Co-expression Network Analysis

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

📊 Global Network of g16763.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 g16763.t1
Gene ID Description PCC Relationship
g16763.t1--1positive
g16764.t1YY1 ASSOCIATED PROTEIN-RELATED0.98positive
g35990.t1ZINC FINGER CCCH DOMAIN-CONTAINING PROTEIN 140.97positive
g3319.t1RETINOIC ACID INDUCED 1/TRANSCRIPTION FACTOR 200.97positive
g12187.t1--0.97positive
g10331.t1DEUBIQUITINATING PROTEIN VCIP1350.97positive
g6430.t1SWAP-70 RECOMBINASE0.97positive
g5631.t1GUANYLATE CYCLASE SOLUBLE SUBUNIT BETA-20.97positive
g7920.t1ANDROGEN INDUCED INHIBITOR OF PROLIFERATION AS3 / PDS5-RELATED0.97positive
g18793.t1MULTIVESICULAR BODY SUBUNIT 12A0.97positive
g13386.t1GUANINE NUCLEOTIDE EXCHANGE FACTOR0.97positive
g3851.t1SI:DKEY-256H2.10.96positive
g33312.t1KELCH PROTEIN0.96positive
g3404.t1CEREBRAL PROTEIN-11-RELATED0.96positive
g5569.t1PROTEIN KINASE C, MU0.96positive
g21307.t1PARP/ZINC FINGER CCCH TYPE DOMAIN CONTAINING PROTEIN0.96positive
g5669.t1ATP-DEPENDENT PERMEASE MDL1, MITOCHONDRIAL0.96positive
g19648.t1CENTROMERE PROTEIN E0.96positive
g16781.t1TRANSIENT RECEPTOR POTENTIAL ION CHANNEL PROTEIN0.96positive
g27562.t1E3 UBIQUITIN-PROTEIN LIGASE TRIP120.96positive
g10641.t1DYNEIN LIGHT INTERMEDIATE CHAIN0.96positive
g3318.t1--0.95positive
g7802.t1ATP-DEPENDENT DNA HELICASE0.95positive
g943.t1HAT FAMILY DIMERISATION DOMAINCONTAINING PROTEIN-RELATED0.95positive
g2072.t1OXIDOREDUCTASE, 2OG-FE II OXYGENASE FAMILY PROTEIN0.95positive
g986.t1UNCHARACTERIZED0.95positive
g11802.t1--0.95positive
g11025.t1ACID PHOSPHATASE-RELATED0.95positive
g3220.t1CEREBLON0.94positive
g8672.t1CALCIUM UNIPORTER PROTEIN, MITOCHONDRIAL0.94positive
g6427.t1UNCHARACTERIZED0.94positive
g8661.t1TRANSFORMING GROWTH FACTOR-BETA RECEPTOR TYPE I AND II0.94positive
g15206.t1--0.94positive
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 152 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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