Co-expression Network Analysis

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

📊 Global Network of g4008.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 g4008.t1
Gene ID Description PCC Relationship
g4008.t1IQ DOMAIN-CONTAINING PROTEIN D1positive
g3593.t1TEKTIN0.98positive
g10212.t1--0.97positive
g7959.t1P25 ALPHA-RELATED0.97positive
g12332.t1ZINC FINGER C2HC DOMAIN-CONTAINING PROTEIN 1C0.97positive
g479.t1--0.97positive
g34943.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.97positive
g16558.t1UBIQUITIN LIGASE SPECIFICITY FACTOR/HREP PROTEIN0.97positive
g12809.t1--0.97positive
g16565.t1DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING0.97positive
g34657.t1RING FINGER AND SWIM DOMAIN-CONTAINING PROTEIN 20.97positive
g18433.t1DUAL SPECIFICITY PROTEIN KINASE0.97positive
g27720.t1ARMADILLO-TYPE FOLD-RELATED0.97positive
g5355.t1RBPJ-INTERACTING AND TUBULIN-ASSOCIATED PROTEIN 10.96positive
g9891.t1AGAP001331-PA-RELATED0.96positive
g20310.t1PARKIN COREGULATED GENE PROTEIN PARK2 COREGULATED0.96positive
g10580.t1--0.96positive
g25420.t1RAS-ASSOCIATING DOMAIN-CONTAINING PROTEIN0.96positive
g1441.t12-5 OLIGOADENYLATE SYNTHETASE0.96positive
g13418.t1SHIPPO-1-RELATED0.96positive
g20418.t1SPERM-ASSOCIATED ANTIGEN 6 ARMADILLO REPEAT-CONTAINING0.96positive
g2535.t1N-ACETYLGLUCOSAMINYLTRANSFERASE VI0.96positive
g7896.t1TRANSCRIPTION ELONGATION FACTOR A0.95positive
g23825.t1SPRY DOMAIN CONTAINING SOCS BOX PROTEIN0.95positive
g27696.t1TSEC-2-RELATED0.95positive
g2545.t1PHOSPHATIDYLINOSITOL-GLYCAN BIOSYNTHESIS CLASS F PROTEIN-RELATED0.95positive
g33520.t1SLR5058 PROTEIN0.94positive
g2377.t1--0.94positive
g624.t1COILED-COIL DOMAIN-CONTAINING PROTEIN 1030.93positive
g16170.t1REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN0.91positive
g26624.t1THAP DOMAIN PROTEIN0.88positive
g3847.t1IONOTROPIC GLUTAMATE RECEPTOR0.88positive
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 126 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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