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Faculty Detail Faculty Entry   
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Department Affiliations(s)
Appointment Type Department Division Rank
No records

Biographical Sketch 
Dr. Kim has extensive scientific background that is very helpful for multidisciplinary research. He also has intensive experience on quantitative methodology development and his research ability has been proven by top rated journal publications in the subfields of computer science, e.g. machine learning, pattern recognition, and bioinformatics. He was well-trained in biology and biomedical science during his postdoctoral period at New York University (NYU) School of Medicine and Brigham and Women’s Hospital/Harvard Medical School.

Society Memberships
Organization Name Position Held Org Link
International Society for Computational Biology (ISCB)  Member  http://www.iscb.org/ 
International Society of Intelligent Biological Medicine (ISIBM)  Fellow  http://www.isibm.org 
 

Research/Clinical Interest
Title
Personalized Medicine
Description
Large-scale biomedical databases will be built for the purpose of biomedical studies. Genetic information about a person’s disease will be used for diagnosis and more effective treatment strategies that are tailored to the genetic profile.

Postdoc Positions Available
Date Posted Position Title
No records
 

Selected Publications 
Publication PUBMEDID
Y. Bi, H. Kim, R. Gupta, and R. V. Davuluri. (2011) Tree-based position weight matrix approach to model transcription factor binding site profiles. PLoS One, 6(9).  21912677 
H. Kim, Y. Bi, S. Pal, R. Gupta, and R. V. Davuluri. (2011) IsoformEx: Isoform level gene expression estimation using weighted non-negative least squares from mRNA-Seq data, BMC Bioinformatics, 12:305.  21794104 
S. Pal*, R. Gupta*, H. Kim, P. Wickramasinghe, V. Baubet, L. C. Showe, N. Dahmane, and R. V. Davuluri. (2011) Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development, Genome Research, 21(8), 1260-1272. *These authors contributed equally.  21712398 
M. S. Nicoloso*, H. Sun*, R. Spizzo, H. Kim, P. Wickramasinghe, M. Shimizu, S. E. Wojcik, J. Ferdin, L. Xiao, S. Manoukian, G. Secreto, F. Ravagnani, X. Wang, P. Radice, C. M. Croce, R. V. Davuluri, and G. A. Calin. (2010) Single-nucleotide polymorphisms inside microRNA target sites influence tumor susceptibility, Cancer Research, 70(7), 2789-2798. *M. S. Nicoloso and H. Sun contributed equally to this work.  20332227 
H. Kim*, W. Huang*, X. Jiang, B. Pennicooke, P. J. Park, and M. D. Johnson. (2010) Integrative genome analysis reveals an oncomir/oncogene cluster regulating glioblastoma survivorship, Proc. Natl. Acad. Sci. USA, 107(5), 2183-2188. *H. K. and W. H. contributed equally to this work.  20080666 
X.-P. Wang, D. J. O’Connell, J. J. Lund, I. Saadi, M. Kuraguchi, A. Turbe-Doan, R. Cavallesco, H. Kim, P. J. Park, H. Harada, R. Kucherlapati, and R. L. Mass. (2009) Apc inhibition of Wnt signaling regulates supernumerary tooth formation during embryogenesis and throughout adulthood. Development, 136(11), 1939-1949.  19429790 
The Cancer Genome Atlas (TCGA) Research Network. (2008) Comprehensive genomic characterization defines human glioblastoma genes and core pathways, Nature, 455(7216):1061-1068. The official website of TCGA is http://cancergenome.nih.gov/.  18772890 
H. Kim and H. Park. (2008) Non-negative matrix factorization based on alternating nonnegativity-constrained least squares and active set method, SIAM Journal on Matrix Analysis and Applications (SIMAX), 30(2), 713-730.   
H. Kim, H. Park, and B. L. Drake. (2007) Extracting unrecognized gene relationships from the biomedical literature via matrix factorizations, BMC Bioinformatics, 8(Suppl 9):S6.  18047707 
H. Kim, B. L. Drake, and H. Park. (2007) Multiclass classifiers based on dimension reduction with generalized LDA, Pattern Recognition, 40(11), 2939-2945.   
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Keywords
data integration, personalized medicine, precision medicine, bioinformatics, computational biology

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