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CORR
2007
Springer
130views Education» more  CORR 2007»
13 years 9 months ago
Lagrangian Relaxation for MAP Estimation in Graphical Models
Abstract— We develop a general framework for MAP estimation in discrete and Gaussian graphical models using Lagrangian relaxation techniques. The key idea is to reformulate an in...
Jason K. Johnson, Dmitry M. Malioutov, Alan S. Wil...
NC
2008
122views Neural Networks» more  NC 2008»
13 years 9 months ago
Computation with finite stochastic chemical reaction networks
A highly desired part of the synthetic biology toolbox is an embedded chemical microcontroller, capable of autonomously following a logic program specified by a set of instructions...
David Soloveichik, Matthew Cook, Erik Winfree, Jeh...
BMCBI
2005
132views more  BMCBI 2005»
13 years 9 months ago
Kalign - an accurate and fast multiple sequence alignment algorithm
Background: The alignment of multiple protein sequences is a fundamental step in the analysis of biological data. It has traditionally been applied to analyzing protein families f...
Timo Lassmann, Erik L. L. Sonnhammer
BMCBI
2005
152views more  BMCBI 2005»
13 years 9 months ago
Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER
Background: Profile hidden Markov model (HMM) techniques are among the most powerful methods for protein homology detection. Yet, the critical features for successful modelling ar...
Markus Wistrand, Erik L. L. Sonnhammer
BMCBI
2004
110views more  BMCBI 2004»
13 years 9 months ago
Tools for loading MEDLINE into a local relational database
Background: Researchers who use MEDLINE for text mining, information extraction, or natural language processing may benefit from having a copy of MEDLINE that they can manage loca...
Diane E. Oliver, Gaurav Bhalotia, Ariel S. Schwart...
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