{"database": "metadata", "table": "run_metadata", "rows": [[77311, "SRR25453757", "SRX21186683", "SRS18446704", "SRP452071", "PRJNA999746", "Transcriptomic differences between deeply quiescent and activated adult NSCs", "GSE239594", "Transcriptome Analysis", "To identify pathways regulating NSC quiescence  with a possible link to quiescence depth  we used double transgenic Tgher4:drfp;Tgmcm5:gfp fish and paradigms predicted to highlight deep vs shallower quiescence.  In adult fish 3 mpf  mpf   we performed bulk RNA sequencing on FACS sorted RFPhigh GFPneg qNSCs expressing strongly her4  signing NSCs transcriptionally remote from activation  and activated NSCs. Overall design: To investigate transcriptomic differences between adult deeply quiescent NSCs and activated NSCs  we performed bulk RNA Seq", "parent bioproject:PRJNA999741", "pubmed:38518783", null, "Experiment 13  tgher4:RFP  tgmcm5:gfp", "GSM7668465", null, "source name:brain/telencephali|tissue:brain/telencephali|genotype:tgher4:RFP  tgmcm5:gfp|age:3 mpf|nsc status:Activated|condition:G|replicate:r13|geo loc name:missing|collection date:missing", "Experiment 13  tgher4:RFP  tgmcm5:gfp", "Reads were mapped to zebrafish genome using STAR Gene counts were computed using featureCounts Differential expression analysis was performed with DESeq2 Assembly: GRCz10 Supplementary files format and content: Tab delimited text file with gene Ids and their respective counts", "brain/telencephali", null, "PicoPure Isolation kit Life technologies  RNase free DNase Set Qiagen\u00ae SMARTer\u00ae Stranded Total RNA Seq Kit   Pico Input Mammalian kit Clontech Laboratories", null, "tissue:brain/telencephali|genotype:tgher4:RFP  tgmcm5:gfp|age:3 mpf|nsc status:Activated|condition:G|replicate:r13", "GSM7668465", "GSM7668465: Experiment 13  tgher4:RFP  tgmcm5:gfp; Danio rerio; RNA Seq", "GSM7668465 r1", "GSM7668465", "1", "PicoPure Isolation kit Life technologies  RNase free DNase Set Qiagen\u00ae SMARTer\u00ae Stranded Total RNA Seq Kit   Pico Input Mammalian kit Clontech Laboratories", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP452071", null, null, "13RG.fastq.gz", "fastq", 387535808.0, 6055247.0, "GSM7668465 r1", "0:64", "A:94655944;C:99109692;G:113770594;T:79997029;N:2549", 64, null, null, null, 94655944, 99109692, 113770594, 79997029, 2549, "SRX21186683", "SRS18446704", "SRA1682601", "Institut Pasteur", "Institut Pasteur", 1, 0.87637, null, 0.29329, null, 0.7877, null, 0.59532, null, 64, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "full_length", "cdna_unspecified", "smarter", "bulk", "bulk", "bulk", null, "France", "2023-07-28", "Adult", "Adult", "Brain", "Nervous System"]], "columns": ["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"], "primary_keys": ["rowid"], "primary_key_values": ["77311"], "units": {}, "query_ms": 13.894759000322665}