Lie Yong Judice Koh, Ph.D.
Computational Phenomics Platform Leader
kohlyj@gis.a-star.edu.sg
RESEARCH FOCUS
 

I am interested in developing database systems and computational models that utilize data mining/machine learning approaches to describe, analyze and predict the behavior of genomes, proteomes and disease systems. My expertise is in analyzing large-scale datasets in High Content Screening and Cancer Genomics.

 

EDUCATION

2007 Ph.D., Computer Science, National University of Singapore

2001 Master of Technology in Software Engineering, National University of Singapore

1996 B.Sc. in Computational Chemistry, National University of Singapore

 

PROFESSIONAL APPOINTMENTS

Feb 2015 - Staff Scientist, GIS, A*STAR

2009-2012 Research Associate, University of Toronto

2007-2009 Postdoctoral Fellow, University of Toronto

2005-2007 Lab Head, Institute for Infocomm Research, A*STAR

2003-2007 Research Scientist, Institute for Infocomm Research, A*STAR

1999-2003 Senior Research Engineer, Institute for Infocomm Research, A*STAR

 

COMPLETE PUBLICATION LIST

Chong YT, *Koh JLY, Friesen H, Duffy SK, Cox MC, Moses A, Moffat J, Boone C, and Andrews B (2015) “Yeast Proteome Dynamics from Single Cell Imaging and Automated Analysis.” Cell 2015 June 4; 161(6), p1413–1424. *equal contribution
Abstract
 
Koh JLY, *Chong YT, Moses A, Andrews B, Moffat J (2015) “CYCLoPs: A comprehensive database constructed from automated analysis of protein abundance and sub-cellular localization patterns in Saccharomyces cerevisiae.”. G3 2015 Apr 15;5(6):1223-1232. *equal contribution
Abstract
 
Koh JL, Brown KR, Sayad A, Kasimer D, Ketela T, Moffat J "COLT-Cancer: functional genetic screening resource for essential genes in human cancer cell lines." Nucleic Acids Res 2012 Jan ; 40(Database issue) : D957-63 Epub 2011 Nov 18
Abstract
 
Marcotte R, Brown KR, Suarez F, Sayad A, Karamboulas K, Krzyzanowski PM, Sircoulomb F, Medrano M, Fedyshyn Y, Koh JL, van Dyk D, Fedyshyn B, Luhova M, Brito GC, Vizeacoumar FJ, Vizeacoumar FS, Datti A, Kasimer D, Buzina A, Mero P, Misquitta C, Normand J, Haider M, Ketela T, Wrana JL, Rottapel R, Neel BG, Moffat J "Essential gene profiles in breast, pancreatic, and ovarian cancer cells." Cancer Discov 2012 Feb ; 2(2) : 172-89 Epub 2011 Dec 29
Abstract
 
Witkin KL, Chong Y, Shao S, Webster MT, Lahiri S, Walters AD, Lee B, Koh JL, Prinz WA, Andrews BJ, Cohen-Fix O "The budding yeast nuclear envelope adjacent to the nucleolus serves as a membrane sink during mitotic delay." Curr Biol 2012 Jun 19 ; 22(12) : 1128-33 Epub 2012 May 31
Abstract
 
Koh JL, Ding H, Costanzo M, Baryshnikova A, Toufighi K, Bader GD, Myers CL, Andrews BJ, Boone C "DRYGIN: a database of quantitative genetic interaction networks in yeast." Nucleic Acids Res 2010 Jan ; 38(Database issue) : D502-7 Epub 2009 Oct 30
Abstract
 
Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, Alizadeh S, Bahr S, Brost RL, Chen Y, Cokol M, Deshpande R, Li Z, Lin ZY, Liang W, Marback M, Paw J, San Luis BJ, Shuteriqi E, Tong AH, van Dyk N, Wallace IM, Whitney JA, Weirauch MT, Zhong G, Zhu H, Houry WA, Brudno M, Ragibizadeh S, Papp B, Pál C, Roth FP, Giaever G, Nislow C, Troyanskaya OG, Bussey H, Bader GD, Gingras AC, Morris QD, Kim PM, Kaiser CA, Myers CL, Andrews BJ, Boone C "The genetic landscape of a cell." Science 2010 Jan 22 ; 327(5964) : 425-31
Abstract
 
Baryshnikova A, Costanzo M, Kim Y, Ding H, Koh J, Toufighi K, Youn JY, Ou J, San Luis BJ, Bandyopadhyay S, Hibbs M, Hess D, Gingras AC, Bader GD, Troyanskaya OG, Brown GW, Andrews B, Boone C, Myers CL "Quantitative analysis of fitness and genetic interactions in yeast on a genome scale." Nat Methods 2010 Dec ; 7(12) : 1017-24 Epub 2010 Nov 14
Abstract
 
*Dixon SJ, *Fedyshyn Y, *Koh JL, Prasad TS, Chahwan C, Chua G, Toufighi K, Baryshnikova A, Hayles J, Hoe KL, Kim DU, Park HO, Myers CL, Pandey A, Durocher D, Andrews BJ, Boone C (co-first authors) "Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes." cad Sci U S A 2008 Oct 28 ; 105(43) : 16653-8 Epub 2008 Oct 17 *equal contribution
Abstract
 
Zhang ZH, Koh JL, Zhang GL, Choo KH, Tammi MT, Tong JC "AllerTool: a web server for predicting allergenicity and allergic cross-reactivity in proteins." Bioinformatics 2007 Feb 15 ; 23(4) : 504-6 Epub 2006 Dec 6
Abstract
 
Schönbach C, Koh JL, Sheng X, Wong L, Brusic V "FIMM, a database of functional molecular immunology." Nucleic Acids Res 2000 Jan 1 ; 28(1) : 222-4
Abstract