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Fig. 3 | BMC Bioinformatics

Fig. 3

From: An improved approach to infer protein-protein interaction based on a hierarchical vector space model

Fig. 3

An example illustrating the algorithm. Gene1:S000000313 is annotated to 5 terms and Gene2: S000000825 is annotated to 1 term, which are written in black color. Parent and grandparent terms via “is_a” relations are in red and orange respectively. The terms in green are related via “part_of” relation. Gene1 and Gene2 happen to have no common descendants. The steps in stage3 are not shown because they are almost the same as stage2. The vector components in green background are the ones changed in the steps. The similarity by VSM can be simply calculated from the two vectors in stage1, which is 0. However the gene pair is labeled as positive in the yeast dataset. The similarity obtained by HVSM is 0.23

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