Comparative genomics for reliable protein-function prediction from genomic data.
Genomic data provide invaluable, yet unreliable information about protein function. However, if the overlap in information among various genomic datasets is taken into account, one observes an increase in the reliability of the protein-function predictions that can be made. Recently published approaches achieved this either by comparing the same type of data from multiple species (horizontal comparative genomics) or by using subtle, Bayesian methods to compare different types of genomic data from a single species (vertical comparative genomics). In this article, we discuss these methods, illustrating horizontal comparative genomics by comparing yeast two-hybrid (Y2H) data from Saccharomyces cerevisiae with Y2H data from Drosophila melanogaster, and illustrating vertical comparative genomics by comparing RNA expression data with proteomic data from Plasmodium falciparum.
Huynen
Martijn A
MA
Nijmegen Center for Molecular Life Sciences, University Medical Center St Radboud and Center for Molecular and Biomolecular Informatics, PO Box 9010, 6500 GL Nijmegen, The Netherlands. M.Huynen@cmbi.kun.nl
Snel
Berend
B
van Noort
Vera
V
D000818:Animals; D019295:Computational Biology; D003625:Data Collection; D030541:Databases, Genetic; D004331:Drosophila melanogaster / Q000235:genetics*; D023281:Genomics; D010963:Plasmodium falciparum / Q000235:genetics*; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D020798:Two-Hybrid System Techniques