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» Inferring Phylogenetic Trees Using Answer Set Programming
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BMCBI
2006
161views more  BMCBI 2006»
13 years 8 months ago
A method for rapid similarity analysis of RNA secondary structures
Background: Owing to the rapid expansion of RNA structure databases in recent years, efficient methods for structure comparison are in demand for function prediction and evolution...
Na Liu, Tianming Wang
SIGMOD
2005
ACM
177views Database» more  SIGMOD 2005»
14 years 8 months ago
An approach for pipelining nested collections in scientific workflows
We describe an approach for pipelining nested data collections in scientific workflows. Our approach logically delimits arbitrarily nested collections of data tokens using special...
Timothy M. McPhillips, Shawn Bowers
BMCBI
2010
145views more  BMCBI 2010»
13 years 8 months ago
JCoDA: a tool for detecting evolutionary selection
Background: The incorporation of annotated sequence information from multiple related species in commonly used databases (Ensembl, Flybase, Saccharomyces Genome Database, Wormbase...
Steven N. Steinway, Ruth Dannenfelser, Christopher...
ACL
2011
12 years 11 months ago
A Bayesian Model for Unsupervised Semantic Parsing
We propose a non-parametric Bayesian model for unsupervised semantic parsing. Following Poon and Domingos (2009), we consider a semantic parsing setting where the goal is to (1) d...
Ivan Titov, Alexandre Klementiev
BMCBI
2008
145views more  BMCBI 2008»
13 years 8 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...