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  1. Chanda P, Zhang A, Brazeau D, Sucheston L, Freudenheim J, Ambrosone C, and Murali Ramanathan. Information theoretic metrics for visualizing gene-environment interactions. American Journal of Human Genetics. 81(5):939:963 (2007). PMID: 17924337. DOI: 10.1086/521878.

  2. Cho Y, Hwang W, Murali Ramanathan and Zhang A. Semantic integration to identify overlapping functional modules in protein interaction networks. BMC Bioinformatics. 8(1):265 (2007). PMID: 17650343. DOI: 10.1186/1471-2105-8-265.

  3. Hwang W, Kim T, Cho Y-R, Zhang A and Murali Ramanathan. SIGN: Reliable protein interaction identification by integrating the similarity in GO and the similarity in protein interaction networks. In Proceedings of IEEE 7th Symposium on Bioinformatics and Bioengineering (BIBE 2007), 14-17 October 2007, Boston, MA.

  4. Hwang W, Cho Y, Zhang A, and Murali Ramanathan. CASCADE: A novel quasi all paths-based analysis algorithm for clustering biological interactions. BMC Bioinformatics. 9(1):64 (2008). PMID: 18230159. DOI: 10.1186/1471-2105-9-64

  5. Chanda P, Sucheston L, Zhang A, Brazeau D, Freudenheim J, Ambrosone C, and Murali Ramanathan. AMBIENCE: A novel algorithm for identifying and visualizing informative genetic and environmental associations with complex disease phenotypes. Genetics. 180(2):1191-210 (2008). PMID: 18780753. DOI: 10.1534/genetics.108.088542.

  6. Hwang W, Cho Y, Zhang A, and Murali Ramanathan. Identification of information flow-modulating drug targets: A novel bridging paradigm for drug discovery. Clinical Pharmacology and Therapeutics. 84(5): 563-572 (2008) PMID: 18615007. DOI: 10.1038/clpt.2008.129. See Editorial Commentary: Faustino RS, and Terzic A, Bioinformatic networks: Molecular reticles for pinpointing pharmacological target selection. Clinical Pharmacology and Therapeutics. 84(5): 543-545 (2008) PMID: 18941454. DOI: 10.1038/clpt.2008.181.

  7. Hwang W, Kim T, Murali Ramanathan, and Zhang A, Bridging Centrality: graph mining from element level to group level, the 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, Las Vegas, August 24-27, 2008.

  8. Chanda P, Zhang A, Sucheston L and Murali Ramanathan, Information theoretic methods for detecting multiple loci associated with complex diseases, 8th International Workshop on Data Mining in Bioinformatics (BIOKDD08), Las Vegas, NV, USA, August 24, 2008.

  9. Cho Y, Shi L, Murali Ramanathan and Zhang A. A probabilistic framework to predict protein function from interaction data integrated with semantic knowledge. BMC Bioinformatics. 9: 382 (2008) PMID: 18801191.

  10. Kim T, Hwang WC, Zhang A, Murali Ramanathan and Sen S. Damage isolation via strategic self-destruction: A case study in 2D random networks. EPL: Europhysics Letters 86, 24002 (2009). DOI: 10.1209/0295-5075/86/24002.

  11. Chanda P, Sucheston L, Zhang A, and Murali Ramanathan. The Interaction Index, a novel information-theoretic metric for prioritizing interacting genetic variations and environmental factors. European Journal of Human Genetics 7(10):1274-86 (2009). DOI: 10.1038/ejhg.2009.38.

  12. Chanda P, Sucheston L, Liu S, Zhang A, and Murali Ramanathan. Information-theoretic gene-gene and gene-environment interaction analysis of quantitative traits. BMC Genomics 10(1): 509 (2009). PMID: 19889230.

  13. Weinstock-Guttman B, Murali Ramanathan, Hashmi K, Abdelrahman N, Hojnacki D, Dwyer M, Hussein S, Bergsland N, Munschauer F, and Zivadinov R. Increased tissue damage and lesion volumes in African-Americans with multiple sclerosis. Neurology 74(7):538-544 (2010). PMID: 20089944.

  14. Sucheston L, Chanda P, Tritchler D, Zhang A, and Murali Ramanathan. Comparison of information-theoretic to statistical methods for gene-gene interactions in the presence of genetic heterogeneity. BMC Genomics 11(1):487 (2010). PMID: 20815886. DOI: 10.1186/1471-2164-11-487.

  15. Kim T, Hwang W, Zhang A, Sen S, and Murali Ramanathan. Multi-agent modeling of the South Korean avian influenza epidemic. BMC Infectious Diseases 10: 236 (2010). PMID: 20696080. DOI: 10.1186/1471-2334-10-236.

  16. Tritchler DL, Sucheston L, Chanda P, and Murali Ramanathan. Information metrics in genetic epidemiology. In press Statistical Applications in Genetics and Molecular Biology (2011).

  17. Chanda P, Zhang A, and Murali Ramanathan. Modeling of environmental and genetic interactions with AMBROSIA, an information theoretic model synthesis method. In press Heredity (2011).

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