Explore network modules for Methanococcus maripaludis S2

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


MMP0018 MMP0020 MMP0031 MMP0032 MMP0033 MMP0036 tfe MMP0041 tfb MMP0052 MMP0086 tfx MMP0097 MMP0168 MMP0209 MMP0217 MMP0257 tbp MMP0386 HMmA MMP0402 MMP0460 MMP0465 MMP0480 MMP0499 MMP0527 MMP0568 MMP0607 nrpR MMP0629 MMP0631 MMP0637 MMP0674 MMP0678 MMP0700 MMP0719 MMP0742 MMP0752 MMP0787 MMP0791 MMP0799 MMP0840 MMP0907 MMP0993 MMP1015 MMP1023 MMP1052 MMP1065 MMP1100 MMP1137 MMP1210 MMP1275 MMP1303 MMP1304 MMP1347 HMmB MMP1376 MMP1442 MMP1447 MMP1467 ehaT MMP1499 MMP1646 MMP1704 MMP1712
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.