Explore network modules for Geobacter sulfurreducens

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


GSU0013 GSU0018 GSU0031 hrcA GSU0041 lexA-1 GSU0049 GSU0063 GSU0079 GSU0107 spo0J GSU0147 recX GSU0164 GSU0175 GSU0178 GSU0187 GSU0191 GSU0205 GSU0207 GSU0254 GSU0266 GSU0267 GSU0280 GSU0284 dksA GSU0300 GSU0359 GSU0366 GSU0372 GSU0399 GSU0470 GSU0473 GSU0514 GSU0534 GSU0551 GSU0581 GSU0598 GSU0625 GSU0655 rpoH GSU0682 GSU0721 GSU0732 GSU0735 GSU0736 GSU0770 GSU0776 GSU0811 ntrX GSU0812 GSU0836 GSU0896 tldD GSU0951 GSU0963 ntrC GSU1003 ntrC GSU1013 GSU1039 GSU1072 GSU1095 phoU GSU1115 GSU1129 GSU1201 greB GSU1218 GSU1250 GSU1268 GSU1270 pyrR GSU1277 greA GSU1293 GSU1320 GSU1342 GSU1345 GSU1379 fur GSU1382 GSU1410 GSU1419 GSU1428 GSU1483 GSU1495 GSU1522 GSU1525 rpoD GSU1542 GSU1569 GSU1586 nusA GSU1617 lexA-2 GSU1626 GSU1639 GSU1653 GSU1687 GSU1692 nusB GSU1727 GSU1831 GSU1863 GSU1887 rpoN GSU1905 GSU1934 GSU1940 GSU1989 GSU1992 GSU2033 GSU2041 GSU2113 GSU2149 GSU2177 GSU2185 GSU2202 GSU2237 rpoZ GSU2262 degT GSU2354 GSU2362 GSU2506 GSU2520 GSU2523 GSU2524 GSU2540 GSU2571 GSU2581 GSU2587 GSU2625 GSU2666 GSU2670 GSU2698 GSU2716 sfsA GSU2735 GSU2741 GSU2753 GSU2771 GSU2779 GSU2787 GSU2809 GSU2817 GSU2831 rpoA GSU2868 nusG GSU2915 GSU2926 GSU2941 GSU2945 GSU2952 GSU2964 modE GSU2980 GSU2987 Zur GSU3041 csrA GSU3045 flgM GSU3053 fliA GSU3060 GSU3087 GSU3089 rpoD GSU3108 rho GSU3109 GSU3127 GSU3206 dksA GSU3217 GSU3229 GSU3292 GSU3298 GSU3324 GSU3363 GSU3370 GSU3387 GSU3396 GSU3418 GSU3421 GSU3457
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.