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Sample GSM2789892 Query DataSets for GSM2789892
Status Public on Nov 02, 2018
Title MB231_p0#27_rep1
Sample type SRA
 
Source name breast cancer cells
Organism Homo sapiens
Characteristics cell line: MB231
cell type: p0
Treatment protocol Arginine deiminase (ADI, 0.3 µg/mL 48h) was added to MDA-MB-231 full growth medium.
Growth protocol DMEM (high glucose) supplemented with 10% FBS and pen/strep.
Extracted molecule total RNA
Extraction protocol RNA was extracted using Trizol protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Illumina Casava1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using bowtie.
ReadReads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using software Partek.
Genome_build: hg19
 
Submission date Sep 21, 2017
Last update date May 15, 2019
Contact name David K. Ann
E-mail(s) dAnn@coh.org
Organization name City of Hope
Street address 1500 E Duarte Rd
City Duarte
State/province CA
ZIP/Postal code 91010
Country USA
 
Platform ID GPL16791
Series (1)
GSE104105 Transcriptional profiling of MDA-MB-231 and its ρ0 cells (lacking mtDNA) after 48h arginine depletion by arginine deiminase (ADI).
Relations
BioSample SAMN07682269
SRA SRX3203781

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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