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BMCBI
2011
13 years 5 months ago
A discriminative method for family-based protein remote homology detection that combines inductive logic programming and proposi
Background: Remote homology detection is a hard computational problem. Most approaches have trained computational models by using either full protein sequences or multiple sequenc...
Juliana S. Bernardes, Alessandra Carbone, Gerson Z...
BMCBI
2006
108views more  BMCBI 2006»
13 years 10 months ago
RibAlign: a software tool and database for eubacterial phylogeny based on concatenated ribosomal protein subunits
Background: Until today, analysis of 16S ribosomal RNA (rRNA) sequences has been the de-facto gold standard for the assessment of phylogenetic relationships among prokaryotes. How...
Hanno Teeling, Frank Oliver Glöckner
BMCBI
2005
132views more  BMCBI 2005»
13 years 10 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
JACM
2002
94views more  JACM 2002»
13 years 9 months ago
The greedy path-merging algorithm for contig scaffolding
Given a collection of contigs and mate-pairs. The Contig Scaffolding Problem is to order and orientate the given contigs in a manner that is consistent with as many mate-pairs as p...
Daniel H. Huson, Knut Reinert, Eugene W. Myers
ICPADS
2008
IEEE
14 years 4 months ago
Parallel Large Scale Inference of Protein Domain Families
The resolution of combinatorial assortments of protein sequences into domains is a prerequisite for protein sequence interpretation. However the recognition and clustering of homo...
Daniel Kahn, Clément Rezvoy, Fréd&ea...