Gene Transfer from Bacteria and Archaea Facilitated Evolution of an Extremophilic Eukaryote

EvolView, an online tool for visualizing, annotating and managing phylogenetic trees

(2012) Huangkai Zhang et al.   NUCLEIC ACIDS RESEARCH

Arsenic biomethylation by photosynthetic organisms

(2012) Jun Ye et al.   TRENDS IN PLANT SCIENCE

Large-Scale Phylogenomic Analyses Indicate a Deep Origin of Primary Plastids within Cyanobacteria

(2011) Alexis Criscuolo et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ecology drives a global network of gene exchange connecting the human microbiome

(2011) Chris S. Smillie et al.   NATURE

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Using the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures

(2011) Jean-Francois Taly et al.   Nature Protocols

Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes

(2011) Todd J. Treangen et al.   PLoS Genetics

The evolution of gene duplications: classifying and distinguishing between models

(2010) Hideki Innan et al.   NATURE REVIEWS GENETICS

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

TransportTP: A two-phase classification approach for membrane transporter prediction and characterization

(2009) Haiquan Li et al.   BMC BIOINFORMATICS

Functional and ecological impacts of horizontal gene transfer in eukaryotes

(2009) Patrick J Keeling   CURRENT OPINION IN GENETICS & DEVELOPMENT

KEGG for representation and analysis of molecular networks involving diseases and drugs

(2009) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2009) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Universal Protein Resource (UniProt) in 2010

(2009)   NUCLEIC ACIDS RESEARCH

Reliability and applications of statistical methods based on oligonucleotide frequencies in bacterial and archaeal genomes

(2008) Jon Bohlin et al.   BMC GENOMICS

The Phaeodactylum genome reveals the evolutionary history of diatom genomes

(2008) Chris Bowler et al.   NATURE

Horizontal gene transfer in eukaryotic evolution

(2008) Patrick J. Keeling et al.   NATURE REVIEWS GENETICS

The Transporter Classification Database: recent advances

(2008) M. H. Saier et al.   NUCLEIC ACIDS RESEARCH

InterPro: the integrative protein signature database

(2008) S. Hunter et al.   NUCLEIC ACIDS RESEARCH

Discovery of sarcosine dimethylglycine methyltransferase fromGaldieria sulphuraria

(2008) Jason G. McCoy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Concerted gene recruitment in early plant evolution

(2008) Jinling Huang et al.   GENOME BIOLOGY