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BMCBI
2004
208views more  BMCBI 2004»
15 years 6 months ago
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Vadim Alexandrov, Mark Gerstein
BMCBI
2010
106views more  BMCBI 2010»
15 years 6 months ago
Multiple structure alignment and consensus identification for proteins
Background: An algorithm is presented to compute a multiple structure alignment for a set of proteins and to generate a consensus (pseudo) protein which captures common substructu...
Ivaylo Ilinkin, Jieping Ye, Ravi Janardan
BMCBI
2006
120views more  BMCBI 2006»
15 years 6 months ago
Integrating protein structures and precomputed genealogies in the Magnum database: Examples with cellular retinoid binding prote
Background: When accurate models for the divergent evolution of protein sequences are integrated with complementary biological information, such as folded protein structures, anal...
Michael E. Bradley, Steven A. Benner
ECIR
2009
Springer
15 years 4 months ago
Refining Keyword Queries for XML Retrieval by Combining Content and Structure
Abstract. The structural heterogeneity and complexity of XML repositories makes query formulation challenging for users who have little knowledge of XML. To assist its users, an XM...
Desislava Petkova, W. Bruce Croft, Yanlei Diao
BMCBI
2008
114views more  BMCBI 2008»
15 years 6 months ago
Indel PDB: A database of structural insertions and deletions derived from sequence alignments of closely related proteins
Background: Insertions and deletions (indels) represent a common type of sequence variations, which are less studied and pose many important biological questions. Recent research ...
Michael Hsing, Artem Cherkasov