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» Conservativity in Structured Ontologies
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IWANN
2009
Springer
16 years 27 days ago
On the Bond Graphs in the Delaunay-Tetrahedra of the Simplicial Decomposition of Spatial Protein Structures
The examination of straightforwardly definable discrete structures in nucleic acids and proteins turned out to be perhaps the most important development in our present knowledge a...
Rafael Ördög, Vince Grolmusz
BMCBI
2007
142views more  BMCBI 2007»
15 years 6 months ago
Improving model construction of profile HMMs for remote homology detection through structural alignment
Background: Remote homology detection is a challenging problem in Bioinformatics. Arguably, profile Hidden Markov Models (pHMMs) are one of the most successful approaches in addre...
Juliana S. Bernardes, Alberto M. R. Dávila,...
BMCBI
2002
108views more  BMCBI 2002»
15 years 6 months ago
A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure
Background: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algo...
Sean R. Eddy
BMCBI
2008
130views more  BMCBI 2008»
15 years 6 months ago
Structural descriptor database: a new tool for sequence-based functional site prediction
Background: The Structural Descriptor Database (SDDB) is a web-based tool that predicts the function of proteins and functional site positions based on the structural properties o...
Juliana S. Bernardes, Jorge H. Fernandez, Ana Tere...
BMCBI
2010
148views more  BMCBI 2010»
15 years 6 months ago
Analysis of interactions between ribosomal proteins and RNA structural motifs
Background: One important goal of structural bioinformatics is to recognize and predict the interactions between protein binding sites and RNA. Recently, a comprehensive analysis ...
Giovanni Ciriello, Claudio Gallina, Concettina Gue...