Co-expression Network Analysis

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

📊 Global Network of g34945.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 g34945.t1
Gene ID Description PCC Relationship
g34945.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III1positive
g343.t1PECANEX0.99positive
g25870.t1ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN-RELATED0.99positive
g9050.t1WNT RELATED0.99positive
g17292.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g32332.t1CXC DOMAIN-CONTAINING PROTEIN-RELATED0.99positive
g12590.t1F-BOX ONLY PROTEIN 150.99positive
g1484.t1MITOGEN-ACTIVATED PROTEIN KINASE0.98positive
g2611.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 690.98positive
g10202.t1--0.98positive
g27970.t1CARBOHYDRATE SULFOTRANSFERASE0.98positive
g32779.t1-0.98positive
g14085.t1CYTOCHROME P450 260.98positive
g6360.t1--0.98positive
g16169.t1--0.98positive
g2230.t1--0.98positive
g30408.t1NACHT, LRR AND CARD DOMAINS-CONTAINING0.98positive
g13250.t1--0.98positive
g14614.t1TGF-BETA FAMILY0.98positive
g21196.t1SPERMATOGENESIS-ASSOCIATED PROTEIN 480.98positive
g21629.t1OS05G0345500 PROTEIN0.98positive
g8797.t1--0.98positive
g13061.t1--0.98positive
g8753.t1--0.98positive
g25336.t1OXIDASE/PEROXIDASE0.98positive
g6348.t1EGF-LIKE DOMAIN-CONTAINING PROTEIN0.98positive
g1330.t1PROLINE-RICH TRANSMEMBRANE PROTEIN 4-RELATED0.98positive
g9862.t1--0.98positive
g14972.t1G PROTEIN-COUPLED RECEPTOR-RELATED0.98positive
g24537.t1--0.97positive
g33455.t1FORKHEAD BOX PROTEIN J10.97positive
g28861.t1--0.97positive
g14246.t1WNT RELATED0.97positive
g3564.t1--0.97positive
g24839.t1--0.97positive
g34587.t1UNCHARACTERIZED0.97positive
g5361.t1LIPOXYGENASE0.95positive
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 176 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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