Division of Biostatistics & Bioinformatics

Department of Public Health Sciences

Penn State Cancer Institute, CH69

*** ********** ***** *******, ** 17033

Arthur S. Berg, PhD mobile 717-***-****

o ce 717-***-****

717-***-****

abqaqw@r.postjobfree.com

Curriculum Vit http://cv.arthurberg.com

January 28, 2013

Research Interests: Biomedical Informatics/Bioinformatics/Biostatistics/Statistics

Biomedical clinical informatics, electronic health record research, patient-centered outcomes research, transla-

Informatics tional informatics.

Bioinformatics arrays (genotype, expression, methylation, exon), computational methods, metabolomics, next-

generation sequencing (whole genome, exome, Chip-seq), proteomics.

Biostatistics Bayesian methods, biomarkers, clinical trial design & simulation, drug interaction, predictive

modeling, statistical genetics, survival analysis.

Statistics bootstrap, density estimation, functional smoothing, nonparametric statistics, subsampling, time

series analysis.

Education

2002-2007 Ph.D., Mathematics (Statistics Dissertation), University of California, San Diego, La Jolla,

CA.

Dissertation: Nonparmetric Function Estimation with Applications

Advisor: Dimitris Politis

2005 M.S., Statistics, University of California, San Diego, La Jolla, CA.

2002 M.A., Mathematics, University of Southern California, Los Angeles, CA.

Thesis: Ribet s converse to Herbrand s criterion

Advisor: Sheldon Kamienny

1998-2002 B.S., Mathematics, University of Southern California, Los Angeles, CA.

Experience

Current

2011 Leader, Biomedical Informatics Program of the Clinical and Translational Science Institute.

Provide leadership to meet the biomedical informatics goals of the CTSI and serve as voting member of

the CTSA Informatics Key Function Committee.

2011 Director, Bioinformatics Core, Penn State College of Medicine.

Facilitate bioinformatics analyses including analysis of expression/methylation/genotyping chips, proteomics

data, and next-gen sequence data including whole genome, exome, and ChIP-seq data.

2011 Director, Biostatistics PhD Program, Penn State.

Direct the Biostatistics PhD Program and serve as chair of the Biostatistics PhD Program Committee.

1/12

2009 Assistant Professor (tenure-track), Pennsylvania State University, Department of Public Health

Sciences, Division of Biostatistics and Bioinformatics.

Perform methodological and collaborative research in the College of Medicine. Tenure & Promotion

determination in Spring 2013.

2010 Adjuct Faculty, Department of Statistics, Pennsylvania State University.

Perform collaborative and methodological research with faculty and students in the Department of Statistics.

2009 Faculty Member, Cancer Institute, Cancer Control Program, Pennsylvania State University.

Perform collaborative research with cancer researchers and the biostatistics core.

2009 Faculty Member, Center for Statistical Genetics, Pennsylvania State University.

Perform collaborative and methodological research in statistical genetics.

2009 Consultant, Colorectal Surgery, Pennsylvania State University, College of Medicine.

Provide statistical/biostatistical/statistical genetics expertise to the Division of Colorectal Surgery.

Previous

Summer 2011 Visiting Scholar, Center for Statistical Science, Peking University, Beijing, China.

Collaborated with faculty and students at Peking University.

2007 2009 Assistant Professor (tenure-track), University of Florida, Department of Statistics.

Performed methodological and collaborative research in the Department of Statistics and the Institute of

Food and Agricultural Sciences with a 50/50 research/teaching appointment. Taught the undergraduate

and graduate courses Time Series Analysis (STA 4853/STA 5856 and STA 6857) and Fundamentals of

Probability (STA 4321/STA 5325).

2008 2009 Faculty Member, Genetics Institute, University of Florida.

Participated in collaborative genetics research and advised genetics students during their rotations.

Winter 2007 Associate-In Instructor, University of California, San Diego, Department of Mathematics.

Taught a calculus course (MATH 10B) for one quarter as part of the UCSD s Associate-In Program.

2002 2007 Teaching Assistant, University of California, San Diego, Department of Mathematics.

Teaching Assistant for 15 quarters at the UCSD (while pursuing my PhD). Courses include statistics

(graduate, upper and lower-division), time series, calculus, and others.

2005 2006 Adjunct Instructor, Miramar Community College, Department of Mathematics.

Taught three courses: Introductory Statistics, Calculus III, and Intermediate Algebra.

1999 2002 Teaching Assistant, University of Southern California, Department of Mathematics.

Teaching Assistant for three years in the Department of Mathematics at USC (as an undergraduate).

Courses included engineering mathematics, mathematical analysis, calculus, et. al.

2004 2007 Mathstorm Administrator and Consultant, UCSD Consulting Group.

Provided statistical consulting to the UCSD community on wide-ranging topics.

Summers of Counselor, Program in Mathematics for Young Scientists, Boston University.

2001, 2002, Taught mathematics to exceptional high school students during a 6-week residential program at Boston

2003 University (http://www.promys.org/).

Published/Accepted Papers

All papers listed have been peer reviewed. Published articles are listed by year then alphabetically by rst author.

The 2011 Web of Knowledgesm Impact Factor (IF), and DOI links are provided where available.

* indicates A. Berg is a corresponding author

Papers to Appear 2013

Angstadt A, Berg A, Zhu J, Miller P, Hartman T, Lesko S, Muscat J, Lazarus P, Gallagher C. The e ect of

copy number variation (CNV) in the phase II detoxi cation genes, UGT2B17 and UGT2B28, on colorectal

cancer risk. Cancer (in press)

* Liu G, Chen G, Sinoway L, Berg A. Assessing the Impact of the NIH CTSA Program on Institutionally

Sponsored/Collaborated Clinical Trials Clinical and Translational Science (in press)

2/12

Poritz LS, Sehgal R, Berg A, Laufenberg L, Choi C, Williams E. Chronic use of PPI and H2 antagonists

decreases the risk of pouchitis after IPAA for ulcerative colitis. Journal of Gastrointestinal Surgery. (in press)

Sharma A, Madhunapantula SV, Gowda R, Berg A, Neves RI, Robertson GP. "Identi cation of Aurora kinase

B and WEE1 as downstream targets of V600EB-RAF in melanoma" American Journal of Pathology (in press)

2012

Ang KC, Ngu MS, Reid K, Teh MS, Zamzuraida AS, Danny XR, Berg A, Oppenheimer S, Hood S, Mahani

MC, Badrul MZ, Can eld V, Cheng K. Skin Color Variation in the Orang Asli Tribes of Peninsular Malaysia.

PLoS ONE 7(8): e42752. (IF=4.09) doi:10.1371/journal.pone.0042752.

Avella DM, Li G, Schell TD, Liu D, Zhang S, Lou X, Berg A, Kimchi ET, Tagaram HR, Yang Q, Shereef S,

Garcia LS, Kester M, Isom HC, Rountree B, Staveley-O Carroll KF. Regression of established hepatocellular

carcinoma is induced by chemo-immunotherapy in an orthotopic murine model. Hepatology. 2012 Jan;

55(1):141-52. (IF=11.67) doi: 10.1002/hep.24652

Berg A, McMurry T, and Politis D. Testing time series linearity: traditional and bootstrap methods. Handbook

of Statistics: Time Series Analysis: Methods and Applications. In Series: Volume 30 of Handbook of Statistics.

Editors: C.R. Rao and Tata Subba Rao. 2012; 27-42. Available here and here.

Clawson GA, Kimchi E, Patrick S, Xin P, Harouaka R, Zheng S, Berg A, Schell T, Neves R, Mosca

P, Thiboutot D. Studies on Circulating Tumor Cells in Melanoma Patients. PLoS ONE. 7(7): e41052.

doi:10.1371/journal.pone.0041052.

Foulds J, Veldheer S, Berg A Electronic Cigarettes: A response to Leelavathi and Das. International Journal

of Clinical Practice. 2012 Apr; 66(4):417-8. (IF=2.42) doi: 10.1111/j.1742-1241.2011.02889.x

Hou L, Wang L, Berg A, Qian M, Zhu Y, Li M, Deng M. Comparison and Evaluation of Network Clus-

tering Algorithms On Genetic Interaction Networks. Frontiers in Bioscience. 2012; E4, 2150-2161. doi:

10.1111/10.2741/532

Popova E, Xu X, DeWan A, Salzberg A, Berg A, Hoh J, Zhang SS, Barnstable C. Gene speci c signa-

tures by H3K4me2 and H3K27me3 modi cations during retina. PLoS One 7(10): e46867. (IF=4.09) doi:

10.1371/journal.pone.0046867

Sehgal R, Berg A, Polinski JI, Hegarty JP, Lin Z, McKenna KJ, Stewart DB, Poritz LS, Koltun WA. Mutations

in IRGM are associated with more frequent need for surgery in patients with ileocolonic Crohn s disease.

Diseases of the Colon & Rectum. 2012 Feb; 55(2):115-21. (IF=3.13) doi: 10.1097/DCR.0b013e31823ccea8

Sehgal R, Berg A, Polinski JI, Hegarty JP, Lin Z, McKenna KJ, Stewart DB, Poritz LS, Koltun WA. Genetic

Risk Pro ling and Gene Signature Modeling to Predict Risk of Complications After IPAA. Diseases of the

Colon & Rectum. 2012 Mar; 55(3):239-48. (IF=3.13) doi: 10.1097/DCR.0b013e31823e2d18

Tsetskhladze ZR, Can eld VA, Ang KC, Wentzel SM, Reid KP, Berg A, Johnson SL, Kawakami K, Cheng KC.

Functional Assessment of Human Coding Polymorphisms A ecting Skin Pigmentation Using Zebra sh. PLoS

ONE 7(10): e47398. (IF=4.09) doi: 10.1371/journal.pone.0047398

Weisz, J, Shearer DA, Murata E, Patrick SD, Han B, Berg A, Clawson GA. Identi cation of mammary epithelial

cells subject to chronic oxidative stress in mammary epithelium of young women and teenagers living in USA:

Implication for breast carcinogenesis. Cancer Biology & Therapy. 2012 Jan 15; 13(2):101-13. (IF=2.64) doi:

10.4161/cbt.13.2.18873

Yu W, Hegarty J, Berg A, Poritz L, Koltun W, Lin Z. PTPN2 is associated with Crohn s disease and its expression

is regulated by NKX2-3. Disease Markers. 2012; 32(2):83-9. (IF=1.64) doi: 10.3233/DMA-2011-0867

2011

Berg A, Li N, Tong C, Wang Z, Berceli S, and Wu R. Functional mapping of expression quantitative trait loci

that regulate oscillatory gene expression. Methods Mol. Biol. 2011; 734(3): 241-255. doi: 10.1007/978-1-

61779-086-7_12

Cupp J, Simmons Z, Berg A, Felgoise SH, Walsh SM, and Stephens HE. Psychological Health in Patients

with ALS Is Maintained As Physical Function Declines. Amyotrophic Lateral Sclerosis. 2011; 12: 290-296.

(IF=3.09) doi: 10.3109/17482968.2011.554555

Foulds J, Veldheer S, Berg A. Electronic cigarettes (e-cigs): views of a cionados, and clinical/public health per-

spectives. International Journal of Clinical Practice. 2011; 65(10): 1037-1042. (IF=2.42) doi: 10.1111/j.1742-

1241.2011.02751.x

Fu G, Luo J, Berg A, Wang Z, Li J, Das K, Li R, Wu R. A dynamic model for functional mapping of biological

3/12

rhythms. Journal of Biological Dynamics. 2011; 5(1): 84 101. doi: 10.1080/17513758.2010.491558

John G, Hegarty J, Yu W, Berg A., Pastor D, Kelly A, Wang Y, Poritz L, Schreiber S, Koltun W, Lin Z.

NKX2-3 variant rs11190140 is associated with IBD and alters binding of NFAT . Molecular Genetics and

Metabolism. 2011 Sep-Oct; 104(1-2): 174-9. (IF=3.19) doi: 10.1016/j.ymgme.2011.06.023

Jones N, Spratt TE, Berg A, Muscat J, Lazarus P, and Gallagher CJ. Association studies of excision repair

cross-complementation group 1 (ERCC1) haplotypes with lung and head and neck cancer risk in a Caucasian

population. Cancer Epidemiology. 2011 Apr; 35(2): 175-81. (IF=2.01) doi: 10.1016/j.canep.2010.08.007 (in

press)

Lin Z, Gerrit J, Hegarty J, Berg A, Yu W, Wang Y, Kelly A, Peterson B, Poritz L, Floros J, Koltun W. Genetic

variants and monoallelic expression of surfactant protein D in in ammatory bowel disease. Annals of Human

Genetics. 2011 Sep; 75(5): 559-68. (IF=2.57) doi: 10.1111/j.1469-1809.2011.00662.x

Lin Z, Wu R, Hegarty J, Berg A, John G, Wang Z, Ahn K, Liu T, Kelly A, Wang Y, Poritz L, Koltun W.

DLG5 P1371Q is associated with in ammatory bowel disease and complementary to R30Q. Swiss Medical

Weekly. 2011 Nov 8; 141:w13290. doi: 10.4414/smw.2011.13290

Luo J, Berg A, Ahn K, Das K, Li J, Wong Z, Li Y, Wu R. Functional Genome-wide Association Studies

of Longitudinal Traits. In: Handbook of Adaptive Designs in Pharmaceutical and Clinical Development. (A.

Pong and S.C. Chow Eds.) Taylor & Francis, LLC 2011. doi: 10.1201/b10279-24

Poritz L, Sehgal R, Hartnett K, Berg A, Koltun W. Tumor volume and percent positive lymph nodes as

a predictor of 5 year survival in colorectal cancer. Surgery. 2011 Oct; 150(4): 649-55. (IF=3.10) doi:

10.1016/j.surg.2011.07.049

Ramesh G, Berg A, C. Jayakumar. Plasma netrin-1 is a diagnostic biomarker of human cancers. Biomarkers.

2011; 16(2):172 180. (IF=2.22) doi: 10.3109/1354750X.2010.541564

Sehgal R, Berg A, Figueroa R, Poritz L, McKenna K, Stewart D, Koltun W. Risk Factors for Surgical Site

Infections after Colorectal Resection in Diabetic Patients. Journal of the American College of Surgeons. 2011

Jan; 212(1):29-34. (IF=4.55) doi: 10.1016/j.jamcollsurg.2010.09.011

Sharma AK, Kline C, Berg A, Amin S, Irby R. The Akt inhibitor ISC-4 activates Par-4 and reduces colon

tumor growth in a nude mouse model. Clinical Cancer Research. 2011 Jul 1; 17(13): 4474-83. (IF=7.74) doi:

10.1158/1078-0432.CCR-10-2370

Yu W, Hegarty J, Berg A, Chen X, West G, Kelly AA, Wang Y, Poritz LS, Koltun WS, Lin Z. NKX2-3

transcriptional regulation of endothelin-1 and VEGF signaling in human intestinal microvascular endothelial

cells. PLoS One. 2011; 6(5):e20454. Epub 2011 May 26. (IF=4.09) doi: 10.1371/journal.pone.0020454

2010

Anh K, Luo J, Berg A, Keefe D, Wu R. Functional mapping of drug response with pharmacodynamic-

pharmcokinetic principles. Trends in Pharmaceutical Science. 2010; 31(7): 306 311. (IF=10.93) doi:

10.1016/j.tips.2010.04.004

Berg, A, McMurry T, Politis D. Subsampling p-values. Statistics and Probability Letters. 2010; 80: 1358-1364.

(IF=.50) doi: 10.1016/j.spl.2010.04.018

* Berg, A, Paparoditis E, and Politis D. A Bootstrap Test for Time Series Linearity. Journal of Statistical

Planning and Inference. 2010 Dec; 140(12): 3841-3857. (IF=.72) doi: 10.1016/j.jspi.2010.04.047

* Berg A and Suaray K. Bootstrap Bandwidth Selection for a Smooth Survival Function Estimator from Censored

Data. Journal of Statistical Research. 2010; 44(2): 207-217. http://www.isrt.ac.bd/node/1042

* Berg A, He Q, Shen Y, Chen Y, Huang M, Wu R, Trilocus Disequilibrium Analysis of Multiallelic Markers

in Outcrossing Populations. Statistical Application in Genetics and Molecular Biology. 2010; 9(1), Article 16.

(IF=1.52) doi: 10.2202/1544-6115.1528

Chen G, Giambrone N, Dluzen D, Muscat J, Berg A, Gallagher C, Lazarus P. Glucuronidation genotypes and

nicotine metabolic phenotypes: Importance of UGT2B10 and UGT2B17 knock-out polymorphisms. Cancer

Research. 2010; 70(20): 7543 7552. (IF=7.86) doi: 10.1158/0008-5472.CAN-09-4582

Drost D, Benedict C, Berg A, Novaes E, Novaes C, Yu Q, Dervinis C, Maia J, Yap J, B. Miles, M. Kirst.

Diversi cation in the genetic architecture of gene expression and transcriptional networks in organ di erentiation

of Populus. Proceedings of the National Academy of Sciences. 2010 May 4; 107(18): 8492-7. (IF=9.68)doi:

10.1073/pnas.091*******

Fu G, Berg A, Das K, Li J, Wu R. A statistical model for mapping morphological shape. Theoretical Biology

4/12

and Medical Modelling 2010 Jul 1; 7(28): 1-14. (IF=1.86) doi: 10.1186/174*-****-*-**.

He QL, Berg A, Li Y, Vallejos E, Wu RL. Mapping Genes for Plant Structure, Development and Evo-

lution: Functional Mapping Meets Ontology. Trends in Genetics. 2010; 26(1): 39-46. (IF=10.06) doi:

10.1016/j.tig.2009.11.004

* Kim BR, McMurry T, Zhao W, Wu R,Berg A. Wavelet-based functional clustering for patterns of high-

dimensional dynamic gene expression. Journal of Computational Biology 2010; 17(8): 1067-1080. (IF=1.55)

doi: 10.1089/cmb.2009.0270

Li N, McMurry T, Berg A, Zhong W, Berceli S, Wu R. Functional Clustering of Periodic Transcriptional

Pro les Through ARMA(p,q ). PLoS ONE. 2010; 5(4): e9894. (IF=4.09) doi: 10.1371/journal.pone.0009894

Li Y, Berg A, Wu L, Wang Z, Chen G, Wu R. Modeling the Aneuploidy Control of Cancer. BMC Cancer.

2010; 10: 346. doi: 10.1186/147*-****-**-***

Lin M, Berg A, Wu R. Modeling the genetic etiology of pharmacokinetic- pharmacodynamic links with

the ARMA process. Journal of Biopharmaceutical Statistics. 2010; 20(2): 351-372. (IF=1.34) doi:

10.1080/10543400903572795

Sehgal R, Berg A, Hegarty J, Kelly A, Lin Z, Poritz L, Koltun W. NOD2/CARD15 mutations correlate with

severe pouchitis after Ileal Pouch Anal Anastomosis (IPAA). Diseases of the Colon & Rectum. 2010 Nov;

53(11): 1487-94. (IF=3.13) doi: 10.1007/DCR.0b013e3181f22635

2009

* Abramson I, Berg A. An Occupancy Problem Arising in Power Law Fitting. Internet Mathematics. 2009; 6(1):

19-28. http://projecteuclid.org/euclid.im/128*******

* Berg A and Politis D. CDF and Survival Function Estimation with In nite-Order Kernels. Electronic Journal

of Statistics. 2009; 4: 1436-1454. (IF=1.15) doi: 10.1214/09-EJS396

* Berg A, Politis D. Higher-Order Accurate Polyspectral Estimation with Flat-top Lag-Windows. Ann. Inst.

Statist. Math. 2009; 61(2): 477-498. (IF=.86) doi: 10.1007/s10463-007-0154-0

Cheng Y, Berg A, Wu S, Li Y, Wu RL. Computing genetic imprinting expressed by haplotypes. In: Methods

in Molecular Biology: Cardiovascular Genomics (Keith DiPetrillo, ed.). Humana Press, New York 2009. doi:

10.1007/978-1-60761-247-6_11

He Q, Shen Y, Chen Y, Zhou Y, Berg A, Wu R, Huang M. Development of sixteen polymorphic simple

sequence repeat markers for Lycoris longituba from expressed sequence tags. Molecular Ecology Resources

2009; 9(1): 278-280. (IF=3.06) doi: 10.1111/j.1755-0998.2008.02322.x

Hou W, Liu T, Li Y, Li Q, Li J, Das K, Berg A, Wu R. Multilocus genomics of outcrossing plant populations.

Theor. Popul. Biol. 2009; 76(1): 68-76. (IF=1.65) doi: 10.1016/j.tpb.2009.04.005

Li Y, Berg A, Chang MN, Du P, Ahn K, Mauger D, Liao D, and Wu R. A Statistical Model for Genetic

Mapping of Viral Infection by Integrating Epidemiological Behavior. Statistical Applications in Genetics and

Molecular Biology 2009; 8(1), Article 38: 1-22. (IF=1.52) doi: 10.2202/1544-6115.1475

Wen S, Wang C, Berg A, Li Y, Chang M, Fillingim R, Wallace M, Staud R, Kaplan L, Wu R. Modeling Genetic

Imprinting E ects of DNA Sequences with Multilocus Polymorphism Data. Algorithms for Molecular Biology

2009 Aug; 4(11): 1-11. (IF=1.35) doi: 10.1186/174*-****-*-**

Wu, RL, Berg A, Li. Discussion: Why do we test multiple traits in genetic association studies. Journal of the

Korean Statistical Society 2009; 38(1): 11-13. (IF=.47) doi: 10.1016/j.jkss.2008.10.004

Wu S, Yap JS, Li Y, Li Q, Fu GF, Li J, Das K, Berg A, Zeng Y, Wu RL. Network Models for Dissecting

Plant Development by Functional Mapping. Current Bioinformatics, 2009; 4(3): 183-187. (IF=.90) doi:

10.2174/157489309789071093

2007 2008

* Berg A. Multivariate Lag-Windows and Group Representations. J. Multivariate Anal. 2008; 99(10): 2479-2496.

(IF=.88) doi: 10.1016/j.jmva.2008.02.038

Brumback, B. and Berg A. On E ect-Measure Modi cation: Relations Among Changes in the Relative Risk,

Odds Ratio, and Risk Di erence. Statistics in Medicine 2008; 27(18): 3453-3465. doi: 10.1002/sim.3246

Kane DL, Kilb D, Berg A, and Martynov VG. Quantifying the remote triggering capabilities of large earthquakes

using data from the ANZA Seismic Network catalog (southern California). J. Geophys. Res. 2007; 112(B11302):

1-14. (IF=3.02) doi: 10.1029/2006JB004714

Kim BR, Zhang L, Berg A, Fan J, Wu R. A Computational Approach to the Functional Clustering of Periodic

5/12

Gene Expression Pro les. Genetics 2008; 180: 821-834. (IF=4.01) doi: 10.1534/genetics.108.093690

Ma, CX, Yu Q, Berg A, Fu G, Yap JS, Tan A, Kirst M, Cui YH, Wu RL. A Statistical Model for Testing the

Pleiotropic Control of Phenotypic Plasticity for a Count Trait. Genetics 2008; 179: 627-636. (IF=4.01) doi:

10.1534/genetics.107.081794

Submitted Papers

Arono R, Berg A, Sinoway L. Predicting readmission after heart failure at a single center utilizing statistical

learning technology Journal of the American Medical Informatics Association (under revision)

* Berg A, Politis D, Suaray K. Bias-Reduced Nonparametric Hazard Rate Estimation. Journal of Nonparametric

Statistics. (minor revisions)

Can eld VA, Berg A, Peckins S, Oppenheimer S, Cheng KC. Global origins of the A111T skin color polymorphism

in SLC24A5. (submitted)

Chetlen A, Berg A, et al. Benign Papillary Lesions of the Breast: Pathological Upgrade Frequency at Subsequent

Surgical Excision: A Review of 11 Years of Data with Radiology and Pathology Correlation. (submitted)

Connelly T, Sehgal R, Berg A, Hegarty JP, Deiling S, Poritz L, Koltun WA. Mutation in TAGAP is protective

of anal sepsis in ileocolic Chron s disease. Dis Colon Rectum (minor revisions)

DeFlitch C, Lazarus A, Medeiros D, Geeting G, Berg A, Terndrup T, Paz H. Applied Healthcare Delivery

Science: Reinventing an Emergency Department System of Care with Physician-directed Queuing (PDQ).

Journal of Emergency Medicine (under review)

Liao J, McMurry T, Berg A. Prior robust empirical Bayes inference for large scale data by conditioning on

rank with application to microarray data. Biostatistics. (minor revision)

Messaris E, Berg A, Stewart D. Single Site Laparoscopic Colorectal Surgery Provides Similar Length of Hospital

Stay and Similar Costs Compared to Standard Laparoscopy: Results of a Retrospective Study. (submitted)

Poritz LS, Harris LR, Berg A, Connelly T, Hegarty JP, Deiling S, Lin Z, Sehgal R. Mutation in ZO-1 is

associated with protection from familial in ammatory bowel disease. Journal of Gastrointestinal Surgery (under

review)

Poritz LS, Berg A. Ostomy creation signi cantly increases ER visits and hospital readmission after colorectal

resection. Journal of Gastrointestinal Surgery (under review)

Stewart DB, Berg A, Hegarty JP. Proton pump inhibitor therapy and malnourishment are better predictors of

recurrent C. di cile colitis than choice of antibiotics (submitted)

Stewart DB, Hegarty JP, Berg A, et al. Single Nucleotide Polymorphisms of the tcdC Gene and Presence of

the Binary Toxin Gene Predict Recurrent Episodes of C. di cile Infection (submitted)

Wilson R, Bortner J, Ro A, Fortugno T, Das A, Richie J, Barnholtz-Sloan J, Berg A, El-Bayoumy K. Cigarette

Smoking and Genetic Variants in Association with Plasma Vitamin D-Binding Protein Concentration in Healthy

Individuals. Cancer Research (under review)

Sun, Yuan-Wan; Guttenplan, Joseph; Cooper, Timothy; Krzeminski, Jacek; Aliaga, Cesar; Boyiri, Telih;

Kosinska, Wieslawa; Zhao, Zhong-Lin; Chen, Kun-Ming; Berg, Arthur; Amin, Shantu; El-Bayoumy, Karam.

Mechanisms underlying the varied mammary carcinogenicity of the environmental pollutant 6-nitrochrysene

and its metabolites in the rat. Chemical Research in Toxicology (under review)

Jonathan Foulds, Cristina Russ, Ching-Ray Yu, Kelly H. Zou, Aaron Galaznik, Mikael Franzon, Arthur Berg,

and John R. Hughes, E ect of Vareniclineon Individual Nicotine Withdrawal Symptoms: A Combined Analysis

of Eight Randomized Placebo-Controlled Trials.

Grants

Ongoing Grant Support

PI, Development of Bioinformatics Methods for Medical Research (PA Tobacco Settlement Fund; Jan

2012 June 2013). Support: 50% of a post-doc s salary.

Co-PI, Penn State Clinical and Translational Science Institute (NIH; Mar 2012 Feb 2013). Support:

40% FTE.

Co-Investigator, The Genetic and Metabolic Characterization of In ammatory Bowel Disease (Philadel-

phia Health Care Trust; Jan 2012 Dec 2012). Support: 20% FTE.

Co-PI, Using High Dimensional Models to Predict 30-day Readmission after Heart Failure (HMC

Clinical Research Incentive Grant; Jan 2012 Dec 2012). Support: $20,000 for computational resources.

6/12

Co-PI, Expression of Single Nucleotide Polymorphisms in Delayed Fracture Healing (Orthopaedic

Trauma Association; Jan 2012 Jun 2013). Support: 5% FTE.

Co-Investigator, Biophysical Signals, Biomaterial Surface Characteristics and HMSC Di erentiation

(NIAMS; Apr 2009 Mar 2014). Support: 5% FTE.

Other Ongoing Research Support

Huck Institute (Oct 2009 Jun 2015). Support: 45% FTE.

Completed Research Support

PI, Discovery of gene functions and their application using a novel statistical approach for integrating

functional mapping and crop modeling (2008 IFAS Innovation Fund; Aug 2008 Aug 2009) Support:

$50,000.

Co-PI, Statistical Designs for Studying Genetic Mutations and Interactions in Breast Cancer. (Popu-

lation Sciences Program Internal Grant; Nov 2009 Oct 2010) Support: $8,549.

Co-Investigator, Correlation of Gene Haplotype with Complications after IPAA. (ASCRS Research Foun-

dation; Sep 2010 Aug 2011) Support: 2% FTE.

Co-Investigator, Functional Vitamin D Receptor Gene Variants and Racial/Ethnic Cancer Disparities.

(NIH; Sep 2010 Aug 2011). Support: 2% FTE.

Presentations

Slides can be accessed from the directory:

http://www.personal.psu.edu/asb17/presentations/

International

New Functional Clustering Methodology and Applications . Invited talk presented in the Statistics Department

at Peking University, Beijing, China, July, 2010. slides: PKU.pdf

Multiple Estimation Bias Adjustment with Application to GWAS . Invited presenter at the Symposium of the

Center for Computational Biology, Beijing Forestry University, Beijing, China, July, 19, 2010. slides: BFU.pdf

The First Summer International Workshop on Statistical & Computational Genetics . Invited short course in-

structor of this workshop at Beijing Forestry University, Beijing, China, August 2009. http://statgen.u .edu/workshop.html

Linkage Disequilibria Analysis of Multilocus Multiallelic Markers in Outcrossing Populations . Invited presenter

at the World Congress of Gene, Guangzhou, China, December 2008. slides: WorldCongressGene.pdf

Resampling the Bispectrum . Invited talk presented at the workshop on Bootstrap and Time Series" in

Kaiserslautern, Germany, June 2008. slides: BootTime.pdf

National

A Bootstrap Test for Time Series Linearity . Invited talk at Conference on Resampling Methods and High

Dimensional Data in College Station, TX March 24 March 25, 2010. slides: AM.pdf

Improving the Kaplan-Meier Estimator . Invited talk at the 2009 AMS Sectional Meeting on Recent Advances

in Probability and Statistics at Florida Atlantic University in Boca Raton, FL October 30 November 1, 2009.

slides: AMS-FAU.pdf

A New Use of Group Representation Theory in Statistics". Contributed presenter at the 2009 AMS Sectional

Meeting at Penn State University in University Park, PA October 24 25, 2009. slides: AMS-PSU.pdf

Nonparametric Function Estimation with In nite-Order Kernels . Invited talk presented at SIAM-SEAS Special

Session on Recent Developments on Empirical Likelihood and Nonparametric Statistics" at the University of

Central Florida, March 2008. slides: SIAM-UCF.pdf

Nonparametric Estimation at a Semiparametric Rate . Invited presenter at the SRCOS conference on Modern

Semiparametric Methods in Action in Charleston, SC, June 2008. slides: SRCOS.pdf

An Epistatic Model for Mapping Phenotypic Plasticity of a Count Trait". Talk presented at ENAR, in Arlington,

VA, March 2008. slides: ENAR08.pdf

Regional o campus

Empirical Bayes Inference Made Robust: picking up where James-Stein left o . Invited talk presented at

Temple University, September 7, 2012. slides: Temple.pdf

Standing Between a Bayesian and a Frequentist: An Emperical Bayes Exploration of Movies, Baseball, and

7/12

Long Beach Basketball . Invited talk presented at California State University, Long Beach (Long Beach, CA),

March 2011. slides: beach.arthurberg.com

Standing Between a Bayesian and a Frequentist: An Emperical Bayes Exploration of Movies, Baseball, and

Williams College . Invited talk presented at Williams College (Williamstown, MA), January 2011. slides:

williams.arthurberg.com

Multiple Estimation Bias Adjustment with Application to GWAS . Invited talk presented at the University of

Arizona (Tucson, AZ), October 2010. slides: UA.pdf

Variety s the very spice of life, That gives it all its avor. Invited talk presented at Student Colloquium Series

in the Mathematics Department at Bucknell University, Lewisburg, PA, March 2010. slides: Bucknell.pdf

Constructing Gene Expression Networks . Invited talk given at Penn State University, Department of Public

Health Sciences, Hershey, PA, April 2009. slides: PSU-Biostat.pdf

Nonparametric Estimation at a Nearly Parametric Rate". Invited talk presented at the UF/FSU Joint

Colloquium in Tallahassee, FL, April 2008. slides: FSU.pdf

Density Estimation of IID, Dependent, and Censored Data . Presentations at Cal Poly Pomona (Pomona,

CA) and Cal Poly (San Luis Obispo, CA) March 2007.

Nonparametric Function Estimation with In nite-Order Kernels and Applications". Presentations at UF

(Gainesville, FL), Tulane (New Orleans, LA), UNL (Lincoln, NE), UNLV (Las Vegas, NV), February 2007.

A Statistical Journey through Historic Haverford . Presentation at Haverford College, Haverford, PA, January

2007. slides: Haverford.pdf

Density Estimation of IID, Dependent, and Censored Data via Flat-Top Kernels . Talk presented at the

Conference on Current Research and Applications of Statistical Methodology San Deigo Chapter of the ASA,

Second Annual One-Day Conference, November 17, 2006.

Regional on campus

Presentations for the MD/PhD students. January 17, 2013.

"The Brainchild of Bayes and Fisher: Empirical Bayes Methodology". Penn State Biostatistics & Bioinformatics

Divisional Seminar, to be presented in February, 2013.

"Medical Genetics". Introduction to Patient Oriented Research class presentation. September 14, 2012. Prezi

(interactive) slides: http://bit.ly/UkpB0X

"Biostatistics & Bioinformatics at PSU College of Medicine" Public Health Sciences graduate student presenta-

tion. August 23, 2012. slides: PHSgrads2012.pdf

"Biomedical Informatics Program Update". Presentation to the CTSI External Advisory Board. April 17, 2012.

"Reproducible Research for Biostatisticians". Public Health Sciences Seminar Biostatistics & Bioinformatics

Division. January 19, 2012. slides: ReproducibleResearch.pdf

"Medical Genetics". Introduction to Patient Oriented Research class presentation. December 9, 2011. slides:

IPOR2011.pdf

The Design and Analysis of Laboratory-Based Investigations". Neurosurgery Journal Club presentation. March

25, 2011. slides: StatDesign.pdf

The Art and Craft of Biostatistics in the Berg Lab . Invited presenter at the Penn State Cancer Institute

Molecular Epidemiology Working Group Meeting, November 15, 2010. slides: CI.pdf

My biostatistical collaborations with COM researchers . Short presentation for College of Medicine incoming

graduate students, August 16, 2010. slides: PSUCOM-grad.pdf

Statistical and Computational Pharmacogenomics . Short presentation at the Center for Pharmacogenetics

Workshop, Pennsylvania State University, University Park, PA, March 2010. slides: PSU-genet.pdf

Gene Expression Functional Clustering and Expression QTLs . Invited talk presented at the Statistics

Department Seminar Series at Pennsylvania State University, University Park, PA, February 2010. slides:

PSU-Stat.pdf

Clustering Gene Expressions . Invited talk presented at the Population Sciences Program Quarterly Meeting,

Penn State University, Hershey, PA, December 2009. slides: PSU-CI.pdf

A Bootstrapped Linearity Test . Invited talk presented at UF s Food and Resource Economics Seminar,

Gainesville, FL, March 2009. slides: UF-Econ.pdf

Recent Math Problems Arising in Statistics involving Generalized Functions, Group Representations, Inequalities,

and the Riemann Zeta Function". Invited talk at the Applied Math Seminar in the Department of Mathematics

8/12

at the University of Florida, April 2008. slides: UF-Math.pdf

Resources for Statisticians . Invited speaker at the Statistics Student Seminar at UF, Gainesville, FL, November

2008. slides: UF-Stat-Student.pdf

Linear Models with R: A demonstration . Talk presented for a linear models course at UCSD (La Jolla, CA),

April 2007. slides: Regression.pdf

Other Conferences Attended

EMBL-EBI Roadshow, Chicago, IL (October, 2012) (intended)

ENAR 2012 Spring Meeting, Washington DC (April, 2012)

"Bayesian Adaptive Methods for Clinical Trials" (full-day ENAR workshop), Washington DC (April, 2012)

"First Short Course on Next-Gen Sequencing: Technology and Statistical Methods", Birmingham, AL (December,

2011)

Symposium on Large-Scale Inference, Silver Spring, MD (October, 2011)

First Joint Biostatistics Symposium, Beijing Renmin University, Beijing, China (July, 2010)

An International Conference in Honor of P.L. Hsu s 100th Birthday, Beijing China (July, 2010)

Frontiers in Mathematical Biology: NSF-NIH PIs Meeting 2010, Washington, DC (April, 2010)

American Association for Cancer Research 101st Annual Meeting, Washington, DC (April, 2010)

Penn State Cancer Institute Mini-Symposium, Frontiers in the Interface between Statistics and Genetics,

Hershey, PA (Co-organizer, Session Chair) (February, 2010)

Winter Workshop on Semiparametric Methodology, Gainesville, FL (January, 2009)

Princeton Day of Statistics, Princeton, NJ (April, 2008)

K-State Applied Statistics Conference, Manhattan, KS (April, 2008)

Florida Chapter Meeting of the American Statistical Association, Gainesville, FL (2008)

Winter Workshop on Bayesian Model Selection and Objective Methods, Gainesville, FL (Session Chair)

(January, 2008)

University of Florida College of Agricultural and Life Sciences Teaching Symposium (August, 2007)

AAP Workshop on Parallel Programming at the San Diego Supercomputer Center, San Diego, CA (February,

2006)

UCSD All-Grad Research Symposium (February, 2005, 2006, 2007)

Lenstra Treurfeest, MSRI, Berkeley, CA (March, 2003)

Southern California Probability Symposium Annual Conferences (December, 2002, 2003, 2004)

Graduate Committees/Directed Studies

PSU=Penn State; UF=University of Florida

Ph.D. Committees

Joel Cobel (PSU Biomedical Sciences), Distal arthrogryposis type 1 and MyBPC1, comprehensive exam on

June 14, 2012 and June 28, 2012.

Wei Sun (PSU Statistics), Feature Screening and Variable Selection in Ultra-High Dimensional Survival Data

Analysis, advanced December 7, 2011.

Xiaobo Li (UF Forestry and Statistics Co-PhD), Association Mapping for Wood Property Traits of Loblolly

Pine using SNP Markers, defended May 18, 2009.

Qin Li (UF Statistics), Statistical Models for Haplotyping Complex Inherited Diseases in Humans, defended

July 2, 2009.

Yao Li (UF Statistics), Statistical Designs and Algorithms for Modeling the Genetic Architecture of Cancer

Susceptibility, defended July 1, 2009.

Xinxin Zhang (UF Economics), Modeling Yield Loss and Catastrophic Risk in Florida Citrus Industry, advanced

June 12, 2009.

Master s Committees

Hong Li, (UF Statistics) Committee Chair, Sequencing Tumor Growth with HapMap, defended 12/25/08.

Guifang Fu, (UF Statistics) Committee Chair, QTL Mapping on Shape, defended 11/24/08.

Nasha Wang, (UF Statistics) Committee Chair, Functional Interval Mapping of Quantitative Trait Loci

9/12

(QTL) in Tumor Cell Growth, defended 12/16/08.

Shuguang Tan (UF Statistics) On L1 Regularization Path Algorithm for GLMs, defended 6/11/09.

Jiahan Li, (UF Statistics) A Statistical Model for Mapping Quantitative Trait Loci in Autotetraploids, defended

10/20/08.

Liming Qu, (UF Statistics) Tolerance Interval and its application, defended 8/19/08.

Sharon Wen, (UF Statistics) Detection of genetic imprinting e ect expressed by multilocus haplotypes, defended

7/28/08.

Hao Zheng, (UF Statistics) Treatments of Ties in the Sign Test, defended 7/22/08.

Jiang Liu, (UF Statistics), Functional Mapping of Quantitative Trait Loci Regulating Pharmacokinetics and

Pharmacodynamics by Using Fentanyl Addiction as an Example, defended 7/10/08.

Anhui Huang (UF Soil & Water) Characterization of Arsenic Resistant Bacterial Communities in the Rhizosphere

of an Arsenic Hyperaccumulator Pteris Vittata L., defended 10/31/08.

Directed Independent Studies/Internships

Che-Shun Chang (UF Statistics Graduate Student), Regression and Multilevel/Hierarchical Models (Summer

2009)

Steve Chung (UF Statistics Graduate Student), Applied Time Series Methods (Spring 2009)

Alex Savenkov (UF Statistics Graduate Student), Time Series Analysis and Applications (Fall 2008)

Yanqing Yan (UF Genetics Graduate Student), Functional Mapping of Quantitative Trait Loci (Fall 2008)

Guifang Fu (UF Mathematics Graduate Student), Statistical Genetics of Quantitative Traits (Spring 2008)

Yingxia Wan (UF Statistics Graduate Student), Subsampling the Bispectrum (Fall 2007)

Directed Internships

Heather Connelly (a senior at Ursinus College), Earthquake Statistics (Summer 2010)

Allshine Chen (Penn State), Summer Internship (Summer 2012)

Courses Taught

Penn State

PHS 528: Bayesian Methods (will teach in Spring 2013)

PHS 525: Biostatistics for Lab Scientists (Spring 2011, Spring 2012; will teach again in Spring 2013)

PHS 516/STA 597E: Statistical Genetics (Spring 2010)

University of Florida

STA 5325/STA 4321: Introduction to Probability (Fall 2008, Spring 2009)

STA 5856/STA 4853: Introduction to Time Series and Forecasting (Spring 2008)

STA 6857: Applied Time Series Analysis (Fall 2007)

University of California, San Diego

MATH 10B: Second Semester Calculus (Winter 2007)

Miramar College

MATH 119: Elementary Statistics: Elementary Statistics (Fall 2005)

MATH 96: Intermediate Algebra and Geometry (Spring 2006)

MATH 252: Calculus with Analytic Geometry III (Summer 2006)

Teaching Assistant

Three years (6 semesters) as a Teaching Assistant in the Department of Mathematics at USC.

Five years (14 quarters) as a Teaching Assistant in the Department of Mathematics at UCSD.

Awards

2008 University of Florida Institute of Food and Agricultural Sciences Research Innovation Award

UCSD Math department s 2005-2006 Outstanding TA award for exceptional contributions to the department s

instructional e orts"

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Service

Present

Member, IT Research Computing & Informatics Advisory Council, January 2013 present

Member, Data Management Planning Committee, September 2012 March 2013

Member, Public Health Sciences Executive Committee, September 2012 present

Member, Research Team, Penn State College of Medicine, August 2012 present

Member, Penn State s Global Engagement Network Committee to Partnership with Peking University, June,

2012 present

Member, Institutional Review Board (Board A), January, 2010 present

Member, College of Medicine Scienti c Review Committee, July, 2010 present

Member, Penn State Cancer Institute Scienti c Review Committee, June, 2010 present

Member, Research Computing Advisory Committee, September, 2009 present

Member, Research Use of Clinical Data Committee, September, 2011 present

Member, Research Informatics Advisory Group, January, 2010 June, 2010

Bioinformatics Search Committee at Penn State, 2012-2013

IT Manager III Search Committee, 2012

Guest Editor, Computational and Mathematical Methods in Medicine, 2012-2013

Review Editor, Frontiers in Statistical Genetics and Methodology, September, 2011 present

Board of Editors, Oriental Journal of Statistical Methods, Theory and Applications, January, 2010 present

Board of Editors, Journal of Fundamental and Applied Statistics, November, 2010 present

Previous

Bioinformatics Search Committee at Penn State, 2011-2012

Biostatistics Search Committee at Penn State, 2010-2011

Member, Penn State College of Medicine Research Informatics Advisory Group, January, 2010 June, 2010

Organizer of the "Nonparametric Statistical Genetics" section of the First conference of the International

Society for NonParametric Statistics (ISNPS), June 15-19, 2012.

Co-Organizer of the mini-symposium on Frontiers in the Interface between Statistics and Genetics at Penn

State University, February 25, 2010.

Seminar Chair, Department of Statistics, University of Florida, 2007-2009

Search Committee for Statistical Consultant at the University of Florida, 2008

Graduate Student Representative for UCSD Math Department, 2006-2007

Reviewing Services

Computational Statistics & Data Analysis (January 2013)

PLoS ONE (June 2012)

PLoS Genetics (May, 2012)

Electronic Journal of Statistics (June 2011, May 2012)

BMC Bioinformatics (September 2011)

PLoS ONE (June 2009, September 2010, August 2011)

Bioinformatics (September 2010, March 2011)

Entropy Journal (June 2010)

Statistical Applications in Genetics and Molecular Biology (April 2010, August 2010)

BMC Proceedings (August, 2010)

Journal of Probability and Statistics (June 2010, August 2010)

Dutch Digestive Foundation (August, 2010)

Diseases of the Colon & Rectum (May, 2010)

Statistics in Medicine (March 2010)

Communications in Statistics Simulation and Computation (January 2010)

Journal of the American College of Surgeons (January, 2010)

American Society of Colon & Rectal Surgeons: Limited Project Grant (January, 2010)

Journal of the American Statistical Association (December 2009)

International Journal of Plant Genomics (September 2009)

11/12

Theoretical and Applied Genetics (August 2009)

Journal of Biopharmaceutical Statistics (July 2009)

Annals of Applied Statistics (November 2008)

Communications in Statistics Theory and Methods (September 2008)

Journal of Applied Probability and Statistics (August 2007)

Miscellanious

Pro cient in Mandarin Chinese

Avid piano player volunteer Center Stage performer (main entrance of the hospital)

Community-engaged athletics Penn State Hershey Badminton Club, Middletown Table Tennis Club

12/12

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