run_metadata: 75245
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 75245 | SRR25609909 | SRX21337079 | SRS18582324 | SRP454447 | PRJNA964500 | Danio rerio telencephalon sequencing | PRJNA964500 | Whole Genome Sequencing | We aimed to characterize different regions and cell types in the telencephalon of zebrafish D. rerio. | f21 | strain:Tgvglut1:GFP; vglut2:DsRed|dev stage:adult|collection date:2020 07 28/2020 09 08|geo loc name:Switzerland|sex:NA|tissue:telencephalon|collected by:Chie Satou|genotype:Tgvglut1:GFP;vglut2:DsRed|fish:21|BioSampleModel:Model organism or animal | RNA seq of Danio rerio: adult telencephalon | f21 Dp | f21 Dp | RNA extraction of microdissected tissue; QC with RNA Pico Chip; library prepared with SmartSe2 protocol home made Tn5 | RNA-Seq | TRANSCRIPTOMIC | other | SINGLE | ILLUMINA | Illumina HiSeq 2500 | SRP454447 | 2524F13-1_200821_D00404_0490_BCECNHANXX_CCTAAGAC-AAGGAGTA_L004_R1_001.fastq.gz 2524F13-2_200821_D00404_0490_BCECNHANXX_CCTAAGAC-AAGGAGTA_L005_R1_001.fastq.gz 2524F13-3_200821_D00404_0490_BCECNHANXX_CCTAAGAC-AAGGAGTA_L006_R1_001.fastq.gz | fastq fastq fastq | 1366063407.0 | 26785557.0 | 2524F13 1 200821 D00404 0490 BCECNHANXX CCTAAGAC AAGGAGTA L004 R1 001.fastq.gz | 0:51 | A:362178882;C:314094030;G:296755145;T:392898841;N:136509 | 51 | 362178882 | 314094030 | 296755145 | 392898841 | 136509 | SRX21337079 | SRS18582324 | SRA1690795 | Friedrich Miescher Institute for Biomedical Research|Neurobiology | Friedrich Miescher Institute for Biomedical Research | 1 | 0.72509 | 0.19957 | 0.75306 | 0.62708 | 51 | B | usable mapping rate | illumina | hiseq_era | unknown | other | unknown | bulk | unknown | unknown | Switzerland | 2023-08-11 | Adult | Adult | Brain | Nervous System |