{"database": "metadata", "table": "run_metadata", "rows": [[40163, "SRR2924938", "SRX1438257", "SRS1168908", "SRP066406", "PRJNA302080", "Danio rerio Raw sequence reads", "PRJNA302080", "Whole Genome Sequencing", "The regulation of transcriptome responses in zebrafish embryo exposure to triadimefon", null, null, null, null, "D", null, "strain:AB strain|age:0|dev stage:embryo|sex:not determined|tissue:whole body|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "The regulation of transcriptome responses in zebrafish embryo exposure to triadimefon", "D", "D", "cDNA/Total RNA was extracted from 50 homogenized zebrafish embryos treated with and without xxx  respectively  by using Trizol regent Invitrogen  USA according to the manufacturer\u2019s instruction and treated with RNase free DNase I Takara Biotechnology  China. RNA integrity was confirmed with a minimum RNA integrated number value of 8 by the 2100 bio analyzer Agilent. PolyA mRNA was enriched with oligo dT beads and then was fragmented. The cleaved RNA fragments were transcribed into first strand cDNA using reverse transcriptase and random hexamer primers  which was followed by second  strand cDNA synthesis. The double stranded cDNA was further subjected to end repair  phosphorylation  3\u2019 adenylation and adaptor ligation in sequence. Adaptor ligated fragments were selected according to the size 250 to 350 bp  and the desired range of cDNA fragments were excised from the gel. The fragments were enriched by PCR amplification. The quality and quantity of the two libraries one library was treated with TDF but the other one did not were determined g on an Agilent 2100 Bioanalyzer and ABI StepOnePlus Real Time PCR System. Subsequently  the cDNA library was sequenced on a flow cell using Illumina HiSeq2000.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "Illumina HiSeq 2000", "<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP066406", null, null, "D.fq.gz", "fastq", 535039673.0, 10919177.0, "D", "0:49", "A:135797892;C:127799155;G:132966868;T:138440725;N:35033", 49, null, null, null, 135797892, 127799155, 132966868, 138440725, 35033, "SRX1438257", "SRS1168908", "SRA312306", "National Central University|Chen-Ssu-Ching lab", "National Central University", 1, 0.93993, null, 0.0586, null, 0.73391, null, 0.46855, null, 49, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "Taiwan", "2016-11-19", "Undetermined", "Embryo", "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": ["40163"], "units": {}, "query_ms": 7.5818019977305084}