run_metadata: 41351
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 41351 | SRR4330938 | SRX2205506 | SRS1723859 | 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 1 | strain:mutant biological replicate 1|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 1 | ZIS 1 | 1 | RNA-Seq | TRANSCRIPTOMIC | RANDOM PCR | PAIRED | ILLUMINA | Illumina HiSeq 4000 | SRP090717 | ZIS-1_S58_L004_R1_001.fastq ZIS-1_S58_L004_R2_001.fastq | fastq fastq | 9474125956.0 | 31371278.0 | ZIS 1 S58 L004 R1 001.fastq | 0:151 1:151 | A:2432127105;C:2294541938;G:2369906198;T:2374445988;N:3104727 | 151 | 151 | 2432127105 | 2294541938 | 2369906198 | 2374445988 | 3104727 | SRX2205506 | SRS1723859 | SRA481515 | Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology | Institute of Hydrobiology, Chinese Academy of Sciences | 2 | 0.94217 | 0.94136 | 0.05812 | 0.05769 | 0.67957 | 0.68665 | 0.48986 | 0.48912 | 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 |