J. Cancer Mol. 5: 65-71, 2010

[Review Article]

Integrative Functional Genomics in Cancer Research and Its Clinical Implications

Kumaresan Ganesan, Saikat Banerjee, Paramasamy Gunasekaran, Patrick Tan, and Suresh K. Rayala

Department of Genetics, Centre for Excellence in Genomic Sciences, School of Biological Sciences, Madurai Kamaraj University, Madurai, India [K. Ganesan, S. Banerjee, P. Gunasekaran]; Duke-NUS Graduate Medical School and Genome Institute of Singapore, Singapore [P. Tan]; Department of Biotechnology, Indian Institute of Technology Madras, Chennai, India [S. K. Rayala]

Abstract:

Many cancer predisposition and causative genes have been identified in the past few decades and have been extensively evaluated in primary tumors.  The complex and highly heterogeneous nature of tumors requires more clinically useful candidate genes as prognostic, diagnostic, and therapeutic biomarkers for different subtypes of tumors and for predicting therapeutic response.  Although genomics platforms have revealed the complex nature of tumors, integrative functional genomics approaches have the potential to provide a holistic understanding of the molecular genomic processes of carcinogenesis.  While integration of the data gathered from genome and transcriptome is the simplest approach in integrative genomics, these approaches are also extended to analyze different levels of information, different cancer model systems, and multiple studies.  Recent studies have revealed that integrative genomics has the potential to revolutionize the diagnosis and management of cancer by offering an unprecedented comprehensive understanding of cancer through unbiased experimental approaches.

(Keywords: integrative genomics; cancer genomics; expression profiling; array CGH)

  Received 3/24/09; Revised 5/25/09; Accepted 5/27/09.

1. Correspondence: Dr. Suresh K. Rayala, Department of Biotechnology, Indian Institute of Technology Madras (IITM), Chennai 600036, India.  E-mail: rayala@iitm.ac.in

2. Abbreviations: BAC, bacterial artificial chromosome; aCGH, array comparative genomic hybridization; miRNA, microRNA; ChIP, chromatin immunoprecipitation; SNP, single-nucleotide polymorphism; RNAi, RNA interference; ALL, acute lymphoblastic leukemia.

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