Co-expression Network Analysis

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

📊 Global Network of g12030.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 g12030.t1
Gene ID Description PCC Relationship
g12030.t1COLLAGEN ALPHA1positive
g27828.t1--1.00positive
g19114.t1RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK11.00positive
g5679.t1--1.00positive
g5611.t1--0.99positive
g15219.t1LIM/HOMEOBOX PROTEIN LHX0.99positive
g6242.t140S RIBOSOMAL PROTEIN SA0.99positive
g27704.t1--0.99positive
g7529.t160S ACIDIC RIBOSOMAL PROTEIN P00.99positive
g17680.t1CALBINDIN0.99positive
g27776.t1RIBOSOMAL PROTEIN L5-RELATED0.99positive
g23344.t1INTELECTIN0.99positive
g4434.t1FIBRINOGEN/TENASCIN/ANGIOPOEITIN0.99positive
g35221.t1RIBOSOMAL PROTEIN L7AE FAMILY MEMBER0.99positive
g26548.t1--0.99positive
g23657.t1INTELECTIN0.99positive
g13375.t1--0.99positive
g4055.t1--0.99positive
g35995.t1T-COMPLEX-ASSOCIATED-TESTIS-EXPRESSED 1/ DYNEIN LIGHT CHAIN0.99positive
g408.t140S RIBOSOMAL PROTEIN S60.99positive
g27514.t1TRANSLATION ELONGATION FACTOR-RELATED0.99positive
g22956.t1--0.99positive
g34854.t1SULFOTRANSFERASE DOMAIN-CONTAINING PROTEIN0.99positive
g26418.t1--0.99positive
g31660.t1SH3 DOMAIN-CONTAINING0.99positive
g16150.t1--0.99positive
g35253.t1CYSTEINE-RICH SECRETORY PROTEIN-RELATED0.99positive
g27084.t1RADIAL SPOKE HEAD 1 HOMOLOG0.99positive
g20554.t1--0.99positive
g1956.t1--0.99positive
g3652.t1--0.99positive
g9538.t1CATALASE0.99positive
g30907.t1INTELECTIN0.99positive
g30333.t1BCL-2 RELATED0.99positive
g16747.t1--0.99positive
g11889.t1PROSTAGLANDIN G/H SYNTHASE0.99positive
g30186.t1INTELECTIN0.99positive
g27106.t1AGAP001623-PA0.99positive
g17853.t1LYSOSOMAL ACID LIPASE-RELATED0.99positive
g28123.t1POTASSIUM CHANNEL, SUBFAMILY K0.99positive
g20555.t1--0.99positive
g11811.t1B2 BRADYKININ RECEPTOR/ANGIOTENSIN II RECEPTOR0.99positive
g9044.t1METAXIN RELATED0.99positive
g27680.t1MYOSIN LIGHT CHAIN 1, 30.99positive
g760.t1CALCIUM BINDING PROTEIN0.98positive
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 308 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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