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Using physicochemical properties of amino acids to induce graphical models of residue couplings
Found in: Proceedings of the Tenth International Workshop on Data Mining in Bioinformatics (BIOKDD '11)
By Alan M. Friedman, Chris Bailey-Kellogg, K. S. M. Tozammel Hossain, Michael J. Bradley, Naren Ramakrishnan, Nathan Baker
Issue Date:August 2011
pp. 1-10
Residue coupling in protein families is an important indicator for structural and functional conservation. Two residues are coupled if changes of amino acid at one residue location are correlated with changes in the other. Many algorithmic techniques have ...
Improved Multiple Sequence Alignments Using Coupled Pattern Mining
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Chris Bailey-Kellogg, Debprakash Patnaik, K. S. M. Tozammel Hossain, Naren Ramakrishnan, Prateek Jain, Srivatsan Laxman
Issue Date:September 2013
pp. 1098-1112
We present alignment refinement by mining coupled residues (ARMiCoRe), a novel approach to a classical bioinformatics problem, viz., multiple sequence alignment (MSA) of gene and protein sequences. Aligning multiple biological sequences is a key step in el...