Efficient error correction algorithms for gene tree reconciliation based on duplication, duplication and loss, and deep coalescence

An ILP solution for the gene duplication problem

(2011) Wen-Chieh Chang et al.   BMC BIOINFORMATICS

Efficient genome-scale phylogenetic analysis under the duplication-loss and deep coalescence cost models

(2010) Mukul S Bansal et al.   BMC BIOINFORMATICS

A Bayesian Approach for Fast and Accurate Gene Tree Reconstruction

(2010) M. D. Rasmussen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome-Scale Phylogenetics: Inferring the Plant Tree of Life from 18,896 Gene Trees

(2010) J. Gordon Burleigh et al.   SYSTEMATIC BIOLOGY

Locating Large-Scale Gene Duplication Events through Reconciled Trees: Implications for Identifying Ancient Polyploidy Events in Plants

(2009) J.G. Burleigh et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

What Is the Danger of the Anomaly Zone for Empirical Phylogenetics?

(2009) Huateng Huang et al.   SYSTEMATIC BIOLOGY

Measuring Branch Support in Species Trees Obtained by Gene Tree Parsimony

(2009) Simon Joly et al.   SYSTEMATIC BIOLOGY

Species Tree Inference by Minimizing Deep Coalescences

(2009) Cuong Than et al.   PLoS Computational Biology