Explore network modules for Halobacterium salinarum NRC-1

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


VNG0019H VNG0039H VNG0040C VNG0066H VNG0101G cspD1 VNG0142C VNG0147C VNG0156C VNG0160G boa1 VNG0176H VNG0194H VNG0247C VNG0254G tfbG VNG0258H VNG0293H VNG0315G tfbF VNG0320H VNG0374G nusG VNG0389C VNG0424C nac VNG0451G phoU VNG0458G prp1 VNG0462C VNG0471C VNG0511H VNG0530G troR VNG0536G sirR VNG0591C VNG0651G imd1 VNG0654C VNG0703H VNG0704C VNG0726C VNG0734G tfbB VNG0751C VNG0757G tfeA VNG0766G prp2 VNG0826C VNG0835G idr2 VNG0852C VNG0869G tfbD VNG0890G imd2 VNG0917G hrg VNG0996G boa4 VNG1029C VNG1071G cinR VNG1096H VNG1123Gm TRH7 VNG1179C VNG1215G pai1 VNG1237C VNG1285G trh2 VNG1351G trh6 VNG1377G asnC VNG1383G rad3a VNG1390H VNG1398C VNG1405C VNG1426H VNG1451C VNG1464G bat VNG1483C VNG1488G boa2 VNG1490H VNG1496G snp VNG1508C VNG1510C VNG1548C VNG1616C VNG1617H VNG1776G nirH VNG1786H VNG1816G trh3 VNG1836G cspD2 VNG1843C VNG1845C VNG1886C VNG1899G kaiC VNG1903Cm VNG1911G nirD VNG1922G trh5 VNG2020C VNG2036G hlx1 VNG2094G trh4 VNG2112C VNG2126C VNG2163H VNG2184G tfbA VNG2243G tbpE VNG2268H VNG2277H VNG2441G rad3b VNG2445C VNG2476C VNG2522C VNG2579G idr1 VNG2614H VNG2629G glcK VNG2641H VNG2647G vacB VNG2661G nusA VNG2675C VNG5050H VNG5130H VNG6143H VNG6193H VNG6239G gvpE2 VNG6287H VNG6288C VNG6318G arcR VNG6351G tfbC VNG6387H VNG6389G tfbE VNG6438G tbpF VNG7007 VNG7023 gvpE VNG7031 VNG7048 VNG7053 VNG7100 tbpC VNG7102 VNG7112 VNG7114 tbpD VNG7122 VNG7125 arsR
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.