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The annotations for these protein IDs were downloaded from DAVID v6.7, (http://david.abcc.ncifcrf.gov/) (Huang et al. [2009]).
The annotations for human genome assembly version 36.1 were used.
The annotations for these proteins are presented as Supplementary Dataset S1.
The annotations for each member were examined manually to determine trends, if any, in length-rigid and length-deviant domain superfamilies.
The annotations for mapping the SNPs to the genes were from dbSNP version 129 and the ENSEMBL database (homo_sapiens_variation_50_361; homo_sapiens_variation_50_361o_sapiens_registry_50_361) [51].
The annotations for the HGU133_Plus_2 array were used to determine which probe sets were associated with regions appearing to be significantly hyper- or hypomethylated in 468LN vs 468GFP cells, and these probe set IDs were used in cross platform analyses.
The annotations for the closest match in the training set (determined by E-value) were used as predictions, and predictions for a protein were taken to be the predictions for all its domains.
The annotations for these genes are detailed in Additional File 3, Table S2.
The annotations for a set of genes can then be mapped onto the GO slim.
The annotations for each of these runs are summarized in Additional file 3.
The annotations for 5'UTRs are thus fairly accurate for the two species.
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