"Out of clutter, find simplicity. From discord, find harmony. "
- Albert Einstein

Dongliang Ge, PhD

Assistant Research Professor, Institute for Genome Sciences & Policy, Duke University
Assistant Professor of Biostatistics & Bioinformatics, Track V, Department of Biostatistics and Bioinformatics, Duke University School of Medicine

Research Interests

My main interest is in biostatistical and bioinformatical research for dissecting genetic contributors to human complex traits and their interactions.

I focus on

• Biostatistical and bioinformatical software development
• Rare genetic variant annotation and analysis; copy number variation annotation and analysis;
• Large-scale biostatistical computation; parallel statistical computation;
• Meta-analysis; genomic, transcriptomic, and protemic analysis and annotations; -omics databases integration and application.

And the applications of these methods in

• Whole genome sequencing study (next-gen sequencing study) [wikipedia]
• Genome-wide association study [wikipedia] [Academic review]

Software

• New! SequenceVariantAnalyzer (SVA)
• WGAViewer (described in: Genome Res . 2008;18(4):640-3. )
• SNPExpress (described in: PLoS Biol . 2008; 6(12): e1000001.)
• MetaP, a program to combine P values

Selected recent publications

• Thomas R, Apps R, Qi Y, Gao X, Male V, O'Huigin C, O'Connor G, Ge D, Fellay J, Martin JN, Margolick J, Goedert JJ, Buchbinder S, Kirk GD, Martin MP, Telenti A, Deeks SG, Walker BD, Goldstein D, McVicar DW, Moffett A, Carrington M. HLA-C cell surface expression and control of HIV/AIDS correlate with a variant upstream of HLA-C. Nature Genetics; online publication Nov 22 2009.
• Ge D* , Fellay J * , Thompson AJ * , Simon JS * , Shianna KV, Urban TJ, Heinzen EL, Qiu P, Bertelsen AH, Muir AJ, Sulkowski M, McHutchison JG, Goldstein DB. Genetic variation in IL28B predicts hepatitis C treatment-induced viral clearance. Nature 2009:461, 399-401; online publication Aug 16 2009. (* Equal authors)
  • Commented in: Nature News & Views: Iadonato SP, Katze MG. Genomics: Hepatitis C virus gets personal. Nature 2009; 461 (357-358). [Editor's summary]
  • Replications:
• Replication 1 (in Europeans): Suppiah V, Moldovan M, Ahlenstiel G, et al. IL28B is associated with response to chronic hepatitis C interferon-alpha and ribavirin therapy. Nature Genetics online publication Sep 13 2009.
• Replication 2 (in Asians): Tanaka Y, Nishida N, Sugiyama M, et al. Genome-wide association of IL28B with response to pegylated interferon-alpha and ribavirin therapy for chronic hepatitis C. Nature Genetics online publication Sep 13 2009.
• Thomas DL, Thio CL, Martin MP, Qi Y, Ge D, O'hUigin C, Kidd J, Kidd K, Khakoo SI, Alexander G, Goedert JJ, Kirk GD, Donfield SM, Rosen HR, Tobler LH, Busch MP, McHutchison JG, Goldstein DB, Carrington M. Genetic variation in IL28B and spontaneous clearance of hepatitis C virus. Nature online publication Sep 16 2009.
• Stefansson H et al. Common variants conferring risk of schizophrenia. Nature 2009.
• Need AC *, Ge D * , Maia J, Shianna KV, Feng S, Strittmatter WJ, McEvoy JP, Keefe RSE, St Jean PL, Giegling I, Hartmann AM, M?ller H, Ruppert A, Fraser G, Crombie C, Francks C, St.Clair D, Roses AD, Muglia P, Rujescu D, Goldstein DB. A Genome-Wide Investigation of SNPs and CNVs in Schizophrenia. PLoS Genet . 2009; 5(2):e1000373.(* Equal authors)
• Pillai SG, Ge D *, Zhu G*, Kong X*, Shianna KV, Need AC, S. F, Hersh CP, Bakkgators, Rennard SI, Lomas D, Silverman EK, Goldstein DB. A Genome-wide Association Study in Chronic Obstructive Pulmonary Disease (COPD): Identification of two Major Susceptibility Loci. PLoS Genet . 2009; 5(3): e1000421. doi:10.1371/journal.pgen.1000421 (* Equal authors)
• Stefansson H et al. Large recurrent microdeletions associated with schizophrenia. Nature . 2008;455(7210):232-6.
• Ge D , Zhang K, Need AC, Martin O, Fellay J, Urban TJ, Telenti A, Goldstein DB. WGAViewer: Software for genomic annotation of whole genome association studies. Genome Res . 2008;18(4):640-3.
• Heinzen E *, Ge D *, Cronin KD, Maia J, Shianna KV, Gabriel W, Welsh-Bohmer KA, Hulette CM, Denny T, Goldstein DB. Tissue specific genetic control of gene expression and alternative splicing: Implications for the study of human complex traits. PLoS Biol . 2008; 6(12): e1000001. (* Equal authors)
• Fellay J, Shianna KV *, Ge D *, Colombo S *, Ledergerber B *, Weale M *, Zhang K, Gumbs C, Castagna A, Cossarizza A, Cozzi-Lepri A, De Luca A, Easterbrook P, Francioli P, Mallal S, Martinez-Picado J, Miro JM, Obel N, Smith JP, Wyniger J, Descombes P, Antonarakis SE, Letvin NL, McMichael AJ, Haynes BF, Telenti A, Goldstein DB. A whole-genome association study of major determinants for host control of HIV-1. Science . 2007;317(5840):944-7. (* Equal authors)

• Here is a full list of my peer-reviewed publications.
  

A workshop on Genome-Wide Association Studies (GWAS) and the related booklet

• Workshop: A Practical Guide to Genome-Wide Association Studies
  • >> Here is the workshop booklet.

Contact infomation:

Dongliang Ge, PhD
Assistant Research Professor
Duke Institute for Genome Sciences & Policy
Center for Human Genome Variation
450 Research Drive, Box 91009, LSRC B Wing, Room 330B
Durham, NC 27708
Phone-919-668-1428
Email: d.ge@duke.edu

Institute homepage

For more information visit my institute homepage: http://genome.duke.edu/people/faculty/ge/