Roadblocked monotonic paths and the enumeration of coalescent histories for non-matching caterpillar gene trees and species trees
Tóm tắt
Từ khóa
Tài liệu tham khảo
Bonin, 2003, Lattice path matroids: enumerative aspects and Tutte polynomials, J. Combin. Theory Ser. A, 104, 63, 10.1016/S0097-3165(03)00122-5
Degnan, 2005
Degnan, 2015, There are no caterpillars in a wicked forest, Theor. Popul. Biol., 105, 17, 10.1016/j.tpb.2015.08.007
Degnan, 2009, Gene tree discordance, phylogenetic inference and the multispecies coalescent, Trends Ecol. Evol., 24, 332, 10.1016/j.tree.2009.01.009
Degnan, 2012, The probability distribution of ranked gene trees on a species tree, Math. Biosci., 235, 45, 10.1016/j.mbs.2011.10.006
Degnan, 2005, Gene tree distributions under the coalescent process, Evolution, 59, 24
Deng, 2015, The Riordan group and symmetric lattice paths, J. Shandong Univ., 50, 82
Disanto, 2015, Coalescent histories for lodgepole species trees, J. Comput. Biol., 22, 918, 10.1089/cmb.2015.0015
Disanto, 2016, Asymptotic properties of the number of matching coalescent histories for caterpillar-like families of species trees, IEEE/ACM Trans. Comput. Biol. Bioinform., 13, 913, 10.1109/TCBB.2015.2485217
Graham, 2008
Pamilo, 1988, Relationships between gene trees and species trees, Mol. Biol. Evol., 5, 568
Reuveni, 2014, Catalan's trapezoids, Probab. Engrg. Inform. Sci., 28, 353, 10.1017/S0269964814000047
Rosenberg, 2002, The probability of topological concordance of gene trees and species trees, Theor. Popul. Biol., 61, 225, 10.1006/tpbi.2001.1568
Rosenberg, 2013, Coalescent histories for caterpillar-like families, IEEE/ACM Trans. Comput. Biol. Bioinform., 10, 1253, 10.1109/TCBB.2013.123
Rosenberg, 2019, Enumeration of lonely pairs of gene trees and species trees by means of antipodal cherries, Adv. in Appl. Math., 102, 1, 10.1016/j.aam.2018.09.001
Rosenberg, 2010, Coalescent histories for discordant gene trees and species trees, Theor. Popul. Biol., 77, 145, 10.1016/j.tpb.2009.12.004
Rosenberg, 2008, Discordance of species trees with their most likely gene trees: the case of five taxa, Syst. Biol., 57, 131, 10.1080/10635150801905535
Stadler, 2012, A polynomial time algorithm for calculating the probability of a ranked gene tree given a species tree, Algorithms Mol. Biol., 7
Stanley, 1999
Stanley, 2015
Steel, 2016
Than, 2009, Species tree inference by minimizing deep coalescences, PLoS Comput. Biol., 5, 10.1371/journal.pcbi.1000501
Than, 2007, Confounding factors in HGT detection: statistical error, coalescent effects, and multiple solutions, J. Comput. Biol., 14, 517, 10.1089/cmb.2007.A010
Wu, 2012, Coalescent-based species tree inference from gene tree topologies under incomplete lineage sorting by maximum likelihood, Evolution, 66, 763, 10.1111/j.1558-5646.2011.01476.x