Explore network modules for Pseudomonas aeruginosa

Use residual and motif e-value sliders to filter modules

Residual: 0-0.3 Motif e-value 0-10
This is the section to display the module list


PA0032 PA0034 PA0037 trpI PA0056 PA0116 PA0120 PA0121 PA0123 PA0125 PA0133 PA0149 PA0152 pcaQ PA0155 pcaR PA0159 PA0163 PA0167 PA0179 PA0181 PA0191 PA0207 PA0217 PA0218 PA0225 PA0233 PA0236 PA0243 PA0248 PA0253 PA0268 PA0272 PA0275 PA0279 PA0289 gpuR PA0294 aguR PA0306 PA0367 PA0376 rpoH PA0393 proC PA0416 chpD PA0424 mexR PA0436 PA0448 PA0455 dbpA PA0456 PA0472 PA0475 PA0477 PA0479 PA0487 PA0491 PA0512 PA0513 PA0514 nirL PA0515 PA0527 dnr PA0528 PA0533 PA0535 PA0547 PA0564 PA0576 rpoD PA0601 PA0610 prtN PA0611 prtR PA0652 vfr PA0675 PA0701 PA0707 toxR PA0708 PA0739 PA0748 PA0762 algU PA0763 mucA PA0764 mucB PA0765 mucC PA0780 pruR PA0784 PA0791 PA0797 PA0815 PA0816 PA0828 PA0831 oruR PA0839 PA0864 PA0873 phhR PA0876 PA0877 PA0890 aotM PA0893 argR PA0905 rsmA PA0906 PA0939 PA0942 PA0961 PA0979 PA1003 mvfR PA1015 PA1050 PA1067 PA1097 fleQ PA1099 fleR PA1109 PA1125 PA1128 PA1136 PA1138 PA1141 PA1142 PA1145 PA1153 PA1159 PA1182 PA1184 PA1196 PA1197 PA1201 PA1223 PA1226 PA1229 PA1235 PA1241 PA1261 PA1264 PA1269 PA1283 PA1285 PA1290 PA1300 PA1309 PA1312 PA1315 PA1328 PA1335 PA1347 PA1351 PA1359 PA1363 PA1374 PA1380 PA1397 PA1399 PA1403 PA1413 PA1422 gbuR PA1430 lasR PA1455 fliA PA1467 PA1484 PA1490 PA1504 PA1520 PA1526 PA1539 PA1544 anr PA1570 PA1599 PA1603 PA1607 PA1619 PA1627 PA1630 PA1633 kdpA PA1653 PA1663 PA1713 exsA PA1738 PA1754 cysB PA1759 PA1760 PA1776 sigX PA1826 PA1836 PA1850 PA1853 PA1859 PA1864 PA1884 PA1898 qscR PA1912 PA1937 PA1945 PA1949 rbsR PA1961 PA1978 PA1980 PA1998 PA2005 PA2010 PA2016 gnyR PA2020 PA2028 PA2032 PA2047 PA2050 PA2054 cynR PA2056 PA2076 PA2082 PA2093 PA2096 PA2100 PA2115 PA2118 ada PA2121 PA2123 PA2126 PA2196 PA2206 PA2220 PA2227 PA2246 bkdR PA2258 ptxR PA2259 ptxS PA2267 PA2270 PA2273 PA2276 PA2277 arsR PA2281 PA2299 PA2312 PA2316 PA2320 gntR PA2332 PA2334 PA2337 mtlR PA2354 PA2359 PA2376 PA2383 PA2387 PA2417 PA2423 PA2426 pvdS PA2432 PA2447 PA2467 PA2468 PA2469 PA2484 PA2488 PA2489 PA2492 mexT PA2497 PA2510 catR PA2511 PA2519 xylS PA2534 PA2547 PA2551 PA2556 PA2577 PA2586 gacA PA2588 PA2591 PA2601 PA2622 cspD PA2665 PA2681 PA2692 PA2696 PA2704 PA2713 PA2718 PA2736 PA2737 PA2758 PA2766 PA2785 PA2802 PA2825 PA2834 PA2838 PA2846 PA2848 PA2849 PA2859 greB PA2877 PA2879 PA2885 PA2896 PA2897 PA2899 PA2917 PA2921 PA2930 PA2931 PA2957 PA3002 mfd PA3006 psrA PA3007 lexA PA3027 PA3034 PA3045 PA3067 PA3094 PA3122 PA3124 PA3126 ibpA PA3133 PA3135 PA3174 PA3184 PA3197 PA3215 PA3220 PA3225 PA3249 PA3266 capB PA3269 PA3285 PA3321 PA3322 PA3341 PA3363 amiR PA3364 amiC PA3381 PA3391 nosR PA3398 PA3410 PA3420 PA3423 PA3433 PA3458 PA3477 rhlR PA3508 PA3563 fruR PA3565 PA3571 mmsR PA3574 PA3583 glpR PA3587 metR PA3594 PA3596 PA3599 PA3604 PA3622 rpoS PA3630 PA3678 PA3689 PA3699 PA3711 PA3714 PA3721 PA3757 PA3771 PA3776 PA3778 PA3782 PA3804 PA3815 PA3830 PA3845 PA3864 PA3879 narL PA3895 PA3898 PA3899 PA3921 PA3927 PA3932 PA3948 PA3965 PA3973 PA3995 PA4021 PA4052 nusB PA4057 PA4070 PA4074 PA4077 PA4080 PA4094 PA4109 ampR PA4120 PA4132 PA4135 PA4145 PA4147 acoR PA4157 PA4165 PA4169 PA4174 PA4182 PA4184 PA4185 PA4196 PA4203 PA4227 pchR PA4238 rpoA PA4269 rpoC PA4270 rpoB PA4275 nusG PA4279 PA4288 PA4296 PA4315 mvaT PA4341 PA4354 PA4363 iciA PA4436 PA4451 PA4462 rpoN PA4493 PA4499 PA4508 PA4530 PA4547 pilR PA4581 rtcR PA4596 PA4600 nfxB PA4659 PA4703 PA4745 nusA PA4755 greA PA4764 fur PA4769 PA4778 PA4784 PA4787 PA4806 PA4831 PA4853 fis PA4878 PA4890 PA4896 PA4902 PA4906 PA4914 PA4984 PA4989 PA5029 PA5032 PA5059 PA5085 PA5105 hutC PA5116 PA5125 ntrC PA5157 PA5166 PA5179 PA5189 PA5218 PA5239 rho PA5253 algP PA5255 algQ PA5261 algR PA5274 rnk PA5283 PA5288 glnK PA5293 PA5301 PA5308 lrp PA5324 PA5337 rpoZ PA5342 PA5344 PA5356 glcC PA5365 phoU PA5374 betI PA5380 PA5382 PA5389 PA5403 PA5428 PA5431 PA5437 PA5438 PA5483 algB PA5506 PA5511 PA5525 PA5550 glmR PA5562 spoOJ
Network Exploration Help

This page gives you overview of the network modules for a particular organism. You can explore these modules by using various filters.

Currently we support two filters, Residual and Motif e-values. Network modules are loaded with default residual and motif e-value filters. In order to change filters, simply move the slider to select the desired range. Results table will automatically update to reflect your filter selections. If you would like to remove filters, click on "Reset Filters" button.

Network Table

Network table will show the following columns for each module.

Module: Number of the module for the given version of the network.

Residual: is a measure of bicluster quality. Mean bicluster residual is smaller when the expression profile of the genes in the module is "tighter". So smaller residuals are usually indicative of better bicluster quality.

Expression Profile: is a preview of the expression profiles of all the genes under subset of conditions included in the module. Tighter expression profiles are usually indicative of better bicluster quality.

Motif e-value: cMonkey tries to identify two motifs per modules in the upstream sequences of the module member genes. Motif e-value is an indicative of the motif co-occurences between the members of the module.Smaller e-values are indicative of significant sequence motifs. Our experience showed that e-values smaller than 10 are generally indicative of significant motifs.

Genes: Number of genes included in the module.

Functions: We identify functional enrichment of each module by camparing to different functional categories such as KEGG, COG, GO etc. by using hypergeometric function. If the module is significantly enriched for any of the functions, this column will list few of the these functions as an overview. Full list of functions is available upon visiting the module page under the Functions tab.


Inferelator algorithm identifies most probable regulatory influences for each module. These influences can be transcription factors or environmental factors. Influences section lists all the regulators that have influences on modules. Click on the regulator name If you would like to access which modules are regulated by these regulators.