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अमूर्त

Metagenomic Analysis of Molecular Profile of Breast Cancer Using Genie a Literature Based Gene Prioritizing Tool: A Novel Approach

Amit Kumar Yadav and Vidya Jha

Background: The biological complexity and heterogeneity of breast cancer can be explained by molecular profile. Microarray technique is the method of choice to study it. But there are certain limitations. Computational techniques are a novel method to study gene expression profile.

Materials and method: Genie, a freely available web based software was used to analyze literature, gene and homology information from MEDLINE, NCBI Gene and HomoloGene databases. Inputs given were target species (Homo sapiens) and biomedical topic (breast cancer). According to input provided genes of target species are prioritized.

Results: The ranking given to 1906 reported genes was not along expected lines. Therefore, they were manually re-ranked according to number of hits. These were narrowed to 70. The proteins encoded by these genes and their functions were obtained from NCBI database. On the basis of their function and role in carcinogenesis these genes were then grouped together into distinct categories.

Conclusion: A novel computational approach to study molecular profile of breast cancer has been demonstrated. A panel of 70 genes to study gene expression profile of breast cancer has been suggested. These genes comprehensively evaluate all aspects of molecular pathogenesis of breast cancer and recommended for future clinical studies.