run_metadata: 58554
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 58554 | SRR11362969 | SRX7964365 | SRS6350268 | SRP253564 | PRJNA613729 | Danio rerio Transcriptome or Gene expression | PRJNA613729 | Transcriptome Analysis | Transcriptome of serpini1 deficient zebrafish by CRISPR/Cas9 technique and an inducible neuroserpin overexpression model under the Huc promoter in the zebrafish | Model organism or animal sample from Danio rerio | Tgserpini1 | strain:Tg huc: teton: gal4; tre: serpini1: mkate2|age:7dpf|dev stage:larval|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal | RNA seq of zebrafish larvaeTgserpini1 at 7dpf | Tgserpini1 | Tgserpini1 | In our project we sequence 3 samples use Illumina Hiseq platform and on average we generated about 6.68Gb bases from each sample. We also map clean reads to reference genome on average 79.49% reads are mapped | RNA-Seq | TRANSCRIPTOMIC | RANDOM | SINGLE | ILLUMINA | Illumina HiSeq 2500 | SRP253564 | FCHGNGYCCXY_L3_WHZEBozrEAACRAAPEI-17_1.fq.gz FCHGNGYCCXY_L3_WHZEBozrEAACRAAPEI-17_2.fq.gz | fastq fastq | 6640137000.0 | 22133790.0 | FCHGNGYCCXY L3 WHZEBozrEAACRAAPEI 17 1.fq.gz | 0:150 1:150 | A:1729320460;C:1602342446;G:1594872338;T:1713455542;N:146214 | 150 | 150 | 1729320460 | 1602342446 | 1594872338 | 1713455542 | 146214 | SRX7964365 | SRS6350268 | SRA1057721 | Huashan Hospital, Fudan University|Department of Neurology | Huashan Hospital, Fudan University | 2 | 0.90809 | 0.90905 | 0.05765 | 0.05783 | 0.67026 | 0.67399 | 0.46996 | 0.47114 | 150 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | random_priming | unknown | bulk | unknown | unknown | China | 2020-03-21 | Larval | Larval | Whole Organism | All anatomical structures |