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BMCBI
2004
141views more  BMCBI 2004»
13 years 7 months ago
Estimates of statistical significance for comparison of individual positions in multiple sequence alignments
Background: Profile-based analysis of multiple sequence alignments (MSA) allows for accurate comparison of protein families. Here, we address the problems of detecting statistical...
Ruslan Sadreyev, Nick V. Grishin
BMCBI
2004
196views more  BMCBI 2004»
13 years 7 months ago
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
Background: In a previous paper, we introduced MUSCLE, a new program for creating multiple alignments of protein sequences, giving a brief summary of the algorithm and showing MUS...
Robert C. Edgar
BMCBI
2006
156views more  BMCBI 2006»
13 years 7 months ago
Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments
Background: Molecular evolutionary studies of noncoding sequences rely on multiple alignments. Yet how multiple alignment accuracy varies across sequence types, tree topologies, d...
Daniel A. Pollard, Alan M. Moses, Venky N. Iyer, M...
BMCBI
2007
112views more  BMCBI 2007»
13 years 7 months ago
PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments
Background: By virtue of their shared ancestry, homologous sequences are similar in their structure and function. Consequently, multiple sequence alignments are routinely used to ...
Daniel R. Caffrey, Paul H. Dana, Vidhya Mathur, Ma...
BIOINFORMATICS
2005
75views more  BIOINFORMATICS 2005»
13 years 7 months ago
DbW: automatic update of a functional family-specific multiple alignment
: Recent advances in gene sequencing have provided complete sequence information for a number of genomes and as a result the amount of data in the sequence databases is growing at ...
Veronique Prigent, Jean-Claude Thierry, Olivier Po...