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TreeDet: a web server to explore sequence space.

Angel Carro·Michael Tress·David de Juan·Florencio Pazos·Pedro Lopez-Romero·Antonio del Sol·Alfonso Valencia·Ana M Rojas
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Abstract

The TreeDet (Tree Determinant) Server is the first release of a system designed to integrate results from methods that predict functional sites in protein families. These methods take into account the relation between sequence conservation and evolutionary importance. TreeDet fully analyses the space of protein sequences in either user-uploaded or automatically generated multiple sequence alignments. The methods implemented in the server represent three main classes of methods for the detection of family-dependent conserved positions, a tree-based method, a correlation based method and a method that employs a principal component analyses coupled to a cluster algorithm. An additional method is provided to highlight the reliability of the position in the alignments. The server is available at http://www.pdg.cnb.uam.es/servers/treedet.

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Amino Acid SequenceConserved SequenceInternetProteinsSequence AlignmentSequence Analysis, ProteinSoftwareUser-Computer InterfaceJournal ArticleResearch Support, Non-U.S. Gov't

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Angel Carro, Michael Tress, David de Juan, Florencio Pazos, Pedro Lopez-Romero, Antonio del Sol, Alfonso Valencia, Ana M Rojas. 2006-07-01. TreeDet: a web server to explore sequence space.. https://doi.org/10.1093/nar%2Fgkl203

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