Li Yin, MD, PhD
Assistant Professor
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Dept. of Pathology, Immunology and Laboratory Medicine |
Primary Areas of Research
- Mapping molecular defects in Ig HV VDJ transcriptome repertoire in HIV-infected young adults by pyrosequencing. Massive parallel pyrosequencing was applied to map the defects in B cell development and antibody (Ab) maturation in HIV-infection. Technical procedures were set up to generate amplicon libraries of isotype unswitched and switched Ig HV VDJ transcriptome repertoires for pyrosequencing. Bioinformatic and biostatistic pipelines, including development of a custom germline Ig H VDJ recombination reference sequence database, were established to enable and facilitate studies of somatic hypermutation, Ab biodiversity, VH, DH and JH allelic expression, DH reading frame use, CDR3 length variation, V-D-J recombination, B cell clonality, and Ab sharing among individuals. The established system provides a powerful research tool to investigate B cell defects in immune deficiencies, and to evaluate B cell response to vaccination.
- Long-lived historical record of evolution of viral diversity in peripheral blood cells by deep pyrosequencing. Deep pyrosequencing was applied to investigate the persistence of HIV-1 latent reservoir, HIV-1 biodiversity and population structure, co-receptor bioprofile, and the role of rare variants during the viral evolution within the host ecosystem.
- The role of Abs against HIV-1 Env gp41 membrane proximal external region (MPER) in mediating mother to child transmission. The hypothesis is that women with more broadly neutralizing HIV-1 Abs (bn-Abs-HIV) are less likely to transmit, which could be reflected by increased amino acid polymorphism in HIV-1 Env gp41 MPER where epitopes of known bn-Abs-HIV are localized. To test the hypothesis ultra deep pyrosequencing was applied to generate HIV-1 subtype C sequences spanning HR2, MPER and 5' of MSD regions from circulating plasma viruses in mothers who failed transmit to their children by breast feeding and compared to mothers who transmitted virus. Hot spots within epitopes and diversification of viral population under positive selection are being investigated.
- HPV infection and persistence in external genital lesions of infected men. A web-based HPV genotyping server based on the most updated HPV reference sequences was established to enable and facilitate the HPV genotyping from genital lesions of infected men. The viral population and its persistence and change overtime are being investigated using deep sequencing.
Publications
- Yin, L., C. MacDonald, and H. Grant. 1996. Electroporation conditions for retention of rat hepatocyte viability. Genetic Engineering Biotechnol. 16:27-34.
- Anderson, K., L. Yin, C. MacDonald, and M. H. Grant. 1996. Immortalized hepatocyte as in vitro model systems for toxicity testing: the comparative toxicity of menadione in immortalized cells, primary cultures of hepatocyte and HTC hepatoma cells. Toxicol In Vitro. 10:721-727.
- MacDonald C., F. Reid, K. Anderson, L. Yin, E. Hill, and M. H. Grant. 1997. Metabolism and toxicological studies in immortalized rat hepatocyte cell lines, p.73-78. In M. J. T. Carrondo, J. B. Griffiths, and J. L. P. Moreira (ed.), Animal cell technology: from vaccines to genetic medicine. Kluwer Academic Publishers, Dordrecht.
- Grant M. H., F. Reid, L. Yin, J. Irvine, K. Anderson, E. Hill, R. Andrews, and C. MacDonald. 1997. Immortalized rat hepatocyte cell lines for in vitro toxicity testing, p.529-533. In K. Funatsu, Y. Shirai, and T. Matsushita (ed.), Animal Cell Technology: Basic and Applied Aspects. Kluwer Academic Publishers, Dordrecht.
- Yin, L., N. Ghebranious, S. Chakraboty, C. E. Sheehan, Z. Ilic, and S. Sell. 1998. Control of mouse hepatocyte proliferation and ploidy by p53 and p53ser246 mutation in vivo. Hepatology. 27:73-80.
- Anderson, K., R. Andrews, L. Yin, R. McLeod, C. MacDonald, J. D. Hayes, M. H. Grant. 1998. Cytotoxicity of xenobiotics and expression of glutathione-S-transferases in immortalized rat hepatocyte cell lines. Human Exp Toxicol. 17:131-137.
- Yin, L., D. Lynch, and S. Sell. 1999. Participation of different cell types in the restitutive response of the rat liver to periportal injury induced by allyl alcohol. J Hepatol. 31: 497-507.
- Rosenberg, D, Z. Ilic, L. Yin, and S. Sell. 2000. Proliferation of hepatic lineage cells of normal C57BL and IL-6 knockout mice after cocaine induced periportal injury. Hepatology. 31(4): 948-955.
- Sun, M, C. Yang, L. Yin, T. Shupe, Z. Ilic, T. Fridreich, and S. Sell. 2000. Preliminary microarray analysis of differences in mRNA of cell cycle control and carcinogen metabolizing enzymes in normal and p53 null mice. Journal of Tumor Marker Oncology. 15(1):77-84.
- Yin, L, D. Lynch, Z. Ilic, and S. Sell. 2002. Proliferation and differentiation of ductular progenitor cells and littoral cells during the regeneration of the rat liver to CCl4/2-AAF injury. Histology and Histopathology. 17(1): 65-81.
- Yin, L, M. Sun, Z. Ilic, H. L. Leffert, and S. Sell. 2002. Derivation, characterization, and phenotypic variation of hepatic progenitor cell lines isolated from adult rats. Hepatology. 35(2):315-324.
- Peck, A.B., L. Yin and V. Ramiya. 2004. Animal models to study adult stem cell-derived in vitro-generated islet implantation. Institute For Laboratory Animal Research 45(3):259-267.
- Yin L, Rodriguez CA, Hou W, Potter O, Caplan MJ, Goodenow MM, Sleasman JW. 2008. Antiretroviral therapy corrects HIV-1-induced expansion of CD8+ CD45RA+ CD27- CD11abright activated T cells. J Allergy Clin Immunol 122(1):166-172.
- Yin, L, Z. C. Kou, C. Rodriquez, W. Hou, M. M. Goodenow, and J. W. Sleasman. 2009. Antiretroviral therapy restores diversity in the T cell receptor Vb repertoire of CD4 T cell subpopulations among HIV-Infected children and adolescent. Clin Vacc Immunol 16(9):1293-1301.
- Wallet MA, Rodriguez CA, Yin L, Saporta S, Chinratanapisit S, Hou W, Sleasman JW, Goodenow MM. 2010. Microbial translocation induces persistent macrophage activation unrelated to HIV-1 levels or T cell activation following therapy. AIDS, 24(9):1281-90.
- Yin, L, W. Hou, L. Liu, Y. Cai, Y. Sun, M. A. Wallet, B. P. Gardner, A. C. Lowe, C. A. Rodriguez, W. G. Farmerie, J. W. Sleasman, and M. M. Goodenow. 2011. Molecular defects in IgM HV CDR3 transcriptome repertoire in HIV-infected young adults revealed by pyrosequencing. Submitted.
- Yin, L, L. Liu, Y. Sun, W. Hou, M Salemi, W. G. Farmerie, J. W. Sleasman, and M. M. Goodenow. 2011. Long-lived historical record of evolution of viral diversity in peripheral blood cells by deep pyrosequencing. Submitted.
- Rodriguez C. A., L. Yin, W. Hou, S. Ho, A. C. Lowe, M. A. Wallet, P. J. Emmanuel, M. M. Goodenow and J. W. Sleasman. 2011. Dynamics of thymic output, and T-cell activation predict immunologic outcome in pediatric HIV infected patients. In preparation.
- Wallet M., L. Yin, J.W. Sleasman, M.M. Goodenow. 2011. Generation of a novel massive-diverse single chain variable fragment antibody phage display library from immunoglobulin genes of lupus patients. In preparation.
Presentations
- Dilated cardiomyopathy in infants and children. Yin, L., and A. Houston. 1992. The Scottish Pediatric Society Summer Meeting. Inverness, Scotland, UK.
- Electroporation conditions for optimizing the viability of rat hepatocytes. Yin, L., M. H. Grant, and C. MacDonald. 1994. European Tissue Culture Society-UK Sussex Workshop. Falmer, Brighton, UK.
- Pyrosequencing the IgH repertoire. Li Yin. The University of South Florida and University of Florida, Allergy and Immunology Research Retreat, 5/8/10, Children's Research Institute, St Petersburg, Florida, USA.
- Mapping defects in IgM+ B cell repertoire in HIV-infected individuals by 454-pyrosequencing. Yin, L., L. Liu, Y. Cai, W. Hou, M. Wallet, B. Gardner, A. Lowe, Y. Sun, P, Sriaroon, E.E. Perez, C.A. Rodriguez, J.W. Sleasman and M.M. Goodenow. AIDS Vaccine 2010, Atlanta, Georgia, USA.
- Long-lived historical record of evolution of viral diversity in peripheral blood cells by deep pyrosequencing. Li Yin, Li Liu, Yijun Sun, Wei Hou, Amanda C. Lowe, Marco Salemi, William G. Farmerie, John W. Sleasman, Maureen M. Goodenow. AIDS Vaccine 2011, Bangkok, Thailand.