run_metadata: 63802
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 63802 | SRR14066779 | SRX10441277 | SRS8573405 | SRP312051 | PRJNA716861 | Zebrafish Bdnf CRISPR/CAS9 knock out | PRJNA716861 | Other | RNA seq of WT and Bdnf CRISPR/CAS9 KO of 24 hpf and 48 hpf zebrafish | SD 16 | strain:AB|isolate:MUT48 small4|age:48 hpf stage:Long pec|sex:pooled male and female|tissue:pool of 50 individuals|BioSampleModel:Model organism or animal | RNAseq of Danio rerio Bdnf mutant | Bdnf Libr16 | Bdnf Libr16 | Indexed libraries were prepared from 1 g/ea purified RNA with TruSeq SmallRNA Sample Prep Kit Illumina and TruSeq Stranded Total RNA Library Prep Kit Illumina. Libraries were quantified using the Agilent 2100 Bioanalyzer and pooled such that each index tagged sample was present in equimolar amounts with final concentration of the pooled samples of 2 nM. The pooled samples were subject to cluster generation and sequencing using an Illumina HiSeq 2500 System Illumina in a 1x50 single read SmallRNA and 2x100 paired end RNA Seq format at a final concentration of 10 pmol. | miRNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina HiSeq 2500 | SRP312051 | MUT48_small4_R1_001.fastq.gz | fastq | 1346335212.0 | 17714937.0 | MUT48 small4 R1 001.fastq.gz | 0:76 1:0 | A:416374120;C:317460666;G:293419951;T:319049435;N:31040 | 76 | 0 | 416374120 | 317460666 | 293419951 | 319049435 | 31040 | SRX10441277 | SRS8573405 | SRA1209895 | Stazione Zoologica Anton Dohrn|Biology and Evolution of Marine Organisms | Stazione Zoologica Anton Dohrn | 1 | 0.00179 | 0.00093 | 0.99935 | 0.5625 | 76 | T | under 1.2% mapping rate | illumina | hiseq_era | unknown | small_rna | trueseq | bulk | bulk | bulk | Italy | 2021-03-25 | Hatching | Embryo | Whole Organism | All anatomical structures |