Co-expression Network Analysis

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

📊 Global Network of g2181.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 g2181.t1
Gene ID Description PCC Relationship
g2181.t1SERINE/THREONINE-PROTEIN PHOSPHATASE 2A REGULATORY SUBUNIT B'' SUBUNIT GAMMA1positive
g35076.t1TRACE AMINE-ASSOCIATED RECEPTOR 19N-RELATED0.91positive
g10720.t1MKRN2 OPPOSITE STRAND PROTEIN0.90positive
g11701.t1ANDROGEN-INDUCED PROTEIN 1-RELATED0.88positive
g11854.t1DER1-LIKE PROTEIN, DERLIN0.88positive
g13326.t1PROTEIN-S ISOPRENYLCYSTEINE O-METHYLTRANSFERASE0.87positive
g22144.t1CATION EFFLUX PROTEIN/ ZINC TRANSPORTER0.87positive
g12963.t1DUF914-RELATED0.86positive
g28952.t1UBIQUITIN-LIKE PROTEIN 3 HCG-1 PROTEIN0.86positive
g6072.t1SYNAPTOTAGMIN 14, ISOFORM D0.85positive
g4854.t1CAMP-DEPENDENT PROTEIN KINASE REGULATORY CHAIN0.85positive
g18636.t1PEPTIDYL-TRNA HYDROLASE 20.84positive
g31925.t1JNK-INTERACTING PROTEIN 1-LIKE PROTEIN0.83positive
g6473.t1ALPHA-1,2-GLUCOSYLTRANSFERASE ALG100.82positive
g2236.t1ENGULFMENT AND CELL MOTILITY0.81positive
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 40 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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