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ISMB
1997
15 years 4 months ago
Identifying Chimerism in Proteins Using Hidden Markov Models of Codon Usage
Protein chimerism is a phenomenon involving the combination of multiple ancestral sequences into a single, multi-domain protein through evolution. We propose a novel method for de...
Lawrence Hunter, Barry Zeeberg
RECOMB
2010
Springer
15 years 1 months ago
Consistency of Sequence-Based Gene Clusters
In comparative genomics, various combinatorial models can be used to specify gene clusters — groups of genes that are co-located in a set of genomes. Several approaches have been...
Roland Wittler, Jens Stoye
SAC
2009
ACM
15 years 10 months ago
GTfold: a scalable multicore code for RNA secondary structure prediction
The prediction of the correct secondary structures of large RNAs is one of the unsolved challenges of computational molecular biology. Among the major obstacles is the fact that a...
Amrita Mathuriya, David A. Bader, Christine E. Hei...
SC
2005
ACM
15 years 8 months ago
ClawHMMER: A Streaming HMMer-Search Implementation
The proliferation of biological sequence data has motivated the need for an extremely fast probabilistic sequence search. One method for performing this search involves evaluating...
Daniel Reiter Horn, Mike Houston, Pat Hanrahan
HYBRID
2003
Springer
15 years 8 months ago
Automated Symbolic Reachability Analysis; with Application to Delta-Notch Signaling Automata
Abstract. This paper describes the implementation of predicate abstraction techniques to automatically compute symbolic backward reachable sets of high dimensional piecewise affine...
Ronojoy Ghosh, Ashish Tiwari, Claire Tomlin