Welcome to Xin Gao's homepage


Associate Professor
Department of Mathematics and Statistics
York University, Toronto

Contact information:
tel:416-736-2100 ext 66097

Research Interests:

My research interests include statistical genetics, bioinformatics, biostatistics, nonparametrics, large sample theory, and statistical computing. I am especially interested in research which will allow me to develop statistical methodologies for biological data analysis, including genetic mapping, microarray data analysis, proteomic data analysis, construction of gene regulatory networks, etc.

Current Research topics: Nonparametric methods, Model selection, Graphical Model, Composite likelihood Inference, network analysis.

Recent publications:

Gao, X., Pu, Q.,  Wu, Y. and Xu, H. (2011) Model Selection in Gaussian Graphical Model

            with the Smoothly Clipped Absolute Deviation Penalty, Statistica Sinica, in press.


Gao, X. and Song, P. (2011) Composite Likelihood EM Algorithm with Applications to Multivariate Hidden Markov Model. Statistica Sinica, 21, 165-186.


Satyendra Chandra Tripathi1, Jatinder Kaur1, Ajay Matta2, Xin Gao3, Bin Sun3,

Shyam Singh Chauhan1, Alok Thakar4, Nootan Kumar Shukla5, Ritu Duggal6,

Ajoy Roy Choudhary6, Siddhartha DattaGupta7, Mehar Chand Sharma7, Ranju Ralhan2,8,9,10,* and KW Michael Siu2,* Loss of DLC1 is an independent prognostic factor in patients with oral squamous cell carcinoma. Modern pathology, 2011, 1-12.


Feng, Z., Wong, W., Gao, X. and Schenkel, F. (2011) Generalized genetic association

study with correlated population,  Annals of Applied Statistics, in press.

Gao, X. and Song, P. (2010) Composite likelihood Bayesian information criteria for model selection in
high-dimensional data", Journal of American Statistical Association,
105, 1531-1540.

Gao, X., Lin, L., and Huang, Y. (2009) Application of Model Selection Technique in Chemogenomic Data Analysis. Statistical Analysis and Data Mining, V2(3) 147-208.

Gao, X., Song, P., and Pu, Q. (2009) Transition Dependency: A Gene-Gene Interaction

Measure for Times Series Microarray Data. EURASIP Journal of Bioinformatics

and System Biology, Volume 2009, Article ID 535869.


Pham, A. N., Wang, J., Fang, J., Gao, X., Zhang, Y., Blower, P. E., Sade, W.,

Huang, Y. (2009) Pharmacogenomics approach reveals MRP1 (ABCC1) - mediated

resistance to geldanamycins. Pharmaceutical Research, 26(4):936-45.


Gao, X., Xu, H. and Ye, D. (2009) Asymptotic Behaviors of Tail Density for Sum of

Correlated Lognormal Variables. International Journal of Mathematics and Mathematical

Sciences, in press.

Gao, X., Alvo, M., Chen, J. and Li, G (2008) Nonparametric Multiple Comparison Procedures For Unbalanced One-Way Factorial Designs. Journal of Statistical Planning and Inference. Vol 138, 2574-2591.

Gao, X., Alvo, M. (2008) Nonparametric Multiple Comparison Procedures For Unbalanced two-Way Factorial Designs. Journal of Statistical Planning and Inference. Vol 138, pp. 3674-3686.

Szczecinski, L., Xu, H., Gao, X. and Bettancourt, R. (2007). Efficient evaluation of BER for arbitrary modulation and signaling in fading channels. IEEE Transactions on Communications. vol. 55, no. 11, pp. 2061-2064.

Gao, X. (2007) A Nonparametric Procedure for the Two-factor Mixed Model with Missing Data. The Biometrical Journal, Volume 49, Issue 5, Date: October 2007, Pages: 774-788

Gao, X. (2006). Construction of Null Statistics in Permutation based Multiple Testing for Multi-Factorial Microarray Experiments. Bioinformatics, Vol, 22, 1486-1494.

Gao, X. (2006).  Nonparametric Order-restricted Inference for Factorial and Temporal Data.   International Journal of Statistics and Management Systems, Vol. 1, 120-149.

Song, P. , Gao, X., Liu, R. and Le, W. (2006). Nonparametric Inference for Local Extrema With Application to Oligonucleotide Microarray Data in Yeast Genome, Biometrics, 62, 545-54.

Gao, X. and Alvo, M. (2005).  A Unified Nonparametric Approach for Unbalanced Factorial Designs. Journal of the American Statistical Association, Vol. 100, 926-941.

Gao, X. and Song, P. (2005). Nonparametric Tests for Differential Gene Expression and Interaction Effects for Multi-factorial Microarray Experiments, BMC Bioinformtics, Vol. 6:186.

Gao, X. and Alvo, M. (2005). A Nonparametric tests for interaction for two-way layouts. The Canadian Journal of Statistics, Vol. 33, 529-543.

Other publications:


Cheng, R., Ma, J. Z., Wright, F. A., Lin, S. L., Gao, X., Wang, D. L., Elston,

R. C. and Li, M. D. (2003). Nonparametric Disequlibrium Mapping of Functional

Sites Using Haplotypes of Multiple Tightly Linked Single-Nucleotide Polymorphism

Markers. Genetics, 1175-1187.


Peltomki, P., Gao, X. and Mecklin, J. P. (2001). Genotype and phenotype in

hereditary nonpolyposis colon cancer: a study of families with different vs. shared

predisposing mutations. Familial Cancer, Vol. 1, 9-15.


Huang, J., Kruismanen, S., Liu, T., Chadwick, R., Johnson, C., Richards, S.,

Gao, X., Wright, F., Mecklin, J-P., Jarvinen, H., Gronberg, H., Bisgaard, M. L.,

Linkblom, A. , and Peltomaki, P. (2001). MSH6 and MSH3 are rarely involved in

genetic predisposition to non-polypotic colon cancer. Cancer Research, Vol. 61,



Wang, D., Lin, S., Cheng, R., Gao, X. and Wright, F. A. (2001). Transformation

of sib-pair Values for the Haseman-Elston Method. American Journal of Human

Genetics, Vol. 68, 1238-1249.


Fruhwald, M. C., O’Dorisio, M. S., Dai, Z., Tanner, S. M., Balster, D. A., Gao,

X., Wright, F. A., Plass C. (2001). Aberrant promoter methylation of previously

unidentified target genes is a common abnormality in medulloblastomasimplications

for tumor biology and potential clinical utility. Oncogene, 5033-5042.


Rush, L. J., Dai, Z., Smiraglia, D. J., Gao, X.,Wright, F. A. Fruhwald, M., Costello,

J. F., Held, W. A., Yu, L. , Krahe, R., Kolitz, J. E., Bloomfield, C. D., Caligiuri, M.

A. , Plass, C. (2001). Novel methylation targets in de novo acute myeloid leukemia

with prevalence of chromosome 11 loci. Blood, 3226-3233.


Smith, W. M., Zhou, X. P., Kurose, K. , Gao, X., Latif, F., Kroll, T. , Sugano, K.,

Cannistra, S. A. , Clinton, S. K. , Maher, E. R. , Prior, T. W. , Eng, C. (2001).

Opposite association of two PPARG variants with cancer: overrepresentation of

H449H in endometrial carcinoma cases and underrepresentation of P12A in renal

cell carcinoma cases. Human Genetics (Humangenetik), p. 146-151.


Costello, J. F., Fruhward, M.C., Smiraglia, D.J., Rush, L.J., Robertson, G.P., Gao,

X., Wright, F.A. , Feramisco, J.D., Peltomaki, P., Lang, J.C., Schuller, D.E., Yu,

L. , Bloomfield, C.D., Caligiuri, M.A. , yates, A. , Nishikawa, R. , Huang, H.-J ,

Petrelli, N.J., Zhang, X. , O’Dorisio, M.S., Held, W.A., Cavenee, W. K., Plass, C.

(2000). Aberrant CpG island methylation has non-random and tumor type-specific

patterns. Nature Genetics, 132-138.


 Borrego, S., Ruiz, A., Saez, M. E., Gimm, O., Gao, X., Lopex-Alonso, M., Hernandez,

A., Wright, F. A., Antinolo, G., Eng, C. (2000). RET genotypes comprising

specific haplotypes of polymorphic variants predispose to isolated Hirschsprung

disease. Journal of Medical Genetics, 572-578.


Zhou, X.P., Smith, W.M., Gimm, O., Mueller, E., Sarraf, P., Prior, T. W., Plass, C.,

Gao, X., Deimling, A.V., Black, P.M., Yates, A.J., Eng, C.: Over-representation

of PPAR sequence variants in sporadic cases of glioblastoma multiforme (2000).

Preliminary evidence for common low penetrance modifiers for brain tumour risk

in the general population. Journal of Medical Genetics, 410-414.


Desai, D.C. Lockman, J.C., Chadwick, R. B., Gao, X., Percesepe, A., Gareth,

D., Evans, R., Miyaki, M., Yuen, S. T., Radice, P., Maher, E. R., Wright, F. A.,

Chapelle, A. de la (2000). Recurrent Germline mutation in MSH2 Arises frequently

de novo. Journal of Medical Genetics, 646-652.


Book Chapters


 Gao, X. (2009) Nonparametric methods for experimental designs. Encyclopedia on

research designs, Sage.


Software developed:

GDEP Version 2.0 Download (Reference: Gao, Pu and Song, 2008)

SOFTWARE Authors: Daniel Q. Pu, Xin Gao, and Peter X.-K. Song


MATH3131 math3131_Fall2012.htm

MATH6630 Math6630_Fall2012.htm

Professional Services:


American Statistics Association Southern Ontario Chapter local representative 2009-2011.

SORA/TABA Annual Statistics Workshop, May, 2009, organizing committee co-chair.

Ontario Graduate Scholarship Evaluation Panel Committee Chair, 2009-2010.;

Ontario Graduate Scholarship Evaluation Panel Committee, 2008-2009.



Funding and Awards:


Discovery Grant, National Science and Engineering Research Counsel, 2007-2012.

Discovery Grant, National Science and Engineering Research Counsel2003-2006.

Petro-Canada/York University Young Investigator Award, 2006-2007.


Graduate Students:



Daniel Q. Pu, (2005-2009) Ph.D

Current position:

Managing Consultant
Financial Risk&Compliance
Global Business Services
IBM(China) Company Limited

Hao Bai (2006-2007 Ph.D student,. Current position:

Manager, Canadian Imperial Bank of Canada, Toronto, ON


Yawen Xu (2009-present) Ph.D student


Yurong Cao (2009-present) Ph.D. student