{"database": "metadata", "table": "run_metadata", "rows": [[55731, "SRR10741403", "SRX7416887", "SRS5863681", "SRP238455", "PRJNA596870", "Transcriptome  of juvenile zebrafish treated with the  aromatase inhibitor exemestane and solvent control", "GSE142353", "Transcriptome Analysis", "To reveal the transcriptomic changes during the sex differetiation in larval zebrafish  we treated the lavarl fish with aromatase inhibitors EM  CAS: 107868 30 4  100 \u00b5g/L  as well as solvent as a control  and sampled them post the exposure. Overall design: PolyA+ RNA seq were performed on 6 samples  each of which was a mixture of 25 juvenile zebrafish. There are twor groups of larval zebrafish were exposed for two exposure treatments. Each group contained 3 replicates  with 25 fish per replicate. The exposure treatments included 1 DMSO 10 \u00b5L/L  2 EM + DMSO. The exposure periods were 32 days for zebrafish.", "parent bioproject:PRJNA596764", "pubmed:31910818", null, "Zebrafish larva  EM 32 rep1", "GSM4226242", null, "source name:EM 32d replicates1|tissue:Whole body|strain:AB|treatment:EM10\u03bcg/L|age:32d|library type:fr firststrand dUTP", "Zebrafish larva  EM 32 rep1", "High throughput sequencing raw image data files were converted to reads using fqtools plus analysis. We used FastqC v0.11.8 to evaluate the raw read quality statistics. Reads were mapped to the zebrafish genome Ensembl v95 by Hisat2 v2.0.5 with parameters \u201c  dta  x   rna strandness RF\u201d and \u201c  known splicesite infile\u201d followed by gene annotation in GTF format Ensembl v95. The output of Hisat2 were converted to BAM format and sorted by Samtools v1.5. Genome build: GRCz11 Supplementary files format and content: HTSeq 0.9.1 was used to count reads mapped to each gene with parameters \u201c t exon \u2013i gene id  r pos  s reverse\u201d.", "EM 32d replicates1", "The AI EM 6 methylenandrosta 1  4 diene 3  17 dione  \u2265 98% purity  Bervita used for  juvenile zebrafish was dissolved in 10 \u03bcg/L DMSO. Two groups of juvenile zebrafish were also raised in continuous exposure to 10 \u03bcg/L EM or the solvent control for 32 days.", "RNA samples from each individual were exacted using Trizol Invitrogen according to the manufacturer's protocol. We assessed the overall quality of extracted RNA by GEL  RNA purity was checked using the NanoPhotometer spectrophotometer IMPLEN  CA  USA  quantified its concentration with Qubit 3.0 Flurometer Life Technologies  CA  USA  RNA integrity was assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. All the sequencing libraries were prepared at Annoroud Beijing  Chinausing VAHTS Stranded mRNA seq Library Prep Kit Vazyme Biotech following the official protocol.", "Zebrafish AB strain were obtained from China Zebrafish Resource Center and maintained at 28.5 oC with a light/dark cycle of 14/10 h.  For each juvenile sample  fifty embryos of zebrafish were maintained in a petri dish from 0 dpf  and transferred to a three litter tank in the recirculation systems at 5 dpf. They were fed with paramecium at 5 dpf 15 dpf and fairy shrimp at 16 dpf 32 dpf twice a day.", "tissue:Whole body|strain:AB|treatment:EM10\u03bcg/L|age:32d|library type:fr firststrand dUTP", "GSM4226242", "GSM4226242: Zebrafish larva  EM 32 rep1; Danio rerio; RNA Seq", "GSM4226242", null, "1", "RNA samples from each individual were exacted using Trizol Invitrogen according to the manufacturer's protocol. We assessed the overall quality of extracted RNA by GEL  RNA purity was checked using the NanoPhotometer spectrophotometer IMPLEN  CA  USA  quantified its concentration with Qubit 3.0 Flurometer Life Technologies  CA  USA  RNA integrity was assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. All the sequencing libraries were prepared at Annoroud Beijing  Chinausing VAHTS Stranded mRNA seq Library Prep Kit Vazyme Biotech following the official protocol.", "GEO Accession:GSM4226242", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "HiSeq X Ten", null, "SRP238455", null, null, "59_R1.fq 59_R2.fq", "fastq fastq", 4625748600.0, 15419162.0, "GSM4226242 r1", "0:150 1:150", "A:1244970811;C:1059169068;G:1069448326;T:1252147187;N:13208", 150, 150, null, null, 1244970811, 1059169068, 1069448326, 1252147187, 13208, "SRX7416887", "SRS5863681", "SRA1014473", "GEO", "College of Life Science and Technology, Huazhong Agricultural University", 2, 0.93911, 0.94313, 0.07744, 0.07485, 0.65561, 0.65955, 0.50235, 0.5093, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "unknown", "bulk", "unknown", "unknown", null, "China", "2019-12-19", "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": ["55731"], "units": {}, "query_ms": 9.337879993836395}