{"database": "metadata", "table": "run_metadata", "rows": [[50945, "SRR8377245", "SRX5187212", "SRS4193614", "SRP174644", "PRJNA512103", "Danio rerio amh mutant RNA Seq", "PRJNA512103", "Other", "For 21dpf and 35dpf juvenile zebrafish  trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults  ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher  and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed  strand specific cDNA sequencing libraries using the NEXTflex\u2122 qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM  multiplexed  and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.", null, "pubmed:31399485", null, null, "WT8 35d", null, "strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 8 wild type 35 dpf organism or animal", null, null, null, null, null, null, null, null, "Danio rerio amh mutant RNA seq", "WT8 35d", "WT8 35d", "Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores  2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed  strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies  normalized to a concentration of 2.3nM  and multiplexed. Prior to sequencing  we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "Oligo-dT", "PAIRED", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP174644", null, null, "WT8_35d_R1.fq.gz WT8_35d_R2.fq.gz", "fastq fastq", 1932194842.0, 9565321.0, "WT8 35d R1.fq.gz", "0:101 1:101", "A:482699320;C:469072746;G:471446663;T:504153836;N:4822277", 101, 101, null, null, 482699320, 469072746, 471446663, 504153836, 4822277, "SRX5187212", "SRS4193614", "SRA827573", "University of Oregon|Biology", "University of Oregon", 2, 0.78256, 0.81142, 0.09076, 0.0636, 0.76343, 0.76808, 0.4583, 0.63397, 101, 101, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "United States", "2019-09-06", "Juvenile", "Juvenile", "Trunk", "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": ["50945"], "units": {}, "query_ms": 11.562540996237658}