Co-expression Network Analysis

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

📊 Global Network of g29167.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 g29167.t1
Gene ID Description PCC Relationship
g29167.t1--1positive
g29153.t1--1.00positive
g30988.t1--1.00positive
g7529.t160S ACIDIC RIBOSOMAL PROTEIN P01.00positive
g19114.t1RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK10.99positive
g27776.t1RIBOSOMAL PROTEIN L5-RELATED0.99positive
g6242.t140S RIBOSOMAL PROTEIN SA0.99positive
g27470.t1SOLUTE CARRIER FAMILY 22 MEMBER0.99positive
g35221.t1RIBOSOMAL PROTEIN L7AE FAMILY MEMBER0.99positive
g35995.t1T-COMPLEX-ASSOCIATED-TESTIS-EXPRESSED 1/ DYNEIN LIGHT CHAIN0.99positive
g13144.t1OVOCHYMASE-RELATED0.99positive
g29471.t1PROLYL 4-HYDROXYLASE ALPHA SUBUNIT0.99positive
g167.t1ENDOCHITINASE0.99positive
g3877.t1IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX0.99positive
g31660.t1SH3 DOMAIN-CONTAINING0.99positive
g8087.t1ADRENERGIC RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.99positive
g30333.t1BCL-2 RELATED0.99positive
g7527.t1--0.99positive
g16362.t1KELCH PROTEIN0.99positive
g21191.t1--0.99positive
g2642.t1SRCR DOMAIN-CONTAINING PROTEIN0.99positive
g16171.t160S RIBOSOMAL PROTEIN L40.99positive
g26942.t1G PROTEIN-COUPLED RECEPTOR0.99positive
g27704.t1--0.99positive
g14331.t1STEROID 17-ALPHA-HYDROXYLASE/17,20 LYASE0.99positive
g10236.t1T-COMPLEX-ASSOCIATED-TESTIS-EXPRESSED 1/ DYNEIN LIGHT CHAIN0.99positive
g31167.t1LD44762P0.99positive
g808.t1MYND-TYPE DOMAIN-CONTAINING PROTEIN0.99positive
g630.t160S RIBOSOMAL PROTEIN L11-RELATED0.99positive
g34787.t1C-REACTIVE PROTEIN-RELATED0.99positive
g2366.t1NITRILASE C965.09-RELATED0.99positive
g2314.t1--0.99positive
g2231.t1--0.99positive
g8817.t140S RIBOSOMAL PROTEIN S210.99positive
g1302.t1DYNEIN LIGHT CHAIN ROADBLOCK0.98positive
g25275.t1PROTEASE M1 ZINC METALLOPROTEASE0.98positive
g1030.t1CONTACTIN 50.98positive
g15747.t1VOLTAGE-GATED POTASSIUM CHANNEL0.98positive
g18060.t1LITHOSTATHINE0.98positive
g31416.t1PROTEASE M1 ZINC METALLOPROTEASE0.97positive
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 283 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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