Curriculum Vitae: Wen-Hsiung Li

Mailing address: Dept of Ecology & Evolution, University of Chicago, 1101 East 57th Street, Chicago, IL 60637, USAPhone: 773-702-3104 Fax: 773-702-9740 Email: whli@uchicago.eduBirth Date and Place: 22 September 1942; Ping-Tung, TaiwanNationality: U.S. Citizen Family Status: Married, three children

EDUCATION:

Institution Degree Field Year Chung-Yuang College of Science B.E. Civil Engineering 1965 and Engineering, TaiwanNational Central University, Taiwan M.S. Geophysics 1968Brown University, Providence, RI, USA Ph.D. Applied Mathematics 1972 PRESENT APPOINTMENT:James D. Watson Chair Professor 2004-Dept of Ecology & Evolution, the University of ChicagoDirector, Biodiversity Research Center, Academia Sinica, Taiwan 2008-Division Director, Genomics Research Center, Academia Sinica, Tawan 2003-

POSITIONS HELD IN THE PAST:

George Beadle Chair Professor 1999-2004Dept of Ecology & Evolution, the University of Chicago

Professor, with tenure, 1984-1998Betty Wheless Trotter Professor in Medical Sciences, 1996-1998 Human Genetics Center, University of Texas Health Science Center-Houston

Associate Professor of Population Genetics, with tenure, 1978-1984Assistant Professor of Population Genetics, 1973-1978 Center for Demographic and Population Genetics, Graduate School of Biomedical Sciences, University of Texas Health Science Center-Houston

Project Associate, Medical Genetics, Univ. of Wisconsin-Madison, 1972-1973

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PROFESSIONAL ACTIVITIES:

Editor, Molecular Phylogenetics and Evolution, 1991 –Editorial Board, Genome Research, 2007-Editor, PloS Computational Biology 2005-Associate Editor, Genome Biology & Evolution 2009-Associate Editor, Journal of Bioinformatics and Computational Biology, 2003-Editorial Board, Zoological Studies, 1993 -Associate Editor, Theoretical Population Biology, 1981 - 1986Editorial Board, Molecular Biology and Evolution, 1983 - 1993Editorial Board, Journal of Molecular Evolution, 1984 - 1997Associate Editor, Journal of Molecular Evolution, 1998 -2004Associate Editor, Genetics, 1986 - 1997Editorial Board, Mathematical Biosciences, 1990 - 2003Editor, Gene, 1997 - 2001Area Editor (Evolution & Comparative Genomics) Encycl. of Human Genome, Macmillian 1999-2002

Scientific Advisory Board, the Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany, 2000-Overseers Committee, the Department of Organismic & Evolutionary Biology, Harvard, 2000Co-Chair, Board of Advisors, Research Center for Biodiversity, Academia Sinica, Taiwan, 2004 -2007Academic Advisor, Institute of Organismic and Cell Biology, Academia Sinica, Taiwan, 2004 – 2007Academic Advisor, Institute of Molecular Biology, Academia Sinica, Taiwan, 2004 – 2007Academic Advisor, Institute of Zoology, Academia Sinica, Taiwan, 1997 - 2004Academic Advisor, Institute of Botany, Academia Sinica, Taiwan, 1997 - 2004Academic Advisor, Laboratory of Cellular and Molecular Evolution, Kunming Institute of Zoology, The Chinese Academy of Sciences, 1997 -2002

President, Society for Molecular Biology and Evolution, 2000President, Bioinformatics Society of Taiwan. 2005-2007.

Associate, Canadian Institute for Advanced Research, Program in Evolutionary Biology, 1992 - 1997

AWARDS and HONORS:

Balzan Prize 2003 for Genetics and Evolution

The Mendel Lecture and Medal 2009

Member, National Academy of Sciences 2003-

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Fellow, American Academy of Arts and Sciences 1999-

Academician, Academia Sinica, Taiwan 1998-

President, Society for Molecular Biology and Evolution 2000

Taiwanese-American Foundation Prize for Best Achievement in Science and Technology 2005

HUGO 2008 Chen Award for Distinguished Academic Achievement in Human Genetic and Genomic Research

Horace Mann Medal 2004

George Beadle Professor, University of Chicago 1999-

Betty Wheless Trotter Professor in Medical Sciences, UT Houston, 1996-1998

Associate, Canadian Institute for Advanced Research, Program in Evolutionary Biology, 1992 - 1997

Fellowship, National Long Term Development of Sciences, Taiwan, 1966, 1967

Brown University Fellowship for Graduate Students, 1968 - 1969

Dean's Excellent Teaching Award, University of Texas-Houston, 1989, 1994, 1995, and 1996

MEMBERSHIP IN PROFESSIONAL SOCIETIES:

American Society of Human Genetics (life member since 1972)

The Society for the Study of Evolution (life member since 1973)

Society for Molecular Biology and Evolution (1983-)

Society of Systematic Biology (Life member, 1990-)

Genetics Society of America (1972-1998)

RESEARCH INTERESTS:

Evolutionary Genomics, Molecular Evolution, Bioinformatics and Computational Biology, Population Genetics, Human Genetics

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INTERVIEWS BY SCIENCE AND NEWS MEDIA

Science, on molecular clocks, 1985 PNAS paper, May 1985

BBC TV, on ``Origins and evolution of AIDS viruses", June 1990

New York Times, UPI, Washington Post, Toronto Sun, Dallas Morning News, and many other newspapers on Nature paper ``Is the guinea pig a rodent?" June 1991

BBC TV, National Public Radio and AAAS radio on ``Is the guinea pig a rodent?" June 1991

Discover, it rated our paper as one of the top 50 stories in science in 1991

AAAS Annual Meeting News Release (on Molecular clocks), February 1992 UT TV and Radio, September 1992

On Nature 1993 paper on Male-driven Evolution of DNA Sequences: Associate Press, USA Today, Houston Post, April 21, 1993 NBC Radio, and BBC TV, April 22, 1993

Science (267:1907-1908) on ``Evolution slowing down in humans", March 31, 1995

On ``Adaptive evolution of color vision genes", Science 1995 paper Monday Morning, University of Texas, August 27, 1995 WAMC Radio Station. Albany New York, October 2, 1995

On ``Evolution of color vision in higher primates" Chronicle of Higher Education, July 1997

On ``Male-driven evolution in birds" Science

On “Trichromatic vision in prosimians”. Chronicle, University of Chicago, and CNN, Nov. 1999

On “Evolutionary analyses of the Human Genome”, Nature Feb. 15, 2001 Chicago Tribune, Chicago Sun-Time, Dallas Morning Star, SicienceNews, NewsRx (Genomics and Genetics), etc.

Male-driven evolution, Nature April 11, 2002 Chicago tribune, Chronicle

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The chimpanzee genome News and Views article: Interviewed by The Scientist, National Geographic, Bloomberg News and Chicago Tribune. August 30-31, 2005

Interviewed by Science for the PNAS paper on color vision genes in primates. Sept. 23, 2005.

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INVITED TALKS SINCE 1992

1992

Speaker, Conference on ``Origins and molecular evolution of angiosperms", Köln, Germany, January 13-15.

Institute of Evolution, University of Haifa, Haifa, Israel, January

Max-Plank-Institut für Immungenetik, Tübigen, Germany, January

Speaker, Symposium on ``Molecular Evolutionary Rates, Patterns and Process", The AAAS Annual Meeting, Chicago, Feb. 6-11.

Department of Ecology and Evolution, University of Chicago, Chicago. February.

Galton Laboratory of Genetics, University College London, London, England, March.

Speaker, Symposium on ``Genome sequence variation", The Genetical Society (UK) Spring Meeting, Dublin, Ireland, March 25-27.

Department of Microbiology, University of Texas-San Antonio, April 14-16.

Speaker, Workshop on ``Optimal sampling of human populations for molecular analysis", Stanford University, July 16 -18.

Speaker, The Canadian Institute for Advanced Research, Evolutionary Biology Program Annual Meeting, Halifax, Nova Scotia, September 12-15.

Speaker, NATO Workshop on ``Genome Organization, Function and Evolution", Spetsai, Greece, September 16-21.

Max-Planck-Institut für Züchtungsforschung, Köln, Germany, Sept. 21-23.

Department of Biology, University of Houston, Texas, Oct. 29.

Institute of Molecular Biolgy, Academia Sinica, Taipei, Taiwan, Nov. 30

Institute of Zoology, Academia Sinica, Taipei, Taiwan, December.

Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan, December.

Speaker, “30th Anniversary Symposium on Recent Advances in Plant Science", Institute of Botany, Academia Sinica, Taipei, Taiwan, Dec. 7-11.

Speaker, “Seminar on Molecular Evolution", Rotorua, New Zealand, December 12-14.

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Speaker, “Forum on phylogenetic reconstruction", Massey University, Palmerston North, New Zealand, Dec. 15 to 18.

Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan, December

1993

Department of Biology, Yale University, New Haven, March

Speaker, International Symposium on “Molecular Evolution and Bioinformatics", Mishima, Japan, April 16 -17.

Department of Molecular and Cell Biology, University of California, Berkeley, April 20-21.

Co-Organizer and speaker, Symposium on “Molecular Aspects of Vertebrates Evolution", Annual Meeting of Society for the Study of Evolution", Snowbird, Utah, June 19-23

Speaker, International Symposium “Models in Phylogeny Reconstruction", London, August 2 -4.

Convener, Workshop on “Phylogenetic analysis of sequences", 17th International Congress of Genetics, Birmingham, UK, August 15-21.

Speaker, Symposium on “Molecular Phylogenies", “4th Congress of the European Society for Evolutionary Biology", August 22-27.

Speaker, Conference on “Population Genetics", Canadian Institute for Advanced Research, August 27-29.

Dept of Statistics, Ohio State University, Columbus, Oct. 14-15

Dept of Ecology and Evolutionary Biology, University of Chicago, Oct. 18-19.

Speaker, Annual Meeting, Canadian Insitute for Advanced Research, Banff, Canada, Oct. 19-24.

1994

Dept of Biological Sciences, University of South Carolina, Columbia, Mar. 14-15. Speaker, Workshop on ``Handling of Molecular Data in Systematics", Cologne, Germany, Mar. 27-31.

Speaker, Workshop on ``Open questions in molecular evolution", The International

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Society of Molecular Evolution. Guanacaste, Costa Rica, April 18-23.

Organizer and speaker, Symposium on ``Recent advances in molecular phylogenetics",26th International Numerical Taxonomy Conference, Houston, June 17-19.

Speaker, Annual Meeting, Canadian Insitute for Advanced Research, Halifax, Canada, August 10-14.

Speaker, Symposium on ``The evolution of homeotic and other morphogenetic genes and organismal phylogeny", International Institute for Advanced Studies. Kyoto, Japan, Oct. 26-28.

Dept of Bioscience, Tokyo Institute of Technology, Yokohama, Japan.

Dept of Genetics and Molecular Medicine, Emory University, Atlanta, Dec. 5-6

Speaker, “Symposium and Workshop on Molecular Systematics and Evolution", Sponsored by National Science Council, Dec. 19 - 22, Taipei, Taiwan

Institute of Statistics, Academia Sinica, Taipei, Taiwan, December.

Dept of Biology, Tung-Hai University, Taichung, Taiwan, December.

Dept of Biology, National Sun Yat-sen University, Kaohsiung, Taiwan, December. 1995

Speaker, Symposium on ``Uniqueness and diversity in biology", sponsored by UNESCO and World Institute of Science, Paris, Jan. 10-13.

Speaker, ``Molecular Anthropology: Toward a new Evolutionary Paradigm", Wayne State University School of Medicine, Detroit, March 13-14.

Dept of Biostatistics, University of Michigan, Ann Arbor, March

Dept of Ecology and Evolutionary Biology, University of Chicago, March

Speaker, International Conference on HIV Sequence Variation and Statistical Methods. Rutgers University, Piscataway, New Jersey, May 3-5.

Section of Genetics and Development, Cornell University, Ithaca, May

Dept of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, May

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The Aaron Diamond AIDS Research Center, University of New York, New York, JuneSpeaker, “EMBO Practical Course on Computer-based sequence analysis and Molecular Evolution", Lyon, France, June 26 - July 1.

Speaker, “DNA Structure and Biological Evolution", 3rd Taipei

International Symposium on “Statistical Physics: Nonlinear and Nonrandom Processes", Institute of Physics, Academia Sinica, Taipei, July 18-24.

Institute of Botany, Academia Sinica, Taipei, Taiwan, July

Dept of Medical Genetics, Peking Union Medical College, Beijing, China, Oct. 11-12

Speaker, “Symposium on Mechanisms of Evolution", Taian, Shantung,China, October 14-17.

Speaker, “Symposium on Molecular Evolution", Fudan University, Shanghai, China, October 20-21.

Kunming Institute of Zoology, Academia Sinica, China, Oct. 23-26

Institute of Basic Medical Sciences, Zhejiang Medical University, Hangzhou, China, Oct. 27-29

Genetics Program, Texas A&M University, College Station, Texas, Nov. 2

Speaker, Symposium on “Diversity of homeotic genes and evolution of the eye", International Institute for Advanced Studies. Kyoto, Japan, Nov. 17-18.

Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan, November.

Institute of Zoology, Academia Sinica, Taipei, Taiwan, November.

Dept of Zoology, National Taiwan University, Taipei, Taiwan, November.

Institute of Life Sciences, National Tsing Hua University, Hsinchu, Taiwan, November.

Institute of Life Sciences, National Sun Yat-sen University, Kaohsiung, Taiwan, November.

1996Speaker, Gordon Research Conference in Molecular Evolution, Ventura, California, Jan. 28 - Feb. 2.Dept of Biological Sciences, University of Iowa, Iowa City, Feb. 2-3.

Keynote Speaker, Symposium on "Culture as well as Biological Affinities among the

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indigenous Peoples of Taiwan and Southeast Asia", Institute of Ethnology, Academia Sinica, Taipei, May 21-23.

Speaker, 4th International Meeting, the Society for Molecular Biology and Evolution, Tucson, Arizona, June 8-11.

Speaker, Society of Systematic Biologists Symposium, Washington University, St. Louis, June 19-23.

Speaker, Joint Statistical Meetings, Chicago, Aug. 4-8.

Speaker and Organizer, Symposium on "Processes of Molecular Evolution", 5th International Congress of Systematic and Evolutionary Biology, Budapest, Aug. 17-24.

Speaker, Workshop on "Primate Evolution", 9th International Congress of Human Genetics, Rio de Janeiro, Brazil, Aug. 18-23.

Dept of Biological Sciences, Federal University of Para, Belem, Brazil, Aug. 23-25.

Instituto de Medicina Tropical da Faculdade de Medicina da Universidade de Sao Paulo, Sao Paulo, Brazil, Aug. 23-25.

Speaker, Workshop on "Statistical Analysis of Molecular Data", National Taiwan University Medical School, Sept. 8-10.

Dept of Life Sciences, National Tsing Hua University, Hsin Chu, Taiwan Sept. 11.

Speaker, Horizontal Gene Transfer: Implications and Consequences, Fallen Leave Lake Conference, South Lake Tahoe, California. Sept. 12-15.

Dept of Ecology and Evolution, Unversity of Chicago, Chicago, Nov. 18-20.

1997

Speaker, Symposium on "Junk DNA: The role and evolution of noncoding sequences", The International Society of Molecular Evolution. Guanacaste, Costa Rica, Jan. 6-10.

Workshop on "Human DNA Sequence Variation", National Human Genome Research Institute, Bethesda, March 31 - April 1

Dept of Zoology, University of Maryland, College Park, April 2

Dept of Statistics, North Carolina State University, Railegh, April 3.

Speaker, Mini-Symposium on "The Genetics of Sensory Perception", Duke University, April 4-5

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Speaker, "Statistics in Health Sciences", the Institute of Mathematics and its Application, University of Minnesota, Minneapolis, July 6 - 11.

Speaker, Colloquium on "Computational Bimolecular Science", National Academy of Sciences, Irvine, California, Sept. 11-13.

Workshop on "Development and Evolution", Madrid, Spain, Nov. 2 to 5.

Sponsored by Instituto Juan March de Estudios e Investigaciones, and the European Molecular Biology Organization

Speaker, Symposium on computational Sciences, "Bioinformatics:from Experiment to Biological Knowledge", Biozentrum, University of Basel, Switzerland, Dec. 11-13.

1998

Discussion leader, Gordon Research Conf. on "Molecular Evolution", Ventura, California, Jan. 25 - 30.

Department of Mathematics, Rice University, Houston, April 8.

Department of Botany, University of Texas-Austin, April 16-17.

Department of Statistics, Southern Methodist University, Dallas, May 1.

Department of Zoology, National Taiwan University, Taipei, Taiwan, June 12.

Speaker, DNA Sequence Analysis Workshop, Tsing-Hua University, Taiwan, June 15-17.

Speaker, 18th International Congress of Genetics, Beijing, China, Aug. 10-15.

Speaker, "Genetics and Conservation of Biodiversity", Kunming Satellite Conf., Kunming, China, Aug. 16-18.

Speaker, "Fukuoka International Symposium of Population Genetics", Fukuoka, Japan, Aug. 19-23.

Speaker, "Y-Chromosome in Disease and Evolution", The Banbury Center, Cold Spring Harbor Laboratory, Oct. 13-16.

Speaker, Symposium in Conjuction with the International Prize for Biology, Tokyo, Japan, Dec. 7-10.

1999

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Speaker, Symposium on "Statistical physics and DNA sequence data analyses", sponsored by the National Science Council of Taiwan, Chia-Yi, Taiwan, Jan. 18-22.

Department of Biomedical Sciences, National Sun Yat-Sen University, Kaohsiung, Taiwan, April 19.

Speaker, Symposium on "Molecular clocks", Evolution Annual Meeting, Madison, Wisconsin, June 22-27.

Department of Genetics and Evolution, La Trobe, Australia, July 19.

Organizer and speaker, Symposium "Statistical methods for DNA sequence analyses and phylogenetic reconstruction", VII Congress of European Society of Evolutionary Biology, Barcelona, Spain, Aug. 22-28.

Organizer and speaker, Syposium "Human DNA polymorphism and evolution", IVth International Congress of Ales Hrdlicka "World Anthropology at the Turn of the Centuries". Prague, Czech Republic, Aug. 31- Sept. 4

Chair, "Comparative Genomics", Gordon Research Conference on Molecular Evolution, Haiyama, Japan, Oct. 24-28.

Speaker, Workshop on "Human DNA Variation and Evolution", Academia Sinica, Taiwan, Nov. 24-26.

2000

Speaker, “Evolution 2000”, Tokyo, Japan, March 5 - 7.

Speaker, Banbury Center Conference on “Great apes: phenotypes and genotypes”, Cold Spring Harbor, New York, March 19-22.

Speaker, Annual Meeting of Environmental Mutagen Society, New Orleans, April 8-13.

Speaker, 69th Annual Meeting, American Association of Physical Anthropologists, San Antonio, Texas, April 10-15.

Speaker, Workshop on “Neutralism and selectionism: the end of a debate?”, Stazione Zoologica of Naples, Italy, May 4-6.

Nei Lecture, Annual Meeting of the Society for Molecular Biology & Evolution, Yale University, New Haven, Connecticut, June 17-20.

Seminar, Institute of Biomedical Sciences, Academia Sinica, Taiwan. July 1.

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Seminar, Institute of Botany, Academia Sinica, Taiwan. July 10.

Seminar, Institute of Mathematics, Academia Sinica, Taiwan. July 10.

Seminar, Dept. of Life Science, National Tsin-Hua University, Hsinchu, Taiwan. July 11.

Seminar, Dept of Biology, Univ. of Michigan, Ann Arbor, MI. Sept. 13.

Seminar, Dept of Anthropology, Harvard University, Cambridge, MA. Sept. 28.

Speaker, Workshop on “Mutators and Mutability”, Santa Fe Institute, Santa Fe, New Mexico, October 21-26.

Seminar, National Center for Genome Resources, Santa Fe, Oct. 26-27.

Lecture series, Theoretical Center, National Tsin Hua University, Dec. 8 to 18.

2001

Speaker, Genes and Minds Initiative Workshop, Tokyo, March 13-15.

Speaker, Pharmacia-UpJohn, Kalamazoo, Michigan, March 26.

Speaker, Spring School on “Population Genetics and Molecular Evolution”, Humboldt University, Berlin, April 9-11.

Speaker, Development and Evolution: the effect of gene and genome duplications, German Genetics Society. Wittenberg, Germany, April 19-22. Speaker, Jacques Monod Conference on “Gene duplications and the evolution of novel gene functions”, Aussois, France, April 26-30.

Speaker, Symposium on “Primate Evolutionary Genetics”, American Genetic Association, San Diego, May 19-20.

Speaker, “Comparative Biology and Evolution Symposium”, PanAmerican Society for Pigment Cell Research. Minnesota. June 14-17 (K. Makova gave the talk).

Speaker, TSMC Conference on Bioinformatics, National Chao-Tung University, Aug. 1.

Speaker, “Evolutionary Genomics Symposium”, American Chinese Biologist Association, Taipei. Aug. 6-10.

Speaker, Summer Institute on Bioinformatics, Institute of Information Science, Academia Sinica, Taipei, Taiwan. Aug. 3-17.

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Speaker, “Gene and Genome Duplications and the Evolution of Novel Gene functions”, European Society for Evolutionary Biology. Aarhus, Denmark. Aug. 20-26.

Speaker, the 5th Anton Dohrn Workshop on “Natural Selection and Neutral Theory ”, Naples, Italy, October 28-30.

Speaker, Symposium on "Evolutionary Genomics - New Paradigm of Biology in the 21st Century": Atami, Japan. Nov. 4-7.

Speaker, "Molecular Evolution Conference": Academia Sinica, Taipei, Taiwan. Dec. 26-28.

2002

Speaker, Workshop on “Genes, Peoples and Languages”, the Institute for Pure and Applied Mathematics, UCLA. Feb. 11 – 15.

Speaker, the Post-Genome Knowledge Discovery Program, the Institute for Mathematical Sciences, National University of Singapore. March 25-30.

Seminar, Bioinformatics Research Center, Medical College of Wisconsin, April 18.

Seminar, Dept of Biology, Penn State, May 13-15.

Speaker, the CTS-DIMACS joint conference, National Center for Theoretical Sciences. Hsin-Chu. Taiwan. May 24-26.

Speaker (plenary), “Molecular Evolution”, Joint International Conference of the Society for Molecular Biology and Evolution and the International Society of Molecular Evolution. Sorrento, Italy. June 13-17.

Organizer and Speaker, Workshop on Mathematical Models in Genetics and Molecular Biology. National Center for Theoretical Sciences. National Tsing-Hua University. June 27-30.

Participant, NSF “Genomics of Human Origins” Workshop. Washington, DC. July 22-23.

Discussion leader, Gordon Research Conference on “Genomics & Structural/Evolutionary Bioinformatics”, Mount Holyoke College, South Hadley, MA. July 28-Aug. 2.

Seminar, Department of Biology and Biochemistry, University of Bath, England. Nov. 5.

Seminar, Institute of Cell, Animal and Population Biology, University of Edinburgh, Edinburgh. Nov. 6.

Speaker, ‘The Descent of Man’: A Molecular Perspective. The Genetics Society Autumn Meeting. London. Nov. 7-9.

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Seminar, Institute of Statistics, National Chiao-Tung University, Taiwan. Nov. 20.

Speaker (plenary), “Genome 2002 Symposium”, Yang Ming University, Taipei, Taiwan. Nov. 17.

Speaker, Symposium on Molecular Basis of Evolution, Tokyo, Japan. Dec. 3-4.

2003

Speaker, Workshop, Kavli Institute for Theoretical Physics, UCSB. Jan. 13.

Distinguished Speaker, Inst. of Genetics Medicine, University of Southern California. Jan. 14 – 15.

Keynote speaker, Workshop on Bioinformatics, National Sun Yat-sen University, March 17-20.

Seminar, Beadle Center for Genetics Res., University of Nebraska, Lincoln, Nebraska, April 15-16.

Seminar, Biology Department, Lycoming College, Williamsport, PA, April 24.

Speaker and Organizer, Expressional and Functional Divergence of Duplicate Genes at the Genomic Level, Soc. for Molecular Biology & Evolution, Annual Meeting, Newport Beach, CA, June 26-29.

Speaker, Conf. on Bioinformatics, National Chiao-Tung University, Hsinchu, Taiwan. Aug. 1-2.

Speaker, 9th Congress the European Society for Evolutionary Biology, Leeds, UK, Aug. 18-23.

Keynote speaker, Conference on Engineering Technology and Application of Chinese andWestern Medicine. Taichung, Taiwan. Sept. 13.

Speaker, Genomics Days, University of Lausanne, Lausanne, Switzerland, Sept. 18-19.

2003 Xiangshan Science Symposium on Genomics and Evolution, Beijing, China. Oct. 27-30.

Seminar, Department of Ecology & Evolution, ETH Zurich, Switzerland, Nov. 6.

2004

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Speaker, International Conference on "Evolutionary Genomics”, Tucson, Arizona. Jan. 16-17.

Speaker, Gordon Conference in Molecular Evolution. Ventura, California. February 1 – 6.

Speaker, GRC on “Structural, Functional & Evolutionary Genomics”. Ventura, Cal. Feb. 15 – 20.

Speaker and session co-chair, 2004 "Biology of Genomes", Cold Spring Harbor Laboratory. May 12 - 16.

Keynote Speaker, International Symposium on Statistical Physics: Biologically Motivated Statistical Physics and Related Problems. Taipei, Taiwan. June 22-26.

Speaker, Workshop on “Comparative genomics of vertebrates: concepts and bioinformatic tools”, La Londes Les Maures, France. May 27-28

Speaker, 2nd Functional Genomics Reunion Conference. Institute of Physics and Applied Mathematics, UCLA. June. 1-4.

Speaker, 3rd Wu Ta-You Science Camp, His-Tou, Taiwan. Aug. 9-13.

Keynote speaker, Symposium for Biomolecules, Medicine, Therapeutics, and Computation, University of Illinois at Chicago.  Oct. 8.

Seminar, Department of Biostatistics, University of Michigan. Oct. 11-12.

Seminar, Genetics Program, Texas A&M University. Nov. 3-5.

2005

Speaker, Florida Bioinformatics Workshop 2005. University of Florida. Feb. 21-22.

Speaker, International Society of Molecular Evolution meeting: “Genome and RNA: Expression and Functions”. Punta Leona, Costa Rica, Feb. 26-March 2.

Myra Samuels Lecture, Department of Statistics, Purdue University. April 21-22.

Speaker, System Biology and Bioinformatics Symposium 2005. March 29-31. Taipei, Taiwan.

Speaker, the Fourth Annual Department of Genome Sciences Symposium. University of Washington. Seattle. May 18.

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Speaker, Symposium on Comparative and Functional Genomics, Penn State University. July 20-23.

Speaker, The 8th Chien-Shiung Wu Science Camp in 2005. Shi-tou, Nantou, Taiwan. August 9-11.

Speaker, International Workshop: "Complex biomolecular networks: structure, evolution, and function". The Montauk Yacht Club, Long Island. September 6-9.

Seminar, Department of Biological Sciences, University of Iowa. September 16.

Plenary speaker, Main Symposium, the 77th Annual Meeting of the Genetics Society of Japan. Tokyo, September 27-29.

Speaker, International Conference on Nonlinear Analysis, Institute of Mathematics, Taipei, Taiwan. December 17-20.

2006

Departmental Seminar, Dept of Ecology and Evolutionary Biology, UCLA, Feb. 8-10.

Keynote speaker, The Fourth Asian Pacific Bioinformatics Conference. Taipei, Taiwan. Feb. 13-16.

Plenary speaker and session organizer, HUGO-06, Taipei, Taiwan. March 6-10.

Huey Sun Lecture, National Chung-Hsing University, Tai-Chung, March 15.

Speaker, Symp. On “Teaching Evolution and the Nature of Science”. New York Academy of Sciences. New York City, April 21-22.

Seminar, University of Southern California, Los Angeles. March 20-22.

Seminar, Institute of Bioinformatics, University of Georgia, Athens. March 29-31.

Seminar, Evolution Seminar Series, University of Wisconsin, Madison, April 27.

Speaker and co-organizer, Symposium on "Mutation, selection and evolutionary genomics", Stockholm, Sweden. May 10-13.

Seminar, Dept of Genetics, University of Lund, March 14-15.

Speaker, “Genomes, Evolution, and Bioinformatics”, Annual Meeting of the Society for Molecular Biology and Evolution, Arizona State University. Tempe, Arizona. May 24 – 28.

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Speaker and Co-Chair “Molecular Evolution”, 20th IUBMB International Congress of Biochemistry and Molecular Biology. Kyoto, Japan. June 18-23.

Speaker, Course on “DNA and Chromosomes: Physical and Biological Approaches”, Cargèse, Corsica, France. June 19 – July 1.

Seminar, Ochanomizu University, Tokyo, Japan, July 12-13.

Speaker, Evolutionary Genomics and Bioinformatics Symp., Taipei, August 15-16.

Seminar, Center for Cellular and Biomedical Research, University of Toronto, Toronto, Oct. 4-5.

Seminar, University of McMaster, Hamilton, Canada Oct. 6-7.

Keynote speaker, 2006 International Workshop on Medical and Bio Informatics and ICS 2006. Taipei, Dec. 4-6.

Plenary speaker, Annual Meeting, Taiwan Mathematics Society. Taipei, Dec. 8-10.

2007

Speaker, International Symp. “Genomics and Evolution”, Guangzhou, China, Jan. 3-5.

Speaker, KITP workshop on Evolution of Biological Networks, UCSB, Feb. 5 to 9.

Speaker, the 2007 Taipei International Statistical Symposium and ICSAInternational Conference, Academia Sinica, June 25-27.

Seminar, Center for Systems Biology and Bioinformatics, National Taiwan University, June 27.Seminar, Institute of Statistics, NCTU, Hsinchu, Taiwan, July 3.

Keynote speaker, The 5th Taiwan yeast annual meeting, Academia Sinica, Aug. 1.

Speaker, Symp. on “Evolution of unusual gene organization”, 11 th European Congress of Evolutionary Biology. Uppsala, Sweden, Aug 20-25.

Seminar, University of Tromso, Norway, Aug. 24.

Seminar, University of Bergen, Norway, Aug. 27.

Speaker, “Evolution of Brain and Behaviour”, Cambridge UK, September 12-14.

Speaker, International Symposium on Influenza Virus, Taiwan. October 22-24.

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The Clark Cockerham Lecture, North Carolina State University, Raleigh, North Carolina, Nov. 7-9.

Seminar, Institute for Cellular and Molecular Biology, UT Austin, Nov. 14-15.

Keynote Speaker, Symposium of Botanical Society of Taiwan. NTU, Nov. 24-25

Speaker, Symposium, Computational and Theoretical Biology, Rice University, Dec. 7-9.

Public lecture, National Museum of Natural History, TaiChung, Taiwan, Dec. 15.

2008

Seminar, Center for Integrative Genomics, University of Lausanne. Feb. 27-March 1.

Public lecture. “A genetic view of human evolution”. Academia Sinica. In honor of President Wang Shi-Jie. March 8

Keynote speech, Japan-Taiwan Young Computational Scientists. March 9-11.

Seminar, Cold Spring Harbor Laboratory, Cold Spring Harbor, New York. April 16.

Keynote speaker, Symposium on Applied Mathematics, National Chung-Hsing University, May 6.

Seminar, Chinese Science and Technology University, He Fei, Anhui, China. May 13.

Seminar, Anhui University, He Fei, Anhui, China. May 13.

Speaker, Chinese Academy of Sciences Symposium for Developmental Systems Biology. Beijing, May 18-20.

Speaker, International meeting of the Society for Molecular Biology and Evolution. Barcellona, Spain. June 5-8.

Public lecture: A genomic view of human evolution. Sao Paulo, Brazil. July 12.

Symp. On “Gene Regulation and Systems Biology”, Michigan State University, East Lansing, MI. July 18-20.

Keynote speaker, Plant Mol. Biol. Summer Camp. Chia-Yi, Aug. 7-9.

Keynote speaker, Biology Summer Camp. Hsi-Tou, Aug. 27-29

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Student seminar, Department of Molecular and Integrative Physiology, University of Illinois, Urbana-Champaign. Date to be determined.

EMBO Workshop on Evolutionary and Environmental Genomics of Yeasts. EMBL Heidelberg, Germany, Oct. 1-5.

Keynote speaker, Symp. Taiwanese Society of Molecular Medicine, Taipei, Oct. 18.

2009

Seminar, Institute of Bioinformatics and Systems, National Central University, Chung-Li, Taiwan. Jan. 5.

Keynote speaker, 17th Symposium on Recent Advances in Cellular and Molecular Biology, Kenting, Ping-Tung, Taiwan. February 11-13.

Speaker, Darwin Bicentennial Series, National Taiwan University, Taipei, Taiwan. Feb. 27.

Seminar, Department of Life Sciences, National Central University, Chung-Li, Tao-Yuan, March 3

Keynote speaker, Biodiversity Conference, Center for Biodiversity, Ji-Ji, Nantou, March 15-16.

Seminar, National Chung-Hsin University, Tai-Chung, Taiwan. March 20.

Seminar, China Medical University, Tai-Chung, Taiwan. March 20.

Keynote speaker, Taiwan Genomics Association. 14th Taiwan Joint Cancer Conference. Taipei, May 2~3.

Seminar, Institute of Genomics and Systems Biology, University of Chicago, May7.

Plenary speaker, 2009 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2009). Minneapolis, Minnesota. May 17-19.

Speaker, Symp. “Evolution of biological complexity, SMBE, Iowa City, Iowa. June 3-7.

Keynote speaker, Ta-You Wu Summer Science Camp, His-tou, Nan-Tou, Aug. 2-7.

Seminar, Dept of Life Sciences, Tung-Hai University. Sept. 30.

Speaker, the 100th International Titisee Conference on “Genome evolution and the origin of novel gene functions”. Titisee, Black Forest, Germany. October 14-18.

Public talk: “Genetics and Evolution”. Academia Sinica. Nov. 24.

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Seminar, Dept of Boengineering, University of Illinois, Chapaign-Urbana, Nov. 5.

The Mendel Lecture. Discussion Meeting “Genetics and the Causes of Evolution: 150 Years of Progress since Darwin”, a joint annual meeting of Genetics Society of UK and Royal Society. London November 12-13.

Seminar, Modern sequencing technology and its applications, National Tsing-Hua University, Hsin-Chu. Dec. 25.

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PUBLICATIONS:

Books

Li, W.-H. Ed. (1977) Stochastic Models in Population Genetics. Dowden, Hutchinson Ross, Stroudsburg, Pa.

Li, W.-H. and D. Graur (1991) Fundamentals of Molecular Evolution, Sinauer Associates, Sunderland, Massachusetts.

Li, W.-H. (1997) Molecular Evolution, Sinauer Associates, Sunderland, Massachusetts

Graur, D. And W.-H. Li (2000) Fundamentals of Molecular Evolution, 2nd Edition, Sinauer Associates, Sunderland, Massachusetts.

Papers (refereed original papers; no abstracts and book reviews included):

1. Li, W.-H. and M. Nei (1972) Total number of individuals affected by a single deleterious mutation in a finite population. Amer. J. Hum. Genet. 24:667-679.

2. Li, W.-H. (1973) Total number of individuals affected by a single sex-linked deleterious mutation in a finite population. Amer. J. Hum. Genet. 25:598-603.

3. Nei, M. and W.-H. Li (1973) Linkage disequilibrium in subdivided populations. Genetics 75:213-219.

4. Li, W.-H. and M. Nei (1974) Stable linkage disequilibrium without epistasis in a subdivided population. Theor. Pop. Biol. 6:173-183.

5. Li, W.-H. (1975) Total number of individuals affected by deleterious mutant genes in a finite population. Ann. Hum. Genet. 38:333-340.

6. Li, W.-H. (1975) The first arrival time and mean age of a deleterious mutant gene in a finite population. Amer. J. Hum. Genet. 27:274-286.

7. Freire-Maia, A., W.-H. Li, and T. Maruyama (1975) Genetics of Acheiropodia (the handless and footless families of Brazil). VII. Population Dynamics. Amer. J. Hum. Genet. 27:665-675.

8. Li, W.-H. and M. Nei (1975) Drift variances of heterozygosity and genetic distance in transient states. Genet. Res. 25:229-248.

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9. Nei, M. and W.-H. Li (1975) Probability of identical monomorphism in related species. Genet. Res. 26:31-43.

10. Li, W.-H. (1976) A note on the arrival probability, first arrival time and age of a mutant gene in a finite population. Ann. Hum. Genet. 39:435-440.

11. Li, W.-H. (1976) Growth of deleterious mutant genes in a large population. Ann. Hum. Genet. 39:441-446.

12. Li, W.-H. (1976) A mixed model of mutation for electrophoretic identity of proteins within and between populations. Genetics 83:423-432.

13. Li, W.-H. (1976) Effect of migration on genetic distance. Amer. Nat. 110:841-847.

14. Li, W.-H. (1976) Electrophoretic identity of proteins in a finite population and genetic distance between taxa. Genet. Res. 28:119-127.

15. Li, W.-H. (1976) Distribution of nucleotide differences between two randomly chosen cistrons in a subdivided population: the finite island model. Theor. Pop. Biol. 10:303-308.

16. Nei, M. and W.-H. Li (1976) The transient distribution of allele frequencies under mutation pressure. Genet. Res. 28:205-214.

17. Li, W.-H. (1977) Distribution of nucleotide differences between two randomly chosen cistrons in a finite population. Genetics 85:331-337.

18. Li, W.-H. (1977) Maintenance of genetic variability under mutation and selection pressures in a finite population. Proc. Natl. Acad. Sci. U.S.A. 74:2509-2513.

19. Li, W.-H. and M. Nei (1977) Persistence of common alleles in two related populations or species. Genetics 86:901-914.

20. Li, W.-H. (1978) Maintenance of genetic variability under the joint effect of mutation, selection and random drift. Genetics 90:349-382.

21. Li, W.-H. (1979) Effect of changes in population size on the correlation between

mutation rate and heterozygosity. J. Molec. Evol. 12:319-329.

22. Li, W.-H. (1979) Maintenance of genetic variability under the pressure of neutral and deleterious mutations in a finite population. Genetics 92: 647-667.

23. Li, W.-H. (1979) Variance of genetic distance and correlation of heterozygosity between populations under the pressure of stepwise mutation. Theor. Pop. Biol. 15:171-190.

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24. Nei, M. and W.-H. Li (1979) Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA 76:5269-5273.

25. Ewens, W.J. and W.-H. Li (1980) Frequency spectra of neutral and deleterious alleles in a finite population. J. Math. Biol. 10:155-166.

26. Nei, M. and W.-H. Li (1980) Non-random association between electromorphs and inversion chromosomes in finite populations. Genet. Res. 35:65-83.

27. Li, W.-H. (1980) Rate of gene silencing at duplicate loci: A theoretical study and interpretation of data from tetraploid fishes. Genetics 95:237-258.

28. Li, W.-H. (1981) Simple method for constructing phylogenetic trees from distance matrices. Proc. Natl. Acad. Sci. USA 78:1085-1089.

29. Li, W.-H. (1981) A simulation study on Nei and Li's model for estimating DNA divergence from restriction enzyme maps. J. Mol. Evol. 17:251-255.

30. Li, W.-H., T. Gojobori and M. Nei (1981) Pseudogenes as a paradigm of neutral evolution. Nature 292:237-239.

31. Nei, M., W.-H. Li, F. Tajima and P. Narrain (1981) Polymorphism and evolution of the Rh blood groups. Jap. J. Human Genet. 26:263-278.

32. Gojobori, T., W.-H. Li and D. Graur (1982) Patterns of nucleotide substitution in pseudogenes and functional genes. J. Mol. Evol. 18: 360-369.

33. Griffiths, R.C. and W.-H. Li (1983) Simulating allele frequencies in a population and the genetic differentiation of populations under mutation pressure. Theor. Pop. Biol. 23:19-33.

34. Li, W.-H. and T. Gojobori (1983) Rapid evolution of goat and sheep globin genes following gene duplication. Mol. Biol. Evol. 1:94-108.

35. Li, W.-H. (1984) Retention of cryptic genes in microbial populations. Mol. Biol. Evol. 1:213-219.

36. Lopez, L.C., W.-H. Li, M.L. Frazier, C.-C. Luo and G.F. Saunders (1984) Evolution of glucagon genes. Mol. Biol. Evol. 1:335-344.

37. Li, W.-H., C.-I. Wu and C.-C. Luo (1984) Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications. J. Mol. Evol. 21:58-71.

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38. Li, W.-H., C.-I. Wu and C.-C. Luo (1985) A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes. Mol. Biol. Evol. 2:150-174.

39. Wu, C.-I. and W.-H. Li (1985) Evidence for higher rates of nucleotide substitution in rodents than in man. Proc. Natl. Acad. Sci. USA 82: 1741-1745.

40. Chan, L., C.-F. Wei, W.-H. Li, C.-Y. Yang, P. Ratner, H. Pawnall, A.M. Gotto, Jr., and L.C. Smith (1985) Human liver fatty acid binding protein cDNA and amino acid sequence: Functional and evolutonary implications. J. Biol. Chem. 260:2629-2632.

41. Wei, C.-F., S-H. Chen, C.-Y. Yang, Y.L. Marcel, R.W. Milne, W.-H. Li, J.T. Sparrow, A.M. Gotto Jr., and L. Chan (1985) Molecular cloning and expression of partial cDNAs and deduced amino acid sequence of a carboxyl-terminal fragment of human apolipoprotein B-100. Proc. Natl. Acad. Sci. USA 82:7265-7269.

42. Wu, C.-I., W.-H. Li, J.J. Shen, R.C. Scarpulla, K.J. Limbach, and R. Wu (1986) Evolution of Cytochrome c Genes and Pseudogenes. J. Mol Evol. 23:61-75.

43. Luo, C.-C., W.-H. Li, M.-N. Moore, and L. Chan (1986) Structure and evolution of the apolipoprotein multigene family. J. Mol. Biol. 187:325-340.

44. Li, W.-H. (1986) Evolutionary change of restriction cleavage sites and phylogenetic inference. Genetics. 113:187-213.

45. Fukasawa, K.M., W.-H. Li, K. Yagi, C.-C. Luo, and S.S.-L. Li (1986) Molecular evolution of mammalian lactate dehydrogenase-A genes and pseudogenes: Association of a mouse processed pseudogene with a B1 repetitive sequence. Mol. Biol. Evol. 3:330-342.

46. Li, W.-H. (1986) Evolutionary change of restriction sites under unequal rates of nucleotide substitution among the three positions of codons. J. Mol. Evol. 23:205-210

47. Chen, S.-H., C.-Y. Yang, P.-F. Chen, D. Setzer, M. Tanimura, W.-H. Li, A. M. Gotto, Jr. and L. Chan (1986) The complete cDNA and amino acid sequence of human apolipoprotein B-100. J. Biol. Chem. 261:12918-12921.

48. Yang, C.-Y., S.-H. Chen, J. T. Sparrow, S. H. Gianturco, W. A. Bradley, M. Tanimura, W.-H. Li, D. A. Sparrow, H. DeLoof, M. Rosseneu, F.-S. Lee, Z.- W. Gu, A. M. Gotto, Jr. and L. Chan (1986) Sequence, structure, receptor-binding domains and internal repeats of human apolipoprotein B-100. Nature 323:738-742

49. Sharp, P.M. and W.-H. Li (1986) Codon usage in regulatory genes in Escherichia coli does not reflect selection for "rare" codons. Nucl. Acids Res. 14:7737-7749.

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50. Sharp, P.M. and W.-H. Li (1986) An evolutionary perspective of synonymous codon usage in unicellular organisms. J. Mol. Evol. 24:28-38.

51. Byrness, L., C.-C. Luo, W.-H. Li, C.-Y. Yang, and L. Chan (1987) Chicken apolipoprotein A-I: cDNA sequence, tissue expression and evolution. Biochem. Biophys. Res. Comm., 148:485-492.

52. Chen, S.-H., G. Habib, C.-Y. Yang, Z.-W. Gu, B.R. Lee, S.-A. Weng, S. Silberman, S.-J. Cai, J.P. Deslypere, M. Rosseneu, A.M. Gotto, Jr., W.-H. Li and L. Chan (1987) Apolipoprotein B-48 is the product of a messenger RNA with an organ-specific in-frame stop codon. Science, 238:363-366.

53. Datta, S., W.-H. Li, I. Ghosh, C.-C. Luo, and L. Chan (1987) Structure and expression of dog apolipoprotein C-II and C-III mRNAs: Implications for the evolution and functional constraints of apolipoprotein structure. J. Biol. Chem., 262:10588-10593.

54. De Loof, H., M. Rosseneu, C.-Y Yang, W.-H. Li, A.M. Gotto, Jr. and L. Chan (1987) Human apolipoprotein B: analysis of internal repeats and homology with other apolipoproteins. J. Lipid Res., 28:1455-1465.

55. Li, W.-H. and M. Tanimura (1987) The molecular clock runs more slowly in man than in apes and monkeys. Nature 326:93-96.

56. Li, W.-H., (1987) Models of nearly neutral mutations with particular implications for nonrandom usage of synonymous codons. J. Mol. Evol. 24:337-345.

57. Li, W.-H. and C.-I Wu (1987) Rates of nucleotide substitution are evidently higher in rodents than in man. Mol. Biol. Evol. 4:74-77.

58. Li, W.-H., M. Tanimura and P.M. Sharp (1987) An evaluation of the molecular clock hypothesis using mammalian DNA sequences. J. Mol. Evol. 25:330-342.

59. Pamilo, P., M. Nei and W.-H. Li (1987) Accumulation of mutations in sexual and asexual populations. Genet. Res., 49:135-146.

60. Sharp, P.M. and W.-H. Li (1987) The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications. Nucl. Acids Res. 15:1281-1295.

61. Sharp, P.M. and W.-H. Li (1987) The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias. Mol. Biol. Evol., 4:222-230.

62. Sharp, P.M. and W.-H. Li (1987) Ubiquitin genes as a paradigm of concerted evolution of tandem repeats. J. Mol. Evol., 25:58-64.

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63. Sharp, P.M. and W.-H. Li (1987) Molecular evolution of ubiquitin genes. Trends Ecol. Evol. 2:328-332.

64. Smouse, P.E. and W.-H. Li (1987) Likelihood analysis of mitochondrial restriction cleavage patterns for the human-chimpanzee-gorilla trichotomy. Evolution, 41:1162-1176.

65. Wolfe, K.H., W.-H. Li, and P.M. Sharp (1987) Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast and nuclear DNAs. Proc. Natl. Acad. Sci. 84:9054-9058.

66. Li, W.-H., K.H. Wolfe, J. Sourdis, and P.M. Sharp (1987) Reconstruction of phylogenetic trees and estimation of divergence times under nonconstant rates of evolution. In "Evolution of Catalytic Function", Cold Spring Harbor Symp. Quant. Biol. 52:847-856.

67. Datta, S., C.-C. Luo, W.-H. Li, P. VanTuinen, D.H. Ledbetter, M.A. Brown, S.-H. Chen, S.-W. Liu, and L. Chen (1988) Human hepatic lipase: Cloned cDNA sequence, restriction fragment polymorphisms, chromosomal localization and evolutionary relationships with lipoprotein lipase and pancreatic lipase. J. Biol. Chem., 263:1107-1110.

68. Li, W.-H., M. Tanimura, C.-C. Luo, S. Datta and L. Chan (1988) The apolipoprotein multigene family: biosynthesis, structure, structure-function relationships and evolution. J. Lipid Res. 29:245-271.

69. Su, C.-J., J.W. White, W.-H. Li, C.-C. Luo, M.L. Frazier, G.F. Saunders, and L. Chan (1988) Structure and evolution of somatostatin genes. Mol. Endocrinol. 2:209-216.

70. Li, W.-H., M. Tanimura, and P.M. Sharp (1988) Rates and dates of divergence between AIDS virus nucleotide sequences. Mol. Biol. Evol. 5:313-330.

71. Graur, D., and W.-H. Li (1988) Evolution of protein inhibitors of serine proteinases: positive Darwinian selection or compositional effects? J. Mol. Evol. 28:131-135.

72. Sharp, P. M. and W.-H. Li (1988) Understanding the origins of AIDS viruses. Nature 336:315.

73. Yang, C.-y., Z.-W. Gu, S.-a. Weng, T. W. Kim, S.-H. Chen, H.J. Pownall, P.M. Sharp, S.-W. Liu, W.-H. Li, A.M. Gotto, Jr. and L. Chan (1989) Structure of apolipoprotein B-100 of human low density lipoproreins. Arteriosclerosis 9:96-108.

74. Semenkovich, C.F., S.-H. Chen, M. Wims, C.-C. Luo, W.-H. Li, and L. Chan (1989) Lipoprotein lipase and hepatic lipase mRNA tissue specific expression, developmental regulation and evolution. J. Lipid Res., 30:423-431.

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75. Graur, D., Y. Shuali and W.-H. Li (1989) Deletions in processed pseudogenes accumulate faster in rodents than in humans. J. Mol. Evol. 28:279-285.

76. Wolfe, K.H., P.M. Sharp and W.-H. Li (1989) Mutation rates differ among regions of the mammalian genome. Nature 337:283-285.

77. Sharp, P. M. and W.-H. Li (1989) On the rate of DNA sequence evolution in Drosophila. J. Mol. Evol. 28:398-402.

78. Gouy, M. and W.-H. Li (1989) Molecular phylogeny of kingdoms Animalia, Plantae, and Fungi. Mol. Biol. Evol. 6:109-122.

79. Li, W.-H. (1989) A statistical test of phylogenies estimated from sequence data. Mol. Biol. Evol. 6: 424-435.

80. Wolfe, K.H., M. Gouy, Y.-W. Yang, P.M. Sharp and W.-H. Li (1989) Date of the monocot-dicot divergence estimated from chloroplast DNA sequence data. Proc. Natl. Acad. Sci. USA. 86:6201-6205.

81. Wolfe, K.H., P.M. Sharp and W.-H. Li (1989) Rates of synonymous substitution in plant nuclear genes. J. Mol. Evol. 29: 208-211.

82. Jenne, D.E., D. Masson, M. Zimmer, J.-A. Haefliger, W.-H. Li and J. Tschopp (1989) Isolation and complete structure of the lymphocyte serine protease granzyme G, a novel member of the granzyme multigene family in murine cytolytic T-lymphocytes. Evolutionary origin of lymphocyte proteases. Biochemistry 28:7953-7961.

83. Luo, C.-C, W.-H. Li and L. Chan (1989) Structure and expression of dog apolipoprotein A-I, E, and C-I mRNAs: Implications for the evolution and functional constraints of apolipoprotein structure. J. Lipid Res. 30:1735 -1746.

84. Gouy, M. and W.-H. Li (1989) Phylogenetic analysis based on rRNA sequences supports the archaebacterial tree rather than the eocyte tree. Nature 339:145-147.

85. Sharp, P.M., D.C. Shields, K.H. Wolfe and W.-H. Li (1989) Chromosomal location and evolutionary rate variation in enterobacterial genes. Science 246:808-810.

86. O'hUigin, C., L. Chan, and W.-H. Li (1990) Cloning and sequencing of bovine apolipoprotein A-I cDNA and molecular evolution of apoliproteins A-I and B-100. Mol. Biol. Evol. 7:327-339.

87. Hiraoka,B.Y., F.S. Sharief, Y.-W. Yang, W.-H. Li and S. S. Li (1990) The cDNA and protein sequences of mouse lactate dehydrogenase-B: Molecular evolution of vertebrate lactate dehydrogenase genes A (muscle), B (heart) and C (testis) Eur. J. Biochem.189:215-220.

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88. Wu, J.H., C.F. Semenkovich, S.-H. Chen, W.-H. Li and L. Chan (1990) Apolipoprotein B editing: Validation of a sensitive assay and developmental biology of RNA editing in the rat. J. Biol. Chem. 265:12312-12316.

89. Li, W.-H., M. Gouy, P.M. Sharp, C. O'hUigin and Y.-W. Yang (1990) Molecular phylogeny of Rodentia, Lagmorpha, Primtes, Artiodactyla and Carnivora and molecular clocks. Proc. Natl. Acad. Sci. USA 87:6703-6707.

90. Xiong, W., W.-H. Li, I. Posner, T. Yamamura, A. Yamamoto, A.M. Gotto, Jr. and L. Chan (1991) No severe bottleneck during human evolution: evidence from two apolipoprotein deficiency alleles. Amer. J. Hum. Genet. 48:383-389.

91. Chan, L. and W.-H. Li (1991) Apolipoptrotein variation among different species. Current Opinion in Lipidology 2:96-103.

92. Li, W.-H. and L.A. Sadler (1991) Low nucleotide diversity in man. Genetics 129:513-523.

93. Graur, D., W.A. Hide and W.-H. Li (1991) Is the guinea pig a rodent? Nature 351:649 - 652.

94. Yang, Y.-W., L. Chan and W.-H. Li (1991) Cloning and sequencing of bovine apolipoprotein E cDNA and molecular evolution of apolipoproteins E, C-I and C-II. J. Mol. Evol. 32:469-475.

95. Fu, Y.X. and W.-H. Li (1991) Necessary and sufficient conditions for the existence of certain quadratic invariants under a phylogenetic tree. Math. Biosci. 105:229-238.

96. Graur, D. and W.-H. Li (1991) Neutral mutation test. Nature 354:114-115.

97. Fu, Y.X. and W.-H. Li (1992) Necessary and sufficient conditions for the existence of linear invariants. Math. Biosci. 108:203-218.

98. Fu, Y.X. and W.-H. Li. (1992) Construction of linear invariants in phylogenetic inferenece. Math. Biosci. 109: 201-228.

99. Seino, S., G.I. Bell and W.-H. Li (1992) Sequences of primate insulin genes support the hypothesis of a slower rate of molecular evolution in humans and apes than in monkeys. Mol. Biol. Evol. 9:193-203.

100. Li, W.-H., W.A. Hide, A. Zharkikh, D.-P. Ma and D. Graur (1992) The molecular taxonomy and evolution of the guinea pig. J. Heredity, 83: 174-181.

101. Hide, W.A., L. Chan and W.-H. Li (1992) Structure and evolution of the lipase superfamily. J. Lipid Res. 33:167-178.

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102. Zharkikh, A. and W.-H. Li (1992) Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences: I. Four taxa with a molecular clock. Mol. Biol. Evol. 9:1119-1147.

103. Zharkikh, A. and W.-H. Li (1992) Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences: II. Four taxa without a molecular clock. J. Mol. Evol. 35: 356-366.

104. O'hUigin, C. and W.-H. Li (1992) The molecular clock ticks regularly in muroid rodents. J. Mol. Evol. 35:377-384.

105. Fu, Y.-X and W.-H. Li (1992) Maximum likelihood estimation of population parameters. Genetics 134:1261-1270.

106. Gu, X. and W.-H. Li (1993) Higher rates of amino acid substitution in rodents than in humans. Mol. Phylogen. Evol. 1:211-214.

107. Li, W.-H. (1993) Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J. Mol. Evol. 36:96-99.

108. Fu, Y.-X. and W.-H. Li (1993) Statistical tests of neutrality of mutations. Genetics 133:693-709.

109. Ma, D.-P., A. Zharkikh, D. Graur, J. L. VandeBerg and W.-H. Li (1993) Structure and evolution of opossum, guinea pig, and porcupine cytochrome b genes. J. Mol. Evol. 36:327-334.

110. Shimmin, L. C., B. H.-J. Chang and W.-H. Li (1993) Male-driven evolution of DNA sequences. Nature 362:745-747.

111. Shimmin, L. C., H.-J. Chang, D. Hewett-Emmett and W.-H. Li (1993) Potential problems in estimating the male-to-female mutation rate ratio from DNA sequence data. J. Mol. Evol. 37:160-166.

112. Zharkikh, A. and W.-H. Li (1993) Inconsistency of the maximum-parsimony method: the case of five taxa with a molecular clock. Systematic Biol. 42:113-125.

113. Chaw, S.-M., H. Long, B.-S. Wang, A. Zharkikh and W.-H. Li (1993) The phylogenetic position of Taxaceae based on 18S rRNA sequences. J. Mol. Evol. 37:624-630.

114. Ellsworth, D., D. Hewett-Emmett and W.-H. Li (1993) Insulin-like growth factor II intron sequences support the Hominoid rate-slowdown hypothesis. Mol. Phylogen. Evol. 2:315-321.

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115. Gu, Z.-W. Y.-H. Xie, W.-H. Li, M. Yang, K. Wang, Y. Li, A.M. Gotto, Jr., and C.Y. Yang (1993) Primary structure of Beijing duck apolipoprotein A-1. J. Protein Chem. 12:585-591.

116. Shyue, S.-K., L. Li, B. H.-J. Chang, D. Hewett-Emmett and W.-H. Li (1994) Intronic gene conversion in the evolution of human X-linked color vision genes. Mol. Biol. Evol. 11:548-551.

117. Chang, B. H.J., L.C. Shimmin, S.-K. Shyue, D. Hewett-Emmett, and W.-H. Li (1994) Weak male-driven evolution in rodents. Proc. Natl. Acad. Sci. USA, 91:827-831.

118. Gu, X. and W.-H. Li (1994) A model for the correlation of mutation rate with GC content and the origin of GC-rich isochores. J. Mol. Evol. 38:468-475.

119. Shimmin, L. C., H.-J. Chang, and W.-H. Li (1994) Contrasting rates of nucleotide substitution in Y-linked and X-linked zinc finger genes. Mol. Biol. Evol. 39:569-578.

120. Ellsworth, D., D. Hewett-Emmett and W.-H. Li (1994) Evolution of base composition in the insulin and insulin-like growth factor genes. Mol. Biol. Evol. 11:875-885.

121. Li, W.-H. and A. Zharkikh (1994) What is the bootstrap technique? Syst. Biol. 43:424-

430.

122. Oka, K., K. Ishimura-Oka, M.-j. Chu, M. Sullivan, J. Krushkal, W.-H. Li and L. Chan (1994) Mouse very low density lipoprotein receptor (VLDL) cDNA cloning, tissue-specific expression and evolutionary relationship with the low density liprotein receptor. Eur. J. Biochem. 224:975-982.

123. Chang, B. H.-J. and W.-H. Li (1995) Estimating the intensity of male-driven evolution in rodents by using X-linked and Y-linked Ube1 genes and pseudogenes. J. Mol. Evol. 40:70-77.

124. Gu, X., Y.-X Fu and W.-H. Li (1995) Maximum likelihood estimation of the heterogeneity of substitution rate among nucleotide sites. Mol. Biol. Evol. 12:546-557.

125. Gu, X. and W.-H. Li (1995) The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment. J. Mol. Evol. 40:464-473.

126. Zharkikh, A. and W.-H. Li (1995) Estimation of confidence in phylogeny: The complete-and-partial bootstrap technique. Mol. Phyl. Evol. 4:44-63.

127. Li, W.-H. and A. Zharkikh (1995) Statistical tests of DNA phylogenies. Syst. Biol. 44:49-63.

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128. Nakamuta, M., K. Oka, J. Krushkal, K. Kobayashi, M. Yamamoto, W.-H. Li, and L. Chan (1995) Alternative mRNA splicing and differential promotor utilization determine tissue-specific expression of the apolipoprotein B mRNA-editing protein (Apobec1) gene in mice. J. Biol. Chem. 270: 13042-13056.

129. Chaw, S.-M., H.-M. Sung, H. Long, A. Zharkikh and W.-H. Li (1995) The phylogenetic positions of the conifer genera Amentotaxus, Phyllocladus, and Nageia inferred from 18S rRNA sequences. J. Mol. Evol. 41:224-230.

130. Li, W.-H. and X. Gu (1995) Statistical models for studying DNA Sequence evolution. Physica A 221:159-167.

131. Krushkal, J. and W.-H. Li (1995) Substitution rates in the hepatis delta virus. J. Mol. Evol. 41:721-726.

132. Shyue, S.-K., D. Hewett-Emmett, H. G. Sperling, D.M. Hunt, J.K. Bowmaker, J.D. Mollon and W.-H. Li (1995) Adaptive evolution of colour vision genes in higher primates. Science 269:1265-1267

133. Li, W.-H., D.L. Ellsworth, J. Krushkal, Benny H.-J. Chang and D. Hewett-Emmett (1996) Rates of nucleotide substitution in primates and rodents and the generation-time effect hypothesis. Mol. Phyl. Evol. 5:182-187.

134. Chang, B. H.J., D. Hewett-Emmett, and W.-H. Li (1996) Male-to-female ratios of mutation rate in higher primates estimated from intron sequences. Zool. Study 35:64-48.

135. Zhou, Y.-H. and W.-H. Li (1996) Gene conversion and natural selection in the evolution of X-linked color vision genes in higher primates. Mol. Biol. Evol. 13:780-783.

136. Gu, X. and W.-H. Li (1996) A general additive distance with time-reversibility and rate variation among nucleotide sites. Proc. Natl. Acad. Sci. USA 93:4671-4676.

137. Nakamuta, M., B.H.-J. Chang, R. Hoogeveen, W.-H. Li and L. Chan (1996) Mouse microsomal triglyceride transfer protein large subunit: cDNA cloning and deduced amino acid sequence, chromosomal localization of its gene, and tissue-specific mRNA expression. Genomics 33:313-316.

138. Fu, Y.-X. and W.-H. Li (1996) Estimating the age of the common ancestor of men from the ZFY intron. Science 272:1356-1357.

139. Gu, X. and W.-H. Li (1996) Bias-corrected paralinear and LogDet distances and tests of molecular clocks and phylogenies under nonstationary nucleotide frequencies. Mol. Biol. Evol. 13:1375-1383.

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140. Huang, B. H.-J. Chang, X. Gu, D. Hewett-Emmett and W.- H. Li (1996) Sex differences in mutation rate in higher primates estimated from AMG intron sequences. J. Mol. Evol. 44:463-465.

141. Shimmin, L. C., P. Mai and W.- H. Li (1996) Sequences and evolution of human and squirrel monkey blue opsin genes. J. Mol. Evol. 44:378-382.

142. Chaw, S.-M., A. Zharkikh, H.-M. Sung, T.-C. Lau and W.-H. Li (1997) Molecular phylogeny of extant gymnosperms and seed plant evolution: Analysis of 18S rRNA sequences. Mol. Biol. Evol. 14:56-68.

143. Sun, H., A. Rodin, Y.-H. Zhou, D.P. Dickinson, D. E. Harper, D. Hewett-Emmett, and W.- H. Li (1997) Evolution of paired domains: Isolation and sequencing of jellyfish and hydra Pax genes related to Pax-5 and Pax-6. Proc. Natl. Acad. Sci. USA 94:5156-5161.

144. Mannen, H., S. C.-M. Tsoi, J. S. Krushkal, W.- H. Li, and S. S.-L. Li (1997) cDNA cloning and molecular evolution of reptile and pigeon lactate dehydrogenease isozymes. Mol. Biol. Evol. 14:1081-1087.

145. Fu, Y.-X. and W.-H. Li (1997) Estimating the age of the common ancestor of a sample of DNA sequences. Mol. Biol. Evol. 14:195-199.

146. Chan, L., Benny H.-J. Chang, M. Nakamuta, W.-H. Li and L.C. Smith (1997) Apobec-1 and apolipoprotein B mRNA editing. Biochim. Biophys. Acta 1345:11-26.

147. Casane, D., S. Boissinot, B. H.-J. Chang, L. Shimmin, and W.-H. Li (1997) Mutation pattern variation among regions of the primate genome. J. Mol. Evol. 45:216-226.

148. Boissinot, S., Y.-H. Zhou, L. Qiu, K.S. Dulai, K. Neiswanger, H. Schneider, I. Sampaio, D.M. Hunt, D. Hewett-Emmett, and W.-H. Li (1997) Origin and molecular evolution of the X-linked color vision genes in howler monkeys. Zool. Studies 36:360-369.

149. Huang, W., Y.-X. Fu, B. H.-J. Chang, X. Gu, L. B. Jorde, and W.-H. Li (1997) Sequence variation in ZFX introns in human populations. Mol. Biol. Evol. 15:138-142.

150. Zhou, Y.-H., D. Hewett-Emmett, J. P. Ward and W.-H. Li (1997) Unexpected conservation of the X-linked color vision gene in nocturnal prosimians: Evidence from two bush babies. J. Mol. Evol. 45: 610-618.

151. Shyue, S.-K., S. Boissinot, H. Schneider, I. Sampaio, M. P. Schneider, C.R. Abee, L. Williams, D. Hewett-Emmett, H. G. Sperling, J.A. Cowing, K. S. Dulai, D.M. Hunt, and W.-H. Li (1998) Molecular Genetics of spectral tuning in New World monkey colour vision. J. Mol. Evol. 46:697-702.

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152. Gu, X., D. Hewett-Emmett and W.-H. Li (1998) Directional mutational pressure affects the amino acid composition and hydrophobicity of proteins in bacteria. Genetica 102/103:383-391.

153. Shimmin, L.C., J. Miller, H.N. Tran, and W.-H. Li (1998) Contrasting levels of DNA polymorphism at the autosomal and X-linked visual color pigment loci in humans and squirrel monkeys. Mol. Biol. Evol. 15:449-455.

154. Zhao, Z., D. Hewett-Emmett, and W.-H. Li (1998) Frequent gene conversion between human red and green opsin genes. J. Mol. Evol. 46: 494-496.

155. Gu, X. and W.-H. Li (1998) Evolutionary distances under stationary and nonstationary models of nucleotide substitution. Proc. Natl. Acad. Sci. USA. 95: 5899-5905.

156. Hunt, D. K.S. Dulai, J.A. Cowing, J.D. Mollon, J.K Bowmaker, B.B. Lee, D. Hewett-Emmett, and W.-H. Li (1997) Molecular evolution of trichromacy in primates. Vision Res. 38:3299-3306.

157. Xia, X. and W.-H. Li (1998) What amino acid properties affect protein evolution? J. Mol. Evol. 47:557-564.

158. Boissinot, S., Y. Tan, S.K. Shyue, H. Schneider, I. Sampaio, K. Neiswanger, D. Hewett-Emmett, and W.-H. Li (1998) Origins and antiquity of the X-linked triallelic color vision systems in New World monkeys. Proc. Natl. Acad. Sci. USA 95:13749-13754.

159. Rana, B., D. Hewett-Emmett, L. Jin, B. H.-J. Chang, N. Sambuughin, M. Lin, S. Watkins, M. Bamshad, L. B. Jorde, M. Ramsay, T. Jenkins, and W.-H. Li (1999) High polymorphism at the human melanocortin 1 receptor locus.Genetics 151:1547-1557.

160. Yang, Y.-W., K.-N. Lai, P.-Y. Tai, and W.-H. Li (1999) Rates of nucleotide substitution in angiosperm mitochondrial DNA sequences and dates of divergence between Brassica and other angiosperm lineages. J. Mol. Evol. 48:597-604.

161. Yang, Y.-W., K.-N. Lai, P.-Y. Tai, D.-P. Ma and W.-H. Li (1999) Molecular phylogenetic studies of Brassica, Rorippa, Arabidopsis, and allied genera based on the internal transcribed spacer region of 18S-25S rDNA. Mol. Phylog. Evol. 13:455-462.

162. Callaerts, P., A.M. Munoz-Marmol, S. Glardon, E. Castillo, H. Sun, W.H. Li, W.J. Gehring, and E. Salo. (1999) Isolation and expression of a Pax-6 gene in the regenerating and intact Planarian Dugesia (G) tigrina. Proc. Natl. Acd. Sci. USA. 96:558-563.

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163. Tourasse, N. and W.-H. Li (1999) Performance of the relative rate test under nonstationary models of nucleotide substitution. Mol. Biol. Evol., 16:1068-1078.

164. Tan, Y. and W.-H. Li (1999) Trichromatic vision in prosimians. Nature 402:36.

165. Rodin, A. and W.-H. Li (1999) A rapid heuristic algorithm for finding minimum evolution trees. Mol. Phylog. Evol. 16:173-179.

166. Tourasse, N. and W.-H. Li (1999) Selective constraints, amino acid composition and the rate of protein evolution. Mol. Biol. Evol. 17:656-664.

167. Zhao, Z., L. Jin, Y-X Fu, M. Ramsay, T. Jenkins, E. Leskinen, P. Pamilo, M. Trexler, L. Patthy, L. Jorde, N. Sambuughin, N. Yu, and W.-H. Li (2000) Worldwide DNA sequence variation in a 10 kilobase noncoding region on chromosome 22. Proc. Natl. Acad. Sci. USA 97: 11354-11358. 168. Yu, N., C. Zheng, Y.-P.Zhang, and W.-H. Li (2000) Molecular systematics of pikas (genus Ochotona) inferred from mitochondrial DNA sequences. Mol. Phylog. Evol., 16:85-95.

169. Yu, N. and W.-H. Li (2000) No fixed difference between Africans and non-Africans at the pyruvate dehydrogenase E1 α-subunit locus. Genetics 155:1481-1483.

170. Zhou, Y.-H., J. Zheng, G. Xun, W.-H. Li, and G. F. Saunders (2000) A novel Pax6 binding site in rodent B1 repetitive elements. Gene 245:319-328.

171. Adkins, R.M., J. VandeBerg and W.-H. Li (2000) Molecular evolution of growth hormone and receptor in the guinea pig, a mammal unresponsive to growth hormone. Gene 246:357-363. 172. Ota, S. and W.-H. Li (2000) NJML: A hybrid algorithm for the neighbor-joining and maximum- likelihood methods. Mol. Biol. Evol. 17:1401-1409.

173. Yao, Y.-G., X.-M. Lu, H.-R Luo, W.-H. Li, and Y.-P. Zhang (2000) Gene admixture in the silkroad region of China – evidence from mtDNA and melanocortin 1 receptor

polymorphism. Genes Genet. Syst. 75:173-178.

174. Nekrutenko, A. and W.-H. Li (2000) Assessment of compositional heterogeneity within and between eukaryotic genomes. Genome Res. 10:1986-1995.

175. Gu, Z., H. Wang, A. Nekrutenko and W.-H. Li (2000) Densities, length proportions, and other distributional features of repetitive sequences in the human genome estimated from 430 megabases of genomic sequences. Gene 259:81-88.

176. Adkins, R.M., A. Nekrutenko and W.-H. Li (2001) Bushbaby growth hormone is much

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more similar to nonprimate growth hormones than to rhesus monkey and human growth hormones. Mol. Biol. Evol. 18:55-60.

177. Yu, N., Z. Zhao, Y-X Fu, M. Ramsay, T. Jenkins, E. Leskinen, L. Patthy, L. Jorde, N. Sambuughin, and W.-H. Li (2001) Global Patterns of Human DNA Sequence Variation in a 0-kb Region on Chromosome 1. Mol. Biol. Evol. 18:214-222.

178. Liu, J.-C., K. Makova, R.M. Adkins, S. Gibson, and W.-H. Li (2001) Episodic evolution of growth hormone in primates and emergence of the species specificity of human growth hormone receptor. Mol. Biol. Evol. 18:945-953.

179. Li, W.-H., Z. Gu, H. Wang, and A. Nekrutenko (2001) Evolutionary analyses of the human genome. Nature 409: 847-849.

180. Chen, F-C and W.-H. Li (2001) Genomic divergences between human and other hominoids and the effective population size of the common ancestor of human and chimpanzee. Am. J. Hum. Genet. 68:444-456.

181. Makova, K. D., M. Ramsay, T. Jenkins, and W.-H. Li. 2001. Human DNA sequence variation in a 6.6-kilobase region containing the melanocortin 1 receptor promoter. Genetics 158: 1253-1268.

182. Ota, S. and W.-H. Li (2001) NJML+: An extension of the NJML method to handle protein sequence data and computer software implementation. Mol. Biol. Evol. 8:1983-1992.

183. Sun, H., D. P. Dickinson, J. Costello, and W.-H. Li (2001) Isolation of Cladonema Pax-B genes and studies of the DNA binding properties of cnidarian Pax paired domains. Mol. Biol. Evol. 18:1905-1918.

184. Nekrutenko, A. and W.-H. Li (2001) Transposable elements are found in a large number of human protein coding regions. Trends in Genetics 17:619-621.

185. Nekrutenko, A., K. D. Makova and W.-H. Li (2001) The KA/KS ratio test for assessing the protein-coding potential of genomic regions: An empirical and simulation study. Genome Res. 12:198-202.

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186. Chen, F.-C., E. J. Vallender, H. Wang, C.-S. Tzeng and W.-H. Li (2001) Genomic divergence between human and chimpanzee estimated from large-scale alignments of genomic sequences. J. Heredity 92:481-489.

187. Cropp, S., S. Boinski, and W.-H. Li (2001) Allelic variation in the squirrel monkey X- linked color vision gene: Biogeographical and behavioral correlates. J. Mol. Evol. 54: 734-745.

188. Jacobs, G.H., J.F. Deegan, Y. Tan, and W.-H. Li (2002) Opsin gene and Photopigment polymorphism in a prosimian primate. Vision Res. 42:11-18.

189. Gu, Z., A. Cavalcanti, F.-C. Chen, P. Bouman and W.-H. Li (2002) Extent of gene duplication in the genomes of Drosophila, nematode and yeast. Mol. Biol. Evol.

19:256-262. PMID: 11861885

190. Yang, Y.-W., P.-Y. Tai, Y. Chen, and W.-H. Li (2002) A Study of the Phylogeny of Brassica rapa, B. nigra, Raphanus sativus and Their Related Genera Using Non- coding Regions of Chloroplast DNA. Mol. Phylogen. Evol. 23:268-275.

191. Yang, Y.-W., Y. Chen, and W.-H. Li (2002) The influence of adjacent nucleotides on the pattern of nucleotide substitution in mitochondrial introns of angiosperms. J. Mol. Evol. 55:111-15.

192. Makova, K. D. and W.-H. Li (2002) Strong male-driven evolution of DNA sequences in humans and apes. Nature 416:624-626.

193. Yi, S., B. Bernat, G. Pál, A. Kossiakoff, and W.-H. Li (2002) Functional promiscuity of squirrel monkey growth hormone receptor toward both primate and nonprimate growth hormones. Mol. Biol. Evol. 19:1083-1092.

194. Sun, H., S. Merugu, X. Gu, D. P. Dickinson, P. Callaerts, and W.-H. Li (2002) Identification of essential amino acid changes in paired domain evolution using a combination of evolutionary analysis and in vitro and in vivo studies. Mol. Biol. Evol. 19:1490-1500.

195. Mu, J., J. Duan, K. Makova, D. A. Joy, C. Q. Huynh, O. H. Branch, W.-H. Li, and X.-z. Su (2002) Chromosome-wide SNPs reveal an ancient origin for Plasmodium falciparum. Nature 418: 323-326.

196. Yu, N., F.-C. Chen, S. Ota, L. B. Jorde, P. Pamilo, L. Patthy, M. Ramsay, T. Jenkins, S.-K. Shyue and W.-H. Li (2002) Larger Genetic Differences within Africans than between Africans and Eurasians. Genetics 161:269-274.

197. Yu, N., Y.-X. Fu, and W.-H. Li (2002) DNA Polymorphism in a world-wide sample of human X chromosomes. Mol. Biol. Evol. 19:2131-2141.

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198. Kaessmann, H., S. Zöllner, A. Nekrutenko and W.-H. Li (2002) Signatures of domain shuffling in the human genome. Genome Res. 12: 1642-1650.

199. Gu, Z., D. Nicolae, H. H.-S Lu, and W.-H. Li (2002) Rapid divergence in expression between duplicate genes inferred from microarray data. Trend Genet. 18:609-613. PMID: 12446139

200. Yi, S., D. L. Ellsworth, and W.-H. Li (2002) Slow molecular clocks in Old World monkeys, apes and humans. Mol. Biol. Evol. 19:2191-2198.

201. Gu, Z., L. M. Steinmetz, X. Gu, C. Scharfe, R. W. Davis, and W.-H. Li (2003) Role of duplicate genes in genetic robustness against null mutations. Nature 421:63-66. PMID: 12511954

202. Cavalcanti, A. R. O., Ricardo Ferreira, Z. Gu and W.-H. Li (2003) Patterns of gene duplication in Saccharomyces cerevisiae and Caenorhabditis elegans. J. Mol. Evol. 56:28-37.

203. Xia, X., Z. Xie and W.-H. Li (2003) Effects of GC content and mutational pressure on The lengths of exons and coding sequences. J. Mol. Evol. 56:362-370.

204. Dominy, N. J., J.-C. Svenning and W.-H. Li (2003) Historical contingency in the evolution of primate color vision. J. Hum. Evol. 44:25-45.

205. Yang, J., Z. Gu and W.-H. Li (2003) Rate of protein evolution vs. fitness effect of gene deletion. Mol. Biol. Evol. 20:772-774. PMID: 12679525

206. Makova, K. D. and W.-H. Li (2003) Divergence in the spatial pattern of gene expression between human duplicate genes. Genome Res. 13: 1638-1645.

207. Jensen-Seaman, M. I. and W.-H. Li (2003) Evolution of the hominoid semenogelin genes, the major proteins of ejaculated semen. J. Mol. Evol. 57:261-270.

208. NEKRUTENKO, A., W.-Y. CHUNG and W.-H. Li (2003) An evolutionary approach reveals a high protein-coding capacity of the human genome. Trends Genet. 19: 306-310.

209. Yu, N., M. I. Jensen-Seaman, L. Chemnick, J. R. Kidd, A. S. Deinard, O. Ryder, K. K. Kidd and W.-H. Li (2003) Low nucleotide diversity in chimpanzees and bonobos. Genetics 164:1511-1518.

210. Shih, A. C.-C. and W.-H. Li (2003) Alignment of genomic sequences using bit-level operations. Mol. Biol. Evol. 20:1299-1309. 211. John, PR, Makova, K, Li, WH, Jenkins, T, and Ramsay, M. (2003) DNA polymorphism and selection at the melanocortin-1 receptor gene in normally pigmented southern

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African individuals. Ann N Y Acad. Sci. 994:299-306.

212. Zhang, P. Z. Gu and W.-H. Li (2003) Different Evolutionary Patterns between Young Duplicate Genes in the Human Genome. Genome Biology 4:R56.1-6.

213. Qin, H., H.H.S. Lu, W.B. Wu and W.-H. Li (2003) Evolution of the yeast protein interaction network. Proc. Natl. Acad. Sci. USA. 100: 12820-12824. PMID: 14557537

214. Yang, J., R. Lusk and W.-H. Li (2003) Organismal complexity, protein complexity, and gene duplicability. Proc. Natl. Acad. Sci. USA. 100: 15661-15665.

215. Yi, S., T. J. Summers, N. M. Pearson, and W.-H. Li (2004) Recombination has little effect on the rate of sequence divergence in pseudoautosomal boundary 1 among humans and great apes. Genome Res. 14:37-43.

216. Wang, D., T. Oakley, J. Mower, L. C. Shimmin, S.Yim, R. L. Honeycutt, H. Tsao and W.-H. Li (2004) Molecular evolution of bat color vision genes. Mol. Biol. Evol. 21: 295-302.

217. Zhang, L. and W.-H. Li (2004) Mammalian housekeeping genes evolve more slowly than tissue-specific genes. Mol. Biol. Evol. 21:236-239.

218. Chaw SM, Chang CC, Chen HL, and Li W-H (2004) Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes. J. Mol. Evol. 58:424-441.

219. Shiu, S.-H. and W.H. Li (2004) Origins, lineage-specific expansions, and multiple losses of tyrosine kinases in eukaryotes. Mol. Biol. Evol. 21:828-840.

220. Yu, N., M. I. Jensen-Seaman, L. Chemnick, O. Ryder and W.-H. Li (2004) Nucleotide diversity in gorillas. Genetics 166:1375-1383.

221. Shiu, S.-H., W. M. Karlowski, R. Pan, Y.-H. Tzeng, K. F. X. Mayer, and W.H. Li (2004) Comparative analysis of the receptor-like kinase family. The Plant Cell 16: 1220-1234.

222. Gu, Z., S. A. Rifkin, K. P. White, and W.H. Li (2004) Duplicate genes increase gene expression diversity within and between Species. Nat. Genet. 36, 577 – 579. PMID: 15122255 223. Chen, H.-C., H.-C. Lee, T.-Y. Lin, W.H. Li and B.- S. Chen (2004) Quantitative characterization of the transcriptional regulatory network in the yeast cell cycle. Bioinformatics 20:1914-1927.

224. Marland, E., A. Prachumwat, N. Maltsev, Z. Gu, and W.H. Li (2004) Higher gene duplicabilities for metabolic proteins than for non-metabolic proteins in yeast and E.

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coli. J. Mol. Evol. 59:806-814.

225. Yang, J. and W.H. Li (2004) Developmental constraint on gene duplicability in fruit flies and nematodes. Gene 340:237-240.

226. Zhang, P., W. Min and W.H. Li (2004) Different age distribution patterns of human, nematode and Arabidopsis duplicate genes. Gene 342: 263-268.

227. Tzeng, Y-H, R. Pan and W.H. Li (2004) Comparison of three methods for estimating rates of synonymous and non-synonymous nucleotide substitutions. Mol. Biol. Evol. 21:2290-2298.

228. Qin, H., W.-B Wu, J. M. Comeron, M. Kreitman and W.-H. Li (2004) Intragenic Spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes. Genetics 168: 2245-2260.

229. Wang, D., M. Hsieh and W.H. Li (2005) A General tendency for conservation of protein length across eukaryotic kingdoms. Mol. Biol. Evol. 22:142-147.

230. Zhang, L., H. H.S. Lu, W.-Y. Chung, J. Yang and W.-H. Li (2005) Patterns of segmental duplications in the human genome. Mol. Biol. Evol. 22: 135-141.

231. Oakley, T. H., Z. Gu, E. Abouheif, N. H. Patel and W.-H. Li (2005) Comparative methods for the analysis of gene expression evolution: An example of using yeast functional genomic data. Mol. Biol. Evol. 22:40-50.

232. Chen, T.-M., C.-C. Lu and W.H. Li (2005) Prediction of splice sites with dependency graphs and their expanded Bayesian networks. Bioinformatics 21:471-482.

233. Huang, S.-W., R. Friedman, N. Yu, A. Yu and W.-H. Li (2005) How strong is the mutagenicity of recombination in mammals? Mol. Biol. Evol. 22: 426-431.

234. Chen, B-S, Y-C Wang, W-S Wu and W.H. Li (2005) A new measure of the robustness of biochemical networks. Bioinformatics 21: 2698-2705.

235. Yi, S. and W.-H. Li (2005) Molecular evolution of recombination hotspots and highly recombining pseudoautosomal regions in hominoids. Mol. Biol. Evol. 22:1223-1230.

236. Ponger, L. and W.-H. Li (2005) Evolutionary diversification of DNA methyltransferases in eukaryotic genomes. Mol. Biol. Evol. 22:1119-1128.

237. Yang, J., A. Su and W.H. Li (2005) Gene expression evolves faster in narrowly than in broadly expressed mammalian genes. Mol. Biol. Evol. 22:2113-2118.

238. Shiu, S.-H., M-C. Shih, and W.H. Li (2005) Transcription factor families have much higher expansion rates in plants than in animals. Plant Physiology 139:18-26.

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239. Tsai, H.K, H. H.-S. Lu and W.-H. Li (2005) Statistical methods for identifying yeast cell cycle transcription factors. Proc. Natl. Acad. Sci. USA. 102:13532-13537.

240. Zhang, L. and W.-H. Li (2005) Human SNPs reveal no evidence of frequent positive selection. Mol. Biol. Evol. 22:2504-2507.

241. Tan, Y., A. D. Yoder, N. Yamashita and W.-H. Li (2005) Evidence from opsin genes rejects nocturnality in ancestral primates. Proc. Natl. Acad. Sci. USA. 102: 14712- 14716.

242. Lin, L. H., H. C. Lee, W. H. Li and B. S. Chen (2005) Dynamic modeling and gene expression prediction for cis regulatory circuits via cross gene-identification. BMC Bioinformatics 6:258 (17 pages). PMID: 16232312

243. Prachumwat, A. and W.-H. Li (2006) Protein function, connectivity, and duplicability in yeast. Mol. Biol. Evol. 23:30-39. PMID: 16120800

244. Shiu, S.-H., J. K. Byrnes, R. Pan, P. Zhang and W.-H. Li (2006) Role of positive selection in the retention of duplicate genes in mammalian genomes. Proc. Natl. Acad. Sci. USA. 103: 2232-2236.

245. Chen, F.-C., S.-S. Wang, C.-J. Chen, W.-H. Li and T.-J. Chuang (2006) Alternatively and constitutively spliced exons are subject to different evolutionary forces. Mol. Biol. Evol. 23:675-682.

246. Byrnes, J. K., G. P. Morris and W.-H. Li (2006) Reorganization of adjacent gene relationships in yeast genomes by whole genome duplication and gene deletion. Mol. Biol. Evol. 23:1136-1143.

247. Tsai, H.-K., G.T.-W. Huang, M.-Y. Chou, H. H.-S. Lu and W.-H. Li (2006) Method for identifying transcription factor binding sites in yeast. Bioinformatics 22:1675-1681.

PMID: 16644789

248. Gu, J. and W.-H. Li (2006) Are GC-rich isochores vanishing in mammals? Gene 385:50-56.

249. Zhongming Zhao, Z. Y. Yu, Y.-X. Fu, and W.-H. Li (2006) Nucleotide variation and haplotype diversity in a 10-kb noncoding region in three continental human populations. Genetics 174:399-409.

250. Hanada, K., T. Gojobori and W.-H. Li (2006) Radical amino acid change versus positive selection in the evolution of viral envelope proteins. Gene 385:83-88.

251. Lin, Y.-S., J. K. Byrnes, J.-K. Hwang, and W.-H. Li (2006) Codon usage bias versus

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gene conversion in the evolution of yeast duplicate genes. Proc. Natl. Acad. Sci. USA. 103: 14412-14416.

252. Lin, Y.-S., J.-K. Hwang, and W.-H. Li (2006) Protein complexity, gene duplicability, and gene dispensability in the yeast genome. Gene 387: 109-117.

253. Wu, W.-S., W.-H. Li and Bor-Sen Chen (2006) Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle. BMC Bioinformatics 7:421 (15 pages). PMID: 17010188

254. Saunders, M.A., J. M. Good, E. Lawrence, R. Ferrell, W.-H. Li, and M. W. Nachman (2006) Human adaptive evolution at Myostatin, a regulator of muscle growth. Am. J. Hum. Genet. 79:1089-1097.

255. Kim, J., S.-H. Shiu, S. Thoma, W.-H. Li and S. Patterson (2006) Patterns of expansion and expression divergence in the plant polygalacturonase gene family. Genome Biology, 7R87 (14 pages). 256. Chen, F.-C., C.-J. Chen, W.-H. Li and T.-J. Chuang (2007) Human-specific insertions and deletions inferred from mammalian genome sequences. Genome Res. 17:16-22.

257. Ha, M., W.-H. Li and Z. J. Chen (2007) External factors accelerate expression divergence between duplicate genes. Trends Genet. 23:162-166.

258. Chen, B.-S., Wan.-S. Wu, Wei.-S. Wu, and W.-H. Li (2007) On the adaptive design rules of biochemical networks in evolution. Evolutionary Bioinformatics 2: 27-39.

259. Hanada, K., X. Zhang, J. O. Borevitz, W.-H. Li , and S.-H. Shiu (2007) A large number of novel small open reading frames (sORFs) in the intergenic regions of the A. thaliana genome are transcribed or under purifying selection. Genome Res. 17:632-640.

260. Saunders, M.A., H. Liang, and W.-H. Li (2007) Human polymorphism at microRNAs and microRNA target sites. Proc. Natl. Acad. Sci. USA. 104: 3300-3305.

261. Tzeng, Y.-H. Li, and T.-J. Chuang (2007) Mathematical properties of some measures of evolutionary distance. J. Theoret. Biol. 245:790 - 792.

262. Lin, Y.-S., Wei-Lun Hsu, J.-K. Hwang, and W.-H. Li (2007) Proportion of solvent- exposed amino acids in a protein and rate of protein evolution. Mol. Biol. Evol. 24:1005-1011

263. Chen, C.C., W.-H. Li and H.M. Sung (2007) Patterns of internal gene duplication in the course of metazoan evolution. Gene 396:59-65.

264. Shih, A. C.-C., T.-C. Hsiao, M.-S. Ho and W.-H. Li (2007) Simultaneous amino acid

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substitutions at antigenic sites drive influenza A hemagglutinin evolution. Proc. Natl. Acad. Sci. USA. 104: 6283-6288.

265. Liang, H. and W.-H. Li (2007) Gene essentiality, gene duplicability and protein connectivity in human and mouse. Trends Genet. 23: 375-378.

266. Wang, D., H.-M. Sung, T.-Y. Wang, C.-J. Huang, P. Yang, T. Chang, Y.-C. Wang, D.- L.Tseng, J.-P Wu, T.-S. Lee, M.-C. Shih and W.-H. Li (2007) Expression evolution in yeast genes of single-input modules is mainly due to changes in trans-acting factors. Genome Res. 17:1161-1169.

267. Tsai, H.-K., M.-Y. Chou, C.-H. Shih, G. Huang, T.-H. Chang and W.-H. Li (2007) MYBS: A comprehensive web server for mining transcription factor binding sites. Nucleic Acid Res. 35 (Web Server issue):W221-226.

268. Wu, W-S, W.-H. Li, and B.-S. Chen (2007) Identifying regulatory targets of cell cycle transcription factors using gene expression and ChIP-chip data. BMC Bioinformatics 8:188.

269. Liang, H. and W.-H. Li (2007) MicroRNA regulation of human protein-protein interaction network. RNA 13:1402-1408.

270. Jiang, C., L. Han, B. Su, W.-H. Li, and Z. Zhao (2007) Features and trend of loss of promoter-associated CpG islands in the human and mouse Genomes. Mol. Biol. Evol. 24:1991-2000

271. Hanada, K., S.-H. Shiu, and W.-H. Li (2007) The nonsynonymous/synonymous substitution rate ratio versus the radical/conservative replacement rate ratio in the evolution of mammalian genes. Mol. Biol. Evol. 24:2235-2241

272. Lin Y.-C., L.-C. Hsieh, M.-W, Kuo, J.Yu, H.-H. Kuo, W.-L. Lo, R.-J. Lin, A.-L. Yu AL and W.-H. Li (2007) . Human TRIM71 and its nematode homologue are targets of let- 7 microRNA and its zebrafish orthologue is essential for development. Mol. Biol. Evol. 24:2525-2534.

273. Chen, B.-S., W.-S. Wu, Y.-C. Wang, and W.-H. Li (2007) On the robust circuit design schemes of biochemical networks: Steady state approach. IEEE Transaction on Biomedical Circuits and Systems. 1: 91-104.

274. Lin, LH, HC Lee, WH Li and BS Chen (2007) A systematic approach to detecting transcription factors in response to environmental stresses. BMC Bioinformatics 8:473 (13 pages). PMID: 18067669

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275. Liang, C., W.-H. Li, and A. Fernandez (2008) Protein under-wrapping causes dosage sensitivity and decreases gene duplicability. PLoSGenetics, e11 (6 pages). PMID: 18208334

276. Prachumwat, A and W.-H. (2008) Gene number expansion and contraction in vertebrate genomes with respect to invertebrate genomes. Genome Research 18: 221-232.

277. Wu, W.S., W.-H. Li and B.-S. Chen (2008) Reconstructing a network of stress- response regulators via dynamic system modeling of gene regulation. Gene regulation and Systems Biology 2: 53-62.

278. Chen CY, HK Tsai, CM Hsu, MJChen, HG Hung, GT Huang, and W.-H. Li (2008) Discovering gapped binding sites of yeast transcription factors. Proc. Natl. Acad. Sci. USA. 105: 2527-2532. PMID: 18272477.

279. Tzeng, J., H. H.-S. Lu and W.-H. Li (2008) Multidimensional scaling for large genomic

datasets. BMC Bioinformatics. 2008 Apr 4;9:179 (17 pages). PMID: 18394154.

280. Zhang, C., W.-H. Li, A. R. Krainer and M. Q Zhang (2008) An RNA landscape of evolution for optimal exon and intron discrimination. Proc Natl Acad Sci U S A. 2008 Apr 15; 105(15): 5797-802. Epub 2008 Apr 7. PMID: 18391195.

281. Liang, H., Y.-S. Lin and W.-H. Li (2008) Fast evolution of core promoters in primate genomes. Mol. Biol. Evol. 25:1239-1244. PMID: 18367463

282. Sanna, W.-H. Li, and L.-C. Zhang (2008) Overlapping genes in the human and mouse genomes. BMC Genomics. 2008 Apr 14;9:169 (11 pages). PMID: 18410680

283. Wang, H., Y.-H. Tzeng and W.-H. Li (2008) Improved variance estimators for one- and two-parameter models of nucleotide substitution. J. Theoret. Biol. 254:164-7. PMID: 18571203

284. Han, L., B. Su, W.-H. Li and Z. Zhao (2008) CpG island density and its correlations with genomic features in mammalian genomes. Genome Biology 9:R79 (12 pages). PMID: 18477403

285. Chang, Y.-W., F.-G. R. Liu, N. Yu, H.-M. Sung, P. Yang, D. Wang, C.-J. Huang, M.-C. Shih, and W.-H. Li (2008) Roles of cis- and trans-changes in the regulatory evolution of genes in the gluconeogenic pathway in yeast. Mol. Biol. Evol. 25: 1863-1875. PMID: 18573843

286. Wu, W.-S. and W.-H. Li (2008) Identifying gene regulatory modules of heat shock response in yeast. BMC Genomics 9:439 (15 pages). PMID: 18811975

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287. Chang, Y.-M., H.-F. Juan, T.-Y. Lee, Y.-Y. Chang, Y.-M. Yeh, W.-H. Li, and A. C.-C. Shih (2008) Prediction of human miRNAs using tissue-selective motifs in 3' UTRs. Proc Natl Acad Sci USA, 105: 17061-17066. PMID: 18952845

288. Zhang, X., J. K. Byrnes, W.-H. Li and J. O. Borevitz (2008) Whole genome transcriptome polymorphisms in Arabidopsis thaliana. Genome Biology 9(11):R16 (17 pages). PMID: 19025653

289. Wu, W.-S. and W.-H. Li (2008) Systematic identification of yeast cell cycle transcription factors using multiple data sources. BMC Bioinformatics 9:522 (13 pages). PMID: 19061501

290. Tiwary, B.K. and W.-H. Li (2009) Parallel evolution of aromatase and androgen receptor in the animal kingdom. Mol. Biol. Evol. 26(1):123-129. PMID: 18936441

291. Bradley, M.E., J. S. Rest JS, W.-H. Li and N.B. Schwartz (2009) Sulfate activation enzymes: phylogeny and association with pyrophosphatase. J. Mol. Evol. 68:1-13. PMID: 19067028

292. Liang, H. and W.-H. Li (2009) Lowly expressed human microRNA genes evolve rapidly. Mol. Biol. Evol. 26:1195-1198. PMID: 19299536.

293. Kuo MW, Wang SH, Chang JC, Chang CH, Huang LJ, Lin HH, Yu AL, Li WH, and Yu J. (2009) A novel puf-A gene predicted from evolutionary analysis is involved in the development of eyes and primordial germ-cells. PLoS ONE. 4:e4980 (12 pages). PMID: 19319195.

294. Tseng, YY and W.-H. Li (2009) Identification of protein functional surfaces by the concept of a split pocket. Proteins 76:959 – 976. PMID: 19326458.

295. Tseng, YY, Dupree C, Chen ZJ and W.-H. Li (2009) SplitPocket: identification of protein functional surfaces and characterization of their spatial patterns. Nucleic Acid Res. 37 (Web Server issue): W384-389. PMID: 19406922.

296. Wang, H. and W.-H. Li (2009) Increasing microRNA target prediction confidence by the relative R-squared method. J. Theoret. Biol. 259(4):793-798. PMID: 19463832.

297. Sung H.M., T.-Y. Wang, D. Wang, Y.-S. Huang, J.-P. Wu, H.-K. Tsai, J. Tzeng, C.-J. Huang, Y.-C. Lee, P. Yang, J. Hsu, T. Chang, C.-Y. Cho, L.-C. Weng, T.-C. Lee, T.-H. Chang, W.-H. Li, and M.-C. Shih (2009) Roles of trans and cis variation in yeast intra-species evolution of gene expression . Mol. Biol. Evol. 26(11):2533-2538. PMID: 19648464

298. Wang, D., T. Y. Wang, L.C. Weng, Y. Emori, C.S. Tzeng and W.-H. Li (2009) Evolution of olfactory receptor genes in East Asian loaches. Zoological Studies. 48:223-227.

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299. Liang, H. and W.-H. Li (2009) Functional compensation by duplicated genes in mouse. Trends Genetics 25: 441-442. PMID: 19783063

300. Hsieh LC, Lin SI, Shih AC, Chen JW, Lin WY, Tseng CY, Li WH, and Chiou TJ (2009) Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing. Plant Physiol. 151: 2120-2132. PMID: 19854858

301. Hanada K, Kuromori T, Myouga F, Toyoda T, Li WH*, Shinozaki K (2009) Evolutionary persistence of functional compensation by duplicate genes in Arabidopsis. Genome Biol Evol. 2009:409-414. PMID: 20333209

302. Li Y, Liang H, Gu Z, Lin Z, Guan W, Zhou L, Li Y and Li WH (2009) Detecting positive selection in the budding yeast genome. Evol. Biol. 22:2430-2437. PMID: 19878412

303. Tseng, YY, Chen ZJ and W.-H. Li (2010) fPOP: footprinting functional pockets of proteins by comparative spatial patterns. Nucleic Acid Res. 38 (Database issue): D288-295. PMID: 19880384.

304. Chen FC, Chen CJ, Li WH, and Chuang TJ (2010) Gene family size conservation is a good indicator of evolutionary rates. Mol. Biol. Evol. 27:1750-1758. PMID: 20194423

305. Emerson JJ, Hsieh LC, Sung HM, Wang TY, Huang CJ, Lu HH, Lu MY, Wu SH, and WH Li. (2010) Natural selection on cis and trans regulation in yeasts. Genome Res. 20:826-836. PMID: 20445163

306. Chen S CC, Chen FC, and Li WH (2010) Phosphorylated and non-phosphorylated serine and threonine residues evolve at different rates in mammals. Mol. Biol. Evol. 27:2548-2554. PMID: 20534707.

307. Tang, T., S. Kumar, Y. Shen, J. Lu, M.-L. Wu, S. Shi, W.-H. Li, and C.-I. Wu (2010) Adverse interactions between microRNAs and target genes from different species. Proc. Natl. Acad. Sci. USA. 107:12935-12940. PMID: 20615957

308. Lin Z, Wu WS, Liang H, Woo Y, and Li WH. (2010) The spatial distribution of cis regulatory elements in yeast promoters and its implications for transcriptional regulation. BMC Genomics. 2010 Oct 19;11:581. PMID: 20958978

309. Hanada K, Sawada Y, Kuromori T, Klausnitzer R, Saito K, Toyoda T, Shinozaki K, Li WH, and Hirai MY (2011) Functional compensation of primary and secondary metabolites by duplicate genes in Arabidopsis thaliana. Mol. Biol. Evol. 28(1):377-382. PMID: 20736450.

310. Lin Z and Li WH (2011) Expansion of hexose transporter genes was associated with the evolution of aerobic fermentation in yeasts. Mol. Biol. Evol. 28(1):131-142. PMID: 20660490.

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311. Lin Z and Li WH (2011) The evolution of aerobic fermentation in Schizosaccharomyces pombe was associated with regulatory reprogramming but not nucleosome reorganization. Mol. Biol. Evol. In press. PMID: 21127171

312. Woo, YH and Li WH (2011) Gene clustering pattern, promoter architecture, and gene expression stability in eukaryotic genomes. Proc. Natl. Acad. Sci. USA.108:3306-3311. PMID:21300882

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Reviews and Book Chapters

1. Li, W.-H. (1982) Evolutionary change of duplicate genes. In "Isozomes: Current Topics in Medical and Biological Research," M.C. Ratazzi, J.G. Scandalios, and G.S. Whitt (eds), New York: Alan R. Liss, Inc., Vol. VI, Pp. 55-92.

2. Li, W.-H. (1983) Evolution of duplicate genes and pseudogenes. In "Evolution of Genes and Proteins," M. Nei and R.K. Koehn (eds), Sinauer, Sunderland, Massachusetts, Pp. 14-37.

3. Li, W.-H. (1985) Accelerated evolution following gene duplication and its implication for the neutralist-selectionist controversy. In: "Population Genetics and Molecular Evolution," T. Ohta and K. Aoki (eds), Japan Scientific Societies Press, Tokyo, Pp 333-352.

4. Li, W.-H., C.-C. Luo and C.-I Wu (1985) Evolution of DNA sequences. In: "Molecular Evolutionary Genetics," R.J. MacIntyre (ed), Plenum, New York, Pp. 1 - 94.

5. Tsao, Y.K., C.C. Luo, W.-H. Li, M.N. Moore, F.T. Kao and L. Chan (1985) Apolopoprotein A-II gene structure: evolutionary implications. In: "Protides of the Biological Fluids," H. Peeters, Pergman Press, Oxford, Vol 33:35-38.

6. Li, W.-H. (1986) Estimation of the numbers of synonymous and nonsynonymous substitutions between protein coding genes. In: "Evolutionary Processes and Theory," S. Karlin and E. Nevo (eds), Academic Press, New York. Pp. 295-314.

7. Chan, L., W.-H. Li and M. Tanimura (1988) Hormonal control of gene expression. In: The Liver: Biology and Pathobiology, (eds) I. Arias, W.B. Jakoby, H. Popper, D. Schachter, and D.A. Shafritz. 2nd Ed. Raven Press, New York, Pp. 103-130.

8. Chan, L. and W.-H. Li (1989) Genetic background of human apolipoprotein structure and function. In: Biologie prospective. Comptes rendus du 7e Colloque de Pont-a-Mousson. Eds. M.-M. Galteau, G. Siest, J. Penny. John Libbey Eurotext, Paris. Pp127-134.

9. Li, W.-H. and M. Gouy (1990) Statistical tests of molecular phylogenies. in Methods of Enzymology, ed. R. Doolittle, Academic Press, Pp. 645-659.

10. Chan, L., E. Boerwinkle and W.-H. Li (1990) Molecular genetics of the plasma apolipoproteins. In "Molecular Biology of the Cardiovascular System", ed. S. Chien, Lea & Febiger, Philadelphia, Pp.183-219.

11. Gouy, M. and W.-H. Li (1990) Evolutionary relationships among primary lineages of life inferred from ribosomal RNA sequences. In "The Ribosome: Structure, Function, and Evolution", eds, W. E. Hill, A. Dahlberg, R.A. Garrett, P. Moore, D. Schlessinger and J.R. Warner, American Society for Microbiology, Washington, D.C. Pp. 573-578.

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12. Li, W.-H. and M. Gouy (1991) Statistical methods for testing molecular phylogenies. In: Phylogenetic Analysis of DNA Sequences, Miyamoto, M. and J. Cracraft, eds. Oxford Press, Pp. 249-277.

13. Li, W.-H. and Y.X. Fu. (1992) Method of linear invariants for phylogenetic reconstruction. In " Modelling and Computer Methods in Molecular Biology and Genetics", pp. 379-389. Eds. V.A. Ratner and N.A. Kolchanov, Nova Science Publishers, New York.

14. Li, W.-H. and L.A. Sadler (1992) DNA variation in humans and its implications for human evolution. Oxford Surveys in Evolutionary Biology, 8:111 - 134.

15. Chan, L., W.A. Hide, Y.-W. Yang and W.-H. Li (1992) Structure and evolution of the apolipoprotein and lipase gene families. In: Cellular and Molecular Bilogy of Atherosclerosis, Gotto, Jr. A.M. (ed), Springer-Verlag, Pp93-107.

16. LI, W.-H., W. Xiong, S.-W Liu, and L. Chan (1993) Nucleotide diversity in humans and evidence for the absence of a severe bottleneck during human evolution. In Genetics of Cellular, Individual, Family, and Population Variability (eds. Sing, C. F. & Hanis, C. L.) 253-261. (Oxford University Press, New York, 1993).

17. Li, W.-H. and Y.-X. Fu (1994) Estimation of population parameters and detection of natural selection from DNA sequences. In: "Non-Neutral Evolution": Theories and Molecular Data, pp. 112-125. Ed. B. Golding, Chapman & Hall, New York.

18. Adkins, R.M. and W.-H. Li (1998) Dating the age of the last common ancestor of all living organisms with a protein clock. In: Horizontal Gene Transfer, pp. 380-391. Eds. M. Syvanen and C.I. Kado. Chapman & Hall, New York.

19. Li, W.-H., S. Boissinot, Y. Tan, S.-K. Shyue, and D. Hewett-Emmett (1999) Evolutionary genetics of primate color vision: recent progress and potential limits to knowledge. Evol. Biol. 32: 151-178.

20. Krushkal, J. and W.-H. Li (1999) Use of phylogenetic inference to test an HIV transmission hypothesis. In “The Evolution of HIV” ( K.A. Crandall, ed). The Johns Hopkins University Press, Baltimore, MD. Pp. 208-232.

21. Li, W.-H. and Y.-X. Fu (1999) Coalescent theory and its application in population genetics. In: Statistics in Genetics. (M.E. Halloran and S. Geisser, eds.). Springer Verlag, New York. Pp. 45-79.

22. Fu, Y.-X. and W.-H. Li (1999) Coalescing into the 21st century: An overview and prospects of coalescent theory. Theo. Popl. Biol. 56:1-10.

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23. Li, W.-H., Y. Tan, S. Boissinot, S.-K. Shyue, and D. Hewett-Emmett (2000) Genetic diversity of color vision in primates. In: The Biology of Biodiversity. (M. Kato, ed.) Springer Verlag, New York. Pp. 259-274.

24. Li, W.-H, Z. Gu, A. R. O. Cavalcanti and A. Nekrutenko (2002) Detection of Gene Duplications and Block Duplications in Eukaryotic Genomes. J. Structural Functional Genomics. 3: 27-34.

25. Li, W.-H, S. Yi and K. Makova (2002) Male-driven evolution. Current Opinion in Genetics & Development 12:650-656.

26. Wolfe, K. and W.-H. Li (2003) Molecular evolution meets the genomics revolution. Nature Genetics Supplement 33: 255-265.

27. Nekrutenko, A., W.-Y. Chung and W.-H. Li (2003) ETOPE: Evolutionary Test of Predicted Exons. Nucleic Acid Res. 31: 3564-3567

28. Lu, J., W.H. Li, and C.I. Wu (2003) Comment on "Chromosomal Speciation and Molecular Divergence-Accelerated Evolution in Rearranged Chromosomes". Science 302:988b.

29. Li, W.H., J. Yang and X. Gu (2005) Expression divergence between duplicate genes. Trends Genet. 21:620-607.

30. Yi, S. and W-H. Li (2006) Episodic molecular evolution of some protein hormones in Primates and its implications for primate adaptation. In J. S. Ravosa and M. Dagosto (eds), Primate Origins: Adaptation and Evolution. Pp. 739-773. Springer, New York, NY, USA.

31. Li, W.H. and M.A. Saunders (2005) The chimpanzee and us. Nature 437:50-51.

32. Emerson JJ and Li WH (2010) The genetic basis of evolutionary change in gene expression levels. Philos Trans R Soc Lond B Biol Sci. 365:2581-2590. PMID: 20643748

1

Curriculum Vitae: Wen-Hsiung LiMailing address: Dept of Ecology & Evolution, University of Chicago,1101 East 57th Street, Chicago, IL 60637, USAPhone: 773-702-3104 Fax: 773-702-9740 Home: 773-955-5592Email: whli@uchicago.eduBirth Date and Place: 22 September 1942; Ping-Tung, TaiwanNationality: U.S. Citizen Family Status: Married, three childrenEDUCATION:Institution Degree Field YearChung-Yuang College of Science B.E. Civil Engineering 1965

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and Engineering, TaiwanNational Central University, Taiwan M.S. Geophysics 1968Brown University, Providence, RI, USA Ph.D. Applied Mathematics 1972PRESENT APPOINTMENTS:James D. Watson Chair Professor 2004-Dept of Ecology & Evolution, the University of ChicagoDirector and Distinguished Research Fellow, Biodiversity Research Center,Academia Sinica, Taiwan 2008-POSITIONS HELD IN THE PAST:George Beadle Chair Professor 1999-2004Dept of Ecology & Evolution, the University of ChicagoDivision Director (Bioinformatics), Genomics Research Center, Academia Sinica, Taiwan2003-2008Professor, with tenure, 1984-1998Betty Wheless Trotter Professor in Medical Sciences, 1996-1998Human Genetics Center, University of Texas Health Science Center-HoustonAssociate Professor of Population Genetics, with tenure, 1978-1984Assistant Professor of Population Genetics, 1973-1978Center for Demographic and Population Genetics, Graduate School ofBiomedical Sciences, University of Texas Health Science Center-HoustonProject Associate, Department of Genetics, Univ. of Wisconsin-Madison, 1972-19732AWARDS and HONORS:Balzan Prize 2003 for Genetics and EvolutionThe Mendel Lecture and Medal 2009Member, National Academy of Sciences 2003-Fellow, American Academy of Arts and Sciences 1999-Academician, Academia Sinica, Taiwan 1998-Scientific Advisory Board, the Max Planck Institute for Evolutionary Anthropology, Leipzig,Germany, 2000-President, Society for Molecular Biology and Evolution 2000President, Bioinformatics Society of Taiwan. 2005-2007.HUGO 2008 Chen Award for Distinguished Academic Achievement in Human Genetic andGenomic ResearchHorace Mann Medal, Brown University 2004George Beadle Professor, University of Chicago 1999-2004Betty Wheless Trotter Professor in Medical Sciences, UT Houston, 1996-1998Associate, Canadian Institute for Advanced Research, Program inEvolutionary Biology, 1992 - 1997Brown University Fellowship for Graduate Students, 1968 - 1969Dean's Excellent Teaching Award, University of Texas-Houston, 1989, 1994, 1995, and19963

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PROFESSIONAL ACTIVITIES:Editor, Molecular Phylogenetics and Evolution, 1991 –Editorial Board, Genome Research, 2007-Associate Editor, PLoS Computational Biology 2005-Associate Editor, Genome Biology & Evolution 2009-Associate Editor, Journal of Bioinformatics and Computational Biology, 2003-Associate Editor, Theoretical Population Biology, 1981 - 1986Editorial Board, Molecular Biology and Evolution, 1983 - 1993Editorial Board, Journal of Molecular Evolution, 1984 - 1997Associate Editor, Journal of Molecular Evolution, 1998 -2004Associate Editor, Genetics, 1986 - 1997Editorial Board, Mathematical Biosciences, 1990 - 2003Editor, Gene, 1997 - 2001Area Editor (Evolution & Comparative Genomics) Encycl. of Human Genome, Macmillian1999-2002Scientific Advisory Board, the Max Planck Institute for Evolutionary Anthropology, Leipzig,Germany, 2000-Overseers Committee, the Department of Organismic & Evolutionary Biology, Harvard,2000Co-Chair, Board of Advisors, Research Center for Biodiversity, Academia Sinica, Taiwan,2004 -2007Academic Advisor, Institute of Organismic and Cell Biology, Academia Sinica, Taiwan,2004 – 2007Academic Advisor, Institute of Molecular Biology, Academia Sinica, Taiwan, 2004 – 2007Academic Advisor, Institute of Zoology, Academia Sinica, Taiwan, 1997 - 2004Academic Advisor, Institute of Botany, Academia Sinica, Taiwan, 1997 - 2004Academic Advisor, Laboratory of Cellular and Molecular Evolution,Kunming Institute of Zoology, The Chinese Academy of Sciences, 1997 -2002Associate, Canadian Institute for Advanced Research, Program in Evolutionary Biology,1992 - 1997MEMBERSHIP IN PROFESSIONAL SOCIETIES:American Society of Human Genetics (life member since 1972)The Society for the Study of Evolution (life member since 1973)Society for Molecular Biology and Evolution (1983-)Society of Systematic Biology (Life member, 1990-)Genetics Society of America (1972-1998)4RESEARCH INTERESTS:Evolutionary Genomics, Molecular Evolution, Bioinformatics and Computational Biology,

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Population Genetics, Human GeneticsINTERVIEWS BY SCIENCE AND NEWS MEDIAScience, on molecular clocks, 1985 PNAS paper, May 1985BBC TV, on ``Origins and evolution of AIDS viruses", June 1990AAAS Annual Meeting News Release (on Molecular clocks), February 1992UT TV and Radio, September 1992On Nature 1993 paper on Male-driven Evolution of DNA Sequences:Associate Press, USA Today, Houston Post, April 21, 1993NBC Radio, and BBC TV, April 22, 1993Science (267:1907-1908) on ``Evolution slowing down in humans", March31, 1995On ``Adaptive evolution of color vision genes", Science 1995 paperMonday Morning, University of Texas, August 27, 1995WAMC Radio Station. Albany New York, October 2, 1995On ``Evolution of color vision in higher primates"Chronicle of Higher Education, July 1997On ``Male-driven evolution in birds"ScienceOn “Trichromatic vision in prosimians”.Chronicle, University of Chicago, and CNN, Nov. 1999On “Evolutionary analyses of the Human Genome”, Nature Feb. 15, 2001Chicago Tribune, Chicago Sun-Time, Dallas Morning Star, SicienceNews, NewsRx(Genomics and Genetics), etc.Male-driven evolution, Nature April 11, 2002Chicago tribune, ChronicleThe chimpanzee genome News and Views article: Interviewed by The Scientist, NationalGeographic, Bloomberg News and Chicago Tribune. August 30-31, 2005Interviewed by Science for the PNAS paper on color vision genes in primates. Sept. 23,2005.5INVITED TALKS (Since 1992)1992Speaker, Conference on ``Origins and molecular evolution of angiosperms",Köln, Germany, January 13-15.Seminar, Institute of Evolution, University of Haifa, Haifa, Israel, JanuarySeminar, Max-Plank-Institut für Immungenetik, Tübigen, Germany, JanuarySpeaker, Symposium on ``Molecular Evolutionary Rates, Patterns and Process", TheAAAS Annual Meeting, Chicago, Feb. 6-11.Seminar, Department of Ecology and Evolution, University of Chicago, Chicago. February.Seminar, Galton Laboratory of Genetics, University College London, London, England,March.Speaker, Symposium on ``Genome sequence variation", The Genetical Society (UK)Spring Meeting, Dublin, Ireland, March 25-27.

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Seminar, Department of Microbiology, University of Texas-San Antonio, April 14-16.Speaker, Workshop on “Optimal sampling of human populations for molecularAnalysis”, Stanford University, July 16 -18.Speaker, The Canadian Institute for Advanced Research, Evolutionary BiologyProgram Annual Meeting, Halifax, Nova Scotia, September 12-15.Speaker, NATO Workshop on ``Genome Organization, Function and Evolution",Spetsai, Greece, September 16-21.Seminar, Max-Planck-Institut für Züchtungsforschung, Köln, Germany, Sept. 21-23.Seminar, Department of Biology, University of Houston, Texas, Oct. 29.Seminar, Institute of Molecular Biolgy, Academia Sinica, Taipei, Taiwan, Nov. 30Seminar, Institute of Zoology, Academia Sinica, Taipei, Taiwan, December.Seminar, Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan, December.Speaker, “30th Anniversary Symposium on Recent Advances in PlantScience", Institute of Botany, Academia Sinica, Taipei, Taiwan, Dec. 7-11.6Speaker, “Seminar on Molecular Evolution", Rotorua, New Zealand, December 12-14.Speaker, “Forum on phylogenetic reconstruction", Massey University, PalmerstonNorth, New Zealand, Dec. 15 to 18.Seminar, Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan, December1993Seminar, Department of Biology, Yale University, New Haven, MarchSpeaker, International Symposium on “Molecular Evolution and Bioinformatics",Mishima, Japan, April 16 -17.Seminar, Department of Molecular and Cell Biology, University of California, Berkeley,April 20-21.Co-Organizer and speaker, Symposium on “Molecular Aspects of VertebratesEvolution", Annual Meeting of Society for the Study of Evolution", Snowbird, Utah,June 19-23Speaker, International Symposium “Models in Phylogeny Reconstruction", London,August 2 -4.Convener, Workshop on “Phylogenetic analysis of sequences", 17th InternationalCongress of Genetics, Birmingham, UK, August 15-21.Speaker, Symposium on “Molecular Phylogenies", “4th Congress of the EuropeanSociety for Evolutionary Biology", August 22-27.Speaker, Conference on “Population Genetics", Canadian Institute for AdvancedResearch, August 27-29.Seminar, Dept of Statistics, Ohio State University, Columbus, Oct. 14-15Seminar, Dept of Ecology and Evolutionary Biology, University of Chicago, Oct. 18-19.Speaker, Annual Meeting, Canadian Institute for Advanced Research, Banff,Canada, Oct. 19-24.1994Seminar, Dept of Biological Sciences, University of South Carolina, Columbia, Mar. 14-15.

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Speaker, Workshop on “Handling of Molecular Data in Systematics", Cologne,Germany, Mar. 27-31.7Speaker, Workshop on “Open questions in molecular evolution", The InternationalSociety of Molecular Evolution. Guanacaste, Costa Rica, April 18-23.Organizer and speaker, Symposium on “Recent advances in molecular phylogenetics",26th International Numerical Taxonomy Conference, Houston, June 17-19.Speaker, Annual Meeting, Canadian Institute for Advanced Research, Halifax,Canada, August 10-14.Speaker, Symposium on “The evolution of homeotic and other morphogenetic genes andorganismal phylogeny", International Institute for Advanced Studies. Kyoto, Japan,Oct. 26-28.Seminar, Dept of Bioscience, Tokyo Institute of Technology, Yokohama, Japan.Seminar, Dept of Genetics and Molecular Medicine, Emory University, Atlanta, Dec. 5-6Speaker, “Symposium and Workshop on Molecular Systematics and Evolution",Sponsored by National Science Council, Dec. 19 - 22, Taipei, TaiwanSeminar, Institute of Statistics, Academia Sinica, Taipei, Taiwan, December.Seminar, Dept of Biology, Tung-Hai University, Taichung, Taiwan, December.Seminar, Dept of Biology, National Sun Yat-sen University, Kaohsiung, Taiwan, December.1995Speaker, Symposium on “Uniqueness and diversity in biology", sponsored by UNESCOand World Institute of Science, Paris, Jan. 10-13.Speaker, “Molecular Anthropology: Toward a new Evolutionary Paradigm", Wayne StateUniversity School of Medicine, Detroit, March 13-14.Seminar, Dept of Biostatistics, University of Michigan, Ann Arbor, MarchSeminar, Dept of Ecology and Evolutionary Biology, University of Chicago, MarchSpeaker, International Conference on HIV Sequence Variation and Statistical Methods.Rutgers University, Piscataway, New Jersey, May 3-5.Seminar, Section of Genetics and Development, Cornell University, Ithaca, MaySeminar, Dept of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, May8Seminar, The Aaron Diamond AIDS Research Center, University of New York, New York,JuneSpeaker, “EMBO Practical Course on Computer-based sequence analysis and MolecularEvolution", Lyon, France, June 26 - July 1.Speaker, “DNA Structure and Biological Evolution". Taipei, Taiwan. July.Speaker, International Symposium on “Statistical Physics: Nonlinear and NonrandomProcesses", Institute of Physics, Academia Sinica, Taipei, July 18-24.

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Seminar, Institute of Botany, Academia Sinica, Taipei, Taiwan, JulySeminar, Dept of Medical Genetics, Peking Union Medical College, Beijing, China, Oct. 11-12Speaker, “Symposium on Mechanisms of Evolution", Taian, Shantung, China, October14-17.Speaker, “Symposium on Molecular Evolution", Fudan University, Shanghai, China,October 20-21.Seminar, Kunming Institute of Zoology, Chinese Academy of Sciences, China, Oct. 23-26Seminar, Institute of Basic Medical Sciences, Zhejiang Medical University, Hangzhou,China, Oct. 27-29Seminar, Genetics Program, Texas A&M University, College Station, Texas, Nov. 2Speaker, Symposium on “Diversity of homeotic genes and evolution of the eye",International Institute for Advanced Studies. Kyoto, Japan, Nov. 17-18.Seminar, Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan, November.Seminar, Institute of Zoology, Academia Sinica, Taipei, Taiwan, November.Seminar, Dept of Zoology, National Taiwan University, Taipei, Taiwan, November.Seminar, Institute of Life Sciences, National Tsing Hua University, Hsinchu, Taiwan,November.Seminar, Institute of Life Sciences, National Sun Yat-sen University, Kaohsiung, Taiwan,November.1996Speaker, Gordon Research Conference in Molecular Evolution, Ventura, California, Jan.928 - Feb. 2.Seminar, Dept of Biological Sciences, University of Iowa, Iowa City, Feb. 2-3.Keynote Speaker, Symposium on "Culture as well as Biological Affinities among theindigenous Peoples of Taiwan and Southeast Asia", Institute of Ethnology, AcademiaSinica, Taipei, May 21-23.Speaker, 4th International Meeting, the Society for Molecular Biology and Evolution,Tucson, Arizona, June 8-11.Speaker, Society of Systematic Biologists Symposium, Washington University, St. Louis,June 19-23.Speaker, Joint Statistical Meetings, Chicago, Aug. 4-8.Speaker and Organizer, Symposium on "Processes of Molecular Evolution", 5thInternational Congress of Systematic and Evolutionary Biology, Budapest, Aug. 17-24.Speaker, Workshop on "Primate Evolution", 9th International Congress of HumanGenetics, Rio de Janeiro, Brazil, Aug. 18-23.Seminar, Dept of Biological Sciences, Federal University of Para, Belem, Brazil, Aug.

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23-25.Seminar, Instituto de Medicina Tropical da Faculdade de Medicina da Universidade deSao Paulo, Sao Paulo, Brazil, Aug. 23-25.Speaker, Workshop on "Statistical Analysis of Molecular Data", National TaiwanUniversity Medical School, Sept. 8-10.Seminar, Dept of Life Sciences, National Tsing Hua University, Hsin Chu, Taiwan Sept. 11.Speaker, Horizontal Gene Transfer: Implications and Consequences, Fallen Leave LakeConference, South Lake Tahoe, California. Sept. 12-15.Seminar, Dept of Ecology and Evolution, Unversity of Chicago, Chicago, Nov. 18-20.1997Speaker, Symposium on "Junk DNA: The role and evolution of noncoding sequences",The International Society of Molecular Evolution. Guanacaste, Costa Rica, Jan. 6-10.Speaker, Workshop on "Human DNA Sequence Variation", National Human GenomeResearch Institute, Bethesda, March 31 - April 1Seminar, Dept of Zoology, University of Maryland, College Park, April 210Seminar, Dept of Statistics, North Carolina State University, Railegh, April 3.Speaker, Mini-Symposium on "The Genetics of Sensory Perception", Duke University,April 4-5Speaker, "Statistics in Health Sciences", the Institute of Mathematics and its Application,University of Minnesota, Minneapolis, July 6 - 11.Speaker, Colloquium on "Computational Bimolecular Science", National Academy ofSciences, Irvine, California, Sept. 11-13.Speaker, Workshop on "Development and Evolution", Madrid, Spain, Nov. 2 to 5.Sponsored by Instituto Juan March de Estudios e Investigaciones, and the EuropeanMolecular Biology OrganizationSpeaker, Symposium on computational Sciences, "Bioinformatics: from Experiment toBiological Knowledge", Biozentrum, University of Basel, Switzerland, Dec. 11-13.1998Discussion leader, Gordon Research Conf. on "Molecular Evolution", Ventura, California,Jan. 25 - 30.Seminar, Department of Mathematics, Rice University, Houston, April 8.Seminar, Department of Botany, University of Texas-Austin, April 16-17.Seminar, Department of Statistics, Southern Methodist University, Dallas, May 1.Seminar, Department of Zoology, National Taiwan University, Taipei, Taiwan, June 12.Speaker, DNA Sequence Analysis Workshop, Tsing-Hua University, Taiwan, June 15-17.Speaker, 18th International Congress of Genetics, Beijing, China, Aug. 10-15.

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Speaker, "Genetics and Conservation of Biodiversity", Kunming Satellite Conf., Kunming,China, Aug. 16-18.Speaker, "Fukuoka International Symposium of Population Genetics", Fukuoka, Japan,Aug. 19-23.Speaker, "Y-Chromosome in Disease and Evolution", The Banbury Center, Cold SpringHarbor Laboratory, Oct. 13-16.Speaker, Symposium in Conjuction with the International Prize for Biology, Tokyo,11Japan, Dec. 7-10.1999Speaker, Symposium on "Statistical physics and DNA sequence data analyses",sponsored by the National Science Council of Taiwan, Chia-Yi, Taiwan, Jan. 18-22.Seminar, Department of Biomedical Sciences, National Sun Yat-Sen University,Kaohsiung, Taiwan, April 19.Speaker, Symposium on "Molecular clocks", Evolution Annual Meeting, Madison,Wisconsin, June 22-27.Seminar, Department of Genetics and Evolution, La Trobe, Australia, July 19.Organizer and speaker, Symposium "Statistical methods for DNA sequence analyses andphylogenetic reconstruction", VII Congress of European Society of Evolutionary Biology,Barcelona, Spain, Aug. 22-28.Organizer and speaker, Syposium "Human DNA polymorphism and evolution", IVthInternational Congress of Ales Hrdlicka "World Anthropology at the Turn of the Centuries".Prague, Czech Republic, Aug. 31- Sept. 4Chair, "Comparative Genomics", Gordon Research Conference on Molecular Evolution,Haiyama, Japan, Oct. 24-28.Speaker, Workshop on "Human DNA Variation and Evolution", Academia Sinica, Taiwan,Nov. 24-26.2000Speaker, “Evolution 2000”, Tokyo, Japan, March 5 - 7.Speaker, Banbury Center Conference on “Great apes: phenotypes and genotypes”, ColdSpring Harbor, New York, March 19-22.Speaker, Annual Meeting of Environmental Mutagen Society, New Orleans, April 8-13.Speaker, 69th Annual Meeting, American Association of Physical Anthropologists, SanAntonio, Texas, April 10-15.Speaker, Workshop on “Neutralism and selectionism: the end of a debate?”, StazioneZoologica of Naples, Italy, May 4-6.

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Nei Lecture, Annual Meeting of the Society for Molecular Biology & Evolution, YaleUniversity, New Haven, Connecticut, June 17-20.12Seminar, Institute of Biomedical Sciences, Academia Sinica, Taiwan. July 1.Seminar, Institute of Botany, Academia Sinica, Taiwan. July 10.Seminar, Institute of Mathematics, Academia Sinica, Taiwan. July 10.Seminar, Dept. of Life Science, National Tsin-Hua University, Hsinchu, Taiwan. July 11.Seminar, Dept of Biology, Univ. of Michigan, Ann Arbor, MI. Sept. 13.Seminar, Dept of Anthropology, Harvard University, Cambridge, MA. Sept. 28.Speaker, Workshop on “Mutators and Mutability”, Santa Fe Institute, Santa Fe, NewMexico, October 21-26.Seminar, National Center for Genome Resources, Santa Fe, Oct. 26-27.Lecture series, Theoretical Center, National Tsin Hua University, Dec. 8 to 18.2001Speaker, Genes and Minds Initiative Workshop, Tokyo, March 13-15.Seminar, Pharmacia-UpJohn, Kalamazoo, Michigan, March 26.Speaker, Spring School on “Population Genetics and Molecular Evolution”, HumboldtUniversity, Berlin, April 9-11.Speaker, Development and Evolution: the effect of gene and genome duplications,German Genetics Society. Wittenberg, Germany, April 19-22.Speaker, Jacques Monod Conference on “Gene duplications and the evolution of novelgene functions”, Aussois, France, April 26-30.Speaker, Symposium on “Primate Evolutionary Genetics”, American Genetic Association,San Diego, May 19-20.Speaker, “Comparative Biology and Evolution Symposium”, PanAmerican Society forPigment Cell Research. Minnesota. June 14-17 (K. Makova gave the talk).Speaker, TSMC Conference on Bioinformatics, National Chao-Tung University, Aug. 1.Speaker, “Evolutionary Genomics Symposium”, American Chinese Biologist Association,Taipei. Aug. 6-10.13Speaker, Summer Institute on Bioinformatics, Institute of Information Science, AcademiaSinica, Taipei, Taiwan. Aug. 3-17.Speaker, “Gene and Genome Duplications and the Evolution of Novel Gene functions”,European Society for Evolutionary Biology. Aarhus, Denmark. Aug. 20-26.Speaker, the 5th Anton Dohrn Workshop on “Natural Selection and Neutral Theory ”,Naples, Italy, October 28-30.Speaker, Symposium on "Evolutionary Genomics - New Paradigm of Biology in the 21st

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Century": Atami, Japan. Nov. 4-7.Speaker, "Molecular Evolution Conference": Academia Sinica, Taipei, Taiwan. Dec. 26-28.2002Speaker, Workshop on “Genes, Peoples and Languages”, the Institute for Pure andApplied Mathematics, UCLA. Feb. 11 – 15.Speaker, the Post-Genome Knowledge Discovery Program, the Institute for MathematicalSciences, National University of Singapore. March 25-30.Seminar, Bioinformatics Research Center, Medical College of Wisconsin, April 18.Seminar, Dept of Biology, Penn State, May 13-15.Speaker, the CTS-DIMACS joint conference, National Center for Theoretical Sciences.Hsin-Chu. Taiwan. May 24-26.Speaker (plenary), “Molecular Evolution”, Joint International Conference of the Society forMolecular Biology and Evolution and the International Society of Molecular Evolution.Sorrento, Italy. June 13-17.Organizer and Speaker, Workshop on Mathematical Models in Genetics and MolecularBiology. National Center for Theoretical Sciences. National Tsing-Hua University. June 27-30.Participant, NSF “Genomics of Human Origins” Workshop. Washington, DC. July 22-23.Discussion leader, Gordon Research Conference on “Genomics & Structural/EvolutionaryBioinformatics”, Mount Holyoke College, South Hadley, MA. July 28-Aug. 2.Seminar, Department of Biology and Biochemistry, University of Bath, England. Nov. 5.Seminar, Institute of Cell, Animal and Population Biology, University of Edinburgh,Edinburgh. Nov. 6.14Speaker, ‘The Descent of Man’: A Molecular Perspective. The Genetics Society AutumnMeeting. London. Nov. 7-9.Seminar, Institute of Statistics, National Chiao-Tung University, Taiwan. Nov. 20.Speaker (plenary), “Genome 2002 Symposium”, Yang Ming University, Taipei, Taiwan.Nov. 17.Speaker, Symposium on Molecular Basis of Evolution, Tokyo, Japan. Dec. 3-4.2003Speaker, Workshop, Kavli Institute for Theoretical Physics, UCSB. Jan. 13.Distinguished Speaker, Inst. of Genetics Medicine, University of Southern California. Jan.14 – 15.Keynote speaker, Workshop on Bioinformatics, National Sun Yat-sen University,

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March17-20.Seminar, Beadle Center for Genetics Res., University of Nebraska, Lincoln, Nebraska,April 15-16.Seminar, Biology Department, Lycoming College, Williamsport, PA, April 24.Speaker and Organizer, Expressional and Functional Divergence of Duplicate Genes atthe Genomic Level, Soc. for Molecular Biology & Evolution, Annual Meeting, NewportBeach, CA, June 26-29.Speaker, Conf. on Bioinformatics, National Chiao-Tung University, Hsinchu, Taiwan. Aug.1-2.Speaker, 9th Congress the European Society for Evolutionary Biology, Leeds, UK, Aug. 18-23.Keynote speaker, Conference on Engineering Technology and Application of Chinese andWestern Medicine. Taichung, Taiwan. Sept. 13.Speaker, Genomics Days, University of Lausanne, Lausanne, Switzerland, Sept. 18-19.Speaker, 2003 Xiangshan Science Symposium on Genomics and Evolution, Beijing, China.Oct. 27-30.Seminar, Department of Ecology & Evolution, ETH Zurich, Switzerland, Nov. 6.200415Speaker, International Conference on "Evolutionary Genomics”, Tucson, Arizona. Jan. 16-17.Speaker, Gordon Conference in Molecular Evolution. Ventura, California. February 1 – 6.Speaker, GRC on “Structural, Functional & Evolutionary Genomics”. Ventura, Cal. Feb.15 – 20.Speaker and session co-chair, 2004 "Biology of Genomes", Cold Spring Harbor Laboratory.May 12 - 16.Keynote Speaker, International Symposium on Statistical Physics: Biologically MotivatedStatistical Physics and Related Problems. Taipei, Taiwan. June 22-26.Speaker, Workshop on “Comparative genomics of vertebrates: concepts and bioinformatictools”, La Londes Les Maures, France. May 27-28Speaker, 2nd Functional Genomics Reunion Conference. Institute of Physics and AppliedMathematics, UCLA. June. 1-4.

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Speaker, 3rd Wu Ta-You Science Camp, His-Tou, Taiwan. Aug. 9-13.Keynote speaker, Symposium for Biomolecules, Medicine, Therapeutics, and Computation,University of Illinois at Chicago. Oct. 8.Seminar, Department of Biostatistics, University of Michigan. Oct. 11-12.Seminar, Genetics Program, Texas A&M University. Nov. 3-5.2005Speaker, Florida Bioinformatics Workshop 2005. University of Florida. Feb. 21-22.Speaker, International Society of Molecular Evolution meeting: “Genome and RNA:Expression and Functions”. Punta Leona, Costa Rica, Feb. 26-March 2.Myra Samuels Lecture, Department of Statistics, Purdue University. April 21-22.Speaker, System Biology and Bioinformatics Symposium 2005. March 29-31. Taipei,Taiwan.Speaker, the Fourth Annual Department of Genome Sciences Symposium. University ofWashington. Seattle. May 18.16Speaker, Symposium on Comparative and Functional Genomics, Penn State University.July 20-23.Speaker, The 8th Chien-Shiung Wu Science Camp. Shi-tou, Nantou, Taiwan. August 9-11.Speaker, International Workshop: "Complex biomolecular networks: structure, evolution,and function". The Montauk Yacht Club, Long Island. September 6-9.Seminar, Department of Biological Sciences, University of Iowa. September 16.Plenary speaker, Main Symposium, the 77th Annual Meeting of the Genetics Society ofJapan. Tokyo, September 27-29.Speaker, International Conference on Nonlinear Analysis, Institute of Mathematics, Taipei,Taiwan. December 17-20.2006Seminar, Dept of Ecology and Evolutionary Biology,UCLA, Feb. 8-10.Keynote speaker, The Fourth Asian Pacific Bioinformatics Conference. Taipei, Taiwan.Feb. 13-16.Plenary speaker and session organizer, HUGO-06, Taipei, Taiwan. March 6-10.Huey Sun Lecture, National Chung-Hsing University, Tai-Chung, March 15.Speaker, Symp. On “Teaching Evolution and the Nature of Science”. New York Academyof Sciences. New York City, April 21-22.Seminar, University of Southern California, Los Angeles. March 20-22.Seminar, Institute of Bioinformatics, University of Georgia, Athens. March 29-31.Seminar, Evolution Seminar Series, University of Wisconsin, Madison, April 27.Speaker and co-organizer, Symposium on "Mutation, selection and evolutionary genomics",

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Stockholm, Sweden. May 10-13.Seminar, Dept of Genetics, University of Lund, March 14-15.Speaker, “Genomes, Evolution, and Bioinformatics”, Annual Meeting of the Society forMolecular Biology and Evolution, Arizona State University. Tempe, Arizona. May 24 – 28.Speaker and Co-Chair “Molecular Evolution”, 20th IUBMB International Congress ofBiochemistry and Molecular Biology. Kyoto, Japan. June 18-23.17Speaker, Course on “DNA and Chromosomes: Physical and Biological Approaches”,Cargèse, Corsica, France. June 19 – July 1.Seminar, Ochanomizu University, Tokyo, Japan, July 12-13.Speaker, Evolutionary Genomics and Bioinformatics Symp., Taipei, August 15-16.Seminar, Center for Cellular and Biomedical Research, University of Toronto, Toronto, Oct.4-5.Seminar, University of McMaster, Hamilton, Canada Oct. 6-7.Keynote speaker, 2006 International Workshop on Medical and Bio Informatics and ICS2006. Taipei, Dec. 4-6.Plenary speaker, Annual Meeting, Taiwan Mathematics Society. Taipei, Dec. 8-10.2007Speaker, International Symp. “Genomics and Evolution”, Guangzhou, China, Jan. 3-5.Speaker, KITP workshop on Evolution of Biological Networks, UCSB, Feb. 5 to 9.Speaker, the 2007 Taipei International Statistical Symposium and ICSAInternational Conference, Academia Sinica, June 25-27.Seminar, Center for Systems Biology and Bioinformatics, National Taiwan University, June27.Seminar, Institute of Statistics, NCTU, Hsinchu, Taiwan, July 3.Keynote speaker, The 5th Taiwan yeast annual meeting, Academia Sinica, Aug. 1.Speaker, Symp. on “Evolution of unusual gene organization”, 11th European Congress ofEvolutionary Biology. Uppsala, Sweden, Aug 20-25.Seminar, University of Tromso, Norway, Aug. 24.Seminar, University of Bergen, Norway, Aug. 27.Speaker, “Evolution of Brain and Behaviour”, Cambridge UK, September 12-14.Speaker, International Symposium on Influenza Virus, Taiwan. October 22-24.18The Clark Cockerham Lecture, North Carolina State University, Raleigh, North Carolina,Nov. 7-9.Seminar, Institute for Cellular and Molecular Biology, UT Austin, Nov. 14-15.Keynote Speaker, Symposium of Botanical Society of Taiwan. National Taiwan University,Nov. 24-25Speaker, Symposium, Computational and Theoretical Biology, Rice University, Dec.

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7-9.Public lecture, National Museum of Natural History, TaiChung, Taiwan, Dec. 15.2008Seminar, Center for Integrative Genomics, University of Lausanne. Feb. 27-March 1.Public lecture. “A genetic view of human evolution”. Academia Sinica. In honor ofPresident Wang Shi-Jie. March 8Keynote speech, Japan-Taiwan Young Computational Scientists. March 9-11.Seminar, Cold Spring Harbor Laboratory, Cold Spring Harbor, New York. April 16.Keynote speaker, Symposium on Applied Mathematics, National Chung-Hsing University,May 6.Seminar, Chinese Science and Technology University, He Fei, Anhui, China. May 13.Seminar, Anhui University, He Fei, Anhui, China. May 13.Speaker, Chinese Academy of Sciences Symposium for Developmental Systems Biology.Beijing, May 18-20.Speaker, International meeting of the Society for Molecular Biology and Evolution.Barcellona, Spain. June 5-8.Public lecture: A genomic view of human evolution. Sao Paulo, Brazil. July 12.Symp. On “Gene Regulation and Systems Biology”, Michigan State University, EastLansing, MI. July 18-20.Keynote speaker, Plant Mol. Biol. Summer Camp. Chia-Yi, Aug. 7-9.Keynote speaker, Biology Summer Camp. Hsi-Tou, Aug. 27-2919Student seminar, Department of Molecular and Integrative Physiology, University of Illinois,Urbana-Champaign. Sept. 24-15.EMBO Workshop on Evolutionary and Environmental Genomics of Yeasts. EMBLHeidelberg, Germany, Oct. 1-5.Keynote speaker, Symp. Taiwanese Society of Molecular Medicine, Taipei, Oct. 18.2009Seminar, Institute of Bioinformatics and Systems, National Central University, Chung-Li,Taiwan. Jan. 5.Keynote speaker, 17th Symposium on Recent Advances in Cellular and Molecular Biology,Kenting, Ping-Tung, Taiwan. February 11-13.Speaker, Darwin Bicentennial Series, National Taiwan University, Taipei, Taiwan. Feb. 27.Seminar, Department of Life Sciences, National Central University, Chung-Li, Tao-Yuan,March 3Keynote speaker, Biodiversity Conference, Center for Biodiversity, Ji-Ji, Nantou, March 15-16.Seminar, National Chung-Hsin University, Tai-Chung, Taiwan. March 20.Seminar, China Medical University, Tai-Chung, Taiwan. March 20.

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Keynote speaker, Taiwan Genomics Association. 14th Taiwan Joint Cancer Conference.Taipei, May 2~3.Seminar, Institute of Genomics and Systems Biology, University of Chicago, May7.Plenary speaker, 2009 IEEE International Workshop on Genomic Signal Processing andStatistics (GENSIPS 2009). Minneapolis, Minnesota. May 17-19.Speaker, Symp. “Evolution of biological complexity”, Society for Molecular Biology andEvolution, Iowa City, Iowa. June 3-7.Keynote speaker, Ta-You Wu Summer Science Camp, His-tou, Nan-Tou, Aug. 2-7.Seminar, Dept of Life Sciences, Tung-Hai University. Sept. 30.Speaker and session chair, the 100th International Titisee Conference on “Genomeevolution and the origin of novel gene functions”. Titisee, Black Forest, Germany. October14-18.20Public talk: “Genetics and Evolution”. Academia Sinica. Nov. 24.Seminar, Dept of Boengineering, University of Illinois, Chapaign-Urbana, Nov. 5.The Mendel Lecture. Discussion Meeting “Genetics and the Causes of Evolution: 150Years of Progress since Darwin”, a joint annual meeting of Genetics Society of UK andRoyal Society. London November 12-13.Seminar, Modern sequencing technology and its applications, National Tsing-HuaUniversity, Hsin-Chu. Dec. 25.2010Seminar, Graduate Institute of Biomedical Electronics and Bioinformatics, National TaiwanUniversity. Taipei, Taiwan. April 19.Seminar, Institute of Life Sciences, National Cheng Kung University, Tainan, Taiwan. May7.Seminar, National Chiayi University, Chiayi, Taiwan. June 10.Speaker, Conference on “Probability and Statistics with Applications in Biology, NationalCenter for Theoretical Sciences, Hsin-Chu, Taiwan. July 15.Seminar, Institute for Advanced Biosciences, Keio University. Tsuruoka, Japan. August 27.Speaker, Midwest Yeast Meeting, Northwestern University, Evanston, Chicago. October 2-3.Seminar, Dept of Ecology and Evolution, Providence University, Taichung, Taiwan.December.Keynote speaker, Taiwan Genomics and Genetics Society. Nan-Tou, Taiwan. December9-10.

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