From mRNAs of the cultured uveal melanoma cells and normal uveal melanocytes, we annotated more than 3.7×107 and 2.7×107 sequencing tags based on human Ensembl databases, respectively.
Tables 4 and 5 give a summary of GO-terms that occurred more frequently in balancers or cell line-specific proteins, respectively, based on human GOA database searches (see Methods for details).
With ever-increasing coverage in protein databases, and based on human curated alignments, Pfam is a highly suitable and useable database for the large-scale annotation of proteins arriving from newly sequenced genomes.
Then a second TFBS/promoter database aimed for phylogenic foot printing analyses was created by using the corresponding orthologous genes listed in the NCBI HomoloGene database based on human and mouse.
Table 4 shows the distribution of peptide substrates with regard to the molecular functions of their source proteins (according to Gene Ontology, based on human homologues in the Swiss-Prot database whenever possible).
Since Ingenuity Pathway Analysis database is based on human, mouse, and rat genes, some of the bovine names were not recognized by the software, mostly because of different gene symbols.
Second, to construct another disease similarity network, we calculated similarity among disease phenotypes based on human phenotype ontology (HPO, a controlled vocabulary database) [43] (i.e., root term for this ontology graph is All).
To assess the advantages of γ-MYN in comparison with YN and MYN, we generated three groups of simulated sequences with the PAML package: (1) equal codon frequencies, (2) human frequencies (based on human protein-coding genes from the ENSEMBL database) [ 37] and (3) rice frequencies (based on rice protein-coding genes) [ 38].
The most conservative metabolite-prediction database is IIMDB [15], which utilizes a combination of absolute and relative reasoning rules [46] based on human xenometabolism to constrain the size of the database.
"More human movies based on human feelings".
