Co-expression Network Analysis

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

📊 Global Network of g28123.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 g28123.t1
Gene ID Description PCC Relationship
g28123.t1POTASSIUM CHANNEL, SUBFAMILY K1positive
g6189.t1LEUCOKININ RECEPTOR-RELATED0.99positive
g17853.t1LYSOSOMAL ACID LIPASE-RELATED0.99positive
g12486.t1GLIAL CELLS MISSING RELATED/GLIDE0.99positive
g11889.t1PROSTAGLANDIN G/H SYNTHASE0.99positive
g27514.t1TRANSLATION ELONGATION FACTOR-RELATED0.99positive
g12030.t1COLLAGEN ALPHA0.99positive
g18961.t1G-PROTEIN COUPLED RECEPTOR FAMILY 1 MEMBER0.99positive
g7800.t1GLUTAMATE SEMIALDEHYDE DEHYDROGENASE0.99positive
g12437.t1SOLUTE CARRIER FAMILY 20.99positive
g28286.t1--0.99positive
g528.t1FCH AND DOUBLE SH3 DOMAINS PROTEIN0.99positive
g4055.t1--0.99positive
g27403.t1HYALURONIC ACID-BINDING PROTEIN 40.99positive
g30726.t1--0.99positive
g6611.t1ALDEHYDE DEHYDROGENASE-RELATED0.99positive
g11811.t1B2 BRADYKININ RECEPTOR/ANGIOTENSIN II RECEPTOR0.98positive
g1820.t1CYTOCHROME P450 FAMILY 30.98positive
g30907.t1INTELECTIN0.98positive
g9369.t1ATP-BINDING CASSETTE SUB-FAMILY B0.98positive
g3743.t1S -2-HYDROXY-ACID OXIDASE-RELATED0.98positive
g27335.t1--0.98positive
g344.t1TNF RECEPTOR ASSOCIATED FACTOR0.98positive
g27099.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 70.98positive
g10203.t1--0.98positive
g2188.t1-0.97positive
g2257.t1ATP-DEPENDENT DNA HELICASE0.94positive
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 79 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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