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» On Compressibility of Protein Sequences
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BMCBI
2008
93views more  BMCBI 2008»
13 years 7 months ago
VirulentPred: a SVM based prediction method for virulent proteins in bacterial pathogens
Background: Prediction of bacterial virulent protein sequences has implications for identification and characterization of novel virulence-associated factors, finding novel drug/v...
Aarti Garg, Dinesh Gupta
CSR
2006
Springer
13 years 11 months ago
Fast Motif Search in Protein Sequence Databases
Regular expression pattern matching is widely used in computational biology. Searching through a database of sequences for a motif (a simple regular expression), or its variations...
Elena Zheleva, Abdullah N. Arslan
BMCBI
2006
144views more  BMCBI 2006»
13 years 7 months ago
Association algorithm to mine the rules that govern enzyme definition and to classify protein sequences
Background: The number of sequences compiled in many genome projects is growing exponentially, but most of them have not been characterized experimentally. An automatic annotation...
Shih-Hau Chiu, Chien-Chi Chen, Gwo-Fang Yuan, Thy-...
BMCBI
2005
100views more  BMCBI 2005»
13 years 7 months ago
Scoredist: A simple and robust protein sequence distance estimator
Background: Distance-based methods are popular for reconstructing evolutionary trees thanks to their speed and generality. A number of methods exist for estimating distances from ...
Erik L. L. Sonnhammer, Volker Hollich
BMCBI
2008
109views more  BMCBI 2008»
13 years 7 months ago
The meaning of alignment: lessons from structural diversity
Background: Protein structural alignment provides a fundamental basis for deriving principles of functional and evolutionary relationships. It is routinely used for structural cla...
Walter Pirovano, K. Anton Feenstra, Jaap Heringa