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Because the functional annotations for human proteins are far from complete, the proportion of true positive functional associations must be higher and thus the FDR should be lower than 0.35.
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These genes were selected to confirm the microarray findings and because of the functional annotation of their encoded proteins.
Because we detected some errors in the functional annotation for some Unigenes, functional categorization of each Unigene was verified or corrected manually using BLAST functions at PLEXdb.
Because we detected some errors in the functional annotation for some Unigenes, functional categorization of each Unigene were verified manually and corrected if necessary.
Our approach is unique because of the large database employed and the functional annotation we used, taking advantage of whole genome information.
Identification of operon structures is critical for understanding coordinated regulation of bacterial transcriptome, which means that successful identification of operon structures can assist in the functional annotation of hypothetical genes, because proteins encoded by genes in the same operon often have related functions, or share biological pathways[50].
Therefore, transcript length affects the functional annotation by homology search because shorter transcripts may have a lower chance of a BLAST hit or are incomplete cDNAs without a protein-coding region.
Considering the functional annotation of some microalgae may be problematic because annotation is largely based on plants and there is large phylogenetic distance between them.
Because most conseqs from a given cluster belonged to the same gene, the functional annotation of the ESTs was organized primarily at the level of cluster.
Because of the diversity of GO terms and low number of genes the functional annotation clustering did not give statistically significant results.
The functional annotation of this subset of genes is particularly challenging because almost nothing can be learned from sequence comparisons.
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