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» ProtEST: protein multiple sequence alignments from expressed...
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NAR
2006
119views more  NAR 2006»
13 years 7 months ago
HHsenser: exhaustive transitive profile search using HMM-HMM comparison
HHsenser is the first server to offer exhaustive intermediate profile searches, which it combines with pairwise comparison of hidden Markov models. Starting from a single protein ...
Johannes Söding, Michael Remmert, Andreas Bie...
BMCBI
2006
172views more  BMCBI 2006»
13 years 7 months ago
Prediction of cis/trans isomerization in proteins using PSI-BLAST profiles and secondary structure information
Background: The majority of peptide bonds in proteins are found to occur in the trans conformation. However, for proline residues, a considerable fraction of Prolyl peptide bonds ...
Jiangning Song, Kevin Burrage, Zheng Yuan, Thomas ...
BMCBI
2010
142views more  BMCBI 2010»
13 years 7 months ago
Classification of protein sequences by means of irredundant patterns
Background: The classification of protein sequences using string algorithms provides valuable insights for protein function prediction. Several methods, based on a variety of diff...
Matteo Comin, Davide Verzotto
BMCBI
2007
130views more  BMCBI 2007»
13 years 7 months ago
HMM-ModE - Improved classification using profile hidden Markov models by optimising the discrimination threshold and modifying e
Background: Profile Hidden Markov Models (HMM) are statistical representations of protein families derived from patterns of sequence conservation in multiple alignments and have b...
Prashant K. Srivastava, Dhwani K. Desai, Soumyadee...
APBC
2004
13 years 9 months ago
EMAGEN: An Efficient Approach to Multiple Whole Genome Alignment
Following advances in biotechnology, many new whole genome sequences are becoming available every year. A lot of useful information can be derived from the alignment and compariso...
Jitender S. Deogun, Jingyi Yang, Fangrui Ma