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COLING
1990
13 years 10 months ago
A Computational Approach to Binding Theory
This paper is a first step towards a computational account of Binding Theory (BT). Two algorithms that compute, respectively, Principle A and B have been provided. Particular atte...
Alessandra Giorgi, Fabio Pianesi, Giorgio Satta
BMCBI
2004
207views more  BMCBI 2004»
13 years 9 months ago
Computational identification of transcription factor binding sites by functional analysis of sets of genes sharing overrep-resen
Background: Transcriptional regulation is a key mechanism in the functioning of the cell, and is mostly effected through transcription factors binding to specific recognition moti...
Davide Corà, Ferdinando Di Cunto, Paolo Pro...
BMCBI
2010
167views more  BMCBI 2010»
13 years 9 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. ...
ICFP
2005
ACM
14 years 9 months ago
A computational approach to reflective meta-reasoning about languages with bindings
We present a foundation for a computational meta-theory of languages with bindings implemented in a computer-aided formal reasoning environment. Our theory provides the ability to...
Aleksey Nogin, Alexei Kopylov, Xin Yu, Jason Hicke...
BIRD
2008
Springer
13 years 11 months ago
Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics
The thermodynamics of RNA-RNA interaction consists of two components: the energy necessary to make a potential binding region accessible, i.e., unpaired, and the energy gained from...
Ulrike Mückstein, Hakim Tafer, Stephan H. F. ...