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BMCBI
2007
161views more  BMCBI 2007»
14 years 10 months ago
Efficient classification of complete parameter regions based on semidefinite programming
Background: Current approaches to parameter estimation are often inappropriate or inconvenient for the modelling of complex biological systems. For systems described by nonlinear ...
Lars Kuepfer, Uwe Sauer, Pablo A. Parrilo
BMCBI
2007
95views more  BMCBI 2007»
14 years 10 months ago
Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices
Background: Protein-protein interactions are critical for cellular functions. Recently developed computational approaches for predicting protein-protein interactions utilize co-ev...
Roger A. Craig, Li Liao
BMCBI
2008
244views more  BMCBI 2008»
14 years 10 months ago
RNAalifold: improved consensus structure prediction for RNA alignments
Background: The prediction of a consensus structure for a set of related RNAs is an important first step for subsequent analyses. RNAalifold, which computes the minimum energy str...
Stephan H. F. Bernhart, Ivo L. Hofacker, Sebastian...
BMCBI
2007
103views more  BMCBI 2007»
14 years 10 months ago
Dynamic simulation of regulatory networks using SQUAD
Background: The ambition of most molecular biologists is the understanding of the intricate network of molecular interactions that control biological systems. As scientists uncove...
Alessandro Di Cara, Abhishek Garg, Giovanni De Mic...
BMCBI
2007
112views more  BMCBI 2007»
14 years 10 months ago
PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments
Background: By virtue of their shared ancestry, homologous sequences are similar in their structure and function. Consequently, multiple sequence alignments are routinely used to ...
Daniel R. Caffrey, Paul H. Dana, Vidhya Mathur, Ma...
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