Co-expression Network Analysis

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

📊 Global Network of g4985.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 g4985.t1
Gene ID Description PCC Relationship
g4985.t1VOLTAGE-GATED POTASSIUM CHANNEL1positive
g17731.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL PROTEIN PAINLESS0.99positive
g7906.t1POLYCYSTIN FAMILY MEMBER0.98positive
g9356.t1--0.98positive
g27469.t1COLLAGEN ALPHA0.98positive
g17349.t1--0.98positive
g7296.t15-HYDROXYTRYPTAMINE RECEPTOR0.98positive
g4893.t1VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VPS130.98positive
g8732.t1CALCIUM-ACTIVATED POTASSIUM CHANNEL ALPHA CHAIN0.98positive
g5310.t1--0.98positive
g24762.t15-HYDROXYTRYPTAMINE RECEPTOR0.98positive
g22665.t1VOLTAGE-GATED POTASSIUM CHANNEL0.98positive
g3235.t1DYNEIN HEAVY CHAIN0.98positive
g2688.t1CYSTEINE PROTEASE FAMILY C1-RELATED0.98positive
g1470.t1--0.98positive
g31247.t1MICROFIBRIL-ASSOCIATED GLYCOPROTEIN 30.98positive
g6889.t1--0.98positive
g10340.t1--0.98positive
g15146.t1VOLTAGE-GATED POTASSIUM CHANNEL0.97positive
g22525.t1TETRATRICOPEPTIDE REPEAT PROTEIN (AFU_ORTHOLOGUE AFUA_6G03870)0.97positive
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 54 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.
TOP