Co-expression Network Analysis

Interactive visualization of gene co-expression networks, expression and funtional enrichment analysis.

📊 Global Network of g22966.t1
Co-expression Network View
Network Legend
Yellow: Query proteins
Green: Interaction proteins
Pink line: Own interaction + positive co-expression
Blue line: Own interaction + negative co-expression
Node size reflects how many connections the gene has (hubs are drawn larger). Hover any node to see the annotation of the gene it stands for (PANTHER / InterPro / GO description, or NR when the others are absent) and a link to its gene page.
📋 View Detailed Network Information
Co-expressed Genes of g22966.t1
Gene ID Description PCC Relationship
g22966.t1FIDIPIDINE1positive
g1801.t1RENIN RECEPTOR0.95positive
g28010.t1VACUOLAR PROTEIN-SORTING-ASSOCIATED PROTEIN 360.95positive
g3998.t1POLYGLUTAMINE SYNTHESIS ACCESSORY PROTEIN RV0574C-RELATED0.95positive
g11459.t1NULP1-RELATED0.95positive
g3021.t1OXYSTEROL-BINDING PROTEIN-RELATED0.94positive
g4147.t1NADH-UBIQUINONE OXIDOREDUCTASE ASHI SUBUNIT0.94positive
g27595.t1GUANINE NUCLEOTIDE EXCHANGE FACTOR0.94positive
g8767.t1CARBOXYLASE:PYRUVATE/ACETYL-COA/PROPIONYL-COA CARBOXYLASE0.94positive
g28539.t1KINESIN-LIKE PROTEIN KIF110.94positive
g7154.t1ZINC FINGER C4H2 DOMAIN-CONTAINING PROTEIN0.94positive
g4010.t1FAD NADPH DEHYDROGENASE/OXIDOREDUCTASE0.94positive
g1001.t1TRNA PSEUDOURIDINE SYNTHASE D0.93positive
g13634.t1UNCHARACTERIZED0.93positive
g7076.t1UFM1-SPECIFIC PROTEASE 20.93positive
g7346.t1--0.93positive
g13913.t1UBIQUITIN-CONJUGATING ENZYME E20.93positive
g18819.t1--0.93positive
g32246.t1--0.92positive
g4717.t1TETRASPANIN0.91positive
Further Analysis for Network Members
Next Step: Dynamic Expression View

What this does. Everything above treats every gene the same way. Dynamic Expression View redraws this same network but colours each node by how much that gene changes between two conditions, so you can see which part of the network responds. It needs one input the network itself does not carry: a per-gene expression ratio.

Where the ratio comes from. CnidoSite holds an RNA-seq expression matrix for this species, so the ratio can be built here rather than elsewhere: pick the samples for each side of your comparison and every gene gets log2((mean of group A + 1) / (mean of group B + 1)). This network has 70 gene pairs and one run of Dynamic Expression View draws at most 10, so the button below carries the 10 with the strongest |PCC|.

Gene pairs carried over (10)
Opens the ratio builder with these pairs already loaded. It computes the ratios, then hands both the pairs and the ratios to the network view in one step.
Or take the pairs by hand
Click to select all, then paste into step 2 of Dynamic Expression View as GeneA GeneB, one pair per line. Its step 3 still needs the expression ratios.
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