Co-expression Network Analysis

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

📊 Global Network of g25713.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 g25713.t1
Gene ID Description PCC Relationship
g25713.t1--1positive
g14669.t1COLLAGEN ALPHA1.00positive
g17124.t1EGF-LIKE DOMAIN-CONTAINING PROTEIN0.99positive
g520.t1VITELLOGENIN RECEPTOR-LIKE PROTEIN-RELATED-RELATED0.99positive
g6445.t1FIBRILLIN-RELATED0.99positive
g192.t1COLLAGEN ALPHA0.99positive
g7.t1NEUROTRANSMITTER GATED ION CHANNEL0.99positive
g28150.t1--0.99positive
g4327.t1TYROSINE-PROTEIN KINASE RECEPTOR0.99positive
g6446.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g13536.t1SODIUM/CALCIUM EXCHANGER0.99positive
g27051.t1--0.99positive
g15256.t1COLLAGEN ALPHA0.99positive
g11343.t1--0.99positive
g21670.t1MACROGLOBULIN / COMPLEMENT0.99positive
g4434.t1FIBRINOGEN/TENASCIN/ANGIOPOEITIN0.99positive
g35342.t1BRORIN FAMILY MEMBER0.99positive
g12437.t1SOLUTE CARRIER FAMILY 20.99positive
g19159.t1ZGC:1942420.99positive
g24840.t1--0.99positive
g27985.t1DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING0.99positive
g16086.t1PROPERDIN0.99positive
g113.t1DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING0.99positive
g2069.t1COLLAGEN ALPHA0.99positive
g7074.t1IDURONATE 2-SULFATASE0.99positive
g14393.t1COMPLEMENT COMPONENT-RELATED SUSHI DOMAIN-CONTAINING0.99positive
g16169.t1--0.99positive
g13535.t1SODIUM/CALCIUM EXCHANGER0.99positive
g33383.t1IP13529P0.99positive
g15978.t1SI:DKEY-256H2.10.99positive
g27623.t1SERINE PROTEASE0.99positive
g4326.t1FIBROBLAST GROWTH FACTOR RECEPTOR0.99positive
g30156.t1NEUROLIGIN0.99positive
g27124.t1TRANSIENT RECEPTOR POTENTIAL CATION CHANNEL, SUBFAMILY M, MEMBER 60.99positive
g16491.t1NADH-CYTOCHROME B5 REDUCTASE0.99positive
g31421.t1SI:CH211-266K2.10.99positive
g26445.t1--0.99positive
g23002.t1CYTOCHROME P450 FAMILY 30.99positive
g1642.t1KELCH PROTEIN0.99positive
g9429.t1RING FINGER AND CHY ZINC FINGER DOMAIN-CONTAINING PROTEIN 10.99positive
g15612.t1T-BOX PROTEIN-RELATED0.99positive
g19554.t1NG370.98positive
g17799.t1PIKACHURIN-LIKE PROTEIN0.98positive
g14432.t1SRCR DOMAIN-CONTAINING PROTEIN0.98positive
g6965.t1--0.98positive
g5961.t1CYCLIC NUCLEOTIDE PHOSPHODIESTERASE0.98positive
g15181.t1--0.98positive
g7173.t1MONOCARBOXYLATE TRANSPORTER0.98positive
g9705.t1ENOLASE (DUF1399)0.98positive
g114.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.98positive
g27335.t1--0.98positive
g25641.t1RAS, DI-RAS, AND RHEB FAMILY MEMBERS OF SMALL GTPASE SUPERFAMILY0.98positive
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 312 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.
TOP