Dokyoon Kim, PhD
3700 Hamilton Walk
University of Pennsylvania
Philadelphia, PA 19104-6116
B.S. (Computer Science)
Korea University, Korea, 2006.
Ph.D. (Biomedical Informatics)
Seoul National University College of Medicine, 2013.
Description of Research Expertise- Our research entails the development and application of data integration approach to improve the ability to diagnose, treat, and prevent complex diseases
- Our long-term research goal is to develop and evaluate sophisticated data integration methods that simultaneously combine people’s individual variations in genomic (‘omic) data, imaging data, phenotype data derived from EHR, and environment/lifelog data for advancing precision medicine
- Our past and ongoing projects have been both theoretical and applied, mainly in (but, not limited to) cancer and Alzheimer’s disease
- Keywords: Multi-omics data, data integration, translational informatics, precision medicine, machine learning, deep learning, cancer genomics, imaging genomics, EHR, network analysis
Selected PublicationsYasser EL-Manzalawy, Tsung-Yu Hsieh, Manu Shivakumar, Dokyoon Kim: Min-redundancy and max-relevance multi-view feature selection for predicting ovarian cancer survival using multi-omics data. BMC Medical Genomics 11(3), September 2018 Notes: Online only: doi.org/10.1186/s12920-018-0388-0.
Jason E Miller, Manu Shivakumar, Younghee Lee, Seonggyun Han, Emrin Horgousluoglu, Shannon L. Risacher, Andrew J. Saykin, Kwangsik Nho*, Dokyoon Kim*.: Rare variants in the splicing regulatory elements of EXOC3L4 are associated with brain glucose metabolism in Alzheimer’s disease. BMC Medical Genomics 11(76), September 2018 Notes: Online only: doi: 10.1186/s12920-018-0390-6.
Younghee Lee, Seonggyun Han, Seyoun Byun, Jason E. Miller, Dokyoon Kim, Shannon Risacher, Andrew Saykin and Kwangsik Nho.: Identification of exon skipping events associated with Alzheimer’s disease in the human hippocampus. International Conference on Intelligent Biology and Medicine (ICIBM) June 2018 Notes: Proceeding represents original peer-reviewed research.
Younghee Lee, Seonggyun Han, Dongwook Kim, Dokyoon Kim, Emrin Horgousluoglu, Shannon L. Risacher, Andrew J. Saykin, Kwangsik Nho: Genetic variation affecting exon skipping contributes to brain structural atrophy in Alzheimer’s disease. AMIA Jt Summits Transl Sci Proc 2017: 124-131, May 2018 Notes: Proceeding represents original peer-reviewed research.
Ruowang Li, Dokyoon Kim, Scott Dudek, Heather Wheeler, Eileen Dolan, Marylyn D Ritchie: Integration of genetic and functional genomics data to uncover chemotherapeutic induced cytotoxicity. The Pharmacogenomics Journal 1(13), May 2018 Notes: doi:10.1038/s41397-018-0024-6,
Seonggyun Han, Dongwook Kim, Youngjun Kim, Kanghoon Choi, Jason Miller, Dokyoon Kim, Younghee Lee*: CAS-viewer: Web-based tool for splicing-guided integrative analysis of multi-omics cancer data. BMC Medical Genomics 11(25), April 2018 Notes: Online only: doi: 10.1371/journal.pone.0190708
Shefali Verma, Anastasia M. Lucas, Xinyuan Zhang, Yogasudha Veturi, Scott Dudek, Binglan Li, Ruowang Li, Ryan Urbanowicz, Jason H. Moore, Dokyoon Kim, Marylyn D. Ritchie: Collective feature selection to identify crucial epistatic variants. BioData Mining 11(5), April 2018 Notes: Online only: doi: 10.1186/s13040-018-0168-6
Dongwook Kim, Manu Shivakumar, Michael Sinclair, Youngji Lee, Dokyoon Kim* and Younghee Lee*.: Population-dependent Intron Retention and DNA Methylation in Breast Cancer. Molecular Cancer Research 16(3): 461-469, March 2018.
Seonggyun Han, Dongwook Kim, Manu Shivakumar, Jason E Miller, Youngji Lee, Tullika Garg, Ju Han Kim*, Dokyoon Kim*, Younghee Lee*: The effects of alternative splicing on miRNA binding sites in bladder cancer. PLoS ONE 13(1), January 2018.
Jason E Miller, Manu K. Shivakumar, Shannon L. Risacher, Andrew J. Saykin, Seunggeun Lee, Kwangsik Nho*, Dokyoon Kim*: Codon bias among synonymous rare variants is associated with Alzheimer’s disease imaging biomarker. Pacific Symposium on Biocomputing 2018(23): 365-376, January 2018 Notes: Proceeding represents original peer-reviewed research.