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12 rows where experiment.library_layout = "SINGLE", experiment.library_selection = "PCR" and tissue_curation_coarse = "Reproductive System"

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tissue_curation_coarse 1

  • Reproductive System · 12 ✖

tissue_curation 1

technology 1

experiment.platform 1

experiment.library_strategy 1

experiment.library_source 1

experiment.library_selection 1

  • PCR · 12 ✖

experiment.library_layout 1

  • SINGLE · 12 ✖

devstage_curation_coarse 1

devstage_curation 1

Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
64249 64249 SRR14373546 SRX10725858 SRS8815710 SRP318063 PRJNA726592 GH overexpression on gonadal microRNAome profile in zebrafish males PRJNA726592 Other Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.       gh transgenic 6 GH3   strain:F0104|age:15 month|dev stage:adult|sex:male|tissue:gonadal|biological replicate:6|BioSampleModel:Model organism or animal                 miRNA Seq of Danio rerio: adult male gonad GH3 GH3 NEBNext Small RNA Library Prep Set     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA Illumina MiSeq   SRP318063     PoolUFPEL-GH6.fastq fastq 20104659.0 394209.0 PoolUFPEL GH6.fastq 0:51 1:0 A:4462767;C:4536250;G:6471518;T:4633666;N:458 51 0     4462767 4536250 6471518 4633666 458 SRX10725858 SRS8815710 SRA1226279 Universidade Federal de Pelotas|CDTec Universidade Federal de Pelotas 1 0.80185   0.21091   0.91547   0.57044   51   B   usable mapping rate illumina miseq unknown random_priming nebnext bulk unknown unknown   Brazil 2021-04-30 Adult Adult Gonad Reproductive System
64250 64250 SRR14373547 SRX10725857 SRS8815709 SRP318063 PRJNA726592 GH overexpression on gonadal microRNAome profile in zebrafish males PRJNA726592 Other Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.       gh transgenic 4 GH2   strain:F0104|age:15 month|dev stage:adult|sex:male|tissue:gonadal|biological replicate:5|BioSampleModel:Model organism or animal                 miRNA Seq of Danio rerio: adult male gonad GH2 GH2 NEBNext Small RNA Library Prep Set     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA Illumina MiSeq   SRP318063     PoolUFPEL-GH4.fastq fastq 136130934.0 2669234.0 PoolUFPEL GH4.fastq 0:51 1:0 A:31505752;C:32606264;G:41632000;T:30383900;N:3018 51 0     31505752 32606264 41632000 30383900 3018 SRX10725857 SRS8815709 SRA1226279 Universidade Federal de Pelotas|CDTec Universidade Federal de Pelotas 1 0.78619   0.26843   0.87834   0.48728   51   B   usable mapping rate illumina miseq unknown random_priming nebnext bulk unknown unknown   Brazil 2021-04-30 Adult Adult Gonad Reproductive System
64251 64251 SRR14373548 SRX10725856 SRS8815708 SRP318063 PRJNA726592 GH overexpression on gonadal microRNAome profile in zebrafish males PRJNA726592 Other Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.       gh transgenic 3 GH1   strain:F0104|age:15 month|dev stage:adult|sex:male|tissue:gonadal|biological replicate:4|BioSampleModel:Model organism or animal                 miRNA Seq of Danio rerio: adult male gonad GH1 GH1 NEBNext Small RNA Library Prep Set     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA Illumina MiSeq   SRP318063     PoolUFPEL-GH3.fastq fastq 364152699.0 7140249.0 PoolUFPEL GH3.fastq 0:51 1:0 A:79211373;C:83789471;G:117772711;T:83370974;N:8170 51 0     79211373 83789471 117772711 83370974 8170 SRX10725856 SRS8815708 SRA1226279 Universidade Federal de Pelotas|CDTec Universidade Federal de Pelotas 1 0.80843   0.18707   0.92066   0.59133   51   B   usable mapping rate illumina miseq unknown random_priming nebnext bulk unknown unknown   Brazil 2021-04-30 Adult Adult Gonad Reproductive System
64252 64252 SRR14373549 SRX10725855 SRS8815707 SRP318063 PRJNA726592 GH overexpression on gonadal microRNAome profile in zebrafish males PRJNA726592 Other Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.       Non transgenic 5 NT3   strain:F0104|age:15 month|dev stage:adult|sex:male|tissue:gonadal|biological replicate:3|BioSampleModel:Model organism or animal                 miRNA Seq of Danio rerio: adult male gonad NT3 NT3 NEBNext Small RNA Library Prep Set     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA Illumina MiSeq   SRP318063     PoolUFPEL-NT5.fastq fastq 234366114.0 4595414.0 PoolUFPEL NT5.fastq 0:51 1:0 A:58011123;C:51898677;G:69581397;T:54869614;N:5303 51 0     58011123 51898677 69581397 54869614 5303 SRX10725855 SRS8815707 SRA1226279 Universidade Federal de Pelotas|CDTec Universidade Federal de Pelotas 1 0.83352   0.35958   0.85928   0.50004   51   B   usable mapping rate illumina miseq unknown random_priming nebnext bulk unknown unknown   Brazil 2021-04-30 Adult Adult Gonad Reproductive System
64253 64253 SRR14373550 SRX10725854 SRS8815706 SRP318063 PRJNA726592 GH overexpression on gonadal microRNAome profile in zebrafish males PRJNA726592 Other Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.       Non transgenic 3 NT2   strain:F0104|age:15 month|dev stage:adult|sex:male|tissue:gonadal|biological replicate:2|BioSampleModel:Model organism or animal                 miRNA Seq of Danio rerio: adult male gonad NT2 NT2 NEBNext Small RNA Library Prep Set     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA Illumina MiSeq   SRP318063     PoolUFPEL-NT3.fastq fastq 147963750.0 2901250.0 PoolUFPEL NT3.fastq 0:51 1:0 A:37528568;C:33498521;G:41979920;T:34953411;N:3330 51 0     37528568 33498521 41979920 34953411 3330 SRX10725854 SRS8815706 SRA1226279 Universidade Federal de Pelotas|CDTec Universidade Federal de Pelotas 1 0.75277   0.34872   0.86596   0.53154   51   B   usable mapping rate illumina miseq unknown random_priming nebnext bulk unknown unknown   Brazil 2021-04-30 Adult Adult Gonad Reproductive System
64254 64254 SRR14373551 SRX10725853 SRS8815705 SRP318063 PRJNA726592 GH overexpression on gonadal microRNAome profile in zebrafish males PRJNA726592 Other Evaluate computationally the kinetic parameters as well as to identify and quantify the set of miRNAs of the spermatozoa from gh transgenic gh+ and non transgenic NT zebrafish that may be correlated with low spermatic quality.       Non transgenic 1 NT1   strain:F0104|age:15 month|dev stage:adult|sex:male|tissue:gonadal|biological replicate:1|BioSampleModel:Model organism or animal                 miRNA Seq of Danio rerio: adult male gonad NT1 NT1 NEBNext Small RNA Library Prep Set     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA Illumina MiSeq   SRP318063     PoolUFPEL-NT1.fastq fastq 218363538.0 4281638.0 PoolUFPEL NT1.fastq 0:51 1:0 A:53115431;C:47639482;G:65248144;T:52355651;N:4830 51 0     53115431 47639482 65248144 52355651 4830 SRX10725853 SRS8815705 SRA1226279 Universidade Federal de Pelotas|CDTec Universidade Federal de Pelotas 1 0.83996   0.3606   0.87728   0.50828   51   B   usable mapping rate illumina miseq unknown random_priming nebnext bulk unknown unknown   Brazil 2021-04-30 Adult Adult Gonad Reproductive System
76734 76734 SRR25361306 SRX21100653 SRS18369835 SRP450509 PRJNA996758 Transcriptome analysis of Zebrafish testis PRJNA996758 Other In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.         Zebrafish 3N 3   strain:not collected|age:3 mpf|collection date:not collected|geo loc name:not applicable|sex:male|tissue:testis|replicate:biological replicate 6|BioSampleModel:Model organism or animal                 miRNA Seq of triploid zebrafish: mature testis 3 S06 S06 small RNA Sample Pre Kit     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA HiSeq X Ten   SRP450509     Zebrafish-3N-3.fq fastq 377566667.0 15350070.0 Zebrafish 3N 3.fq 0:24.60 A:96137966;C:76631652;G:87723617;T:117047567;N:25865 24       96137966 76631652 87723617 117047567 25865 SRX21100653 SRS18369835 SRA1676237 Hunan Normal University|College of Life Sciences Hunan Normal University 1 0.73654   0.40118   0.8564   0.55134   20   B   usable mapping rate illumina hiseq_era full_length random_priming unknown bulk unknown unknown   China 2023-07-20 Adult Adult Gonad Reproductive System
76735 76735 SRR25361307 SRX21100652 SRS18369834 SRP450509 PRJNA996758 Transcriptome analysis of Zebrafish testis PRJNA996758 Other In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.         Zebrafish 3N 2   strain:not collected|age:3 mpf|collection date:not collected|geo loc name:not applicable|sex:male|tissue:testis|replicate:biological replicate 5|BioSampleModel:Model organism or animal                 miRNA Seq of triploid zebrafish: mature testis 2 S05 S05 small RNA Sample Pre Kit     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA HiSeq X Ten   SRP450509     Zebrafish-3N-2.fq fastq 380484856.0 15447197.0 Zebrafish 3N 2.fq 0:24.63 A:97242128;C:77738745;G:86938175;T:118539773;N:26035 24       97242128 77738745 86938175 118539773 26035 SRX21100652 SRS18369834 SRA1676237 Hunan Normal University|College of Life Sciences Hunan Normal University 1 0.75732   0.36733   0.86003   0.56474   30   B   usable mapping rate illumina hiseq_era full_length random_priming unknown bulk unknown unknown   China 2023-07-20 Adult Adult Gonad Reproductive System
76736 76736 SRR25361308 SRX21100651 SRS18369833 SRP450509 PRJNA996758 Transcriptome analysis of Zebrafish testis PRJNA996758 Other In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.         Zebrafish 3N 1   strain:not collected|age:3 mpf|collection date:not collected|geo loc name:not applicable|sex:male|tissue:testis|replicate:biological replicate 4|BioSampleModel:Model organism or animal                 miRNA Seq of triploid zebrafish: mature testis 1 S04 S04 small RNA Sample Pre Kit     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA HiSeq X Ten   SRP450509     Zebrafish-3N-1.fq fastq 268097774.0 10780393.0 Zebrafish 3N 1.fq 0:24.87 A:68574209;C:53994512;G:62001426;T:83509528;N:18099 24       68574209 53994512 62001426 83509528 18099 SRX21100651 SRS18369833 SRA1676237 Hunan Normal University|College of Life Sciences Hunan Normal University 1 0.76185   0.39184   0.86038   0.55005   27   B   usable mapping rate illumina hiseq_era full_length random_priming unknown bulk unknown unknown   China 2023-07-20 Adult Adult Gonad Reproductive System
76737 76737 SRR25361309 SRX21100650 SRS18369832 SRP450509 PRJNA996758 Transcriptome analysis of Zebrafish testis PRJNA996758 Other In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.         Zebrafish 2N 3   strain:not collected|age:3 mpf|collection date:not collected|geo loc name:not applicable|sex:male|tissue:testis|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 miRNA Seq of diploid zebrafish: mature testis 3 S03 S03 small RNA Sample Pre Kit     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA HiSeq X Ten   SRP450509     Zebrafish-2N-3.fq fastq 534146242.0 21237464.0 Zebrafish 2N 3.fq 0:25.15 A:134813196;C:109988603;G:122363487;T:166967106;N:13850 25       134813196 109988603 122363487 166967106 13850 SRX21100650 SRS18369832 SRA1676237 Hunan Normal University|College of Life Sciences Hunan Normal University 1 0.78557   0.41489   0.84682   0.52155   26   B   usable mapping rate illumina hiseq_era full_length random_priming unknown bulk unknown unknown   China 2023-07-20 Adult Adult Gonad Reproductive System
76738 76738 SRR25361310 SRX21100649 SRS18369831 SRP450509 PRJNA996758 Transcriptome analysis of Zebrafish testis PRJNA996758 Other In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.         Zebrafish 2N 2   strain:not collected|age:3 mpf|collection date:not collected|geo loc name:not applicable|sex:male|tissue:testis|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 miRNA Seq of diploid zebrafish: mature testis 2 S02 S02 small RNA Sample Pre Kit     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA HiSeq X Ten   SRP450509     Zebrafish-2N-2.fq fastq 356097642.0 14145771.0 Zebrafish 2N 2.fq 0:25.17 A:90441485;C:73979402;G:81604410;T:110063163;N:9182 25       90441485 73979402 81604410 110063163 9182 SRX21100649 SRS18369831 SRA1676237 Hunan Normal University|College of Life Sciences Hunan Normal University 1 0.75286   0.42266   0.8561   0.55388   25   B   usable mapping rate illumina hiseq_era full_length random_priming unknown bulk unknown unknown   China 2023-07-20 Adult Adult Gonad Reproductive System
76739 76739 SRR25361311 SRX21100648 SRS18369830 SRP450509 PRJNA996758 Transcriptome analysis of Zebrafish testis PRJNA996758 Other In summary this study obtained whole transcriptome data of mature testis of triploid zebrafish by RNA seq which provided a data platform for the study of reproductive development of triploid fish. Screening and identification of miRNAs related to spermatogenesis in zebrafish.         Zebrafish 2N 1   strain:not collected|age:3 mpf|collection date:not collected|geo loc name:not applicable|sex:male|tissue:testis|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 miRNA Seq of diploid zebrafish: mature testis 1 S01 S01 small RNA Sample Pre Kit     miRNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA HiSeq X Ten   SRP450509     Zebrafish-2N-1.fq fastq 304073792.0 11993451.0 Zebrafish 2N 1.fq 0:25.35 A:78785751;C:62508430;G:69338558;T:93420600;N:20453 25       78785751 62508430 69338558 93420600 20453 SRX21100648 SRS18369830 SRA1676237 Hunan Normal University|College of Life Sciences Hunan Normal University 1 0.77026   0.38872   0.86032   0.58206   23   B   usable mapping rate illumina hiseq_era full_length random_priming unknown bulk unknown unknown   China 2023-07-20 Adult Adult 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");;