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» Constraint Programming in Structural Bioinformatics
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BIBM
2010
IEEE
161views Bioinformatics» more  BIBM 2010»
13 years 3 months ago
Cis-regulatory module detection using constraint programming
We propose a method for finding CRMs in a set of co-regulated genes. Each CRM consists of a set of binding sites of transcription factors. We wish to find CRMs involving the same t...
Tias Guns, Hong Sun, Kathleen Marchal, Siegfried N...
BMCBI
2006
116views more  BMCBI 2006»
13 years 5 months ago
HotSwap for bioinformatics: A STRAP tutorial
Background: Bioinformatics applications are now routinely used to analyze large amounts of data. Application development often requires many cycles of optimization, compiling, and...
Christoph Gille, Peter N. Robinson
BIOINFORMATICS
2007
76views more  BIOINFORMATICS 2007»
13 years 5 months ago
Optimization of primer design for the detection of variable genomic lesions in cancer
Primer approximation multiplex PCR (PAMP) is a new experimental protocol for efficiently assaying structural variation in genomes. PAMP is particularly suited to cancer genomes w...
Ali Bashir, Yu-Tsueng Liu, Benjamin J. Raphael, De...
JMLR
2012
11 years 8 months ago
Deterministic Annealing for Semi-Supervised Structured Output Learning
In this paper we propose a new approach for semi-supervised structured output learning. Our approach uses relaxed labeling on unlabeled data to deal with the combinatorial nature ...
Paramveer S. Dhillon, S. Sathiya Keerthi, Kedar Be...
NAR
2006
134views more  NAR 2006»
13 years 5 months ago
The MPI Bioinformatics Toolkit for protein sequence analysis
The MPI Bioinformatics Toolkit is an interactive web service which offers access to a great variety of public and in-house bioinformatics tools. They are grouped into different se...
Andreas Biegert, Christian Mayer, Michael Remmert,...