Paper Info
Title
Clustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence.
Abstract
Modern proteomes evolved by modification of pre-existing ones. It is extremely important to comparative biology that related proteins be identified as members of the same cognate group, since a characterized putative homolog could be used to find clues about the function of uncharacterized proteins from the same group. Typically, databases of related proteins focus on those from completely-sequenced genomes. Unfortunately, relatively few organisms have had their genomes fully sequenced; accordingly, many proteins are ignored by the currently available databases of cognate proteins, despite the high amount of important genes that are functionally described only for these incomplete proteomes.We have developed a method to cluster cognate proteins from multiple organisms beginning with only one sequence, through connectivity saturation with that Seed sequence. We show that the generated clusters are in agreement with some other approaches based on full genome comparison.The method produced results that are as reliable as those produced by conventional clustering approaches. Generating clusters based only on individual proteins of interest is less time consuming than generating clusters for whole proteomes.
Year
DOI
Venue
2008
10.1186/1471-2105-9-141
BMC Bioinformatics
Keywords
Field
DocType
proteome,amino acid sequence,bioinformatics,algorithms,cluster analysis,microarrays,sequence alignment
Genome,Sequence alignment,Gene,Biology,Proteome,Homology (biology),Bioinformatics,Comparative biology,Genetics,DNA microarray,Peptide sequence
Journal
Volume
Issue
ISSN
9
1
1471-2105
Citations 
PageRank 
References 
27
0.39
8
Authors
4
Name
Order
Citations
PageRank
Adriano Barbosa-Silva11558.15
Venkata P Satagopam211610.76
Reinhard Schneider347528.53
J Miguel Ortega4653.28