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Table 1 Prediction quality of the FAO/WHO methods.

From: Allermatch™, a webtool for the prediction of potential allergenicity according to current FAO/WHO Codex alimentarius guidelines

    1 2 3
    False negatives False negatives (corrected) False positives
Database Method Wordsize Number % Number % Number %
SwissProt Window n.a. 71 / 334 21.3 57 / 320 17.8 3 / 12 25.0
  Wordmatch 6 54 / 334 16.2 n.a. n.a. 7 / 12 58.3
   7 69 / 334 20.7 n.a. n.a. 6 / 12 50.0
   8 78 / 334 23.4 n.a. n.a. 3 / 12 25.0
WHO-IUIS Window n.a. 99 / 632 15.7 78 / 611 12.8 4 / 12 33.3
  Wordmatch 6 58 / 632 9.2 n.a. n.a. 9 / 12 75.0
   7 98 / 632 15.5 n.a. n.a. 8 / 12 66.7
   8 117 / 632 18.5 n.a. n.a. 3 / 12 25.0
SwissProt & WHO-IUIS Window n.a. 101 / 730 13.8 77 / 706 10.9 5 / 12 41.7
  Wordmatch 6 55 / 730 7.5 n.a. n.a. 9 / 12 75.0
   7 95 / 730 13.0 n.a. n.a. 8 / 12 66.7
   8 115 / 730 15.8 n.a. n.a. 3 / 12 25.0
  1. The number and percentage of false negative and false positive results are shown here for all FAO/WHO recommended method/database combinations. Result set 1 describes the number of false negatives observed in a leave-one-out approach. The next result set (2) shows the same results but corrected for those sequences that were not able to generate a hit against itself due to the short length of the sequence. The last result set (3) shows the observed number of false positives when testing 12 non-allergenic sequences with the Allermatch™ webtool. Each of the result sets consists of two columns; the first column shows the number of erroneous hits and the total number of sequences in this set. The second column shows the percentage of erroneous hits.