Co-expression Network Analysis

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

📊 Global Network of g630.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 g630.t1
Gene ID Description PCC Relationship
g630.t160S RIBOSOMAL PROTEIN L11-RELATED1positive
g96.t160S RIBOSOMAL PROTEIN L121.00positive
g35221.t1RIBOSOMAL PROTEIN L7AE FAMILY MEMBER1.00positive
g7514.t160S RIBOSOMAL PROTEIN L18A0.99positive
g6827.t1RIBOSOMAL PROTEIN L130.99positive
g32136.t1--0.99positive
g7529.t160S ACIDIC RIBOSOMAL PROTEIN P00.99positive
g8817.t140S RIBOSOMAL PROTEIN S210.99positive
g10236.t1T-COMPLEX-ASSOCIATED-TESTIS-EXPRESSED 1/ DYNEIN LIGHT CHAIN0.99positive
g27704.t1--0.99positive
g35267.t1BOLA TRANSCRIPTION REGULATOR0.99positive
g19114.t1RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK10.99positive
g102.t140S RIBOSOMAL PROTEIN S240.99positive
g5274.t1RAS-ASSOCIATING DOMAIN-CONTAINING PROTEIN0.99positive
g30988.t1--0.99positive
g16555.t160S RIBOSOMAL PROTEIN L380.99positive
g2366.t1NITRILASE C965.09-RELATED0.99positive
g408.t140S RIBOSOMAL PROTEIN S60.99positive
g29715.t160S RIBOSOMAL PROTEIN L100.99positive
g16118.t1PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 270.99positive
g29153.t1--0.99positive
g13543.t1--0.99positive
g27758.t160S RIBOSOMAL PROTEIN L170.99positive
g8998.t1RIBOSOMAL PROTEIN S70.99positive
g29167.t1--0.99positive
g108.t1--0.99positive
g12958.t1--0.99positive
g30464.t130S RIBOSOMAL PROTEIN S13/40S RIBOSOMAL PROTEIN S180.99positive
g4556.t1INORGANIC PYROPHOSPHATASE0.99positive
g8032.t1THREONINE DEHYDRATASE, MITOCHONDRIAL-RELATED0.98positive
g12312.t1EF-HAND AND COILED-COIL DOMAIN-CONTAINING FAMILY MEMBER0.98positive
g15856.t1PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 270.98positive
g27771.t1--0.98positive
g6162.t1LACTOYLGLUTATHIONE LYASE GLYOXALASE I0.98positive
g10019.t1--0.98positive
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 216 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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