Figure 2.

WormCat verifies known category enrichments sams-1(RNAi) upregulated genes. (A) Schematic showing metabolic pathways linking methionine, SAM, choline, and phosphatidylcholine production. Gene expression microarray data for (B–D) were obtained from Ding et al. (2015). (B) Semantic plot of GO enriched classifications generated by REVIGO (Supek et al. 2011) from sams-1(RNAi) Up genes. (C) WormCat visualization of categories enriched in genes upregulated in sams-1(RNAi) animals with and without choline supplementation in order of Cat1 strongest enrichment. Categories 2 and 3 are listed under each Category 1, with Category 2 or 3 sets that appeared independently of a Category 1 listed last. Bubble heat plot key is the same as Figure 1D. (D) sams-1(RNAi) Up plus choline (Ch) genes visualized by REVIGO. (E) Venn diagram showing overlap between WormCat Metabolism: lipid and GO Lipid process gene annotations. ABC, ATP-Binding Cassette; Ch, Choline; CUB, Complement C1r/C1s, Uegf, Bmp1 domain; EC Material, Extracellular Material; NHR, Nuclear Hormone Receptor; Prot General, Proteolysis General; Prot Proteasome, Proteolysis Proteasome; SAM, S-adenosylmethionine; TM Transport, Transmembrane Transport; ugt, UDP-glycosyltransferase