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Figure 2 | Journal of Biomedical Semantics

Figure 2

From: Functional tissue units and their primary tissue motifs in multi-scale physiology

Figure 2

Step-by-step example illustrating the automation of primary tissue motif comparison. [A] FTU knowledge about 5 distinct tissues (in this particular example, derived from histology textbooks[16, 17]) generated lists of distinct constituent cell types for each of the corresponding derivative primary tissue motifs. [B] Each distinct cell type in [A] was mapped to the equivalent term from the CellType ontology and assigned its unique term ID. [C] An all-vs-all pairwise comparison between the primary tissue motifs (ptm) was carried out as follows: (i) for every unique combination of ptm pairs (such that a pair consists of ptm_X and ptm_Y), an all-vs-all semantic similarity score c() for each unique combination of CellType term pairs is calculated (such that one CellType term is drawn from ptm_X and another from ptm_Y); (ii) the set p{} of highest scoring exclusive pairs of CellType terms is identified – exclusivity in a pair ensures that, once a CellType term from one ptm is selected to match another CellType term from another ptm, neither of these two CellType terms are included in any other pair in p{}; (iii) the sum of c() scores in p{} are divided by the average number of cell types across ptm_X and ptm_Y to generate s( ptm_X,ptm_Y ). [D] The set of ptm elements is clustered over the pairwise score s(). See also Table 1 for concrete values of c(), p{} and s() involving the 5 distinct tissues referred to in [A].

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