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Sample GSM3782970 Query DataSets for GSM3782970
Status Public on Jun 01, 2020
Title RKO_3
Sample type SRA
 
Source name Cell culture
Organism Homo sapiens
Characteristics cell type: human colorectal cancer cell line
cell line: RKO, ATCC CRL-2577
genotype/variation: control
Extracted molecule total RNA
Extraction protocol Cells were trypsinized and pelleted and total RNA was isolated using the Qiagen RNeasy mini kit with on-column DNAse digestion. The RNA integrity and concentration was determined on a Bioanalyzer 2100 instrument (Agilent) using an RNA 6000 Nano kit.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Ion Torrent Proton
 
Description RKO rep 3
Data processing The reads were aligned to the human genome hg19 assembly (https://genome.ucsc.edu) using Tophat2 software (version 2.0.4)
The FPKM summary and statistical tests were performed using the Cufflinks tool (version 2.2.1)
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files with RPKM values for each Sample.
 
Submission date May 20, 2019
Last update date Jun 01, 2020
Contact name L. H.
Organization name Uppsala University
Street address Dag Hammarskjölds Väg 20
City Uppsala
ZIP/Postal code 751 85
Country Sweden
 
Platform ID GPL17303
Series (1)
GSE131507 Gene regulation by restoration of KMT2C in human colorectal cancer cells HCT116 and RKO
Relations
BioSample SAMN11786204
SRA SRX5869434

Supplementary file Size Download File type/resource
GSM3782970_Sample9_FPKM.txt.gz 135.7 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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