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Sample GSM1132979 Query DataSets for GSM1132979
Status Public on May 21, 2015
Title MDA-MB-231 YW3-56 treated sample, biological rep3
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 7.916528
7896738 6.209421
7896740 7.654678
7896742 9.781831
7896744 8.135693
7896746 10.76983
7896748 11.4229
7896750 6.589108
7896752 11.08072
7896754 9.203102
7896756 6.867581
7896759 8.264625
7896761 7.861948
7896779 8.40144
7896798 8.353329
7896817 8.171845
7896822 9.205946
7896859 7.236204
7896861 5.134993
7896863 6.665837

Total number of rows: 33297

Table truncated, full table size 549 Kbytes.

Supplementary file Size Download File type/resource
GSM1132979_MDA-MB-231-YW3-56-rep3.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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