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Split-decomposition method

RAxML and FastTree: Comparing Two Methods for Large-Scale Maximum Likelihood Phylogeny Estimation

Kevin Liu, C. Randal Linder, Tandy Warnow

Phylogenetic and Complementation Analysis of a Single-Stranded DNA Binding Protein Family from Lactococcal Phages Indicates a Non-Bacterial Origin

Agnieszka K. Szczepankowska, Eric Prestel, [ ... ], Elena Bidnenko

An Alignment-Free Approach for Eukaryotic ITS2 Annotation and Phylogenetic Inference

Guillermin Agüero-Chapin, Aminael Sánchez-Rodríguez, [ ... ], Agostinho Antunes

Identification of a Conserved Anti-Apoptotic Protein That Modulates the Mitochondrial Apoptosis Pathway

Yu Zhang, Elisabet Johansson, [ ... ], Marshall W. Anderson

An α/β Hydrolase and Associated Per-ARNT-Sim Domain Comprise a Bipartite Sensing Module Coupled with Diverse Output Domains

Eugene V. Nadezhdin, Margaret S. Brody, Chester W. Price

MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons

Vincent Ranwez, Sébastien Harispe, Frédéric Delsuc, Emmanuel J. P. Douzery

Transcription Factor Binding Site Positioning in Yeast: Proximal Promoter Motifs Characterize TATA-Less Promoters

Ionas Erb, Erik van Nimwegen

Comprehensively Surveying Structure and Function of RING Domains from Drosophila melanogaster

Muying Ying, Xiaotian Huang, [ ... ], Kemin Jie

Transcriptome Sequencing of the Blind Subterranean Mole Rat, Spalax galili: Utility and Potential for the Discovery of Novel Evolutionary Patterns

Assaf Malik, Abraham Korol, [ ... ], Mark Band

Study on Phylogenetic Relationships, Variability, and Correlated Mutations in M2 Proteins of Influenza Virus A

Ly Le, Jacek Leluk

Identification and Characterization of NF-Y Transcription Factor Families in the Monocot Model Plant Brachypodium distachyon

Shuanghe Cao, Roderick W. Kumimoto, [ ... ], Ben F. Holt III

Improved Phylogenetic Analyses Corroborate a Plausible Position of Martialis heureka in the Ant Tree of Life

Patrick Kück, Francisco Hita Garcia, Bernhard Misof, Karen Meusemann

Markov Models of Amino Acid Substitution to Study Proteins with Intrinsically Disordered Regions

Adam M. Szalkowski, Maria Anisimova

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