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Table 3 Top sites for modelling IAV virulence based on the 100 models generated from the (A) two-class and (B) three-class IV datasets containing the concatenated aligments of all IAV proteins. For OneR (1R), the numbers in parentheses are the frequency of the corresponding site being selected in the models; for JRip (JR) and PART (PT), they are the average contribution of the corresponding site to accuracy (in percent); and for random forest (RF), they are the average mean decrease in accuracy attributed to the corresponding site. Each number was calculated following 100 independent learnings from the two-class or three-class IV dataset. For 1R, only sites with frequency > 1 are shown, while for JR, PT and RF, only top 20 sites are shown

From: Rule-based meta-analysis reveals the major role of PB2 in influencing influenza A virus virulence in mice

(A) Two-class IV dataset
 1R HA-142 (28) HA-188 (12) HA-160 (7) NA-46 (6) HA-189 (4)
PA-X-213 (4) HA-219 (3) HA-285 (3) HA-397 (3) NA-79 (3)
NS1–171 (3) NS1–95 (3) HA-196 (2) NA-86 (2) NS1–226 (2)
 JR PB2–627 (4.07) PB2–701 (3.03) PA-97 (1.40) HA-297 (1.26) HA-452 (0.96)
HA-218 (0.91) NA-46 (0.89) M1–227 (0.89) NA-17 (0.71) NA-164a (0.58)
NS1–95 (0.55) NS1–226 (0.53) M1–15 (0.52) NS1–171 (0.51) PB2–508 (0.48)
NA-151 (0.43) PA-X-207 (0.43) NA-29 (0.42) NA-371 (0.40) HA-278 (0.39)
 PT NS1–42 (20.29) PA-97 (20.20) PB2–714 (18.28) PB2–110 (16.72) PB2–153 (13.26)
PB2–701 (11.53) NA-276 (10.35) NP-101 (10.19) PA-556 (9.94) PB2–318 (9.26)
NP-492 (9.16) NP-133 (8.92) PB2–80 (8.71) M1–215 (8.20) NS1–123 (7.58)
HA-485 (7.56) PA-341 (6.67) PB2–635 (6.23) PB2–158 (6.08) PB2–627 (5.83)
 RF PA-97 (6.75) PB2–701 (6.54) PA-X-97 (6.25) NS1–42 (5.87) HA-218 (5.53)
PB2–355 (5.11) NP-34 (4.83) PB2–627 (4.76) PB2–714 (4.55) HA-186 (4.12)
HA-227 (3.88) NP-101 (3.78) PB2–699 (3.68) HA-485 (3.66) PB2–318 (3.62)
HA-142 (3.52) M1–30 (3.49) PB2–675 (3.46) PB2–153 (3.43) NA-46 (3.35)
(B) Three-class IV dataset
 1R HA-188 (34) NA-370 (16) NA-16 (10) HA-142 (9) HA-53 (6)
HA-94 (4) NA-164a (4) HA-8 (3) HA-173 (2) HA-285 (2)
 JR PB2–627 (4.98) PB2–701 (1.73) NA-151 (1.45) NA-164a (1.37) HA-218 (1.20)
HA-297 (1.02) HA-225 (0.94) HA-452 (0.93) PB1-F2–28 (0.88) HA-327b (0.85)
M2–28 (0.84) HA-266 (0.74) NS1–42 (0.71) PA-97 (0.68) NA-61 (0.68)
PA-X-213 (0.59) HA-482 (0.58) M2–93 (0.54) HA-160 (0.52) PB1-F2–49 (0.51)
 PT PB2–158 (12.81) PB2–110 (11.97) NS1–42 (10.79) PB2–153 (10.56) NA-276 (10.31)
PB2–80 (9.21) NS2–67 (8.46) PB2–265 (8.23) PB2–66 (7.92) PB2–627 (7.62)
NA-441 (7.28) NS1–28 (6.97) M2–24 (6.87) PB2–497 (6.54) HA-294 (6.51)
PB1–578 (6.20) PA-97 (6.19) NP-101 (6.18) PB2–76 (6.07) M1–215 (6.06)
 RF PB2–627 (6. 69) NS1–42 (6.49) HA-225 (6.41) PB2–701 (6.34) PA-97 (5.90)
HA-218 (5.42) PB2–355 (5.41) PA-X-97 (5.26) M1–215 (4.84) PB2–699 (4.52)
NP-133 (4.51) NP-101 (4.48) PB2–153 (4.41) M1–30 (4.35) NP-34 (4.31)
HA-227 (4.22) HA-156 (4.17) PB2–714 (4.12) HA-188 (4.12) NA-49 (4.10)