TY - BOOK AU - Koller, D. AU - Friedman, N. PY - 2009 DA - 2009// TI - Probabilistic Graphical Models: Principles and Techniques PB - MIT press CY - Cambridge ID - Koller2009 ER - TY - JOUR AU - Lauritzen, S. L. AU - Sheehan, N. A. PY - 2003 DA - 2003// TI - Graphical models for genetic analyses JO - Stat Sci VL - 18 UR - https://doi.org/10.1214/ss/1081443232 DO - 10.1214/ss/1081443232 ID - Lauritzen2003 ER - TY - JOUR AU - Ni, Y. AU - Stingo, F. C. AU - Baladandayuthapani, V. PY - 2014 DA - 2014// TI - Integrative Bayesian network analysis of genomic data JO - Cancer Informat VL - 13 ID - Ni2014 ER - TY - STD TI - Gronau I, Arbiza L, Mohammed J, Siepel A. Inference of natural selection from interspersed genomic elements based on polymorphism and divergence. Mol Biol Evol. 2013; 30(5). ID - ref4 ER - TY - JOUR AU - Touzet, H. AU - Varré, J. -. S. PY - 2007 DA - 2007// TI - Efficient and accurate p-value computation for Position Weight Matrices JO - Algoritm Mol Biol VL - 2 UR - https://doi.org/10.1186/1748-7188-2-15 DO - 10.1186/1748-7188-2-15 ID - Touzet2007 ER - TY - JOUR AU - Zhang, J. AU - Jiang, B. AU - Li, M. AU - Tromp, J. AU - Zhang, X. AU - Zhang, M. Q. PY - 2007 DA - 2007// TI - Computing exact p-values for DNA motifs JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btl662 DO - 10.1093/bioinformatics/btl662 ID - Zhang2007 ER - TY - JOUR AU - Melton, C. AU - Reuter, J. A. AU - Spacek, D. V. AU - Snyder, M. PY - 2015 DA - 2015// TI - Recurrent somatic mutations in regulatory regions of human cancer genomes JO - Nat Genet VL - 47 UR - https://doi.org/10.1038/ng.3332 DO - 10.1038/ng.3332 ID - Melton2015 ER - TY - JOUR AU - Siebert, M. AU - Söding, J. PY - 2016 DA - 2016// TI - Bayesian Markov models consistently outperform PWMs at predicting motifs in nucleotide sequences JO - Nucleic Acids Res VL - 44 UR - https://doi.org/10.1093/nar/gkw521 DO - 10.1093/nar/gkw521 ID - Siebert2016 ER - TY - JOUR AU - Pollard, K. S. AU - Hubisz, M. J. AU - Rosenbloom, K. R. AU - Siepel, A. PY - 2010 DA - 2010// TI - Detection of nonneutral substitution rates on mammalian phylogenies JO - Genome Res VL - 20 UR - https://doi.org/10.1101/gr.097857.109 DO - 10.1101/gr.097857.109 ID - Pollard2010 ER - TY - JOUR AU - Eddelbuettel, D. AU - François, R. AU - Allaire, J. AU - Chambers, J. AU - Bates, D. AU - Ushey, K. PY - 2011 DA - 2011// TI - Rcpp: Seamless R and C++ integration JO - J Stat Softw VL - 40 UR - https://doi.org/10.18637/jss.v040.i08 DO - 10.18637/jss.v040.i08 ID - Eddelbuettel2011 ER - TY - JOUR AU - Daniels, H. E. PY - 1954 DA - 1954// TI - Saddlepoint approximations in statistics JO - Ann Math Stat VL - 25 UR - https://doi.org/10.1214/aoms/1177728652 DO - 10.1214/aoms/1177728652 ID - Daniels1954 ER - TY - JOUR AU - Stojmirović, A. AU - Yu, Y. K. PY - 2010 DA - 2010// TI - Robust and accurate data enrichment statistics via distribution function of sum of weights JO - Bioinformatics VL - 26 UR - https://doi.org/10.1093/bioinformatics/btq511 DO - 10.1093/bioinformatics/btq511 ID - Stojmirović2010 ER - TY - JOUR AU - Hyrien, O. AU - Chen, R. AU - Mayer-Pröschel, M. AU - Noble, M. PY - 2010 DA - 2010// TI - Saddlepoint approximations to the moments of multitype age-dependent branching processes, with applications JO - Biometrics VL - 66 UR - https://doi.org/10.1111/j.1541-0420.2009.01281.x DO - 10.1111/j.1541-0420.2009.01281.x ID - Hyrien2010 ER - TY - BOOK AU - Frey, B. J. PY - 1998 DA - 1998// TI - Graphical Models for Machine Learning and Digital Communication PB - MIT press CY - Cambridge ID - Frey1998 ER - TY - JOUR AU - Kschischang, F. R. AU - Frey, B. J. AU - Loeliger, H. A. PY - 2001 DA - 2001// TI - Factor graphs and the sum-product algorithm JO - IEEE Trans Inf Theory VL - 47 UR - https://doi.org/10.1109/18.910572 DO - 10.1109/18.910572 ID - Kschischang2001 ER - TY - BOOK AU - Bishop, C. M. PY - 2006 DA - 2006// TI - Pattern Recognition and Machine Learning (Information Science and Statistics) PB - Springer CY - New York ID - Bishop2006 ER - TY - BOOK AU - Grinstead, C. M. AU - Snell, J. L. PY - 2012 DA - 2012// TI - Introduction to Probability, 2nd Edition PB - Am Math Soc CY - Providence ID - Grinstead2012 ER - TY - JOUR AU - Newberg, L. A. PY - 2009 DA - 2009// TI - Error statistics of hidden Markov model and hidden Boltzmann model results JO - BMC Bioinforma VL - 10 UR - https://doi.org/10.1186/1471-2105-10-212 DO - 10.1186/1471-2105-10-212 ID - Newberg2009 ER - TY - BOOK AU - Asmussen, S. AU - Glynn, P. W. PY - 2007 DA - 2007// TI - Stochastic Simulation: Algorithms and Analysis PB - Springer CY - New York ID - Asmussen2007 ER - TY - BOOK AU - Barndorff-Nielsen, O. E. AU - Cox, D. R. PY - 1989 DA - 1989// TI - Asymptotic Techniques for Use in Statistics PB - Chapman and Hall CY - Boca Raton UR - https://doi.org/10.1007/978-1-4899-3424-6 DO - 10.1007/978-1-4899-3424-6 ID - Barndorff-Nielsen1989 ER - TY - BOOK AU - Jensen, J. L. PY - 1995 DA - 1995// TI - Saddlepoint Approximations PB - Oxford University Press CY - Oxford ID - Jensen1995 ER - TY - JOUR AU - Jensen, J. L. PY - 2013 DA - 2013// TI - On a saddlepoint approximation to the Markov binomial distribution JO - Braz J Probab Stat VL - 27 UR - https://doi.org/10.1214/11-BJPS162 DO - 10.1214/11-BJPS162 ID - Jensen2013 ER - TY - JOUR AU - Isaacson, J. AU - Schwoebel, E. AU - Shcherbina, A. AU - Ricke, D. AU - Harper, J. AU - Petrovick, M. AU - Bobrow, J. AU - Boettcher, T. AU - Helfer, B. AU - Zook, C. PY - 2015 DA - 2015// TI - Robust detection of individual forensic profiles in DNA mixtures JO - Forensic Sci Int Genet VL - 14 UR - https://doi.org/10.1016/j.fsigen.2014.09.003 DO - 10.1016/j.fsigen.2014.09.003 ID - Isaacson2015 ER - TY - JOUR AU - González, J. AU - Wiberg, M. AU - von Davier, A. A. PY - 2016 DA - 2016// TI - A note on the Poisson’s binomial distribution in item response theory JO - Appl Psychol Meas VL - 40 UR - https://doi.org/10.1177/0146621616629380 DO - 10.1177/0146621616629380 ID - González2016 ER - TY - JOUR AU - Sellman, S. AU - Säterberg, T. AU - Ebenman, B. PY - 2016 DA - 2016// TI - Pattern of functional extinctions in ecological networks with a variety of interaction types JO - Theor Ecol VL - 9 UR - https://doi.org/10.1007/s12080-015-0275-7 DO - 10.1007/s12080-015-0275-7 ID - Sellman2016 ER - TY - JOUR AU - Hong, Y. PY - 2013 DA - 2013// TI - On computing the distribution function for the Poisson binomial distribution JO - Comput Stat Data Anal VL - 59 UR - https://doi.org/10.1016/j.csda.2012.10.006 DO - 10.1016/j.csda.2012.10.006 ID - Hong2013 ER - TY - JOUR AU - Mathelier, A. AU - Fornes, O. AU - Arenillas, D. J. AU - Chen, C. -. y. AU - Denay, G. AU - Lee, J. AU - Shi, W. AU - Shyr, C. AU - Tan, G. AU - Worsley-Hunt, R. PY - 2016 DA - 2016// TI - JASPAR 2016: A major expansion and update of the open-access database of transcription factor binding profiles JO - Nucleic Acids Res VL - 44 UR - https://doi.org/10.1093/nar/gkv1176 DO - 10.1093/nar/gkv1176 ID - Mathelier2016 ER - TY - JOUR AU - Rohs, R. AU - Jin, X. AU - West, S. M. AU - Joshi, R. AU - Honig, B. AU - Mann, R. S. PY - 2010 DA - 2010// TI - Origins of specificity in protein-DNA recognition JO - Ann Rev Biochem VL - 79 UR - https://doi.org/10.1146/annurev-biochem-060408-091030 DO - 10.1146/annurev-biochem-060408-091030 ID - Rohs2010 ER - TY - JOUR AU - Arratia, R. AU - Goldstein, L. AU - Gordon, L. PY - 1989 DA - 1989// TI - Two moments suffice for Poisson approximations: the Chen-Stein method JO - Ann Probab VL - 17 UR - https://doi.org/10.1214/aop/1176991491 DO - 10.1214/aop/1176991491 ID - Arratia1989 ER - TY - JOUR AU - Hobolth, A. AU - Jensen, J. L. PY - 2011 DA - 2011// TI - Summary statistics for endpoint-conditioned continuous-time Markov chains JO - Appl Probab, J VL - 48 UR - https://doi.org/10.1017/S0021900200008524 DO - 10.1017/S0021900200008524 ID - Hobolth2011 ER - TY - JOUR AU - Berry, A. C. PY - 1941 DA - 1941// TI - The accuracy of the gaussian approximation to the sum of independent variates JO - Trans Am Math Soc VL - 49 UR - https://doi.org/10.1090/S0002-9947-1941-0003498-3 DO - 10.1090/S0002-9947-1941-0003498-3 ID - Berry1941 ER - TY - JOUR AU - Huzurbazar, S. AU - Huzurbazar, A. V. PY - 1999 DA - 1999// TI - Survival and hazard functions for progressive diseases using saddlepoint approximations JO - Biometrics VL - 55 UR - https://doi.org/10.1111/j.0006-341X.1999.00198.x DO - 10.1111/j.0006-341X.1999.00198.x ID - Huzurbazar1999 ER - TY - JOUR AU - Koepfli, K. P. AU - Paten, B. AU - O’Brien, S. J. PY - 2015 DA - 2015// TI - The genome 10k project: A way forward JO - Annu Rev Anim Biosci VL - 3 UR - https://doi.org/10.1146/annurev-animal-090414-014900 DO - 10.1146/annurev-animal-090414-014900 ID - Koepfli2015 ER -