Biomedical Research Education & Training
Faculty Member

Zhao, Zhongming, Ph.D., M.S.
Associate Professor of Biomedical Informatics
Associate Professor of Cancer Biology
Ingram Associate Professor of Cancer Research
Associate Professor of Psychiatry

Lab Url: http://bioinfo.mc.vanderbilt.edu/

Phone Number: 615-343-9158

Email Address: zhongming.zhao@vanderbilt.edu

Zhao, Zhongming's picture
Academic history
BS, Zhejiang University
MS, Beijing University
MS, University of Texas at Houston Health Science Center
PhD, University of Texas at Houston Health Science Center
Post-doctoral, The W.M. Keck Center for Computational and Structural Biology
N/A

Office Address   Mailing Address

2525 West End Avenue, Suite 600

37203


Research Specialty
Bioinformatics and Systems Biology, Personalized Medicine, Translational Bioinformatics, Cancer Biology, Neuropsychiatric Genetics

Research Description
The research interest of the Bioinformatics and Systems Biology Laboratory (BSBL, http://bioinfo.mc.vanderbilt.edu/) focus on the application of bioinformatics and systems biology approaches to studying complex diseases such as cancer and schizophrenia, aiming to uncover their molecular mechanisms that are otherwise undetected by classical approaches. The ongoing projects use data generated from high throughput technologies such as next generation sequencing and microarrays. Integrative genomics approaches are often applied.

Publications
Ahmed, ST, Davulcu, H, Tikves, S, Nair, R, Zhao, Z. BioEve Search: A Novel Framework to Facilitate Interactive Literature Search. Adv Bioinformatics, 2012, 509126, 2012 PMCID:3368157

Coburn, LA, Gong, X, Singh, K, Asim, M, Scull, BP, Allaman, MM, Williams, CS, Rosen, MJ, Washington, MK, Barry, DP, Piazuelo, MB, Casero, RA, Chaturvedi, R, Zhao, Z, Wilson, KT. L-arginine supplementation improves responses to injury and inflammation in dextran sulfate sodium colitis. PLoS One, 7(3), e33546, 2012 PMCID:3299802

Dahlman, KB, Xia, J, Hutchinson, K, Ng, C, Hucks, D, Jia, P, Atefi, M, Su, Z, Branch, S, Lyle, P, Hicks, DJ, Bozon, V, Glaspy, JA, Rosen, N, Solit, DB, Netterville, JL, Vnencak-Jones, CL, Sosman, JA, Ribas, A, Zhao, Z, Pao, W. BRAF L597 mutations in melanoma are associated with sensitivity to MEK inhibitors. Cancer Discov, 2012 PMCID:3287567

Du, X, Han, L, Guo, AY, Zhao, Z. Features of methylation and gene expression in the promoter-associated CpG islands using human methylome data. Comp Funct Genomics, 2012, 598987, 2012 PMCID:3303704

Fanous, AH, Middleton, FA, Gentile, K, Amdur, RL, Maher, BS, Zhao, Z, Sun, J, Medeiros, H, Carvalho, C, Ferreira, SR, Macedo, A, Knowles, JA, Azevedo, MH, Pato, MT, Pato, CN. Genetic overlap of schizophrenia and bipolar disorder in a high-density linkage survey in the Portuguese Island population. Am J Med Genet B Neuropsychiatr Genet, 159B(4), 383-91, 2012 PMCID:3303704

Flynn, C, Zheng, S, Yan, L, Hedges, L, Womack, B, Fessel, J, Cogan, J, Austin, E, Loyd, J, West, J, Zhao, Z, Hamid, R. Connectivity Map Analysis of Nonsense-Mediated Decay-Positive BMPR2-Related Hereditary Pulmonary Arterial Hypertension Provides Insights into Disease Penetrance. Am J Respir Cell Mol Biol, 47(1), 20-7, 2012 PMCID:3287497

Garcia, CB, Shaffer, CM, Alfaro, MP, Smith, AL, Sun, J, Zhao, Z, Young, PP, VanSaun, MN, Eid, JE. Reprogramming of mesenchymal stem cells by the synovial sarcoma-associated oncogene SYT-SSX2. Oncogene, 31(18), 2323-34, 2012 PMCID:3243134

Jia, P, Li, F, Xia, J, Chen, H, Ji, H, Pao, W, Zhao, Z. Consensus rules in variant detection from next-generation sequencing data. PLoS One, 7(6), e38470, 2012 PMCID:3371040

Jia, P, Wang, L, Fanous, AH, Chen, X, Kendler, KS, , , Zhao, Z. A bias-reducing pathway enrichment analysis of genome-wide association data confirmed association of the MHC region with schizophrenia. J Med Genet, 49(2), 96-103, 2012 PMCID:3243134

Jia, P, Wang, L, Fanous, AH, Pato, CN, Edwards, TL, , , Zhao, Z. Network-Assisted Investigation of Combined Causal Signals from Genome-Wide Association Studies in Schizophrenia. PLoS Comput Biol, 8(7), e1002587, 2012 PMCID:3390381

Jia, P, Zhao, Z. Personalized pathway enrichment map of putative cancer genes from next generation sequencing data. PLoS One, 7(5), e37595, 2012 PMCID:3356304

Kao, CF, Jia, P, Zhao, Z, Kuo, PH. Enriched pathways for major depressive disorder identified from a genome-wide association study. Int J Neuropsychopharmacol, 1-11, 2012 PMCID:3287497

Liu, M, Wu, Y, Chen, Y, Sun, J, Zhao, Z, Chen, XW, Matheny, ME, Xu, H. Large-scale prediction of adverse drug reactions using chemical, biological, and phenotypic properties of drugs. J Am Med Inform Assoc, 19(e1), e28-e35, 2012 PMCID:3392844

Liu, Y, Koyut??rk, M, Maxwell, S, Zhao, Z, Chance, MR. Integrative analysis of common neurodegenerative diseases using gene association, interaction networks and mRNA expression data. AMIA Summits Transl Sci Proc, 2012, 62-71, 2012 PMCID:3392058

Sun J, Wu Y, Xu H, Zhao Z. DTome: a web-based tool for drug-target interactome construction. BMC Bioinformatics, 13, S7, 2012

Sun, J, Gong, X, Purow, B, Zhao, Z. Uncovering MicroRNA and Transcription Factor Mediated Regulatory Networks in Glioblastoma. PLoS Comput Biol, 8(7), e1002488, 2012 PMCID:3400583

Sun, J, Jayathilake, K, Zhao, Z, Meltzer, HY. Investigating association of four gene regions (GABRB3, MAOB, PAH, and SLC6A4) with five symptoms in schizophrenia. Psychiatry Res, 2012 PMCID:3299802

Sun, J, Xu, H, Zhao, Z. Network-assisted investigation of antipsychotic drugs and their targets. Chem Biodivers, 9(5), 900-10, 2012 PMCID:3356304

Sun, Y, Zheng, S, Torossian, A, Speirs, CK, Schleicher, S, Giacalone, NJ, Carbone, DP, Zhao, Z, Lu, B. Role of insulin-like growth factor-1 signaling pathway in cisplatin-resistant lung cancer cells. Int J Radiat Oncol Biol Phys, 82(3), e563-72, 2012 PMCID:3287497

Wang Q, Xia J, Jia P, Pao W, Zhao Z. Application of next generation sequencing to human gene fusion detection: computational tools, features and perspectives. Briefings in Bioinformatics, in press, 2012

Webb, BT, Guo, AY, Maher, BS, Zhao, Z, van den Oord, EJ, Kendler, KS, Riley, BP, Gillespie, NA, Prescott, CA, Middeldorp, CM, Willemsen, G, de Geus, EJ, Hottenga, JJ, Boomsma, DI, Slagboom, EP, Wray, NR, Montgomery, GW, Martin, NG, Wright, MJ, Heath, AC, Madden, PA, Gelernter, J, Knowles, JA, Hamilton, SP, Weissman, MM, Fyer, AJ, Huezo-Diaz, P, McGuffin, P, Farmer, A, Craig, IW, Lewis, C, Sham, P, Crowe, RR, Flint, J, Hettema, JM. Meta-analyses of genome-wide linkage scans of anxiety-related phenotypes. Eur J Hum Genet, 2012 PMCID:3303704

Wu, Y, Liu, M, Zheng, WJ, Zhao, Z, Xu, H. Ranking gene-drug relationships in biomedical literature using latent dirichlet allocation. Pac Symp Biocomput, 422-33, 2012 PMCID:3243134

Xia, J, Wang, Q, Jia, P, Wang, B, Pao, W, Zhao, Z. NGS catalog: A database of next generation sequencing studies in humans. Hum Mutat, 33(6), E2341-55, 2012 PMCID:3356304

Zhao, Z, Kier, LB, Buck, GA. Systems biology: molecular networks and disease. Chem Biodivers, 9(5), 841-7, 2012 PMCID:3356304

Zheng, S, Zhao, Z. GenRev: exploring functional relevance of genes in molecular networks. Genomics, 99(3), 183-8, 2012 PMCID:3287497

Zheng, S, Zhao, Z. DNA methylation profiling distinguishes three clusters of breast cancer cell lines. Chem Biodivers, 9(5), 848-56, 2012 PMCID:3356304

Adkins DE, Aberg K, McClay JL, Bukszar J, Zhao Z, Jia P, Stroup ST, Perkins D, McEvoy JP, Lieberman JA, Sullivan PF, van den Oord E. Genomewide pharmacogenomic study of metabolic side effects to antipsychotic drugs. Molecular Psychiatry, 16 (3), 321-332, 2011

Beeghly-Fadiel, A, Shu, XO, Lu, W, Long, J, Cai, Q, Xiang, YB, Zheng, Y, Zhao, Z, Gu, K, Gao, YT, Zheng, W. Genetic variation in VEGF family genes and breast cancer risk: a report from the Shanghai Breast Cancer Genetics Study. Cancer Epidemiol Biomarkers Prev, 20(1), 33-41, 2011 PMCID:2999350

Bigdeli, TB, Maher, BS, Zhao, Z, Oord, EJ, Thiselton, DL, Sun, J, Webb, BT, Amdur, RL, Wormley, B, O''Neill, FA, Walsh, D, Riley, BP, Kendler, KS, Fanous, AH. Comprehensive gene-based association study of a chromosome 20 linked region implicates novel risk loci for depressive symptoms in psychotic illness. PLoS One, 6(12), e21440, 2011 PMCID:3248394

Gordy, LE, Bezbradica, JS, Flyak, AI, Spencer, CT, Dunkle, A, Sun, J, Stanic, AK, Boothby, MR, He, YW, Zhao, Z, Van Kaer, L, Joyce, S. IL-15 regulates homeostasis and terminal maturation of NKT cells. J Immunol, 187(12), 6335-45, 2011 PMCID:3243134

Jia P, Kao CF, Kuo PH, Zhao Z. A comprehensive network and pathway analysis of candidate genes in major depressive disorder. BMC Systems Biology , 5, S12, 2011

Jia, P, Kao, CF, Kuo, PH, Zhao, Z. A comprehensive network and pathway analysis of candidate genes in major depressive disorder. BMC Syst Biol, 5 Suppl 3, S12, 2011 PMCID:3287567

Jia, P, Tian, J, Zhao, Z. Assessing gene length biases in gene set analysis of Genome-Wide Association Studies. Int J Comput Biol Drug Des, 3(4), 297-310, 2011

Jia, P, Zheng, S, Long, J, Zheng, W, Zhao, Z. dmGWAS: dense module searching for genome-wide association studies in protein-protein interaction networks. Bioinformatics, 27(1), 95-102, 2011 PMCID:2999350

Putnam, DK, Sun, J, Zhao, Z. Exploring schizophrenia drug-gene interactions through molecular network and pathway modeling. AMIA Annu Symp Proc, 2011, 1127-33, 2011 PMCID:3243134

Su, Z, Han, L, Zhao, Z. Conservation and divergence of DNA methylation in eukaryotes: New insights from single base-resolution DNA methylomes. Epigenetics, 6(2), 2011 PMCID:2999350

Su, Z, Xia, J, Zhao, Z. Functional complementation between transcriptional methylation regulation and post-transcriptional microRNA regulation in the human genome. BMC Genomics, 12 Suppl 5, S15, 2011 PMCID:3287497

Sun, J, Wan, C, Jia, P, Fanous, AH, Kendler, KS, Riley, BP, Zhao, Z. Application of systems biology approach identifies and validates GRB2 as a risk gene for schizophrenia in the Irish Case Control Study of Schizophrenia (ICCSS) sample. Schizophr Res, 125(2-3), 201-8, 2011

Wang, L, Jia, P, Wolfinger, RD, Chen, X, Grayson, BL, Aune, TM, Zhao, Z. An efficient hierarchical generalized linear mixed model for pathway analysis of genome-wide association studies. Bioinformatics, 2011

Zhao, Z, Xia, J, Tastan, O, Singh, I, Kshirsagar, M, Carbonell, J, Klein-Seetharaman, J. Virus interactions with human signal transduction pathways. Int J Comput Biol Drug Des, 4(1), 83-105, 2011

Zheng, S, Tansey, WP, Hiebert, SW, Zhao, Z. Integrative network analysis identifies key genes and pathways in the progression of hepatitis C virus induced hepatocellular carcinoma. BMC Med Genomics, 4, 62, 2011 PMCID:3212927

Archer, KJ, Zhao, Z, Guennel, T, Maluf, DG, Fisher, RA, Mas, VR. Identifying genes progressively silenced in preneoplastic and neoplastic liver tissues. Int J Comput Biol Drug Des, 3(1), 52-67, 2010 PMCID:2999350

Bhaskara, S, Knutson, SK, Jiang, G, Chandrasekharan, MB, Wilson, AJ, Zheng, S, Yenamandra, A, Locke, K, Yuan, JL, Bonine-Summers, AR, Wells, CE, Kaiser, JF, Washington, MK, Zhao, Z, Wagner, FF, Sun, ZW, Xia, F, Holson, EB, Khabele, D, Hiebert, SW. Hdac3 is essential for the maintenance of chromatin structure and genome stability. Cancer Cell, 18(5), 436-47, 2010 PMCID:2999350

Chmielecki, J, Peifer, M, Jia, P, Socci, ND, Hutchinson, K, Viale, A, Zhao, Z, Thomas, RK, Pao, W. Targeted next-generation sequencing of DNA regions proximal to a conserved GXGXXG signaling motif enables systematic discovery of tyrosine kinase fusions in cancer. Nucleic Acids Res, 38(20), 6985-96, 2010 PMCID:2978357

Guo, AY, Sun, J, Jia, P, Zhao, Z. Network analysis of EtOH-related candidate genes. Chem Biodivers, 7(5), 1142-52, 2010

Guo, AY, Sun, J, Jia, P, Zhao, Z. A novel microRNA and transcription factor mediated regulatory network in schizophrenia. BMC Syst Biol, 4, 10, 2010 PMCID:2834616

Huang, HC, Zheng, S, VanBuren, V, Zhao, Z. Discovering disease-specific biomarker genes for cancer diagnosis and prognosis. Technol Cancer Res Treat, 9(3), 219-30, 2010

Jia, P, Sun, J, Guo, AY, Zhao, Z. SZGR: a comprehensive schizophrenia gene resource. Mol Psychiatry, 15(5), 453-62, 2010

Jia, P, Wang, L, Meltzer, HY, Zhao, Z. Pathway-based analysis of GWAS datasets: effective but caution required. Int J Neuropsychopharmacol, 1-6, 2010

Jia, P, Wang, L, Meltzer, HY, Zhao, Z. Common variants conferring risk of schizophrenia: a pathway analysis of GWAS data. Schizophr Res, 122(1-3), 38-42, 2010 PMCID:2999350

Kalsi G, Kuo PH, Aliev F, Alexander J, McMichael O, Patterson DG, Walsh D, Zhao Z, Schuckit M, Nurnberger J, Edenberg H, Kramer J, Vladimirov V, Prescott CA, Dick DM, Kendler KS, Riley BR . A systematic gene-based screen of Chr4q22-q32 identifies associate of a novel susceptibility gene, DKK2, with the quantitative trait of alcohol dependence symptom counts. Hum Mol Genet, 19(12), 2497-2506, 2010

Sun, J, Jia, P, Fanous, AH, van den Oord, E, Chen, X, Riley, BP, Amdur, RL, Kendler, KS, Zhao, Z. Schizophrenia gene networks and pathways and their applications for novel candidate gene selection. PLoS One, 5(6), e11351, 2010 PMCID:2894047

Sun, J, Zhao, Z. Functional features, biological pathways, and protein interaction networks of addiction-related genes. Chem Biodivers, 7(5), 1153-62, 2010

Sun, J, Zhao, Z. A comparative study of cancer proteins in the human protein-protein interaction network. BMC Genomics, 11 Suppl 3, S5, 2010 PMCID:2999350

Zhang, M, Zhao, Z, He, L, Wan, C. A meta-analysis of oxidative stress markers in schizophrenia. Sci China Life Sci, 53(1), 112-24, 2010 PMCID:2894047

Zhao, Z, Jiang, C. Features of recent codon evolution: a comparative polymorphism-fixation study. J Biomed Biotechnol, 2010, 202918, 2010 PMCID:2896653

Zhao, Z, Kier, LB, Buck, GA. Systems biology in the microbial world and beyond. Chem Biodivers, 7(5), 1019-25, 2010 PMCID:2935470

Chen, X, Sun, C, Chen, Q, O''Neill, FA, Walsh, D, Fanous, AH, Chowdari, KV, Nimgaonkar, VL, Scott, A, Schwab, SG, Wildenauer, DB, Che, R, Tang, W, Shi, Y, He, L, Luo, XJ, Su, B, Edwards, TL, Zhao, Z, Kendler, KS. Apoptotic engulfment pathway and schizophrenia. PLoS One, 4(9), e6875, 2009 PMCID:2731162

Clarke, RA, Zhao, Z, Guo, AY, Roper, K, Teng, L, Fang, ZM, Samaratunga, H, Lavin, MF, Gardiner, RA. New genomic structure for prostate cancer specific gene PCA3 within BMCC1: implications for prostate cancer detection and progression. PLoS One, 4(3), e4995, 2009 PMCID:2655648

Guo, AY, Sun, J, Riley, BP, Thiselton, DL, Kendler, KS, Zhao, Z. The dystrobrevin-binding protein 1 gene: features and networks. Mol Psychiatry, 14(1), 18-29, 2009 PMCID:2859304

Guo, AY, Webb, BT, Miles, MF, Zimmerman, MP, Kendler, KS, Zhao, Z. ERGR: An ethanol-related gene resource. Nucleic Acids Res, 37(Database issue), D840-5, 2009 PMCID:2686553

Han, L, Zhao, Z. Contrast features of CpG islands in the promoter and other regions in the dog genome. Genomics, 94(2), 117-24, 2009

Han, L, Zhao, Z. CpG islands or CpG clusters: how to identify functional GC-rich regions in a genome. BMC Bioinformatics, 10, 65, 2009 PMCID:2652441

Riley, B, Kuo, PH, Maher, BS, Fanous, AH, Sun, J, Wormley, B, O''Neill, FA, Walsh, D, Zhao, Z, Kendler, KS. The dystrobrevin binding protein 1 (DTNBP1) gene is associated with schizophrenia in the Irish Case Control Study of Schizophrenia (ICCSS) sample. Schizophr Res, 2009

Sun, J, Jia, P, Fanous, AH, Webb, BT, van den Oord, EJ, Chen, X, Bukszar, J, Kendler, KS, Zhao, Z. A multi-dimensional evidence-based candidate gene prioritization approach for complex diseases-schizophrenia as a case. Bioinformatics, 25(19), 2595-6602, 2009

Zhao Z, Khan F, Borker M, Herrera R, Agrawal S. Presence of three different paternal lineages among North Indians: A study of 560 Y chromosomes. Annals Hum Biol, 36(1), 46-59, 2009

Zhao, Z, Han, L. CpG islands: algorithms and applications in methylation studies. Biochem Biophys Res Commun, 382(4), 643-5, 2009

Han, L, Su, B, Li, WH, Zhao, Z. CpG island density and its correlations with genomic features in mammalian genomes. Genome Biol, 9(5), R79, 2008 PMCID:2441465

Han, L, Zhao, Z. Comparative analysis of CpG islands in four fish genomes. Comp Funct Genomics, 565631, 2008 PMCID:2375969

Luo, XJ, Diao, HB, Wang, JK, Zhang, H, Zhao, ZM, Su, B. Association of haplotypes spanning PDZ-GEF2, LOC728637 and ACSL6 with schizophrenia in Han Chinese. J Med Genet, 45(12), 818-26, 2008

Sun, J, Han, L, Zhao, Z. Gene- and evidence-based candidate gene selection for schizophrenia and gene feature analysis. Artif Intell Med, 48(2-3), 99-106, 2008 PMCID:2834616

Sun, J, Kuo, PH, Riley, BP, Kendler, KS, Zhao, Z. Candidate genes for schizophrenia: a survey of association studies and gene ranking. Am J Med Genet B Neuropsychiatr Genet, 147B(7), 1173-81, 2008

Tassabehji, M, Fang, ZM, Hilton, EN, McGaughran, J, Zhao, Z, de Bock, CE, Howard, E, Malass, M, Donnai, D, Diwan, A, Manson, FD, Murrell, D, Clarke, RA. Mutations in GDF6 are associated with vertebral segmentation defects in Klippel-Feil syndrome. Hum Mutat, 29(8), 1017-27, 2008

Yu, QB, Li, G, Wang, G, Sun, JC, Wang, PC, Wang, C, Mi, HL, Ma, WM, Cui, J, Cui, YL, Chong, K, Li, YX, Li, YH, Zhao, Z, Shi, TL, Yang, ZN. Construction of a chloroplast protein interaction network and functional mining of photosynthetic proteins in Arabidopsis thaliana. Cell Res, 18(10), 1007-19, 2008

Zhao, Z, Khan, F, Borkar, M, Herrera, R, Agrawal, S. Presence of three different paternal lineages among North Indians: a study of 560 Y chromosomes. Ann Hum Biol, 36(1), 46-59, 2008 PMCID:2755252

Jiang, C, Han, L, Su, B, Li, WH, Zhao, Z. Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes. Mol Biol Evol, 24(9), 1991-2000, 2007

Sun, J, Li, Y, Zhao, Z. Phylogenetic profiles for the prediction of protein-protein interactions: how to select reference organisms. Biochem Biophys Res Commun, 353(4), 985-91, 2007

Sun, J, Sun, Y, Ding, G, Liu, Q, Wang, C, He, Y, Shi, T, Li, Y, Zhao, Z. InPrePPI: an integrated evaluation method based on genomic context for predicting protein-protein interactions in prokaryotic genomes. BMC Bioinformatics, 8, 414, 2007 PMCID:2238723

Sun, J, Zhao, Z. Construction of phylogenetic profiles based on the genetic distance of hundreds of genomes. Biochem Biophys Res Commun, 355(3), 849-53, 2007

Zhao, Z, Jiang, C. Methylation-dependent transition rates are dependent on local sequence lengths and genomic regions. Mol Biol Evol, 24(1), 23-5, 2007

Citovsky, V, Lee, LY, Vyas, S, Glick, E, Chen, MH, Vainstein, A, Gafni, Y, Gelvin, SB, Tzfira, T. Subcellular localization of interacting proteins by bimolecular fluorescence complementation in planta. J Mol Biol, 362(5), 1120-31, 2006

Jiang, C, Zhao, Z. Directionality of point mutation and 5-methylcytosine deamination rates in the chimpanzee genome. BMC Genomics, 7, 316, 2006 PMCID:1764022

Jiang, C, Zhao, Z. Mutational spectrum in the recent human genome inferred by single nucleotide polymorphisms. Genomics, 88(5), 527-34, 2006

Seo, D, Jiang, C, Zhao, Z. A novel statistical method to estimate the effective SNP size in vertebrate genomes and categorized genomic regions. BMC Genomics, 7, 329, 2006 PMCID:1769377

Zhao, Z, Yu, N, Fu, YX, Li, WH. Nucleotide variation and haplotype diversity in a 10-kb noncoding region in three continental human populations. Genetics, 174(1), 399-409, 2006 PMCID:1569808

Zhao, Z, Zhang, F. Sequence context analysis of 8.2 million single nucleotide polymorphisms in the human genome. Gene, 366(2), 316-24, 2006

Zhao, Z, Zhang, F. Sequence context analysis in the mouse genome: single nucleotide polymorphisms and CpG island sequences. Genomics, 87(1), 68-74, 2006

Yang, S, Liu, Y, Lin, AA, Cavalli-Sforza, LL, Zhao, Z, Su, B. Adaptive evolution of MRGX2, a human sensory neuron specific gene involved in nociception. Gene, 352, 30-5, 2005

Zhang, F, Zhao, Z. SNPNB: analyzing neighboring-nucleotide biases on single nucleotide polymorphisms (SNPs). Bioinformatics, 21(10), 2517-9, 2005

Zhang, F, Zhao, Z. The influence of neighboring-nucleotide composition on single nucleotide polymorphisms (SNPs) in the mouse genome and its comparison with human SNPs. Genomics, 84(5), 785-95, 2004

Zhao, Z, Li, H, Wu, X, Zhong, Y, Zhang, K, Zhang, YP, Boerwinkle, E, Fu, YX. Moderate mutation rate in the SARS coronavirus genome and its implications. BMC Evol Biol, 4, 21, 2004 PMCID:446188

Mijit, G, Zayadan, BK, Rahman, E, Chunaev, AS. [Analysis of dominant-recessive mutated character of nfr genes of Chlamydomonas reinhardtii and its mutual interaction with the chloroplastic psbA gene]. Yi Chuan Xue Bao, 30(7), 646-52, 2003

Zhao, Z, Fu, YX, Hewett-Emmett, D, Boerwinkle, E. Investigating single nucleotide polymorphism (SNP) density in the human genome and its implications for molecular evolution. Gene, 312, 207-13, 2003

Zhao, Z, Boerwinkle, E. Neighboring-nucleotide effects on single nucleotide polymorphisms: a study of 2.6 million polymorphisms across the human genome. Genome Res, 12(11), 1679-86, 2002 PMCID:187558

Yu N, Zhao Z, Fu Y-X, Sambuughin N, Ramsay M, Jenkins T, Leskinen E, Patthy L, Jorde LB, Kuromori T, Li W-H. Global patterns of human DNA sequence variation in a 10-kb region on chromosome 1. Molecular Biology and Evolution , 18(2), 214-222, 2001

Zhao Z, Jin L, Fu Y-X, Ramsay M, Jenkins T, Leskinen E, Pamilo P, Trexler M, Patthy L, Jorde LB, Ramos-Onsins S, Yu N, Li W-H. Worldwide DNA sequence variation in a 10 kb noncoding region on human chromosome 22. Proc. Natl. Acad. Sci. USA, 97(21), 11354-11358, 2000


Postdoctoral Position Available
Yes

Postdoctoral Position Details
Postdoctoral Fellow in Bioinformatics
Department of Biomedical Informatics, Vanderbilt University Medical Center

A postdoctoral position is available in Dr. Zhongming Zhao''s Bioinformatics and Systems Biology Laboratory (BSBL, http://bioinfo.mc.vanderbilt.edu/) at Vanderbilt University Medical Center. The successful candidate is expected to join an established bioinformatics team, which is currently comprised of 9 members, including a research instructor, several postdocs in bioinformatics, a bioinformatics engineer, a student, and a program coordinator. The ongoing projects in our group use data generated from platforms such as next generation sequencing (Illumina, 454, SOLiD) and microarrays (gene expression, GWAS, microRNA, CNVs, and methylation) to study cancer, neuropsychiatric disorders, or other complex diseases using bioinformatics and systems biology approaches. Integrative genomics approaches are often applied. Funding is available to support this position for up to three years. Salary is based on NIH standard. The candidate will have the opportunity to access many high throughput datasets and to interact with the investigators in Vanderbilt Medical Center.

Vanderbilt''s Department of Biomedical Informatics is the largest academic department of biomedical informatics in the country, with more than 68 faculty members, a graduate training program, and a portfolio of research and development projects that spans from computational biology and bioinformatics applied to the understanding of biological molecules, through advanced clinical information systems that care for hundreds of thousands of patients at Vanderbilt, to regional health information projects that span many states. More information about the department can be found at http://dbmi.mc.vanderbilt.edu/ .

The qualified candidates should be highly motivated in research and have a Ph.D. in bioinformatics, computational biology, molecular biology, or related field upon the job start date. The successful candidate should have some experience in analyzing high-throughput genomic data and proved skills in at least one programming language (Perl, Java, or C/C++). Good understanding of molecular biology and familiarity with biostatistics are desirable. For more information, please visit our web site http://bioinfo.mc.vanderbilt.edu/ .

Applicants should send a CV, brief statement of research interests, and reference to:
Zhongming Zhao (zhongming.zhao@vanderbilt.edu)
Chief Bioinformatics Officer, Vanderbilt-Ingram Cancer Center

Updated Date
07/31/2012