecticides including imidacloprid and chlorpyrifos. However the resistance and metabolize mechanism of insecticides for S. avenae is still unclear. This study employed transcriptome analysis to compare the expression patterns of stress response genes under imidacloprid and chlorpyrifos for 15min 3h and 36h'exposure. post compared insecticide treated samples of different time duration to control sample we obtained 60 to 2267 Differential Express Unigenes DEUs among these DEUs 31 790 unigenes was classified into 66 786 categories of GO function group and 24 to 760 DEUs could be mapped into 54 to 268 KEGG pathways. The expression of DEUs related to insecticide metabolism related genes were analyzed. In the insecticide metabolism related genes cuticle protein is the largest group in DEUs and the second largest is ABC transporter. Our study will facilitate molecular research on insecticide resistance in S. avenae as well as in other wheat aphids.     20 WT embryos at shield stage were collected for RNA seq analsysis WT W6   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                 Transcriptome analysis and identification of insecticidemetabolism related genes post exposure to insecticide in Sitobion avenae CH36h 2 CH36h 2 CH36h 2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA HiSeq X Ten   SRP193814     CH36h_2_S107_L004_R1_001.fastq.gz CH36h_2_S107_L004_R2_001.fastq.gz fastq fastq 7678237958.0 25424629.0 CH36h 2 S107 L004 R1 001.fastq.gz 0:151 1:151 A:2234219717;C:1589496206;G:1588910161;T:2265558614;N:53260 151 151     2234219717 1589496206 1588910161 2265558614 53260 SRX5733573 SRS4646933 SRA879464 Institute of Plant Protection and Agro-Products Safety|Anhui Academy of Agricultural Sciences Institute of Plant Protection and Agro-Products Safety 2 3e-05 2e-05 0.0 0.0 0.99993 0.99995 0.5 1.0 151 151 T T mates < 9% mapping rate illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-01-24 Gastrula Embryo Whole Organism All anatomical structures
52149 52149 SRR8953738 SRX5733571 SRS4646935 SRP193814 PRJNA535392 Transcriptome analysis and identification of insecticide metabolism related genes post exposure to insecticide in Sitobion avenae PRJNA535392 Other Aphids causes serious lost in the production of wheat. Grain aphid Sitobion avenae is the dominant species of aphid in all wheat region of China and this species is also considered resistant to a variety of insecticides including imidacloprid and chlorpyrifos. However the resistance and metabolize mechanism of insecticides for S. avenae is still unclear. This study employed transcriptome analysis to compare the expression patterns of stress response genes under imidacloprid and chlorpyrifos for 15min 3h and 36h'exposure. post compared insecticide treated samples of different time duration to control sample we obtained 60 to 2267 Differential Express Unigenes DEUs among these DEUs 31 790 unigenes was classified into 66 786 categories of GO function group and 24 to 760 DEUs could be mapped into 54 to 268 KEGG pathways. The expression of DEUs related to insecticide metabolism related genes were analyzed. In the insecticide metabolism related genes cuticle protein is the largest group in DEUs and the second largest is ABC transporter. Our study will facilitate molecular research on insecticide resistance in S. avenae as well as in other wheat aphids.     miR 430 / embryos were injected with miR 430 rescued 20 embryos at shield stage were collected for RNA seq analsysis Rescued R6   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                 Transcriptome analysis and identification of insecticidemetabolism related genes post exposure to insecticide in Sitobion avenae IM15min 1 IM15min 1 IM15min 1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA HiSeq X Ten   SRP193814     IM15min_1_S91_L004_R1_001.fastq.gz IM15min_1_S91_L004_R2_001.fastq.gz fastq fastq 5908953744.0 19566072.0 IM15min 1 S91 L004 R1 001.fastq.gz 0:151 1:151 A:1720180168;C:1223518369;G:1218504877;T:1746709378;N:40952 151 151     1720180168 1223518369 1218504877 1746709378 40952 SRX5733571 SRS4646935 SRA879464 Institute of Plant Protection and Agro-Products Safety|Anhui Academy of Agricultural Sciences Institute of Plant Protection and Agro-Products Safety 2 0.0 2e-05 0.0 0.0 1.0 0.99995   0.33333 151 151 T T mates < 9% mapping rate illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-01-25 Gastrula Embryo Whole Organism All anatomical structures
53815 53815 SRR10058763 SRX6792672 SRS5347942 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Pergo1   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Pergo1|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Pergo1 Pergo1 Pergo1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Pergo1_1.fq.gz Pergo1_2.fq.gz fastq fastq 9002685900.0 30008953.0 Pergo1 1.fq.gz 0:150 1:150 A:2284233380;C:2226407977;G:2221649755;T:2270297656;N:97132 150 150     2284233380 2226407977 2221649755 2270297656 97132 SRX6792672 SRS5347942 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96714 0.96683 0.06127 0.06067 0.65234 0.65228 0.48061 0.48752 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53816 53816 SRR10058764 SRX6792671 SRS5342237 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         SKF 3   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:SKF 3|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior SKF 3 SKF 3 SKF 3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     SKF-3_1.fq.gz SKF-3_2.fq.gz fastq fastq 14661769500.0 48872565.0 SKF 3 1.fq.gz 0:150 1:150 A:3937397776;C:3334662769;G:3380870222;T:4008782272;N:56461 150 150     3937397776 3334662769 3380870222 4008782272 56461 SRX6792671 SRS5342237 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.90936 0.91169 0.31821 0.31486 0.67969 0.6776 0.48901 0.51959 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53817 53817 SRR10058765 SRX6792670 SRS5347941 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         SKF 2   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:SKF 2|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior SKF 2 SKF 2 SKF 2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     SKF-2_1.fq.gz SKF-2_2.fq.gz fastq fastq 8584608600.0 28615362.0 SKF 2 1.fq.gz 0:150 1:150 A:2190848961;C:2110188590;G:2105319611;T:2178159388;N:92050 150 150     2190848961 2110188590 2105319611 2178159388 92050 SRX6792670 SRS5347941 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96298 0.96428 0.07022 0.06999 0.66586 0.66576 0.49629 0.49865 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53818 53818 SRR10058766 SRX6792669 SRS5347940 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         SKF 1   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:SKF 1|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior SKF 1 SKF 1 SKF 1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     SKF-1_1.fq.gz SKF-1_2.fq.gz fastq fastq 7471998900.0 24906663.0 SKF 1 1.fq.gz 0:150 1:150 A:1880536881;C:1862845911;G:1858908452;T:1869637439;N:70217 150 150     1880536881 1862845911 1858908452 1869637439 70217 SRX6792669 SRS5347940 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96901 0.96871 0.05532 0.05544 0.65904 0.65894 0.48946 0.48751 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53819 53819 SRR10058767 SRX6792668 SRS5347939 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Quin3   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Quin3|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Quin3 Quin3 Quin3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Quin3_1.fq.gz Quin3_2.fq.gz fastq fastq 14645873100.0 48819577.0 Quin3 1.fq.gz 0:150 1:150 A:3986492509;C:3283441590;G:3316949430;T:4058929665;N:59906 150 150     3986492509 3283441590 3316949430 4058929665 59906 SRX6792668 SRS5347939 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.9071 0.90804 0.3399 0.33683 0.67758 0.67724 0.51087 0.49518 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53820 53820 SRR10058768 SRX6792667 SRS5347938 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Quin2   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Quin2|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Quin2 Quin2 Quin2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Quin2_1.fq.gz Quin2_2.fq.gz fastq fastq 9289020900.0 30963403.0 Quin2 1.fq.gz 0:150 1:150 A:2348828792;C:2301471992;G:2299623749;T:2338994402;N:101965 150 150     2348828792 2301471992 2299623749 2338994402 101965 SRX6792667 SRS5347938 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96648 0.96637 0.06071 0.06073 0.66446 0.66436 0.48911 0.47686 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53821 53821 SRR10058769 SRX6792666 SRS5347937 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Quin1   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Quin1|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Quin1 Quin1 Quin1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Quin1_1.fq.gz Quin1_2.fq.gz fastq fastq 8755971600.0 29186572.0 Quin1 1.fq.gz 0:150 1:150 A:2209816345;C:2178196217;G:2171101510;T:2196773777;N:83751 150 150     2209816345 2178196217 2171101510 2196773777 83751 SRX6792666 SRS5347937 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96841 0.96756 0.05302 0.05335 0.66074 0.66078 0.49161 0.49384 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53822 53822 SRR10058770 SRX6792665 SRS5347936 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Ctrl3   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Ctrl3|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Ctrl3 Ctrl3 Ctrl3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Ctrl3_1.fq.gz Ctrl3_2.fq.gz fastq fastq 13333115100.0 44443717.0 Ctrl3 1.fq.gz 0:150 1:150 A:3663866868;C:2958056073;G:2996299917;T:3714839596;N:52646 150 150     3663866868 2958056073 2996299917 3714839596 52646 SRX6792665 SRS5347936 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.9054 0.90452 0.34186 0.33625 0.68688 0.68901 0.51459 0.52947 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53823 53823 SRR10058771 SRX6792664 SRS5347935 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Pergo3   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Pergo3|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Pergo3 Pergo3 Pergo3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Pergo3_1.fq.gz Pergo3_2.fq.gz fastq fastq 13378423200.0 44594744.0 Pergo3 1.fq.gz 0:150 1:150 A:3687711524;C:2955636415;G:2993079641;T:3741929479;N:66141 150 150     3687711524 2955636415 2993079641 3741929479 66141 SRX6792664 SRS5347935 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.90395 0.90344 0.35671 0.35076 0.67689 0.67872 0.49222 0.50635 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53824 53824 SRR10058772 SRX6792663 SRS5347934 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Pergo2   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Pergo2|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Pergo2 Pergo2 Pergo2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Pergo2_1.fq.gz Pergo2_2.fq.gz fastq fastq 9278075700.0 30926919.0 Pergo2 1.fq.gz 0:150 1:150 A:2361083573;C:2288684725;G:2285485113;T:2342723684;N:98605 150 150     2361083573 2288684725 2285485113 2342723684 98605 SRX6792663 SRS5347934 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96699 0.9663 0.0592 0.05931 0.66772 0.66821 0.49194 0.48092 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53825 53825 SRR10058773 SRX6792662 SRS5347933 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Ctrl2   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Ctrl2|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Ctrl2 Ctrl2 Ctrl2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Ctrl2_1.fq.gz Ctrl2_2.fq.gz fastq fastq 7872537000.0 26241790.0 Ctrl2 1.fq.gz 0:150 1:150 A:1997008540;C:1946908516;G:1946100439;T:1982448081;N:71424 150 150     1997008540 1946908516 1946100439 1982448081 71424 SRX6792662 SRS5347933 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96637 0.96595 0.06199 0.06138 0.65476 0.65608 0.48539 0.48386 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
53826 53826 SRR10058774 SRX6792661 SRS5347932 SRP220275 PRJNA563535 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior PRJNA563535 Other Dopamine is critical for neural circuit modulation and also affects behavior. Dopamine agonists have been used to treat multiple neurological disorders and lead to different clinical outcomes. However their effects on behavior and the underlying molecular mechanisms are unclear. In this study we used zebrafish as a model to study the effects of the dopamine agonists SKF 38393 quinpirole and pergolide on behavior and systematically analyzed their effects on molecular events with highresolution transcriptome analysis.         Ctrl1   strain:not collected|age:7 days|sex:pooled male and female|tissue:whole mount|treatment:Ctrl1|BioSampleModel:Model organism or animal                 Dopamine Agonists Have Differential Effects on Molecular Targets and Behavior Ctrl1 Ctrl1 Ctrl1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP220275     Ctrl1_1.fq.gz Ctrl1_2.fq.gz fastq fastq 9558337800.0 31861126.0 Ctrl1 1.fq.gz 0:150 1:150 A:2446095030;C:2346945383;G:2339486455;T:2425720301;N:90631 150 150     2446095030 2346945383 2339486455 2425720301 90631 SRX6792661 SRS5347932 SRA954969 Nantong University|Key Laboratory of Neuroregeneration of Jiangsu and Nantong University 2 0.96298 0.96276 0.07291 0.07308 0.67026 0.67115 0.49744 0.49884 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-09-03 Larval Larval Whole Organism All anatomical structures
58873 58873 SRR11509894 SRX8082006 SRS6450124 SRP255712 PRJNA623798 Single cell lineage tracing on endogenous scarring sites scLOESS PRJNA623798 Other Lineage recording of zebrafish embryogenesis reveals early cell fate commitment     1g cDNA library fetch from 10x Genomics Chromium Single Cell 3 Library was amplified by extra 15 cycles. and then split into 90 equal aliquots to amplify each target by 25 cycles and purified amplicons were pooled into an equimolar mixture. 3 independent replicates in total. Target specific Amplification of Single Cell cDNA Library SCC   strain:AB line|age:7dpf|dev stage:larvae|sex:not applicable|tissue:Whole organism|collection date:2018 07 26|BioSampleModel:Model organism or animal                 Single cell cDNA library Amplicon of zebrafish larva replicate 3 SCC replicate3 SCC replicate3 1g cDNA library fetch from 10x Genomics Chromium Single Cell 3 Library was amplified by extra 15 cycles. and then split into 90 equal aliquots to amplify each target by 25 cycles and purified amplicons were pooled into an equimolar mixture. PCR replicate 3.     AMPLICON TRANSCRIPTOMIC SINGLE CELL PCR PAIRED ILLUMINA HiSeq X Ten   SRP255712     SCC-replicate3_R1.fq.gz SCC-replicate3_R2.fq.gz fastq fastq 14811756300.0 49372521.0 SCC replicate3 R1.fq.gz 0:150 1:150 A:3255250699;C:3018244265;G:3088919277;T:5446140655;N:3201404 150 150     3255250699 3018244265 3088919277 5446140655 3201404 SRX8082006 SRS6450124 SRA1063780 Sun Yat- sen University|Life Sicence School Sun Yat- sen University 2 0.01015 0.97122 0.00049 0.00158 0.99841 0.97569 0.54867 0.48858 150 150 T B mate1 technical by mapping diff illumina hiseq_era unknown random_priming unknown sc single_cell_droplet 10x   China 2020-04-10 Larval Larval Whole Organism All anatomical structures
58874 58874 SRR11509895 SRX8082005 SRS6450124 SRP255712 PRJNA623798 Single cell lineage tracing on endogenous scarring sites scLOESS PRJNA623798 Other Lineage recording of zebrafish embryogenesis reveals early cell fate commitment     1g cDNA library fetch from 10x Genomics Chromium Single Cell 3 Library was amplified by extra 15 cycles. and then split into 90 equal aliquots to amplify each target by 25 cycles and purified amplicons were pooled into an equimolar mixture. 3 independent replicates in total. Target specific Amplification of Single Cell cDNA Library SCC   strain:AB line|age:7dpf|dev stage:larvae|sex:not applicable|tissue:Whole organism|collection date:2018 07 26|BioSampleModel:Model organism or animal                 Single cell cDNA library Amplicon of zebrafish larva replicate 2 SCC replicate2 SCC replicate2 1g cDNA library fetch from 10x Genomics Chromium Single Cell 3 Library was amplified by extra 15 cycles. and then split into 90 equal aliquots to amplify each target by 25 cycles and purified amplicons were pooled into an equimolar mixture. PCR replicate 2.     AMPLICON TRANSCRIPTOMIC SINGLE CELL PCR PAIRED ILLUMINA HiSeq X Ten   SRP255712     SCC-replicate2_R2.fq.gz SCC-replicate2_R1.fq.gz fastq fastq 19858547700.0 66195159.0 SCC replicate2 R1.fq.gz 0:150 1:150 A:4363166112;C:4066433314;G:4155737160;T:7269480395;N:3730719 150 150     4363166112 4066433314 4155737160 7269480395 3730719 SRX8082005 SRS6450124 SRA1063780 Sun Yat- sen University|Life Sicence School Sun Yat- sen University 2 0.025 0.97152 0.00079 0.00143 0.99746 0.97668 0.74358 0.46727 150 150 T B mate1 technical by mapping diff illumina hiseq_era unknown random_priming unknown sc single_cell_droplet 10x   China 2020-04-09 Larval Larval Whole Organism All anatomical structures
58875 58875 SRR11509896 SRX8082004 SRS6450124 SRP255712 PRJNA623798 Single cell lineage tracing on endogenous scarring sites scLOESS PRJNA623798 Other Lineage recording of zebrafish embryogenesis reveals early cell fate commitment     1g cDNA library fetch from 10x Genomics Chromium Single Cell 3 Library was amplified by extra 15 cycles. and then split into 90 equal aliquots to amplify each target by 25 cycles and purified amplicons were pooled into an equimolar mixture. 3 independent replicates in total. Target specific Amplification of Single Cell cDNA Library SCC   strain:AB line|age:7dpf|dev stage:larvae|sex:not applicable|tissue:Whole organism|collection date:2018 07 26|BioSampleModel:Model organism or animal                 Single cell cDNA library Amplicon of zebrafish larva replicate 1 SCC replicate1 SCC replicate1 1g cDNA library fetch from 10x Genomics Chromium Single Cell 3 Library was amplified by extra 15 cycles. and then split into 90 equal aliquots to amplify each target by 25 cycles and purified amplicons were pooled into an equimolar mixture. PCR replicate 1.     AMPLICON TRANSCRIPTOMIC SINGLE CELL PCR PAIRED ILLUMINA HiSeq X Ten   SRP255712     SCC-replicate1_R1.fq.gz SCC-replicate1_R2.fq.gz fastq fastq 18191440200.0 60638134.0 SCC replicate1 R1.fq.gz 0:150 1:150 A:3994446536;C:3726446852;G:3814798796;T:6652431833;N:3316183 150 150     3994446536 3726446852 3814798796 6652431833 3316183 SRX8082004 SRS6450124 SRA1063780 Sun Yat- sen University|Life Sicence School Sun Yat- sen University 2 0.03094 0.97334 0.00045 0.00127 0.99774 0.97824 0.80981 0.45378 150 150 T B mate1 technical by mapping diff illumina hiseq_era unknown random_priming unknown sc single_cell_droplet 10x   China 2020-04-09 Larval Larval Whole Organism All anatomical structures
60663 60663 SRR12474622 SRX8968760 SRS7224497 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome Satb2 Momix BR3 RNAseq Dome Satb2 Momix Rep3   strain:TU|isolate:Satb2 MO|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome Satb2 Momix Rep3|BioSampleModel:Model organism or animal                 RNAseq Dome Satb2 Momix BR3 RNAseq Dome Satb2 Momix Rep3 RNAseq Dome Satb2 Momix Rep3 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_Satb2_Momix_Rep3_1.fastq.gz RNAseq_Dome_Satb2_Momix_Rep3_2.fastq.gz fastq fastq 3361844590.0 16642795.0 RNAseq Dome Satb2 Momix Rep3 1.fastq.gz 0:101 1:101 A:869743850;C:802603242;G:821530754;T:867100787;N:865957 101 101     869743850 802603242 821530754 867100787 865957 SRX8968760 SRS7224497 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.91855 0.92581 0.09094 0.09187 0.73101 0.73048 0.50388 0.50453 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60664 60664 SRR12474623 SRX8968759 SRS7224496 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome Satb2 Momix BR2 RNAseq Dome Satb2 Momix Rep2   strain:TU|isolate:Satb2 MO|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome Satb2 Momix Rep2|BioSampleModel:Model organism or animal                 RNAseq Dome Satb2 Momix BR2 RNAseq Dome Satb2 Momix Rep2 RNAseq Dome Satb2 Momix Rep2 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_Satb2_Momix_Rep2_1.fastq.gz RNAseq_Dome_Satb2_Momix_Rep2_2.fastq.gz fastq fastq 2934600046.0 14527723.0 RNAseq Dome Satb2 Momix Rep2 1.fastq.gz 0:101 1:101 A:765684715;C:691595256;G:707084290;T:769474179;N:761606 101 101     765684715 691595256 707084290 769474179 761606 SRX8968759 SRS7224496 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.92974 0.93883 0.07845 0.0785 0.72592 0.72671 0.4882 0.48052 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60665 60665 SRR12474624 SRX8968758 SRS7224495 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome Satb2 Momix BR1 RNAseq Dome Satb2 Momix Rep1   strain:TU|isolate:Satb2 MO|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome Satb2 Momix Rep1|BioSampleModel:Model organism or animal                 RNAseq Dome Satb2 Momix BR1 RNAseq Dome Satb2 Momix Rep1 RNAseq Dome Satb2 Momix Rep1 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_Satb2_Momix_Rep1_1.fastq.gz RNAseq_Dome_Satb2_Momix_Rep1_2.fastq.gz fastq fastq 3277138112.0 16223456.0 RNAseq Dome Satb2 Momix Rep1 1.fastq.gz 0:101 1:101 A:872778487;C:759805575;G:793431784;T:850272274;N:849992 101 101     872778487 759805575 793431784 850272274 849992 SRX8968758 SRS7224495 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.86712 0.87683 0.07613 0.07571 0.72861 0.72851 0.48821 0.4932 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60666 60666 SRR12474625 SRX8968757 SRS7224494 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome SATB2OE BR3 RNAseq Dome SATB2OE Rep3   strain:TU|isolate:Satb2 OE|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome SATB2OE Rep3|BioSampleModel:Model organism or animal                 RNAseq Dome SATB2OE BR3 RNAseq Dome SATB2OE Rep3 RNAseq Dome SATB2OE Rep3 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_SATB2OE_Rep3_1.fastq.gz RNAseq_Dome_SATB2OE_Rep3_2.fastq.gz fastq fastq 3932925658.0 19469929.0 RNAseq Dome SATB2OE Rep3 1.fastq.gz 0:101 1:101 A:969363674;C:989972200;G:1028727316;T:943842306;N:1020162 101 101     969363674 989972200 1028727316 943842306 1020162 SRX8968757 SRS7224494 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.87672 0.88348 0.07881 0.08241 0.73598 0.73799 0.48902 0.48807 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60668 60668 SRR12474627 SRX8968755 SRS7224492 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome SATB2OE BR2 RNAseq Dome SATB2OE Rep2   strain:TU|isolate:Satb2 OE|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome SATB2OE Rep2|BioSampleModel:Model organism or animal                 RNAseq Dome SATB2OE BR2 RNAseq Dome SATB2OE Rep2 RNAseq Dome SATB2OE Rep2 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_SATB2OE_Rep2_1.fastq.gz RNAseq_Dome_SATB2OE_Rep2_2.fastq.gz fastq fastq 5012566774.0 24814687.0 RNAseq Dome SATB2OE Rep2 1.fastq.gz 0:101 1:101 A:1329690083;C:1162466478;G:1194766639;T:1324334003;N:1309571 101 101     1329690083 1162466478 1194766639 1324334003 1309571 SRX8968755 SRS7224492 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.90779 0.91925 0.08997 0.09054 0.73245 0.73285 0.50143 0.50253 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60669 60669 SRR12474628 SRX8968754 SRS7224491 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome SATB2OE BR1 RNAseq Dome SATB2OE Rep1   strain:TU|isolate:Satb2 OE|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome SATB2OE Rep1|BioSampleModel:Model organism or animal                 RNAseq Dome SATB2OE BR1 RNAseq Dome SATB2OE Rep1 RNAseq Dome SATB2OE Rep1 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_SATB2OE_Rep1_1.fastq.gz RNAseq_Dome_SATB2OE_Rep1_2.fastq.gz fastq fastq 5667842654.0 28058627.0 RNAseq Dome SATB2OE Rep1 1.fastq.gz 0:101 1:101 A:1470862858;C:1348889787;G:1384691739;T:1461925766;N:1472504 101 101     1470862858 1348889787 1384691739 1461925766 1472504 SRX8968754 SRS7224491 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.8923 0.89975 0.09014 0.09148 0.72961 0.73018 0.49697 0.49398 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60670 60670 SRR12474629 SRX8968753 SRS7224490 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome Ctrl BR3 RNAseq Dome Ctrl Rep3   strain:TU|isolate:wild type|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome Ctrl Rep3|BioSampleModel:Model organism or animal                 RNAseq Dome Ctrl BR3 RNAseq Dome Ctrl Rep3 RNAseq Dome Ctrl Rep3 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_Ctrl_Rep3_1.fastq.gz RNAseq_Dome_Ctrl_Rep3_2.fastq.gz fastq fastq 3619381056.0 17917728.0 RNAseq Dome Ctrl Rep3 1.fastq.gz 0:101 1:101 A:977482131;C:821300041;G:834249032;T:985397638;N:952214 101 101     977482131 821300041 834249032 985397638 952214 SRX8968753 SRS7224490 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.91632 0.92433 0.09683 0.09564 0.73537 0.73799 0.49923 0.50181 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60671 60671 SRR12474630 SRX8968752 SRS7224489 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome Ctrl BR2 RNAseq Dome Ctrl Rep2   strain:TU|isolate:wild type|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome Ctrl Rep2|BioSampleModel:Model organism or animal                 RNAseq Dome Ctrl BR2 RNAseq Dome Ctrl Rep2 RNAseq Dome Ctrl Rep2 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_Ctrl_Rep2_1.fastq.gz RNAseq_Dome_Ctrl_Rep2_2.fastq.gz fastq fastq 2882618780.0 14270390.0 RNAseq Dome Ctrl Rep2 1.fastq.gz 0:101 1:101 A:736686360;C:696407092;G:718043942;T:730729062;N:752324 101 101     736686360 696407092 718043942 730729062 752324 SRX8968752 SRS7224489 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.92367 0.92987 0.07794 0.07957 0.73478 0.73661 0.47535 0.48496 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
60672 60672 SRR12474631 SRX8968751 SRS7224488 SRP278034 PRJNA657343 Satb2 acts as a gatekeeper for gene regulatory transitions during early embryonic development PRJNA657343 Other Comprehensive integration of transcriptome genome wide occupancy and chromatin accessibility profiles in satb2 loss of function and gain of function systems to discover novel and evolutionary conserved molecular interplays between Satb2 and the genetic drivers of neurogenesis and neural crest development program.       RNAseq Dome Ctrl BR1 RNAseq Dome Ctrl Rep1   strain:TU|isolate:wild type|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:4.5 hpf|dev stage:Dome|sex:not applicable|tissue:whole embryo|Replicate:replicate=Dome Ctrl Rep1|BioSampleModel:Model organism or animal                 RNAseq Dome Ctrl BR1 RNAseq Dome Ctrl Rep1 RNAseq Dome Ctrl Rep1 poly A isolation     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP278034     RNAseq_Dome_Ctrl_Rep1_1.fastq.gz RNAseq_Dome_Ctrl_Rep1_2.fastq.gz fastq fastq 3066868232.0 15182516.0 RNAseq Dome Ctrl Rep1 1.fastq.gz 0:101 1:101 A:814702248;C:724322109;G:749291283;T:777765989;N:786603 101 101     814702248 724322109 749291283 777765989 786603 SRX8968751 SRS7224488 SRA1114017 IISER-PUNE|biology IISER-PUNE 2 0.84929 0.85565 0.07483 0.07587 0.74057 0.74081 0.4888 0.49236 101 101 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   India 2020-08-19 Blastula Embryo Whole Organism All anatomical structures
62470 62470 SRR13203215 SRX9636468 SRS7836318 SRP296520 PRJNA682774 starvation induced hepatic steatosis PRJNA682774 Other A Model Construction of Starvation Induces Hepatic Steatosis and Transcriptome Analysis in Zebrafish larvae         fs   strain:AB line|isolate:F0|breed:animals|cultivar:fish|ecotype:normal|age:5 dpf|dev stage:larval stage|sex:n1|tissue:whole fish|BioSampleModel:Model organism or animal                 starvation induced heaptic steatosis MJ20200831181 MJ20200831181 normal fed vs fast     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP296520     f1.R1.fastq.gz f1.R2.fastq.gz f2.R1.fastq.gz f2.R2.fastq.gz f3.R1.fastq.gz f3.R2.fastq.gz s1.R1.fastq.gz s1.R2.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 29129211888.0 96454344.0 f1.R1.fastq.gz 0:151 1:151 A:7606018564;C:6909639030;G:7057191016;T:7555822038;N:541240 151 151     7606018564 6909639030 7057191016 7555822038 541240 SRX9636468 SRS7836318 SRA1167521 Southwest University|College of Fisheries Southwest University 2 0.94626 0.94685 0.0543 0.05418 0.70609 0.70457 0.53227 0.53524 151 151 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-12-06 Larval Larval Whole Organism All anatomical structures
62475 62475 SRR13221789 SRX9654237 SRS7853434 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         LKO2   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:LAL KO|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio LKO2 LKO2 Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     LKO2_R1.fastq.gz LKO2_R2.fastq.gz fastq fastq 6036272700.0 20120909.0 LKO2 R1.fastq.gz 0:150 1:150 A:1601206536;C:1418087701;G:1426655325;T:1590179237;N:143901 150 150     1601206536 1418087701 1426655325 1590179237 143901 SRX9654237 SRS7853434 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.94664 0.94241 0.07651 0.07615 0.6608 0.66567 0.45863 0.4577 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62476 62476 SRR13221790 SRX9654236 SRS7853433 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         LKO1   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:lal knockout|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio LKO1 LKO1 Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     LKO1_R1.fastq.gz LKO1_R2.fastq.gz fastq fastq 6640716000.0 22135720.0 LKO1 R1.fastq.gz 0:150 1:150 A:1756949709;C:1564569001;G:1580752460;T:1738424371;N:20459 150 150     1756949709 1564569001 1580752460 1738424371 20459 SRX9654236 SRS7853433 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.95033 0.94458 0.07707 0.07686 0.65835 0.6591 0.47143 0.47082 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62477 62477 SRR13221791 SRX9654235 SRS7853432 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         WT2L   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:Wildtype|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio WT2L WT2L Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     WT2L_R1.fastq.gz WT2L_R2.fastq.gz fastq fastq 6956682300.0 23188941.0 WT2L R1.fastq.gz 0:150 1:150 A:1840614101;C:1638232524;G:1657443860;T:1820370318;N:21497 150 150     1840614101 1638232524 1657443860 1820370318 21497 SRX9654235 SRS7853432 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.95135 0.94558 0.07516 0.07485 0.66403 0.66505 0.47807 0.47628 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62478 62478 SRR13221792 SRX9654234 SRS7853431 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         WT1L   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:WT|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio WT1L WT1L Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     WT1L_R1.fastq.gz WT1L_R2.fastq.gz fastq fastq 6656937600.0 22189792.0 WT1L R1.fastq.gz 0:150 1:150 A:1774798990;C:1555136438;G:1570885194;T:1756096008;N:20970 150 150     1774798990 1555136438 1570885194 1756096008 20970 SRX9654234 SRS7853431 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.94852 0.94252 0.09019 0.0895 0.65374 0.6546 0.46386 0.46519 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62479 62479 SRR13221793 SRX9654233 SRS7853430 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         AKO2   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:Atgl KO|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio AKO2 AKO2 Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     AKO2_R1.fastq.gz AKO2_R2.fastq.gz fastq fastq 7159005600.0 23863352.0 AKO2 R1.fastq.gz 0:150 1:150 A:1899574066;C:1686063701;G:1700099039;T:1873246610;N:22184 150 150     1899574066 1686063701 1700099039 1873246610 22184 SRX9654233 SRS7853430 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.94503 0.94035 0.07309 0.07271 0.66699 0.66691 0.49612 0.50397 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62480 62480 SRR13221794 SRX9654232 SRS7853429 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         AKO1   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:atgl knockout|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio AKO1 AKO1 Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     AKO1_R1.fastq.gz AKO1_R2.fastq.gz fastq fastq 6731721000.0 22439070.0 AKO1 R1.fastq.gz 0:150 1:150 A:1745882460;C:1610945656;G:1625370653;T:1749501333;N:20898 150 150     1745882460 1610945656 1625370653 1749501333 20898 SRX9654232 SRS7853429 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.93222 0.93219 0.02488 0.02484 0.71652 0.71612 0.47921 0.47343 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62481 62481 SRR13221795 SRX9654231 SRS7853428 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         WT2   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:wildtype|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio WT2 WT2 Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     WT2_R1.fastq.gz WT2_R2.fastq.gz fastq fastq 6119265600.0 20397552.0 WT2 R1.fastq.gz 0:150 1:150 A:1619238473;C:1443680669;G:1457083041;T:1599244276;N:19141 150 150     1619238473 1443680669 1457083041 1599244276 19141 SRX9654231 SRS7853428 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.94166 0.93671 0.06976 0.06929 0.68635 0.68807 0.49396 0.49711 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures
62482 62482 SRR13221796 SRX9654230 SRS7853427 SRP297176 PRJNA683669 Transcriptional regulation of AKO and LKO in zebrafish. PRJNA683669 Other The RNA for sequencing was collected from six RNA samples per treatment WT/AKO and WT/LKO male zebrafish.         WT1   breed:zebrafish|age:4 mpf|sex:male|tissue:whole fish|genotype:wt|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio WT1 WT1 Transcriptome sequencing was conducted by using Illumina HiSeq 2500 according to the manufacturer's instructions. post filtering out low quality reads the remaining clean reads were assembled and mapped to the zebrafish reference genome.     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP297176     WT1_R1.fastq.gz WT1_R2.fastq.gz fastq fastq 7607982300.0 25359941.0 WT1 R1.fastq.gz 0:150 1:150 A:1998356357;C:1800668862;G:1820187726;T:1988746210;N:23145 150 150     1998356357 1800668862 1820187726 1988746210 23145 SRX9654230 SRS7853427 SRA1169092 LANEH|School of Life Sciences, East China Normal Univers LANEH 2 0.94407 0.93934 0.06239 0.06217 0.69404 0.69522 0.53015 0.52721 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   Unknown 2020-12-09 Adult Adult Whole Organism All anatomical structures

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;