Co-expression Network Analysis

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

📊 Global Network of g9093.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 g9093.t1
Gene ID Description PCC Relationship
g9093.t1WD-40 REPEAT PROTEIN1positive
g2862.t1PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 320.99positive
g10586.t1--0.99positive
g19809.t1NUCLEOTIDE KINASE0.99positive
g328.t1MULTIPLE INOSITOL POLYPHOSPHATE PHOSPHATASE-RELATED0.99positive
g1280.t1TESTIS-EXPRESSED PROTEIN 360.99positive
g11848.t1NUCLEOSIDE DIPHOSPHATE KINASE0.99positive
g35039.t1PF60.99positive
g22951.t1NEUROTRANSMITTER GATED ION CHANNEL0.99positive
g27044.t1SPONDIN0.99positive
g25442.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 700.99positive
g11849.t1NUCLEOSIDE DIPHOSPHATE KINASE0.99positive
g15028.t1RADIAL SPOKEHEAD-RELATED0.98positive
g26999.t1UNCHARACTERIZED0.98positive
g7597.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.98positive
g6324.t1SERINE/THREONINE/TYROSINE-INTERACTING-LIKE PROTEIN 10.98positive
g8486.t1TESTIS-SPECIFIC GENE 13 PROTEIN0.98positive
g29936.t1LAMIN DM0-RELATED0.98positive
g15476.t1LEUCINE-RICH REPEAT-CONTAINING PROTEIN 340.98positive
g12125.t1NEUROPEPTIDE RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR0.98positive
g27138.t1DYNEIN INTERMEDIATE CHAIN0.98positive
g20268.t1--0.98positive
g18372.t1COILED-COIL DOMAIN-CONTAINING 74A0.98positive
g3973.t1CAT EYE SYNDROME CRITICAL REGION PROTEIN 60.98positive
g24516.t1TESTIS-EXPRESSED PROTEIN 26 ISOFORM X30.98positive
g7816.t1DRAB11-RELATED0.98positive
g964.t1EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 6-RELATED0.98positive
g17860.t1DLEC1 DELETED IN LUNG AND ESOPHAGEAL CANCER 10.98positive
g28231.t1KPL2-RELATED0.98positive
g34746.t1RADIAL SPOKEHEAD-RELATED0.98positive
g9828.t1UNCHARACTERIZED0.98positive
g36267.t1MULTICOPPER OXIDASE-RELATED0.98positive
g32685.t1--0.98positive
g3146.t1--0.98positive
g5151.t1AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED0.98positive
g19059.t1CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 700.98positive
g16799.t1KH DOMAIN CONTAINING RNA BINDING PROTEIN0.97positive
g26553.t1RADIAL SPOKEHEAD-RELATED0.97positive
g34940.t1HYPOTHETICAL PROTEIN LOC6911890.97positive
g33499.t1RADIAL SPOKEHEAD-RELATED0.97positive
g20976.t1--0.97positive
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 261 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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