Co-expression Network Analysis

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

📊 Global Network of g28523.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 g28523.t1
Gene ID Description PCC Relationship
g28523.t1FRIZZLED1positive
g3626.t1FAS-ASSOCIATED PROTEIN0.98positive
g9209.t1METALLOENDOPEPTIDASE OMA10.97positive
g22005.t1ZINC FINGERS AND HOMEOBOXES PROTEIN 1, ISOFORM 20.97positive
g33745.t1ANKYRIN REPEAT PROTEIN0.97positive
g29028.t1TTC17 PROTEIN0.97positive
g13202.t1CGI-41 METHYLTRANSFERASE0.97positive
g11620.t1--0.97positive
g16882.t1N6-ADENOSINE-METHYLTRANSFERASE0.97positive
g34344.t1MITOCHONDRIAL CARRIER PROTEIN RIM20.97positive
g9869.t1DEVELOPMENTALLY-REGULATED GTP-BINDING PROTEIN 20.97positive
g5192.t1ATP-BINDING CASSETTE SUB-FAMILY C0.97positive
g10541.t1GALACTOSYLGALACTOSYLXYLOSYLPROTEIN 3-BETA-GLUCURONOSYLTRANSFERASE BETA-1,3-GLUCURONYLTRANSFERASE0.97positive
g9282.t1TRANSMEMBRANE PROTEIN0.97positive
g22814.t1RIKEN CDNA 6820408C150.96positive
g28094.t1OXYGENASE-RELATED0.96positive
g19052.t1NUCLEAR HORMONE RECEPTOR0.96positive
g4853.t1GLUTATHIONE REDUCTASE0.96positive
g7897.t1PROTEIN FAM91A10.96positive
g3253.t1ROUND SPERMATID BASIC PROTEIN 10.96positive
g32148.t1--0.96positive
g6468.t1UNCHARACTERIZED0.96positive
g29415.t1SESQUIPEDALIAN0.96positive
g36461.t1--0.96positive
g5090.t1F18C1.6 PROTEIN0.95positive
g5302.t1SEPTIN0.95positive
g30364.t1ALPHA-GALACTOSIDASE/ALPHA-N-ACETYLGALACTOSAMINIDASE0.95positive
g29100.t1ZINC PHOSPHODIESTERASE ELAC PROTEIN 20.95positive
g8218.t1RNA POLYMERASE II-ASSOCIATED PROTEIN 10.94positive
g6460.t1EARLY ENDOSOME ANTIGEN 10.93positive
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 143 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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