Junho Kim, Ph.D.
CONTACT INFORMATION
Translational Genome Informatics Laboratory
Severance Biomedical Science Institute
Yonsei University College of Medicine
ABMRC #511, 50-1 Yonsei-ro, Seodaemun-gu,
Seoul 03722, South Korea.
Office: +82-2-2228-0914
RESEARCH AREAS
Genome analysis, Bioinformatics, NGS analysis method development
EDUCATION
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Ph.D. in Bio and Brain Engineering, KAIST, Daejeon, Korea.
Dissertation: Combined analysis of transcriptome and metabolome
Advisor: Prof. Doheon Lee
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M.S. in Computer Science, KAIST, Daejeon, Korea.
Thesis: An Efficient Clustering Algorithm for Categorical Data Sets
Advisor: Prof. Yoon Jun Lee
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B.S. in Computer Science (Cum Laude), Sogang Univ., Seoul, Korea.
ACADEMIC EXPERIENCES
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Assistant Professor, School of Information and Communications, Gwangju Institute of Science and Technology (GIST)
Feb. 2013 - Present.
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Systems Biology Research Group, Dept. of Bioengineering, University of California, San Diego, CA USA
Aug. 2009 - Feb. 2013. Postdoctoral Researcher
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Dept. of Bio and Brain Engineering, KAIST, Daejeon, Korea
Mar. 2009 - July 2009. Postdoctoral Researcher
Mar. 2004 - Jan. 2009. Graduate Researcher
Mar. 2004 - Jan. 2008. Teaching Assistant
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German Cancer Research Center, Heidelberg, Germany
June 2005 - July 2005. Visiting Researcher
PUBLICATIONS
JOURNAL (Peer Reviewed)
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Junho Kim, Sanghyeon Kim, Hojung Nam, Sangwoo Kim, Doheon Lee, "SoloDel: A probabilistic model for detecting low-frequent somatic deletions from unmatched sequencing data", Accepted.
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Seunghwan Jung, Sejoon Lee, Sangwoo Kim, Hojung Nam*, "Identification of Genomic Features in the Classification of Loss- and Gain-of-Function Mutation", BMC Medical Informatics and Decision Making 2015, 15(Suppl 1):S6 doi:10.1186/1472-6947-15-S1-S6
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Hojung Nam*, Miguel Campodonico, Aarash Bordbar, Daniel R. Hyduke, Sangwoo Kim, Bernhard O. Palsson* (*co-corresponding), "A systems approach to predict oncometabolites via context-specific genome-scale metabolic networks", PLoS Comput Biol, 10(9): e1003837. doi:10.1371/journal.pcbi.1003837.
Conference Proceedings and Presentations (peer reviewed)
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Junho Kim, Sanghyeon Kim, Hojung Nam, Sangwoo Kim, Doheon Lee, "SoloDel: A probabilistic model for detecting low-frequent somatic deletions from unmatched sequencing data", Accepted.
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Seunghwan Jung, Sejoon Lee, Sangwoo Kim, Hojung Nam*, "Identification of Genomic Features in the Classification of Loss- and Gain-of-Function Mutation", BMC Medical Informatics and Decision Making 2015, 15(Suppl 1):S6 doi:10.1186/1472-6947-15-S1-S6
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Hojung Nam*, Miguel Campodonico, Aarash Bordbar, Daniel R. Hyduke, Sangwoo Kim, Bernhard O. Palsson* (*co-corresponding), "A systems approach to predict oncometabolites via context-specific genome-scale metabolic networks", PLoS Comput Biol, 10(9): e1003837. doi:10.1371/journal.pcbi.1003837.
PATENTS
Doheon Lee, Bong Chul Chung, Hojung Nam, "Marker for diagnosis of papillary thyroid cancer comprising 3-indoleacetonitrile", Application No.1020090059270 (Korea)(2009.06.30)
INVITED TALKS
National Cancer Center (NCC, 국립암센터), "Enzyme specificity analysis & Prediction of oncometabolites in cancer", July 2013
SKILLS
Omics- data analysis experiences:
Gene expression (Affymatrix, NimbleGen tiling array), ChIP-chip, Illumina sequencing data, GC-MS, KEGG pathway, Gene Ontology
Programming languages:
C, Java, Python, MATLAB, R
ACTIVITY & AWARDS
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2012 – present. Peer Reviewer, Bioinformatics
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2011 - 2012. Postdoctoral fellowship (Nation Research Foundation of Korea).
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2010. October. Program Committee, ACM Fourth International Workshop on Data and Text Mining in Biomedical Informatics (DTMBIO),Toronto, Canada, October 2010
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2010 – present. Peer Reviewer, International Journal of Data Mining and Bioinformatics (IJDMB)
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2004 - 2008. Full government scholarship (Ph.D. program).
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2001 - 2002. Full government scholarship (M.S. program).
