Co-expression Network Analysis

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

📊 Global Network of g110.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 g110.t1
Gene ID Description PCC Relationship
g110.t1THYMUS, BRAIN AND TESTES-ASSOCIATED1positive
g31562.t1MYB-LIKE PROTEIN X0.99positive
g2832.t1DYNACTIN 1-RELATED MICROTUBULE-BINDING0.99positive
g9374.t1DDB1- AND CUL4-ASSOCIATED FACTOR 12-RELATED0.99positive
g9834.t1DYNEIN HEAVY CHAIN0.99positive
g7597.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.99positive
g24067.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL PROTEIN PAINLESS0.99positive
g8487.t1TESTIS-SPECIFIC GENE 13 PROTEIN0.98positive
g29936.t1LAMIN DM0-RELATED0.98positive
g8036.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 540.98positive
g13227.t1DYNEIN ASSEMBLY FACTOR 4, AXONEMAL0.98positive
g9266.t1ANKYRIN REPEAT DOMAIN-CONTAINING PROTEIN 600.98positive
g26999.t1UNCHARACTERIZED0.98positive
g19809.t1NUCLEOTIDE KINASE0.98positive
g14804.t1GUANYL-NUCLEOTIDE EXCHANGE FACTOR0.98positive
g17859.t1DLEC1 DELETED IN LUNG AND ESOPHAGEAL CANCER 10.98positive
g27121.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 460.98positive
g35038.t1PF60.98positive
g22111.t1NUCLEOTIDE KINASE0.98positive
g12745.t1REGULATOR OF G-PROTEIN SIGNALING 220.98positive
g18554.t1STABILIZER OF AXONEMAL MICROTUBULES 20.98positive
g12769.t1LEUCINE-RICH REPEAT AND IQ DOMAIN-CONTAINING PROTEIN 1-RELATED0.98positive
g11849.t1NUCLEOSIDE DIPHOSPHATE KINASE0.98positive
g1427.t1TRANSIENT RECEPTOR POTENTIAL ION CHANNEL PROTEIN0.98positive
g11848.t1NUCLEOSIDE DIPHOSPHATE KINASE0.98positive
g964.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.98positive
g5482.t1C5ORF310.98positive
g7704.t1LUNG ADENOMA SUSCEPTIBILITY 1-RELATED0.98positive
g3322.t1--0.98positive
g34414.t1ANK_REP_REGION DOMAIN-CONTAINING PROTEIN-RELATED0.98positive
g10969.t1SAM DOMAIN-CONTAINING PROTEIN-RELATED0.98positive
g13344.t1CELL DIVISION PROTEIN KINASE0.97positive
g9287.t1STI2 PROTEIN-RELATED0.97positive
g3321.t1--0.97positive
g14282.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 460.97positive
g12361.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 470.97positive
g16565.t1DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING0.97positive
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 222 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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