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Sample GSM1132977 Query DataSets for GSM1132977
Status Public on May 21, 2015
Title MDA-MB-231 YW3-56 treated sample, biological rep1
Sample type RNA
Source name MDA-MB-231 cells treat with 10μM YW3-56 for 8hr
Organism Homo sapiens
Characteristics cell line: MDA-MB-231
treatment: YW3-56
Treatment protocol DMSO and YW3-56 were added when cells reached around 70% confluence. Cells were then treated with 10μM YW3-56 for 8hr.
Growth protocol MDA-MB-231 cells were cultured in DMEM medium (Gibco) supplemented with 10% FBS and 1% penicillin-streptomycin in a 5% CO2 incubator at 37 °C.
Extracted molecule total RNA
Extraction protocol Extraction of total RNA was performed using the RNeasy Mini Kit (Qiagen) following manufacturer’s instructions.
Label biotin
Label protocol Label the resulting fragmented cDNA using the Affymetrix GeneChip WT Terminal Labeling Kit (#900671) according to the manufacturer’s protocol. DNA is labeled by TdT with the affymetrix proprietary DNA Labeling Reagent that is covalently linked to biotin.
Hybridization protocol Prepare hybridization cocktail using the GeneChip Hybridization Wash and Stain Kit (#702232) and hybridize arrays at 45°C for 16 hours in the Affymetrix GeneChip Hybridization Oven 640.
Scan protocol Stained arrays were scanned using the GeneChip Scanner 3000 7G.
Data processing Data from Affymetix GeneChips were normalized using the Robust Multichip Average (RMA) method with Bioconductor’s affy package.
Submission date May 02, 2013
Last update date May 21, 2015
Contact name Yanming Wang
Organization name The Penn State University
Street address 454 North Frear Building
City University Park
State/province Pennsylvania
ZIP/Postal code 16802
Country USA
Platform ID GPL6244
Series (1)
GSE46590 Expression data from MDA-MB-231 cells treated with vehicle or YW3-56

Data table header descriptions
VALUE Log2 RMA signal

Data table
7896736 7.859776
7896738 6.520736
7896740 7.542314
7896742 9.778767
7896744 8.10136
7896746 10.40557
7896748 11.50522
7896750 7.032157
7896752 11.35395
7896754 9.096284
7896756 6.828543
7896759 8.284457
7896761 7.657938
7896779 8.40464
7896798 8.31021
7896817 8.13495
7896822 9.450865
7896859 7.07313
7896861 5.139271
7896863 6.832541

Total number of rows: 33297

Table truncated, full table size 549 Kbytes.

Supplementary file Size Download File type/resource
GSM1132977_MDA-MB-231-YW3-56-rep1.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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