| ref/source | clone/bulk | phenotyping | no. nsi/r5 | no. si/x4 | |
|---|---|---|---|---|---|
ABEBE (1999) | BC + PB | SI/NSI and R5/X4 | 46 | 27 | |
TSCHERNING (1998), ALAEUS (1997) | PB | SI/NSI and R5/X4 | 18 | 0 | |
BALL (2003) | PB | SI/NSI and R5/X4 | 1 | 0 | |
BATRA (2000) | PB | SI/NSI | 22 | 3 | |
BJORNDAL (1999) | PB | SI/NSI and R5/X4 | 10 | 0 | |
BONGERTZ (2000) | PB | SI/NSI | 1 | 0 | |
CHEN (2000) | MC | R5/X4 | 1 | 0 | |
GAO (1996) | PB | SI/NSI | 4 | 0 | |
LOLE (1999) | PB | SI/NSI | 3 | 0 | |
MOCHIZUKI (1999) | MC | R5/X4 | 1 | 0 | |
| MORRIS (2001) | PB | SI/NSI and R5/X4 | 10 | 0 | |
NDUNGU (2001) | MC | R5/X4 | 1 | 0 | |
PAPATHANASOPOULOS (2002) | PB | R5/X4 | 0 | 2 | |
PING (1999) | PB | SI/NSI and R5/X4 | 16 | 0 | |
RODENBURG (2001) | PB | R5/X4 | 9 | 0 | |
| TORRE (2000) | PB | R5/X4 | 1 | 0 | |
TREURNICHT (2002) | PB | R5/X4 | 14 | 1 | |
TRKOLA (2001) | PB | R5/X4 | 1 | 0 | |
WILLIAMSON (2003), VAN HARMELEN (2001) | PB + MC | SI/NSI and R5/X4 | 4 | 1 | |
CHOGE (IN PRESS) | PB | SI/NSI and R5/X4 | 23 | 0 | |
COETZER (SUBM) | PB | SI/NSI and R5/X4 | 17 | 8 | |
CILLIERS (2003) | PB | SI/NSI and R5/X4 | 8 | 3 | |
COETZER (IN PREP) | PB | SI/NSI and R5/X4 | 1 | 3 | |
NICD (UNPUB) | PB | SI/NSI and R5/X4 | 16 | 3 | |
Total | 228 | 51 | 279 |
| C-PSSM cutoff -21.64 | B-PSSM cutoff -7 | |||||||
|---|---|---|---|---|---|---|---|---|
| id | GenBank | type | score | predictiona | sens/spec | score | predictiona | sens/spec |
| C.ZM.89.ZM20 | L22956 | SI | -24.89492048 | 0 | 0.833333333 | -9.601037284 | 0 | 0.541666667 |
| C.ZW.01.TC28_2 | AY265949 | SI | 1.320003451 | 1 | 4.038437733 | 1 | ||
| C.ZW.01.TC03_1 | AY265930 | SI | 2.690203197 | 1 | 5.737247761 | 1 | ||
| C.ET.97.PHD79C1 | AY452646 | SI | -26.49287118 | 0 | -11.35949029 | 0 | ||
| C.ZW.01.TC28_1 | AY265948 | SI | -24.4755872 | 0 | -7.95063423 | 0 | ||
| AC.RW.92.92RW009_di1sCD | U08763 | SI | -21.34618437 | 1 | -11.71045286 | 0 | ||
| AC.RW.92.92RW009_1gCR | U08631 | SI | -20.55772701 | 1 | -12.11591797 | 0 | ||
| C.ZW.01.TC22 | AY265942 | SI | -13.55120018 | 1 | -1.304152441 | 1 | ||
| C.ZW.01.TC30 | AY265951 | SI | -15.87249476 | 1 | -2.564425855 | 1 | ||
| C.ZW.01.TC29 | AY265951 | SI | -5.305447284 | 1 | 1.815938961 | 1 | ||
| C.ZA.99.DU179 | AY043174 | SI | -17.13178663 | 1 | -7.260950155 | 0 | ||
| A1C.SE.96.SE9488 | AF071474 | SI | -19.99320067 | 1 | -9.761484486 | 0 | ||
| C.ZW.01.TC25 | AY265945 | SI | -17.85974004 | 1 | -4.752852426 | 1 | ||
| C.ZW.01.TC03_2 | AY265931 | SI | -15.24411671 | 1 | -2.829477476 | 1 | ||
| C.ZA.99.ZASW7 | AF397573 | SI | 3.028793513 | 1 | 8.06879484 | 1 | ||
| C.ZW.01.TC13 | AY265937 | SI | -15.74922188 | 1 | -10.18249542 | 0 | ||
| C.ZA.99.99ZASW20 | AY230879 | SI | -14.62450947 | 1 | -4.879539445 | 1 | ||
| C.ZW.x.Z2288 | AF056123 | SI | -23.12488326 | 0 | -7.264575913 | 0 | ||
| C.ZW.01.TC08 | AY265934 | SI | -12.46854105 | 1 | -4.019621784 | 1 | ||
| C.ZW.01.TC23 | AY265943 | SI | -19.84932954 | 1 | -7.903309828 | 0 | ||
| C.ZW.x.Z748 | AF056139 | SI | -5.835941628 | 1 | -0.350135886 | 1 | ||
| C.ET.97.PHD74E7 | AY452644 | SI | 1.922534709 | 1 | -1.393096407 | 1 | ||
| C.ZW.01.TC04 | AY265932 | SI | -14.28874401 | 1 | -1.174386841 | 1 | ||
| C.ET.97.074D3 | AF158907 | SI | -15.75702467 | 1 | -10.3254563 | 0 | ||
| C.SN.90.90SE_364 | AY713416 | NSI | -28.16640588 | 0 | 0.829787234 | -9.764070628 | 0 | 0.787234043 |
| C.ZA.99.99ZASW35 | AY170666 | NSI | -23.38240629 | 0 | -6.430048616 | 1 | ||
| C.ZW.01.TC26 | AY265946 | NSI | -24.42293326 | 0 | -10.95977714 | 0 | ||
| C.ZA.90.90ZA514 | U33781 | NSI | -24.0811052 | 0 | -8.643025076 | 0 | ||
| C.FR.93.FRMP169 | U58797 | NSI | -26.2422023 | 0 | -8.696116534 | 0 | ||
| C.ZA.98.98ZA528 | AY158535 | NSI | -23.72370837 | 0 | -10.33328755 | 0 | ||
| C.ZW.01.TC19 | AY265941 | NSI | -26.92753971 | 0 | -9.941985558 | 0 | ||
| A1CDGKU.ZA.99.CM4 | AF411964 | NSI | -13.0278942 | 1 | 0.690894749 | 1 | ||
| C.ZA.98.TV007A | AF391238 | NSI | -23.11130008 | 0 | -9.222133301 | 0 | ||
| C.ZW.01.TC17 | AY265940 | NSI | -26.53742769 | 0 | -7.762975422 | 0 | ||
| C.ZA.99.99ZASW38 | AY170667 | NSI | -23.96874952 | 0 | -9.055862905 | 0 | ||
| C.FR.90.FRMP19 | U58790 | NSI | -29.24834668 | 0 | -10.59627373 | 0 | ||
| C.ZW.01.TC35 | AY265954 | NSI | -26.78467946 | 0 | -10.90537816 | 0 | ||
| C.ZW.01.TC31 | AY265957 | NSI | -25.79395613 | 0 | -9.860010389 | 0 | ||
| C.FR.93.FRMP129 | U58794 | NSI | -29.06665664 | 0 | -11.8999815 | 0 | ||
| C.FR.92.FRMP148 | U58796 | NSI | -27.65310784 | 0 | -8.972522783 | 0 | ||
| C.ZA.99.99ZASW38 | AY170667 | NSI | -26.32538628 | 0 | -8.579582718 | 0 | ||
| C.ZA.92.92ZA517 | AY170667 | NSI | -23.65025538 | 0 | -9.875882439 | 0 | ||
| C.FR.92.FRMP41 | U58788 | NSI | -27.98866364 | 0 | -13.23975584 | 0 | ||
| C.ZA.98.98ZA502 | AY158534 | NSI | -25.59336219 | 0 | -12.03094556 | 0 | ||
| C.MW.93.960 | U08454 | NSI | -27.05652783 | 0 | -8.976957851 | 0 | ||
| C.ZW.01.TC39 | AY265956 | NSI | -22.67287344 | 0 | -2.122169778 | 1 | ||
| C.ZW.01.TC24 | AY265944 | NSI | -16.79314469 | 1 | -2.970204875 | 1 | ||
| C.ZW.01.TC12 | AY265936 | NSI | -26.80438599 | 0 | -6.355603508 | 1 | ||
| BC.BR.92.92BR023 | U86559 | NSI | -20.64864234 | 1 | -12.53079562 | 0 | ||
| C.ZA.98.TV014 | AF254778 | NSI | -11.91565779 | 1 | -9.768543874 | 0 | ||
| C.ET.97.085 | AF158875 | NSI | -27.61879533 | 0 | -11.59626132 | 0 | ||
| C.ZA.98.TV008A | AF391240 | NSI | -28.36963726 | 0 | -10.32020694 | 0 | ||
| C.ZW.01.TC07 | AY265933 | NSI | -29.47515187 | 0 | -12.17113427 | 0 | ||
| C.ZW.01.TC27 | AY265947 | NSI | -24.00779779 | 0 | -8.366741927 | 0 | ||
| C.ZW.01.TC34 | AY265953 | NSI | -26.73602021 | 0 | -7.873518229 | 0 | ||
| C.ZW.01.TC11 | AY265935 | NSI | -18.27470013 | 1 | -7.688354199 | 0 | ||
| C.ZA.98.98ZA445 | AY158533 | NSI | -28.83384162 | 0 | -10.67803307 | 0 | ||
| C.ZW.01.TC36 | AY265955 | NSI | -20.68133822 | 1 | -9.919600659 | 0 | ||
| C.ZA.98.TV001 | AF254766 | NSI | -25.04611075 | 0 | -9.328193457 | 0 | ||
| C.ZW.01.TC02 | AY265929 | NSI | -27.02907165 | 0 | -7.472169183 | 0 | ||
| C.ET.02.02ET_288 | AY713417 | NSI | -28.53687256 | 0 | -10.36405043 | 0 | ||
| C.ZW.01.TC16 | AY265939 | NSI | -19.08554717 | 1 | -4.511912189 | 1 | ||
| C.ZA.98.TV018 | AF254782 | NSI | -26.51833399 | 0 | -6.832250677 | 1 | ||
| A2C.ZA.98.DU178 | AF411965 | NSI | -23.68563117 | 0 | -9.182258694 | 0 | ||
| C.FR.92.FRMP130 | U58795 | NSI | -26.78421178 | 0 | -8.531290103 | 0 | ||
| C.ZW.01.TC15 | AY265938 | NSI | -23.08477717 | 0 | -6.87908799 | 1 | ||
| C.ZW.01.TC33 | AY265952 | NSI | -27.46929978 | 0 | -9.832638966 | 0 | ||
| C.FR.93.FRMP37 | U58786 | NSI | -25.57077753 | 0 | -7.763081618 | 0 | ||
| C.ZW.01.TC32 | AY265958 | NSI | -6.952498098 | 1 | 0.820711368 | 1 | ||
| C.FR.91.FRMP197 | U58798 | NSI | -25.93800559 | 0 | -8.874777779 | 0 | ||
| C.SO.89.89SM_145 | AY713415 | NSI | -23.05344271 | 0 | -6.746030536 | 1 |
Footnotes
C-PSSM cutoff -21.64 score
area under ROCb: 0.8812057
B-PSSM cutoff -7 score
area under ROCb:0.7087766
a: 0 = NSI, 1 = SI
b: ROC values calculated using R; scripts available on request