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David McNally

dblp:28/315 · DBLP profile ↗
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1ranked-venue papers
0as first author
0since 2021 · last 2006
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 3 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › molecular evolution
coevolution analysis		 0.112006
CAPS: coevolution analysis using protein sequences · Bioinform. 2006
Bioinformatics and computational biology
protein structure analysis		 0.012006
CAPS: coevolution analysis using protein sequences · Bioinform. 2006
Bioinformatics and computational biology › protein structure prediction
residue contact prediction		 0.012006
CAPS: coevolution analysis using protein sequences · Bioinform. 2006

Methods — techniques the papers use, named apart from their topics

phylogenetic dependency removal · 0.1BLOSUM-corrected distance · 0.1
YearPublicationVenuePosition
2006 CAPS: coevolution analysis using protein sequences
abstract
UNLABELLED: Coevolution Analysis using Protein Sequences (CAPS) is a PERL based software that identifies co-evolution between amino acid sites. Blosum-corrected amino acid distances are used to identify amino acid co-variation. The phylogenetic sequence relationships are used to remove the phylogenetic and stochastic dependencies between sites. The 3D protein structure is used to identify the nature of the dependencies between co-evolving amino acid sites. Friendly interpretable output files are generated. AVAILABILITY: CAPS version 1 is available at http://bioinf.gen.tcd.ie/~faresm/software/caps/. Distribution versions for Linux/Unix, Mac OS X and Windows operating systems are available, including manual and example files.
Mario A. Fares, David McNally
 Bioinform.2