Co-expression Network Analysis

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

📊 Global Network of g4748.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 g4748.t1
Gene ID Description PCC Relationship
g4748.t1--1positive
g17292.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g20833.t1F5/8 TYPE C DOMAIN-CONTAINING PROTEIN-RELATED0.98positive
g26124.t1--0.98positive
g19897.t1TANDEM PH DOMAIN CONTAINING PROTEIN0.98positive
g32779.t1-0.98positive
g8455.t1MULTI-COPPER OXIDASE0.98positive
g30127.t1--0.97positive
g6360.t1--0.97positive
g22262.t1NACHT DOMAIN-CONTAINING PROTEIN0.97positive
g14085.t1CYTOCHROME P450 260.97positive
g33208.t1--0.97positive
g25336.t1OXIDASE/PEROXIDASE0.97positive
g13795.t1PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 270.97positive
g27103.t1G_PROTEIN_RECEP_F2_4 DOMAIN-CONTAINING PROTEIN0.97positive
g5349.t1FAMILY WITH SEQUENCE SIMILARITY 216 MEMBER A0.97positive
g8495.t1SERINE/THREONINE-PROTEIN KINASE0.97positive
g12292.t1--0.97positive
g17977.t1UNCHARACTERIZED0.97positive
g33701.t1NEUROLIGIN0.97positive
g36155.t1--0.97positive
g23590.t1TYROSINE-PROTEIN KINASE RECEPTOR0.97positive
g34363.t1STEP II SPLICING FACTOR SLU70.96positive
g26683.t1PROTEIN CBG266940.95positive
g22823.t1SI:CH211-108C17.2-RELATED-RELATED0.94positive
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 80 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.
TOP