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96 rows where experiment.library_selection = "PolyA", experiment.library_strategy = "RNA-Seq" and tissue_curation_coarse = "Reproductive System"

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devstage_curation_coarse 4

devstage_curation 4

technology 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Reproductive System · 96 ✖

tissue_curation 1

experiment.platform 1

experiment.library_strategy 1

  • RNA-Seq · 96 ✖

experiment.library_source 1

experiment.library_selection 1

  • PolyA · 96 ✖
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
174 174 DRR084198 DRX078029 DRS086523 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo testosterone treatment zebrafish ovary isolated from adult fish in vivo testoster1 treatment. [RNAseq replicate2] SAMD00073605   sample name:TES1 4th|replicate:biological replicate 2                 Illumina HiSeq 2500 sequencing of SAMD00073605 DRX078029 zebrafish ovary isolated from adult fish in vivo testosterone treatment. [RNAseq replicate2] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073605       1382763132.0 38410087.0 DRR084198 0:36 A:314367195;C:333340483;G:353519828;T:378654329;N:2881297 36       314367195 333340483 353519828 378654329 2881297 DRX078029 DRS086523 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.90366   0.02033   0.77104   0.46543   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
176 176 DRR084196 DRX078027 DRS086521 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo ethanol treatment zebrafish ovary isolated from adult fish in vivo ethanol treatment. [RNAseq replicate2] SAMD00073603   sample name:Et 4th|replicate:biological replicate 2                 Illumina HiSeq 2500 sequencing of SAMD00073603 DRX078027 zebrafish ovary isolated from adult fish in vivo ethanol treatment. [RNAseq replicate2] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073603       1456791660.0 40466435.0 DRR084196 0:36 A:336533534;C:355126203;G:368021063;T:394179246;N:2931614 36       336533534 355126203 368021063 394179246 2931614 DRX078027 DRS086521 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.89408   0.02082   0.77027   0.45866   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
177 177 DRR084195 DRX078026 DRS086520 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     natural paring late sample zebrafish ovary isolated from adult fish natural paring ovulation. [RNAseq replicate2] SAMD00073602   sample name:O 4th|replicate:biological replicate 2                 Illumina HiSeq 2500 sequencing of SAMD00073602 DRX078026 zebrafish ovary isolated from adult fish natural paring ovulation. [RNAseq replicate2] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073602       1627945092.0 45220697.0 DRR084195 0:36 A:381205209;C:392853175;G:410714269;T:439790560;N:3381879 36       381205209 392853175 410714269 439790560 3381879 DRX078026 DRS086520 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.89419   0.02159   0.76848   0.46407   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
178 178 DRR084194 DRX078025 DRS086519 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo maturation inducing hormone DHP treatment zebrafish ovary isolated from adult fish in vivo maturation inducing horm1 DHP treatment. [RNAseq replicate2] SAMD00073601   sample name:DHP 4th|replicate:biological replicate 2                 Illumina HiSeq 2500 sequencing of SAMD00073601 DRX078025 zebrafish ovary isolated from adult fish in vivo maturation inducing hormone DHP treatment. [RNAseq replicate2] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073601       969680196.0 26935561.0 DRR084194 0:36 A:223558856;C:233793515;G:244712298;T:265549055;N:2066472 36       223558856 233793515 244712298 265549055 2066472 DRX078025 DRS086519 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.90178   0.02203   0.76579   0.46491   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
179 179 DRR084193 DRX078024 DRS086518 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo diethylstilbestrol DES treatment zebrafish ovary isolated from adult fish in vivo diethylstilbestrol DES treatment. [RNAseq replicate2] SAMD00073600   sample name:DES 4th|replicate:biological replicate 2                 Illumina HiSeq 2500 sequencing of SAMD00073600 DRX078024 zebrafish ovary isolated from adult fish in vivo diethylstilbestrol DES treatment. [RNAseq replicate2] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073600       825301296.0 22925036.0 DRR084193 0:36 A:189771874;C:198593952;G:209666041;T:225480165;N:1789264 36       189771874 198593952 209666041 225480165 1789264 DRX078024 DRS086518 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.90036   0.0197   0.7721   0.45773   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
180 180 DRR084192 DRX078023 DRS086517 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     natural paring late sample zebrafish ovary isolated from adult fish natural paring ovulation. [RNAseq replicate1] SAMD00073599   sample name:O|replicate:biological replicate 1                 Illumina HiSeq 2500 sequencing of SAMD00073599 DRX078023 zebrafish ovary isolated from adult fish natural paring ovulation. [RNAseq replicate1] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073599       1474870356.0 40968621.0 DRR084192 0:36 A:334130826;C:361572335;G:369758908;T:409173431;N:234856 36       334130826 361572335 369758908 409173431 234856 DRX078023 DRS086517 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.91516   0.02086   0.76792   0.47914   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
182 182 DRR084190 DRX078021 DRS086515 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo maturation inducing hormone DHP treatment zebrafish ovary isolated from adult fish in vivo maturation inducing horm1 DHP treatment. [RNAseq replicate1] SAMD00073597   sample name:DHP|replicate:biological replicate 1                 Illumina HiSeq 2500 sequencing of SAMD00073597 DRX078021 zebrafish ovary isolated from adult fish in vivo maturation inducing hormone DHP treatment. [RNAseq replicate1] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073597       1527194556.0 42422071.0 DRR084190 0:36 A:352068936;C:371030475;G:383086948;T:420761508;N:246689 36       352068936 371030475 383086948 420761508 246689 DRX078021 DRS086515 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.91815   0.02248   0.76209   0.46867   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
183 183 DRR084189 DRX078020 DRS086514 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo testosterone treatment zebrafish ovary isolated from adult fish in vivo testoster1 treatment. [RNAseq replicate1] SAMD00073596   sample name:TES|replicate:biological replicate 1                 Illumina HiSeq 2500 sequencing of SAMD00073596 DRX078020 zebrafish ovary isolated from adult fish in vivo testosterone treatment. [RNAseq replicate1] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073596       1403618796.0 38989411.0 DRR084189 0:36 A:321063874;C:342718133;G:352434647;T:387171455;N:230687 36       321063874 342718133 352434647 387171455 230687 DRX078020 DRS086514 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.91583   0.02212   0.76073   0.47596   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
184 184 DRR084188 DRX078019 DRS086513 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo diethylstilbestrol DES treatment zebrafish ovary isolated from adult fish in vivo diethylstilbestrol DES treatment. [RNAseq replicate1] SAMD00073595   sample name:DES|replicate:biological replicate 1                 Illumina HiSeq 2500 sequencing of SAMD00073595 DRX078019 zebrafish ovary isolated from adult fish in vivo diethylstilbestrol DES treatment. [RNAseq replicate1] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073595       1532053512.0 42557042.0 DRR084188 0:36 A:342701220;C:372650449;G:392432461;T:424025702;N:243680 36       342701220 372650449 392432461 424025702 243680 DRX078019 DRS086513 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.91276   0.01965   0.77358   0.46461   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
185 185 DRR084187 DRX078018 DRS086512 DRP004758 PRJDB5490 Fine selection of up regulated genes duirng ovulation by in vivo induction of oocyte maturation and ovulation in zebrafish DRP004758 Other Two essential processes oocyte maturation and ovulation before oocytes become fertilizable that are independently induced but co operatively proceeded at the final step in oogenesis. Eventhough these two processes are induced by same maturation inducing steroid 17 20 beta dihydroxy 4 pregnen 3 one 17 20 beta DHP in teleost the receptor for each pathway is suggested to be different and thus signal transduction pathways are different. While much progresses achieved on the molecular mechanisms for induction of oocyte maturation the mechanisms to induce ovulation is under elucidation. Previously we established the procedure that can make it possible to prepare the ovarian tissue which contains oocyte maturation induced oocytes in vivo. In the same way ovulation can be induced in alive zebrafish. Thus it became possible to select the genes up regulated according to ovulation by compare the gene expression between maturation inducing genes in matured oocytes and both maturation and ovulation inducing genes in ovulated eggs. In vivo bioassay has been applied to prepare maturated and ovulated ovarian samples. Specifically up regulated genes to induce ovulation will be selected by RNA seq analysis. The mRNA abundance of highly up regulated genes will be confirmed by q PCR analysis. By this project ovulation inducing genes will be selected and its roles in induction of ovulation will be addressed in the future.     in vivo ethanol treatment zebrafish ovary isolated from adult fish in vivo ethanol treatment. [RNAseq replicate1] SAMD00073594   sample name:EtOH|replicate:biological replicate 1                 Illumina HiSeq 2500 sequencing of SAMD00073594 DRX078018 zebrafish ovary isolated from adult fish in vivo ethanol treatment. [RNAseq replicate1] 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004758 Illumina HiSeq 2500 sequencing of SAMD00073594       1152032724.0 32000909.0 DRR084187 0:36 A:265166034;C:279617628;G:285136940;T:321928656;N:183466 36       265166034 279617628 285136940 321928656 183466 DRX078018 DRS086512 DRA005484 SHIZUOKA|Shizuoka University Shizuoka University 1 0.90791   0.02405   0.75972   0.48931   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Gonad Reproductive System
29187 29187 SRR8176747 SRX4996876 SRS4031879 SRP480945 PRJNA1055160 Single cell RNA seq of Juvenile Zebrafish Gonads from the Nadia Strain PRJNA1055160 Other We used single cell RNA Seq 10x Genomics Chromium to profile the transcriptomes of undifferentiated ZZ and ZW gonads at 19 dpf and immature ZZ and ZW gonads at 30 dpf   pubmed:38529407   Nadia 19dpf ZZ Gonad Single Cell RNA Seq Nadia 19dpf ZZ Gonad Single Cell RNA Seq   strain:Nadia|age:19 dpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 scRNA Seq of Danio rerio: Nadia 19dpf ZZ gonad Nadia 19dpf ZZ gonad Nadia 19dpf ZZ gonad A single cell suspension was prepared from the pooled gonads of five individuals. The sequencing library was prepared with the Chromium Single Cell 3 Library & Gel Bead Kit v2 10x Genomics.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP480945   loader:fastq load.py     15090036999.0 107021539.0 zz 19NAmale I1 001.fastq.gz 0:8 1:133 A:4154103253;C:3402890354;G:3765557416;T:3755723849;N:11762127 8 133     4154103253 3402890354 3765557416 3755723849 11762127 SRX4996876 SRS4031879 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon                       T B sc-like readlen illumina nextseq unknown poly_a unknown sc single_cell_droplet 10x   United States 2018-11-08 Larval Larval Gonad Reproductive System
29188 29188 SRR8176753 SRX4996870 SRS4031878 SRP480945 PRJNA1055160 Single cell RNA seq of Juvenile Zebrafish Gonads from the Nadia Strain PRJNA1055160 Other We used single cell RNA Seq 10x Genomics Chromium to profile the transcriptomes of undifferentiated ZZ and ZW gonads at 19 dpf and immature ZZ and ZW gonads at 30 dpf   pubmed:38529407   Nadia 30dpf ZZ Gonad Single Cell RNA Seq Nadia 30dpf ZZ Gonad Single Cell RNA Seq   strain:Nadia|age:30 dpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 scRNA Seq of Danio rerio: Nadia 30dpf ZZ gonad Nadia 30dpf ZZ gonad Nadia 30dpf ZZ gonad A single cell suspension was prepared from the pooled gonads of five individuals. The sequencing library was prepared with the Chromium Single Cell 3 Library & Gel Bead Kit v2 10x Genomics.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP480945   loader:fastq load.py     23587173438.0 167284918.0 1 I1 001.fastq.gz 0:8 1:133 A:6732844252;C:4934497997;G:5685086026;T:6219863789;N:14881374 8 133     6732844252 4934497997 5685086026 6219863789 14881374 SRX4996870 SRS4031878 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon                       T B sc-like readlen illumina nextseq unknown poly_a unknown sc single_cell_droplet 10x   United States 2018-11-08 Juvenile Juvenile Gonad Reproductive System
29189 29189 SRR8176754 SRX4996869 SRS4031877 SRP480945 PRJNA1055160 Single cell RNA seq of Juvenile Zebrafish Gonads from the Nadia Strain PRJNA1055160 Other We used single cell RNA Seq 10x Genomics Chromium to profile the transcriptomes of undifferentiated ZZ and ZW gonads at 19 dpf and immature ZZ and ZW gonads at 30 dpf   pubmed:38529407   Nadia 30dpf ZW Gonad Single Cell RNA Seq Nadia 30dpf ZW Gonad Single Cell RNA Seq   strain:Nadia|age:30 dpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 scRNA Seq of Danio rerio: Nadia 30dpf ZW gonad Nadia 30dpf ZW gonad Nadia 30dpf ZW gonad A single cell suspension was prepared from the pooled gonads of five individuals. The sequencing library was prepared with the Chromium Single Cell 3 Library & Gel Bead Kit v2 10x Genomics.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP480945   loader:fastq load.py     43358808480.0 307509280.0 2 I1 001.fastq.gz 0:8 1:133 A:12290612367;C:8880655083;G:10261318751;T:11898771792;N:27450487 8 133     12290612367 8880655083 10261318751 11898771792 27450487 SRX4996869 SRS4031877 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon                       T B sc-like readlen illumina nextseq unknown poly_a unknown sc single_cell_droplet 10x   United States 2018-11-08 Juvenile Juvenile Gonad Reproductive System
29190 29190 SRR8176756 SRX4996867 SRS4031876 SRP480945 PRJNA1055160 Single cell RNA seq of Juvenile Zebrafish Gonads from the Nadia Strain PRJNA1055160 Other We used single cell RNA Seq 10x Genomics Chromium to profile the transcriptomes of undifferentiated ZZ and ZW gonads at 19 dpf and immature ZZ and ZW gonads at 30 dpf   pubmed:38529407   Nadia 19dpf ZW Gonad Single Cell RNA Seq Nadia 19dpf ZW Gonad Single Cell RNA Seq   strain:Nadia|age:19 dpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 scRNA Seq of Danio rerio: Nadia 19dpf ZW gonad Nadia 19dpf ZW gonad Nadia 19dpf ZW gonad A single cell suspension was prepared from the pooled gonads of five individuals. The sequencing library was prepared with the Chromium Single Cell 3 Library & Gel Bead Kit v2 10x Genomics.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP480945   loader:fastq load.py     17141425554.0 121570394.0 zw 19NAfem I1 001.fastq.gz 0:8 1:133 A:4656207219;C:3824531650;G:4322736498;T:4324676442;N:13273745 8 133     4656207219 3824531650 4322736498 4324676442 13273745 SRX4996867 SRS4031876 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon                       T B sc-like readlen illumina nextseq unknown poly_a unknown sc single_cell_droplet 10x   United States 2018-11-08 Larval Larval Gonad Reproductive System
35501 35501 SRR32847793 SRX28130287 SRS24485200 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 10 4   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:10 μg/L neburon 0.01% DMSO|replicate:replicate=biological replicate 4|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 10 4 F0 10 4 neburon exposure     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_10_4_1.fq.gz F0_10_4_2.fq.gz fastq fastq 6497409000.0 21658030.0 F0 10 4 1.fq.gz 0:150 1:150 A:1745298018;C:1515577060;G:1519077549;T:1717429364;N:27009 150 150     1745298018 1515577060 1519077549 1717429364 27009 SRX28130287 SRS24485200 SRA2099841 Xiamen University|School of Life Sciences Xiamen University                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35502 35502 SRR32847794 SRX28130286 SRS24485199 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 10 3   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:10 μg/L neburon 0.01% DMSO|replicate:replicate=biological replicate 3|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 10 3 F0 10 3 neburon exposure     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_10_3_1.fq.gz F0_10_3_2.fq.gz fastq fastq 6705529200.0 22351764.0 F0 10 3 1.fq.gz 0:150 1:150 A:1797300651;C:1567445869;G:1568865064;T:1771896545;N:21071 150 150     1797300651 1567445869 1568865064 1771896545 21071 SRX28130286 SRS24485199 SRA2099841 Xiamen University|School of Life Sciences Xiamen University                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35503 35503 SRR32847795 SRX28130285 SRS24485197 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 10 2   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:10 μg/L neburon 0.01% DMSO|replicate:replicate=biological replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 10 2 F0 10 2 neburon exposure     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_10_2_1.fq.gz F0_10_2_2.fq.gz fastq fastq 6823369200.0 22744564.0 F0 10 2 1.fq.gz 0:150 1:150 A:1828401463;C:1587866904;G:1591331453;T:1815741011;N:28369 150 150     1828401463 1587866904 1591331453 1815741011 28369 SRX28130285 SRS24485197 SRA2099841 Xiamen University|School of Life Sciences Xiamen University                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35504 35504 SRR32847796 SRX28130284 SRS24485198 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 10 1   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:10 μg/L neburon 0.01% DMSO|replicate:replicate=biological replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 10 1 F0 10 1 neburon exposure     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_10_1_1.fq.gz F0_10_1_2.fq.gz fastq fastq 6855193200.0 22850644.0 F0 10 1 1.fq.gz 0:150 1:150 A:1839056548;C:1598965863;G:1602365208;T:1814777552;N:28029 150 150     1839056548 1598965863 1602365208 1814777552 28029 SRX28130284 SRS24485198 SRA2099841 Xiamen University|School of Life Sciences Xiamen University 2 0.93021 0.93183 0.02479 0.02475 0.75824 0.75751 0.48861 0.48782 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35505 35505 SRR32847797 SRX28130283 SRS24485196 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 0 4   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:Solvent control 0.01% DMSO|replicate:replicate=biological replicate 4|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 0 4 F0 0 4 Solvent control     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_0_4_1.fq.gz F0_0_4_2.fq.gz fastq fastq 6202510200.0 20675034.0 F0 0 4 1.fq.gz 0:150 1:150 A:1638935187;C:1475225232;G:1473642403;T:1614681504;N:25874 150 150     1638935187 1475225232 1473642403 1614681504 25874 SRX28130283 SRS24485196 SRA2099841 Xiamen University|School of Life Sciences Xiamen University                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35506 35506 SRR32847798 SRX28130282 SRS24485195 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 0 3   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:Solvent control 0.01% DMSO|replicate:replicate=biological replicate 3|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 0 3 F0 0 3 Solvent control     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_0_3_1.fq.gz F0_0_3_2.fq.gz fastq fastq 6143312100.0 20477707.0 F0 0 3 1.fq.gz 0:150 1:150 A:1643045680;C:1434021639;G:1442426325;T:1623793440;N:25016 150 150     1643045680 1434021639 1442426325 1623793440 25016 SRX28130282 SRS24485195 SRA2099841 Xiamen University|School of Life Sciences Xiamen University 2 0.93524 0.93689 0.02456 0.02453 0.76053 0.76023 0.49883 0.49923 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35507 35507 SRR32847799 SRX28130281 SRS24485194 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 0 2   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:Solvent control 0.01% DMSO|replicate:replicate=biological replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 0 2 F0 0 2 Solvent control     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_0_2_1.fq.gz F0_0_2_2.fq.gz fastq fastq 6669509400.0 22231698.0 F0 0 2 1.fq.gz 0:150 1:150 A:1772820815;C:1570566452;G:1575974746;T:1750118680;N:28707 150 150     1772820815 1570566452 1575974746 1750118680 28707 SRX28130281 SRS24485194 SRA2099841 Xiamen University|School of Life Sciences Xiamen University 2 0.92506 0.92548 0.02275 0.02262 0.76319 0.76299 0.48685 0.48655 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
35508 35508 SRR32847800 SRX28130280 SRS24485193 SRP572931 PRJNA1241724 Evaluating the Effects of Neburon Exposure on Ovarian Folliculogenesis Using Zebrafish and Mouse Granulosa Cell Line PRJNA1241724 Other To explore the effect of neburon on the reproductive system of zebrafish females four ovaries of neburon and four ovaries of vehicle control were selected for transcriptome sequencing.         F0 0 1   strain:AB|age:150 dpf|collection date:2023 03 08|geo loc name:China:Wuhan|sex:female|tissue:ovaries|treatment:Solvent control 0.01% DMSO|replicate:replicate=biological replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of danio rerio: adult female ovary F0 0 1 F0 0 1 Solvent control     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP572931     F0_0_1_1.fq.gz F0_0_1_2.fq.gz fastq fastq 6741448200.0 22471494.0 F0 0 1 1.fq.gz 0:150 1:150 A:1773536677;C:1594948330;G:1605028745;T:1767907203;N:27245 150 150     1773536677 1594948330 1605028745 1767907203 27245 SRX28130280 SRS24485193 SRA2099841 Xiamen University|School of Life Sciences Xiamen University 2 0.88124 0.88271 0.02386 0.02384 0.76382 0.76351 0.48919 0.48949 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2025-03-25 Adult Adult Gonad Reproductive System
40708 40708 SRR3420428 SRX1660366 SRS1360334 SRP072296 PRJNA316313 Codon optimality and mRNA decay in zebrafish and Xenopus PRJNA316313 Other Cellular transitions require dramatic changes in gene expression that are supported by regulated mRNA decay and new transcription. The maternal to zygotic transition is a conserved developmental progression during which thousands of maternal mRNAs are cleared by posttranscriptional mechanisms. Although some maternal mRNAs are targeted for degradation by microRNAs this pathway does not fully explain mRNA clearance. Because the ribosome constitutes the main ribonucleoprotein complex decoding the mRNA we investigated how codon identity and translation affect mRNA stability during development and homeostasis. Using an in vivo selection strategy we show that the codon triplet contains translation dependent regulatory information that influences transcript decay. We find that codon composition shapes maternal mRNA clearance during the maternal to zygotic transition in zebrafish Xenopus mouse and Drosophila and gene expression during homeostasis across human tissues. Codon composition affects both polyadenylation status and translation efficiency. Thus the ribosome interprets two codes within the mRNA the genetic code which specifies the amino acid sequence and a conserved “codon optimality code” that shapes mRNA stability and translation efficiency across vertebrates.         AG01296 testis   strain:TUAB|age:adult|sex:pooled male and female|tissue:Testis|BioSampleModel:Model organism or animal                 AG01296 testis AG01296 testis 1 1     RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>75</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP072296     AG01296_SEQ0273_R1.fastq.gz fastq 708117840.0 9317340.0 AG01296 run 1 0:76 A:188728168;C:160744436;G:154540381;T:204071817;N:33038 76       188728168 160744436 154540381 204071817 33038 SRX1660366 SRS1360334 SRA395141 Yale University|Giraldez Lab Yale University 1 0.93648   0.13514   0.61302   0.4884   76   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2016-06-17 Adult Adult Gonad Reproductive System
50606 50606 SRR8176748 SRX4996875 SRS4031874 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Ovary RNA Seq Nadia Ovary RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZW ovary 6 Nadia ovary 6 Nadia ovary 6 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         2526133546.0 15988187.0 ovary6 TGAACTGG S7 R1 001.fastq.gz 0:79 1:79 A:657355119;C:595457526;G:623921016;T:649336614;N:63271 79 79     657355119 595457526 623921016 649336614 63271 SRX4996875 SRS4031874 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84475 0.83339 0.04288 0.04092 0.75603 0.75919 0.50123 0.5057 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50607 50607 SRR8176749 SRX4996874 SRS4031875 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Testis RNA Seq Nadia Testis RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZZ testis 11 Nadia testis 11 Nadia testis 11 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1721218820.0 10893790.0 testis11 TCGAGCGT S11 R1 001.fastq.gz 0:79 1:79 A:459108490;C:394396990;G:412251655;T:455420798;N:40887 79 79     459108490 394396990 412251655 455420798 40887 SRX4996874 SRS4031875 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83918 0.82807 0.15135 0.14675 0.65309 0.66011 0.53104 0.53739 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50608 50608 SRR8176750 SRX4996873 SRS4031875 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Testis RNA Seq Nadia Testis RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZZ testis 12 Nadia testis 12 Nadia testis 12 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         2309548884.0 14617398.0 testis12 CGATGTTT S12 R1 001.fastq.gz 0:79 1:79 A:619255750;C:527718671;G:550854739;T:611664017;N:55707 79 79     619255750 527718671 550854739 611664017 55707 SRX4996873 SRS4031875 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83656 0.82559 0.1791 0.17626 0.67409 0.68103 0.54375 0.54735 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50609 50609 SRR8176751 SRX4996872 SRS4031874 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Ovary RNA Seq Nadia Ovary RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZW ovary 4 Nadia ovary 4 Nadia ovary 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1349110334.0 8538673.0 ovary4 TGAAGCCA S6 R1 001.fastq.gz 0:79 1:79 A:351675915;C:318327782;G:333254253;T:345819219;N:33165 79 79     351675915 318327782 333254253 345819219 33165 SRX4996872 SRS4031874 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.85194 0.84255 0.04389 0.04124 0.75759 0.76075 0.49459 0.48855 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50610 50610 SRR8176752 SRX4996871 SRS4031875 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Testis RNA Seq Nadia Testis RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZZ testis 8 Nadia testis 8 Nadia testis 8 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1766900412.0 11182914.0 testis8 TCTGCTGT S9 R1 001.fastq.gz 0:79 1:79 A:472133204;C:404123547;G:423581171;T:467019329;N:43161 79 79     472133204 404123547 423581171 467019329 43161 SRX4996871 SRS4031875 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84005 0.8296 0.1457 0.14305 0.65675 0.66446 0.53125 0.52768 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50611 50611 SRR8176755 SRX4996868 SRS4031874 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Ovary RNA Seq Nadia Ovary RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZW ovary 3 Nadia ovary 3 Nadia ovary 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1092861036.0 6916842.0 ovary3 GGCTACAG S5 R1 001.fastq.gz 0:79 1:79 A:277743962;C:263618484;G:276634303;T:274839154;N:25133 79 79     277743962 263618484 276634303 274839154 25133 SRX4996868 SRS4031874 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.85299 0.84324 0.03814 0.03621 0.76128 0.76475 0.50823 0.50889 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50612 50612 SRR8176757 SRX4996866 SRS4031875 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Testis RNA Seq Nadia Testis RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZZ testis 7 Nadia testis 7 Nadia testis 7 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1567584992.0 9921424.0 testis7 GTACATCT S8 R1 001.fastq.gz 0:79 1:79 A:418694817;C:358272212;G:375519309;T:415060203;N:38451 79 79     418694817 358272212 375519309 415060203 38451 SRX4996866 SRS4031875 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83978 0.83023 0.13806 0.13491 0.65906 0.66645 0.52399 0.53148 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50613 50613 SRR8176758 SRX4996865 SRS4031875 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Testis RNA Seq Nadia Testis RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZZ|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZZ testis 9 Nadia testis 9 Nadia testis 9 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1534697292.0 9713274.0 testis9 TAGCTTGT S10 R1 001.fastq.gz 0:79 1:79 A:412476407;C:348503407;G:364951260;T:408730135;N:36083 79 79     412476407 348503407 364951260 408730135 36083 SRX4996865 SRS4031875 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83138 0.82285 0.14758 0.14389 0.6574 0.66413 0.52953 0.52739 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50614 50614 SRR8176759 SRX4996864 SRS4031874 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Ovary RNA Seq Nadia Ovary RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZW ovary 1 Nadia ovary 1 Nadia ovary 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1071608456.0 6782332.0 ovary1 TTCTGTGT S3 R1 001.fastq.gz 0:79 1:79 A:274516983;C:256355100;G:269033426;T:271676618;N:26329 79 79     274516983 256355100 269033426 271676618 26329 SRX4996864 SRS4031874 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84619 0.84097 0.04695 0.04389 0.76067 0.76447 0.50582 0.50708 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
50615 50615 SRR8176760 SRX4996863 SRS4031874 SRP168249 PRJNA504448 RNA Seq of Zebrafish Gonads from the Nadia Strain PRJNA504448 Transcriptome Analysis The Nadia strain of zebrafish Danio rerio possesses a ZZ/ZW sex determination system. We used the BIOO NEXTflex Rapid Directional qRNA Seq Kit to generate strand specific RNA Seq libraries from adult testes and ovaries. Differential expression analysis of these two tissues identified a region of ovary specific transcriptional silencing along the heterochromatic q arm of chromosome 4.   pubmed:38466753   Nadia Ovary RNA Seq Nadia Ovary RNA Seq   strain:Nadia|age:3 mpf provider:John H. Postlethwait University of Oregon|genotype:ZW|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: Nadia ZW ovary 2 Nadia ovary 2 Nadia ovary 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA NextSeq 500   SRP168249         1576311490.0 9976655.0 ovary2 TGCTGATA S4 R1 001.fastq.gz 0:79 1:79 A:405771336;C:375502214;G:393737952;T:401262052;N:37936 79 79     405771336 375502214 393737952 401262052 37936 SRX4996863 SRS4031874 SRA807619 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84668 0.83664 0.03988 0.03778 0.75818 0.76126 0.50397 0.51091 79 79 B B biological fallback assumption illumina nextseq unknown poly_a unknown bulk unknown unknown   United States 2018-11-08 Adult Adult Gonad Reproductive System
53430 53430 SRR9875014 SRX6627775 SRS5187274 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT male ZZ 2 NA I LT male ZZ 2 NA I LT male ZZ 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_M_ZZ_2_S26_L003_R2_001.fastq.gz NA_I_LT_M_ZZ_2_S26_L003_R1_001.fastq.gz fastq fastq 1172048410.0 3880955.0 NA I LT M ZZ 2 S26 L003 R1 001.fastq.gz 0:151 1:151 A:303777521;C:269121101;G:281279387;T:317654364;N:216037 151 151     303777521 269121101 281279387 317654364 216037 SRX6627775 SRS5187274 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83782 0.85031 0.12499 0.11617 0.66827 0.67779 0.48987 0.53823 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53431 53431 SRR9875015 SRX6627774 SRS5187274 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT male ZZ 1 NA I LT male ZZ 1 NA I LT male ZZ 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_M_ZZ_1_S25_L003_R1_001.fastq.gz NA_I_LT_M_ZZ_1_S25_L003_R2_001.fastq.gz fastq fastq 1262754714.0 4181307.0 NA I LT M ZZ 1 S25 L003 R1 001.fastq.gz 0:151 1:151 A:327506426;C:291427032;G:305046130;T:338544693;N:230433 151 151     327506426 291427032 305046130 338544693 230433 SRX6627774 SRS5187274 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84333 0.85309 0.11752 0.10767 0.6784 0.68952 0.49474 0.54244 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53432 53432 SRR9875016 SRX6627773 SRS5187267 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT female ZW 4 NA I LT female ZW 4 NA I LT female ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_F_ZW_4_S12_L003_R1_001.fastq.gz NA_I_LT_F_ZW_4_S12_L003_R2_001.fastq.gz fastq fastq 3142658206.0 10406153.0 NA I LT F ZW 4 S12 L003 R1 001.fastq.gz 0:151 1:151 A:803643290;C:741672825;G:773732722;T:823029025;N:580344 151 151     803643290 741672825 773732722 823029025 580344 SRX6627773 SRS5187267 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.85445 0.8663 0.02726 0.02576 0.75077 0.75637 0.51842 0.53326 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53433 53433 SRR9875017 SRX6627772 SRS5187267 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT female ZW 3 NA I LT female ZW 3 NA I LT female ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_F_ZW_3_S11_L003_R1_001.fastq.gz NA_I_LT_F_ZW_3_S11_L003_R2_001.fastq.gz fastq fastq 2972327186.0 9842143.0 NA I LT F ZW 3 S11 L003 R1 001.fastq.gz 0:151 1:151 A:772664996;C:682505738;G:712485622;T:804106200;N:564630 151 151     772664996 682505738 712485622 804106200 564630 SRX6627772 SRS5187267 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84597 0.85833 0.03181 0.03076 0.74667 0.75243 0.46115 0.54017 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53434 53434 SRR9875018 SRX6627771 SRS5187273 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT neomale ZW 2 NA I LT neomale ZW 2 NA I LT neomale ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_NM_ZW_2_S30_L003_R2_001.fastq.gz NA_I_LT_NM_ZW_2_S30_L003_R1_001.fastq.gz fastq fastq 1388131524.0 4596462.0 NA I LT NM ZW 2 S30 L003 R1 001.fastq.gz 0:151 1:151 A:364448184;C:318113393;G:331439463;T:373875285;N:255199 151 151     364448184 318113393 331439463 373875285 255199 SRX6627771 SRS5187273 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83159 0.83772 0.11329 0.10386 0.66845 0.67971 0.43992 0.54354 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53435 53435 SRR9875019 SRX6627770 SRS5187273 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT neomale ZW 1 NA I LT neomale ZW 1 NA I LT neomale ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_NM_ZW_1_S29_L003_R1_001.fastq.gz NA_I_LT_NM_ZW_1_S29_L003_R2_001.fastq.gz fastq fastq 1367141920.0 4526960.0 NA I LT NM ZW 1 S29 L003 R1 001.fastq.gz 0:151 1:151 A:355472353;C:315601966;G:328252816;T:367560010;N:254775 151 151     355472353 315601966 328252816 367560010 254775 SRX6627770 SRS5187273 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82721 0.83543 0.12314 0.11296 0.66168 0.66991 0.48974 0.54682 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53436 53436 SRR9875020 SRX6627769 SRS5187274 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT male ZZ 4 NA I LT male ZZ 4 NA I LT male ZZ 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_M_ZZ_4_S28_L003_R1_001.fastq.gz NA_I_LT_M_ZZ_4_S28_L003_R2_001.fastq.gz fastq fastq 1365836374.0 4522637.0 NA I LT M ZZ 4 S28 L003 R1 001.fastq.gz 0:151 1:151 A:359008023;C:311741908;G:325484573;T:369355002;N:246868 151 151     359008023 311741908 325484573 369355002 246868 SRX6627769 SRS5187274 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84371 0.85078 0.12305 0.11555 0.67099 0.68387 0.51573 0.55027 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53437 53437 SRR9875021 SRX6627768 SRS5187274 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT male ZZ 3 NA I LT male ZZ 3 NA I LT male ZZ 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_M_ZZ_3_S27_L003_R2_001.fastq.gz NA_I_LT_M_ZZ_3_S27_L003_R1_001.fastq.gz fastq fastq 3359129088.0 11122944.0 NA I LT M ZZ 3 S27 L003 R1 001.fastq.gz 0:151 1:151 A:886542415;C:762896281;G:795735380;T:913345561;N:609451 151 151     886542415 762896281 795735380 913345561 609451 SRX6627768 SRS5187274 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83447 0.83971 0.12934 0.12096 0.66434 0.67596 0.49873 0.54409 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53438 53438 SRR9875022 SRX6627767 SRS5187273 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT neomale ZW 4 NA I LT neomale ZW 4 NA I LT neomale ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_NM_ZW_4_S32_L003_R2_001.fastq.gz NA_I_LT_NM_ZW_4_S32_L003_R1_001.fastq.gz fastq fastq 1571536426.0 5203763.0 NA I LT NM ZW 4 S32 L003 R1 001.fastq.gz 0:151 1:151 A:412349187;C:356867868;G:373811327;T:428220032;N:288012 151 151     412349187 356867868 373811327 428220032 288012 SRX6627767 SRS5187273 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84259 0.85116 0.11975 0.11158 0.6588 0.6733 0.49032 0.53195 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53439 53439 SRR9875023 SRX6627766 SRS5187273 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT neomale ZW 3 NA I LT neomale ZW 3 NA I LT neomale ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_NM_ZW_3_S31_L003_R1_001.fastq.gz NA_I_LT_NM_ZW_3_S31_L003_R2_001.fastq.gz fastq fastq 708049268.0 2344534.0 NA I LT NM ZW 3 S31 L003 R1 001.fastq.gz 0:151 1:151 A:187682393;C:160644598;G:167023665;T:192569320;N:129292 151 151     187682393 160644598 167023665 192569320 129292 SRX6627766 SRS5187273 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83306 0.8307 0.10791 0.09912 0.66736 0.68075 0.44399 0.52942 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53440 53440 SRR9875024 SRX6627765 SRS5187264 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT neomale ZW 1 NA II HT neomale ZW 1 NA II HT neomale ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZW_1_S49_L003_R1_001.fastq.gz NA_II_HT_M_ZW_1_S49_L003_R2_001.fastq.gz fastq fastq 866947776.0 2870688.0 NA II HT M ZW 1 S49 L003 R1 001.fastq.gz 0:151 1:151 A:231683021;C:191944405;G:199270471;T:243895438;N:154441 151 151     231683021 191944405 199270471 243895438 154441 SRX6627765 SRS5187264 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.81935 0.8315 0.11248 0.10853 0.66362 0.68254 0.48789 0.52559 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53441 53441 SRR9875025 SRX6627764 SRS5187264 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT neomale ZW 2 NA II HT neomale ZW 2 NA II HT neomale ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZW_2_S50_L003_R1_001.fastq.gz NA_II_HT_M_ZW_2_S50_L003_R2_001.fastq.gz fastq fastq 1238622196.0 4101398.0 NA II HT M ZW 2 S50 L003 R1 001.fastq.gz 0:151 1:151 A:326765637;C:281525180;G:292771467;T:337327822;N:232090 151 151     326765637 281525180 292771467 337327822 232090 SRX6627764 SRS5187264 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.81744 0.81778 0.1321 0.11944 0.6715 0.68061 0.48308 0.5461 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53442 53442 SRR9875026 SRX6627763 SRS5187271 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35231 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35231|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 3 NA II HT female ZW 3 NA II HT female ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_3_S19_L003_R1_001.fastq.gz NA_II_HT_F_ZW_3_S19_L003_R2_001.fastq.gz fastq fastq 4332789470.0 14346985.0 NA II HT F ZW 3 S19 L003 R1 001.fastq.gz 0:151 1:151 A:1121567479;C:1001393901;G:1051112515;T:1157922069;N:793506 151 151     1121567479 1001393901 1051112515 1157922069 793506 SRX6627763 SRS5187271 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84537 0.85684 0.02978 0.02883 0.74519 0.75103 0.49815 0.51029 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53443 53443 SRR9875027 SRX6627762 SRS5187271 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35231 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35231|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 4 NA II HT female ZW 4 NA II HT female ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_4_S20_L003_R1_001.fastq.gz NA_II_HT_F_ZW_4_S20_L003_R2_001.fastq.gz fastq fastq 2504902760.0 8294380.0 NA II HT F ZW 4 S20 L003 R1 001.fastq.gz 0:151 1:151 A:644063437;C:585139726;G:612494174;T:662732706;N:472717 151 151     644063437 585139726 612494174 662732706 472717 SRX6627762 SRS5187271 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84081 0.85447 0.02676 0.02539 0.75221 0.75735 0.50871 0.52577 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53444 53444 SRR9875028 SRX6627761 SRS5187272 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 1 NA II HT female ZW 1 NA II HT female ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_1_S17_L003_R2_001.fastq.gz NA_II_HT_F_ZW_1_S17_L003_R1_001.fastq.gz fastq fastq 1736596036.0 5750318.0 NA II HT F ZW 1 S17 L003 R1 001.fastq.gz 0:151 1:151 A:445448229;C:406499984;G:426338448;T:458000590;N:308785 151 151     445448229 406499984 426338448 458000590 308785 SRX6627761 SRS5187272 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83645 0.84885 0.02338 0.02377 0.76181 0.77179 0.50147 0.51518 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53445 53445 SRR9875029 SRX6627760 SRS5187271 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35231 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35231|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 2 NA II HT female ZW 2 NA II HT female ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_2_S18_L003_R1_001.fastq.gz NA_II_HT_F_ZW_2_S18_L003_R2_001.fastq.gz fastq fastq 2236262284.0 7404842.0 NA II HT F ZW 2 S18 L003 R1 001.fastq.gz 0:151 1:151 A:579456096;C:517791260;G:542824435;T:595784792;N:405701 151 151     579456096 517791260 542824435 595784792 405701 SRX6627760 SRS5187271 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84842 0.86331 0.03018 0.02879 0.74533 0.75284 0.50735 0.5179 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53446 53446 SRR9875030 SRX6627759 SRS5187270 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35233 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35233|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 7 NA II HT female ZW 7 NA II HT female ZW 7 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_7_S23_L003_R1_001.fastq.gz NA_II_HT_F_ZW_7_S23_L003_R2_001.fastq.gz fastq fastq 4374023644.0 14483522.0 NA II HT F ZW 7 S23 L003 R1 001.fastq.gz 0:151 1:151 A:1124428490;C:1022998262;G:1067040224;T:1158743925;N:812743 151 151     1124428490 1022998262 1067040224 1158743925 812743 SRX6627759 SRS5187270 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84531 0.85451 0.02933 0.02831 0.74781 0.75268 0.50283 0.51946 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53447 53447 SRR9875031 SRX6627758 SRS5187270 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35233 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35233|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 8 NA II HT female ZW 8 NA II HT female ZW 8 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_8_S24_L003_R1_001.fastq.gz NA_II_HT_F_ZW_8_S24_L003_R2_001.fastq.gz fastq fastq 2254992022.0 7466861.0 NA II HT F ZW 8 S24 L003 R1 001.fastq.gz 0:151 1:151 A:572485761;C:532768891;G:559608333;T:589709152;N:419885 151 151     572485761 532768891 559608333 589709152 419885 SRX6627758 SRS5187270 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83569 0.84924 0.03057 0.02989 0.75566 0.76039 0.49404 0.50869 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53448 53448 SRR9875032 SRX6627757 SRS5187270 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35233 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35233|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 5 NA II HT female ZW 5 NA II HT female ZW 5 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_5_S21_L003_R2_001.fastq.gz NA_II_HT_F_ZW_5_S21_L003_R1_001.fastq.gz fastq fastq 2724335054.0 9020977.0 NA II HT F ZW 5 S21 L003 R1 001.fastq.gz 0:151 1:151 A:703079271;C:633677990;G:664164772;T:722907914;N:505107 151 151     703079271 633677990 664164772 722907914 505107 SRX6627757 SRS5187270 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83901 0.84962 0.0312 0.03084 0.74105 0.74653 0.50721 0.52334 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53449 53449 SRR9875033 SRX6627756 SRS5187270 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35233 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35233|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT female ZW 6 NA II HT female ZW 6 NA II HT female ZW 6 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_F_ZW_6_S22_L003_R1_001.fastq.gz NA_II_HT_F_ZW_6_S22_L003_R2_001.fastq.gz fastq fastq 2606443616.0 8630608.0 NA II HT F ZW 6 S22 L003 R1 001.fastq.gz 0:151 1:151 A:673760471;C:606196676;G:634265991;T:691738470;N:482008 151 151     673760471 606196676 634265991 691738470 482008 SRX6627756 SRS5187270 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84587 0.85525 0.03449 0.03295 0.74172 0.74748 0.51773 0.53608 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53450 53450 SRR9875034 SRX6627755 SRS5187269 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT neomale ZW 1 NA II LT neomale ZW 1 NA II LT neomale ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZW_1_S33_L003_R1_001.fastq.gz NA_II_LT_M_ZW_1_S33_L003_R2_001.fastq.gz fastq fastq 1357711366.0 4495733.0 NA II LT M ZW 1 S33 L003 R1 001.fastq.gz 0:151 1:151 A:358839496;C:303639822;G:318677702;T:376311671;N:242675 151 151     358839496 303639822 318677702 376311671 242675 SRX6627755 SRS5187269 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82749 0.84168 0.10104 0.09776 0.66665 0.67706 0.50176 0.52822 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53451 53451 SRR9875035 SRX6627754 SRS5187269 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT neomale ZW 2 NA II LT neomale ZW 2 NA II LT neomale ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZW_2_S34_L003_R1_001.fastq.gz NA_II_LT_M_ZW_2_S34_L003_R2_001.fastq.gz fastq fastq 1079038148.0 3572974.0 NA II LT M ZW 2 S34 L003 R1 001.fastq.gz 0:151 1:151 A:284225595;C:242609321;G:252807823;T:299195973;N:199436 151 151     284225595 242609321 252807823 299195973 199436 SRX6627754 SRS5187269 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.8249 0.83852 0.12503 0.1145 0.66787 0.67907 0.49177 0.54123 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53452 53452 SRR9875036 SRX6627753 SRS5187269 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT neomale ZW 3 NA II LT neomale ZW 3 NA II LT neomale ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZW_3_S35_L003_R2_001.fastq.gz NA_II_LT_M_ZW_3_S35_L003_R1_001.fastq.gz fastq fastq 2282644350.0 7558425.0 NA II LT M ZW 3 S35 L003 R1 001.fastq.gz 0:151 1:151 A:607545184;C:507924138;G:532513071;T:634242294;N:419663 151 151     607545184 507924138 532513071 634242294 419663 SRX6627753 SRS5187269 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.81283 0.8258 0.11617 0.1097 0.65689 0.66569 0.49773 0.52947 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53453 53453 SRR9875037 SRX6627752 SRS5187269 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT neomale ZW 4 NA II LT neomale ZW 4 NA II LT neomale ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZW_4_S36_L003_R1_001.fastq.gz NA_II_LT_M_ZW_4_S36_L003_R2_001.fastq.gz fastq fastq 2086507430.0 6908965.0 NA II LT M ZW 4 S36 L003 R1 001.fastq.gz 0:151 1:151 A:538604539;C:480340952;G:499613332;T:567569684;N:378923 151 151     538604539 480340952 499613332 567569684 378923 SRX6627752 SRS5187269 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83381 0.84464 0.12553 0.11185 0.66346 0.6743 0.48592 0.54627 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53454 53454 SRR9875038 SRX6627751 SRS5187268 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT male ZZ 1 NA II LT male ZZ 1 NA II LT male ZZ 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZZ_1_S37_L003_R1_001.fastq.gz NA_II_LT_M_ZZ_1_S37_L003_R2_001.fastq.gz fastq fastq 3125472896.0 10349248.0 NA II LT M ZZ 1 S37 L003 R1 001.fastq.gz 0:151 1:151 A:826449700;C:708899305;G:733394083;T:856152498;N:577310 151 151     826449700 708899305 733394083 856152498 577310 SRX6627751 SRS5187268 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82658 0.83272 0.12623 0.1163 0.65756 0.66722 0.48097 0.53128 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53455 53455 SRR9875039 SRX6627750 SRS5187268 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT male ZZ 2 NA II LT male ZZ 2 NA II LT male ZZ 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZZ_2_S38_L003_R1_001.fastq.gz NA_II_LT_M_ZZ_2_S38_L003_R2_001.fastq.gz fastq fastq 2054902526.0 6804313.0 NA II LT M ZZ 2 S38 L003 R1 001.fastq.gz 0:151 1:151 A:531226544;C:477661282;G:496881812;T:548754535;N:378353 151 151     531226544 477661282 496881812 548754535 378353 SRX6627750 SRS5187268 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82889 0.83299 0.12553 0.112 0.67231 0.67963 0.48585 0.55425 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53456 53456 SRR9875040 SRX6627749 SRS5187268 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT male ZZ 3 NA II LT male ZZ 3 NA II LT male ZZ 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZZ_3_S39_L003_R1_001.fastq.gz NA_II_LT_M_ZZ_3_S39_L003_R2_001.fastq.gz fastq fastq 2114157946.0 7000523.0 NA II LT M ZZ 3 S39 L003 R1 001.fastq.gz 0:151 1:151 A:550987311;C:480876975;G:502310453;T:579594583;N:388624 151 151     550987311 480876975 502310453 579594583 388624 SRX6627749 SRS5187268 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.81833 0.8296 0.11739 0.10808 0.67182 0.67844 0.48149 0.5418 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53457 53457 SRR9875041 SRX6627748 SRS5187268 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT male ZZ 4 NA II LT male ZZ 4 NA II LT male ZZ 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_M_ZZ_4_S40_L003_R1_001.fastq.gz NA_II_LT_M_ZZ_4_S40_L003_R2_001.fastq.gz fastq fastq 1495067308.0 4950554.0 NA II LT M ZZ 4 S40 L003 R1 001.fastq.gz 0:151 1:151 A:390009825;C:338696774;G:352130264;T:413947694;N:282751 151 151     390009825 338696774 352130264 413947694 282751 SRX6627748 SRS5187268 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.8249 0.84026 0.10326 0.09647 0.6729 0.68176 0.49745 0.53215 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53458 53458 SRR9875042 SRX6627747 SRS5187267 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT female ZW 2 NA I LT female ZW 2 NA I LT female ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_F_ZW_2_S10_L003_R1_001.fastq.gz NA_I_LT_F_ZW_2_S10_L003_R2_001.fastq.gz fastq fastq 3034833334.0 10049117.0 NA I LT F ZW 2 S10 L003 R1 001.fastq.gz 0:151 1:151 A:774988052;C:708380465;G:741374235;T:809523019;N:567563 151 151     774988052 708380465 741374235 809523019 567563 SRX6627747 SRS5187267 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.8428 0.85733 0.02408 0.02325 0.7502 0.75444 0.50904 0.52136 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53459 53459 SRR9875043 SRX6627746 SRS5187267 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S32366 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I LT female ZW 1 NA I LT female ZW 1 NA I LT female ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_LT_F_ZW_1_S9_L003_R1_001.fastq.gz NA_I_LT_F_ZW_1_S9_L003_R2_001.fastq.gz fastq fastq 2125350972.0 7037586.0 NA I LT F ZW 1 S9 L003 R1 001.fastq.gz 0:151 1:151 A:545614513;C:497333512;G:519240116;T:562771287;N:391544 151 151     545614513 497333512 519240116 562771287 391544 SRX6627746 SRS5187267 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82461 0.83743 0.02141 0.02062 0.75394 0.7595 0.48916 0.51164 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53460 53460 SRR9875044 SRX6627745 SRS5187266 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT neomale ZW 2 NA I HT neomale ZW 2 NA I HT neomale ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZW_2_S46_L003_R1_001.fastq.gz NA_I_HT_M_ZW_2_S46_L003_R2_001.fastq.gz fastq fastq 1806321494.0 5981197.0 NA I HT M ZW 2 S46 L003 R1 001.fastq.gz 0:151 1:151 A:475635210;C:409795334;G:421841520;T:498713602;N:335828 151 151     475635210 409795334 421841520 498713602 335828 SRX6627745 SRS5187266 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84633 0.85265 0.11305 0.10352 0.66949 0.67988 0.51289 0.54556 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53461 53461 SRR9875045 SRX6627744 SRS5187266 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT neomale ZW 1 NA I HT neomale ZW 1 NA I HT neomale ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZW_1_S45_L003_R1_001.fastq.gz NA_I_HT_M_ZW_1_S45_L003_R2_001.fastq.gz fastq fastq 1785467186.0 5912143.0 NA I HT M ZW 1 S45 L003 R1 001.fastq.gz 0:151 1:151 A:458130008;C:419048292;G:433123403;T:474834704;N:330779 151 151     458130008 419048292 433123403 474834704 330779 SRX6627744 SRS5187266 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82063 0.82213 0.10291 0.09434 0.67292 0.68302 0.49008 0.54662 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53462 53462 SRR9875046 SRX6627743 SRS5187266 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT neomale ZW 4 NA I HT neomale ZW 4 NA I HT neomale ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZW_4_S48_L003_R2_001.fastq.gz NA_I_HT_M_ZW_4_S48_L003_R1_001.fastq.gz fastq fastq 1721739146.0 5701123.0 NA I HT M ZW 4 S48 L003 R1 001.fastq.gz 0:151 1:151 A:457579053;C:387246239;G:402046929;T:474553811;N:313114 151 151     457579053 387246239 402046929 474553811 313114 SRX6627743 SRS5187266 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83132 0.84076 0.10303 0.09716 0.67278 0.67971 0.51397 0.54201 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53463 53463 SRR9875047 SRX6627742 SRS5187266 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT neomale ZW 3 NA I HT neomale ZW 3 NA I HT neomale ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZW_3_S47_L003_R1_001.fastq.gz NA_I_HT_M_ZW_3_S47_L003_R2_001.fastq.gz fastq fastq 1864038224.0 6172312.0 NA I HT M ZW 3 S47 L003 R1 001.fastq.gz 0:151 1:151 A:488182037;C:418744893;G:435328272;T:521434960;N:348062 151 151     488182037 418744893 435328272 521434960 348062 SRX6627742 SRS5187266 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82491 0.84075 0.10296 0.09613 0.67032 0.67939 0.4924 0.5357 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53464 53464 SRR9875048 SRX6627741 SRS5187265 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT male ZZ 2 NA I HT male ZZ 2 NA I HT male ZZ 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZZ_2_S42_L003_R2_001.fastq.gz NA_I_HT_M_ZZ_2_S42_L003_R1_001.fastq.gz fastq fastq 2056499200.0 6809600.0 NA I HT M ZZ 2 S42 L003 R1 001.fastq.gz 0:151 1:151 A:538336279;C:472717996;G:488512293;T:556554652;N:377980 151 151     538336279 472717996 488512293 556554652 377980 SRX6627741 SRS5187265 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83126 0.84204 0.107 0.10077 0.67073 0.67831 0.49524 0.53134 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53465 53465 SRR9875049 SRX6627740 SRS5187265 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT male ZZ 1 NA I HT male ZZ 1 NA I HT male ZZ 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZZ_1_S41_L003_R1_001.fastq.gz NA_I_HT_M_ZZ_1_S41_L003_R2_001.fastq.gz fastq fastq 1365412366.0 4521233.0 NA I HT M ZZ 1 S41 L003 R1 001.fastq.gz 0:151 1:151 A:355480646;C:309546887;G:320575933;T:379562206;N:246694 151 151     355480646 309546887 320575933 379562206 246694 SRX6627740 SRS5187265 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83473 0.84725 0.10882 0.10201 0.66421 0.6762 0.50362 0.53357 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53466 53466 SRR9875050 SRX6627739 SRS5187265 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT male ZZ 4 NA I HT male ZZ 4 NA I HT male ZZ 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZZ_4_S44_L003_R1_001.fastq.gz NA_I_HT_M_ZZ_4_S44_L003_R2_001.fastq.gz fastq fastq 2913929748.0 9648774.0 NA I HT M ZZ 4 S44 L003 R1 001.fastq.gz 0:151 1:151 A:754611935;C:673613964;G:694334777;T:790819457;N:549615 151 151     754611935 673613964 694334777 790819457 549615 SRX6627739 SRS5187265 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84367 0.849 0.09149 0.08242 0.67207 0.68022 0.49473 0.54294 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53467 53467 SRR9875051 SRX6627738 SRS5187265 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S32366 36C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:36°C|Stock:S32366|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA I HT male ZZ 3 NA I HT male ZZ 3 NA I HT male ZZ 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_I_HT_M_ZZ_3_S43_L003_R1_001.fastq.gz NA_I_HT_M_ZZ_3_S43_L003_R2_001.fastq.gz fastq fastq 1847515804.0 6117602.0 NA I HT M ZZ 3 S43 L003 R1 001.fastq.gz 0:151 1:151 A:482681863;C:418051930;G:432751376;T:513690111;N:340524 151 151     482681863 418051930 432751376 513690111 340524 SRX6627738 SRS5187265 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83211 0.842 0.10026 0.09236 0.67211 0.68093 0.49535 0.53213 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53468 53468 SRR9875052 SRX6627737 SRS5187262 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT female ZW 4 NA II LT female ZW 4 NA II LT female ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_F_ZW_4_S16_L003_R1_001.fastq.gz NA_II_LT_F_ZW_4_S16_L003_R2_001.fastq.gz fastq fastq 3220410824.0 10663612.0 NA II LT F ZW 4 S16 L003 R1 001.fastq.gz 0:151 1:151 A:821518938;C:761183396;G:793393852;T:843716812;N:597826 151 151     821518938 761183396 793393852 843716812 597826 SRX6627737 SRS5187262 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.8413 0.85256 0.02501 0.0238 0.74966 0.75556 0.50159 0.52008 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53469 53469 SRR9875053 SRX6627736 SRS5187262 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT female ZW 3 NA II LT female ZW 3 NA II LT female ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_F_ZW_3_S15_L003_R1_001.fastq.gz NA_II_LT_F_ZW_3_S15_L003_R2_001.fastq.gz fastq fastq 2845167066.0 9421083.0 NA II LT F ZW 3 S15 L003 R1 001.fastq.gz 0:151 1:151 A:728473162;C:665785810;G:698014630;T:752369136;N:524328 151 151     728473162 665785810 698014630 752369136 524328 SRX6627736 SRS5187262 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84878 0.86228 0.02745 0.02607 0.75191 0.75769 0.50354 0.52065 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53470 53470 SRR9875054 SRX6627735 SRS5187264 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT neomale ZW 4 NA II HT neomale ZW 4 NA II HT neomale ZW 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZW_4_S52_L003_R1_001.fastq.gz NA_II_HT_M_ZW_4_S52_L003_R2_001.fastq.gz fastq fastq 1748851196.0 5790898.0 NA II HT M ZW 4 S52 L003 R1 001.fastq.gz 0:151 1:151 A:453103739;C:399124717;G:415809420;T:480488752;N:324568 151 151     453103739 399124717 415809420 480488752 324568 SRX6627735 SRS5187264 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82727 0.84009 0.12956 0.11808 0.67209 0.68241 0.48691 0.54595 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53471 53471 SRR9875055 SRX6627734 SRS5187264 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA neomale S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT neomale ZW 3 NA II HT neomale ZW 3 NA II HT neomale ZW 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZW_3_S51_L003_R1_001.fastq.gz NA_II_HT_M_ZW_3_S51_L003_R2_001.fastq.gz fastq fastq 1423809804.0 4714602.0 NA II HT M ZW 3 S51 L003 R1 001.fastq.gz 0:151 1:151 A:369849507;C:327636581;G:340380495;T:385675721;N:267500 151 151     369849507 327636581 340380495 385675721 267500 SRX6627734 SRS5187264 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.83684 0.84439 0.1337 0.11897 0.67071 0.67923 0.47897 0.5467 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53472 53472 SRR9875056 SRX6627733 SRS5187263 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT male ZZ 2 NA II HT male ZZ 2 NA II HT male ZZ 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZZ_2_S54_L003_R2_001.fastq.gz NA_II_HT_M_ZZ_2_S54_L003_R1_001.fastq.gz fastq fastq 1357808308.0 4496054.0 NA II HT M ZZ 2 S54 L003 R1 001.fastq.gz 0:151 1:151 A:368185082;C:300053394;G:309250883;T:380079888;N:239061 151 151     368185082 300053394 309250883 380079888 239061 SRX6627733 SRS5187263 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82938 0.83196 0.15304 0.14574 0.65527 0.68789 0.49161 0.5465 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53473 53473 SRR9875057 SRX6627732 SRS5187263 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT male ZZ 1 NA II HT male ZZ 1 NA II HT male ZZ 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZZ_1_S53_L003_R1_001.fastq.gz NA_II_HT_M_ZZ_1_S53_L003_R2_001.fastq.gz fastq fastq 1634133174.0 5411037.0 NA II HT M ZZ 1 S53 L003 R1 001.fastq.gz 0:151 1:151 A:436483988;C:366023166;G:381257189;T:450055228;N:313603 151 151     436483988 366023166 381257189 450055228 313603 SRX6627732 SRS5187263 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.79603 0.79505 0.11794 0.10877 0.66318 0.66994 0.44714 0.53953 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53474 53474 SRR9875058 SRX6627731 SRS5187263 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT male ZZ 4 NA II HT male ZZ 4 NA II HT male ZZ 4 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZZ_4_S56_L003_R2_001.fastq.gz NA_II_HT_M_ZZ_4_S56_L003_R1_001.fastq.gz fastq fastq 1883910730.0 6238115.0 NA II HT M ZZ 4 S56 L003 R1 001.fastq.gz 0:151 1:151 A:495423095;C:424615591;G:443714130;T:519807712;N:350202 151 151     495423095 424615591 443714130 519807712 350202 SRX6627731 SRS5187263 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.8286 0.83747 0.11822 0.11035 0.67385 0.68237 0.49035 0.52038 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53475 53475 SRR9875059 SRX6627730 SRS5187263 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA male S35232 34C   strain:Nadia|age:90 dpf|dev stage:adult|sex:male|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZZ|treatment:34°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II HT male ZZ 3 NA II HT male ZZ 3 NA II HT male ZZ 3 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_HT_M_ZZ_3_S55_L003_R1_001.fastq.gz NA_II_HT_M_ZZ_3_S55_L003_R2_001.fastq.gz fastq fastq 2340416648.0 7749724.0 NA II HT M ZZ 3 S55 L003 R1 001.fastq.gz 0:151 1:151 A:613484653;C:531562814;G:551930055;T:643006924;N:432202 151 151     613484653 531562814 551930055 643006924 432202 SRX6627730 SRS5187263 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.82905 0.83646 0.12739 0.11633 0.66687 0.67675 0.47544 0.52774 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53476 53476 SRR9875060 SRX6627729 SRS5187262 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT female ZW 2 NA II LT female ZW 2 NA II LT female ZW 2 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_F_ZW_2_S14_L003_R1_001.fastq.gz NA_II_LT_F_ZW_2_S14_L003_R2_001.fastq.gz fastq fastq 3634056298.0 12033299.0 NA II LT F ZW 2 S14 L003 R1 001.fastq.gz 0:151 1:151 A:931115370;C:854959901;G:890343355;T:956948734;N:688938 151 151     931115370 854959901 890343355 956948734 688938 SRX6627729 SRS5187262 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.8473 0.85879 0.03289 0.03091 0.74442 0.74953 0.50941 0.52493 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
53477 53477 SRR9875061 SRX6627728 SRS5187262 SRP216974 PRJNA557435 RNA seq of Danio rerio gonads exposed to elevated temperature during development PRJNA557435 Transcriptome Analysis Zebrafish of the Nadia strain were raised at 28.5°C 34°C or 36°C from 18 dpf 30 dpf dpf to understand the developmental effects of high temperature on zebrafish that possess a genetic sex determinant. Fish were evaluated for genotypic and phenotypic sex and RNA seq was performed on gonads collected at 90dpf. Strand specific sequencing libraries were prepared with the BIOO NEXTflex Rapid Directional qRNA Seq kit and sequenced on an Illumina HiSeq 4000.         NA female S35232 28C   strain:Nadia|age:90 dpf|dev stage:adult|sex:female|tissue:gonad|biomaterial provider:John H. Postlethwait University of Oregon|genotype:ZW|treatment:28°C|Stock:S35232|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: NA II LT female ZW 1 NA II LT female ZW 1 NA II LT female ZW 1 Strand specific RNA seq library prepared with BIOO NEXTflex Rapid Directional qRNA Seq kit     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina HiSeq 4000   SRP216974     NA_II_LT_F_ZW_1_S13_L003_R1_001.fastq.gz NA_II_LT_F_ZW_1_S13_L003_R2_001.fastq.gz fastq fastq 2455418852.0 8130526.0 NA II LT F ZW 1 S13 L003 R1 001.fastq.gz 0:151 1:151 A:623606538;C:582997106;G:608663760;T:639692291;N:459157 151 151     623606538 582997106 608663760 639692291 459157 SRX6627728 SRS5187262 SRA929643 University of Oregon|Institute of Neuroscience University of Oregon 2 0.84721 0.8574 0.02968 0.02825 0.75022 0.75574 0.51102 0.52174 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-07-31 Adult Adult Gonad Reproductive System
70107 70107 SRR19561927 SRX15614023 SRS13314708 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr27 2 Dr27 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 7 27 2 ovary 7 27 2 ovary 7 27 2 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6007 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     7-27-2-ovary-RNA_R1.fq.gz 7-27-2-ovary-RNA_R2.fq.gz fastq fastq 6966496500.0 23221655.0 7 27 2 ovary RNA R1.fq.gz 0:150 1:150 A:1784852772;C:1676888545;G:1685222280;T:1819390747;N:142156 150 150     1784852772 1676888545 1685222280 1819390747 142156 SRX15614023 SRS13314708 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93216 0.93055 0.01749 0.01668 0.75471 0.75726 0.4877 0.48889 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70114 70114 SRR19561934 SRX15614016 SRS13314715 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr13 3 Dr13 3   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 3|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 42 13 3 ovary 42 13 3 ovary 42 13 3 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6049 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     42-13-3-ovary-RNA_R1.fq.gz 42-13-3-ovary-RNA_R2.fq.gz fastq fastq 8315953800.0 27719846.0 42 13 3 ovary RNA R1.fq.gz 0:150 1:150 A:2113845666;C:2013021948;G:2030561324;T:2158373576;N:151286 150 150     2113845666 2013021948 2030561324 2158373576 151286 SRX15614016 SRS13314715 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.9325 0.93211 0.01498 0.01482 0.75627 0.76163 0.4678 0.46603 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70120 70120 SRR19561940 SRX15614010 SRS13314714 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr13 2 Dr13 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 37 13 2 ovary 37 13 2 ovary 37 13 2 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6043 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     37-13-2-ovary-RNA_R1.fq.gz 37-13-2-ovary-RNA_R2.fq.gz fastq fastq 10671303300.0 35571011.0 37 13 2 ovary RNA R1.fq.gz 0:150 1:150 A:2704549797;C:2589885874;G:2606829122;T:2769845305;N:193202 150 150     2704549797 2589885874 2606829122 2769845305 193202 SRX15614010 SRS13314714 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.9364 0.934 0.01462 0.01457 0.75609 0.76128 0.4657 0.47185 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70127 70127 SRR19561947 SRX15614003 SRS13314713 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr13 1 Dr13 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 32 13 1 ovary 32 13 1 ovary 32 13 1 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6037 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     32-13-1-ovary-RNA_R1.fq.gz 32-13-1-ovary-RNA_R2.fq.gz fastq fastq 7793077200.0 25976924.0 32 13 1 ovary RNA R1.fq.gz 0:150 1:150 A:1968202669;C:1898498061;G:1904799202;T:2021425841;N:151427 150 150     1968202669 1898498061 1904799202 2021425841 151427 SRX15614003 SRS13314713 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93599 0.9342 0.01657 0.01693 0.75189 0.75599 0.47812 0.47528 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70133 70133 SRR19561953 SRX15613997 SRS13314712 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr18 3 Dr18 3   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 3|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 27 18 3 ovary 27 18 3 ovary 27 18 3 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6031 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     27-18-3-ovary-RNA_R1.fq.gz 27-18-3-ovary-RNA_R2.fq.gz fastq fastq 7124234400.0 23747448.0 27 18 3 ovary RNA R1.fq.gz 0:150 1:150 A:1796883339;C:1737042072;G:1753365220;T:1836804245;N:139524 150 150     1796883339 1737042072 1753365220 1836804245 139524 SRX15613997 SRS13314712 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93502 0.93824 0.01518 0.01539 0.75047 0.75383 0.47032 0.46666 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70140 70140 SRR19561960 SRX15613990 SRS13314711 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr18 2 Dr18 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 2|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 22 18 2 ovary 22 18 2 ovary 22 18 2 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6025 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     22-18-2-ovary-RNA_R1.fq.gz 22-18-2-ovary-RNA_R2.fq.gz fastq fastq 7099932300.0 23666441.0 22 18 2 ovary RNA R1.fq.gz 0:150 1:150 A:1797931340;C:1723404082;G:1743428459;T:1835029062;N:139357 150 150     1797931340 1723404082 1743428459 1835029062 139357 SRX15613990 SRS13314711 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93288 0.93529 0.01597 0.01626 0.7539 0.75808 0.46947 0.47752 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70147 70147 SRR19561967 SRX15613983 SRS13314710 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr18 1 Dr18 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 17 18 1 ovary 17 18 1 ovary 17 18 1 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6019 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     17-18-1-ovary-RNA_R1.fq.gz 17-18-1-ovary-RNA_R2.fq.gz fastq fastq 8008588200.0 26695294.0 17 18 1 ovary RNA R1.fq.gz 0:150 1:150 A:2021818549;C:1946471492;G:1957729236;T:2082410352;N:158571 150 150     2021818549 1946471492 1957729236 2082410352 158571 SRX15613983 SRS13314710 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93122 0.92495 0.01366 0.01312 0.75609 0.76128 0.47394 0.4716 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70153 70153 SRR19561973 SRX15613977 SRS13314709 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr27 3 Dr27 3   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 3|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 12 27 3 ovary 12 27 3 ovary 12 27 3 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6013 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     12-27-3-ovary-RNA_R1.fq.gz 12-27-3-ovary-RNA_R2.fq.gz fastq fastq 7533353100.0 25111177.0 12 27 3 ovary RNA R1.fq.gz 0:150 1:150 A:1907565137;C:1829000535;G:1846316394;T:1950319115;N:151919 150 150     1907565137 1829000535 1846316394 1950319115 151919 SRX15613977 SRS13314709 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93863 0.93775 0.01361 0.01336 0.75501 0.75854 0.4667 0.47208 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
70157 70157 SRR19561977 SRX15613973 SRS13314707 SRP378802 PRJNA846110 Danio rerio Raw sequence reads PRJNA846110 Other Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio       Dr27 1 Dr27 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 1|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult female 2 27 1 ovary 2 27 1 ovary 2 27 1 ovary All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6001 illumina platform.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP378802     2-27-1-ovary-RNA_R1.fq.gz 2-27-1-ovary-RNA_R2.fq.gz fastq fastq 7210844100.0 24036147.0 2 27 1 ovary RNA R1.fq.gz 0:150 1:150 A:1833886811;C:1743095370;G:1761088965;T:1872626910;N:146044 150 150     1833886811 1743095370 1761088965 1872626910 146044 SRX15613973 SRS13314707 SRA1432943 shanghai ocean university|College of Fisheries and Life Science shanghai ocean university 2 0.93275 0.93077 0.01644 0.01637 0.75284 0.75619 0.47261 0.47523 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2022-06-07 Adult Adult Gonad Reproductive System
77261 77261 SRR25434203 SRX21168298 SRS18429832 SRP451673 PRJNA999043 The transcription analysis of gonad in zebrafish PRJNA999043 Other To screen out the female biased genes         dmrt / 2   isolate:not applicable|age:80days|dev stage:Adult|collection date:2021|geo loc name:China:Wuhan|sex:female|tissue:Gonad|replicate:replicate = biological replicate 6|BioSampleModel:Model organism or animal                 RNA seq of gonad dmrt2 dmrt2 screen out the key genes     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP451673     dmrt2_R1_.fastq.gz dmrt2_R2.fastq.gz fastq fastq 5751045000.0 19170150.0 dmrt2 R1 .fastq.gz 0:150 1:150 A:1488645455;C:1371887358;G:1405356847;T:1485112991;N:42349 150 150     1488645455 1371887358 1405356847 1485112991 42349 SRX21168298 SRS18429832 SRA1681175 Chinese Academy of Sciences|Institute of Hydrology Chinese Academy of Sciences 2 0.91589 0.91745 0.01703 0.01705 0.7637 0.76402 0.47113 0.46945 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-07-27 Multi-stage Multi-stage Gonad Reproductive System
77262 77262 SRR25434204 SRX21168297 SRS18429831 SRP451673 PRJNA999043 The transcription analysis of gonad in zebrafish PRJNA999043 Other To screen out the female biased genes         dmrt / 1   isolate:not applicable|age:80days|dev stage:Adult|collection date:2021|geo loc name:China:Wuhan|sex:female|tissue:Gonad|replicate:replicate = biological replicate 5|BioSampleModel:Model organism or animal                 RNA seq of gonad dmrt1 dmrt1 screen out the key genes     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP451673     dmrt1_R2.fastq.gz dmrt1_R1.fastq.gz fastq fastq 7183531200.0 23945104.0 dmrt1 R1.fastq.gz 0:150 1:150 A:1847909835;C:1724710101;G:1769658622;T:1841199904;N:52738 150 150     1847909835 1724710101 1769658622 1841199904 52738 SRX21168297 SRS18429831 SRA1681175 Chinese Academy of Sciences|Institute of Hydrology Chinese Academy of Sciences 2 0.92259 0.92339 0.01692 0.01663 0.76558 0.76589 0.46917 0.46678 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-07-27 Multi-stage Multi-stage Gonad Reproductive System
77263 77263 SRR25434205 SRX21168296 SRS18429830 SRP451673 PRJNA999043 The transcription analysis of gonad in zebrafish PRJNA999043 Other To screen out the female biased genes         cyp17a1 / ;dmrt1 / 2   isolate:not applicable|age:80days|dev stage:Adult|collection date:2021|geo loc name:China:Wuhan|sex:female|tissue:Gonad|replicate:replicate = biological replicate 4|BioSampleModel:Model organism or animal                 RNA seq of gonad dko2 dko2 screen out the key genes     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP451673     dko2_R2.fastq.gz dko2_R1.fastq.gz fastq fastq 6765257700.0 22550859.0 dko2 R1.fastq.gz 0:150 1:150 A:1746873541;C:1617601783;G:1668365344;T:1732367309;N:49723 150 150     1746873541 1617601783 1668365344 1732367309 49723 SRX21168296 SRS18429830 SRA1681175 Chinese Academy of Sciences|Institute of Hydrology Chinese Academy of Sciences 2 0.90858 0.90858 0.02015 0.01977 0.7612 0.76213 0.46791 0.47242 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-07-27 Multi-stage Multi-stage Gonad Reproductive System
77264 77264 SRR25434206 SRX21168295 SRS18429829 SRP451673 PRJNA999043 The transcription analysis of gonad in zebrafish PRJNA999043 Other To screen out the female biased genes         cyp17a1 / ;dmrt1 / 1   isolate:not applicable|age:80days|dev stage:Adult|collection date:2021|geo loc name:China:Wuhan|sex:female|tissue:Gonad|replicate:replicate = biological replicate 3|BioSampleModel:Model organism or animal                 RNA seq of gonad dko1 dko1 screen out the key genes     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP451673     dko1_R1.fastq.gz dko1_R2.fastq.gz fastq fastq 6638354100.0 22127847.0 dko1 R1.fastq.gz 0:150 1:150 A:1713258874;C:1593272953;G:1635070441;T:1696702837;N:48995 150 150     1713258874 1593272953 1635070441 1696702837 48995 SRX21168295 SRS18429829 SRA1681175 Chinese Academy of Sciences|Institute of Hydrology Chinese Academy of Sciences 2 0.9182 0.91984 0.022 0.02186 0.76118 0.76167 0.47656 0.48847 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-07-27 Multi-stage Multi-stage Gonad Reproductive System
77265 77265 SRR25434207 SRX21168294 SRS18429828 SRP451673 PRJNA999043 The transcription analysis of gonad in zebrafish PRJNA999043 Other To screen out the female biased genes         Control2   isolate:not applicable|age:80days|dev stage:Adult|collection date:2021|geo loc name:China:Wuhan|sex:female|tissue:Gonad|replicate:replicate = biological replicate 2|BioSampleModel:Model organism or animal                 RNA seq of gonad conf2 conf2 screen out the key genes     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP451673     conf2_R1.fastq.gz conf2_R2.fastq.gz fastq fastq 6223727700.0 20745759.0 conf2 R1.fastq.gz 0:150 1:150 A:1590221936;C:1500196214;G:1554765877;T:1578496570;N:47103 150 150     1590221936 1500196214 1554765877 1578496570 47103 SRX21168294 SRS18429828 SRA1681175 Chinese Academy of Sciences|Institute of Hydrology Chinese Academy of Sciences 2 0.92354 0.92626 0.01495 0.01561 0.76398 0.76418 0.47103 0.46492 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-07-27 Multi-stage Multi-stage Gonad Reproductive System
77266 77266 SRR25434208 SRX21168293 SRS18429827 SRP451673 PRJNA999043 The transcription analysis of gonad in zebrafish PRJNA999043 Other To screen out the female biased genes         Control1   isolate:not applicable|age:80days|dev stage:Adult|collection date:2021|geo loc name:China:Wuhan|sex:female|tissue:Gonad|replicate:replicate = biological replicate 1|BioSampleModel:Model organism or animal                 RNA seq of gonad conf1 conf1 screen out the key genes     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP451673     conf1_R1.fastq.gz conf1_R2.fastq.gz fastq fastq 6799767600.0 22665892.0 conf1 R1.fastq.gz 0:150 1:150 A:1740276620;C:1642790185;G:1671812697;T:1744859854;N:28244 150 150     1740276620 1642790185 1671812697 1744859854 28244 SRX21168293 SRS18429827 SRA1681175 Chinese Academy of Sciences|Institute of Hydrology Chinese Academy of Sciences 2 0.93305 0.93328 0.01522 0.01517 0.76477 0.76627 0.47519 0.47422 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-07-27 Multi-stage Multi-stage Gonad Reproductive System

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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");;