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Series GSE61042 Query DataSets for GSE61042
Status Public on Sep 04, 2014
Title Gene expression changes between sensitive and YK-4-279-resistant Ewing's Sarcoma cell lines
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Microarray gene expression analysis conducted from cell lines in each of three cohorts: (1) Resistant ES cell lines, (2) Sensitive parental ES cell lines treated with YK-4-279 for 72 hours, and (3) untreated sensitive parental ES cell lines (Three replicates from TC32 & TC71 original parental cell lines)
We used microarrays to detail the global programme of gene expression underlying mechanism of resistance to YK-4-279 within parental sensitive and resistant selected Ewing's Sarcoma cell lines. We identified distinct classes of up-regulated genes during this process.
 
Overall design Total RNA was extracted from the cell lines using the Qiagen miRNeasy Mini kit. RNA quality was assessed to have an RNA integrity number before amplification and labeling using Affymetrix’s GeneChip GeneChip®3’ IVT Express Kit following manufacturer’s instructions. Amplified and biotinylated cRNAs were hybridized onto Affymetrix GeneChip Human Genome U133A 2.0 cartridge arrays, Washed, and Stained with kit following manufacturer’s instructions. Arrays were scanned using Affymetrix GeneChip Scanner 3000 and the initial raw data were extracted using Affymetrix GeneChip Command Console-Expression software. The statistical analyses of scanned data were performed using default setting on GeneSpring GX 12.1 software (Agilent).
 
Contributor(s) LAMHAMEDI-CHERRADI S, Ramamoorthy V, Menegaz BA, Ludwig JA
Citation(s) 25964201
Submission date Sep 03, 2014
Last update date Dec 06, 2018
Contact name Joseph A. Ludwig
E-mail(s) jaludwig@mdanderson.org
Phone 713-792-4265
Organization name UT-MD-Anderson Cancer Center
Department Sarcoma Medical Oncology
Lab Sarcoma Medical Oncology
Street address 4SCR2-1042 1901 East Rd
City Houston
State/province Texas
ZIP/Postal code 77054
Country USA
 
Platforms (1)
GPL571 [HG-U133A_2] Affymetrix Human Genome U133A 2.0 Array
Samples (18)
GSM1495874 TC32 Parental-Rep1
GSM1495875 TC32 Parental-Rep2
GSM1495876 TC32 Parental-Rep3
Relations
BioProject PRJNA260133

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE61042_GeneSpring-normalized.txt.gz 5.4 Mb (ftp)(http) TXT
GSE61042_RAW.tar 36.1 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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