Jeong-Hyeon Choi's Homepage


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[Research] [Project] [Publication] [Lecture] [Resume]

 

 Research
  • Bioinformatics

      • Genome Assembly
      Genome Alignment
      Phylogeny
      Gene Team
      Comparative Genomics

  • String Matching Algorithm

      • Suffix Tree
      Suffix Array

     

 Project

 Publication

 Journal

  1. Jeong-Hyeon Choi, Sun Kim, Haixu Tang, and Mihai Pop. "Computational Approaches for Genome Assembly Validation,"  Biological Data Mining, Chapman and Hall/CRC Press, 2009. (in press)   [EE]
     
  2. (SCIE) Zuojian Tang, Jeong-Hyeon Choi, Chris Hemmerich, Ankita Sarangi, John K. Colbourne, and Qunfeng Dong. "ESTPiper - A Web-based Analysis Pipeline for Expressed Sequence Tags,"  BMC Genomics, 10:174, April 2009.   [EE] [Server]
     
  3. (SCI:5.039) Jeong-Hyeon Choi, Sun Kim, Haixu Tang, Justen Andrews, Don G. Gilbert, and John K. Colbourne. "A Machine Learning Approach to Combined Evidence Validation of Genome Assemblies,"  Bioinformatics, 24(6):744-750, March 2008.   [EE]
     
  4. (SCIE:4.18) Mina Rho, Jeong-Hyeon Choi, Sun Kim, Michael Lynch, and Haixu Tang. "De Novo Identification of LTR Retrotransposons in Eukaryotic Genomes,"  BMC Genomics, 8:90, March 2007.   [EE]
     
  5. (SCI:4.894) Bin Song, Jeong-Hyeon Choi*, Guangyu Chen, Jacek Szymanski, GQ Zhang, Anthony K.H. Tung, Jaewoo Kang, Sun Kim, and Jiong Yang. "ARCS: An Aggregated Related Column Scoring Scheme for Aligned Sequences,"  Bioinformatics, 22(19):2326-2332, October 2006.   [EE] [Supplement]
    *Co-first author
     
  6. Sun Kim, Jeong-Hyeon Choi, Amit Saple and Jiong Yang. "A Hybrid Gene Team Model and Its Application to Genome Analysis,"  Journal of Bioinformatics and Computational Biology (JBCB) 4(2):171-196, April 2006.   [EE]
     
  7. (SCI:4.894) DoHoon Lee, Jeong-Hyeon Choi, Mehmet M. Dalkilic, and Sun Kim. "COMPAM: visualization of combining pairwise alignments for multiple genomes,"  Bioinformatics, 26(2):242-244, January 2006.   [EE] [Server]
     
  8. (SCIE:0.402) Kwangmin Choi, Jeong-Hyeon Choi, Amit Saple, Zhiping Wang, Jason Lee, and Sun Kim. "PLATCOM: Current Status and Plan for the Next Stages,"  Data Integration in the Life Sciences (DILS'05), number 3615 in Lecture Notes in Bioinformatics, pp 300-304, July, 2005, San Diego, USA.   [EE]
     
  9. (SCI:2.196) Jeong-Hyeon Choi, Hwan-Gue Cho, and Sun Kim. "GAME: A Simple and Efficient Whole Genome Alignment Method Using Maximal Exact Match Filtering,"  Computational Biology and Chemistry (CBAC), 29(3):244-253, July 2005.   [EE] [Supplement]
     
  10. (SCI:6.019) Kwangmin Choi, Yu Ma, Jeong-Hyeon Choi, and Sun Kim. "PLATCOM: A Platform for Computational Comparative Genomics,"  Bioinformatics, 21(10):2514-2516, May 2005.   [EE] [Server]
     
  11. (SCIE:0.513) Jeong-Hyeon Choi, Kwangmin Choi, Hwan-Gue Cho, and Sun Kim. "Multiple Genome Alignment by Clustering Pairwise Matches,"  RECOMB Comparative Genomics Satellite Workshop (RCG'04), number 3388 in Lecture Notes in Bioinformatics, pp 30-41, October 2004, Bertinoro, Italy.   [EE]
     
  12. Mi-Kyung Lee, Jeong-Hyeon Choi, and Hwan-Gue Cho. "Design and Implementation of Integrated System of Microarray Data,"  Korean Journal of Microbiology and Biotechnology (KJMB), 31(2):182-190, 2003.   (Korean) [PDF]
     
  13. Ho-Young Kang, Chang-Jin Shin, Byung-Chul Kang, Jun-Hyung Park, Dong-Hoon Shin, Jeong-Hyeon Choi, Hwan-Gue Cho, Jae-Hoo Cha, Dong-Geun Lee, Hee-Kyung, and Cheol-Min Kime. "Investigation of Conserved Gene in Microbial Genomes using in silico Analysis,"  Korean Journal of Life Science (KJLS), 12(5):610-621, 2002.   (Korean) [PDF]
     
  14. (SCIE:0.560) Jeong-Hyeon Choi, Hee-Jeong Jin, Cheol-Min Kim, Chul-Hun L. Chang, and Hwan-Gue Cho. "Development and Application of Workbench for Analysis and Visualization of Whole Genome Sequence,"  Korean Journal of Genetics (KJG), 24(2):205-217, 2002.   (Korean) [PDF]
     
  15. (SCIE:0.560) Jeong-Hyeon Choi, Seok-Ki Lee, Su-Bog Lee, Young-Jin Kim, Hwan-Gue Cho, and Kyu-Won Kim. "Analysis of Genome by Visualization of Genomic Signature,"  Korean Journal of Genetics (KJG), 24(1):97-104, 2002.   (Korean) [PDF]
     
  16. (SCIE:0.583) Young-Min Kang, Jeong-Hyeon Choi, Hwan-Gue Cho, Do-Hoon Lee. "An Efficient Animation of Wrinkled Cloth with Approximate Implicit Integration,"  The Visual Computer Journal, Springer-Verlag, 17:147-157, May 2001.   [PDF] [EE]
     
  17. Jeong-Hyeon Choi and Hwan-Gue Cho. "An Analysis for Whole Genome Sequence Using String B-Tree,"  Journal of Korea Information Processing Society A (KIPS), 8-A(4):509-516, 2001.   (Korean) [PDF]
     
  18. (SCI:3.409) Jeong-Hyeon Choi, Ho-Youl Jung, Hye-Sun Kim, and Hwan-Gue Cho. "PhyloDraw: A Phylogenetic Tree Drawing System,"  Bioinformatics, 16(11):1056-1058, 2000.   [Homepage] [EE]
     

 Conference & Workshop

  1. Hee-Jeong Jin, Hye-Jung Kim, Jeong-Hyeon Choi, and Hwan-Gue Cho "AlignScope : A Visual Mining Tool for Gene Team Finding with Whole Genome Alignment,"  Asia Pacific Bioinformatics Conference (APBC'06), pp 69-78, Februry 2006, Taipei, Taiwan.   [EE]
     
  2. Sun Kim, Jeong-Hyeon Choi, and Jiong Yang. "Gene Teams with Relaxed Proximity Constraint,"  IEEE Computational Systems Bioinformatics (CSB'05), pp 44-55, August 2005, San Francisco, CA.   [EE] [Supplement]
     
  3. Jeong-Hyeon Choi and Hwan-Gue Cho. "Analysis of common k-mer using SSB-tree,"  Genome Informatics Series (GIW'02), 13:30-41, December 2002, Tokyo, Japan.   [PDF] [EE]
     
  4. Jeong-Hyeon Choi, Ho-Young Kang, Cheol-Min Kim, and Hwan-Gue Cho. "Identification of Common genes or Sequences Using SequeX,"  Proc. of Korean Society for Bioinformatics Annual Meeting (KOSBI'02), pp 239-250, October 2002, Busan, Korea.   (Korean) [PDF]
     
  5. Mi-Nyeong Hwang, Jeong-Hyeon Choi, Do-Hoon Lee, and Hwan-Gue Cho. "Keyword Sequence Alignment and Visualization for the Similarity of Program Sources,"  Proc. of the Korean-Japan Computer Graphics Conference (KJCGC'01), August 2001, Busan, Korea.
     
  6. Jeong-Hyeon Choi, Hee-Jeong Jin, and Hwan-Gue Cho. "Implementation of k-mer Analysis System for DNA Sequence Using String B-Tree,"  Proc. of Korea Information Science Society (KISS'01) 28(1):748-750, April 2001, Korea.   (Korean) [PS] [PDF]
     
  7. Jeong-Hyeon Choi, Kyong-Su Bae, Hee-Jeong Jin, and Hwan-Gue Cho. "Construction of Protein DB with  the Biologist-friendly Interface,"  KOSTI, 2000, Daejeon, Korea.
     
  8. Young-Min Kang, Jeong-Hyeon Choi, Hwan-Gue Cho, and Chan-Jong Park. "A fast and stable cloth animation with approximation of implicit method,"  Proc. of Computer Graphics International (CGI'00), pp. 247-255, June 2000, Geneva, Swiss.   [PS] [PDF] [EE]
     
  9. Young-Min Kang, Jeong-Hyeon Choi, Do-Hoon Lee, Chan-Jong Park, and Hwan-Gue Cho. "Real-time animation technique for flexible and thin objects,"  International Conferences in Central Europe (WSCG'00), pp 322-329, Febrary 2000, Plzen, Czech.   [PS] [PDF] [EE]
     

 Poster

  1. Pamela J.B. Brown, Jeong-Hyeon Choi, Kwangmin Choi, Ankita Bhan, Ellen N. Weinzapfel, Sun Kim, and Yves V. Brun. "Physiological Advantages of the Development of Bacterial Morphology,"  NSF sequencing awardee workshop, January 2008.  
     
  2. Jeong-Hyeon Choi, Sun Kim, Haixu Tang, Justen Andrews, Donald Gilbert, and John Colbourne. "A Machine Learning Approach to Genome Assembly Validation,"  Daphnia Genome Consortium annual meeting 2007, poster, July 2007.   [Abstract] [Poster]
     
  3. Jeong-Hyeon Choi. "Combining experimental results to validate the Daphnia genome assembly,"  Daphnia Genome Consortium annual meeting 2006, poster 16, January 2006.   [Abstract] [Poster]
     
  4. Jeong-Hyeon Choi and Hwan-Gue Cho. "SequenceX: A Workbench for Analysis and Visualization of Whole Genome Sequences,"  International Conference on Intelligent Systems for Molecular Biology (ISMB'02) poster 43B, June 2002, Edmonton, Canada.   [PDF]
     

 Thesis

  1. Jeong-Hyeon Choi. "A Genome Alignment Algorithm Based on Filtering, Translation and Randomization,"  Ph.D. dissertation, Pusan National University, Busan, Korea, Auguest 2004.   (Korean) [PDF]
     
  2. Jeong-Hyeon Choi. "An analysis and visualization system for whole genome using suffix tree,"  Master thesis, Pusan National University, Busan, Korea, Auguest 2000.   (Korean) [PS] [PDF]
     

 Lecture
  • L529: Bioinformatics in Molecular Biology and Genetics: Practical Applications (Co-Instructor), Indiana University, Spring 2005 
  • L529: Bioinformatics in Molecular Biology and Genetics: Practical Applications (Assistant Instructor), Indiana University, Fall 2003 
  • Special education for the gifted children (Information Science), Pusan National University, Jul. 2000 ~ Mar. 2003 
  • BioJava, Interdisciplinary Research Program of Bioinformatics, Pusan National University, Sep. ~ Dec. 2002 
  • Assembly, Department of Computer Science and Engineering, Pusan National University, Mar. ~ Jun. 2002 
  • Bioinformatics (Perl), Center for Genomics, Korea National Genome Research Institute, May 2001 
  • Exam for administrator in e-commerce, Information Technology Center, Pusan National University, Mar. ~ May. 2001 
  • Web master, studying and training for education information literacy, Jan. 2001 
  • Web programming using ASP, Information Technology Center, Pusan National University, Jan. ~ Feb. 2001 
  • Web programming using Perl, Information Technology Center, Pusan National University, Sep. ~ Oct. 2000 
  • Web master, Information Technology Center, Pusan National University, Apr. ~ Aug. 2000 
  • How to make homepage, Information Technology Center, Pusan National University, Sep. 1998 ~ Feb. 2000 
  • Internet information retrieval, Information Technology Center, Pusan National University, Jul.~Aug. 1998 

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