Co-expression Network Analysis

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

📊 Global Network of g9808.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 g9808.t1
Gene ID Description PCC Relationship
g9808.t1LYMPHOID-SPECIFIC HELICASE1positive
g14958.t1TOUCAN, ISOFORM A0.99positive
g7398.t1TYROSINE AMINOTRANSFERASE0.98positive
g9735.t1ATAXIN-3-RELATED0.98positive
g9875.t1UNCHARACTERIZED0.98positive
g16207.t1PROTEIN CBG266940.98positive
g2501.t1N-ACETYLNEURAMINATE 9-O-ACETYLTRANSFERASE0.98positive
g14191.t1UNCHARACTERIZED0.98positive
g21678.t1DELTA-1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE 1, ISOFORM A-RELATED0.98positive
g17935.t1NUCLEAR INHIBITOR OF PROTEIN PHOSPHATASE-10.98positive
g14416.t1COILED-COIL DOMAIN-CONTAINING PROTEIN 580.97positive
g3253.t1ROUND SPERMATID BASIC PROTEIN 10.97positive
g1437.t139A RIBOSOMAL PROTEIN L50, MITOCHONDRIAL0.97positive
g15970.t1TROPONIN C-AKIN-1 PROTEIN0.97positive
g13256.t1RAS, DI-RAS, AND RHEB FAMILY MEMBERS OF SMALL GTPASE SUPERFAMILY0.97positive
g32148.t1--0.97positive
g27322.t1UNCHARACTERIZED0.97positive
g16977.t1SEL-1-LIKE PROTEIN0.97positive
g9895.t1MITOCHONDRIAL RIBOSOMAL PROTEIN S250.97positive
g4961.t1UNCHARACTERIZED0.97positive
g23116.t1SMALL VASOHIBIN-BINDING PROTEIN0.97positive
g31257.t1NEPHROCYSTIN0.97positive
g14905.t1MITOCHONDRIAL DICARBOXYLATE CARRIER-RELATED0.97positive
g14957.t1GLYCOSYL TRANSFERASE0.96positive
g12082.t1SORTING NEXIN-40.96positive
g21234.t1MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 100.96positive
g366.t1KINETOCHORE-ASSOCIATED PROTEIN NSL1 HOMOLOG0.96positive
g8722.t1ACYL-COA-BINDING DOMAIN-CONTAINING PROTEIN 60.96positive
g3964.t1G PROTEIN-COUPLED RECEPTOR KINASE/RIBOSOMAL PROTEIN S6 KINASE0.96positive
g667.t1-0.96positive
g17212.t1--0.96positive
g6466.t1PHOSDUCIN-LIKE PROTEIN0.96positive
g17992.t1CYTOCHROME P450 FAMILY 46 SUBFAMILY A0.96positive
g24987.t1--0.96positive
g10162.t1RAD50-INTERACTING PROTEIN 1 RINT-10.96positive
g20963.t1--0.95positive
g16437.t1TETRATRICOPEPTIDE REPEAT PROTEIN (AFU_ORTHOLOGUE AFUA_6G03870)0.93positive
g28955.t1SNARE PROTEINS0.91positive
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 230 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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