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X iuwen Z heng

**** **** *** **, *** #**, Seattle, WA 98105, (206) 661-

****, abqne3@r.postjobfree.com

CORE QUALIFICATIONS

o Five years of professional research experience in statistics, statistical genetics, machine

learning, bioinformatics, and high-

performance computing

o Applications include quality control in genotypic data for genome-

wide association studies

(GWAS), and high-

dimensional data analysis on DNA microarrays

o Programming Languages: Proficient in C/C++, Delphi (Object Pascal), working knowledge of

JAVA, PERL and PYTHON

o Software: R, SAS, MATLAB, SQL and MPI

EDUCATION

PhD, Biostatistics, Expected 2/13

Dept. of Biostatistics, University of Washington (UW), Seattle, WA

Dissertation: Statistical Prediction of HLA Alleles and Relatedness Analysis in Genome-

Wide Association Studies

MS, Statistics, 5/07

Dept. of Mathematical Sciences, University of Texas at Dallas (UTD), TX

BA, Finance and Statistics, 7/05

Dept. of Statistics and Finance, University of Science and Technology of China (USTC), Hefei

REPRESENTATIVE PROJECTS

Human Leukocyte Antigen (HLA) prediction project

Collaborated with GlaxoSmithKline (GSK) for a study of statistical prediction of HLA alleles

Applied and developed machine learning algorithms (random forest and attribute bagging), and

prepared manuscripts

Gene Environment Association Studies project (GENEVA)

GENEVA is a NIH-

funded consortium of 16 genome-

wide association studies from 12 universities

and research institutes, which aims to accelerate understanding of genetic and environmental

contributions to health and disease with thousands of samples and millions of SNPs

Performed data cleaning and analysis on large-

scale genotypic data, and involved in preparation

of manuscripts

CoreArray high-

performance computing project

Developed parallel computing algorithms using C/C++ for relatedness and principal component

analysis in GWAS, and prepared manuscripts

My algorithms achieve up to a 300-

fold speedup over the original serial implementations

The electronic Medical Records and Genomics (eMERGE) network project

The aim is to identify genetic variants associated white blood cell count differential leukocyte

types in 13,923 subjects in the eMERGE network

Performed data analysis and involved in preparation of manuscripts

SNP microarray project

Mosaics for large chromosomal anomalies were detected using SNP microarray data from over

50,000 subjects of GENEVA

Performed data analysis and involved in preparation of manuscripts

2/4

EXPERIENCE

Research Assistant, Genetics Coordinating Center, Dept. of Biostatistics, UW 9/07 now

Performed independent and collaborative research on major projects: GENEVA, HLA, CoreArray,

eMERGE and SNP microarray

Research Assistant, Bioinformatics Lab, Dept. of Computer Science, UTD 2/06 12/06

Participated in Microarray Quality Control (MAQC) Project

Conducted microarray data cleaning and analysis, involved in preparation of manuscripts

Teaching Assistant, Dept. of Biostatistics, UW 10/11 12/11

Teaching Assistant, Dept. of Mathematical Sciences, UTD 8/05 5/07

Courses: Applied Calculus, Probability and Statistics for Management and Economics, Medical

Biometry

grading and leading discussions

Statistical Consulting, Dept. of Biostatistics and Statistics, UW 9/10 12/10

Primary projects:

Power simulation in logistic regressions with confounders for oral cancer

Correlated data analysis on the effects of the King County menu labeling regulation

PUBLICATIONS

Zheng X, Levine D, Shen J, Gogarten SM, Laurie C, Weir BS. A High-

performance Computing

Toolset for Relatedness and Principal Component Analysis of SNP Data. Bioinformatics. 2012

Oct 11. [Epub ahead of print]

Gogarten SM, Bhangale T, Conomos MP, Laurie CA, McHugh CP, Painter I, Zheng X, Crosslin

DR, Levine D, Lumley T, Nelson SC, Rice K, Shen J, Swarnkar R, Weir BS, Laurie CC.

GWASTools: an R/Bioconductor package for quality control and analysis of Genome-

Wide

Association Studies. Bioinformatics. 2012 Oct 10. [Epub ahead of print]

Laurie CC, Laurie CA, Rice K, Doheny KF, Zelnick LR, McHugh CP, Ling H, Hetrick KN, Pugh

EW, Amos C, Wei Q, Wang LE, Lee JE, Barnes KC, Hansel NN, Mathias R, Daley D, Beaty TH,

Scott AF, Ruczinski I, Scharpf RB, Bierut LJ, Hartz SM, Landi MT, Freedman ND, Goldin LR,

Ginsburg D, Li J, Desch KC, Strom SS, Blot WJ, Signorello LB, Ingles SA, Chanock SJ, Berndt SI,

Le Marchand L, Henderson BE, Monroe KR, Heit JA, de Andrade M, Armasu SM, Regnier C,

Lowe WL, Hayes MG, Marazita ML, Feingold E, Murray JC, Melbye M, Feenstra B, Kang JH,

Wiggs JL, Jarvik GP, McDavid AN, Seshan VE, Mirel DB, Crenshaw A, Sharopova N, Wise A,

Shen J, Crosslin DR, Levine DM, Zheng X, Udren JI, Bennett S, Nelson SC, Gogarten SM,

Conomos MP, Heagerty P, Manolio T, Pasquale LR, Haiman CA, Caporaso N, Weir BS.

Detectable clonal mosaicism from birth to old age and its relationship to cancer. Nat Genet.

2012 May 6;44(6):642-

50. doi: 10.1038/ng.2271.

Crosslin DR, McDavid A, Weston N, Nelson SC, Zheng X, Hart E, de Andrade M, Kullo IJ,

McCarty CA, Doheny KF, Pugh E, Kho A, Hayes MG, Pretel S, Saip A, Ritchie MD, Crawford

DC, Crane PK, Newton K, Li R, Mirel DB, Crenshaw A, Larson EB, Carlson CS, Jarvik GP;

Electronic Medical Records and Genomics (eMERGE) Network. Genetic variants associated

with the white blood cell count in 13,923 subjects in the eMERGE Network. Hum Genet.

2012 Apr;131(4):639-

52. doi: 10.1007/s00439-

011-

1103-

9. Epub 2011 Oct 30.

Laurie CC, Doheny KF, Mirel DB, Pugh EW, Bierut LJ, Bhangale T, Boehm F, Caporaso NE,

Cornelis MC, Edenberg HJ, Gabriel SB, Harris EL, Hu FB, Jacobs KB, Kraft P, Landi MT, Lumley

T, Manolio TA, McHugh C, Painter I, Paschall J, Rice JP, Rice KM, Zheng X, Weir BS; GENEVA

3/4

Investigators. Quality control and quality assurance in genotypic data for genome-

wide

association studies. Genet Epidemiol. 2010 Sep; 34(6):591-

602.

Wenyuan Li, Xiuwen Zheng, and Ying Liu. Gene Selection by Matrix Reordering and

Replicator Dynamics. 7th International Workshop on Data Mining in Bioinformatics (BIOKDD

'07) in ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, San

Jose, CA, USA, August 2007.

Zheng X, Huang HC, Li W, Liu P, Li QZ, Liu Y. Modeling nonlinearity in dilution design

microarray data. Bioinformatics. 2007 Jun 1;23(11):1339-

47. Epub 2007 Jan 19.

In progress:

David R. Crosslin, Andrew McDavid, Noah Weston, Sarah Nelson, Xiuwen Zheng, Eugene

Hart, Mariza de Andrade, Iftikhar J. Kullo, Catherine A. McCarty, Kimberly F. Doheny,

Elizabeth Pugh, Abel Kho, M. Geoffrey Hayes, Stephanie Pretel, Alexander Saip, Marylyn

Ritchie, Dana Crawford, Paul K.Crane, Katherine Newton, Rongling Li, Daniel Mirel, Andrew

Crenshaw, Eric B. Larson, Chris S. Carlson, Gail P. Jarvik, The electronic Medical Records and

Genomics (eMERGE) Network. Genetic variation associated with circulating monocyte count

in the eMERGE Network. Submitted to Human Molecular Genetics, in revision.

X. Zheng, J. Shen, C. Cox, J. Wakefield, M. Ehm, M. Nelson, B. Weir. HIBAG -

-

HLA genotype

imputation with attribute bagging. (submitted).

SOFTWARE PROJECTS

CoreArray C/C++ library project, developed portable and scalable storage technologies

for bioinformatic data, allowing parallel computing at the multicore and

cluster levels. http://corearray.sourceforge.net/

Two R packages are available online (gdsfmt and SNPRelate) for high-

performance computing on relatedness and principal component analysis in

GWAS

PRESENTATIONS

Platform Talk, American Society of Human Genetics annual meeting (ASHG), San Francisco,

California, Nov 6 10, 2012; Title: HIBAG HLA genotype imputation with attribute

bagging . Presenting author.

Poster, International Congress of Human Genetics (ICHG), Montreal, QC Canada, Oct 11

15, 2011; Title: A High-

Performance Computing Package for Relatedness and Principal

Component Analysis in GWAS ; Presenting author.

Platform Talk, International Congress of Human Genetics (ICHG), Montreal, QC Canada, Oct

11 15, 2011; Title: Somatic mosaicism of large chromosomal anomalies in blood cells of

normal adults ; Contributing author.

Poster, International Congress of Human Genetics (ICHG), Montreal, QC Canada, Oct 11

15, 2011; Title: Genetic variation that predicts white blood cell count differential leukocyte

types in the eMERGE Network ; Contributing author.

Poster, 8th International Conference on Forensic Inference and Statistics, Seattle, WA, Jul

18 21, 2011; Title: How Many SNPs Does It Take To Establish Relatedness? ; Presenting

author.

4/4

Poster, American Society of Human Genetics annual meeting (ASHG), Washington DC, Nov 2

6, 2010; Title: Statistical Prediction of Classical HLA Typing Using Unphased SNP Data ;

Presenting author.

Poster, American Society of Human Genetics annual meeting (ASHG), Hawaii, Oct 20 24,

2009; Title: Quality assurance of genotypic data for genome-

wide association studies ;

Contributing author.

PROFESSIONAL ACTIVITIES AND AFFILIATIONS

Referee for Genetics Research, BMC Bioinformatics

Member of American Statistical Association, American Society of Human Genetics,

ENAR International Biometric Society.

HONORS AND AWARDS

2007 Present: Graduate Study Scholarship at Univ. of Washington Seattle

2008: Department of Biostatistics Pfizer Award at Univ. of Washington Seattle

2007: Department of Biostatistics Pfizer Award at Univ. of Washington Seattle

2005 2007: Graduate Study Scholarship at Univ. of Texas Dallas

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