{"database": "metadata", "table": "run_metadata", "rows": [[43239, "SRR5921075", "SRX3081902", "SRS2420530", "SRP115127", "PRJNA397735", "Sequencing of Danio rerio muscle from tert mutants and controls", "GSE102431", "Transcriptome Analysis", "Comparison of gene expression profiles from Danio rerio muscle of wiltype AB and homozygous/heterozygous tert mutants AB tert /   AB tert+/. The RNA seq data comprise 3 groups. Jena Centre for Systems Biology of Ageing   JenAge www.jenage.de Overall design: 13 samples in 3 groups: AB 5 samples  AB tert /  3 samples  AB tert+/  5 samples", null, "pubmed:34680427", null, "NH FLI 257 muscle RNAseq", "GSM2736458", null, "source name:muscle|strain:AB wildtype|tissue:muscle|age:3 month|Sex:male", "NH FLI 257 muscle RNAseq", "Sequence information was extracted in FastQ format using bcl2fastq software 1.8.4 data processing step. Reads were mapped using STAR 2.4.1d. Reads per gene were counted using featureCounts 1.4.6 p4. Counts were normalized to RPKM values as described in Mortazavi et al. 2008. Genome build: genome: GRCz10  and respective gene annotation GRCz10.84 Supplementary files format and content: The Excel files include raw counts sample counts.xls and RPKM values sample rpkms.xls of all genes for each sample.", "muscle", null, "Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq RNA Library Preparation Kit v2 following the manufacturer's instruction.", null, "strain:AB wildtype|tissue:muscle|age:3 month|Sex:male", "GSM2736458", "GSM2736458: NH FLI 257 muscle RNAseq; Danio rerio; RNA Seq", "GSM2736458", null, "1", "Extraction was done as described in Baumgart et al. 2012. PMID:22487494 Library preparation was done using Illumina's TruSeq RNA Library Preparation Kit v2 following the manufacturer's instruction.", "GEO Accession:GSM2736458", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP115127", null, null, null, null, 2850491082.0, 55891982.0, "GSM2736458 r1", "0:51", "A:728039571;C:709536210;G:689699735;T:723071146;N:144420", 51, null, null, null, 728039571, 709536210, 689699735, 723071146, 144420, "SRX3081902", "SRS2420530", "SRA597917", "GEO", "Leibniz Institute for Age Research - Fritz Lipmann Institute", 1, 0.95843, null, 0.03933, null, 0.82968, null, 0.52274, null, 51, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Germany", "2017-08-09", "Adult", "Adult", "Muscle", "Muscular 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": ["43239"], "units": {}, "query_ms": 11.681108007906005}