Co-expression Network Analysis

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

📊 Global Network of g14311.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 g14311.t1
Gene ID Description PCC Relationship
g14311.t1TGF-BETA INDUCED APOPTOSIS PROTEIN1positive
g30172.t1UNCHARACTERIZED0.92positive
g27168.t1MRNA TURNOVER PROTEIN 4 MRTO40.91positive
g29717.t1ATP SYNTHASE GAMMA CHAIN0.91positive
g3857.t1ADENINE NUCLEOTIDE ALPHA HYDROLASES-LIKE SUPERFAMILY PROTEIN0.91positive
g28095.t1ZINC FINGER HIT DOMAIN CONTAINING PROTEIN 2 PROTEIN FON -RELATED0.91positive
g19249.t1CXXC-TYPE ZINC FINGER PROTEIN 10.91positive
g8169.t1TROPONIN0.91positive
g704.t1METHYL-CPG BINDING PROTEIN, MBD0.91positive
g34796.t1CHAPERONIN0.90positive
g664.t1OXIDOREDUCTASES0.89positive
g17218.t1BASIC LEUCINE ZIPPER AND W2 DOMAIN-CONTAINING PROTEIN0.89positive
g27100.t1KRUEPPEL-LIKE TRANSCRIPTION FACTOR0.88positive
g19813.t1--0.88positive
g22316.t1TGF-BETA INDUCED APOPTOSIS PROTEIN0.87positive
g10838.t1DNA EXCISION REPAIR PROTEIN ERCC-80.85positive
g3581.t1PHOSPHATIDYLINOSITOL N-ACETYLGLUCOSAMINYLTRANSFERASE SUBUNIT P0.84positive
g14040.t1DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER0.81positive
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 52 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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