run_metadata: 50613
This data as json
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 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 |