In this way, they can annotate existing maps with pedestrian-friendly routes, but it is not known whether these routes are preferred in the actual practice of walking, because the annotation is performed on a desktop computer.
The prediction of the sub-cellular localization of these proteins should be taken with caution because gene annotation is being constantly updated and/or protein trafficking of the parasite is complex and not fully elucidated [23].
Second, it could take from a few weeks to a couple of months before MeSH terms are added to PubMed/MEDLINE entries (90 days on average) [21] because their annotation is done manually.
Because gene annotation is currently labour intensive, we used a locally developed platform dedicated to phylogenetic annotation (named FIGENIX) [ 6].
The similarity search is the most computationally expensive step in the annotation process, and because RepeatMasker annotation is already available for many genomic sequences, the re-annotation of such sequences is computationally cheaper with REannotate.
Because CAZyme annotation is based on sequence similarity rather than substrate specificity, enzymes that act on different substrates are placed within the same family and, conversely, enzymes acting on the same substrate are found in different families [ 26].
Because manual annotation is costly and time-consuming, this approach lacks scalability, especially when more and more genes are associated with diseases and the number of gene-associated clinical trials continues to increase.
Because GO annotation is done for all proteins associated with a given gene, the gene to protein mapping is added by loading data from gene2refseq and gene_refseq_uniprotkb_collab files from ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/.nih.gov/gene/DATA/
First, many GO annotations are lost if only the single 'best hit' from a homology search is considered because GO annotation is applied most often to a few model species such as human that may not appear as the single 'best hit' in a list of BLAST results.
mellifera because its gene annotations are severely biased toward genes with homology (Weinstock et al. 2006) and may thus be artificially depleted for orphan genes.
