Using amino acid correlation and community detection algorithms to identify functional determinants in protein families.

ABSTRACT: Correlated mutation analysis has a long history of interesting applications, mostly in the detection of contact pairs in protein structures. Based on previous observations that, if properly assessed, amino acid correlation data can also provide insights about functional sub-classes in a protein family, we provide a complete framework devoted to this purpose. An amino acid specific correlation measure is proposed, which can be used to build networks summarizing all correlation and anti-correlation patterns in a protein family. These networks can be submitted to community structure detection algorithms, resulting in subsets of correlated amino acids which can be further assessed by specific parameters and procedures that provide insight into the relationship between different communities, th

SUBMITTER: Bleicher L 

PROVIDER: S-EPMC3243672 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature