Alumni

Porat M. Ehrlich, M.Sc., Ph.D., Molecular Medicine

Porat received his Ph. D. from the Genetics program at BUMC. He is currently a Research Associate at the Geisinger Center for Health Research.

Qianli Ma

Qianli receive his masters degree in Bioinformatics in the Genetics program in 2005. He is currently a biostatistician at University of Miami’s Health Services Research Center. He is working towards his PhD and has contributed to over 20 publications in the field.

Yan Meng (Ph.D. Bioinformatics)

Currently, Yan is a Center Scientist at The Stanley Center for Psychiatric Research at the Broad Institute. Yan Meng was a graduate student of the Bioinformatics Program. Yan’s interest is the genetic analysis of complex diseases, using both quantitative and qualitative approaches. Yan’s  focus is on the analysis of late onset Alzheimer’s disease.

Panos Papageorgis Ph.D. Genetics and Genomics/Cell and Molecular Biology

Panos received his Ph.D. in Bioinformatics in 2009.

Research

Molecular cloning and subcloning of genes, mammalian normoxic and hypoxic cell culture techniques, expression and isolation of recombinant fusion proteins using bacterial systems, retroviral and lentiviral-mediated stable gene transfer, lentiviral-mediated stable gene knock-down by shRNA, transient transfection assays, luciferase reporter assays, western blotting, nuclear and cytoplasmic cell fractionation, PCR, RT-PCR, real-time PCR, methylation specific PCR, quantitative-methylation specific PCR, bisulfite sequencing, methyl-DNA immunoprecipitation assay, chromatin immunoprecipitation assays, co-immunoprecipitation assays, cell proliferation assays, in vitro cell migration and invasion assays, zymogram assays, ELISA assays, immunofluorescent staining and cell imaging, gene expression microarray techniques and analysis using “ingenuity pathway” software, in vivo tumorigenesis assays by orthotopic and subcutaneous injections and in vivo metastasis assays by tail-vein injections in immunodeficient mice.


Publications

Papageorgis P., Lee R., Gao F. and Thiagalingam S. Smad4 inactivation promotes metastatic properties of colon cancer cells. In preparation.

Papageorgis P., Abdolmaleky H., Lambert AW. Ozturk S. and Thiagalingam S. Smad signaling mediates epigenetic regulation of breast cancer. Submitted.

Gao F., Ponte J., Levy, M, Papageorgis P., Ozturk S., Lambert AW., Thiagalingam A., Abdolmaleky H., Sullivan BA., and Thiagalingam S. hBub1 deficiency triggers a novel p53 mediated early apoptotic checkpoint pathway in mitotic spindle damaged cells. Cancer Biol Ther. 2009 Apr 1 8(7).

Gao F., Ponte J., Papageorgis P., Levy, M., Cook NM., Ozturk S., Lambert AW., Pan H., Chinnapan D., Cheng KH., Thiagalingam A., Abdolmaleky H. and Thiagalingam S. hBub1 negatively regulates p53 mediated early cell death upon mitotic checkpoint activation. Cancer Biol Ther. 2009 Apr 1 8(7).

Pan H, Gao F, Papageorgis P., Abdolmaleky HM, Faller DV, Thiagalingam S. Aberrant activation of γ-catenin promotes genomic instability and oncogenic effects during cancer progression. Cancer Biol Ther. 2007 Oct 6; (10):1638-43, 2007.

Abdolmaleky HM, Cheng KH, Faraone SV, Wilcox M, Glatt SJ. Gao F, Smith CL, Shafa R, Aeali B, Carnevale J, Pan H, Papageorgis P, Ponte JF, Sivaraman V, Tsuang MT, Thiagalingam S. Hypomethylation of MB-COMT promoter is a major risk factor for schizophrenia and bipolar disorder. Hum Mol Genet. 2006 Nov 1; 15(21):3132-45, 2006.

Thiagalingam S., Ponte J., Papageorgis P., Cheng K.H. Is epigenetic inactivation of Smad8 in cancer, a novel tumor marker for diagnosis and therapy? FASEB Journal. 2004 May 14; 18(8) Abstract B502.

Papageorgis P., Lambert A., Ozturk S. and Thiagalingam S. TGFβ and BMP signaling pathways in cancer. Systems Biology of Cancer, Cambridge University Press, 2009 in preparation.

Thiagalingam S. and Papageorgis P. DNA methylation profiles as prognostic markers for cancer. Cancer Epigenetics 335-348 Taylor & Francis, 2008.

Dorothy Pazin Ph.D.

Dorothy received her Ph.D. in Genetics and Genomics in 2009.  She is currently a Postdoctoral Fellow in the Rosen Lab at Harvard School of Dental Medicine.

Research

The mouse gonad provides a powerful tool for studying organogenesis. Similar to all organs, the development of the gonads utilizes growth factor and morphogen signaling. What is unique about the gonads, is that they develop from a bipotential progenitor that differentiates into either an ovary or testis. These facts suggest that gonad development employs sex-specific responses to, or expression of, certain growth factors and morphogens. Recent evidence suggests that molecules in the extracellular matrix (ECM) can influence how growth factors and morphogens diffuse and/or interact with their receptors, thereby modulating downstream signaling events. We hypothesize that some of these ECM-related molecules may modulate sex-specific responses to growth factors and/or morphogens.

My research interests involve studying the role of the ECM in embryonic gonad development. I have used RNA in situ hybridization, real-time RT-PCR and organ culture experiments to study the expression and regulation of several genes that encode ECM molecules. I also have analyzed mutant mice in order assess the roles that ECM-related genes play in gonad development.


Publications

Lee HJ, Pazin DE, Kahlon RS, Correa SM, Albrecht KH. Novel markers of early ovarian pre-granulosa cells are expressed in an Sry-like pattern. Developmental Dynamics. In press.

Liu P, Pazin DE, Merson RR, Albrecht KH, Vaziri C. The developmentally-regulated Smoc2 gene is repressed by aryl-hydrocarbon receptor (Ahr) signaling. Gene 2008.

Yi Yu (Ph.D. Bioinformatics)

Yi received his Ph.D. in Bioinformatics in 2009. He is currently a Senior Clinical Research Associate at Tufts Medical Center.

Research

1. Developed novel analytical tools to screen genetic markers associated with diseases in family-based data or sib-pair data by the modifications of random forest algorithm. New algorithm showed robustness to population admixture and enhanced statistical power especially when gene-gene interaction involved. (2005-present, Boston University)
2. Identified several genes associated with the substance dependence diseases. Genotypic and phenotypic information of subjects from four medical centers were imported into database and cleaned for errors and inconsistencies. Statistical analysis were performed by using FBAT, QTDT, or GEE for the family-based samples, or carried out by using chi-square test or logistic regression for population-based samples. (2005-present, Boston University)
3. Located several genetic regions linked with quantitative traits (QTL) of atherogenic dyslipidemia. Data from six international sites were integrated, cleaned and formatted. Statistical analysis were processed by SOLAR, GENEHUNTER, MERLIN. (2004-2005, Boston University)


Publications

1. Yu Y, Kranzler HR, Panhuysen C, Weiss R, Brady K, Poling J, Tsai Y, Farrer LA, Gelernter J: Substance Dependence Whole Genome Association Study In Two Distinct American Populations. Hum Genet (Accepted)
2. Yu Y, Panhuysen C, Kranzler HR, Hesselbrock V, Rounsaville B, Weiss R, Brady K, Farrer LA, Gelernter J: Intronic variants in the dopa decarboxylase (DDC) gene are associated with smoking behavior in European-Americans and African-Americans. Hum Mol Genet 2006, 15(14):2192-2199.
3. Gelernter J, Yu Y, Weiss R, Brady K, Panhuysen C, Yang BZ, Kranzler HR, Farrer L: Haplotype spanning TTC12 and ANKK1, flanked by the DRD2 and NCAM1 loci, is strongly associated to nicotine dependence in two distinct American populations. Hum Mol Genet 2006, 15(24):3498-3507.
4. Yu Y, Wyszynski DF, Waterworth DM, Wilton SD, Barter PJ, Kesaniemi YA, Mahley RW, McPherson R, Waeber G, Bersot TP et al: Multiple QTLs influencing triglyceride and HDL and total cholesterol levels identified in families with atherogenic dyslipidemia. J Lipid Res 2005, 46(10):2202-2213.
5. Yu Y, Meng Y, Ma Q, Farrell J, Farrer LA, Wilcox MA: Whole-genome variance components linkage analysis using single-nucleotide polymorphisms versus microsatellites on quantitative traits of derived phenotypes from factor analysis of electroencephalogram waves. BMC Genet 2005, 6 Suppl 1:S15.
6. Meng Y, Ma Q, Yu Y, Farrell J, Farrer LA, Wilcox MA: Multifactor-dimensionality reduction versus family-based association tests in detecting susceptibility loci in discordant sib-pair studies. BMC Genet 2005, 6 Suppl 1:S146.
7. Ma Q, Yu Y, Meng Y, Farrell J, Farrer LA, Wilcox MA: Genome-wide linkage analysis for alcohol dependence: a comparison between single-nucleotide polymorphism and microsatellite marker assays. BMC Genet 2005, 6 Suppl 1:S8.
8. Yu Y, Lundeberg T, Yu LC: Role of calcitonin gene-related peptide and its antagonist on the evoked discharge frequency of wide dynamic range neurons in the dorsal horn of the spinal cord in rats. Regul Pept 2002, 103(1):23-27.

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April 11, 2011
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