01768nas a2200205 4500008004100000022001400041245006300055210006200118260001700180300001100197490000700208520113100215653002501346653002601371653001301397653001301410653002401423100002001447856009501467 2009 eng d a1873-286000aFormulating and testing hypotheses in functional genomics.0 aFormulating and testing hypotheses in functional genomics c2009 Feb-Mar a97-1070 v453 a

OBJECTIVE: The ultimate goal of any genome-scale experiment is to provide a functional interpretation of the results, relating the available genomic information to the hypotheses that originated the experiment.

METHODS AND RESULTS: Initially, this interpretation has been made on a pre-selection of relevant genes, based on the experimental values, followed by the study of the enrichment in some functional properties. Nevertheless, functional enrichment methods, demonstrated to have a flaw: the first step of gene selection was too stringent given that the cooperation among genes was ignored. The assumption that modules of genes related by relevant biological properties (functionality, co-regulation, chromosomal location, etc.) are the real actors of the cell biology lead to the development of new procedures, inspired in systems biology criteria, generically known as gene-set methods. These methods have been successfully used to analyze transcriptomic and large-scale genotyping experiments as well as to test other different genome-scale hypothesis in other fields such as phylogenomics.

10aBiological Evolution10aComputational Biology10aGenomics10aGenotype10aModels, Theoretical1 aDopazo, Joaquin uhttp://clinbioinfosspa.es/content/formulating-and-testing-hypotheses-functional-genomics-0