Co-expression Network Analysis

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

📊 Global Network of g7528.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 g7528.t1
Gene ID Description PCC Relationship
g7528.t1UNCHARACTERIZED1positive
g10969.t1SAM DOMAIN-CONTAINING PROTEIN-RELATED0.97positive
g825.t1DYNEIN HEAVY CHAIN FAMILY PROTEIN0.97positive
g10451.t1WD-40 REPEAT PROTEIN0.97positive
g12745.t1REGULATOR OF G-PROTEIN SIGNALING 220.96positive
g6488.t1WD40 REPEAT DOMAIN 950.96positive
g8989.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 1570.96positive
g35077.t1PAXILLIN-RELATED0.96positive
g30241.t1PROTEIN C21ORF590.96positive
g15848.t1WD40 REPEAT DOMAIN 950.96positive
g11672.t1TETRATRICOPEPTIDE REPEAT PROTEIN 60.96positive
g17055.t1COILED-COIL DOMAIN-CONTAINING PROTEIN 400.95positive
g29913.t1--0.95positive
g30897.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.95positive
g6280.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 2210.95positive
g6307.t1EPHRIN0.95positive
g34283.t1UNCHARACTERIZED0.95positive
g16924.t1WD40 REPEAT DOMAIN 950.93positive
g1038.t1PROLINE-RICH TRANSMEMBRANE PROTEIN 4-RELATED0.87positive
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 63 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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