run_metadata: 70762
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 70762 | SRR20184258 | SRX16219126 | SRS13860285 | SRP386369 | PRJNA858620 | Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes | PRJNA858620 | Other | Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes | IP AH2 | strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:LPS|replicate:2|BioSampleModel:Model organism or animal | LPS testis 1 | AH7054 | AH7054 | The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis | RNA-Seq | TRANSCRIPTOMIC | RT-PCR | PAIRED | ILLUMINA | Illumina HiSeq 4000 | SRP386369 | H5CTWBBXY_4_120UDI-idt-UMI_1.fastq.gz H5CTWBBXY_4_120UDI-idt-UMI_2.fastq.gz H5CV7BBXY_6_120UDI-idt-UMI_1.fastq.gz H5CV7BBXY_6_120UDI-idt-UMI_2.fastq.gz | fastq fastq fastq fastq | 9687193472.0 | 63731536.0 | H5CTWBBXY 4 120UDI idt UMI 1.fastq.gz | 0:76 1:76 | A:2526500453;C:2299216691;G:2261556756;T:2598145879;N:1773693 | 76 | 76 | 2526500453 | 2299216691 | 2261556756 | 2598145879 | 1773693 | SRX16219126 | SRS13860285 | SRA1454581 | Institute of Marine Sciences|Repro-Immune Team | Institute of Marine Sciences | 2 | 0.93579 | 0.92891 | 0.13404 | 0.13421 | 0.63696 | 0.64283 | 0.51831 | 0.49973 | 76 | 76 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | other | unknown | bulk | unknown | unknown | United States | 2022-07-14 | Adult | Adult | Gonad | Reproductive System |