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Series GSE51266 Query DataSets for GSE51266
Status Public on Oct 01, 2013
Title Gene expression changes induced by LKB1 expression in human lung adenocarcinoma cell lines
Organism Homo sapiens
Experiment type Expression profiling by array
Summary LKB1 is a tumor suppressor lost in approximately 30% of lung adenocarcinomas. It is a serine-threonine kinase involved in regulating metabolism, proliferation, and cell polarity. We have characterized its association with mRNA expression profiles in resected tumors and in cell lines, but little is known about the direct effects of LKB1 on the regulation of these genes.
This study investigates the effects of LKB1 activity on mRNA expression in two LKB1-mutant lung adenocarcinoma cell lines, H2122 and A549. Wild-type LKB1 has been stably expressed in these cell lines using a pBABE retrovirus as well as an empty pBABE control and a kinase-dead mutant of LKB1 (K78I) control (Addgene). Samples submitted are two cell lines, three experimental conditions, and three replicates, for a total of 17 samples (one sample was excluded for poor RNA quality). Gene expression of these samples are analyzed to determine transcriptional regulatory effects of LKB1 expression. Results of this analysis are compared to our analysis of resected human tumors to determine gene patterns that are differentially expressed between LKB1-deficient and LKB1-wild-type tumors whose expression is also affected by restoration of LKB1 in vitro.
Overall design RMA gene expression was taken from two cell lines stably expressing LKB1 or controls of K78I mutant LKB1 or empty pBABE vector. Log2 average expression differences are calculated and compared to results from analysis of gene expression associated with LKB1 loss in resected human tumors.
Contributor(s) David C, Jacob K
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Submission date Sep 30, 2013
Last update date Nov 08, 2016
Contact name David Carbone
Organization name Ohio State University
Department Internal Medicine
Street address 460 West 12th Avenue; 488 BRT
City Columbus
State/province Ohio
ZIP/Postal code 43210
Country USA
Platforms (1)
GPL11532 [HuGene-1_1-st] Affymetrix Human Gene 1.1 ST Array [transcript (gene) version]
Samples (17)
GSM1241444 A549-pBABE_rep1
GSM1241445 A549-LKB1_rep1
GSM1241446 A549-LKB1KD_rep1
BioProject PRJNA222271

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Supplementary file Size Download File type/resource
GSE51266_RAW.tar 70.8 Mb (http)(custom) TAR (of CEL)
Processed data provided as supplementary file

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