run_metadata: 67006
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 67006 | SRR16972426 | SRX13163300 | SRS11094638 | 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. | WT 3M | breed:TU|age:3 mpf|dev stage:Adult|sex:not collected|tissue:Intestine|birth date:2020 07 08|collection date:2020 10 15|death date:2020 10 15|genotype:wild type|health state:health|sample type:tissue sample|BioSampleModel:Model organism or animal | RNA Seq of Danio rerio: adult gut | WT 3M rep2 | WT 3M 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_3months_WT2-T04_good_1.fq.gz Daniorerio_3months_WT2-T04_good_2.fq.gz | fastq fastq | 8467967054.0 | 28305387.0 | Daniorerio 3months WT2 T04 good 1.fq.gz | 0:149.58 1:149.58 | A:2259351363;C:1963646091;G:1984749237;T:2259951700;N:268663 | 149 | 149 | 2259351363 | 1963646091 | 1984749237 | 2259951700 | 268663 | SRX13163300 | SRS11094638 | SRA1330971 | Sun Yat-sen University|School of Life Sciences | Sun Yat-sen University | 2 | 0.92857 | 0.9274 | 0.07369 | 0.07329 | 0.7344 | 0.73598 | 0.52047 | 0.53156 | 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 |