Co-expression Network Results

Co-expression Network Analysis

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

📊 Global Network of g725.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 g725.t1

Gene ID	Description	PCC	Relationship
g725.t1	ATP-DEPENDENT RNA HELICASE RHLE-RELATED	1	positive
g17855.t1	METHYLOSOME PROTEIN 50	0.94	positive
g456.t1	DNA REPAIR PROTEIN COMPLEMENTING XP-A CELLS	0.90	positive
g24867.t1	30S 40S RIBOSOMAL PROTEIN	0.90	positive
g1659.t1	SIGNAL RECOGNITION PARTICLE 9 KDA PROTEIN	0.89	positive
g7827.t1	CDP-DIACYLGLYCEROL--SERINE O-PHOSPHATIDYLTRANSFERASE	0.89	positive
g5759.t1	SIGNAL RECOGNITION PARTICLE 68 KDA PROTEIN	0.89	positive
g15523.t1	FL(2)D-ASSOCIATED COMPLEX COMPONENT	0.88	positive
g20177.t1	--	0.87	positive
g13336.t1	GMP SYNTHASE-RELATED	0.86	positive
g9752.t1	GEM-ASSOCIATED PROTEIN 8	0.85	positive
g19548.t1	AGAP001623-PA	0.83	positive
g24217.t1	RNA PROCESSING PROTEIN LD23810P	0.83	positive
g6483.t1	TRANSCRIPTION INITIATION FACTOR IIIC TFIIIC , POLYPEPTIDE 6-RELATED	0.83	positive
g3137.t1	SMALL NUCLEAR RIBONUCLEOPROTEIN	0.83	positive
g4558.t1	ADHESION REGULATING MOLECULE 1 110 KDA CELL MEMBRANE GLYCOPROTEIN	0.83	positive

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 56 gene pairs and one run of Dynamic Expression View draws at most 10, so the button below carries the 10 with the strongest |PCC|.

Or take the pairs by hand

g17855.t1 g7827.t1
g5759.t1 g456.t1
g24867.t1 g5759.t1
g17855.t1 g15523.t1
g7827.t1 g6483.t1
g17855.t1 g725.t1
g6483.t1 g1659.t1
g15523.t1 g5759.t1
g24217.t1 g15523.t1
g15523.t1 g456.t1

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.