Co-expression Network Analysis

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

📊 Global Network of g12092.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 g12092.t1
Gene ID Description PCC Relationship
g12092.t1RIBULOKINASE1positive
g10112.t1CENTROSOMAL PROTEIN 20.99positive
g3648.t1RETICULON-LIKE PROTEIN0.99positive
g16653.t1CALCIUM BINDING PROTEIN0.99positive
g2102.t1COLLAGEN ALPHA0.99positive
g32102.t1EXPANSIN-LIKE PROTEIN 20.99positive
g16362.t1KELCH PROTEIN0.99positive
g7275.t1--0.99positive
g31167.t1LD44762P0.99positive
g34854.t1SULFOTRANSFERASE DOMAIN-CONTAINING PROTEIN0.99positive
g7546.t1--0.99positive
g20228.t1SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS0.99positive
g27864.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL PROTEIN PAINLESS0.99positive
g6365.t1LANC-LIKE PROTEIN0.99positive
g19265.t1--0.99positive
g18965.t1CARBOHYDRATE SULFOTRANSFERASE0.99positive
g17511.t1--0.99positive
g3385.t1NOTCH LIGAND FAMILY MEMBER0.99positive
g4055.t1--0.99positive
g3893.t1--0.99positive
g12097.t1--0.99positive
g29041.t1REGULATOR OF G PROTEIN SIGNALING0.99positive
g34719.t1OPSIN0.99positive
g8334.t1--0.99positive
g18947.t1MYOSIN LIGHT CHAIN 1, 30.99positive
g1084.t1-0.99positive
g27471.t1--0.99positive
g16736.t1AMINO ACID TRANSPORTER0.98positive
g185.t1IONOTROPIC GLUTAMATE RECEPTOR0.98positive
g4084.t1ANTHRAX TOXIN RECEPTOR0.98positive
g10207.t1--0.98positive
g13519.t1GRANULIN0.98positive
g32447.t1ZGC:1743560.98positive
g21763.t1RETINOL DEHYDROGENASE-RELATED0.97positive
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 149 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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