A novel substitution matrix fitted to the compositional bias in Mollicutes improves the prediction of homologous relationships

pROC: an open-source package for R and S+ to analyze and compare ROC curves

(2011) Xavier Robin et al.   BMC BIOINFORMATICS

Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods

(2009) Adrian M. Altenhoff et al.   PLoS Computational Biology

Life on Arginine for Mycoplasma hominis: Clues from Its Minimal Genome and Comparison with Other Human Urogenital Mycoplasmas

(2009) Sabine Pereyre et al.   PLoS Genetics

A novel series of compositionally biased substitution matrices for comparing Plasmodium proteins

(2008) Kevin Brick et al.   BMC BIOINFORMATICS

Genome bias influences amino acid choices: analysis of amino acid substitution and re-compilation of substitution matrices exclusive to an AT-biased genome

(2008) Umadevi Paila et al.   NUCLEIC ACIDS RESEARCH

The quest for orthologs: finding the corresponding gene across genomes

(2008) Arnold Kuzniar et al.   TRENDS IN GENETICS

Large-scale assignment of orthology: back to phylogenetics?

(2008) Toni Gabaldón   GENOME BIOLOGY