run_metadata: 70759
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 70759 | SRR20184255 | SRX16219129 | SRS13860287 | 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 CT3 | strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:CTRL|replicate:2|BioSampleModel:Model organism or animal | LPS testis 1 | AH7052 | AH7052 | 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_48UDI-idt-UMI_1.fastq.gz H5CTWBBXY_4_48UDI-idt-UMI_2.fastq.gz H5CV7BBXY_6_48UDI-idt-UMI_1.fastq.gz H5CV7BBXY_6_48UDI-idt-UMI_2.fastq.gz | fastq fastq fastq fastq | 9648241952.0 | 63475276.0 | H5CTWBBXY 4 48UDI idt UMI 1.fastq.gz | 0:76 1:76 | A:2522094588;C:2285164431;G:2245546783;T:2593693087;N:1743063 | 76 | 76 | 2522094588 | 2285164431 | 2245546783 | 2593693087 | 1743063 | SRX16219129 | SRS13860287 | SRA1454581 | Institute of Marine Sciences|Repro-Immune Team | Institute of Marine Sciences | 2 | 0.93457 | 0.92854 | 0.13232 | 0.13369 | 0.63613 | 0.63968 | 0.52061 | 0.51775 | 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 |