The same was true when comparing AB_C and AC_B topologies for cellular component and molecular function categories compared to the global list of the combined Nicotiana consensus sequences.
For each GO domain (i.e., cellular component, biological process or molecular function), we compared the proteins identified by MudPIT to the full proteome of P. falciparum using the "classic" algorithm in combination with a Fisher's exact test.
Considering the anthocyanin accumulation in purple-flesh tuber is associated with specific molecular functions, we compared the differences in gene expression profile of the purple and white flesh tubers to identify putative genes co-expressed with anthocyanin accumulation.
The Arabidopsis-annotated unigenes assembled from our Hawaiian mint EST library were broadly distributed in terms of GO Biological Processes and Molecular Function categories when compared with the Arabidopsis transcriptome.
The Institute for Genomic research (TIGR) wheat gene index (Release 10.0) shows that only 6,431 of the 44,954 wheat contigs (14%) were successfully allocated a known Molecular Function using Gene Ontology, compared to the classification done for Arabidopsis in which 12,558 of the 28,900 contigs (42%) have a known Molecular Function.
FatiGO was used to annotate the genes with GO terms (biological process and molecular function) and to compare the distribution of the main GO terms between the gene list selected from the first and second factor [ 17].
Furthermore, FatiGO was used to annotate the genes with Gene Ontology (GO) terms (biological process and molecular function) and to compare the distribution of the main GO terms between the gene list selected from the first and second factor [ 17].
When GO Slim (Molecular Function) was used to compare gene ontology in control animals compared with those treated at -7°C and also those of the 0.2 salt group, there was virtually no difference in the relative partitioning between different functions under the two different treatments.
When no neighbour information is included, Gene Ontology Slim terms that represent broader functionalities, biological process, molecular function, have higher accuracy scores compared to that of Gene Ontology Slim term of cellular component, meaning the classifier was able to classify genes that belonged to these broader Gene Ontology Slim terms better.
When comparing molecular function GO terms of PSY1-treated and untreated psy1r plants, most prominent difference is the carboxylesterase activity observed in peptide-treated plants.
