Co-expression Network Analysis

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

📊 Global Network of g18653.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 g18653.t1
Gene ID Description PCC Relationship
g18653.t1FIDIPIDINE1positive
g4739.t1CENTROSOMAL PROTEIN 20.98positive
g12747.t1RETROTRANSPOSON0.98positive
g3877.t1IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX0.98positive
g27250.t1VOLTAGE-GATED POTASSIUM CHANNEL0.98positive
g29122.t1RETROTRANSPOSON0.98positive
g26468.t1REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN-RELATED0.98positive
g8087.t1ADRENERGIC RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.98positive
g10207.t1--0.98positive
g16663.t1--0.98positive
g32248.t1GABA-B RECEPTOR0.97positive
g3258.t1ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN0.97positive
g19443.t1ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN0.97positive
g16266.t1RETROTRANSPOSON0.97positive
g7356.t1SODIUM/POTASSIUM/CALCIUM EXCHANGER0.97positive
g21943.t1UNCHARACTERIZED0.97positive
g32529.t1--0.96positive
g16034.t1--0.96positive
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 34 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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