We describe a method for finding ungapped conserved words in rRNA sequences that is effective, utilizes evolutionary information and does not depend on multiple sequence alignment...
Liaofu Luo, Li-Ching Hsieh, Fengmin Ji, Mengwen Ji...
Background: Phylogenetic methods which do not rely on multiple sequence alignments are important tools in inferring trees directly from completely sequenced genomes. Here, we exte...
Alexander F. Auch, Stefan R. Henz, Barbara R. Holl...
Given a set S of n locally aligned sequences, it is a needed prerequisite to partition it into groups of very similar sequences to facilitate subsequent computations, such as the ...
Katharina Anna Lehmann, Michael Kaufmann, Stephan ...
We introduce a new domain-independent framework for formulating and efficiently evaluating similarity queries over historical data, where given a history as a sequence of timestam...
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 ...