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In [ 19], the coherence score defined above is called reproducibility score and coherent genes (genes with high values of the score) are called "consistent".
We used the OMIM-based HPO, Orphanet, and POSSUM phenotype databases for this purpose and devised a biological coherence score based on the sharing of gene ontology annotation to investigate the degree to which phenotype similarity in these databases reflects related pathobiology.
By estimating the mean and variance of the coherence score from random groups of proteins, they calculated the p-value of the observed coherence score based on the asymptotically normal distribution function.
Later, Chagoyen et al. used the pair-wise similarities of functional annotations from GO to calculate the coherence score of a protein set.
The significance assessment of the coherence score was performed by measuring the functional relatedness of a given protein set compared with another set drawn from a reference set [13].
This index calculates the expression coherence score (ECS) among the common target genes of a PCTFP.
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NPDG estimates functional cohesion by comparing the difference between the empirical and theoretical distributions of coherence scores using Kullback-Leibler divergence [11].
Their functional coherence scores were 35%, 36%and31%1% respectively.
Our results confirm this fact, as large CCS always get low coherence scores (see Results).
However women in Austria had significantly better sense of coherence scores.
One way to computationally validate combinatorial regulation is through expression coherence scores.
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