This results in the root term, biological process, being annotated to all genes.
Genes were annotated and biological processes were analyzed using the Database for Annotation, Visualization, and Integrated Discovery (DAVID) (http://www.david.abcc.ncifcrf.gov) [32], [33].
Genes encoding for proteins associated with cellular process (1161; 46.6% of the 2489 unigenes), metabolic process (854; 34.3%) and biology regulation (674; 27.1%) in the category of biological processes were the three largest annotated subcategories, indicative of the high metabolic characteristics in juvenile seabass.
The largest proportions of 'Biological Process' terms were annotated as 'Other cellular processes' (48.09%), 'Other metabolic processes' (43.51%), 'Unknown biological process' (33.59%), and 'Other biological processes' (14.12%), indicating comprehensive changes in cassava gene expression.
The majority of the ESTs annotated with biological processes were involved in development and biological regulation, while the ESTs annotated with molecular function revealed high catalytic and binding activity (Additional file 3).
GO function terms are provided where no biological process terms were annotated.
Out of 23,059 contigs annotated as biological processes, 25.5% were annotated in the cellular process category, 25.1% in the metabolic process category, 9.4% in the response to stimulus category and 7.8% in biological regulation.
Additionally, 10.5%, 9.3%, 3.0%, and 0.2% of 12,242 Epimedium GO-annotated consensuses for biological processes are related to metabolic process, carbohydrate metabolic process, amino acid and derivative metabolic process, and secondary metabolic process, respectively.
As a result, there are 4658 GO terms for cell component, 14 198 GO terms for molecular function and 8991 GO terms for biological process, that are annotated to F. graminearum genes.
