Genome-Scale Identification of Membrane-Associated Human mRNAs (original) (raw)
Figure 3
Comparison of Empirical Classifications of MS and CN Genes with In Silico Prediction Methods
(A) We were able to retrieve curated, NP protein accessions for 5,504 of the well-measured UniGene clusters on our arrays. The prediction algorithms used were SignalP (HMM/Smean score method) [33] for SPs and TMHMM (first60 score cutoff greater than 10) [34] for TM domains. In order to calculate the fraction of proteins within a category that contained a given motif, the overlap between that category and the genes with protein sequences was used.
(B) Venn diagrams showing the overlap between the empirically determined cDNA clones, clones with in silico predictions, and clones encoding proteins with known subcellular localization. For this analysis, we were able to retrieve representative protein accessions for 10,006 cDNA clones from UniGene and applied the prediction algorithms as in (A).