{"database": "metadata", "table": "run_metadata", "rows": [[49187, "SRR7764528", "SRX4620144", "SRS3722682", "SRP159053", "PRJNA488354", "Molecularly distinct models of zebrafish Myc induced B cell leukemia", "GSE119173", "Transcriptome Analysis", "The goal of this study was to compare transcriptomic profiles of two recent B cell ALL models in zebrafish  expressing either mMyc GSE108855 or hMYC transgenes. 13 unique hMYC expressing samples are included. Overall design: 13 zebrafish ALL from the rag2:hMYC; lck:GFP double transgeneic background.", null, "pubmed:30573774", null, "hMYC 1", "GSM3360010", null, "tissue:GFP+ FACS purified ALL from total body|strain:rag2:hMYC; lck:eGFP double transgenic line", "hMYC 1", "Illumina bcl2fastq2 was used for basecalling. RNA Seq data were processed as previously described in Garcia et al.  2018 PMID 29749398.  Briefly  reads were aligned using STAR Dobin et al.  2013 to GRCz10.  Picard was used to filter out potential PCR duplicates.  Counts were assigned to each gene using featureCounts Liao et al.  2014. Genome build: GRCz10 Supplementary files format and content: tab delimited text file includes count matrix for all samples", "GFP+ FACS purified ALL from total body", null, "Trizol extraction of total RNA was performed according to the manufacturer's instructions. Illumina TruSeq Stranded RNA Sample Prep Kit Cat#FC 122 1001 was used with 100 ng of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols", null, "strain:rag2:hMYC;lck:eGFP double transgenic line", "GSM3360010", "GSM3360010: hMYC 1; Danio rerio; RNA Seq", "GSM3360010", null, "1", "Trizol extraction of total RNA was performed according to the manufacturer's instructions. Illumina TruSeq Stranded RNA Sample Prep Kit Cat#FC 122 1001 was used with 100 ng of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols", "GEO Accession:GSM3360010", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP159053", null, null, "MCB_1_c_CGATGT_R1_concan.fastq.gz MCB_1_c_CGATGT_R2_concan.fastq.gz", "fastq fastq", 4646978084.0, 23004842.0, "GSM3360010 r1", "0:101 1:101", "A:1211324194;C:1106543328;G:1120164021;T:1202883527;N:6063014", 101, 101, null, null, 1211324194, 1106543328, 1120164021, 1202883527, 6063014, "SRX4620144", "SRS3722682", "SRA764101", "GEO", "Pediatrics, University of Oklahoma Health Sciences Center", 2, 0.92808, 0.9305, 0.10385, 0.10435, 0.76485, 0.76627, 0.51885, 0.51967, 101, 101, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2018-08-29", "Undetermined", "Undetermined", "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": ["49187"], "units": {}, "query_ms": 8.17641700268723}