Honghuang Lin, Ph.D.
Assistant Professor of Medicine
B.S., Mathematics, Peking University, China, 2003
B. A., Economics, Peking University, China, 2003
Ph.D., Bioinformatics, National University of Singapore, Singapore, 2007
The advance of high-throughput technologies such as microarray and next generation sequencing offers a great opportunity to study biological systems from an unprecedented genome-wide approach. My research focuses on the design of statistical and computational tools to discover genetic or epigenetic causes of cancer and cardiovascular diseases. In particular, we are interested in the discovery of various pathogenesis-related variations, such as single nucleotide polymorphisms (SNPs), copy number variations (CNVs), insertions/deletions, and methylation. We are also interested in the modeling/simulation of biological pathways, and investigating the effects of genetic heterogeneity to disease phenotypes. Ultimately, the goal is to develop novel computational tools and to identify potential therapeutic targets for drug discovery.
Lin HH, Han LY, Cai CZ, Ji ZL, and Chen YZ. Classification of Transporter Families from Primary Sequence by Support Vector Machine Approach. Proteins, 2006, 62 (1): 218-31
Ong AK, Lin HH, Chen YZ, Li ZR, and Cao ZW. Efficacy of different protein descriptors in predicting protein functional families. BMC Bioinformatics, 2007, 8 (1): 300
Tang ZQ, Han LY, Lin HH, Cui J, Jia J, Low BC, Li BW, Chen YZ. Derivation of Stable Microarray Cancer-differentiating Signatures by a Feature-selection Method Incorporating Consensus Scoring of Multiple Random Sampling and Gene-Ranking Consistency Evaluation. Cancer Research, 2007, 67(20):9996-10003
Lin HH, Han LY, Yap CW, Xue Y, Liu XH, Zhu F, and Chen YZ. Prediction of Factor Xa Inhibitors by Machine Learning Methods. Journal of Molecular Graphics and Modelling, 2007, 26 (2): 505-518
Han LY, Ma XH, Lin HH, Jia J, Zhu F, Xue Y, Li ZR, Cao ZW, Ji ZL, and Chen YZ. A support vector machines approach for virtual screening of active compounds of single and multiple mechanisms from large libraries at an improved hit-rate and enrichment factor. J Mol Graph Model, 2008, 26(8):1276-86
Lin HH, Ray S, Tongchusak S, Reinherz EL and Brusic V. Evaluation of MHC class I peptide binding prediction servers: applications for vaccine research. BMC Immunology, 2008, 9(1):8
Magnani JW, Rienstra M, Lin HH, Sinner MF, Lubitz SA, McManus DD, Dupuis J, Ellinor PT, Benjamin EJ. Atrial fibrillation: Current knowledge and future directions in epidemiology and genomics. Circulation, 2011, 124: 1982-1993
Schnabel R, Baccarelli A, Lin HH, Ellinor PT, and Benjamin EJ. Next Steps in Cardiovascular Disease Genomic Research – Sequencing, Epigenetics, and Transcriptomics. Clinical Chemistry, 2012, 58(1):113-26
Ellinor PT, Lunetta KL, Albert CM, Glazer NL, Ritchie MD, Smith AV, Arking DE, Müller M, Krijthe BP, Lubitz SA, Bis JC, Chung MK, Ozaki K, Roberts JD, Smith JG, Pfeufer A, Sinner MF, Lohman K, Ding J, Smith NL, Smith JD, Rienstra M, Rice KM, Van Wagoner DR, Magnani JW, Wakili R, Clauss S, Rotter JI, Steinbeck G Launer LJ, Davies RW, Borkovich M, Harris TB, Lin H, Völker U, Völzke H, Milan DJ, Hofman A, Boerwinkle E, Chen LY, Soliman EZ, Voight BF, Li G, Chakravarti A, Kubo M, Tedrow U, Rose LM,Ridker PM, Conen D, Tsunoda T, Furukawa T, Sotoodehnia N, Xu S, Kamatani N, Levy D, Nakamura Y, Parvez B, Mahida S, Furie KL, Rosand J, Muhammad R, Psaty BM, Meitinger T, Perz S, Wichmann H-E, Witteman JCM, Kao WHL, Kathiresan S, Roden DM, Uitterlinden AG, Rivadeneira F, McKnight B, Sjögren M, Newman AB, Liu Y, Gollob MH, Melander O, Tanaka T, Stricker BHCh, Felix SB, Alonso A, Darbar D, Barnard J, Chasman DI, Heckbert SR, Benjamin EJ, Gudnason V, Kääb S. Meta Analysis in the AFGen Consortium Identifies Six Novel Loci for Atrial Fibrillation. Nat Genet 2012, 44: 670–675