My long-standing research interest is to develop bioinformatics tools to integrate the vast amount of functional genomics data, which can assist us to understand the gene functions and molecular mechanisms behind genetic diseases. In the past, I have focused on developing statistical and machine learning tools for mouse genomics data integration to infer gene functions (Guan et al., 2008, Genome Biology; PeÌ±a-Castillo L. et al., 2008, Genome Biology; Wong et al., 2012, NAR) and functional relationship networks (Guan et al., 2008, PLoS Comp. Biol.; Guan et al., 2010, PLoS Comp. Biol.; Wong et al., 2012, NAR). The software and tools I developed based the above work (mouseNET, mouseMAP, KOMPute) are intensively used by the mouse genetics community with several hundreds to thousands of queries each month.
Wong A, Park C, Greene C, Bongo L, Guan Y, Troyanskaya OG. A multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks. In press. NAR-00260-Web-B-2012.R1
Guan Y, Yao V, Tsui K, Gebbia M, Dunham MJ, Nislow C, Troyanskaya OG. Nucleosome-coupled expression differences in closely-related species. BMC Genomics. 2011 Sep 26;12:466. PMCID: PMC3209474
Guan Y, Ackert-Bicknell CL, Kell B, Troyanskaya OG, Hibbs MA. Functional genomics complements quantitative genetics in identifying disease-gene associations. PLoS Comput Biol. 2010 Nov 11;6(11):e1000991. PMCID: PMC2978695
Guan Y, Dunham MJ, Caudy A, Troyanskaya OG. Systematic planning of genome-scale experiments in poorly studied species. PLoS Comput Biol. 2010 Mar;6(3):e1000698. PMCID: PMC2832676
Guan Y, Myers CL, Lu R, Lemischka IR, Bult CJ, Troyanskaya OG. A genomewide functional network for the laboratory mouse. PLoS Comput Biol. 4(9): e1000165 PMCID: PMC2527685