Superfund Research Program

Jason H. Moore

Dartmouth College
7937 Rubin Building
One Medical Center Drive
Lebanon, New Hampshire 03756-1000
Phone: 603-653-9939
Fax: 603-653-9900
Email: Jason.H.Moore@dartmouth.edu

Projects

• Dartmouth College: Integrative Biology Core (2008-2014)

Publications

2017

• Huang J, Liu Y, Vitale S, Penning TM, Whitehead A, Blair IA, Vachani A, Clapper M, Muscat JE, Lazarus P, Scheet P, Moore JH, Chen Y. 2017. On meta- and mega-analyses for gene-environment interactions. Genet Epidemiol 41:876-886. doi:10.1002/gepi.22085 PMID:29110346

2015

• Andrew AS, Gui J, Hu T, Wyszynski A, Marsit CJ, Kelsey KT, Schned AR, Tanyos SA, Pendleton EM, Ekstrom RM, Li Z, Zens MS, Borsuk M, Moore JH, Karagas MR. 2015. Genetic polymorphisms modify bladder cancer recurrence and survival in a USA population-based prognostic study. BJU Int 115(2):238-247. doi:10.1111/bju.12641 PMID:24666523 PMCID:PMC4533837
• Andrew AS, Marsit CJ, Schned AR, Seigne JD, Kelsey KT, Moore JH, Perreard L, Karagas MR, Sempere LF. 2015. Expression of tumor suppressive microRNA-34a is associated with a reduced risk of bladder cancer recurrence. Int J Cancer 137(5):1158-1166. doi:10.1002/ijc.29413 PMID:25556547 PMCID:PMC4485975

2014

• Koestler DC, Li J, Baron JA, Tsongalis GJ, Butterly LF, Goodrich M, Lesseur C, Karagas MR, Marsit CJ, Moore JH, Andrew AS, Srivastava A. 2014. Distinct patterns of DNA methylation in conventional adenomas involving the right and left colon. Mod Pathol 27:145-155. doi:10.1038/modpathol.2013.104 PMID:23868178 PMCID:PMC3880603
• Pan Q, Hu T, Malley JD, Andrew AS, Karagas MR, Moore JH. 2014. A system-level pathway-phenotype association analysis using synthetic feature random forest. Genet Epidemiol 38:209-219. doi:10.1002/gepi.21794 PMID:24535726 PMCID:PMC4327826
• Payne JL, Moore JH, Wagner A. 2014. Robustness, evolvability, and the logic of genetic regulation. Artif Life 20:111-126. doi:10.1162/ARTL_a_00099 PMID:23373974 PMCID:PMC4226432

2013

• Collins RL, Hu T, Wejse C, Sirugo G, Williams SM, Moore JH. 2013. Multifactor dimensionality reduction reveals a three-locus epistatic interaction associated with susceptibility to pulmonary tuberculosis. BioData Min 6:doi:10.1186/1756-0381-6-4 PMID:23418869 PMCID:PMC3618340
• Gui J, Moore JH, Williams SM, Andrews PC, Hillege HL. 2013. A simple and computationally efficient approach to multifactor dimensionality reduction analysis of gene-gene interactions for quantitative traits. PLoS One 8(6):e66545. doi:10.1371/journal.pone.0066545 PMID:23805232 PMCID:PMC3689797
• Hoen AG, Gardner SN, Moore JH. 2013. Identification of SNPs associated with variola virus virulence. BioData Min 6:doi:10.1186/1756-0381-6-3 PMID:23410064 PMCID:PMC3599518
• Hu T, Andrew AS, Karagas MR, Moore JH. 2013. Statistical epistasis networks reduce the computational complexity of searching three-locus genetic models. Pac Symp Biocomput 397-408. doi:10.1142/9789814447973_0039 PMID:23424144 PMCID:PMC3587773
• Hu T, Chen Y, Kiralis JW, Collins RL, Wejse C, Sirugo G, Williams SM, Moore JH. 2013. An information-gain approach to detecting three-way epistatic interactions in genetic association studies. J Am Med Inform Assoc 20:630-636. doi:10.1136/amiajnl-2012-001525 PMID:23396514 PMCID:PMC3721169
• Hu T, Chen Y, Kiralis JW, Moore JH. 2013. ViSEN: methodology and software for visualization of statistical epistasis networks. Genet Epidemiol 37(3):283-285. doi:10.1002/gepi.21718 PMID:23468157 PMCID:PMC3758133
• Malley JD, Dasgupta A, Moore JH. 2013. The limits of p-values for biological data mining. BioData Min 6(1):10. doi:10.1186/1756-0381-6-10 PMID:23663551 PMCID:PMC3668262
• Malley JD, Moore JH. 2013. The disconnect between classical biostatistics and the biological data mining community. BioData Min 6:doi:10.1186/1756-0381-6-12 PMID:23880104 PMCID:PMC3726458
• Moore JH, Ritchie MD. 2013. The central role of biological data mining in connecting diverse disciplines. BioData Min 6:doi:10.1186/1756-0381-6-14 PMID:23937773 PMCID:PMC3765075
• Pan Q, Hu T, Moore JH. 2013. Epistasis, complexity, and multifactor dimensionality reduction. Methods Mol Biol 1019:465-477. doi:10.1007/978-1-62703-447-0_22 PMID:23756906
• Pechenick DA, Moore JH, Payne JL. 2013. The influence of assortativity on the robustness and evolvability of gene regulatory networks upon gene birth. Journal of Theoretical Biology 330:26-36. doi:10.1016/j.jtbi.2013.03.019 PMID:23542384 PMCID:PMC3672371
• Penrod NM, Moore JH. 2013. Key genes for modulating information flow play a temporal role as breast tumor coexpression networks are dynamically rewired by letrozole. BMC Med Genomics 6(Suppl2):doi:10.1186/1755-8794-6-S2-S2 PMID:23819860 PMCID:PMC3654875
• Rudd J, Moore JH, Urbanowicz RJ. 2013. A multi-core parallelization strategy for statistical significance testing in learning classifier systems. Evol Intell 6:127-134. doi:10.1007/s12065-013-0092-0 PMID:24358057 PMCID:PMC3864178
• Tsongalis GJ, Chao E, Hagenkord JM, Hambuch T, Moore JH. 2013. ioinformatics: what the clinical laboratorian needs to know and prepare for. Clin Chem 59:1301-1305. doi:10.1373/clinchem.2012.198226 PMID:23723312
• Urbanowicz RJ, Andrew AS, Karagas MR, Moore JH. 2013. Role of genetic heterogeneity and epistasis in bladder cancer susceptibility and outcome: a learning classifier system approach. J Am Med Inform Assoc 20:603-612. doi:10.1136/amiajnl-2012-001574 PMID:23444013 PMCID:PMC3721175
• Warren CA, van Opstal EJ, Riggins MS, Li Y, Moore JH. 2013. Vancomycin treatment's association with delayed intestinal tissue injury, clostridial overgrowth, and recurrence of Clostridium difficile infection in mice. Antimicrobial Agents and Chemotherapy 57:689-696. doi:10.1128/AAC.00877-12 PMID:23147742 PMCID:PMC3553708
• Williams SM, Moore JH. 2013. Big data analysis on autopilot. BioData Min 6:doi:10.1186/1756-0381-6-22 PMID:24314297 PMCID:PMC3878969

2012

• Andrew AS, Hu T, Gu J, Gui J, Ye Y, Marsit CJ, Kelsey KT, Schned AR, Tanyos SA, Pendleton EM, Mason RA, Morlock EV, Zens MS, Li Z, Moore JH, Wu X, Karagas MR. 2012. HSD3B and gene-gene interactions in a pathway-based analysis of genetic susceptibility to bladder cancer. PLoS One 7(12):e51301. doi:10.1371/journal.pone.0051301 PMID:23284679 PMCID:PMC3526593
• Karagas MR, Andrew AS, Nelson HH, Li Z, Punshon T, Schned AR, Marsit CJ, Morris J, Moore JH, Tyler AL, Gilbert-Diamond D, Guerinot ML, Kelsey KT. 2012. SLC39A2 and FSIP1 polymorphisms as potential modifiers of arsenic-related bladder cancer. Hum Genet 131:453-461. doi:10.1007/s00439-011-1090-x PMID:21947419 PMCID:PMC3278547
• Madan JC, Koestler DC, Stanton BA, Davidson L, Moulton LA, Housman ML, Moore JH, Guill MF, Morrison HG, Sogin ML, Hampton TH, Karagas MR, Palumbo PE, Foster JA, Hibberd PL, O'Toole GA. 2012. Serial analysis of the gut and respiratory microbiome in cystic fibrosis in infancy: Interactions between intestinal and respiratory tracts and impact of nutritional exposures. MBio 3(4):e00251-12. doi:10.1128/mBio.00251-12 PMID:22911969 PMCID:PMC3428694
• Sloan CD, Andrew AS, Gruber JF, Mwenda KM, Moore JH, Onega T, Karagas MR, Shi X, Duell EJ. 2012. Indoor and outdoor air pollution and lung cancer in New Hampshire and Vermont. Toxicol Environ Chem 94:605-615. doi:10.1080/02772248.2012.659930 PMID:24273369 PMCID:PMC3834966

2011

• Cowper-Sallari R, Cole MD, Karagas MR, Lupien M, Moore JH. 2011. Layers of epistasis: genome-wide regulatory networks and network approaches to genome-wide association studies. Wiley Interdisciplinary Reviews: Systems Biology and Medicine 3:513-526. doi:10.1002/wsbm.132 PMID:21197657 PMCID:PMC3062944
• Fan R, Zhong M, Wang S, Zhang Y, Andrew AS, Karagas MR, Chen H, Xiong M, Moore JH, Amos CI. 2011. Entropy-based information gain approaches to detect and to characterize gene-gene and gene-environment interactions/correlations of complex diseases. Genet Epidemiol 35(7):706-721. doi:10.1002/gepi.20621 PMID:22009792 PMCID:PMC3384547
• Gilbert-Diamond D, Moore JH. 2011. Analysis of gene-gene interactions. Chapter 1 in: Current Protocols in Human Genetics. Wiley,
• Gui J, Andrew AS, Andrews PC, Nelson HH, Kelsey KT, Karagas MR, Moore JH. 2011. A robust multifactor dimensionality reduction method for detecting gene-gene interactions with application to the genetic analysis of bladder cancer susceptibility. Annals of Human Genetics 75(1):20-28. doi:10.1111/j.1469-1809.2010.00624.x PMID:21091664 PMCID:PMC3057873 (Completed with ARRA Funds)
• Gui J, Moore JH, Kelsey KT, Marsit CJ, Karagas MR, Andrew AS. 2011. A novel survival multifactor dimensionality reduction method for detecting gene-gene interactions with application to bladder cancer prognosis. Hum Genet 129(1):101-110. doi:10.1007/s00439-010-0905-5 PMID:20981448 PMCID:PMC3255326 (Completed with ARRA Funds)
• Hu T, Sinnott-Armstrong NA, Kiralis JW, Andrew AS, Karagas MR, Moore JH. 2011. Characterizing genetic interactions in human disease association studies using statistical epistasis networks. BMC Bioinformatics 12:364. doi:10.1186/1471-2105-12-364 PMID:21910885 PMCID:PMC3215301 (Completed with ARRA Funds)

2010

• Greene CS, Himmelstein DS, Moore JH. 2010. A model free method to generate human genetics datasets with complex gene-disease relationships. Lecture Notes in Computer Science 6023:74-85. doi:10.1007/978-3-642-12211-8_7
• Greene CS, Himmelstein DS, Nelson HH, Kelsey KT, Williams SM, Andrew AS, Karagas MR, Moore JH. 2010. Enabling personal genomics with an explicit test of epistasis. Pac Symp Biocomput 327-36. doi:10.1142/9789814295291_0035 PMID:19908385 PMCID:PMC2916690
• Greene CS, Sinnott-Armstrong NA, Himmelstein DS, Park PJ, Moore JH, Harris BT. 2010. Multifactor dimensionality reduction for graphics processing units enables genome-wide testing of epistasis in sporadic ALS. Bioinformatics 26(5):694-695. doi:10.1093/bioinformatics/btq009 PMID:20081222 PMCID:PMC2828117
• Gui J, Andrew AS, Andrews PC, Nelson HA, Kelsey KT, Karagas MR, Moore JH. 2010. A simple and computationally efficient sampling approach to covariate adjustment for multifactor dimensionality reduction analysis of epistasis. Hum Hered 70:219-225. doi:10.1159/000319175 PMID:20924193 PMCID:PMC2982850

2009

• Andrew AS, Gui J, Sanderson A, Mason RA, Morlock EV, Schned AR, Kelsey KT, Marsit CJ, Moore JH, Karagas MR. 2009. Bladder cancer SNP panel predicts susceptibility and survival. Hum Genet 125(5-6):527-539. doi:10.1007/s00439-009-0645-6 PMID:19252927 PMCID:PMC2763504
• Greene CS, Gilmore JM, Kiralis J, Andrews PC, Moore JH. 2009. Optimal use of expert knowledge in ant colony optimization for the analysis of epistasis in human disease. Lecture Notes in Computer Science 5483/2009:92-103. doi:10.1007/978-3-642-01184-9_9
• Greene CS, Penrod NM, Kiralis J, Moore JH. 2009. Spatially uniform relieff (SURF) for computationally-efficient filtering of gene-gene interactions. BioData Min 2(1):5. doi:10.1186/1756-0381-2-5 PMID:19772641 PMCID:PMC2761303
• Greene CS, Penrod NM, Williams SM, Moore JH. 2009. Failure to replicate a genetic association may provide important clues about genetic architecture. PLoS One 4(6):e5639. doi:10.1371/journal.pone.0005639 PMID:19503614 PMCID:PMC2685469
• Pattin KA, Moore JH. 2009. Role for protein-protein interaction databases in human genetics. Expert Rev Proteomics 6(6):647-659. doi:10.1586/epr.09.86 PMID:19929610 PMCID:PMC2813729
• Sinnott-Armstrong NA, Greene CS, Cancare F, Moore JH. 2009. Accelerating epistasis analysis in human genetics with consumer graphics hardware. BMC Res Notes 2:149. doi:10.1186/1756-0500-2-149 PMID:19630950 PMCID:PMC2732631
• Sloan CD, Andrew AS, Duell EJ, Williams SM, Karagas MR, Moore JH. 2009. Genetic population structure analysis in New Hampshire reveals Eastern European ancestry. PLoS One 4(9):e6928. doi:10.1371/journal.pone.0006928 PMID:19738909 PMCID:PMC2734429

2008

• Andrew AS, Jewell DA, Mason RA, Whitfield ML, Moore JH, Karagas MR. 2008. Drinking-water arsenic exposure modulates gene expression in human lymphocytes from a US population. Environ Health Perspect 116(4):524-531. doi:10.1289/ehp.10861 PMID:18414638 PMCID:PMC2290973
• Andrew AS, Karagas MR, Nelson HH, Guarrera S, Polidoro S, Gamberini S, Sacerdote C, Moore JH, Kelsey KT, Demidenko E, Vineis P, Matullo G. 2008. DNA repair polymorphisms modify bladder cancer risk: a multi-factor analytic strategy. Cancer Epidemiol Biomarkers Prev 65(2):105-118. doi:10.1159/000108942 PMID:17898541 PMCID:PMC2857629
• Moore JH, Karagas MR, Andrew AS. 2008. Analysis of Complex Datasets. Chapter 16 in: Molecular Epidemiology of Chronic Diseases. John Wiley & Sons Ltd, West Sussex, United Kingdom. pp.207-222.
• Moore JH, Karagas MR, Andrew AS. 2008. Novel analytical methods for association studies. Chapter 12 in: Molecular Epidemiology: Applications in Cancer and Other Human Diseases. nforma Health Care, pp.169-187.

2006

• Andrew AS, Nelson HH, Kelsey KT, Moore JH, Meng AC, Casella DP, Tosteson TD, Schned AR, Karagas MR. 2006. Concordance of multiple analytical approaches demonstrates a complex relationship between DNA repair gene SNPs, smoking and bladder cancer susceptibility. Carcinogenesis 27(5):1030-1037. PMID:16311243