cisTarget
genome-wide target predictions in Drosophila melanogaster
| Strategy ID | Training | Cluster type | Scoring | Conservation type | LOOCV Negatives | genome-wide |
|---|---|---|---|---|---|---|
| F-NLC | FlyReg PWM (by Daniel Pollard) | Homotypic | Cluster-Buster 11 genomes | Network level conservation | 500 proximal promoters | 5kbup-limit & introns |
| P-NLC | PhyloPWM | Homotypic | Cluster-Buster 11 genomes | Network level conservation | 500 proximal promoters | 5kbup-limit & introns |
| F-MC | FlyReg PWM | Homotypic | Cluster-Buster 11 genomes | Motif conservation | 500 proximal promoters | 5kbup-limit & introns |
| P-MC | PhyloPWM | Homotypic | Cluster-Buster 11 genomes | Motif conservation | 500 proximal promoters | 5kbup-limit & introns |
| F-O-MC | Oligo-analysis motifs + FlyReg PWM | Heterotypic | Cluster-Buster 11 genomes | Network level conservation | 500 proximal promoters | 5kbup-limit & introns |
| TF | FlyBase | CG | FlyReg | TGs | FlyReg PWM | phyloPWM | 1kb LOOCV regions | AUC | Estimated sensitivity at 0.95 specificity | New candidate target genes | Predicted enhancers |
|---|---|---|---|---|---|---|---|---|---|---|---|
| abd-A | FBgn0000014 | CG10325 | abd-A | Antp, tsh, Dll, dpp |  |  | 006081 002347 006297 003637 | F-NLC: 0.59 P-NLC: 0.55 F-MC: 0.88 P-MC: 0.85 F-O-NLC: 0.88 | F-NLC: 0.25 P-NLC: 0.25 F-MC: 0.25 P-MC: 0.00 F-O-NLC: 0.75 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Adf1 | FBgn0000054 | CG15845 | Adf1 | Antp, Ddc, Adh, dpp |  |  | 006446 005464 005046 003665 | F-NLC: 0.92 P-NLC: 0.94 F-MC: 0.65 P-MC: 0.59 F-O-NLC: 0.95 | F-NLC: 0.50 P-NLC: 0.75 F-MC: 0.25 P-MC: 0.25 F-O-NLC: 0.50 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Antp | FBgn0000095 | CG1028 | Antp | Antp, tsh, ap |  |  | 004112 002348 006193 | F-NLC: 0.79 P-NLC: 0.68 F-MC: 0.84 P-MC: 0.82 F-O-NLC: 0.63 | F-NLC: 0.33 P-NLC: 0.33 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| bcd | FBgn0000166 | CG1034 | bcd | tll, eve, ems, Kr, kni, salm, h, hb |  |  | 006250 004117 003678 003685 006051 006003 005919 006413 | F-NLC: 0.90 P-NLC: 0.91 F-MC: 0.91 P-MC: 0.91 F-O-NLC: 0.93 | F-NLC: 0.75 P-NLC: 0.88 F-MC: 0.62 P-MC: 0.62 F-O-NLC: 0.75 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| br | FBgn0000210 | CG11514 | br | Ddc, Sgs4, Hsp23, Eig71Eg |  |  | 005445 004472 001199 004527 | F-NLC: 0.43 P-NLC: 0.36 F-MC: 0.20 P-MC: 0.13 F-O-NLC: 0.22 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| brk | FBgn0024250 | CG9653 | brk | zen, lab, bi |  |  | 006261 005392 000446 | F-NLC: 0.83 P-NLC: 0.91 F-MC: 0.94 P-MC: 0.95 F-O-NLC: 0.85 | F-NLC: 0.67 P-NLC: 0.67 F-MC: 0.00 P-MC: 0.33 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| cad | FBgn0000251 | CG1759 | cad | ftz, kni, salm |  |  | 004966 006056 006004 | F-NLC: 0.74 P-NLC: 0.81 F-MC: 0.87 P-MC: 0.92 F-O-NLC: 0.70 | F-NLC: 0.67 P-NLC: 0.67 F-MC: 0.33 P-MC: 0.33 F-O-NLC: 0.33 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| dl | FBgn0000462 | CG6667 | dl | rho, zen, twi, sna, dpp |  |  | 000901 006272 006449 006285 005229 | F-NLC: 1.00 P-NLC: 1.00 F-MC: 0.97 P-MC: 0.97 F-O-NLC: 1.00 | F-NLC: 1.00 P-NLC: 1.00 F-MC: 0.80 P-MC: 0.60 F-O-NLC: 1.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Dref | FBgn0015664 | CG5838 | Dref | ras, DNApol-alpha73, DNApol-alpha180, E2f |  |  | 004539 002339 005998 006068 | F-NLC: 0.73 P-NLC: 0.72 F-MC: 0.21 P-MC: 0.20 F-O-NLC: 0.82 | F-NLC: 0.25 P-NLC: 0.00 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| en | FBgn0000577 | CG9015 | en | Ubx, ph-p, ftz, ci, ph-d, en, dpp |  |  | 002446 006306 005108 006198 006317 006388 006408 | F-NLC: 0.54 P-NLC: 0.56 F-MC: 0.68 P-MC: 0.66 F-O-NLC: 0.58 | F-NLC: 0.29 P-NLC: 0.29 F-MC: 0.14 P-MC: 0.14 F-O-NLC: 0.14 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| E(spl) | FBgn0000591 | CG8365 | E(spl) | ac, sc, l(1)sc, Espl |  |  | 003023 004534 003026 003016 | F-NLC: 0.66 P-NLC: 0.64 F-MC: 0.79 P-MC: 0.48 F-O-NLC: 0.94 | F-NLC: 0.50 P-NLC: 0.25 F-MC: 0.25 P-MC: 0.25 F-O-NLC: 0.75 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| eve | FBgn0000606 | CG2328 | eve | abd-A, Ubx, eve, gsb, tin, en, mus209 |  |  | 000264 006147 001787 003454 002343 006375 006351 | F-NLC: 0.79 P-NLC: 0.78 F-MC: 0.79 P-MC: 0.80 F-O-NLC: 0.71 | F-NLC: 0.43 P-NLC: 0.43 F-MC: 0.43 P-MC: 0.29 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| ftz | FBgn0001077 | CG2047 | ftz | Antp, Ubx, tsh, ftz, gsb, en |  |  | 006091 002447 002358 004895 003455 006389 | F-NLC: 0.82 P-NLC: 0.82 F-MC: 0.82 P-MC: 0.82 F-O-NLC: 0.94 | F-NLC: 0.17 P-NLC: 0.17 F-MC: 0.50 P-MC: 0.50 F-O-NLC: 0.33 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| grh | FBgn0004586 | CG5058 | grh | Ubx, zen, Ddc, tll, ftz, dpp |  |  | 006161 006279 005463 005153 005549 005241 | F-NLC: 0.61 P-NLC: 0.60 F-MC: 0.65 P-MC: 0.66 F-O-NLC: 0.61 | F-NLC: 0.17 P-NLC: 0.17 F-MC: 0.17 P-MC: 0.17 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| gt | FBgn0001150 | CG7952 | gt | abd-A, eve, Kr, kni |  |  | 000267 004119 003700 006044 | F-NLC: 0.73 P-NLC: 0.80 F-MC: 0.92 P-MC: 0.86 F-O-NLC: 0.96 | F-NLC: 0.25 P-NLC: 0.25 F-MC: 0.50 P-MC: 0.25 F-O-NLC: 0.75 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| hb | FBgn0001180 | CG9786 | hb | abd-A, Ubx, eve, Kr, kni, salm, h, en, hb |  |  | 000261 002444 002267 003683 006029 006017 005952 006382 006416 | F-NLC: 0.87 P-NLC: 0.84 F-MC: 0.89 P-MC: 0.88 F-O-NLC: 0.87 | F-NLC: 0.67 P-NLC: 0.67 F-MC: 0.67 P-MC: 0.56 F-O-NLC: 0.78 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| HLHm5 | FBgn0002631 | CG6096 | HLHm5 | ac, l(1)sc, Espl |  |  | 003024 003027 003017 | F-NLC: 0.59 P-NLC: 0.74 F-MC: 0.91 P-MC: 0.92 F-O-NLC: 0.91 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.67 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| kni | FBgn0001320 | CG4717 | kni | Ubx, eve, Kr, h |  |  | 005367 002266 003697 005955 | F-NLC: 0.84 P-NLC: 0.80 F-MC: 0.92 P-MC: 0.91 F-O-NLC: 0.99 | F-NLC: 0.50 P-NLC: 0.50 F-MC: 0.50 P-MC: 0.50 F-O-NLC: 1.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Kr | FBgn0001325 | CG3340 | Kr | abd-A, Ubx, ko, eve, kni, salm, h, en, hb |  |  | 000260 005369 006319 004114 006028 006002 005927 006381 006422 | F-NLC: 0.85 P-NLC: 0.88 F-MC: 0.80 P-MC: 0.79 F-O-NLC: 0.81 | F-NLC: 0.56 P-NLC: 0.44 F-MC: 0.44 P-MC: 0.44 F-O-NLC: 0.44 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Mad | FBgn0011648 | CG12399 | Mad | zen, vg, tin |  |  | 006258 006302 000747 | F-NLC: 0.72 P-NLC: 0.75 F-MC: 0.85 P-MC: 0.88 F-O-NLC: 0.77 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.33 P-MC: 0.33 F-O-NLC: 0.33 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| ovo | FBgn0003028 | CG6824 | ovo | orb, otu, Sxl, ovo |  |  | 006366 006363 006349 001594 | F-NLC: 0.86 P-NLC: 0.86 F-MC: 0.61 P-MC: 0.69 F-O-NLC: 0.92 | F-NLC: 0.50 P-NLC: 0.25 F-MC: 0.25 P-MC: 0.00 F-O-NLC: 0.25 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| pan | FBgn0019664 | CG17964 | pan | slp1, eve, Ser |  |  | 000600 002461 006471 | F-NLC: 0.84 P-NLC: 0.66 F-MC: 0.88 P-MC: 0.88 F-O-NLC: 0.85 | F-NLC: 0.33 P-NLC: 0.00 F-MC: 0.33 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| sd | FBgn0003345 | CG8544 | sd | ct, bs, vg, kni, salm |  |  | 001396 000418 006298 001390 006342 | F-NLC: 0.74 P-NLC: 0.88 F-MC: 0.76 P-MC: 0.91 F-O-NLC: 0.81 | F-NLC: 0.20 P-NLC: 0.40 F-MC: 0.20 P-MC: 0.60 F-O-NLC: 0.20 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| slbo | FBgn0005638 | CG4354 | slbo | Yp1, slbo, btl |  |  | 005541 006136 002483 | F-NLC: 0.60 P-NLC: 0.50 F-MC: 0.69 P-MC: 0.62 F-O-NLC: 0.72 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| srp | FBgn0003507 | CG3992 | srp | Fbp1, Yp1, Adh |  |  | 005977 005548 005060 | F-NLC: 0.42 P-NLC: 0.33 F-MC: 0.83 P-MC: 0.62 F-O-NLC: 0.32 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.67 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| tin | FBgn0004110 | CG7895 | tin | Mef2, eve, betaTub60D, tin |  |  | 005979 002467 000670 000745 | F-NLC: 0.99 P-NLC: 0.98 F-MC: 0.66 P-MC: 0.68 F-O-NLC: 0.99 | F-NLC: 1.00 P-NLC: 0.75 F-MC: 0.50 P-MC: 0.25 F-O-NLC: 1.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| tll | FBgn0003720 | CG1378 | tll | Ubx, ems, Kr, kni, h, hb |  |  | 002449 003680 003682 006030 005918 005987 | F-NLC: 0.75 P-NLC: 0.74 F-MC: 0.80 P-MC: 0.79 F-O-NLC: 0.90 | F-NLC: 0.50 P-NLC: 0.50 F-MC: 0.33 P-MC: 0.33 F-O-NLC: 0.33 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Trl | FBgn0013263 | CG33261 | Trl | Ubx, tll, Hsp70Ab, alphaTub84B, Adh, Trl, Kr, Hsp26, Eip74EF, dpp |  |  | 006155 005154 005504 004152 005041 006166 003002 005512 005967 003668 | F-NLC: 0.88 P-NLC: 0.89 F-MC: 0.58 P-MC: 0.65 F-O-NLC: 0.88 | F-NLC: 0.70 P-NLC: 0.80 F-MC: 0.40 P-MC: 0.30 F-O-NLC: 0.60 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| ttk | FBgn0003870 | CG11558 | ttk | tll, ftz, eve |  |  | 005156 004909 001791 | F-NLC: 0.70 P-NLC: 0.63 F-MC: 0.63 P-MC: 0.26 F-O-NLC: 0.79 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.67 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| twi | FBgn0003900 | CG2956 | twi | rho, Ubx, sna, sim, tin |  |  | 000906 002445 006283 004502 000300 | F-NLC: 0.83 P-NLC: 0.81 F-MC: 0.62 P-MC: 0.63 F-O-NLC: 0.92 | F-NLC: 0.20 P-NLC: 0.20 F-MC: 0.20 P-MC: 0.20 F-O-NLC: 0.60 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| Ubx | FBgn0003944 | CG10388 | Ubx | Antp, Ubx, tsh, betaTub60D, Dll, salm, dpp |  |  | 006078 006146 002346 004395 006295 006341 003638 | F-NLC: 0.66 P-NLC: 0.66 F-MC: 0.87 P-MC: 0.85 F-O-NLC: 0.73 | F-NLC: 0.14 P-NLC: 0.00 F-MC: 0.57 P-MC: 0.57 F-O-NLC: 0.29 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| vvl | FBgn0003995 | CG10037 | vvl | vvl, vg, btl |  |  | 000948 006301 002486 | F-NLC: 0.73 P-NLC: 0.89 F-MC: 0.89 P-MC: 0.92 F-O-NLC: 0.62 | F-NLC: 0.00 P-NLC: 0.00 F-MC: 0.67 P-MC: 0.67 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| zen | FBgn0004053 | CG1046 | zen | Ubx, DNApol-alpha180, Ance, en, mus209 |  |  | 006148 006000 004210 006374 006352 | F-NLC: 0.80 P-NLC: 0.84 F-MC: 0.73 P-MC: 0.68 F-O-NLC: 0.78 | F-NLC: 0.40 P-NLC: 0.40 F-MC: 0.20 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
| z | FBgn0004050 | CG7803 | z | Ubx, w, Eip74EF, z, dpp |  |  | 002906 006461 005968 002916 002910 | F-NLC: 0.92 P-NLC: 0.93 F-MC: 0.49 P-MC: 0.46 F-O-NLC: 0.87 | F-NLC: 0.40 P-NLC: 0.40 F-MC: 0.00 P-MC: 0.00 F-O-NLC: 0.00 | F-NLC P-NLC F-MC P-MC F-O-NLC | F-NLC P-NLC F-MC P-MC F-O-NLC |
Other TFs, outside FlyReg:
| TF | FlyBase | CG | Footprints@FlyReg | Target genes@FlyReg | FlyReg PWM | phyloPWM | 1kb LOOCV regions | AUC | Estimated sensitivity at 0.95 specificity | New candidate target genes | Predicted enhancers |
|---|---|---|---|---|---|---|---|---|---|---|---|
| ey | FBgn0005558 | CG1464 | ey | so, shf, Optix, eya, ato |  |  | shf optix eya so ato |
F-NLC: 0.94 | F-NLC: 0.6 | F-NLC | F-NLC |