Co-expression Network Analysis

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

📊 Global Network of g7704.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 g7704.t1
Gene ID Description PCC Relationship
g7704.t1LUNG ADENOMA SUSCEPTIBILITY 1-RELATED1positive
g28231.t1KPL2-RELATED0.98positive
g2832.t1DYNACTIN 1-RELATED MICROTUBULE-BINDING0.98positive
g28230.t1KPL2-RELATED0.98positive
g110.t1THYMUS, BRAIN AND TESTES-ASSOCIATED0.98positive
g12745.t1REGULATOR OF G-PROTEIN SIGNALING 220.98positive
g7865.t1--0.98positive
g3540.t1UNCHARACTERIZED0.98positive
g27121.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 460.98positive
g17860.t1DLEC1 DELETED IN LUNG AND ESOPHAGEAL CANCER 10.97positive
g9287.t1STI2 PROTEIN-RELATED0.97positive
g31562.t1MYB-LIKE PROTEIN X0.97positive
g25442.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 700.97positive
g13246.t1OSMOTIC AVOIDANCE ABNORMAL PROTEIN 1/WD REPEAT MEMBRANE PROTEIN0.97positive
g3322.t1--0.97positive
g1427.t1TRANSIENT RECEPTOR POTENTIAL ION CHANNEL PROTEIN0.97positive
g30241.t1PROTEIN C21ORF590.97positive
g3148.t1--0.97positive
g2051.t1GLYCOSYLTRANSFERASE WBBK-RELATED0.88positive
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 72 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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