run_metadata: 58556
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 58556 | SRR11362971 | SRX7964363 | SRS6350266 | 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 | control | strain:AB|age:7dpf|dev stage:larval|sex:pooled male and female|tissue:whole larvae|BioSampleModel:Model organism or animal | RNA seq of zebrafish larvaecontrol at 7dpf | control | control | 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_WHZEBozrEAAARAAPEI-168_1.fq.gz FCHGNGYCCXY_L3_WHZEBozrEAAARAAPEI-168_2.fq.gz | fastq fastq | 6741448200.0 | 22471494.0 | FCHGNGYCCXY L3 WHZEBozrEAAARAAPEI 168 1.fq.gz | 0:150 1:150 | A:1758797585;C:1622874542;G:1617573676;T:1742064320;N:138077 | 150 | 150 | 1758797585 | 1622874542 | 1617573676 | 1742064320 | 138077 | SRX7964363 | SRS6350266 | SRA1057721 | Huashan Hospital, Fudan University|Department of Neurology | Huashan Hospital, Fudan University | 2 | 0.89722 | 0.89787 | 0.06821 | 0.06852 | 0.67675 | 0.68256 | 0.45822 | 0.46023 | 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 |