run_metadata: 41349
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 41349 | SRR4330940 | SRX2205508 | SRS1723862 | 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. | ZIS 3 | strain:mutant biological replicate 3|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 mutant at 10 dpf | ZIS 3 | ZIS 3 | 1 | RNA-Seq | TRANSCRIPTOMIC | RANDOM PCR | PAIRED | ILLUMINA | Illumina HiSeq 4000 | SRP090717 | ZIS-3_S41_L003_R1_001.fastq ZIS-3_S41_L003_R2_001.fastq | fastq fastq | 8951074036.0 | 29639318.0 | ZIS 3 S41 L003 R1 001.fastq | 0:151 1:151 | A:2283207699;C:2181203331;G:2250920956;T:2233298555;N:2443495 | 151 | 151 | 2283207699 | 2181203331 | 2250920956 | 2233298555 | 2443495 | SRX2205508 | SRS1723862 | SRA481515 | Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology | Institute of Hydrobiology, Chinese Academy of Sciences | 2 | 0.94568 | 0.94599 | 0.04792 | 0.04705 | 0.68511 | 0.69191 | 0.48349 | 0.49441 | 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 |