Co-expression Network Analysis

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

📊 Global Network of g16657.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 g16657.t1
Gene ID Description PCC Relationship
g16657.t1RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE1positive
g10434.t1CADHERIN-230.98positive
g6524.t1CTX-RELATED TYPE I TRANSMEMBRANE PROTEIN0.98positive
g34163.t1--0.98positive
g2936.t1CENTROSOMAL PROTEIN 20.98positive
g2719.t1GLR0591 PROTEIN0.97positive
g2461.t1-0.97positive
g10191.t1ZINC FINGER PROTEIN 2940.97positive
g16658.t1CONTACTIN 50.97positive
g26432.t1--0.97positive
g10502.t1POTASSIUM/PROTON ANTIPORTER-RELATED0.97positive
g1561.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.97positive
g601.t1TETRATRICOPEPTIDE REPEAT PROTEIN 130.97positive
g16730.t1PHOSPHATIDYLINOSITIDE PHOSPHATASE SAC10.97positive
g13062.t1SODIUM/CHLORIDE DEPENDENT TRANSPORTER0.97positive
g18413.t1HOMEOBOX PROTEIN ARISTALESS0.96positive
g4426.t1BETA-1,3-N-ACETYLGLUCOSAMINYLTRANSFERASE0.96positive
g30175.t1--0.96positive
g8947.t1METALLOPROTEASE TIKI0.96positive
g30314.t1--0.96positive
g21216.t1FRINGE-RELATED0.96positive
g7773.t1TYROSINE-PROTEIN KINASE RECEPTOR0.96positive
g12287.t1NETRIN/LAMININ-RELATED0.96positive
g23615.t1POLY A POLYMERASE0.96positive
g3150.t1TYROSINE-PROTEIN KINASE RECEPTOR0.96positive
g23171.t1--0.96positive
g34242.t1--0.96positive
g13790.t1ANGIOTENSIN-CONVERTING ENZYME0.95positive
g29712.t1KUNITZ-TYPE PROTEASE INHIBITOR-RELATED0.94positive
g6895.t14.1 G PROTEIN0.94positive
g7501.t1COILED-COIL DOMAIN-CONTAINING PROTEIN 130.94positive
g17408.t1UNCHARACTERIZED0.94positive
g6436.t1UNCHARACTERIZED0.93positive
g22504.t1--0.92positive
g21053.t1ANKYRIN REPEAT FAMILY PROTEIN0.86positive
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 141 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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