Jee-Hyub Kim's Homepage

Personal details

• Name: Mr. Jee-Hyub Kim
• Address: CUI - University of Geneva
• 24 rue General Dufour
• CH-1211 Geneva 4
• E-mail: jee.kim at cui dot unige dot ch

Research Interest

• Bio-Text Mining
• Machine Learning for Bioinformatics
• Inductive Logic Programming for Information Extraction

Education

• Ph.d. Candidate Student in Computer Science
  • University of Geneva, Geneva, Switzerland
  • Tentative Thesis: Learning Relations and IE rules for Protein Annotation
• M.Sc. in Computer & Communication Engineering
  • Graduate School for Information Technology
  • Pohang University of Science and Technology, Pohang, Korea.

Awards

• Best Paper Award (3rd place) in CICLing 2005
• Best Paper Award in PKDD 2004

Teaching Experience

• Summer 2006: Programming for Bioinformatics in Master's in Proteomics and Bioinformatics organized by SIB (Swiss Institute of Bioinformatics) and UNIGE (University of Geneva)
• Summer 2005: Programming for Bioinformatics in Master's in Proteomics and Bioinformatics organized by SIB (Swiss Institute of Bioinformatics) and UNIGE (University of Geneva)

Work Experience

• October 2005 - Current: University of Geneva, Geneva, Switzerland
  • ProDoTT: First-Order Domain Theories from Text (Swiss National Project) (as Proposal Writer and Research Assistant.)
• June 2003 - March 2006: University of Geneva, Geneva, Switzerland
  • Biological Text mining (www.biomint.org) (EU FP5 Quality of Life Project) (as Research Assistant.)
• November 2001 - August 2002: National Center for Genome Information, Korea Research Institute of Bioscience and Biotechnology, Taejon, Korea. (as Researcher.)
• September 2000 - September 2001: Bioinfomatix Inc., Seoul, Korea. (as 6-Member-Team Leader & Researcher.)
• March 2000 - August 2001: Biological Research Information Center (BRIC), Pohang University of Science and Technology (POSTECH), Pohang, Korea. (as 5-Member-Team Leader & Researcher.)
• 1999: CSE, POSTECH, Pohang Korea (as Research Assistant.)
  • Development of Korean Natural Language Query Processing System for Integrated Document Management and Full Text Information Retrieval.

  Publications

  Thesis:

  • (MSc) Corpus-Based Learning of Compound Noun Indexing for Korean

  Papers:

  • J.-H. Kim et al. Learning Relations and Information Extraction Rules For Protein Annotation (submitted to ECCB 2006)
  • A. L. Mitchell, A. Divoli, J.-H. Kim, M. Hilario, I. Selimas, and T. K. Attwood METIS: multiple extraction techniques for informative sentences Bioinformatics, Nov 2005; 21: 4196 - 4197.
  • Jee-Hyub Kim, Melanie Hilario: Learning Information Extraction Rules for Protein Annotation from Unannotated Corpora. CICLing 2005: 522-534
  • Melanie Hilario, Alex Mitchell, Jee-Hyub Kim, Paul Bradley, Terri K. Attwood: Classifying Protein Fingerprints. PKDD 2004: 197-208
  • Yi SY, Kim J.-H., Joung YH, Lee S, Kim WT, Yu SH, Choi D. The pepper transcription factor CaPF1 confers pathogen and freezing tolerance in Arabidopsis. Plant Physiol. 2004 Sep;136(1):2862-74.
  • H.-J. Chung, I. S. Cho, J.-H. Kim, D. S. In, C. G. Hur, J. S. Song, S. S. Woo, D.-W. Choi, and J. R. Liu (2003) Changes in Gene Expression during Hairy Root Formation by Agrobacterium rhizogenes Infrction in Ginseng. Journal of Plant Biology, Sept;46(3):187-198
  • Sung-Ho Goh, Tae-Hyung Kim, Jee-Hyub Kim, DouGu Nam, Doil Choi, and Cheol-Goo Hur (2003) Computational Analysis of Neighboring Genes on Arabidopsis thaliana Chromosomes 4 and 5: Their Genomic Association as Functional Subunits. Genomics & Informatics 2003 Sep;1(1):40-49
  • Jee-Hyub Kim, Byung-Kwan Kwak, Seung-woo Lee, Geunbae Lee and Jong-Hyeok Lee (2001) A Corpus-Based Learning Method of Compound Noun Indexing Rules for Korean. Information Retrieval, 4(2):115-132.
  • Byung-Kwan Kwak, Jee-Hyub Kim, Geunbae Lee and Jungyun Seo (2000) Corpus-Based Learning of Compound Noun Indexing In: Proceeding of Workshop on Recent Advances in Natural Language Processing and Information Retrieval in ACL 2000.
  • Hyungsuk Won, Mihwa Park, Jee-Hyub Kim and Geunbae Lee (1999) Integrated Multi-Level Indexing Model for Compound Noun Processing. In: Proceeding of the 8th HCI 1999

  Patents:

  • Similar Position Protein Search on 2D-Gel Image to Database, Korea Patent (October 29, 2001; #2001-52554)

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