个人简介

Ph.D. (Doctor of Philosophy)

研究领域

Genomics Proteomics and Bioinformatics

The high-throughput sequencing has dramatically reduced the cost of sequencing from $2.7 billion (in the Human Genome Project in 2003) to a few thousand dollars now; therefore it is widely believed that the fields of genetics, agriculture, and medicine will be revolutionized. On the path to achieve this exciting goal, there are many challenges. We have been working on the field focusing three fundamental questions: (1) How to discover genomic variants from the massive data and effectively store and analyze them using state-of-the-art computational techniques. (2) How to carry out statistical inference despite of the uncertainty brought by the sequencing and alignment errors. (3) How to identify associations between causal genes and the relevant phenotype in the presence of many confounding factors as well as gene-gene interactions using data mining models. Currently, we are using genomics for cancer driver genes discovery and risk predictions. We also develop computational tools tailored to different cancer genomes.

近期论文

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Zhang Q, Tyler-Smith C, Long Q (2015). “An extended Tajima’s D neutrality test incorporating SNP calling and imputation uncertainties”. Statistics and Its Interface. 2015, vol.8(4), 447-456. Zhang Q, Long Q, Ott J (2014). “AprioriGWAS, a new pattern mining strategy for detecting genetic variants associated with disease through interaction effects”. PLoS Computational Biology, Jun 5; 10(6) Long Q*, Zhang Q*, Vilhjalmsson BJ, Forai P, Seren Ü, Nordborg M (2013). “JAWAMix5: an out-of-core HDF5-based java implementation of whole-genome association studies using mixed models”. Bioinformatics 2013 March. (Co-first author) Zhang Q, Ott J. (2010) “Multiple Comparisons/Testing Issues”. In: Lin S, Zhao H, editors. Handbook on Analyzing Human Genetic Data: Computational Approaches and Software. Springer Zhang Q, Wang S and Ott J. (2008) “Combining identity by descent and association in genetic case-control studies”. BMC Genetics , 9:42 Long Q, Rabanal FA, Meng D, Huber CD, Farlow A, Platzer A, Zhang Q, Vilhjálmsson BJ, Korte A, Nizhynska V, Voronin V, Korte P, Sedman L, Mandáková T, Lysak MA, Seren U, Hellmann I, Nordborg M (2013). “Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden”. Nature Genetics, 45(8): 884-90. Zhang, Q as one of the listed participants of the International HapMap 3 Consortium. (2010) “Integrating common and rare genetic variation in diverse human populations”. Nature 467(7311): 52-8. Zhang, Q as one of the listed participants of the Type 1 Diabetes Genetics Consortium (T1DGC). (2010) “Designing and implementing sample and data collection for an international genetics study: the Type 1 Diabetes Genetics Consortium (T1DGC)”. Clin Trials 7(1 Suppl): S5-S32. Zhang, Q as one of the listed participants of the Type I Diabetes Genetics Consortium (T1DGC). (2009) “Genome-wide association study and meta-analysis find that over 40 loci affect risk of type I diabetes”. Nature Genetics 41(6): 703-7. Sun T, Gao Y, Tan W, Ma S, Shi Y, Yao J, Guo Y, Yang M, Zhang X, Zhang Q, Zeng C & Lin D. (2007) “A six-nucleotide insertion-deletion polymorphism in the CASP8 promoter is associated with susceptibility to multiple cancers”. Nature Genetics 39: 605-613 Zhang, Q as one of the listed participants of the International HapMap Consortium. (2007) “Genome-wide detection and characterization of positive selection in human populations”. Nature 449(7164):913-8. Zhang, Q as one of the listed participants of the International HapMap Consortium. (2007) “A second generation human haplotype map of over 3.1 million SNPs”. Nature 449(7164): 851-61. Sun T, Gao Y, Tan W, Ma S, Zhang X, Wang Y, Zhang Q, Guo Y, Zhao D, Zeng C, Lin D. (2006) “Haplotypes in matrix metalloproteinase gene cluster on chromosome 11q22 contribute to the risk of lung cancer development and progression”. Clin Cancer Res 12: 7009-7017 Zhang, Q as one of the listed participants of the International HapMap Consortium. (2005) “A Haplotype Map of the Human Genome”. Nature 437: 1299-1320 Zhang, Q as one of the listed participants of the International HapMap Consortium. (2004) “Integrating ethics and science in the International HapMap project”. Nature Reviews Genetics 4:467-475 Zhang, Q as one of the listed participants of the International HapMap Consortium. (2003) “The International HapMap project”. Nature 426: 789-796