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Series GSE12971 Query DataSets for GSE12971
Status Public on Jan 31, 2010
Title MCF-7 Luciferase, PARP-1, PARG, SIRT1, and macroH2A Knockdown
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Affymetrix expression arrays were used to compare expression patterns upon knockdown of PARP-1, PARG, SIRT1, or macroH2A in comparison to Luciferase control.
Overall design Total RNA isolated from three independently generated control-matched MCF-7 knockdown cell lines targeting Luciferase (control), PARP-1, PARG, SIRT1, and macroH2A was used to probe Affymetrix Human U133A 2.0 Expression Microarrays.

The raw array data was processed by Affymetrix GeneChip Operating Software (GCOS) to obtain detection calls (ABS_CALL) and signal values (VALUE_2). The signals were then normalized by scaling to a target value of 500 using GCOS. To adjust for batch effects due to day-to-day differences in RNA isolations, the empirical Bayes method was applied to the data set. After adjusting any values less than 0.01 to 0.01, the data was log2 transformed, median centered for each array, and median centered for each individual probe set (VALUE). Filters were then applied to obtain final gene lists.
Contributor(s) Frizzell KM, Gamble MJ, Zhang T, Kraus W
Citation(s) 19812418, 19478080
Submission date Sep 29, 2008
Last update date Dec 06, 2018
Contact name W. Lee Kraus
Organization name UT Southwestern Medical Center
Street address 5323 Harry Hines Blvd.
City Dallas
State/province TX
ZIP/Postal code 75390-8511
Country USA
Platforms (1)
GPL571 [HG-U133A_2] Affymetrix Human Genome U133A 2.0 Array
Samples (15)
GSM324888 MCF-7 Luciferase Replicate 1
GSM324889 MCF-7 Luciferase Replicate 2
GSM324890 MCF-7 Luciferase Replicate 3
BioProject PRJNA112579

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
GSE12971_RAW.tar 30.6 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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