{"database": "metadata", "table": "run_metadata", "rows": [[70210, "SRR19572328", "SRX15624354", "SRS13324584", "SRP378897", "PRJNA846701", "Fin ray branching is defined by TRAP+ osteolytic tubules in zebrafish", "GSE205599", "Transcriptome Analysis", "Study and define how caudal fin rays mineralize and are shaped during regeneration  providing a detailed perspective about its formation and bifurcation and identifying key roles of OLTs. Overall design: Comparative gene expression analysis of regenerating zebrafish fins between 1 and 3 dy post amputation", null, null, null, "1 NGS2016020501P112", "GSM6215359", null, "source name:Danio Rerio caudal fin regenerated tissue 24h|tissue:caudal fin regenerated tissue|treatment:24h", "1 NGS2016020501P112", "CLC Genomics Workbench 9.0.1. Sequence reads were trimmed for adaptor sequence/low quality sequence using CLC genomic benchwork parameter  Quality limit: 0.01 Trimmed sequence reads were mapped to GRCz10 using CLC genomic benchwork parameters  mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.95 similarity fraction: 0.95 Read count extraction and normalization were performed using CLC genomic benchwork Assembly: GRCz10 Supplementary files format and content: tab delimited text files include RPKM values for each Sample", "Danio Rerio caudal fin regenerated tissue 24h", null, "The regenerated tissue was homogenized and a phenolic extraction was performed as previously described in Chomczynski and Sacchi  2006 Illumina TruSeq Stranded mRNA Library Preparation Kit", null, "tissue:caudal fin regenerated tissue|treatment:24h", "GSM6215359", "GSM6215359: 1 NGS2016020501P112; Danio rerio; RNA Seq", "GSM6215359 r1", "GSM6215359", "1", "The regenerated tissue was homogenized and a phenolic extraction was performed as previously described in Chomczynski and Sacchi  2006 Illumina TruSeq Stranded mRNA Library Preparation Kit", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP378897", null, "loader:fastq load.py", "1-NGS2016020501P112_R1.fastq.gz 1-NGS2016020501P112_R2.fastq.gz", "fastq fastq", 6057446462.0, 30269459.0, "GSM6215359 r1", "0:99.85 1:100.27", "A:1647553047;C:1386800169;G:1350820899;T:1671970842;N:301505", 99, 100, null, null, 1647553047, 1386800169, 1350820899, 1671970842, 301505, "SRX15624354", "SRS13324584", "SRA1433229", "NGS, STAB VIDA", "NGS, STAB VIDA", 2, 0.94274, 0.94447, 0.09517, 0.09363, 0.7332, 0.73499, 0.50165, 0.50148, 101, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Portugal", "2022-06-07", "Undetermined", "Undetermined", "Fin", "Surface Structure"]], "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": ["70210"], "units": {}, "query_ms": 7.252097999298712}