Co-expression Network Analysis

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

📊 Global Network of g23617.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 g23617.t1
Gene ID Description PCC Relationship
g23617.t1--1positive
g35042.t1WD REPEAT DOMAIN-CONTAINING FAMILY0.91positive
g308.t1CENTROSOMAL PROTEIN KIZUNA0.91positive
g5617.t1CIRCADIAN PROTEIN CLOCK/ARNT/BMAL/PAS0.91positive
g6625.t1TRANSCRIPTION FACTOR-LIKE 5 PROTEIN0.91positive
g5217.t1FORMIN HOMOLOGY 2 FAMILY MEMBER0.90positive
g35594.t1DOUBLESEX AND MAB-3 RELATED TRANSCRIPTION FACTOR DMRT0.89positive
g10734.t1DNAJ HOMOLOG SUBFAMILY C MEMBER 160.89positive
g5643.t1PR DOMAIN ZINC FINGER PROTEIN0.88positive
g16274.t1POLY [ADP-RIBOSE] POLYMERASE0.88positive
g1090.t1DEOXYRIBONUCLEASE TATDN2-RELATED0.88positive
g17991.t1UNCHARACTERIZED0.88positive
g34910.t1MITOCHONDRIAL ATP SYNTHASE COUPLING FACTOR B0.87positive
g15353.t1UBIQUITIN-CONJUGATING ENZYME E20.87positive
g13688.t1UNCHARACTERIZED0.87positive
g17798.t1PEPTIDASE S9 PROLYL OLIGOPEPTIDASE0.85positive
g10555.t1NUCLEOPORIN NUP37 P37 -RELATED0.85positive
g14654.t1GLYCEROL-3-PHOSPHATE DEHYDROGENASE0.84positive
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 76 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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