Co-expression Network Analysis

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

📊 Global Network of g12376.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 g12376.t1
Gene ID Description PCC Relationship
g12376.t1SENTRIN-SPECIFIC PROTEASE1positive
g6650.t1ADP-RIBOSYLATION FACTOR GTPASE-ACTIVATING PROTEIN 10.97positive
g10629.t1LIN-90.97positive
g870.t1UNCHARACTERIZED0.96positive
g11136.t1ZINC FINGER PROTEIN AEBP20.96positive
g6421.t139S RIBOSOMAL PROTEIN L40, MITOCHONDRIAL0.96positive
g35422.t1PROTEIN TAG-278-RELATED0.96positive
g9691.t1NUCLEASE-RELATED0.96positive
g14128.t1TARGET OF RAPAMYCIN COMPLEX 2 SUBUNIT BIT61-RELATED0.96positive
g34984.t1MYOTUBULARIN-RELATED0.96positive
g27612.t1LYSYL-TRNA SYNTHETASE0.96positive
g4776.t1WD REPEAT-CONTAINING PROTEIN 750.96positive
g28721.t1INTEGRATOR COMPLEX SUBUNIT 20.96positive
g5540.t1--0.95positive
g8344.t1SIN3B-RELATED0.95positive
g13995.t1U3 SMALL NUCLEOLAR RIBONUCLEOPROTEIN PROTEIN MPP100.95positive
g10632.t1XYLOSYLTRANSFERASE OXT0.95positive
g982.t1CARNITINE O-ACYLTRANSFERASE0.95positive
g8893.t1TRANSCRIPTIONAL REGULATOR0.95positive
g27777.t1DED DOMAIN-CONTAINING PROTEIN0.94positive
g14372.t1FIP1-LIKE 1 PROTEIN0.94positive
g4825.t1UPF0240 PROTEIN0.94positive
g16136.t1TAL1 SCL INTERRUPTING LOCUS0.94positive
g11483.t1RIBOSOME BIOGENESIS PROTEIN0.94positive
g16309.t1GLUTAMATE-RICH WD REPEAT-CONTAINING PROTEIN 10.94positive
g11417.t1DNA REPAIR PROTEIN COMPLEMENTING XP-A CELLS0.94positive
g7610.t1RNA EXONUCLEASE REXO1 / RECO3 FAMILY MEMBER-RELATED0.94positive
g112.t1GLIOMA TUMOR SUPPRESSOR CANDIDATE REGION GENE 10.94positive
g10631.t1XYLOSYLTRANSFERASE OXT0.94positive
g27873.t1--0.94positive
g9617.t1CENTROSOME-ASSOCIATED PROTEIN 3500.93positive
g10789.t1FRUCTOSE-2,6-BISPHOSPHATASE TIGAR0.92positive
g124.t1MICROFIBRIL-ASSOCIATED PROTEIN0.92positive
g29644.t1DNA-DIRECTED RNA POLYMERASE0.92positive
g16647.t1N-ACETYLTRANSFERASE 100.91positive
g52.t1APICAL PROTEIN/SHROOM-RELATED0.91positive
g13732.t1--0.89positive
g3089.t1DNA-DIRECTED RNA POLYMERASES III 80 KDA POLYPEPTIDE RNA POLYMERASE III SUBUNIT 50.88positive
g28773.t1MUTATED IN BLADDER CANCER 10.87positive
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 205 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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