Co-expression Network Analysis

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

📊 Global Network of g32425.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 g32425.t1
Gene ID Description PCC Relationship
g32425.t1--1positive
g19187.t1--0.99positive
g5602.t1LONG-CHAIN-FATTY-ACID--COA LIGASE0.99positive
g13139.t1MEMBRANE-SPANNING 4-DOMAINS SUBFAMILY A MS4A -RELATED0.99positive
g6902.t1HOMEOBOX PROTEIN MSX0.99positive
g8375.t1HOMEOBOX PROTEIN EMX-RELATED0.99positive
g1556.t1ENDOGLIN/TGF-BETA RECEPTOR TYPE III0.99positive
g8444.t1ADENOMATOSIS POLYPOSIS COLI DOWN-REGULATED 10.99positive
g4775.t1DYNEIN INTERMEDIATE CHAIN0.99positive
g27772.t1ARGININE OR CREATINE KINASE0.99positive
g6871.t1PROTEIN O-LINKED-MANNOSE BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE 10.98positive
g17725.t1UNCHARACTERIZED0.98positive
g8947.t1METALLOPROTEASE TIKI0.98positive
g28960.t1WNT RELATED0.98positive
g10620.t1SUCCINYL-COA SYNTHETASE BETA CHAIN0.98positive
g22952.t1ACETYL-COA C-ACYLTRANSFERASE0.98positive
g4595.t1TUBULIN POLYGLUTAMYLASE0.98positive
g1913.t1BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, HES-RELATED0.98positive
g35262.t1NADP-SPECIFIC ISOCITRATE DEHYDROGENASE0.98positive
g4241.t1--0.98positive
g14033.t1MITOGEN-ACTIVATED PROTEIN KINASE0.98positive
g16616.t1N-LINKED OLIGOSACCHARIDE PROCESSING0.98positive
g1912.t1BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, HES-RELATED0.98positive
g1879.t1CYTOCHROME C OXIDASE ASSEMBLY PROTEIN COX11-RELATED0.98positive
g27585.t1HOMEOBOX PROTEIN SIX0.98positive
g3871.t1MYOTROPHIN0.98positive
g4857.t1MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 10.98positive
g27682.t1UNCHARACTERIZED0.98positive
g27223.t1--0.98positive
g3193.t1FRIZZLED0.98positive
g14007.t1BTB/POZ DOMAIN-CONTAINING0.98positive
g30892.t1PHYTOENE DESATURASE0.98positive
g34140.t1BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, HES-RELATED0.98positive
g4823.t1-0.98positive
g17641.t1ALPHA-(1,3)-FUCOSYLTRANSFERASE C-RELATED0.98positive
g4030.t1AMINO ACID TRANSPORTER0.97positive
g10576.t1ADENINE PHOSPHORIBOSYLTRANSFERASE0.97positive
g23003.t1CYTOCHROME P450 FAMILY 30.97positive
g33665.t1PX DOMAIN-CONTAINING PROTEIN0.97positive
g20375.t1--0.97positive
g10502.t1POTASSIUM/PROTON ANTIPORTER-RELATED0.97positive
g6629.t1KINESIN-ASSOCIATED PROTEINS0.97positive
g6435.t1BASIC HELIX-LOOP-HELIX ZIP TRANSCRIPTION FACTOR0.97positive
g1468.t1TRANSCRIPTIONAL ADAPTOR 2 ADA2 -RELATED0.97positive
g15427.t1METHYLTRANSFERASE0.97positive
g13869.t1BETA-1,3-N-ACETYLGLUCOSAMINYLTRANSFERASE0.97positive
g20309.t1VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VTA1 HOMOLOG0.96positive
g31227.t1--0.96positive
g3248.t1LD11652P0.96positive
g16905.t1CYTOCHROME P450 FAMILY 30.95positive
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 401 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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