< Recent Publications >

Year 2005

Dong-Ho Kim, Mark A. Behlke, Scott D. Rose, Mi Sook Chang, Sangdun Choi, and John J. Rossi (2005) Synthetic dsRNA Dicer substrates enhance RNAi potency and efficacy. Nature Biotechnology, 23, p222−226 (2005). (chosen for the "Cover Story") [PDF]

Jong-Ik Hwang, Sangdun Choi, Iain D.C. Fraser, Mi Sook Chang, and Melvin I. Simon (2005) Silencing the expression of multiple G{beta}-subunits eliminates signaling mediated by all four families of G proteins. Proc Natl Acad Sci U S A. 102(27):9493-8 [PDF]

Sangdun Choi, Xuebin Liu, Ping Li, Takayuki Akimoto, Sun Young Lee, Curtis Gumbs, Mei Zhang, and Zhen Yan (2005) Signaling during active remodeling of skeletal muscle in response to an acute bout of voluntary running (published in J Appl Physiol)

Xiaocui Zhu and Sangdun Choi (2005) Understanding cellular signaling networks in mouse macrophage cells. In Introduction to Systems Biology (Ed. Sangdun Choi). Humana Press Inc., Totowa, NJ. [PDF]

Sangdun Choi (2005) Introduction to Systems Biology (Book, Editor: Sangdun Choi) Humana Press Inc., Totowa, NJ. [PDF]

Yeisoo Yu and Sangdun Choi (2005). Bioinformatics Packages for Sequence Analysis. In Applied Mycology and Biotechnology - Genes, Genomics & Bioinformatics. Elsevier Science. The Netherlands (D. Arora, Ed) (accepted_in press) [PDF]

Sangdun Choi, Leah T. Santat, Mi Sook Chang, Jong-Ik Hwang, Iain D.C. Fraser, and Melvin I. Simon. Silencing the expression of G protein alpha i2 and beta 2 by small interfering RNAs, small hairpin RNAs or antisense oligonucleotides in mouse macrophage RAW 267.4 cells and their comprehensive comparisons by DNA microarray analyses (submitted to Nature Biotechnology)

Winston P. Kuo, Peter J. Park, and Sangdun Choi (2005) DNA microarrays and statistical genomic techniques (D. Allison, G. Page, M. Beasley, J. Edwards, Eds). Marcel Dekker, Inc., New York (in press)

Tomoki Ito, Yui-Hsi Wang, Norihiko Watanabe, Shino Hanabuchi, Toshiyuki Hori, Guy J Delespesse, Sangdun Choi, Wei Chen, Xiao-Feng Qin, Wei Cao and Yong-Jun Liu. TSLP-activated dendritic cells trigger TH2 responses by a positive TH2-polarizing signal and a default mechanism (submitted to J Experimental Medicine)

Jamie A. Lee, Robert S. Sinkovits, Dennis Mock, Eva Rab, Jennifer Cai, Peng Yang, Brian Saunders, Robert C. Hsueh, Sangdun Choi, Shankar Subramaniam and Richard H. Scheuermann. Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation (submitted to Blood)

Jamie A. Lee, Robert Sinkovits, Dennis Mock, Jennifer Cai, Peng Yang, Eva Rab, Brian Saunders, Robert C. Hsueh, Sangdun Choi, Tamara I. A. Roach, Shankar Subramaniam, and Richard H. Scheuermann. Experimental validation of CLASSIFI: a tool for functional classification of microarray gene clusters (submitted to PNAS)

Sangdun Choi, Kum-Joo Shin, Yun Anna Cao, Sun Young Lee, and Melvin I. Simon. Phototransduction signaling in light-induced retinal degeneration. (submitted to Molecular Vision)

Dennis Mock, Robert Hsueh, Paul Sternweis, Sangdun Choi, Melvin I. Simon, and Shankar Subramaniam. The analysis of signaling network-based transcriptional network response in murine B-cells (submitted to The Journal of Immunology)

Sangdun Choi, Xiaocui Zhu, Mi Sook Chang, Robert Hsueh, Paul Sternweis, and Melvin Simon. Regulation of molecular mechanism in B lymphocytes by IL4, AIG, CD40L, and LPS. (in preparation)

Sangdun Choi, Xiaocui Zhu, Mi Sook Chang, Robert Hsueh, Paul Sternweis, and Melvin Simon. Transcriptional regulation of pathways activated by lipopolysaccharide in RAW 264.7 cells (in preparation)

Xiaocui Zhu, Robert Hsueh, Paul Sternweis, Melvin I. Simon, and Sangdun Choi. Gene expression profiling reveals interactions of signals activated by different proliferative ligands in B cells (in preparation)

Year 2004

Xiaocui Zhu, Rebecca Hart, Mi Sook Chang, Jong-Woo Kim, Sun Young Lee, Yun Anna Cao, Dennis Mock, Eugene Ke, Brian Saunders, Angela Alexander, Joella Grossoehme, Keng-Mean Lin, Zhen Yan, Robert Hsueh, Jamie Lee, Richard H. Scheuermann, David A. Fruman, William Seaman, Shankar Subramaniam, Paul Sternweis, Melvin I. Simon, and Sangdun Choi (2004) Analysis of the Major Patterns of B Cell Gene Expression Changes in Response to Short-Term Stimulation with 33 Single Ligands. The Journal of Immunology. 173, p7141-7149. [PDF]

Jonathan M. Levenson, Sangdun Choi, Sun-Young Lee, Yun Anna Cao, Kim Worley, Hui Zheng, and David Sweatt (2004) A bioinformatics analysis of memory consolidation reveals involvement of the transcription factor c-Rel. The Journal of Neuroscience. 24, p3933-3943 (also chosen for the "This Week in The Journal" page of the April 21 issue of The Journal of Neuroscience) [PDF]  [PDF]

Jonathan A. Deane, Matthew J. Trifilo, Claudine M. Yballe, Sangdun Choi, Thomas E. Lane, and David A. Fruman (2004) Enhanced T cell proliferation in mice lacking the p85b subunit of phosphoinositide 3-kinase. The Journal of Immunology. 172, p6615-6625 [PDF]

Jong-Ik Hwang, Iain D.C. Fraser, Sangdun Choi, Xiao-Feng Qin, and Melvin I. Simon (2004) Analysis of C5a-mediated chemotaxis by lentiviral delivery of siRNA. Proc. Natl. Acad. Sci. USA 101(2), p488-493 [PDF]

Peter J. Park, Yun Anna Cao, Sun Young Lee, Jong-Woo Kim, Mi Sook Chang, Rebecca Hart, and Sangdun Choi (2004) Current issues for DNA microarrays: platform comparison, double amplification, and universal standard. The Journal of Biotechnology. 112/3: p225-245 [PDF]

Fred S. Dietrich, Sylvia Voegeli, Sophie Brachat, Anita Lerch, Krista Gates, Sabine Steiner, Christine Mohr, Rainer Pöhlmann, Philippe Luedi, Sangdun Choi, Rod A. Wing, Albert Flavier, Thomas D. Gaffney, and Peter Philippsen (2004) The Ashbya gossypii Genome as a Tool for Mapping the Ancient Saccharomyces cerevisiae Genome. Science 304, p304-307 [PDF]

Ju-Han Kim, Il Soo Ha, Chang-Il Hwang, Young-Ju Lee, Yonsu Kim, Dong-Sup Lee, Ji-Hoon Kim, Seung-Hee Yang, Yun Anna Cao, Sangdun Choi, and Woong-Yang Park (2004) Gene expression profiling of anti-GBM glomerulonephritis model: the role of NF-kappaB in immune complex kidney disease. Kidney International. 66:1826-1837 [PDF]

Sangdun Choi (2004) DNA Chips and Microarray Analysis: An Overview. In Handbook of fungal biotechnology. 2nd Ed. (D. Arora, Ed) Marcel Dekker, Inc., New Youk, NY. p173-179 [PDF]

Sangdun Choi (2004). Large DNA Transformation in Plants. In Bacterial Artificial Chromosomes: Functional Studies - Methods in Molecular Biology (S. Zhao and J. Walker, Eds.), Humana Press Inc., Totowa, NJ. Vol. 256 (2), p57-68

Tamara Roach, Sangdun Choi, Xiaocui Zhu, and Heping Han (2004) Cultured transgenic human Bcl-2 B cells as an alternative signaling model for primary B cells. Nature - The Signaling Gateway. AfCS Research Reports. April 9, 2004. Vol. 2, No. 13BC [PDF]

Year 2003

Zhen Yan, Sangdun Choi, Xuebin Liu, Mei Zhang, Jeoffrey J. Schageman, Sun Young Lee, Rebecca Hart, Ling Lin, Frederick A. Thurmond, and R. Sanders Williams. (2003). Highly coordinated gene regulation in mouse skeletal muscle regeneration. J. Biol. Chem. 278, 8826-8836 [PDF]

Sangdun Choi (2003). Biodiversity. KOGO News 3(2), 8-10 [PDF]

J.M. Levenson, S. Choi, K.C. Worley, H. Zheng, M. Simon, J.D. Sweatt (2003) Regulation of histone acetylation and gene expression during consolidation of long-term memory in the hippocampus (Neuroscience)

Sangdun Choi (2003). The DNA structure made Watson and Crick. KOGO News. 3(1), 9-11 [PDF]

Yun Anna Cao and Sangdun Choi (2003). Affimetrix Microarray Analysis. Nature-The Signaling Gateway

Yun Anna Cao and Sangdun Choi (2003). Microarray Protocol for Agilent Inkjet-Deposited Presynthesized Oligo Arrays. Nature-The Signaling Gateway

Jonathan M. Levenson, Sangdun Choi, Sun-Young Lee, Melvin I. Simon, J. David Sweatt (2003). RNA expression profiling of long-term memory consolidation in normal and Alzheimer's hippocampus. Learning & Memory. Cold Spring Harbor Laboratory

Year 2002

Gilberto R. Sambrano, Grischa Chandy, Sangdun Choi, Dianne Decamp, Robert Hsueh, Keng-Mean Lin, Dennis Mock, Nancy O'rourke, Tamara Roach, Hongjun Shu, Bob Sinkovits, Mary Verghese, and Henry Bourne. (2002). Unravelling the signal-transduction network in B lymphocytes. Nature 420, 708-710 [PDF]

Alfred Gilman .. Sangdun Choi, et al. (2002). Overview of the Alliance for Cellular Signaling. Nature 420, 703-706 [PDF]

Sangdun Choi (2002). Transcript Profiling by Microarray Analysis. Nature-The Signaling Gateway

Sangdun Choi (2002). Size matters = afcs.org. Korea Genome Organization News. 2(2): p3-5

Sangdun Choi (2002). Eternal Life. Korea Genome Organization News. 2(3): p9-11 [PDF]

Sangdun Choi (2002). Current issues and technologies of DNA microarrays. Korea Genome Organization News. 2(1): p2-4 [PDF]

Jonathan M. Levenson, Sangdun Choi, Melvin I. Simon, J. David Sweatt (2002). Genomic blueprint for formation of contextual fear memory. Neuroscience, Nov. 2-7, 2002. Orlando, FL. 84.14

Year 2001

Sangdun Choi, Wenshan Hao, Ching-Kang Chen, and Melvin I. Simon (2001). Gene expression profiling: transcription analysis of light-induced visual degeneration using mouse oligonucleotide microarrays. Proc. Natl. Arcd. Sci. USA 98:13096-13101 [PDF]

Eric Lander .. Sangdun Choi, et al. (2001). Initial sequencing and analysis of the human genome. Nature (2001) 409:860-921  [PDF]

Hiroaki Shizuya, Sangdun Choi, and Yu-Juin Chen (2001) Supplementary Information for "Initial Sequencing and Analysis of the Human Genome" Nature, V412, 565 [PDF]

Sangdun Choi and Ung-Jin Kim (2001). Construction of a bacterial artificial chromosome library. In Genomics Protocol. Methods Mol Biol. The Humana Press Inc., U.K. (R. Elaswarapu and M. Starkey, Eds.) 175: p57-68

Yang, Z. N., Ye, X. R., Choi, S., Molina, J., Moonan, F., Wing, R. A., Roose, M. L., and Mirkov, (2001). T. E. Construction of a 1.2 MB contig in the Citrus Tristeza virus resistance gene locus using a bacterial artificial chromosome library of Poncirus trifoliate (L.) RAF. Genome 44:382-393 [PDF]

Sangdun Choi (2001). Gene Stories. Korea Genome Organization News. 1(5): p10-11 [PDF]

Sangdun Choi (2001). Array of Arrays. Korea Genome Organization News. 1(4): p4-6  [PDF]

Sangdun Choi (2001). Genome Era. Korea Genome Organization News. 1(2): p3-5 [PDF]

Sangdun Choi et al. (2001). Light-induced apoptosis. The Scientist

Year 2000

Sangdun Choi, Dilara Begum, Heather Koshinsky, David Ow, D. and Rod A. Wing (2000). (S. Choi: corresponding author) A new approach for the identification and cloning of genes: pBACwich system using Cre-lox site specific recombination. Nucleic Acid Research 1; 28(7): E19 [PDF]

Sangdun Choi and Rod A. Wing (2000). Construction of Bacterial Artificial Chromosome (BAC) Libraries. In Plant Molecular Biology Manual (2 ed) Kluwer Academic Publishers, The Netherlands (S. Gelvin and R. Schilperoort, Eds.) H5, 1-28

Sangdun Choi (2000). Functional genomics. The Biochemistry News 19(3): 215-219

Tomkins, J. P., Miller-Smith, H., Sasinowski, M., Choi, S., Sasinowska, H., Verce, M., Freedman, D. L., Dean, R. A., and Wing, R. A. (2000). Physical map and organization of the Ochrobactrum anthropi genome using bacterial artificial chromosome contigs. Microbial & Comparative Genomics 4(3): 203-217

Selected Oral Presentations (2000 - August 2005)

Sangdun Choi (2005). Signal Transduction in Immune Cells. US-Korea Conference 2005, Bio-Science & Technology Symposium Co-Chair. Place: University of California at Irvine, Date: Aug. 11-13, 2005

Sangdun Choi (2005). Signal Transduction in Immune Cells. The 15th Annual KSEA South-Western Regional Technology Conference, Medical and Life Sciences Session Chair. Place: University of California at Irvine, Date: March 5, 2005

Sangdun Choi (2005). Understanding Biology Using Gene Expression Profiling. 2005 Winter Symposium for the Principles and Practice of Microarray for Biomedical Researchers. Place: Mu-Ju Resort Ti Rol Hotel, Korea. Date: Feb. 21-22, 2005

Sangdun Choi (2004). Cellular Signaling in Immune Cells. University of Texas MD Anderson Cancer Center, Houston, TX. April 6, 2004

Sangdun Choi (2004).  The 14th Annual KSEA South-Western Regional Technology Conference, Medical and Life Sciences Session Chair. Place: Sheraton Cerritos Hotel Towne Center, Date: March 6, 2004

Sangdun Choi (2003). Systems biology approaches for the signaling network constructions. University of Texas MD Anderson Cancer Center, Houston, TX. Dec. 10, 2003

Sangdun Choi (2003). Multidimensional Approaches for Functional Genomics: DNA Microarray, Bioinformatics, RNA interference, Yeast Two-hybrid, etc. (http://bi.snu.ac.kr/Info/TALKS/030901.html). Biointelligence Laboratory Talks. Seoul National University, School of Computer Sci. & Eng., Seoul, Korea. Sept. 1, 2003

Sangdun Choi (2003). US-Korea Conference 2003 Organizer, Biotechnology Symposium Organizer, Keynote Lecture Chair. Korean-American Scientist and Engineers Association, California Institute of Technology, Caltech, CA. Aug. 7-10, 2003

Sangdun Choi (2003). Transcript analysis on new AfCS experimental candidate cell lines. 3rd Annual AfCS Meeting. Pasadena, CA. May 18-21, 2003

Sangdun Choi (2002). How to apply DNA microarray technologies to your own researches. Macrogen Annual DNA Array Symposium, Seoul National University Medical School, November 27, 2002

Sangdun Choi (2002). Special Lecture3: Who would like to build planes in the air? - The Alliance for Cellular Signaling and the array of DNA microarrays as a part of it (http://www.kogo.or.kr/seminar/Seminar_Guide_2002.htm). The 11th Korea Genome Conference, Seoul National University, Aug. 22-23, 2002

Sangdun Choi (2002). DNA Microarrays: Analysis and Presentation; RNAi; Y2H Screen; Cloning Projects. Second Annual Meeting of The Alliance for Cellular Signaling. Dallas, TX. May 5-8, 2002

Sangdun Choi (2001). DNA Microarrays. US-Korea Conference 2001. Korean-American Scientist and Engineers Association, Massachusetts Institute of Technology, Boston, MA. Aug. 6-8, 2001

Sangdun Choi (2001). Mining Comprehensive Expression Profiles to Put Known Genes into Context and Identify Novel Genes. Clinical Pathology Workshop, Cheon-An Green Resort, Korea, May 18-19, 2001

Sangdun Choi (2000). DNA chip technologies: transcription analysis of light-induced visual degeneration using mouse cDNA and oligonucleotide microarrays as an example. The 9th Korea Genome Conference. Seoul National University Medical School, Seoul, Korea. Aug. 17, 2000

Sangdun Choi (2000). Gene expression profiles. US-Korea Conference 2001 Southern California Chapter. Korean-American Scientist and Engineers Association Southern Chapter, Renaissance Hotel, Los Angeles, CA. May 2-3, 2000

           Since April 1, 2003