run_metadata: 51070
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 51070 | SRR8926594 | SRX5707649 | SRS4646934 | SRP192957 | PRJNA515990 | zebrafish miR 430 KO transcriptome | PRJNA515990 | Other | MiR 430 is considered an important regulator during embryonic development but genetic loss of function study is still lacking. Here we demonstrated that genetic deletion of the miR 430 cluster resulted in developmental defects in cell movement germ layer specification axis patterning and organ progenitor formation in zebrafish. To identify miR 430 targets we collected the WT miR 430 / and rescued embryos at shield stage and performed transcriptome sequencing. | 20 miR 430 / embryos at shield stage were collected for RNA seq analsysis | MiR 430 / | M6 | strain:AB|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:Hong Kong|age:6 hpf stage:shield stage|sex:pooled male and female|tissue:embyos|phenotype:MiR 430 / |sample type:embryos|treatment:miR 430 was deleted by TALENs|BioSampleModel:Model organism or animal | RNA seq of zebrafish miR 430 KO | 5065334 | 5065334 | high throughtput sequencing | RNA-Seq | TRANSCRIPTOMIC | RT-PCR | PAIRED | ILLUMINA | Illumina HiSeq 2000 | SRP192957 | M6_GTGAAA_L002_R2_001.fastq.gz M6_GTGAAA_L002_R1_001.fastq.gz M6_GTGAAA_L001_R2_001.fastq.gz M6_GTGAAA_L001_R1_001.fastq.gz | fastq fastq fastq fastq | 3957356200.0 | 19786781.0 | M6 GTGAAA L001 R1 001.fastq.gz | 0:100 1:100 | A:1047013756;C:951740713;G:905354408;T:1053098995;N:148328 | 100 | 100 | 1047013756 | 951740713 | 905354408 | 1053098995 | 148328 | SRX5707649 | SRS4646934 | SRA876443 | Sun Yat-Sen University|School of Life Sciences | Sun Yat-Sen University | 2 | 0.9588 | 0.95721 | 0.07699 | 0.07822 | 0.75422 | 0.75903 | 0.47996 | 0.48477 | 100 | 100 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | other | unknown | bulk | unknown | unknown | China | 2019-04-18 | Gastrula | Embryo | Whole Organism | All anatomical structures |