Co-expression Network Analysis

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

📊 Global Network of g13536.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 g13536.t1
Gene ID Description PCC Relationship
g13536.t1SODIUM/CALCIUM EXCHANGER1positive
g7.t1NEUROTRANSMITTER GATED ION CHANNEL1.00positive
g6445.t1FIBRILLIN-RELATED0.99positive
g2113.t1--0.99positive
g4784.t1POLYCYSTIN FAMILY MEMBER0.99positive
g126.t1THROMBOSPONDIN0.99positive
g192.t1COLLAGEN ALPHA0.99positive
g113.t1DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING0.99positive
g25713.t1--0.99positive
g12225.t1--0.99positive
g7283.t1AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED0.99positive
g14393.t1COMPLEMENT COMPONENT-RELATED SUSHI DOMAIN-CONTAINING0.99positive
g6446.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g10390.t1--0.99positive
g13454.t1NEUROTRANSMITTER GATED ION CHANNEL0.99positive
g19151.t1VOLTAGE-GATED CATION CHANNEL CALCIUM AND SODIUM0.99positive
g6783.t1OPSIN0.99positive
g10642.t1COLLAGEN ALPHA0.99positive
g17806.t1COLLAGEN ALPHA0.99positive
g520.t1VITELLOGENIN RECEPTOR-LIKE PROTEIN-RELATED-RELATED0.99positive
g34663.t1SI:CH211-266K2.10.99positive
g6874.t1CELL DIVISION PROTEIN KINASE0.99positive
g26445.t1--0.99positive
g26424.t1CYTOCHROME P450 FAMILY 30.99positive
g6614.t1COLLAGEN ALPHA0.99positive
g27468.t1SOLUTE CARRIER FAMILY 22 MEMBER0.99positive
g14564.t1RING FINGER AND CHY ZINC FINGER DOMAIN-CONTAINING PROTEIN 10.99positive
g15760.t1MULTI-COPPER OXIDASE0.99positive
g13482.t1GNAT FAMILY N-ACETYLTRANSFERASE0.99positive
g25187.t1--0.99positive
g5546.t1--0.99positive
g5746.t1CRUMBS FAMILY MEMBER0.99positive
g6107.t1--0.99positive
g32703.t1ACTIN0.99positive
g3348.t1COLLAGEN ALPHA0.99positive
g24840.t1--0.99positive
g4047.t1DYNEIN HEAVY CHAIN0.99positive
g11343.t1--0.99positive
g5650.t1--0.99positive
g34672.t1COLLAGEN ALPHA0.99positive
g15438.t1--0.99positive
g24689.t1FIBRINOGEN/TENASCIN/ANGIOPOEITIN0.99positive
g32571.t152 KDA REPRESSOR OF THE INHIBITOR OF THE PROTEIN KINASE-LIKE PROTEIN-RELATED0.99positive
g6840.t1--0.98positive
g3258.t1ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN0.97positive
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 256 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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