Andrey Rzhetsky
Research Summary / Selected Publications
My main interest is in (asymptotic) understanding how phenotypes, such as human healthy diversity and maladies, are implemented at the level of genes and networks of interacting molecules.
To harvest as much information about known molecular interactions as possible, my group runs a large-scale text-mining effort aiming at analysis of a vast corpus of biomedical publications. Currently we can extract from text automatically about 500 distinct flavors of relations among biomedical entities (such as bind, activate, merystilate, and transport).
To sharpen our text-mining axes, we are actively designing related models and computational applications.
Furthermore, in cooperation with our experimentally talented colleagues, we are striving to use text-mined networks to understand, interpret and refine high- or low-throughput experimental data. We are also computationally generating biological hypotheses that our generous collaborators are attempting to test experimentally.
My older (still smoldering) passion is in developing and applying computational methods related to phylogenetics and evolutionary biology.
My main interest is in (asymptotic) understanding how phenotypes, such as human healthy diversity and maladies, are implemented at the level of genes and networks of interacting molecules.
To harvest as much information about known molecular interactions as possible, my group runs a large-scale text-mining effort aiming at analysis of a vast corpus of biomedical publications. Currently we can extract from text automatically about 500 distinct flavors of relations among biomedical entities (such as bind, activate, merystilate, and transport).
To sharpen our text-mining axes, we are actively designing related models and computational applications.
Furthermore, in cooperation with our experimentally talented colleagues, we are striving to use text-mined networks to understand, interpret and refine high- or low-throughput experimental data. We are also computationally generating biological hypotheses that our generous collaborators are attempting to test experimentally.
My older (still smoldering) passion is in developing and applying computational methods related to phylogenetics and evolutionary biology.
Rzhetsky, A., Seringhaus, M., and Gerstein, M. (2008). Seeking a new biology through text mining. Cell 134, 9-13.
Iossifov, I., Zheng, T., Baron, M., Gilliam, T.C., and Rzhetsky, A. (2008). Genetic-linkage mapping of complex hereditary disorders to a whole-genome molecular-interaction network. Genome research 18, 1150-1162.
Feldman, I., Rzhetsky, A., and Vitkup, D. (2008). Network properties of genes harboring inherited disease mutations. Proc Natl Acad Sci U S A 105, 4323-4328.
Yao, L., and Rzhetsky, A. (2008). Quantitative systems-level determinants of human genes targeted by successful drugs. Genome research 18, 206-213.
Rzhetsky, A., Wajngurt, D., Park, N., and Zheng, T. (2007). Probing genetic overlap among complex human phenotypes. Proc Natl Acad Sci U S A 104, 11694--11699.
Rzhetsky, A., Iossifov, I., Loh, J.M., and White, K.P. (2006). Microparadigms: chains of collective reasoning in publications about molecular interactions. Proc Natl Acad Sci U S A 103, 4940-4945
Cokol, M., Iossifov, I., Weinreb, C., and Rzhetsky, A. (2005). Emergent behavior of growing knowledge about molecular interactions. Nat Biotechnol 23, 1243-1247.
Rzhetsky, A., Seringhaus, M., and Gerstein, M. (2008). Seeking a new biology through text mining. Cell 134, 9-13.
Iossifov, I., Zheng, T., Baron, M., Gilliam, T.C., and Rzhetsky, A. (2008). Genetic-linkage mapping of complex hereditary disorders to a whole-genome molecular-interaction network. Genome research 18, 1150-1162.
Feldman, I., Rzhetsky, A., and Vitkup, D. (2008). Network properties of genes harboring inherited disease mutations. Proc Natl Acad Sci U S A 105, 4323-4328.
Yao, L., and Rzhetsky, A. (2008). Quantitative systems-level determinants of human genes targeted by successful drugs. Genome research 18, 206-213.
Rzhetsky, A., Wajngurt, D., Park, N., and Zheng, T. (2007). Probing genetic overlap among complex human phenotypes. Proc Natl Acad Sci U S A 104, 11694--11699.
