Co-expression Network Analysis

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

📊 Global Network of g4155.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 g4155.t1
Gene ID Description PCC Relationship
g4155.t1--1positive
g3540.t1UNCHARACTERIZED0.98positive
g13246.t1OSMOTIC AVOIDANCE ABNORMAL PROTEIN 1/WD REPEAT MEMBRANE PROTEIN0.98positive
g10969.t1SAM DOMAIN-CONTAINING PROTEIN-RELATED0.98positive
g7933.t1BRCA1-ASSOCIATED ATM ACTIVATOR 10.98positive
g27121.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 460.97positive
g8989.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 1570.97positive
g15080.t1ANOCTAMIN0.97positive
g12745.t1REGULATOR OF G-PROTEIN SIGNALING 220.97positive
g9287.t1STI2 PROTEIN-RELATED0.97positive
g27734.t1MOLTING PROTEIN MLT-40.97positive
g3969.t1DIHYDRODIPICOLINATE SYNTHASE0.97positive
g20883.t1--0.97positive
g2935.t1LEUCINE RICH REPEAT FAMILY PROTEIN0.97positive
g10451.t1WD-40 REPEAT PROTEIN0.97positive
g1701.t1WD REPEAT DOMAIN-RELATED0.97positive
g6307.t1EPHRIN0.96positive
g11672.t1TETRATRICOPEPTIDE REPEAT PROTEIN 60.96positive
g12265.t1THIOREDOXIN DOMAIN-CONTAINING PROTEIN 110.96positive
g18613.t1LEUCINE-RICH REPEAT-CONTAINING PROTEIN 340.96positive
g28423.t1XAA-PRO AMINOPEPTIDASE 10.96positive
g723.t1ARMADILLO-LIKE HELICAL DOMAIN CONTAINING PROTEIN 10.96positive
g5325.t1HYALURONIDASE0.96positive
g11778.t1--0.96positive
g10823.t1MONOCARBOXYLATE TRANSPORTER0.95positive
g11592.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL PROTEIN PAINLESS0.95positive
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 99 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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