Organism : Geobacter sulfurreducens | Module List :
Regulation information for GSU1121(Mouseover regulator name to see its description)
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
|Motif Id||e-value||Consensus||Motif Logo|
Functional Enrichment for GSU1121
Module neighborhood information for GSU1121
|Gene||Common Name||Description||Module membership|
|GSU0017||mfd||transcription-repair coupling factor (NCBI)||4, 262|
|GSU0149||GSU0149||sensor histidine kinase/response regulator (NCBI)||205, 207|
|GSU0290||fabH-1||3-oxoacyl-(acyl-carrier-protein) synthase III (NCBI)||207, 273|
|GSU0534||GSU0534||RrF2 family protein (VIMSS)||262, 290|
|GSU0604||thiC-1||thiamine biosynthesis protein ThiC (NCBI)||231, 262|
|GSU0613||GSU0613||ResB-like family protein (NCBI)||262, 309|
|GSU0614||GSU0614||cytochrome c biogenesis protein, CcmF/CcyK/CcsA family (VIMSS)||262, 309|
|GSU0615||GSU0615||cytochrome c family protein (VIMSS)||262, 309|
|GSU0616||GSU0616||cytochrome c family protein (VIMSS)||262, 309|
|GSU0626||gmd||GDP-mannose 4,6-dehydratase (NCBI)||60, 262|
|GSU0627||GSU0627||GDP-fucose synthetase (VIMSS)||60, 262|
|GSU1107||GSU1107||conserved hypothetical protein TIGR00296 (VIMSS)||205, 207|
|GSU1121||GSU1121||conserved hypothetical protein (VIMSS)||207, 262|
|GSU1137||GSU1137||KH domain/HD domain protein (NCBI)||207, 222|
|GSU1138||GSU1138||Ser/Thr protein phosphatase family protein (NCBI)||102, 207|
|GSU1174||mazG||mazG protein (NCBI)||207, 239|
|GSU1336||GSU1336||membrane protein, TerC family (NCBI)||18, 207|
|GSU1441||GSU1441||ferredoxin family protein (VIMSS)||207, 301|
|GSU1446||GSU1446||radical SAM domain protein (NCBI)||181, 207|
|GSU1543||GSU1543||hypothetical protein (VIMSS)||147, 262|
|GSU1809||ftsH-2||cell division protein FtsH (NCBI)||183, 207|
|GSU2023||GSU2023||conserved hypothetical protein (VIMSS)||11, 262|
|GSU2078||rodA||rod shape-determining protein RodA (NCBI)||147, 207|
|GSU2195||guaB||inosine-5'-monophosphate dehydrogenase (NCBI)||262, 309|
|GSU2226||era||GTP-binding protein Era (NCBI)||184, 262|
|GSU2227||GSU2227||radical SAM domain protein (NCBI)||184, 262|
|GSU2228||rnc||ribonuclease III (NCBI)||184, 262|
|GSU2231||GSU2231||conserved hypothetical protein (VIMSS)||262, 295|
|GSU2232||metG||methionyl-tRNA synthetase (NCBI)||262, 309|
|GSU2261||lpxB||lipid A disaccharide synthase (lpxB) (NCBI)||214, 262|
|GSU2268||GSU2268||outer membrane protein, putative (VIMSS)||207, 214|
|GSU2277||GSU2277||lipoprotein, NLP/P60 family, putative (VIMSS)||207, 262|
|GSU2281||cutE||apolipoprotein N-acyltransferase (NCBI)||207, 262|
|GSU2282||GSU2282||CBS domain protein (NCBI)||207, 262|
|GSU2283||GSU2283||diacylglycerol kinase, putative (NCBI)||207, 289|
|GSU2284||GSU2284||conserved hypothetical protein TIGR00043 (NCBI)||19, 262|
|GSU2370||accD||acetyl-CoA carboxylase, carboxyl transferase, beta subunit (NCBI)||205, 262|
|GSU2527||GSU2527||nitrite/sulfite reductase domain protein (NCBI)||125, 262|
|GSU2603||rpsA||ribosomal protein S1 (NCBI)||258, 262|
|GSU2715||GSU2715||fibronectin type III domain protein (VIMSS)||262, 284|
|GSU2863||rpoB||DNA-directed RNA polymerase, beta subunit (NCBI)||262, 309|
|GSU2916||GSU2916||sensor histidine kinase (VIMSS)||207, 215|
|GSU3079||GSU3079||hypothetical protein (VIMSS)||17, 207|
|GSU3080||GSU3080||hypothetical protein (VIMSS)||112, 207|
|GSU3084||GSU3084||hypothetical protein (NCBI)||207, 245|
|GSU3085||GSU3085||conserved hypothetical protein TIGR00486 (VIMSS)||207, 284|
|GSU3110||GSU3110||hypothetical protein (VIMSS)||262, 329|
Gene Page Help
If the gene is associated with a module(s), its connection to given modules along with other members of that module are shown as network by using CytoscapeWeb. In this view, each green colored circular nodes represent module member genes, purple colored diamonds represent module motifs and red triangles represent regulators. Each node is connected to module (Bicluster) via edges. This representation provides quick overview of all genes, regulators and motifs for modules. It also allows one to see shared genes/motifs/regulators among diferent modules.
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Network inference algorithm uses de novo motif prediction for assigning genes to modules. If there are any motifs identified in the upstream region of a gene, the motif will be shown here. For each motif sequence logo, consensus and e-value will be shown.
Identification of functional enrichment for the module members is important in associating predicted motifs and regulatory influences with pathways. As described above, the network inference pipeline includes a functional enrichment module by which hypergeometric p-values are used to identify over representation of functional ontology terms among module members.
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Module Members Tab
Identity of gene members in a module may help to identify potential interactions between different functional modules. Therefore, neighbor genes that share the same module(s) with gene under consideration are shown here. For each memebr, gene name, description and modules that contain it are listed.
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