Taehyong Kim's Homepage
   Taehyong Kim
   Principal Bioinformatician
   Interim Director of Bioinformatics Core
   Institute for Biomedical Informatics
   University of Pennsylvania
   Email: taehyong AT pennmedicine.upenn.edu
Taehyong Kim

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I am currently the interim director of Bioinformatics Core and principal bioinformatician at Institute for Biomedical Informatics (IBI), University of Pennsylvania. I was a postdoctoral research associate at Carnegie Institution for Science at Stanford University. I received Ph.D. and MS from the Department of Computer Science and Engineering at the State University of New York (SUNY) at Buffalo in 2011 and 2007, respectively. I have extensive experience on biomedical informatics with next generation sequencing (NGS) technologies. I have been managing/consulting on various bioinformatics projects for Penn Cancer community (Abramson Cancer Center of Penn Medicine). My ultimate goal of biomedical informatics is that "Transfer the innovation of recent biomedical technologies, tools and services to researchers and clinicians with easy-to-access and easy-to-use towards precision medicine."


Recent publications and preparations

  1. Joyce V. Lee, Corbett T. Berry, Karla Kim, Payel Sen, Taehyong Kim, Alessandro Carrer, Sophie Trefely, Steven Zhao, Sully Fernandez, Lauren E. Barney, Alyssa D. Schwartz, Shelly R. Peyton, Nathaniel W. Snyder, Shelley L. Berger, Bruce D. Freedman, and Kathryn E. Wellen, "Acetyl-CoA promotes glioblastoma cell adhesion and migration through Ca2+–NFAT signaling", Genes & development, 2019 [LINK]
  2. Naomi B. Haas, Leonard J Appleman, Mark Stein, Maryann Redlinger, Melissa Wilks, Xiaowei Xu, Angelique Onorati, Anusha Kalavacharla, Taehyong Kim, Chao Jie Zhen, Sabah Kadri, Jeremy P. Segal, Phyllis A. Gimotty, Lisa E. Davis and Ravi K. Amaravadi, "Autophagy inhibition to augment mTOR inhibition: A phase I/II trial of everolimus and hydroxychloroquine in patients with previously treated renal cell carcinoma", Clinical Cancer Research, 2019 [LINK]
  3. Nishita Shastri, Yu-Chen Tsai, Suzanne Hile, Deondre Jordan, Barrett Powell, Jessica Chen, Dillon Maloney, Marei Dose, Yancy Lo, Theonie Anastassiadis, Osvaldo Rivera, Taehyong Kim, Sharvin Shah, Piyush Borole, Kanika Asija, Xiang Wang, Kevin D. Smith, Darren Finn, Jonathan Schug, Rafael Casellas, Liliya A. Yatsunyk, Kristin A. Eckert and Eric J. Brown, "Genome-wide Identification of Structure-Forming Repeats as Principal Sites of Fork Collapse upon ATR Inhibition", Molecular Cell, 2018 [LINK]
  4. Pascal Schlapfer, Peifen Zhang, Chuan Wang, Taehyong Kim, Michael Banf, Lee Chae, Kate Dreher, Arvind K Chavali, Ricardo Nilo-Poyanco, Thomas Bernard, Daniel Kahn and Seung Y Rhee, "Genome-wide prediction of metabolic enzymes, pathways and gene clusters in plants", Plant Physiology, 2017 [LINK]
  5. Jiajie Peng, Sahra Uygun, Taehyong Kim, Yadong Wang, Seung Y. Rhee and Jin Chen, "Measuring genome-specific semantic similarities using gene ontology and gene co-function networks", BMC Bioinformatics, 2015 [LINK]
  6. Taehyong Kim, Kate Dreher, Ricardo Nilo-Poyanco, Insuk Lee, Basil J. Nikolau, Bernd Markus Lange, Ruth Weltie, Eve S. Wurtele and Seung Y. Rhee, "Patterns of metabolite changes identified from large-scale gene perturbations in Arabidopsis thaliana using a genome-scale metabolic network", Large-scale Data Analysis (Plant Physiology), 2015 [LINK]
  7. Lee Chae, Taehyong Kim, Ricardo Nilo-Poyanco, and Seung Y. Rhee, "Genomic Signatures of Specialized Metabolism in Plants", Science, 2014 [LINK]

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