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» Sequence variation in ligand binding sites in proteins
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BMCBI
2004
130views more  BMCBI 2004»
13 years 7 months ago
PATTERNFINDER: combined analysis of DNA regulatory sequences and double-helix stability
Background: Regulatory regions that function in DNA replication and gene transcription contain specific sequences that bind proteins as well as less-specific sequences in which th...
Yanlin Huang, David Kowalski
BMCBI
2006
102views more  BMCBI 2006»
13 years 7 months ago
Taking U out, with two nucleases?
Background: REX1 and REX2 are protein components of the RNA editing complex (the editosome) and function as exouridylylases. The exact roles of REX1 and REX2 in the editosome are ...
I. Saira Mian, Elizabeth A. Worthey, Reza Salavati
BMCBI
2008
99views more  BMCBI 2008»
13 years 7 months ago
NestedMICA as an ab initio protein motif discovery tool
Background: Discovering overrepresented patterns in amino acid sequences is an important step in protein functional element identification. We adapted and extended NestedMICA, an ...
Mutlu Dogruel, Thomas A. Down, Tim J. P. Hubbard
RECOMB
2005
Springer
14 years 26 days ago
Probabilistic in Silico Prediction of Protein-Peptide Interactions
Abstract. Peptide recognition modules (PRMs) are specialised compact protein domains that mediate many important protein-protein interactions. They are responsible for the assembly...
Wolfgang P. Lehrach, Dirk Husmeier, Christopher K....
BMCBI
2007
148views more  BMCBI 2007»
13 years 7 months ago
fREDUCE: Detection of degenerate regulatory elements using correlation with expression
Background: The precision of transcriptional regulation is made possible by the specificity of physical interactions between transcription factors and their cognate binding sites ...
Randy Z. Wu, Christina Chaivorapol, Jiashun Zheng,...