Co-expression Network Analysis

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

📊 Global Network of g6348.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 g6348.t1
Gene ID Description PCC Relationship
g6348.t1EGF-LIKE DOMAIN-CONTAINING PROTEIN1positive
g9050.t1WNT RELATED0.99positive
g35279.t1SHISA0.98positive
g20900.t1--0.98positive
g32779.t1-0.98positive
g9937.t1--0.98positive
g12590.t1F-BOX ONLY PROTEIN 150.98positive
g5110.t1--0.98positive
g17836.t1-0.98positive
g34945.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.98positive
g7959.t1P25 ALPHA-RELATED0.98positive
g6903.t1HOMEOBOX PROTEIN NKX0.98positive
g12292.t1--0.98positive
g14085.t1CYTOCHROME P450 260.98positive
g19672.t1--0.98positive
g25336.t1OXIDASE/PEROXIDASE0.98positive
g30408.t1NACHT, LRR AND CARD DOMAINS-CONTAINING0.98positive
g30747.t1HOMOGENTISATE 1,2-DIOXYGENASE0.97positive
g6199.t1DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING0.97positive
g17721.t1FORKHEAD BOX PROTEIN J10.97positive
g12291.t1NETRIN/LAMININ-RELATED0.97positive
g34943.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.97positive
g5355.t1RBPJ-INTERACTING AND TUBULIN-ASSOCIATED PROTEIN 10.97positive
g13138.t1GALACTOSYLGALACTOSYLXYLOSYLPROTEIN 3-BETA-GLUCURONOSYLTRANSFERASE BETA-1,3-GLUCURONYLTRANSFERASE0.97positive
g10456.t1COPPER AMINE OXIDASE0.97positive
g3948.t1TRANSCRIPTASE, PUTATIVE-RELATED-RELATED0.97positive
g28151.t1WD REPEAT-CONTAINING PROTEIN POP10.97positive
g21830.t1THYMIDINE PHOSPHORYLASE0.97positive
g15388.t1DNA-BINDING PROTEIN INHIBITOR0.97positive
g30723.t1RAS-ASSOCIATING DOMAIN-CONTAINING PROTEIN0.97positive
g17136.t1--0.96positive
g2349.t1EXONUCLEASE V0.96positive
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 101 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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