run_metadata: 25167
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 25167 | SRR25655090 | SRX21381117 | SRS18622086 | SRP455342 | PRJNA1005926 | miR 29a is downregulated in progenies derived from chronically stressed males | GSE240954 | Transcriptome Analysis | To investigate the potential vertical transmission of chronic stress to the unexposed larvae to report novel consequences of paternally inherited chronic stress at molecular level Overall design: We then performed small RNA seq profiling in the stress derived group and the control one. | pubmed:37762407 | Sample 3 AU1027 CTRL3 | GSM7712886 | source name:larvae|tissue:larvae|genotype:WT|treatment:Control|geo loc name:missing|collection date:missing | Sample 3 AU1027 CTRL3 | Trimming with trim galore v0.6.6 length 16 stringency 10 Mapping with STAR v2.7.8a against GRCz11 Quantification with RSEM v1.3.0 using ensembl release 104 Assembly: GRCz11 Supplementary files format and content: TSV raw counts | larvae | RNA was harvested using with Qiazol; a miRNeasy tissue kit Qiagen. Only samples meeting the requirements 3 µg of RNA; RNA integrity number RIN > 8 were used in RNA seq analysis. | tissue:larvae|genotype:WT|treatment:Control | GSM7712886 | GSM7712886: Sample 3 AU1027 CTRL3; Danio rerio; ncRNA Seq | GSM7712886 r1 | GSM7712886 | 1 | RNA was harvested using with Qiazol; a miRNeasy tissue kit Qiagen. Only samples meeting the requirements 3 µg of RNA; RNA integrity number RIN > 8 were used in RNA seq analysis. | ncRNA-Seq | TRANSCRIPTOMIC | size fractionation | SINGLE | ILLUMINA | Illumina NovaSeq 6000 | SRP455342 | loader:fastq load.py | CTRL03_10927AAD_AGTATACT-CGAATCGG_R1_001.fastq.gz | fastq | 651469300.0 | 13029386.0 | GSM7712886 r1 | 0:50 | A:191788726;C:154951271;G:161329211;T:143399936;N:156 | 50 | 191788726 | 154951271 | 161329211 | 143399936 | 156 | SRX21381117 | SRS18622086 | SRA1693666 | CNAG | CNAG | 1 | 0.45412 | 0.04073 | 0.96934 | 0.88507 | 50 | B | usable mapping rate | illumina | novaseq_era | unknown | size_fractionation | unknown | bulk | unknown | unknown | Spain | 2023-08-16 | Larval | Larval | Undetermined | Undetermined |