run_metadata: 67016
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 67016 | SRR16972436 | SRX13163290 | SRS11094634 | SRP346689 | PRJNA781427 | RNA Seq analysis of wild type and chs1 / zebrafish gut | PRJNA781427 | Other | To investigate the mRNA expression profiles in the intestine of wild type and chitin synthase 1 knock out chs1 / zebrafish extracted total RNA of intestine from samples of different ages to generate cDNA libraries and sequenced using Illumina NovaSeq 6000 system platform. | SMU 6M | breed:TU|age:6 mpf|dev stage:Adult|sex:not collected|tissue:Intestine|birth date:2020 07 08|collection date:2020 12 29|death date:2020 12 29|genotype:chs1 / |health state:sick|sample type:tissue sample|BioSampleModel:Model organism or animal | RNA Seq of Danio rerio: adult gut | SMU 6M rep2 | SMU 6M rep2 | Adults Danio rerio were euthanized by MS 222 whole intestines were collected from the abdomen region. Total RNA was extracted using TRIzol Plus RNA Purification Kit. cDNA libraries were generated by Oligo dT for sequencing. | RNA-Seq | TRANSCRIPTOMIC | Oligo-dT | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP346689 | loader:fastq load.py|options: doNotUseSharq allowEarlyFileEnd maxErrorCount=0 | Daniorerio_6months_SMU2-T09_good_1.fq.gz Daniorerio_6months_SMU2-T09_good_2.fq.gz | fastq fastq | 6153057638.0 | 20567236.0 | Daniorerio 6months SMU2 T09 good 1.fq.gz | 0:149.58 1:149.58 | A:1623915064;C:1438971834;G:1466951426;T:1623205362;N:13952 | 149 | 149 | 1623915064 | 1438971834 | 1466951426 | 1623205362 | 13952 | SRX13163290 | SRS11094634 | SRA1330971 | Sun Yat-sen University|School of Life Sciences | Sun Yat-sen University | 2 | 0.89898 | 0.89771 | 0.08023 | 0.07995 | 0.715 | 0.71648 | 0.49782 | 0.48134 | 150 | 150 | B | B | biological fallback assumption | illumina | novaseq_era | unknown | poly_a | unknown | bulk | unknown | unknown | China | 2021-11-19 | Adult | Adult | Gut | Digestive System |