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    Min Kyu Kim, PhD, MS

    TitleAssistant Professor
    SchoolUCSF School of Medicine
    DepartmentCellular Molecular Pharmacology
    Address1700 4th Street
    San Francisco CA 94158
    Phone415-476-3068
    EmailMinKyu.Kim@ucsf.edu
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      Collapse Biography 
      Collapse Education and Training
      KAISTB.Sc.Biology1992
      Seoul National UniversityM.S.Molecular Biology1995
      Seoul National UniversityPh.D.Biological Sciences2000
      Seoul National University PostDocBiological Sciences2001
      Harvard Medical SchoolPostDocBiological Chemistry and Molecular Pharmacology2009
      Collapse Awards and Honors
      KAIST1992Cum laude
      Korea Research Foundation1995 - 1996Pre-doctoral Fellowship for Future Researchers
      Harvard Medical School2004BCMP Discovery of the Year
      The Medical Foundation2005 - 2007Charles A. King Trust Postdoctoral Fellowship

      Collapse Overview 
      Collapse Overview
      Protein Interaction Networks Governing Cell Differentiation

      Stem cells are pluripotent to differentiate into various cell types in the body. Thus, analyzing each differentiation process using stem cells is fundamental not only to understand its basic mechanisms but also to take advantage of stem cells for therapeutic purposes. My research will investigate protein differential regulation and protein-protein interactions, using the large-scale proteomics and genomics, to dissect functions of protein complexes during cellular differentiation as they are formed and expressed. This study may allow us to identify a novel key regulator(s) of significant medical relevance for multiple cellular differentiation pathways (especially for cancer research and treatment).



      Transcription Termination and RNA Processing

      Proteins of different activities are often derived from a single gene by alternative polyadenylation and termination, and many bacterial operons are controlled by attenuation, which manifest the importance of transcription termination in gene regulation. However, the mechanisms that terminate transcription are less well understood. The goal of this research is to define the functional interactions between various protein factors and RNA polymerases to understand the regulation of transcription termination and its fundamental roles in gene expression and RNA 3’-end processing. Ultimately, this study may be able to lead us to manipulate termination, so that we can develop potential therapies for genetic disorders caused by aberrant termination.

      Collapse Interests
      Eukaryotic gene expression, RNA Processing & Transcriptional Termination, Chromatin Modification and Epigenetics, Large-scale Proteomics and Genomics, Stem Cells, Cancer, Personalized Medicine

      Collapse Bibliographic 
      Collapse Publications
      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
      List All   |   Timeline
      1. Kim K, Heo DH, Kim I, Suh JY, Kim M. Exosome Cofactors Connect Transcription Termination to RNA Processing by Guiding Terminated Transcripts to the Appropriate Exonuclease within the Nuclear Exosome. J Biol Chem. 2016 Jun 17; 291(25):13229-42. PMID: 27076633.
        View in: PubMed
      2. Park J, Kang M, Kim M. Unraveling the mechanistic features of RNA polymerase II termination by the 5'-3' exoribonuclease Rat1. Nucleic Acids Res. 2015 Mar 11; 43(5):2625-37. PMID: 25722373; PMCID: PMC4357727.
      3. Heo DH, Yoo I, Kong J, Lidschreiber M, Mayer A, Choi BY, Hahn Y, Cramer P, Buratowski S, Kim M. The RNA polymerase II C-terminal domain-interacting domain of yeast Nrd1 contributes to the choice of termination pathway and couples to RNA processing by the nuclear exosome. J Biol Chem. 2013 Dec 20; 288(51):36676-90. PMID: 24196955; PMCID: PMC3868778.
      4. Lunde BM, Reichow SL, Kim M, Suh H, Leeper TC, Yang F, Mutschler H, Buratowski S, Meinhart A, Varani G. Cooperative interaction of transcription termination factors with the RNA polymerase II C-terminal domain. Nat Struct Mol Biol. 2010 Oct; 17(10):1195-201. PMID: 20818393; PMCID: PMC2950884.
      5. Kim M, Suh H, Cho EJ, Buratowski S. Phosphorylation of the yeast Rpb1 C-terminal domain at serines 2, 5, and 7. J Biol Chem. 2009 Sep 25; 284(39):26421-6. PMID: 19679665; PMCID: PMC2785330.
      6. Vasiljeva L, Kim M, Mutschler H, Buratowski S, Meinhart A. The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain. Nat Struct Mol Biol. 2008 Aug; 15(8):795-804. PMID: 18660819; PMCID: PMC2597375.
      7. Vasiljeva L, Kim M, Terzi N, Soares LM, Buratowski S. Transcription termination and RNA degradation contribute to silencing of RNA polymerase II transcription within heterochromatin. Mol Cell. 2008 Feb 15; 29(3):313-23. PMID: 18280237.
        View in: PubMed
      8. Dion MF, Kaplan T, Kim M, Buratowski S, Friedman N, Rando OJ. Dynamics of replication-independent histone turnover in budding yeast. Science. 2007 Mar 9; 315(5817):1405-8. PMID: 17347438.
        View in: PubMed
      9. Kim M, Vasiljeva L, Rando OJ, Zhelkovsky A, Moore C, Buratowski S. Distinct pathways for snoRNA and mRNA termination. Mol Cell. 2006 Dec 8; 24(5):723-34. PMID: 17157255.
        View in: PubMed
      10. Liu CL, Kaplan T, Kim M, Buratowski S, Schreiber SL, Friedman N, Rando OJ. Single-nucleosome mapping of histone modifications in S. cerevisiae. PLoS Biol. 2005 Oct; 3(10):e328. PMID: 16122352; PMCID: PMC1195719.
      11. Kim M, Krogan NJ, Vasiljeva L, Rando OJ, Nedea E, Greenblatt JF, Buratowski S. The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II. Nature. 2004 Nov 25; 432(7016):517-22. PMID: 15565157.
        View in: PubMed
      12. Kim M, Ahn SH, Krogan NJ, Greenblatt JF, Buratowski S. Transitions in RNA polymerase II elongation complexes at the 3' ends of genes. EMBO J. 2004 Jan 28; 23(2):354-64. PMID: 14739930; PMCID: PMC1271760.
      13. Ahn SH, Kim M, Buratowski S. Phosphorylation of serine 2 within the RNA polymerase II C-terminal domain couples transcription and 3' end processing. Mol Cell. 2004 Jan 16; 13(1):67-76. PMID: 14731395.
        View in: PubMed
      14. Nedea E, He X, Kim M, Pootoolal J, Zhong G, Canadien V, Hughes T, Buratowski S, Moore CL, Greenblatt J. Organization and function of APT, a subcomplex of the yeast cleavage and polyadenylation factor involved in the formation of mRNA and small nucleolar RNA 3'-ends. J Biol Chem. 2003 Aug 29; 278(35):33000-10. PMID: 12819204.
        View in: PubMed
      15. Krogan NJ, Kim M, Tong A, Golshani A, Cagney G, Canadien V, Richards DP, Beattie BK, Emili A, Boone C, Shilatifard A, Buratowski S, Greenblatt J. Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II. Mol Cell Biol. 2003 Jun; 23(12):4207-18. PMID: 12773564; PMCID: PMC427527.
      16. Kim MJ, Kim M, Park SD. Post-transcriptional regulation of ura4+ gene expression by glucose in Schizosaccharomyces pombe. Mol Cells. 2002 Dec 31; 14(3):437-43. PMID: 12521309.
        View in: PubMed
      17. Krogan NJ, Kim M, Ahn SH, Zhong G, Kobor MS, Cagney G, Emili A, Shilatifard A, Buratowski S, Greenblatt JF. RNA polymerase II elongation factors of Saccharomyces cerevisiae: a targeted proteomics approach. Mol Cell Biol. 2002 Oct; 22(20):6979-92. PMID: 12242279; PMCID: PMC139818.
      18. Jang YK, Kim M, Dai Park S. Fibrillarin binds to a 3' cis-regulatory element in pre-mRNA of uvi15+ in fission yeast. Biochem Biophys Res Commun. 2002 Jun 28; 294(5):1184-90. PMID: 12074602.
        View in: PubMed
      19. Cho EJ, Kobor MS, Kim M, Greenblatt J, Buratowski S. Opposing effects of Ctk1 kinase and Fcp1 phosphatase at Ser 2 of the RNA polymerase II C-terminal domain. Genes Dev. 2001 Dec 15; 15(24):3319-29. PMID: 11751637; PMCID: PMC312848.
      20. Kim M, Lee W, Park J, Kim JB, Jang YK, Seong RH, Choe SY, Park SD. The stress-activated MAP kinase Sty1/Spc1 and a 3'-regulatory element mediate UV-induced expression of the uvi15(+) gene at the post-transcriptional level. Nucleic Acids Res. 2000 Sep 1; 28(17):3392-402. PMID: 10954610; PMCID: PMC110690.
      21. Kim SH, Kim M, Lee JK, Kim MJ, Jin YH, Seong RH, Hong SH, Joe CO, Park SD. Identification and expression of uvi31+, a UV-inducible gene from Schizosaccharomyces pombe. Environ Mol Mutagen. 1997; 30(1):72-81. PMID: 9258332.
        View in: PubMed
      22. Lee JK, Kim M, Choe J, Seong RH, Hong SH, Park SD. Characterization of uvi15+, a stress-inducible gene from Schizosaccharomyces pombe. Mol Gen Genet. 1995 Mar 20; 246(6):663-70. PMID: 7898433.
        View in: PubMed
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