Co-expression Network Analysis

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

📊 Global Network of g2461.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 g2461.t1
Gene ID Description PCC Relationship
g2461.t1-1positive
g10434.t1CADHERIN-230.98positive
g16658.t1CONTACTIN 50.98positive
g2952.t1CENTROSOMAL PROTEIN 20.98positive
g23590.t1TYROSINE-PROTEIN KINASE RECEPTOR0.98positive
g10237.t1MULTICOPPER OXIDASE-RELATED0.97positive
g10238.t1SUSHI DOMAIN-CONTAINING PROTEIN 10.97positive
g2936.t1CENTROSOMAL PROTEIN 20.97positive
g23523.t1--0.97positive
g12668.t1--0.97positive
g16657.t1RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE0.97positive
g27103.t1G_PROTEIN_RECEP_F2_4 DOMAIN-CONTAINING PROTEIN0.97positive
g14728.t1EUKARYOTIC TRANSLATION INITIATION FACTOR 2-ALPHA KINASE EIF2-ALPHA KINASE -RELATED0.97positive
g11216.t1ENHANCER OF MRNA-DECAPPING PROTEIN 40.97positive
g12658.t1CATION TRANSPORTING ATPASE0.97positive
g34505.t1SI:CH211-108C17.2-RELATED-RELATED0.97positive
g13999.t1PROBABLE PHOSPHOLIPID-TRANSPORTING ATPASE0.97positive
g2719.t1GLR0591 PROTEIN0.97positive
g24216.t1TYROSINE-PROTEIN KINASE RECEPTOR0.97positive
g107.t1SYNAPTOTAGMIN0.97positive
g23171.t1--0.96positive
g30127.t1--0.96positive
g13062.t1SODIUM/CHLORIDE DEPENDENT TRANSPORTER0.96positive
g26543.t1MALE STERILE (3) 76CA0.95positive
g26432.t1--0.95positive
g8973.t1ANKYRIN REPEAT-CONTAINING0.95positive
g1746.t1EXOCYST COMPLEX COMPONENT 40.95positive
g8040.t1CONTACTIN 50.94positive
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 102 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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