Co-expression Network Analysis

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

📊 Global Network of g5355.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 g5355.t1
Gene ID Description PCC Relationship
g5355.t1RBPJ-INTERACTING AND TUBULIN-ASSOCIATED PROTEIN 11positive
g7959.t1P25 ALPHA-RELATED0.98positive
g479.t1--0.98positive
g10212.t1--0.98positive
g17977.t1UNCHARACTERIZED0.98positive
g12292.t1--0.98positive
g3593.t1TEKTIN0.98positive
g19702.t1SPERMATOGENESIS-ASSOCIATED PROTEIN 70.98positive
g15972.t1--0.98positive
g14994.t1RADIAL SPOKE HEAD 1 HOMOLOG0.98positive
g669.t1LIPOPOLYSACCHARIDE-INDUCED TUMOR NECROSIS FACTOR-ALPHA FACTOR0.98positive
g6348.t1EGF-LIKE DOMAIN-CONTAINING PROTEIN0.97positive
g11684.t1TESTIS-EXPRESSED PROTEIN 520.97positive
g17835.t1-0.97positive
g16558.t1UBIQUITIN LIGASE SPECIFICITY FACTOR/HREP PROTEIN0.97positive
g18433.t1DUAL SPECIFICITY PROTEIN KINASE0.97positive
g20310.t1PARKIN COREGULATED GENE PROTEIN PARK2 COREGULATED0.97positive
g25792.t1PHAGE_INTEGRASE DOMAIN-CONTAINING PROTEIN0.97positive
g34657.t1RING FINGER AND SWIM DOMAIN-CONTAINING PROTEIN 20.97positive
g2620.t1NUCLEAR FACTOR ERYTHROID 2-RELATED FACTOR0.97positive
g13188.t1UNCHARACTERIZED0.96positive
g4008.t1IQ DOMAIN-CONTAINING PROTEIN D0.96positive
g2535.t1N-ACETYLGLUCOSAMINYLTRANSFERASE VI0.96positive
g13741.t1GLUTATHIONE PEROXIDASE0.96positive
g16728.t1TUBULIN0.96positive
g12332.t1ZINC FINGER C2HC DOMAIN-CONTAINING PROTEIN 1C0.96positive
g34568.t1--0.95positive
g31972.t1UNCHARACTERIZED0.90positive
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 125 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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