{"database": "metadata", "table": "run_metadata", "rows": [[54197, "SRR10106416", "SRX6838308", "SRS5379331", "SRP221490", "PRJNA565225", "longfin causes cis ectopic expression of the kcnh2a ether a go go K+ channel to autonomously prolong fin outgrowth", "GSE137352", "Transcriptome Analysis", "longfin mutant zebrafish grow and regenerate abnormally long fins. We sought to determine misregulated transcripts in the distal regenerate of 96 hpa caudal fins that could contribute to fin overgrowth or be the longfin causal gene. Overall design: We used RNA Seq to compare gene expression between replicates of microdissected distal regenerating fin tissue  distinguished by GFP negative tissue distal to sp7:GFP expressing cells  collected from longfin heterozygous adult fish and homozygous wildtype clutchmates. Each replicate consisted of pooled tissue from four caudal fins.", null, null, null, "lof 1", "GSM4076979", null, "source name:96 hpa lof distal regenerate|genotype:longfin heterozygous|transgene:sp7:eGFP|tissue:regenerating caudal fin|time:96 hours post amputation", "lof 1", "Basecalling by Illumina Real Time Analysis 2 RTA2. Sequence reads were mapped to GRCz11/danRer11 using TopHat2 Mapped reads were counted using HTSeq Genome build: GRCz11/danRer11 Supplementary files format and content: Tab delimited text files of HTSeq counts for each sample are provided", "96 hpa lof distal regenerate", null, "Tissue was collected and immediately homogenized in TRIzol reagent. RNA was isolated following the manufacturer's instruction. Libraries were prepared from 1 mg of isolated RNA using Kapa stranded mRNA Seq kit and protocol.", null, "genotype:longfin heterozygous|transgene:sp7:eGFP|tissue:regenerating caudal fin|time:96 hours post amputation", "GSM4076979", "GSM4076979: lof 1; Danio rerio; RNA Seq", "GSM4076979", null, "1", "Tissue was collected and immediately homogenized in TRIzol reagent. RNA was isolated following the manufacturer's instruction. Libraries were prepared from 1 mg of isolated RNA using Kapa stranded mRNA Seq kit and protocol.", "GEO Accession:GSM4076979", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP221490", null, null, "1_of_1_S7_L001_R1_001.fastq", "fastq", 3227655081.0, 31956981.0, "GSM4076979 r1", "0:101 1:0", "A:797302923;C:790047797;G:741073759;T:899054640;N:175962", 101, 0, null, null, 797302923, 790047797, 741073759, 899054640, 175962, "SRX6838308", "SRS5379331", "SRA961168", "GEO", "Stankunas, Biology- Institute of Molecular Biology, University of Oregon", 1, 0.94695, null, 0.12773, null, 0.71656, null, 0.51165, null, 101, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2019-09-12", "Undetermined", "Adult", "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": ["54197"], "units": {}, "query_ms": 6.2928360002842965}