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» The Logical Structure of Binding
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CORR
2008
Springer
137views Education» more  CORR 2008»
13 years 7 months ago
Combining generic judgments with recursive definitions
Many semantical aspects of programming languages are specified through calculi for constructing proofs: consider, for example, the specification of structured operational semantic...
Andrew Gacek, Dale Miller, Gopalan Nadathur
BMCBI
2005
122views more  BMCBI 2005»
13 years 7 months ago
Quantitative analysis of EGR proteins binding to DNA: assessing additivity in both the binding site and the protein
Background: Recognition codes for protein-DNA interactions typically assume that the interacting positions contribute additively to the binding energy. While this is known to not ...
Jiajian Liu, Gary D. Stormo
BMCBI
2010
121views more  BMCBI 2010»
13 years 7 months ago
Knowledge-based annotation of small molecule binding sites in proteins
Background: The study of protein-small molecule interactions is vital for understanding protein function and for practical applications in drug discovery. To benefit from the rapi...
Ratna R. Thangudu, Manoj Tyagi, Benjamin A. Shoema...
BMCBI
2008
90views more  BMCBI 2008»
13 years 7 months ago
Genome-scale study of the importance of binding site context for transcription factor binding and gene regulation
Background: The rate of mRNA transcription is controlled by transcription factors that bind to specific DNA motifs in promoter regions upstream of protein coding genes. Recent res...
Jakub Orzechowski Westholm, Feifei Xu, Hans Ronne,...
LICS
2008
IEEE
14 years 1 months ago
Focusing on Binding and Computation
Variable binding is a prevalent feature of the syntax and proof theory of many logical systems. In this paper, we define a programming language that provides intrinsic support fo...
Daniel R. Licata, Noam Zeilberger, Robert Harper