Networks of Interactions in Molecular Biology, A Case Study
Alan Lapedes, Chris Jarzynski, Betrand Giraud, Gary Stormo
 
 
Abstract:
Modern large scale molecular biology experiments are producing data that
yield information about networks of interactions among
(1) amino acids (from analysis of sets of aligned amino acid sequences)
(2) gene transcripts (from analysis of sets of gene expression data)
(3) proteins (from analysis of sets of yeast two hybrid screens)
In this talk we concentrate on (1), specifically how identifying positions 
(in a set of aligned protein sequences) which display covarying mutations
allows deductions about the underlying protein tertiary structure
associated with the aligned family of sequences. Certain issues arising in
this problem, and the techniques we've developed to address these issues,
are relevant
to other network analysis problems, including analysis of gene expression
data. We describe in detail our work on deducing protein structure from
analysis of covarying amino acid mutations, and indicate how our techniques   
are applicable to analysis of other interacting networks e.g. networks
assumed to underly gene expression data.