Statistical Multiple Alignment

[1]  Durbin,et al.  Biological Sequence Analysis , 1998 .

[2]  István Miklós,et al.  StatAlign: an extendable software package for joint Bayesian estimation of alignments and evolutionary trees , 2008, Bioinform..

[3]  J. Felsenstein Evolutionary trees from DNA sequences: A maximum likelihood approach , 2005, Journal of Molecular Evolution.

[4]  J. Felsenstein,et al.  Inching toward reality: An improved likelihood model of sequence evolution , 2004, Journal of Molecular Evolution.

[5]  István Miklós,et al.  A Probabilistic Model for Gene Content Evolution with Duplication, Loss, and Horizontal Transfer , 2005, RECOMB.

[6]  Yun S. Song,et al.  An Efficient Algorithm for Statistical Multiple Alignment on Arbitrary Phylogenetic Trees , 2003, J. Comput. Biol..

[7]  H. Munro,et al.  Mammalian protein metabolism , 1964 .

[8]  Emmanuel Roche,et al.  Finite-State Language Processing , 1997 .

[9]  J. Felsenstein,et al.  An evolutionary model for maximum likelihood alignment of DNA sequences , 1991, Journal of Molecular Evolution.

[10]  I. Holmes,et al.  Using guide trees to construct multiple-sequence evolutionary HMMs , 2003, ISMB.

[11]  Adam M. Novak,et al.  BigFoot: Bayesian alignment and phylogenetic footprinting with MCMC , 2009, BMC Evolutionary Biology.

[12]  István Miklós,et al.  Bayesian coestimation of phylogeny and sequence alignment , 2005, BMC Bioinformatics.

[13]  Ian Holmes,et al.  Evolutionary HMMs: a Bayesian approach to multiple alignment , 2001, Bioinform..

[14]  Jens Ledet Jensen,et al.  Recursions for statistical multiple alignment , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[15]  Michael Riley,et al.  Speech Recognition by Composition of Weighted Finite Automata , 1996, ArXiv.

[16]  T. Jukes CHAPTER 24 – Evolution of Protein Molecules , 1969 .

[17]  István Miklós,et al.  Bayesian Phylogenetic Inference under a Statistical Insertion-Deletion Model , 2003, WABI.