Experiments and Results - Protein Homology Detection Through Alignment of Markov Random Fields - page 47

Fig. 4.2 The model quality, measured by TM-score, of our method and HHpred for the 36
CASP10 hard targets. Each point represents two models generated by our method (X-axis) and
HHpred (Y-axis), respectively. TM-score ranges from 0 to 1 with 0 indicating the worst quality
and 1 the highest

Table 4.17 Fold recognition rate of MRFalign on SCOP40, with respect to the similarity

(measured by E-value) between the training and test data
E<1e 35 1e 35<E<1e 2 E > 1e 2

− − − −

Top1 Top5 Top10 Top1 Top5 Top10 Top1 Top5 Top10

Hmmscan 5.0 5.6 5.6 7.3 7.9 7.9 6.4 7.3 7.4

FFAS 10.3 14.5 15.8 9.7 12.9 13.5 11.6 16.5 17.5

HHsearch 16.0 23.2 26.5 18.5 26.2 30.3 18.9 27.2 31.7

HHblits 16.9 23.1 25.5 20.8 27.4 28.9 20.2 28.3 31.1

MRFalign 25.5 35.9 39.4 29.7 39.5 43.3 29.4 39.0 43.6

The numbers are presented as percentage

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