alexa Gene Expression Profiling of Gastric Cancer
ISSN: 0974-276X

Journal of Proteomics & Bioinformatics
Open Access

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Research Article

Gene Expression Profiling of Gastric Cancer

Arivusudar Marimuthu1,2, Harrys K.C. Jacob1,2,3,4, Aniruddha Jakharia5,13, Yashwanth Subbannayya1,7, Shivakumar Keerthikumar1, Manoj Kumar Kashyap1,8, Renu Goel1,8, Lavanya Balakrishnan1,8, Sutopa Dwivedi1,9, Swapnali Pathare10, Jyoti Bajpai Dikshit10, Jagadeesha Maharudraiah1,11, Sujay Singh12,13, Ghantasala S Sameer Kumar1,8, M. Vijayakumar14, Kariyanakatte Veeraiah Veerendra Kumar14, Chennagiri Shrinivasamurthy Premalatha15, Pramila Tata10, Ramesh Hariharan10, Juan Carlos Roa16, T.S.K Prasad1,2, Raghothama Chaerkady1,2,3, Rekha Vijay Kumar15* and Akhilesh Pandey3,4,6,7*

1Institute of Bioinformatics, International Technology Park, Bangalore, 560066, India

2Manipal University, Madhav Nagar, Manipal, Karnataka 576104; India

3McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore 21205, Maryland, USA

4Department of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore 21205, Maryland, USA

5Department of Zoology, Gauhati University, Guwahati 781014, Assam, India

6Department of Oncology and 7Pathology, Johns Hopkins University School of Medicine, Baltimore 21205, Maryland, USA

7Rajiv Gandhi University of Health Sciences, Bangalore, 560041, Karnataka, India

8Department of Biotechnology, Kuvempu University, Shimoga 577451, Karnataka, India

9School of Biotechnology, Amrita Vishwa Vidyapeetham University, Kollam 690525, Kerala, India

10Strand Life Sciences, Bangalore 560024, Karnataka, India

11RajaRajeswari Medical college, Bangalore , 560074, India

12Imgenex Corporation, San Diego 92121, California, USA

13Imgenex India, Bhubaneswar 751024, Orissa, India

14Departments of Surgical Oncology, Kidwai Memorial Institute of Oncology, Bangalore 560029, Karnataka; India

15Pathology, Kidwai Memorial Institute of Oncology, Bangalore 560029, Karnataka; India

16Department of Pathology, Universidad de La Frontera, Temuco, Chile

Corresponding Author:
Dr. Akhilesh Pandey MD, PhD
McKusick-Nathans Institute of Genetic Medicine
733 N. Broadway, BRB 527, Johns Hopkins University
Baltimore, MD 21205
Tel: 410-502-6662
Fax: 410-502-7544
E-mail: [email protected]

Dr. Rekha V. Kumar, MD
Department of Pathology
Kidwai Memorial Institute of Oncology
Bangalore, Karnataka 560029; India. Tel: 091-080-6560708
Fax: 091- 080-6560723
E-mail: [email protected]

Received Date: December 11, 2010; Accepted Date: April 10, 2011; Published Date: April 16, 2011

Citation: Marimuthu A, Jacob HKC, Jakharia A, Subbannayya Y, Keerthikumar S, et al. (2011) Gene Expression Profiling of Gastric Cancer. J Proteomics Bioinform 4: 074-082. doi: 10.4172/jpb.1000170

Copyright: © 2011 Marimuthu A, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

 

Abstract

Gastric cancer is the second leading cause of cancer death worldwide, both in men and women. A genomewide gene expression analysis was carried out to identify differentially expressed genes in gastric adenocarcinoma tissues as compared to adjacent normal tissues. We used Agilent's whole human genome oligonucleotide microarray platform representing ?41,000 genes to carry gene expression analysis. Two-color microarray analysis was employed to directly compare the expression of genes between tumor and normal tissues. Through this approach, we identified several previously known candidate genes along with a number of novel candidate genes in gastric cancer. Testican-1 (SPOCK1) was one of the novel molecules that was 10-fold upregulated in tumors. Using tissue microarrays, we validated the expression of testican-1 by immunohistochemical staining. It was overexpressed in 56% (160/282) of the cases tested. Pathway analysis led to the identification of several networks in which SPOCK1 was among the topmost networks of interacting genes. By gene enrichment analysis, we identified several genes involved in cell adhesion and cell proliferation to be significantly upregulated while those corresponding to metabolic pathways were significantly downregulated. The differentially expressed genes identified in this study are candidate biomarkers for gastric adenoacarcinoma.

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