Co-expression Network Analysis

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

📊 Global Network of g1456.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 g1456.t1
Gene ID Description PCC Relationship
g1456.t1PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT SDS22-RELATED1positive
g2862.t1PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 320.99positive
g15028.t1RADIAL SPOKEHEAD-RELATED0.99positive
g22111.t1NUCLEOTIDE KINASE0.99positive
g8486.t1TESTIS-SPECIFIC GENE 13 PROTEIN0.99positive
g964.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.99positive
g5482.t1C5ORF310.99positive
g17860.t1DLEC1 DELETED IN LUNG AND ESOPHAGEAL CANCER 10.99positive
g16270.t1UNCHARACTERIZED0.99positive
g7597.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.99positive
g26997.t1UNCHARACTERIZED0.98positive
g21539.t1UNCHARACTERIZED0.98positive
g7216.t1NMDA RECEPTOR SYNAPTONUCLEAR SIGNALING AND NEURONAL MIGRATION FACTOR0.98positive
g14690.t1--0.98positive
g24516.t1TESTIS-EXPRESSED PROTEIN 26 ISOFORM X30.98positive
g12125.t1NEUROPEPTIDE RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.98positive
g35039.t1PF60.98positive
g30775.t1MULTICOPPER OXIDASE-RELATED0.98positive
g1993.t1--0.98positive
g28231.t1KPL2-RELATED0.98positive
g27121.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 460.98positive
g25442.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 700.98positive
g12451.t1CILIA AND FLAGELLA-ASSOCIATED PROTEIN 58-RELATED0.98positive
g14804.t1GUANYL-NUCLEOTIDE EXCHANGE FACTOR0.98positive
g3323.t1VON WILLEBRAND FACTOR A DOMAIN-CONTAINING PROTEIN 3A0.98positive
g1280.t1TESTIS-EXPRESSED PROTEIN 360.98positive
g16139.t1T-COMPLEX-ASSOCIATED-TESTIS-EXPRESSED 1/ DYNEIN LIGHT CHAIN0.98positive
g6324.t1SERINE/THREONINE/TYROSINE-INTERACTING-LIKE PROTEIN 10.98positive
g27138.t1DYNEIN INTERMEDIATE CHAIN0.98positive
g2280.t1SI:DKEY-97L20.60.98positive
g11848.t1NUCLEOSIDE DIPHOSPHATE KINASE0.98positive
g15669.t1ROPPORIN-1-LIKE PROTEIN0.98positive
g9828.t1UNCHARACTERIZED0.98positive
g30241.t1PROTEIN C21ORF590.97positive
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 265 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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