Co-expression Network Analysis

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

📊 Global Network of evm.model.Ap5.2685
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 evm.model.Ap5.2685
Gene ID Description PCC Relationship
evm.model.Ap5.2685--1positive
Cys_781--0.91positive
Gly_628--0.91positive
Thr_1417--0.91positive
Thr_1784--0.91positive
Thr_261--0.91positive
Thr_3088--0.91positive
Thr_3332--0.91positive
Thr_4187--0.91positive
evm.model.Ap1.119--0.91positive
evm.model.Ap1.1578ZINC FINGER RNA-BINDING PROTEIN0.91positive
evm.model.Ap1.1631--0.91positive
evm.model.Ap1.1772LATROPHILIN RECEPTOR-LIKE PROTEIN A0.91positive
evm.model.Ap1.3375--0.91positive
evm.model.Ap1.500COLLAGEN ALPHA0.91positive
evm.model.Ap1.595--0.91positive
evm.model.Ap10.986RETROTRANSPOSON0.91positive
evm.model.Ap11.486ZINC FINGER PROTEIN0.91positive
evm.model.Ap12.143HISTAMINE RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.91positive
evm.model.Ap12.15--0.91positive
evm.model.Ap12.1760PROTEIN CBG266940.91positive
evm.model.Ap12.2033EXPRESSED PROTEIN0.91positive
evm.model.Ap12.2314--0.91positive
evm.model.Ap12.366--0.91positive
evm.model.Ap13.1850UBIQUITIN CONJUGATING ENZYME 7 INTERACTING PROTEIN-RELATED0.91positive
evm.model.Ap13.2839--0.91positive
evm.model.Ap13.644--0.91positive
evm.model.Ap13.926--0.91positive
evm.model.Ap14.1104--0.91positive
evm.model.Ap14.1180--0.91positive
evm.model.Ap14.1310EXPRESSED PROTEIN0.91positive
evm.model.Ap14.469--0.91positive
evm.model.Ap2.3198ADRENERGIC RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.91positive
evm.model.Ap3.1779--0.91positive
evm.model.Ap3.2019--0.91positive
evm.model.Ap4.102540S RIBOSOMAL PROTEIN S14/30S RIBOSOMAL PROTEIN S110.91positive
evm.model.Ap4.1453--0.91positive
evm.model.Ap4.2132--0.91positive
evm.model.Ap4.2733--0.91positive
evm.model.Ap4.2821115 KDA PROTEIN IN TYPE-1 RETROTRANSPOSABLE ELEMENT R1DM-LIKE PROTEIN-RELATED-RELATED0.91positive
evm.model.Ap4.3130TRANSPOSABLE ELEMENT-RELATED0.91positive
evm.model.Ap4.3528--0.91positive
evm.model.Ap4.3538--0.91positive
evm.model.Ap4.3562--0.91positive
evm.model.Ap4.4064--0.91positive
evm.model.Ap4.41--0.91positive
evm.model.Ap4.6027--0.91positive
evm.model.Ap5.1979REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN0.91positive
evm.model.Ap5.2016--0.91positive
evm.model.Ap5.2029--0.91positive
evm.model.Ap5.2580RAB FAMILY0.91positive
evm.model.Ap5.874SI:DKEY-276J7.10.91positive
evm.model.Ap6.1095--0.91positive
evm.model.Ap6.1703--0.91positive
evm.model.Ap7.161--0.91positive
evm.model.Ap7.165--0.91positive
evm.model.Ap8.1823--0.91positive
evm.model.Ap8.1970--0.91positive
evm.model.Ap8.2059--0.91positive
evm.model.Ap8.260--0.91positive
evm.model.Ap8.810SERINE PROTEASE INHIBITOR, SERPIN0.91positive
evm.model.Ap9.1012--0.91positive
evm.model.Ap9.255CXC DOMAIN-CONTAINING PROTEIN-RELATED0.91positive
evm.model.Ap9.583RETROTRANSPOSON0.91positive
evm.model.Ap1.3521REVERSE TRANSCRIPTASE0.89positive
evm.model.Ap4.5059ENDO/EXONUCLEASE/PHOSPHATASE DOMAIN-CONTAINING PROTEIN0.87positive
evm.model.Ap4.4624EUKARYOTIC ELONGATION FACTOR 2 KINASE-RELATED0.85positive
evm.model.Ap12.1335HISTONE H10.82positive
evm.model.Ap14.1628ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 160.76positive
evm.model.Ap8.256LYSOSOME-ASSOCIATED MEMBRANE GLYCOPROTEIN0.74positive
evm.model.Ap3.1544EUKARYOTIC ELONGATION FACTOR 2 KINASE-RELATED0.73positive
evm.model.Ap4.3219--0.71positive
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 2156 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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