I am a Ph.D. Candidate in the Bioinformatics program at Temple University. I am advised by Dr. Sergei L Kosakovsky Pond in the ACME Computational Molecular Evolution Group and Dr. Stephen MacNeil in the Temple Human-Computer Interaction (HCI) Lab. I received my B.S. in Chemistry and M.S. in Computational Biology from Carnegie Mellon University. My research interests include method development, evolutionary genomics, and interdisciplinary HCI.
(Last updated: March 5th, 2025)
Identified gaps in knowledge and proposed ideas that can make data and method work together. Reconciled different research interests of stakeholders involved.
Automated cutting-edge methods and analyzed COVID-19 metagenomics data in the Google Cloud environment.
Investigated RNA-Seq and microarray data from B-Cell Acute Lymphoblastic Leukemia subtypes using differential gene expression analysis, Gene Ontology enrichment analysis, and other relevant bioinformatics methods.
Investigated clinical and genomic data to create a pipeline of cancer progression analysis using machine learning methods.
Kim, H., Kosakovsky Pond, S. L., MacNeil, S. (2024). WIP: Identifying Tutorial Affordances for Interdisciplinary Learning Environments. 2024 IEEE Frontiers in Education Conference (FIE), 1-5, doi:10.1109/FIE61694.2024.10893187 [ preprint | slide | video | recap ]
Kim, H. (2023). Running a summer journal club for an interdisciplinary community: how to maintain engagement when members have disparate prior knowledge. The Journal for Research and Practice in College Teaching, 8(2). https://journals.uc.edu/index.php/jrpct/article/view/8150/6710
Huzar, J., Kim, H., Kumar, S., Miura, S. (2022). MOCA for integrated analysis of gene expression and genetic variation in single cells. Frontiers in Genetics, 13:831040. doi: 10.3389/fgene.2022.831040
Ding, Y., Kim, H., Madden, K., Loftus, J., Chen, G., Allen, D., Zhang, R., Xu, J., Chen, C., Xu, Y., Tasian, S., Tan, K. (2021). Network Analysis Reveals Synergistic Genetic Dependencies for Rational Combination Therapy in Philadelphia Chromosome-like Acute Lymphoblastic Leukemia. Clinical Cancer Research, 27(18). doi: 10.1158/1078-0432.CCR-21-0553
Tao, Y., Rajaraman, A., Cui, X., Cui, Z., Chen, H., Zhao, Y., Eaton, J., Kim, H., Ma, J., Schwartz, R. (2021). Assessing the Contribution of Tumor Mutational Phenotypes to Cancer Progression Risk. PLOS Computational Biology, 17(3). doi: 10.1371/journal.pcbi.1008777
Lin, C., Jain, S., Kim, H., Bar-Joseph, Z. (2017). Using neural networks for reducing the dimensions of single-cell RNA-Seq data. Nucleic Acids Research, 45(17). doi: 10.1093/nar/gkx681