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2004
ACM

Context sensitive vocabulary and its application in protein secondary structure prediction

9 years 5 months ago
Context sensitive vocabulary and its application in protein secondary structure prediction
Protein secondary structure prediction is an important step towards understanding the relation between protein sequence and structure. However, most current prediction methods use features difficult for biologists to interpret. In this paper, we present a new method that applies information retrieval techniques to solve the problem: we extract a context sensitive biological vocabulary for protein sequences and apply text classification methods to predict protein secondary structure. Experimental results show that our method performs comparably to the state-of-art methods. Furthermore, the context sensitive vocabularies can serve as a useful tool to discover meaningful regular expression patterns for protein structures. Categories and Subject Descriptors: H.4.4 [Information Systems Applications]: Miscellaneous General Terms: Algorithms, Experimentation.
Yan Liu, Jaime G. Carbonell, Judith Klein-Seethara
Added 30 Jun 2010
Updated 30 Jun 2010
Type Conference
Year 2004
Where SIGIR
Authors Yan Liu, Jaime G. Carbonell, Judith Klein-Seetharaman, Vanathi Gopalakrishnan
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