Co-expression Network Analysis

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

📊 Global Network of g6808.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 g6808.t1
Gene ID Description PCC Relationship
g6808.t1METALLOPHOSPHOESTERASE1positive
g17816.t1ATP-DEPENDENT RNA AND DNA HELICASE0.98positive
g15938.t1SEROLOGICALLY DEFINED COLON CANCER ANTIGEN 80.97positive
g12333.t1SI:DKEY-16J16.40.97positive
g29810.t1--0.97positive
g16754.t1HEME OXYGENASE0.97positive
g2562.t1-0.97positive
g9841.t1TRANSMEMBRANE PROTEIN 198 FAMILY MEMBER0.97positive
g8898.t1RASSF0.97positive
g5350.t1RNA-BINDING (RRM/RBD/RNP MOTIFS) FAMILY PROTEIN0.97positive
g10654.t126S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 5-RELATED0.97positive
g34826.t1GTP-BINDING PROTEIN HFLX0.97positive
g8719.t1QUIESCIN Q6-RELATED SULFHYDRYL OXIDASE0.97positive
g20221.t1CHROMOSOME-ASSOCIATED KINESIN KIF4A-RELATED0.97positive
g5669.t1ATP-DEPENDENT PERMEASE MDL1, MITOCHONDRIAL0.97positive
g32586.t1--0.97positive
g336.t1MIS18-BINDING PROTEIN 10.97positive
g18934.t1DULLARD PROTEIN PHOSPHATASE0.97positive
g4813.t1HEADCASE PROTEIN0.97positive
g6467.t1GUANYL-NUCLEOTIDE EXCHANGE FACTOR0.97positive
g34190.t1--0.96positive
g28657.t1POLYCOMB GROUP PROTEIN0.96positive
g17943.t1SWI/SNF-RELATED0.96positive
g3201.t1RAS GTPASE-ACTIVATING PROTEINS0.96positive
g30192.t1SD08549P0.96positive
g11715.t1SIMILAR TO DNA SEGMENT, CHR 10, WAYNE STATE UNIVERSITY 102,-EXPRESSED0.96positive
g2476.t1DRAB5-RELATED0.96positive
g20509.t1RING FINGER AND SRY DOMAIN-CONTAINING0.96positive
g32169.t1BETA-1,3-N-ACETYLGLUCOSAMINYLTRANSFERASE0.96positive
g14154.t1ATP-DEPENDENT RNA HELICASE RHLE-RELATED0.96positive
g12612.t1SERINE HYDROXYMETHYLTRANSFERASE0.96positive
g13421.t1TUBULIN POLYGLUTAMYLASE COMPLEX SUBUNIT 10.96positive
g368.t1--0.96positive
g27356.t1--0.96positive
g28159.t1OS05G0565100 PROTEIN0.96positive
g7517.t1SHORT-CHAIN DEHYDROGENASE/REDUCTASE0.96positive
g8962.t1ANKYRIN REPEAT AND PROTEIN KINASE DOMAIN-CONTAINING PROTEIN0.95positive
g12996.t1--0.91positive
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 226 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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