Co-expression Network Analysis

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

📊 Global Network of g438.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 g438.t1
Gene ID Description PCC Relationship
g438.t1PR DOMAIN ZINC FINGER PROTEIN1positive
g4710.t1THYROTROPIN-RELEASING HORMONE RECEPTOR0.99positive
g32030.t1TRANSMEMBRANE PROTEIN 1630.99positive
g29662.t1RING FINGER AND CHY ZINC FINGER DOMAIN-CONTAINING PROTEIN 10.99positive
g7283.t1AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED0.99positive
g18961.t1G-PROTEIN COUPLED RECEPTOR FAMILY 1 MEMBER0.99positive
g27468.t1SOLUTE CARRIER FAMILY 22 MEMBER0.99positive
g16163.t1TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 130.99positive
g27084.t1RADIAL SPOKE HEAD 1 HOMOLOG0.99positive
g3877.t1IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX0.99positive
g11065.t1--0.99positive
g1954.t1--0.99positive
g15439.t1--0.99positive
g27514.t1TRANSLATION ELONGATION FACTOR-RELATED0.99positive
g6107.t1--0.99positive
g20856.t1EPH RECEPTOR A50.99positive
g28228.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL PROTEIN PAINLESS0.99positive
g34787.t1C-REACTIVE PROTEIN-RELATED0.99positive
g2087.t1N-ACETYLATED-ALPHA-LINKED ACIDIC DIPEPTIDASE0.99positive
g10390.t1--0.99positive
g7527.t1--0.99positive
g31565.t1--0.99positive
g8771.t1ARYLSULFATASE0.98positive
g30473.t1ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN0.98positive
g30310.t1--0.97positive
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 112 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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