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Sample GSM1132978 Query DataSets for GSM1132978
Status Public on May 21, 2015
Title MDA-MB-231 YW3-56 treated sample, biological rep2
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 7.605962
7896738 6.035292
7896740 6.94811
7896742 9.511894
7896744 7.882666
7896746 10.82894
7896748 11.65235
7896750 6.738879
7896752 11.34809
7896754 8.893554
7896756 7.098749
7896759 8.35902
7896761 7.891253
7896779 8.38512
7896798 8.495408
7896817 8.414432
7896822 9.269324
7896859 7.255941
7896861 5.51846
7896863 6.985713

Total number of rows: 33297

Table truncated, full table size 549 Kbytes.

Supplementary file Size Download File type/resource
GSM1132978_MDA-MB-231-YW3-56-rep2.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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