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Series GSE41036 Query DataSets for GSE41036
Status Public on Oct 31, 2012
Title Comparative Genome-Wide Transcriptional Analysis of Bilateral Internal Mammary Arteries
Organism Homo sapiens
Experiment type Expression profiling by array
Summary In Coronary Artery Bypass Grafting (CABG), the combined use of Left or Right Internal Mammary Artery (LIMA or RIMA) -collectively known as Bilateral IMAs (BIMAs)- provides a survival advantage over the LIMA alone. Several studies analyzed the gene expression in LIMAs and other conduits, however they either used a candidate gene approach or analyzed a small number of samples. Additionally, RIMA has never been analyzed compared to LIMA. Here we report a genome-wide transcriptional analysis of BIMA to investigate the expression profile of these conduits in patients undergoing CABG. Marginal differences were reported between LIMA and RIMA (p <0.05) using a linear model for microarray data. Ingenuity Pathway Assist (IPA) analysis found no consistent set of over-represented pathways and no trends in patterns of gene expression. As expected, in comparing the BIMAs to the aorta, we found differences in pathways and processes associated with atherosclerosis, inflammation, and cell signaling. Although evidence in favor of the use of BIMA in CABG has been available for over a decade, their routine use in clinical practice remains very low accounting for only 4% of CABG procedures in the US. Despite differences in embryologic development, our genome-wide transcriptional analysis, show marginal differences between LIMA and RIMA. Taken together, clinical and genomic analyses provide evidences that could impact the independent or combined use of the BIMAs as a conduit in CABG.
Overall design We selected 32 patients from whom we had frozen archival tissue from aorta, LIMA, and RIMA in the Cardiovascular Blood and Tissue Bank at the Valley Columbia Heart Center . The mammary and aortic tissues were harvested at time of CABG. The surgeon dissected the two most distal aspects of LIMA and RIMA segments and obtained a ≥1cm sample for the tissue bank. The tissue sample was placed in a cryomold and processed as a “frozen section” specimen using standard OCT gel. Total RNA was extracted using Qiagen RNeasy Mini Kit, RNA integrity was assessed using the Agilent 2100 BioAnalyzer and RNA quantities and purity were determined using a NanoDrop Spectrophotometer. RNA samples were amplified using the NuGen Ovation RNA Amplification System V2 The resulting cDNA was labeled and hybridized to the Affymetrix U133A 2.0 GeneChip. 73 arrays at the end.
Contributor(s) Grau JB, Quackenbush J, Ferrari G, Hu L, Johnson C, Mak A, Shaw R, Sayles K, Strobeck J
Citation(s) 24858532
Submission date Sep 20, 2012
Last update date Aug 16, 2019
Contact name Lan Hu
Phone 6176326545
Organization name Dan-Farber Cancer Institute
Street address 450 Brookline Ave
City Boston
ZIP/Postal code 02215
Country USA
Platforms (1)
GPL571 [HG-U133A_2] Affymetrix Human Genome U133A 2.0 Array
Samples (73)
GSM1007056 Sample 909-0361, Aorta
GSM1007057 Sample 909-0361, RIMA
GSM1007058 Sample 909-0361, LIMA
BioProject PRJNA175597

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
GSE41036_RAW.tar 126.2 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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