Co-expression Network Analysis

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

📊 Global Network of g3382.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 g3382.t1
Gene ID Description PCC Relationship
g3382.t1--1positive
g7.t1NEUROTRANSMITTER GATED ION CHANNEL0.99positive
g2688.t1CYSTEINE PROTEASE FAMILY C1-RELATED0.99positive
g2113.t1--0.99positive
g15439.t1--0.99positive
g7481.t1--0.99positive
g11343.t1--0.99positive
g6232.t1POLYCYSTIN FAMILY MEMBER0.99positive
g12437.t1SOLUTE CARRIER FAMILY 20.99positive
g12486.t1GLIAL CELLS MISSING RELATED/GLIDE0.99positive
g17699.t1G PROTEIN-COUPLED RECEPTOR KINASE/RIBOSOMAL PROTEIN S6 KINASE0.99positive
g6840.t1--0.98positive
g27124.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL, SUBFAMILY M, MEMBER 60.98positive
g22667.t1VOLTAGE-GATED POTASSIUM CHANNEL0.98positive
g7911.t1SYNAPSIN0.98positive
g14626.t1ATP-BINDING CASSETTE TRANSPORTER SUBFAMILY A ABCA0.98positive
g1952.t1--0.98positive
g31247.t1MICROFIBRIL-ASSOCIATED GLYCOPROTEIN 30.98positive
g11173.t1--0.98positive
g13282.t1GLYCOSYLTRANSFERASE 14 FAMILY MEMBER0.98positive
g28044.t1HOMEO BOX HB9 LIKE A-RELATED0.98positive
g3348.t1COLLAGEN ALPHA0.98positive
g1471.t1--0.98positive
g294.t1--0.98positive
g3378.t1--0.98positive
g23883.t1IONOTROPIC GLUTAMATE RECEPTOR0.98positive
g8659.t1NEUROPEPTIDE Y RECEPTOR0.98positive
g35343.t1--0.98positive
g2714.t1INTELECTIN0.97positive
g64.t1ZINC METALLOPROTEASE FAMILY M13 NEPRILYSIN-RELATED0.97positive
g20985.t1KINESIN-RELATED PROTEIN 60.96positive
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 92 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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