Co-expression Network Analysis

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

📊 Global Network of g1085.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 g1085.t1
Gene ID Description PCC Relationship
g1085.t1-1positive
g27014.t1CYCLIC NUCLEOTIDE-GATED CATION CHANNEL SUBUNIT A0.99positive
g22433.t1SLR5058 PROTEIN0.99positive
g35098.t1TRANSIENT RECEPTOR POTENTIAL CHANNEL0.99positive
g19151.t1VOLTAGE-GATED CATION CHANNEL CALCIUM AND SODIUM0.99positive
g23638.t1CXC2 DOMAIN-CONTAINING PROTEIN0.98positive
g4013.t1GUANYLYL CYCLASE0.98positive
g11798.t1CUB DOMAIN-CONTAINING PROTEIN0.98positive
g3350.t1CTX-RELATED TYPE I TRANSMEMBRANE PROTEIN0.98positive
g4014.t1GUANYLYL CYCLASE0.98positive
g12819.t1VOLTAGE AND LIGAND GATED POTASSIUM CHANNEL0.98positive
g17696.t1--0.98positive
g14969.t1RAN BINDING PROTEIN 9-RELATED0.98positive
g32616.t1OS06G0237300 PROTEIN0.98positive
g13813.t1ATP-BINDING CASSETTE SUB-FAMILY C0.98positive
g28420.t1CYSTEINE-RICH SECRETORY PROTEIN-RELATED0.98positive
g28360.t1FI19480P10.98positive
g33838.t1POLYCYSTIN-10.98positive
g11499.t1ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN0.98positive
g20672.t1BRCA1-ASSOCIATED PROTEIN0.97positive
g33320.t1--0.97positive
g21934.t1HMG DOMAIN-CONTAINING PROTEIN 30.97positive
g5303.t1--0.95positive
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 74 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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