Co-expression Network Analysis

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

📊 Global Network of g6360.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 g6360.t1
Gene ID Description PCC Relationship
g6360.t1--1positive
g4737.t1COILED-COIL DOMAIN-CONTAINING PROTEIN 1050.99positive
g32216.t1FIBROUS SHEATH INTERACTING PROTEIN 10.99positive
g6525.t1STABILIZER OF AXONEMAL MICROTUBULES 20.99positive
g17292.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g21196.t1SPERMATOGENESIS-ASSOCIATED PROTEIN 480.99positive
g1993.t1--0.98positive
g19326.t1PBS LYASE HEAT-LIKE PROTEIN0.98positive
g8753.t1--0.98positive
g25336.t1OXIDASE/PEROXIDASE0.98positive
g10202.t1--0.98positive
g16270.t1UNCHARACTERIZED0.98positive
g8797.t1--0.98positive
g34945.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.98positive
g27970.t1CARBOHYDRATE SULFOTRANSFERASE0.98positive
g343.t1PECANEX0.98positive
g30408.t1NACHT, LRR AND CARD DOMAINS-CONTAINING0.98positive
g12292.t1--0.98positive
g7216.t1NMDA RECEPTOR SYNAPTONUCLEAR SIGNALING AND NEURONAL MIGRATION FACTOR0.98positive
g12086.t1--0.98positive
g26997.t1UNCHARACTERIZED0.98positive
g12451.t1CILIA AND FLAGELLA-ASSOCIATED PROTEIN 58-RELATED0.98positive
g21629.t1OS05G0345500 PROTEIN0.98positive
g2402.t1BETA-1,3-N-ACETYLGLUCOSAMINYLTRANSFERASE0.98positive
g2738.t1TEKTIN0.98positive
g15972.t1--0.98positive
g14614.t1TGF-BETA FAMILY0.98positive
g32332.t1CXC DOMAIN-CONTAINING PROTEIN-RELATED0.98positive
g1819.t1CALPAIN0.98positive
g3895.t115-HYDROXYPROSTAGLANDIN DEHYDROGENASE [NAD(+)]0.98positive
g10042.t1PEPTIDYL-PROLYL CIS-TRANS ISOMERASE CYP26-2, CHLOROPLASTIC0.98positive
g14994.t1RADIAL SPOKE HEAD 1 HOMOLOG0.98positive
g7880.t1CENTROSOMAL PROTEIN 20.98positive
g3894.t1WW DOMAIN-BINDING PROTEIN 110.98positive
g29130.t1--0.98positive
g9771.t1TUMOR NECROSIS FACTOR RECEPTOR0.98positive
g9862.t1--0.98positive
g35333.t1TETRATRICOPEPTIDE REPEAT PROTEIN 290.98positive
g14192.t1CHROMOSOME 20 ORF85 FAMILY MEMBER0.97positive
g4748.t1--0.97positive
g3564.t1--0.97positive
g14229.t1--0.97positive
g26973.t1ALDEHYDE DEHYDROGENASE-RELATED0.97positive
g13061.t1--0.97positive
g14246.t1WNT RELATED0.97positive
g24241.t1TETRASPANIN0.97positive
g16496.t1LD33804P0.97positive
g33701.t1NEUROLIGIN0.97positive
g13290.t1PIGGYBAC TRANSPOSABLE ELEMENT-DERIVED PROTEIN 40.96positive
g1420.t1C2H2-TYPE DOMAIN-CONTAINING PROTEIN0.94positive
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 311 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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