Selected Publications

You SH, Lim HW, Sun Z, Broache M, Won KJ, Lazar MA : Nuclear Receptor co-repressors are required for the histone-deacetylase activity of HDAC3 in vivo. Nature Structural & Molecular Biology 2013.

Won KJ, Saunders C, Prugel-Bennett A : Evolving Fisher kernels for biological sequence classification. Evolutionary Computation 2013.

Xie R, Everett LJ, Lim HW, Patel NA, Schug J, Kroon E, Kelly OG, Wang A, D’Amour KA, Robins AJ, Won KJ, Kaestner KH, Sander M: Dynamic chromatin remodeling mediated by polycomb proteins orchestrates pancreatic differentiation of human embryonic stem cells. Cell Stem Cell 2013.

Wozniak MA, Cheng CQ, Shen CJ, Gao L, Olarerin-George AO, Won KJ, Hogenesch J.B., Chen C.S : Adhesion Regulates MAP Kinase/Ternary Complex Factor Exchange to Control a Proliferative Transcription Switch. Current Biology 22(21): 2017-2016, 2012.

Won KJ, Xu Z, Zhang X, Whitaker JW, Shoemaker R, Ren B, Xu Y, Wang W: Global transcription network reconstruction using epigenomic data in pluripotent and fibroblast cells. Nucleic Acid Research 40(17): 8199-8209, 2012.

Won, K. J., Ren, B., Wang, W.: Genome-wide prediction of transcription factor binding sites using an integrated model. Genome Biol 11(1): R7, 2010.

Won, K. J., Agarwal, S., Shen, L., Shoemaker, R., Ren, B., Wang, W.: An integrated approach to identifying cis-regulatory modules in the human genome. PLoS One 4(5): e5501, 2009.

Won, K. J., Sandelin, A., Marstrand, T. T., Krogh, A.: Modeling promoter grammars with evolving hidden Markov models. Bioinformatics 24(15): 1669-75, 2008.

Won, K. J., Chepelev, I., Ren, B., Wang, W.: Prediction of regulatory elements in mammalian genomes using chromatin signatures. BMC Bioinformatics 9: 547, 2008.

Won, K. J., Prugel-Bennett, A., Krogh, A.: Training HMM structure with genetic algorithm for biological sequence analysis. Bioinformatics 20(18): 3613-9, 2004.

Won, K. J., Hamelryck, T., Prugel-Bennett, A., Krogh, A.: An evolutionary method for learning HMM structure: prediction of protein secondary structure. BMC Bioinformatics 8: 357, 2007.

Kyoung-Jae, Won, Prugel-Bennett, A., Krogh, A.: Evolving the structure of hidden Markov models. Evolutionary Computation, IEEE Transactions on 10(1): 39-49, 2006.