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Proceedings of the National Academy of Sciences of the United States of America|June 28, 2007
Defining functional distance using manifold embeddings of gene ontology annotationsGilad Lerman, Boris E ShakhnovichPlos Computational Biology|August 17, 2005
Improving the precision of the structure-function relationship by considering phylogenetic contextBoris E ShakhnovichBioinformatics (Oxford, England)|July 29, 2006
Relative contributions of structural designability and functional diversity in molecular evolution of duplicatesBoris E ShakhnovichJournal of Molecular Biology|March 23, 2004
Quantifying structure-function uncertainty: a graph theoretical exploration into the origins and limitations of protein annotationBoris E Shakhnovich, J Max HarveyGenome Research|October 21, 2006
Origins and impact of constraints in evolution of gene familiesBoris E Shakhnovich, Eugene V KooninCurrent Opinion in Structural Biology|May 20, 2008
Improvisation in evolution of genes and genomes: whose structure is it anyway?Boris E Shakhnovich, Eugene I ShakhnovichGenome Informatics. International Conference on Genome Informatics|December 20, 2005
Assessing transcription factor motif drift from noisy decoy sequencesTimothy E Reddy, Charles DeLisi, Boris E ShakhnovichPlos Computational Biology|May 16, 2007
Binding site graphs: a new graph theoretical framework for prediction of transcription factor binding sitesTimothy E Reddy, Charles DeLisi, Boris E ShakhnovichGenome Informatics. International Conference on Genome Informatics|February 16, 2005
ELISA: a unified, multidimensional view of the protein domain universeBoris E Shakhnovich, John Max Harvey, Charles DelisiProceedings of the National Academy of Sciences of the United States of America|July 5, 2003
Natural selection of more designable folds: a mechanism for thermophilic adaptationJeremy L England, Boris E Shakhnovich, Eugene I ShakhnovichPageof 2