run_metadata: 52888
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 52888 | SRR9333941 | SRX6100410 | SRS5000910 | SRP202062 | PRJNA550012 | Transcriptome analysis of innate immune response in notch1a mutant and wide type zebrafish activated by microinjection Vibrio parahaemolyticus | PRJNA550012 | Other | we generated notch1a mutant zebrafish line and then we infected notch1a mutant and wide type zebrafish by microinjection. The role of notch1a in innnate immune response was analyzed. | control 1 | WTPBS1 | strain:AB line|age:3dpf|sex:not determined|tissue:whole larvae|sample type:replicate1|treatment:control|BioSampleModel:Model organism or animal | control | WTPBS1 | WTPBS1 | 3dpf whole larvae control | RNA-Seq | TRANSCRIPTOMIC | other | PAIRED | ILLUMINA | Illumina HiSeq 4000 | SRP202062 | WT PBS 1 R1 WT PBS 1 R2 | fastq fastq | 8866677000.0 | 29555590.0 | WT PBS 1 R1.gz | 0:150 1:150 | A:2183986294;C:2242368970;G:2246335396;T:2193811531;N:174809 | 150 | 150 | 2183986294 | 2242368970 | 2246335396 | 2193811531 | 174809 | SRX6100410 | SRS5000910 | SRA901699 | Shanghai Ocean University|College of Fisheries and Life Science | Shanghai Ocean University | 2 | 0.94766 | 0.9446 | 0.01552 | 0.01523 | 0.78013 | 0.78914 | 0.4609 | 0.4456 | 150 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | other | unknown | bulk | unknown | unknown | China | 2019-06-21 | Larval | Larval | Whole Organism | All anatomical structures |