Co-expression Network Analysis

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

📊 Global Network of g6427.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 g6427.t1
Gene ID Description PCC Relationship
g6427.t1UNCHARACTERIZED1positive
g10331.t1DEUBIQUITINATING PROTEIN VCIP1350.95positive
g12187.t1--0.95positive
g2460.t1PROTEIN CBG124740.94positive
g16764.t1YY1 ASSOCIATED PROTEIN-RELATED0.94positive
g6346.t1MERLIN/MOESIN/EZRIN/RADIXIN0.94positive
g4833.t1CULLIN0.94positive
g16763.t1--0.94positive
g19648.t1CENTROMERE PROTEIN E0.94positive
g2565.t1RIBOSOME BINDING PROTEIN-10.94positive
g13055.t1AGAP003327-PA0.94positive
g11569.t1--0.94positive
g21307.t1PARP/ZINC FINGER CCCH TYPE DOMAIN CONTAINING PROTEIN0.94positive
g13386.t1GUANINE NUCLEOTIDE EXCHANGE FACTOR0.94positive
g19125.t1UBIQUITIN CARBOXYL-TERMINAL HYDROLASE0.93positive
g15206.t1--0.93positive
g8661.t1TRANSFORMING GROWTH FACTOR-BETA RECEPTOR TYPE I AND II0.93positive
g2854.t1--0.92positive
g35452.t1SERINE/THREONINE-PROTEIN KINASE UNC-51-RELATED0.92positive
g12549.t1ANK_REP_REGION DOMAIN-CONTAINING PROTEIN-RELATED0.92positive
g28201.t1LEUCINE-RICH REPEAT, ISOFORM F-RELATED0.92positive
g17739.t1NICOTINATE PHOSPHORIBOSYLTRANSFERASE0.91positive
g35647.t1--0.89positive
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 90 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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