Co-expression Network Analysis

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

📊 Global Network of g32447.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 g32447.t1
Gene ID Description PCC Relationship
g32447.t1ZGC:1743561positive
g16736.t1AMINO ACID TRANSPORTER0.99positive
g17511.t1--0.98positive
g16997.t1KUNITZ-TYPE PROTEASE INHIBITOR-RELATED0.98positive
g10591.t1HEDGEHOG0.98positive
g35252.t1CYSTEINE-RICH SECRETORY PROTEIN-RELATED0.98positive
g12092.t1RIBULOKINASE0.98positive
g27276.t1--0.98positive
g185.t1IONOTROPIC GLUTAMATE RECEPTOR0.98positive
g14392.t1LD22376P0.98positive
g12097.t1--0.98positive
g27471.t1--0.98positive
g4084.t1ANTHRAX TOXIN RECEPTOR0.98positive
g8746.t1--0.97positive
g5667.t1--0.97positive
g10142.t1POU DOMAIN0.97positive
g8265.t1CYSTEINE PROTEASE FAMILY C1-RELATED0.97positive
g12056.t1CXC DOMAIN-CONTAINING PROTEIN-RELATED0.97positive
g21825.t1SET DOMAIN-CONTAINING PROTEIN-RELATED0.97positive
g24008.t1RETROTRANSPOSON0.97positive
g7536.t1--0.97positive
g18989.t1BASIGIN RELATED0.96positive
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 66 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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