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» On Compressibility of Protein Sequences
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SAC
2009
ACM
14 years 2 months ago
A new protein motif extraction framework based on constrained co-clustering
Signal finding (pattern discovery) in biological sequences is a fundamental problem in both computer science and molecular biology. Many approaches have been proposed for extract...
Francesca Cordero, Alessia Visconti, Marco Botta
COMPLIFE
2005
Springer
14 years 1 months ago
Protein Annotation by Secondary Structure Based Alignments (PASSTA)
Abstract. Most software tools in homology recognition on proteins answer only a few specific questions, often leaving not much room for the interpretation of the results. We devel...
Constantin Bannert, Jens Stoye
NAR
2011
202views Computer Vision» more  NAR 2011»
12 years 10 months ago
PREX: PeroxiRedoxin classification indEX, a database of subfamily assignments across the diverse peroxiredoxin family
PREX (http://www.csb.wfu.edu/prex/) is a database of currently 3516 peroxiredoxin (Prx or PRDX) protein sequences unambiguously classified into one of six distinct subfamilies. Pe...
Laura Soito, Chris Williamson, Stacy T. Knutson, J...
BIOCOMP
2009
13 years 8 months ago
Evidence against the Paradigm of Energy Minimization in Protein Design
Abstract-- Stating protein design as an energy minimization in the space of amino acid sequences and rotamer combinations is usual. In the current paper an evolutionary algorithm b...
Andrea Bazzoli, Andrea Tettamanzi
BMCBI
2007
59views more  BMCBI 2007»
13 years 7 months ago
Environment specific substitution tables for thermophilic proteins
Background: Thermophilic organisms are able to live at high temperatures ranging from 50 to > 100°C. Their proteins must be sufficiently stable to function under these extreme...
K. Mizuguchi, M. Sele, Maria Vittoria Cubellis