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BMCBI
2004
122views more  BMCBI 2004»
13 years 7 months ago
A comprehensive comparison of comparative RNA structure prediction approaches
Background: An increasing number of researchers have released novel RNA structure analysis and prediction algorithms for comparative approaches to structure prediction. Yet, indep...
Paul P. Gardner, Robert Giegerich
BMCBI
2008
172views more  BMCBI 2008»
13 years 7 months ago
Classification of drug molecules considering their IC50 values using mixed-integer linear programming based hyper-boxes method
Background: A priori analysis of the activity of drugs on the target protein by computational approaches can be useful in narrowing down drug candidates for further experimental t...
Pelin Armutlu, Muhittin Emre Ozdemir, Fadime Ü...
BMCBI
2005
131views more  BMCBI 2005»
13 years 7 months ago
Functional annotation by identification of local surface similarities: a novel tool for structural genomics
Background: Protein function is often dependent on subsets of solvent-exposed residues that may exist in a similar three-dimensional configuration in non homologous proteins thus ...
Fabrizio Ferrè, Gabriele Ausiello, Andreas ...
BMCBI
2010
167views more  BMCBI 2010»
13 years 7 months ago
Creating PWMs of transcription factors using 3D structure-based computation of protein-DNA free binding energies
Background: Knowledge of transcription factor-DNA binding patterns is crucial for understanding gene transcription. Numerous DNA-binding proteins are annotated as transcription fa...
Denitsa Alamanova, Philip Stegmaier, Alexander E. ...
BMCBI
2008
145views more  BMCBI 2008»
13 years 7 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...