Mapping the Mutual Information Network of Enzymatic Families in the Protein Structure to Unveil Functional Features

Using Amino Acid Correlation and Community Detection Algorithms to Identify Functional Determinants in Protein Families

(2011) Lucas Bleicher et al.   PLoS One

Structural and Functional Roles of Coevolved Sites in Proteins

(2010) Saikat Chakrabarti et al.   PLoS One

Accurate Protein Structure Annotation through Competitive Diffusion of Enzymatic Functions over a Network of Local Evolutionary Similarities

(2010) Eric Venner et al.   PLoS One

Networks of High Mutual Information Define the Structural Proximity of Catalytic Sites: Implications for Catalytic Residue Identification

(2010) Cristina Marino Buslje et al.   PLoS Computational Biology

Correlated Mutations: A Hallmark of Phenotypic Amino Acid Substitutions

(2010) Andreas Kowarsch et al.   PLoS Computational Biology

Correction for phylogeny, small number of observations and data redundancy improves the identification of coevolving amino acid pairs using mutual information

(2009) C. M. Buslje et al.   BIOINFORMATICS

Protein Sectors: Evolutionary Units of Three-Dimensional Structure

(2009) Najeeb Halabi et al.   CELL

Estimating sufficient statistics in co-evolutionary analysis by mutual information

(2009) Philipp Weil et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

The Universal Protein Resource (UniProt) in 2010

(2009)   NUCLEIC ACIDS RESEARCH

Correlated mutation analyses on super-family alignments reveal functionally important residues

(2009) Remko K. P. Kuipers et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Relating sequence evolution of HIV1-protease to its underlying molecular mechanics

(2008) K. Hamacher   GENE

Network Analysis Tools: from biological networks to clusters and pathways

(2008) Sylvain Brohée et al.   Nature Protocols

Analysis of the residue-residue coevolution network and the functionally important residues in proteins

(2008) Byung-Chul Lee et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Coevolution in defining the functional specificity

(2008) Saikat Chakrabarti et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS