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Sample GSM2267401 Query DataSets for GSM2267401
Status Public on Sep 28, 2016
Title MKN7 [RNA-seq]
Sample type SRA
Source name Gastric cancer cell line
Organism Homo sapiens
Characteristics tissuetype: Gastric cancer cell line
histology: Well-differentiated tubular adenocarcinoma
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Qiagen RNeasy Mini Kit according to the manufacturer’s protocol.
Sequencing libraries were prepared using Illumina TruSeq RNA Sample Prep Kit v2 according to manufacturer’s protocol.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Data processing RNA-seq reads were aligned to the human genome (hg19) using TopHat2-2.0.12
Transcript abundances at the gene level were estimated by cufflinks
Gene expression from primary samples showing variation greater than zero were corrected for potential batch effects using ComBat
Genome_build: hg19
Supplementary_files_format_and_content: the genomic intervals followed by sequencing coverage.
Submission date Aug 11, 2016
Last update date May 15, 2019
Contact name Aditi Qamra
Organization name GIS
Street address 60 Biopolis Street, Genome, #02-01
City Singapore
ZIP/Postal code 138672
Country Singapore
Platform ID GPL11154
Series (2)
GSE85465 Epigenomic Profiling of Primary Gastric Adenocarcinoma Reveals Super-enhancer Heterogeneity [RNA-seq]
GSE85467 Epigenomic Profiling of Primary Gastric Adenocarcinoma Reveals Super-enhancer Heterogeneity
BioSample SAMN05560100
SRA SRX2012792

Supplementary file Size Download File type/resource
GSM2267401_MKN7.bedgraph.gz 209.2 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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