run_metadata: 68546
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 68546 | SRR17994493 | SRX14150129 | SRS11975599 | SRP359470 | PRJNA806206 | RNA seq for psip1a knockdown | PRJNA806206 | Other | Transcription coactivators function in a variety of ways which effectively facilitate the process of transcription and play an essential role in gene regulation. Among them Psip1 the gene codes LEDGF/p75 has been implicated in cancer autoimmune diseases and HIV pathogenesis. However the function of psip1 in vascular development is not known. The goal of this study is to reveal the RNA expression profile using zebrafish embryos when decreasing the expression of psip1a. | mispairedMO 2 | strain:EKW|isolate:embryos injected with control MO|breed:N/A|cultivar:N/A|ecotype:N/A|age:24 hpf|dev stage:Segmentation|sex:N/A|tissue:whole embryo|replicate:biological replicate 2|BioSampleModel:Model organism or animal | RNA Seq of zebrafish embryos control MO | control MO2 | control MO2 | The cDNA Library construction and quality control were coordinated by Novogen co. Ltd | RNA-Seq | TRANSCRIPTOMIC | RT-PCR | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP359470 | assembly:GRCz10 | mispairedMO_experiment2_sorted.bam | bam | 6644627100.0 | 22148757.0 | mispairedMO experiment2 sorted.bam | 0:150 1:150 | A:1760529385;C:1574258759;G:1574657792;T:1734978260;N:202904 | 150 | 150 | 1760529385 | 1574258759 | 1574657792 | 1734978260 | 202904 | SRX14150129 | SRS11975599 | SRA1370574 | UC Merced|Bioengineering | UC Merced | 2 | 0.95205 | 0.95138 | 0.07964 | 0.07993 | 0.69321 | 0.69337 | 0.45954 | 0.46053 | 150 | 150 | B | B | biological fallback assumption | illumina | novaseq_era | unknown | other | unknown | bulk | unknown | unknown | United States | 2022-02-11 | Multi-stage | Embryo | Whole Organism | All anatomical structures |