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Whole genome scanning of lung tumors and mucosal biopsies on Affymetrix NspI-250K platform

ABSTRACT: Matched normal lymph node, tumors and corresponding mucosal biopsies from 4 lung cancer patients were scrutinized on Affymetrix 250K-NspI array platform. Frequently deleted regions genes were identified based on the LOH call as per manufacturer's guidelines and normalization. Frequently deleted genes in the tumors and mucosa were identified though this approach Affymetrix 250K-NspI- SNP arrays were performed according to the manufacturer's directions on DNA extracted from lung cancer and corresponding mucosal biopsy specimens. LOH analysis was done to identify genes that are frequently deleted.

ORGANISM(S): Homo sapiens

SUBMITTER: Santanu Dasgupta

PROVIDER: E-GEOD-29365 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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SH3GL2 is frequently deleted in non-small cell lung cancer and downregulates tumor growth by modulating EGFR signaling.

Dasgupta Santanu S Jang Jin Sung JS Shao Chunbo C Mukhopadhyay Nitai D ND Sokhi Upneet K UK Das Swadesh K SK Brait Mariana M Talbot Conover C Yung Rex C RC Begum Shahnaz S Westra William H WH Hoque Mohammad Obaidul MO Yang Ping P Yi Joanne E JE Lam Stephan S Gazdar Adi F AF Fisher Paul B PB Jen Jin J Sidransky David D

Journal of molecular medicine (Berlin, Germany) 20120912 3

The purpose of this study was to identify key genetic pathways involved in non-small cell lung cancer (NSCLC) and understand their role in tumor progression. We performed a genome wide scanning using paired tumors and corresponding 16 mucosal biopsies from four follow-up lung cancer patients on Affymetrix 250K-NSpI array platform. We found that a single gene SH3GL2 located on human chromosome 9p22 was most frequently deleted in all the tumors and corresponding mucosal biopsies. We further valida ...[more]

PMID: 22968441

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