run_metadata: 41353
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 41353 | SRR4330936 | SRX2205504 | SRS1723860 | SRP090717 | PRJNA345071 | Transcriptome sequencing of zebrafish mutants | PRJNA345071 | Other | To investigate the possible mechanism that NOD1 impacts larval survival in zebrafish we performed transcriptome analysis to explore NOD1 related signaling pathways. Zebrafish larvae from WT and NOD1 1IS / were collected at 10 dpf and used for transcriptome sequencing. | WT 2 | strain:wild type biological replicate 2|dev stage:10 dpf|sex:pooled male and female|tissue:larvae|biomaterial provider:Chang MX|birth date:2015 08|breeding method:?artificial insemination|BioSampleModel:Model organism or animal | RNA seq of zebrafish wildtype at 10 dpf | WT 2 | WT 2 | 1 | RNA-Seq | TRANSCRIPTOMIC | RANDOM PCR | PAIRED | ILLUMINA | Illumina HiSeq 4000 | SRP090717 | WT-2_S39_L003_R1_001.fastq WT-2_S39_L003_R2_001.fastq | fastq fastq | 8115257628.0 | 26871714.0 | WT 2 S39 L003 R1 001.fastq | 0:151 1:151 | A:2056302105;C:1991691115;G:2061808328;T:2003236611;N:2219469 | 151 | 151 | 2056302105 | 1991691115 | 2061808328 | 2003236611 | 2219469 | SRX2205504 | SRS1723860 | SRA481515 | Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology | Institute of Hydrobiology, Chinese Academy of Sciences | 2 | 0.9479 | 0.94848 | 0.03505 | 0.0349 | 0.69946 | 0.70638 | 0.4871 | 0.48737 | 151 | 151 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | random_priming | unknown | bulk | unknown | unknown | China | 2019-12-31 | Larval | Larval | Whole Organism | All anatomical structures |