Co-expression Network Analysis

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

📊 Global Network of g23610.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 g23610.t1
Gene ID Description PCC Relationship
g23610.t1UBIQUITIN THIOESTERASE1positive
g2191.t1RUBY-EYE2-LIKE PROTEIN0.97positive
g5818.t1CYCLIC-AMP RESPONSE ELEMENT BINDING PROTEIN0.97positive
g11138.t1BANK1/PIK3AP1 FAMILY MEMBER0.97positive
g8992.t1--0.97positive
g6430.t1SWAP-70 RECOMBINASE0.97positive
g4160.t1--0.97positive
g22100.t13'-5' EXONUCLEASE DOMAIN-CONTAINING PROTEIN0.96positive
g1839.t1ANOCTAMIN0.96positive
g6505.t1NITRIC OXIDE SYNTHASE-RELATED0.96positive
g27122.t1TGF-BETA-ACTIVATED KINASE 1 AND MAP3K7-BINDING PROTEIN TAB0.96positive
g18870.t1SYNDROMES PUTATIVE CHAPERONIN-RELATED0.95positive
g11254.t1SPINSTER0.95positive
g27687.t1DNAJ HOMOLOG SUBFAMILY C MEMBER 170.95positive
g12882.t1NNMT/PNMT/TEMT FAMILY MEMBER0.95positive
g17796.t1PROTEASE M3 THIMET OLIGOPEPTIDASE-RELATED0.95positive
g9737.t1--0.95positive
g4161.t1MULTICOPPER OXIDASE-RELATED0.95positive
g16204.t1GAMETOGENETIN-BINDING PROTEIN 20.95positive
g11537.t1SACCHAROPINE DEHYDROGENASE0.95positive
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 105 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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