Published in Evol Bioinform Online on February 01, 2007
Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment? BMC Evol Biol (2008) 1.45
A hierarchical model for incomplete alignments in phylogenetic inference. Bioinformatics (2009) 0.76
The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol (1987) 266.90
The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res (1997) 175.36
A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol (1980) 113.75
BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol Biol Evol (1997) 17.52
Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees. Comput Appl Biosci (1997) 17.32
Molecular phylogenetics and the origins of placental mammals. Nature (2001) 8.42
A Hidden Markov Model approach to variation among sites in rate of evolution. Mol Biol Evol (1996) 8.35
Estimation of evolutionary distance between nucleotide sequences. Mol Biol Evol (1984) 5.39
A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates. Mol Biol Evol (1994) 5.26
Phylogenomics of eukaryotes: impact of missing data on large alignments. Mol Biol Evol (2004) 3.65
Phylogenetic inference based on matrix representation of trees. Mol Phylogenet Evol (1992) 3.47
An alternating least squares approach to inferring phylogenies from pairwise distances. Syst Biol (1997) 2.94
Missing data, incomplete taxa, and phylogenetic accuracy. Syst Biol (2003) 2.82
Clann: investigating phylogenetic information through supertree analyses. Bioinformatics (2004) 2.36
Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree. J Exp Zool B Mol Dev Evol (2005) 2.22
The evolution of supertrees. Trends Ecol Evol (2004) 2.21
Phylogenetic supertrees: Assembling the trees of life. Trends Ecol Evol (1998) 1.82
T-REX: reconstructing and visualizing phylogenetic trees and reticulation networks. Bioinformatics (2001) 1.65
Does adding characters with missing data increase or decrease phylogenetic accuracy? Syst Biol (1998) 1.41
Molecular phylogeny of Dictyostelium discoideum by protein sequence comparison. Proc Natl Acad Sci U S A (1990) 1.34
Efficient biased estimation of evolutionary distances when substitution rates vary across sites. Mol Biol Evol (2002) 1.14
A weighted least-squares approach for inferring phylogenies from incomplete distance matrices. Bioinformatics (2004) 1.00
Prokaryotic evolution and the tree of life are two different things. Biol Direct (2009) 2.17
T-REX: a web server for inferring, validating and visualizing phylogenetic trees and networks. Nucleic Acids Res (2012) 1.97
Branch lengths and support. Syst Biol (2003) 1.38
Exact and heuristic algorithms for the Indel Maximum Likelihood Problem. J Comput Biol (2007) 1.35
Inferring and validating horizontal gene transfer events using bipartition dissimilarity. Syst Biol (2010) 1.15
The performance of the Congruence Among Distance Matrices (CADM) test in phylogenetic analysis. BMC Evol Biol (2011) 1.11
Statistical analysis of systematic errors in high-throughput screening. J Biomol Screen (2005) 1.08
Systematic error detection in experimental high-throughput screening. BMC Bioinformatics (2011) 1.03
Evolutionary history of bacteriophages with double-stranded DNA genomes. Biol Direct (2007) 1.02
Properties of supertree methods in the consensus setting. Syst Biol (2007) 1.01
Ancestors 1.0: a web server for ancestral sequence reconstruction. Bioinformatics (2009) 1.01
A weighted least-squares approach for inferring phylogenies from incomplete distance matrices. Bioinformatics (2004) 1.00
Harvesting evolutionary signals in a forest of prokaryotic gene trees. Mol Biol Evol (2010) 0.98
Two effective methods for correcting experimental high-throughput screening data. Bioinformatics (2012) 0.97
Genetic structure of the white-footed mouse in the context of the emergence of Lyme disease in southern Québec. Ecol Evol (2013) 0.93
Armadillo 1.1: an original workflow platform for designing and conducting phylogenetic analysis and simulations. PLoS One (2012) 0.93
Of woods and webs: possible alternatives to the tree of life for studying genomic fluidity in E. coli. Biol Direct (2011) 0.90
Reconstruction of biogeographic and evolutionary networks using reticulograms. Syst Biol (2002) 0.86
Using clustering techniques to improve hit selection in high-throughput screening. J Biomol Screen (2006) 0.86
The use and validity of composite taxa in phylogenetic analysis. Syst Biol (2009) 0.83
Towards an accurate identification of mosaic genes and partial horizontal gene transfers. Nucleic Acids Res (2011) 0.83
Total evidence, average consensus and matrix representation with parsimony: what a difference distances make. Evol Bioinform Online (2007) 0.83
Evaluating phylogenetic congruence in the post-genomic era. Genome Biol Evol (2011) 0.83
A whole genome study and identification of specific carcinogenic regions of the human papilloma viruses. J Comput Biol (2009) 0.82
Incomplete distance matrices, supertrees and bat phylogeny. Mol Phylogenet Evol (2003) 0.80
Seeing the trees for the network: consensus, information content, and superphylogenies. Syst Biol (2007) 0.79
Using directed phylogenetic networks to retrace species dispersal history. Mol Phylogenet Evol (2012) 0.79
Detecting and overcoming systematic bias in high-throughput screening technologies: a comprehensive review of practical issues and methodological solutions. Brief Bioinform (2015) 0.78
Retrieving a mitogenomic mammal tree using composite taxa. Mol Phylogenet Evol (2010) 0.78
Canid hybridization: contemporary evolution in human-modified landscapes. Ecol Evol (2012) 0.78
Microsatellite analyses provide evidence of male-biased dispersal in the radiated tortoise Astrochelys radiata (Chelonia: Testudinidae). J Hered (2010) 0.78
A new efficient algorithm for inferring explicit hybridization networks following the Neighbor-Joining principle. J Bioinform Comput Biol (2014) 0.77
Weighted bootstrapping: a correction method for assessing the robustness of phylogenetic trees. BMC Evol Biol (2010) 0.77
An application of supertree methods to Mammalian mitogenomic sequences. Evol Bioinform Online (2010) 0.77
A statistical procedure to assess the significance level of barriers to gene flow. J Genet Genomics (2009) 0.76
Detecting genomic regions associated with a disease using variability functions and Adjusted Rand Index. BMC Bioinformatics (2011) 0.75
Using machine learning methods to predict experimental high-throughput screening data. Comb Chem High Throughput Screen (2010) 0.75