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Sample GSM4494715 Query DataSets for GSM4494715
Status Public on Jan 13, 2021
Title HCP-1 control
Sample type SRA
 
Source name colorectal cancer cells
Organism Homo sapiens
Characteristics cell line: HCP-1
cell type: colorectal cancer cells
treatment: control
Treatment protocol cells were treated with 10 uM of IOX1 or control for 24 hours
Growth protocol 10% FBS in DMEM
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from cells using NucleoSpin® RNA II RNA purification kit (Machery-Nagel; #740955.20).
Sequencing libraries were generated using a KAPA RNA-Seq Library Preparation Kits (KAPA Biosystems, cat#07960140001)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Data processing RNAs were single-end sequenced on Illumina machines
Reads was aligned using Tophat with the hg18 build of the human genome.
Transcript assembly and differential expression were determined using Cufflinks with Refseq mRNAs.
RNA-seq data was analyzed using the cummeRbund package in R.
Genome_build: hg18
Supplementary_files_format_and_content: tab-delimited text file includes RPKM values for each Sample
 
Submission date Apr 23, 2020
Last update date Jan 13, 2021
Contact name Jiong Li
E-mail(s) jli29@vcu.edu
Phone 3105617186
Organization name VCU
Street address 800 E Leigh Street, suite 212
City Richmond
State/province Virginia
ZIP/Postal code 23298
Country USA
 
Platform ID GPL21290
Series (1)
GSE149233 RNA-seq analysis of HCT116, HCP-1 and DLD-1 cells after IOX1 treatment
Relations
BioSample SAMN14681264
SRA SRX8167070

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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