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Arthur Berg

TitleAssociate Professor
InstitutionCollege of Medicine
DepartmentPublic Health Sciences
Address500 University Drive Hershey PA 17033
Mailbox: H147
Phone7175313039

 Overview 
 overview
PREFERRED TITLE/ROLE:

Associate Professor of Biostatistics and Bioinformatics
Director of the Bioinformatics Core
Director of the PhD program in Biostatistics
Leader of the Biomedical Informatics Program (CTSI)

SECONDARY APPOINTMENT(S)/ INSTITUTE(S)/ CENTER(S):

Department of Statistics
Department of Neurosurgery
Department of Surgery

Penn State Cancer Institute
Clinical and Translational Science Institute
Institute for Personalized Medicine

Center for Statistical Genetics

EDUCATION:

PhD, University of California, San Diego, 2007
MS, University of California, San Diego, 2005
MA, University of Southern California, 2002

WEBSITE:

http://cv.arthurberg.com


NARRATIVE:

Dr. Berg enjoys all aspects of biostatistics and bioinformatics, including methodological research, collaboration, and education. His general research interests include, but are not limited to, Computational Biology, Statistical Genetics, Time Series Analysis, Survival Analysis, Functional Smoothing, Bootstrap, Subsampling, Nonparametric Statistics, Density Estimation, Simulation, Bayesian Statistics, and Longitudinal Data Analysis. As a faculty member of Penn State’s Center for Statistical Genetics, Dr. Berg is passionate about unlocking the mysteries of DNA and its connection to human health. Located in the newly renovated Clinical and Translation Science Institute, Dr. Berg works in close proximity to clinical researchers allowing for convenient collaborations on grants and publications.


 Bibliographic 
 selected publications
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Canfield VA, Berg A, Peckins S, Wentzel SM, Ang KC, Oppenheimer S, Cheng KC. Molecular phylogeography of a human autosomal skin color locus under natural selection. G3 (Bethesda). 2013; 3(11):2059-67.
    View in: PubMed
  2. Connelly TM, Koltun WA, Berg AS, Hegarty JP, Brinton D, Deiling S, Poritz LS, Stewart DB. A single nucleotide polymorphism in the STAT5 gene favors colonic as opposed to small-bowel inflammation in Crohn's disease. Dis Colon Rectum. 2013 Sep; 56(9):1068-74.
    View in: PubMed
  3. Liao JG, McMurry T, Berg A. Prior robust empirical Bayes inference for large-scale data by conditioning on rank with application to microarray data. Biostatistics. 2014 Jan; 15(1):60-73.
    View in: PubMed
  4. Ashmore JH, Lesko SM, Muscat JE, Gallagher CJ, Berg AS, Miller PE, Hartman TJ, Lazarus P. Association of dietary and supplemental folate intake and polymorphisms in three FOCM pathway genes with colorectal cancer in a population-based case-control study. Genes Chromosomes Cancer. 2013 Oct; 52(10):945-53.
    View in: PubMed
  5. Lin Z, Hegarty JP, John G, Berg A, Wang Z, Sehgal R, Pastor DM, Wang Y, Harris LR, Poritz LS, Schreiber S, Koltun WA. NOD2 mutations affect muramyl dipeptide stimulation of human B lymphocytes and interact with other IBD-associated genes. Dig Dis Sci. 2013 Sep; 58(9):2599-607.
    View in: PubMed
  6. Foulds J, Russ C, Yu CR, Zou KH, Galaznik A, Franzon M, Berg A, Hughes JR. Effect of varenicline on individual nicotine withdrawal symptoms: a combined analysis of eight randomized, placebo-controlled trials. Nicotine Tob Res. 2013 Nov; 15(11):1849-57.
    View in: PubMed
  7. Liu G, Chen G, Sinoway LI, Berg A. Assessing the impact of the NIH CTSA program on institutionally sponsored clinical trials. Clin Transl Sci. 2013 Jun; 6(3):196-200.
    View in: PubMed
  8. Angstadt AY, Berg A, Zhu J, Miller P, Hartman TJ, Lesko SM, Muscat JE, Lazarus P, Gallagher CJ. The effect of copy number variation in the phase II detoxification genes UGT2B17 and UGT2B28 on colorectal cancer risk. Cancer. 2013 Jul 1; 119(13):2477-85.
    View in: PubMed
  9. Poritz LS, Sehgal R, Berg AS, Laufenberg L, Choi C, Williams ED. Chronic use of PPI and H2 antagonists decreases the risk of pouchitis after IPAA for ulcerative colitis. J Gastrointest Surg. 2013 Jun; 17(6):1027-31.
    View in: PubMed
  10. Sharma A, Madhunapantula SV, Gowda R, Berg A, Neves RI, Robertson GP. Identification of aurora kinase B and Wee1-like protein kinase as downstream targets of (V600E)B-RAF in melanoma. Am J Pathol. 2013 Apr; 182(4):1151-62.
    View in: PubMed
  11. Connelly TM, Sehgal R, Berg AS, Hegarty JP, Deiling S, Stewart DB, Poritz LS, Koltun WA. Mutation in TAGAP is protective of anal sepsis in ileocolic Crohn's disease. Dis Colon Rectum. 2012 Nov; 55(11):1145-52.
    View in: PubMed
  12. Stewart DB, Berg A, Hegarty J. Predicting recurrence of C. difficile colitis using bacterial virulence factors: binary toxin is the key. J Gastrointest Surg. 2013 Jan; 17(1):118-24; discussion p.124-5.
    View in: PubMed
  13. Tsetskhladze ZR, Canfield VA, Ang KC, Wentzel SM, Reid KP, Berg AS, Johnson SL, Kawakami K, Cheng KC. Functional assessment of human coding mutations affecting skin pigmentation using zebrafish. PLoS One. 2012; 7(10):e47398.
    View in: PubMed
  14. Popova EY, Xu X, DeWan AT, Salzberg AC, Berg A, Hoh J, Zhang SS, Barnstable CJ. Stage and gene specific signatures defined by histones H3K4me2 and H3K27me3 accompany mammalian retina maturation in vivo. PLoS One. 2012; 7(10):e46867.
    View in: PubMed
  15. Rotramel A, Poritz LS, Messaris E, Berg A, Stewart DB. PPI therapy and albumin are better predictors of recurrent Clostridium difficile colitis than choice of antibiotics. J Gastrointest Surg. 2012 Dec; 16(12):2267-73.
    View in: PubMed
  16. Ang KC, Ngu MS, Reid KP, Teh MS, Aida ZS, Koh DX, Berg A, Oppenheimer S, Salleh H, Clyde MM, Md-Zain BM, Canfield VA, Cheng KC. Skin color variation in Orang Asli tribes of Peninsular Malaysia. PLoS One. 2012; 7(8):e42752.
    View in: PubMed
  17. Clawson GA, Kimchi E, Patrick SD, Xin P, Harouaka R, Zheng S, Berg A, Schell T, Staveley-O'Carroll KF, Neves RI, Mosca PJ, Thiboutot D. Circulating tumor cells in melanoma patients. PLoS One. 2012; 7(7):e41052.
    View in: PubMed
  18. Foulds J, Veldheer S, Berg A. Electronic cigarettes: a response to Leelavathi and Das. Int J Clin Pract. 2012 Apr; 66(4):417-8.
    View in: PubMed
  19. Sehgal R, Berg A, Polinski JI, Hegarty JP, Lin Z, McKenna KJ, Stewart DB, Poritz LS, Koltun WA. Genetic risk profiling and gene signature modeling to predict risk of complications after IPAA. Dis Colon Rectum. 2012 Mar; 55(3):239-48.
    View in: PubMed
  20. 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. Dis Colon Rectum. 2012 Feb; 55(2):115-21.
    View in: PubMed
  21. Weisz J, Shearer DA, Murata E, Patrick SD, Han B, Berg A, Clawson GA. Identification 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 Biol Ther. 2012 Jan 15; 13(2):101-13.
    View in: PubMed
  22. Hou L, Wang L, Berg A, Qian M, Zhu Y, Li F, Deng M. Comparison and evaluation of network clustering algorithms applied to genetic interaction networks. Front Biosci (Elite Ed). 2012; 4:2150-61.
    View in: PubMed
  23. Yu W, Hegarty JP, Berg A, Kelly AA, Wang Y, Poritz LS, Franke A, Schreiber S, Koltun WA, Lin Z. PTPN2 is associated with Crohn's disease and its expression is regulated by NKX2-3. Dis Markers. 2012; 32(2):83-91.
    View in: PubMed
  24. Avella DM, Li G, Schell TD, Liu D, Zhang SS, Lou X, Berg A, Kimchi ET, Tagaram HR, Yang Q, Shereef S, Garcia LS, Kester M, Isom HC, Rountree CB, Staveley-O'Carroll KF. Regression of established hepatocellular carcinoma is induced by chemoimmunotherapy in an orthotopic murine model. Hepatology. 2012 Jan; 55(1):141-52.
    View in: PubMed
  25. Poritz LS, Sehgal R, Hartnett K, Berg A, Koltun WA. Tumor volume and percent positive lymph nodes as a predictor of 5-year survival in colorectal cancer. Surgery. 2011 Oct; 150(4):649-55.
    View in: PubMed
  26. Foulds J, Veldheer S, Berg A. Electronic cigarettes (e-cigs): views of aficionados and clinical/public health perspectives. Int J Clin Pract. 2011 Oct; 65(10):1037-42.
    View in: PubMed
  27. Lin Z, John G, Hegarty JP, Berg A, Yu W, Wang Y, Kelly AA, Peterson BZ, Poritz LS, Floros J, Koltun WA. Genetic variants and monoallelic expression of surfactant protein-D in inflammatory bowel disease. Ann Hum Genet. 2011 Sep; 75(5):559-68.
    View in: PubMed
  28. John G, Hegarty JP, Yu W, Berg A, Pastor DM, Kelly AA, Wang Y, Poritz LS, Schreiber S, Koltun WA, Lin Z. NKX2-3 variant rs11190140 is associated with IBD and alters binding of NFAT. Mol Genet Metab. 2011 Sep-Oct; 104(1-2):174-9.
    View in: PubMed
  29. Yu W, Hegarty JP, Berg A, Chen X, West G, Kelly AA, Wang Y, Poritz LS, Koltun WA, Lin Z. NKX2-3 transcriptional regulation of endothelin-1 and VEGF signaling in human intestinal microvascular endothelial cells. PLoS One. 2011; 6(5):e20454.
    View in: PubMed
  30. Sharma AK, Kline CL, Berg A, Amin S, Irby RB. The Akt inhibitor ISC-4 activates prostate apoptosis response protein-4 and reduces colon tumor growth in a nude mouse model. Clin Cancer Res. 2011 Jul 1; 17(13):4474-83.
    View in: PubMed
  31. Ramesh G, Berg A, Jayakumar C. Plasma netrin-1 is a diagnostic biomarker of human cancers. Biomarkers. 2011 Mar; 16(2):172-80.
    View in: PubMed
  32. Cupp J, Simmons Z, Berg A, Felgoise SH, Walsh SM, Stephens HE. Psychological health in patients with ALS is maintained as physical function declines. Amyotroph Lateral Scler. 2011 Jul; 12(4):290-6.
    View in: PubMed
  33. Berg A, Li N, Tong C, Wang Z, Berceli SA, Wu R. Functional mapping of expression quantitative trait loci that regulate oscillatory gene expression. Methods Mol Biol. 2011; 734:241-55.
    View in: PubMed
  34. Fu G, Luo J, Berg A, Wang Z, Li J, Das K, Li R, Wu R. A dynamic model for functional mapping of biological rhythms. J Biol Dyn. 2011 Jan; 5(1):84-101.
    View in: PubMed
  35. Sehgal R, Berg A, Figueroa R, Poritz LS, McKenna KJ, Stewart DB, Koltun WA. Risk factors for surgical site infections after colorectal resection in diabetic patients. J Am Coll Surg. 2011 Jan; 212(1):29-34.
    View in: PubMed
  36. Sehgal R, Berg A, Hegarty JP, Kelly AA, Lin Z, Poritz LS, Koltun WA. NOD2/CARD15 mutations correlate with severe pouchitis after ileal pouch-anal anastomosis. Dis Colon Rectum. 2010 Nov; 53(11):1487-94.
    View in: PubMed
  37. Chen G, Giambrone NE, Dluzen DF, Muscat JE, Berg A, Gallagher CJ, Lazarus P. Glucuronidation genotypes and nicotine metabolic phenotypes: importance of functional UGT2B10 and UGT2B17 polymorphisms. Cancer Res. 2010 Oct 1; 70(19):7543-52.
    View in: PubMed
  38. Jones NR, Spratt TE, Berg AS, Muscat JE, Lazarus P, 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 Epidemiol. 2011 Apr; 35(2):175-81.
    View in: PubMed
  39. Kim BR, McMurry T, Zhao W, Wu R, Berg A. Wavelet-based functional clustering for patterns of high-dimensional dynamic gene expression. J Comput Biol. 2010 Aug; 17(8):1067-80.
    View in: PubMed
  40. Fu G, Berg A, Das K, Li J, Li R, Wu R. A statistical model for mapping morphological shape. Theor Biol Med Model. 2010; 7:28.
    View in: PubMed
  41. Li Y, Berg A, Wu LR, Wang Z, Chen G, Wu R. Modeling the aneuploidy control of cancer. BMC Cancer. 2010; 10:346.
    View in: PubMed
  42. Ahn K, Luo J, Berg A, Keefe D, Wu R. Functional mapping of drug response with pharmacodynamic-pharmacokinetic principles. Trends Pharmacol Sci. 2010 Jul; 31(7):306-11.
    View in: PubMed
  43. Drost DR, Benedict CI, Berg A, Novaes E, Novaes CR, Yu Q, Dervinis C, Maia JM, Yap J, Miles B, Kirst M. Diversification in the genetic architecture of gene expression and transcriptional networks in organ differentiation of Populus. Proc Natl Acad Sci U S A. 2010 May 4; 107(18):8492-7.
    View in: PubMed
  44. Li N, McMurry T, Berg A, Wang Z, Berceli SA, Wu R. Functional clustering of periodic transcriptional profiles through ARMA(p,q). PLoS One. 2010; 5(4):e9894.
    View in: PubMed
  45. Lin M, Berg A, Wu R. Modeling the genetic etiology of pharmacokinetic-pharmacodynamic links with the ARMA process. J Biopharm Stat. 2010 Mar; 20(2):351-72.
    View in: PubMed
  46. Berg A, He Q, Shen Y, Chen Y, Huang M, Wu R. Trilocus disequilibrium analysis of multiallelic markers in outcrossing populations. Stat Appl Genet Mol Biol. 2010; 9:Article 16.
    View in: PubMed
  47. He Q, Berg A, Li Y, Vallejos CE, Wu R. Mapping genes for plant structure, development and evolution: functional mapping meets ontology. Trends Genet. 2010 Jan; 26(1):39-46.
    View in: PubMed
  48. Li Y, Berg A, Chang MN, Du P, Ahn K, Mauger D, Liao D, Wu R. A statistical model for genetic mapping of viral infection by integrating epidemiological behavior. Stat Appl Genet Mol Biol. 2009; 8:Article 38.
    View in: PubMed
  49. Wen S, Wang C, Berg A, Li Y, Chang MM, Fillingim RB, Wallace MR, Staud R, Kaplan L, Wu R. Modeling genetic imprinting effects of DNA sequences with multilocus polymorphism data. Algorithms Mol Biol. 2009; 4:11.
    View in: PubMed
  50. 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 Aug; 76(1):68-76.
    View in: PubMed
  51. Cheng Y, Berg A, Wu S, Li Y, Wu R. Computing genetic imprinting expressed by haplotypes. Methods Mol Biol. 2009; 573:189-212.
    View in: PubMed
  52. He Q, Shen Y, Chen Y, Zhou Y, Berg A, Wu R, Huang M. Development of 16 polymorphic simple sequence repeat markers for Lycoris longituba from expressed sequence tags. Mol Ecol Resour. 2009 Jan; 9(1):278-80.
    View in: PubMed
  53. Kim BR, Zhang L, Berg A, Fan J, Wu R. A computational approach to the functional clustering of periodic gene-expression profiles. Genetics. 2008 Oct; 180(2):821-34.
    View in: PubMed
  54. Brumback B, Berg A. On effect-measure modification: Relationships among changes in the relative risk, odds ratio, and risk difference. Stat Med. 2008 Aug 15; 27(18):3453-65.
    View in: PubMed
  55. Ma CX, Yu Q, Berg A, Drost D, Novaes E, Fu G, Yap JS, Tan A, Kirst M, Cui Y, Wu R. A statistical model for testing the pleiotropic control of phenotypic plasticity for a count trait. Genetics. 2008 May; 179(1):627-36.
    View in: PubMed
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