Binshan Shi, Ph.D.



Ph.D., Zhejiang University, P. R. China
M.Sc., Zhejiang University, P. R. China
B.Sc., Zhejiang University, P. R. China

Courses Taught

Genetics and Molecular Basis of Disease
Molecular Diagnosis

Research Interests

Dr. Shi is a molecular biologist and molecular virologist. He has worked on the research and molecular diagnosis of HIV-1 in recent years. Dr. Shi’s research interests are mainly focused on two areas:

  • Research to understand the molecular basis of disease pathogenesis by using advanced molecular biology, virology, molecular genetics, and bioinformatics approaches. Methods used in lab include a) HIV-1 infectious molecular clone, recombinant virus, and reporter gene technologies to study HIV phenotype such as infection and replication; b) HIV-1 single genome amplification, sequencing and bioinformatics tools to understand the genotype changes and its association with disease progression.
  • Design and develop nucleic acid based molecular diagnosis assays for the detecting of infectious diseases, and its application for the monitoring of disease progression and the management of treatment. DNA amplification technology, fluorescence based quantification method, and novel mutation detection approaches were used in lab. 

Selected Publications/Conference presentations

Binshan Shi, Christina Kitchen, Barbara Weiser, Douglas Mayers, Brian Foley, Kimdar Kemal, Kathryn Anastos, Marc Suchard, Monica Parker, Cheryl Brunner, Harold Burger. (2010) Evolution and recombination of genes encoding HIV-1 drug resistance and tropism during antiretroviral therapy. Virology, 404: 5–20

Linda M. Styer, Binshan Shi, and Monica M. Parker. Detection of Human Immunodeficiency Virus Type 2 (HIV-2) Using a Real Time RT-PCR Assay with a Whole Virus Internal Control. 2010 HIV Diagnostics Conference, March, 2010, Orlando, FL

Binshan Shi, Barbara Weiser, Harold Burger. Sensitive Detection of X4 and R5 HIV-1 Strains by Using a Novel Heteroduplex Tracking Assay. 49th Interscience Conference on Antimicrobial Agents and Chemotherapy (ICAAC 2009) September 12-15, 2009, San Francisco, CA

Shi B, Philpott S, Weiser B, Kuiken C, Fowke K, Fang G, Brunner C, Plummer, F, Rowland-Jones S, Bwayo J, Kimani. J, Anzala O, and Burger H. (2004) Construction of an Infectious Molecular Clone of HIV-1 from an African Patient with a Subtype D-C Recombinant Virus. AIDS Research and Human Retroviruses. 20(9): 1015-1018.

Fang G, Weiser B, Kuiken C, Philpott S, Rowland-Jones S, Plummer F, Kimani J, Shi B, Kaul R, Bwayo J, Anzala O, and Burger H. (2004) Recombination following Superinfection by HIV-1. AIDS, 18(2): 1-7.

Fang G, Kuiken C, Weiser B, Rowland-Jones S, Plummer F, Chen CH, Kaul R, Anzala AO, Bwayo J, Kimani J, Philpott SM, Kitchen C, Gaschen B, Lang D, Shi B, Kemal KS, Rostron T, Brunner C, Beddows S, Sattenau Q, Paxinos E, Oyugi J, Burger H. (2004) Long-term Survivors in Nairobi: Complete HIV-1 RNA Sequences and Immunogenetic Associations. J. of Infectious Disease. 190: 697-701.

Binshan Shi, Zhu-Nan C, Jun Y, Ying-Nian Y. (2004) N-Methyl-N’-nitro-N-nitrosoguanidine sensitivity, mutator phenotype and sequence specificity of spontaneous mutagenesis in FEN-1-deficient cells. Mutation Research 556:1-9

Shi Bin Shan, Yu Y N,Cai Z N, Shen B H. (2001) The Influence of FEN-1 Gene on Cell Cycle and Genetic Stability. Acta Biochimica et Biophysica Sinica, 33(3): 309-314.

Shi Bin Shan, Yu Y N. (2000) The Function and Structure of the Structure-Specific Nuclease FEN-1 (flap endo/exonuclease). Progress in Biochemistry and Biophysics, 27(2): 143-146.

Shi Bin Shan, Yu Y N,Cai Z N, Shen B H. (2000) The Establishment of FL-FEN-1- Cell in which FEN-1 gene was blocked by antisense. Acta Biochimica et Biophysica Sinica, 32(1): 87-89.


Dr.Shi is the inventor of the International Patent “Detection of X4 Strains of HIV-1 by Heteroduplex Tracking Assay” (WO2011032078).

Professional Affiliations

Member of the International AIDS Research Society.
Member of the American Society for Microbiology
Reviewer for Journal of Clinical Microbiology. 
New York State Clinical Laboratory License technologist.

Previous positions or appointments

Research scientist, Wadsworth Center, New York State Department of Health
Assistant Professor, Zhejiang University

Assistant Professor
Department of Health Sciences