Co-expression Network Analysis

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

📊 Global Network of g36688.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 g36688.t1
Gene ID Description PCC Relationship
g36688.t1--1positive
g15941.t1FACIOGENITAL DYSPLASIA PROTEIN0.99positive
g5546.t1--0.99positive
g7527.t1--0.99positive
g3693.t1ORAL-FACIAL-DIGITAL SYNDROME 1 PROTEIN HOMOLOG0.99positive
g15827.t160S RIBOSOMAL PROTEIN L3-RELATED0.99positive
g1484.t1MITOGEN-ACTIVATED PROTEIN KINASE0.99positive
g6446.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g15208.t1TYROSINE-PROTEIN KINASE RECEPTOR0.98positive
g11065.t1--0.98positive
g343.t1PECANEX0.98positive
g15612.t1T-BOX PROTEIN-RELATED0.98positive
g9050.t1WNT RELATED0.98positive
g13519.t1GRANULIN0.98positive
g25703.t1THREE PRIME REPAIR EXONUCLEASE 1, 20.98positive
g25572.t1LARGE SUBUNIT GTPASE 1 HOMOLOG-RELATED0.98positive
g15526.t1S-ADENOSYL-L-METHIONINE:CARBOXYL METHYLTRANSFERASE FAMILY PROTEIN0.98positive
g2638.t1RETROTRANSPOSON0.97positive
g31104.t1--0.95positive
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 55 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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