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Functionally important segments in proteins dissected using Gene Ontology and geometric clustering of peptide fragments

Manikandan, Karuppasamy and Pal, Debnath and Ramakumar, Suryanarayanarao and Brener, Nathan E and Iyengar, Sitharama S and Seetharaman, Guna (2008) Functionally important segments in proteins dissected using Gene Ontology and geometric clustering of peptide fragments. In: Genome Biology, 9 (3). R52.1-R52.18.

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Abstract

We have developed a geometric clustering algorithm using backbone \varphi,\psi angles to group conformationally similar peptide fragments of any length. By labeling each fragment in the cluster with the level-specific Gene Ontology 'molecular function' term of its protein, we are able to compute statistics for molecular function-propensity and p-value of individual fragments in the cluster. Clustering-cum-statistical analysis for peptide fragments 8 residues in length and with only trans peptide bonds shows that molecular function propensities ≥20 and p-values ≤0.05 can dissect fragments within a protein linked to the molecular function.

Item Type: Journal Article
Additional Information: Copyright of this article belongs to Karuppasamy et al.
Department/Centre: Division of Information Sciences > Supercomputer Education & Research Centre
Division of Information Sciences > BioInformatics Centre
Division of Physical & Mathematical Sciences > Physics
Date Deposited: 18 Aug 2008
Last Modified: 19 Sep 2010 04:49
URI: http://eprints.iisc.ernet.in/id/eprint/15545

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