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» A structural alignment kernel for protein structures
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BMCBI
2005
119views more  BMCBI 2005»
14 years 9 months ago
The distance-profile representation and its application to detection of distantly related protein families
Background: Detecting homology between remotely related protein families is an important problem in computational biology since the biological properties of uncharacterized protei...
Chin-Jen Ku, Golan Yona
BMCBI
2010
150views more  BMCBI 2010»
14 years 9 months ago
Evolutionary rates at codon sites may be used to align sequences and infer protein domain function
Background: Sequence alignments form part of many investigations in molecular biology, including the determination of phylogenetic relationships, the prediction of protein structu...
Pierre M. Durand, Scott Hazelhurst, Theresa L. Coe...
BMCBI
2004
177views more  BMCBI 2004»
14 years 9 months ago
Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model
Background: Certain protein families are highly conserved across distantly related organisms and belong to large and functionally diverse superfamilies. The patterns of conservati...
Andrew F. Neuwald, Jun S. Liu
BMCBI
2006
130views more  BMCBI 2006»
14 years 9 months ago
4SALE - A tool for synchronous RNA sequence and secondary structure alignment and editing
Background: In sequence analysis the multiple alignment builds the fundament of all proceeding analyses. Errors in an alignment could strongly influence all succeeding analyses an...
Philipp N. Seibel, Tobias Müller, Thomas Dand...
BMCBI
2006
125views more  BMCBI 2006»
14 years 9 months ago
Automated functional classification of experimental and predicted protein structures
Background: Proteins that are similar in sequence or structure may perform different functions in nature. In such cases, function cannot be inferred from sequence or structural si...
Kai Wang, Ram Samudrala