TY - JOUR AU - Amato, R. AU - Pinelli, M. AU - D'Andrea, D. AU - Miele, G. AU - Nicodemi, M. AU - Raiconi, G. AU - Cocozza, S. PY - 2010 DA - 2010// TI - A novel approach to simulate gene-environment interactions in complex diseases JO - BMC Bioinformatics VL - 11 UR - https://doi.org/10.1186/1471-2105-11-8 DO - 10.1186/1471-2105-11-8 ID - Amato2010 ER - TY - JOUR AU - Cardon, L. R. AU - Bell, J. I. PY - 2001 DA - 2001// TI - Association study designs for complex diseases JO - Nat Rev Genet VL - 2 UR - https://doi.org/10.1038/35052543 DO - 10.1038/35052543 ID - Cardon2001 ER - TY - JOUR AU - Risch, N. AU - Merikangas, K. PY - 1996 DA - 1996// TI - The future of genetic studies of complex human diseases JO - Science VL - 273 UR - https://doi.org/10.1126/science.273.5281.1516 DO - 10.1126/science.273.5281.1516 ID - Risch1996 ER - TY - JOUR AU - Maher, B. PY - 2008 DA - 2008// TI - Personal genomes: The case of the missing heritability JO - Nature VL - 456 UR - https://doi.org/10.1038/456018a DO - 10.1038/456018a ID - Maher2008 ER - TY - JOUR AU - Cordell, H. J. PY - 2002 DA - 2002// TI - Epistasis: what it means, what it doesn't mean, and statistical methods to detect it in humans JO - Hum Mol Genet VL - 11 UR - https://doi.org/10.1093/hmg/11.20.2463 DO - 10.1093/hmg/11.20.2463 ID - Cordell2002 ER - TY - JOUR AU - Moore, J. H. PY - 2005 DA - 2005// TI - A global view of epistasis JO - Nat Genet VL - 37 UR - https://doi.org/10.1038/ng0105-13 DO - 10.1038/ng0105-13 ID - Moore2005 ER - TY - JOUR AU - Tang, W. AU - Wu, X. AU - Jiang, R. AU - Li, Y. PY - 2009 DA - 2009// TI - Epistatic module detection for case-control studies: a Bayesian model with a Gibbs sampling strategy JO - PLoS Genet VL - 5 UR - https://doi.org/10.1371/journal.pgen.1000464 DO - 10.1371/journal.pgen.1000464 ID - Tang2009 ER - TY - JOUR AU - Zhang, Y. AU - Liu, J. S. PY - 2007 DA - 2007// TI - Bayesian inference of epistatic interactions in case-control studies JO - Nat Genet VL - 39 UR - https://doi.org/10.1038/ng2110 DO - 10.1038/ng2110 ID - Zhang2007 ER - TY - JOUR AU - Culverhouse, R. AU - Suarez, B. K. AU - Lin, J. AU - Reich, T. PY - 2002 DA - 2002// TI - A perspective on epistasis: limits of models displaying no main effect JO - Am J Hum Genet VL - 70 UR - https://doi.org/10.1086/338759 DO - 10.1086/338759 ID - Culverhouse2002 ER - TY - JOUR AU - Li, W. AU - Reich, J. PY - 2000 DA - 2000// TI - A complete enumeration and classification of two-locus disease models JO - Hum Hered VL - 50 UR - https://doi.org/10.1159/000022939 DO - 10.1159/000022939 ID - Li2000 ER - TY - JOUR AU - Cordell, H. J. PY - 2009 DA - 2009// TI - Detecting gene-gene interactions that underlie human diseases JO - Nat Rev Genet VL - 10 UR - https://doi.org/10.1038/nrg2579 DO - 10.1038/nrg2579 ID - Cordell2009 ER - TY - JOUR AU - Nelson, M. R. AU - Kardia, S. L. AU - Ferrell, R. E. AU - Sing, C. F. PY - 2001 DA - 2001// TI - A combinatorial partitioning method to identify multilocus genotypic partitions that predict quantitative trait variation JO - Genome Res VL - 11 UR - https://doi.org/10.1101/gr.172901 DO - 10.1101/gr.172901 ID - Nelson2001 ER - TY - JOUR AU - Ritchie, M. D. AU - Hahn, L. W. AU - Roodi, N. AU - Bailey, L. R. AU - Dupont, W. D. AU - Parl, F. F. AU - Moore, J. H. PY - 2001 DA - 2001// TI - Multifactor-dimensionality reduction reveals high-order interactions among estrogen-metabolism genes in sporadic breast cancer JO - Am J Hum Genet VL - 69 UR - https://doi.org/10.1086/321276 DO - 10.1086/321276 ID - Ritchie2001 ER - TY - JOUR AU - Culverhouse, R. AU - Klein, T. AU - Shannon, W. PY - 2004 DA - 2004// TI - Detecting epistatic interactions contributing to quantitative traits JO - Genet Epidemiol VL - 27 UR - https://doi.org/10.1002/gepi.20006 DO - 10.1002/gepi.20006 ID - Culverhouse2004 ER - TY - JOUR AU - Moore, J. H. AU - Gilbert, J. C. AU - Tsai, C. T. AU - Chiang, F. T. AU - Holden, T. AU - Barney, N. AU - White, B. C. PY - 2006 DA - 2006// TI - A flexible computational framework for detecting, characterizing, and interpreting statistical patterns of epistasis in genetic studies of human disease susceptibility JO - J Theor Biol VL - 241 UR - https://doi.org/10.1016/j.jtbi.2005.11.036 DO - 10.1016/j.jtbi.2005.11.036 ID - Moore2006 ER - TY - JOUR AU - Zheng, T. AU - Wang, H. AU - Lo, S. H. PY - 2006 DA - 2006// TI - Backward genotype-trait association (BGTA)-based dissection of complex traits in case-control designs JO - Hum Hered VL - 62 UR - https://doi.org/10.1159/000096995 DO - 10.1159/000096995 ID - Zheng2006 ER - TY - JOUR AU - Wang, Y. AU - Liu, X. AU - Robbins, K. AU - Rekaya, R. PY - 2010 DA - 2010// TI - AntEpiSeeker: detecting epistatic interactions for case-control studies using a two-stage ant colony optimization algorithm JO - BMC Res Notes VL - 3 UR - https://doi.org/10.1186/1756-0500-3-117 DO - 10.1186/1756-0500-3-117 ID - Wang2010 ER - TY - JOUR AU - Wan, X. AU - Yang, C. AU - Yang, Q. AU - Xue, H. AU - Tang, N. L. AU - Yu, W. PY - 2010 DA - 2010// TI - Predictive rule inference for epistatic interaction detection in genome-wide association studies JO - Bioinformatics VL - 26 UR - https://doi.org/10.1093/bioinformatics/btp622 DO - 10.1093/bioinformatics/btp622 ID - Wan2010 ER - TY - JOUR AU - Wan, X. AU - Yang, C. AU - Yang, Q. AU - Xue, H. AU - Fan, X. AU - Tang, N. L. AU - Yu, W. PY - 2010 DA - 2010// TI - BOOST: A fast approach to detecting gene-gene interactions in genome-wide case-control studies JO - Am J Hum Genet VL - 87 UR - https://doi.org/10.1016/j.ajhg.2010.07.021 DO - 10.1016/j.ajhg.2010.07.021 ID - Wan2010 ER - TY - CHAP AU - Zhang, X. AU - Zou, F. AU - Wang, W. PY - 2008 DA - 2008// TI - FastANOVA: an Efficient Algorithm for Genome-Wide Association Study BT - KDD ID - Zhang2008 ER - TY - CHAP AU - Zhang, X. AU - Zou, F. AU - Wang, W. PY - 2009 DA - 2009// TI - FastChi: an efficient algorithm for analyzing gene-gene interactions BT - Pac Symp Biocomput ID - Zhang2009 ER - TY - JOUR AU - Zhang, X. AU - Pan, F. AU - Xie, Y. AU - Zou, F. AU - Wang, W. PY - 2010 DA - 2010// TI - COE: a general approach for efficient genome-wide two-locus epistasis test in disease association study JO - J Comput Biol VL - 17 UR - https://doi.org/10.1089/cmb.2009.0155 DO - 10.1089/cmb.2009.0155 ID - Zhang2010 ER - TY - JOUR AU - Zhang, X. AU - Huang, S. AU - Zou, F. AU - Wang, W. PY - 2010 DA - 2010// TI - TEAM: efficient two-locus epistasis tests in human genome-wide association study JO - Bioinformatics VL - 26 UR - https://doi.org/10.1093/bioinformatics/btq186 DO - 10.1093/bioinformatics/btq186 ID - Zhang2010 ER - TY - JOUR AU - Jiang, X. AU - Neapolitan, R. E. AU - Barmada, M. M. AU - Visweswaran, S. AU - Cooper, G. F. PY - 2010 DA - 2010// TI - A fast algorithm for learning epistatic genomic relationships JO - AMIA Annu Symp Proc VL - 2010 ID - Jiang2010 ER - TY - CHAP AU - Neapolitan, R. E. PY - 2009 DA - 2009// BT - Probabilistic methods for bioinformatics: with an introduction to Bayesian networks ID - Neapolitan2009 ER - TY - JOUR AU - Jiang, X. AU - Barmada, M. M. AU - Visweswaran, S. PY - 2010 DA - 2010// TI - Identifying genetic interactions in genome-wide data using Bayesian networks JO - Genet Epidemiol VL - 34 UR - https://doi.org/10.1002/gepi.20514 DO - 10.1002/gepi.20514 ID - Jiang2010 ER - TY - JOUR AU - Chen, L. AU - Yu, G. AU - Miller, D. J. AU - Song, L. AU - Langefeld, C. AU - Herrington, D. AU - Liu, Y. AU - Wang, Y. PY - 2009 DA - 2009// TI - A Ground Truth Based Comparative Study on Detecting Epistatic SNPs JO - Proceedings (IEEE Int Conf Bioinformatics Biomed) VL - 1-4 ID - Chen2009 ER - TY - JOUR AU - Motsinger, A. A. AU - Ritchie, M. D. AU - Reif, D. M. PY - 2007 DA - 2007// TI - Novel methods for detecting epistasis in pharmacogenomics studies JO - Pharmacogenomics VL - 8 UR - https://doi.org/10.2217/14622416.8.9.1229 DO - 10.2217/14622416.8.9.1229 ID - Motsinger2007 ER - TY - JOUR AU - Zhang, X. AU - Huang, S. AU - Zou, F. AU - Wang, W. PY - 2011 DA - 2011// TI - Tools for efficient epistasis detection in genome-wide association study JO - Source Code Biol Med VL - 6 UR - https://doi.org/10.1186/1751-0473-6-1 DO - 10.1186/1751-0473-6-1 ID - Zhang2011 ER - TY - CHAP AU - Chen, C. C. AU - Schwender, H. AU - Keith, J. AU - Nunkesser, R. AU - Mengersen, K. AU - Macrossan, P. PY - 2011 DA - 2011// TI - Methods for Identifying SNP Interactions: A Review on Variations of Logic Regression, Random Forest and Bayesian Logistic Regression BT - IEEE/ACM Trans Comput Biol Bioinform ID - Chen2011 ER - TY - STD TI - An Alphabetic List Genetic Analysis Software[http://linkage.rockefeller.edu/soft] UR - http://linkage.rockefeller.edu/soft ID - ref31 ER - TY - STD TI - GEN2PHEN knowledge Centre[http://www.gen2phen.org/wiki/tools-considering-epistatic-effects] UR - http://www.gen2phen.org/wiki/tools-considering-epistatic-effects ID - ref32 ER - TY - JOUR AU - Ritchie, M. D. AU - Hahn, L. W. AU - Moore, J. H. PY - 2003 DA - 2003// TI - Power of multifactor dimensionality reduction for detecting gene-gene interactions in the presence of genotyping error, missing data, phenocopy, and genetic heterogeneity JO - Genet Epidemiol VL - 24 UR - https://doi.org/10.1002/gepi.10218 DO - 10.1002/gepi.10218 ID - Ritchie2003 ER - TY - JOUR AU - Motsinger-Reif, A. A. AU - Fanelli, T. J. AU - Davis, A. C. AU - Ritchie, M. D. PY - 2008 DA - 2008// TI - Power of grammatical evolution neural networks to detect gene-gene interactions in the presence of error JO - BMC Res Notes VL - 1 UR - https://doi.org/10.1186/1756-0500-1-65 DO - 10.1186/1756-0500-1-65 ID - Motsinger-Reif2008 ER - TY - JOUR AU - Chen, L. AU - Yu, G. AU - Langefeld, C. D. AU - Miller, D. J. AU - Guy, R. T. AU - Raghuram, J. AU - Yuan, X. AU - Herrington, D. M. AU - Wang, Y. PY - 2011 DA - 2011// TI - Comparative analysis of methods for detecting interacting loci JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-344 DO - 10.1186/1471-2164-12-344 ID - Chen2011 ER - TY - CHAP AU - Fritsch, A. AU - Ickstadt, K. PY - 2007 DA - 2007// TI - Comparing logic regression based methods for identifying SNP interactions BT - Bioinformatics Research and Development UR - https://doi.org/10.1007/978-3-540-71233-6_8 DO - 10.1007/978-3-540-71233-6_8 ID - Fritsch2007 ER - TY - JOUR AU - He, H. AU - Oetting, W. S. AU - Brott, M. J. AU - Basu, S. PY - 2009 DA - 2009// TI - Power of multifactor dimensionality reduction and penalized logistic regression for detecting gene-gene interaction in a case-control study JO - BMC Med Genet VL - 10 UR - https://doi.org/10.1186/1471-2350-10-127 DO - 10.1186/1471-2350-10-127 ID - He2009 ER - TY - JOUR AU - Wang, Y. AU - Liu, G. AU - Feng, M. AU - Wong, L. PY - 2011 DA - 2011// TI - An empirical comparison of several recent epistatic interaction detection methods JO - Bioinformatics VL - 27 UR - https://doi.org/10.1093/bioinformatics/btr512 DO - 10.1093/bioinformatics/btr512 ID - Wang2011 ER - TY - JOUR AU - Motsinger-Reif, A. A. AU - Dudek, S. M. AU - Hahn, L. W. AU - Ritchie, M. D. PY - 2008 DA - 2008// TI - Comparison of approaches for machine-learning optimization of neural networks for detecting gene-gene interactions in genetic epidemiology JO - Genet Epidemiol VL - 32 UR - https://doi.org/10.1002/gepi.20307 DO - 10.1002/gepi.20307 ID - Motsinger-Reif2008 ER - TY - JOUR AU - Jiang, X. AU - Neapolitan, R. AU - Barmada, M. AU - Visweswaran, S. PY - 2011 DA - 2011// TI - Learning genetic epistasis using Bayesian network scoring criteria JO - BMC Bioinformatics VL - 12 UR - https://doi.org/10.1186/1471-2105-12-89 DO - 10.1186/1471-2105-12-89 ID - Jiang2011 ER - TY - JOUR AU - Frankel, W. N. AU - Schork, N. J. PY - 1996 DA - 1996// TI - Who's afraid of epistasis? JO - Nat Genet VL - 14 UR - https://doi.org/10.1038/ng1296-371 DO - 10.1038/ng1296-371 ID - Frankel1996 ER - TY - JOUR AU - Winham, S. J. AU - Slater, A. J. AU - Motsinger-Reif, A. A. PY - 2010 DA - 2010// TI - A comparison of internal validation techniques for multifactor dimensionality reduction JO - BMC Bioinformatics VL - 11 UR - https://doi.org/10.1186/1471-2105-11-394 DO - 10.1186/1471-2105-11-394 ID - Winham2010 ER - TY - CHAP AU - Kilpatrick, J. R. PY - 2009 DA - 2009// BT - Methods for detecting multi-locus genotype-phenotype association ID - Kilpatrick2009 ER - TY - CHAP AU - Greene, C. S. AU - Himmelstein, D. S. AU - Nelson, H. H. AU - Kelsey, K. T. AU - Williams, S. M. AU - Andrew, A. S. AU - Karagas, M. R. AU - Moore, J. H. PY - 2010 DA - 2010// TI - Enabling personal genomics with an explicit test of epistasis BT - Pac Symp Biocomput: 2010 ID - Greene2010 ER - TY - JOUR AU - Dorigo, M. AU - Gambardella, L. M. PY - 1997 DA - 1997// TI - Ant colonies for the travelling salesman problem JO - Biosystems VL - 43 UR - https://doi.org/10.1016/S0303-2647(97)01708-5 DO - 10.1016/S0303-2647(97)01708-5 ID - Dorigo1997 ER - TY - JOUR AU - Li, H. AU - Gao, G. AU - Li, J. AU - Page, G. P. AU - Zhang, K. PY - 2007 DA - 2007// TI - Detecting epistatic interactions contributing to human gene expression using the CEPH family data JO - BMC Proc VL - 1 UR - https://doi.org/10.1186/1753-6561-1-s1-s67 DO - 10.1186/1753-6561-1-s1-s67 ID - Li2007 ER - TY - CHAP AU - Malaspinas, A. S. AU - Uhler, C. PY - 2010 DA - 2010// TI - Detecting epistasis via Markov bases BT - Arxiv preprint arXiv:10064929 ID - Malaspinas2010 ER - TY - JOUR AU - Albrechtsen, A. AU - Castella, S. AU - Andersen, G. AU - Hansen, T. AU - Pedersen, O. AU - Nielsen, R. PY - 2007 DA - 2007// TI - A Bayesian multilocus association method: allowing for higher-order interaction in association studies JO - Genetics VL - 176 UR - https://doi.org/10.1534/genetics.107.071696 DO - 10.1534/genetics.107.071696 ID - Albrechtsen2007 ER - TY - JOUR AU - Velez, D. R. AU - White, B. C. AU - Motsinger, A. A. AU - Bush, W. S. AU - Ritchie, M. D. AU - Williams, S. M. AU - Moore, J. H. PY - 2007 DA - 2007// TI - A balanced accuracy function for epistasis modeling in imbalanced datasets using multifactor dimensionality reduction JO - Genet Epidemiol VL - 31 UR - https://doi.org/10.1002/gepi.20211 DO - 10.1002/gepi.20211 ID - Velez2007 ER - TY - JOUR AU - Greene, C. S. AU - Penrod, N. M. AU - Williams, S. M. AU - Moore, J. H. PY - 2009 DA - 2009// TI - Failure to replicate a genetic association may provide important clues about genetic architecture JO - PLoS One VL - 4 UR - https://doi.org/10.1371/journal.pone.0005639 DO - 10.1371/journal.pone.0005639 ID - Greene2009 ER - TY - JOUR AU - Bartlett, M. S. PY - 1935 DA - 1935// TI - Contingency table interactions JO - Supplement to the Journal of the Royal Statistical Society VL - 2 UR - https://doi.org/10.2307/2983639 DO - 10.2307/2983639 ID - Bartlett1935 ER - TY - CHAP AU - Simpson, E. H. PY - 1951 DA - 1951// TI - The interpretation of interaction in contingency tables BT - Journal of the Royal Statistical Society Series B (Methodological) ID - Simpson1951 ER - TY - JOUR AU - Darroch, J. PY - 1974 DA - 1974// TI - Multiplicative and additive interaction in contingency tables JO - Biometrika VL - 61 UR - https://doi.org/10.1093/biomet/61.1.207 DO - 10.1093/biomet/61.1.207 ID - Darroch1974 ER - TY - JOUR AU - Akey, J. M. AU - Zhang, K. AU - Xiong, M. AU - Jin, L. PY - 2003 DA - 2003// TI - The effect of single nucleotide polymorphism identification strategies on estimates of linkage disequilibrium JO - Mol Biol Evol VL - 20 UR - https://doi.org/10.1093/molbev/msg032 DO - 10.1093/molbev/msg032 ID - Akey2003 ER - TY - STD TI - Computation Bioinformatics and Bioimaging Laboratory[http://www.cbil.ece.vt.edu/software.htm] UR - http://www.cbil.ece.vt.edu/software.htm ID - ref55 ER -