Co-expression Network Analysis

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

📊 Global Network of g9771.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 g9771.t1
Gene ID Description PCC Relationship
g9771.t1TUMOR NECROSIS FACTOR RECEPTOR1positive
g7597.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.98positive
g8753.t1--0.98positive
g21629.t1OS05G0345500 PROTEIN0.98positive
g30156.t1NEUROLIGIN0.98positive
g10202.t1--0.98positive
g17799.t1PIKACHURIN-LIKE PROTEIN0.98positive
g343.t1PECANEX0.98positive
g8797.t1--0.98positive
g24067.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL PROTEIN PAINLESS0.98positive
g27970.t1CARBOHYDRATE SULFOTRANSFERASE0.98positive
g4737.t1COILED-COIL DOMAIN-CONTAINING PROTEIN 1050.98positive
g7230.t1HOMEOBOX PROTEIN NKX0.98positive
g6360.t1--0.98positive
g6706.t1--0.98positive
g10042.t1PEPTIDYL-PROLYL CIS-TRANS ISOMERASE CYP26-2, CHLOROPLASTIC0.98positive
g25336.t1OXIDASE/PEROXIDASE0.97positive
g15062.t1LEUCOKININ RECEPTOR-RELATED0.97positive
g1845.t1NEUROPEPTIDE RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.97positive
g29130.t1--0.97positive
g3564.t1--0.97positive
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 87 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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