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BMCBI
2010

Enrichment of homologs in insignificant BLAST hits by co-complex network alignment

9 years 2 months ago
Enrichment of homologs in insignificant BLAST hits by co-complex network alignment
Background: Homology is a crucial concept in comparative genomics. The algorithm probably most widely used for homology detection in comparative genomics, is BLAST. Usually a stringent score cutoff is applied to distinguish putative homologs from possible false positive hits. As a consequence, some BLAST hits are discarded that are in fact homologous. Results: Analogous to the use of the genomics context in genome alignments, we test whether conserved functional context can be used to select candidate homologs from insignificant BLAST hits. We make a co-complex network alignment between complex subunits in yeast and human and find that proteins with an insignificant BLAST hit that are part of homologous complexes, are likely to be homologous themselves. Further analysis of the distant homologs we recovered using the co-complex network alignment, shows that a large majority of these distant homologs are in fact ancient paralogs. Conclusions: Our results show that, even though evolution...
Like Fokkens, Sandra M. C. Botelho, Jos Boekhorst,
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2010
Where BMCBI
Authors Like Fokkens, Sandra M. C. Botelho, Jos Boekhorst, Berend Snel
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