title: In silico analysis of stomach lineage specific gene set expression pattern in gastric cancer.
abstract: Stomach lineage specific gene products act as a protective barrier in the normal stomach and their expression maintains the normal physiological processes, cellular integrity and morphology of the gastric wall. However, the regulation of stomach lineage specific genes in gastric cancer (GC) is far less clear. In the present study, we sought to investigate the role and regulation of stomach lineage specific gene set (SLSGS) in GC. SLSGS was identified by comparing the mRNA expression profiles of normal stomach tissue with other organ tissue. The obtained SLSGS was found to be under expressed in gastric tumors. Functional annotation analysis revealed that the SLSGS was enriched for digestive function and gastric epithelial maintenance. Employing a single sample prediction method across GC mRNA expression profiles identified the under expression of SLSGS in proliferative type and invasive type gastric tumors compared to the metabolic type gastric tumors. Integrative pathway activation prediction analysis revealed a close association between estrogen-α signaling and SLSGS expression pattern in GC. Elevated expression of SLSGS in GC is associated with an overall increase in the survival of GC patients. In conclusion, our results highlight that estrogen mediated regulation of SLSGS in gastric tumor is a molecular predictor of metabolic type GC and prognostic factor in GC.
authors.affiliation: Unit of Rural Biotechnology, Saraswathi Narayanan College, Madurai 625022, India. Electronic address: sathiyapandi@gmail.com.
authors.forename: Narayanan Sathiya
authors.initials: NS
authors.lastname: Pandi
authors.forename: Sivagurunathan
authors.initials: S
authors.lastname: Suganya
authors.forename: Suriliyandi
authors.initials: S
authors.lastname: Rajendran
mesh_terms: D014408:Biomarkers, Tumor / Q000378:metabolism; D019070:Cell Lineage / Q000235:genetics*; D005753:Gastric Mucosa / Q000378:metabolism; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D012333:RNA, Messenger / Q000378:metabolism; D020133:Reverse Transcriptase Polymerase Chain Reaction; D013270:Stomach / Q000473:pathology*; D013274:Stomach Neoplasms / Q000235:genetics* / Q000378:metabolism / Q000473:pathology*
chemical_list: D014408:Biomarkers, Tumor; D012333:RNA, Messenger
keywords: DAVID; DWD; ER-α; Estrogen-α; GC; GCs; GLSGS; GO; GSEA; Gastric cancer; Gastric cancers; IGC; IPAP; MGC; Metabolic cancer; PGC; Pathway prediction; ROC; SLSGS; SSP; Stomach lineage; Survival; database for annotation, visualization, and integrated discovery; distance weighted discrimination; gastric cancer; gene ontology; gene set enrichment analysis; in silico pathway activation prediction; invasive gastric cancer; mSigDB; metabolic gastric cancer; molecular signature database; proliferative gastric cancer; receiver operating characteristic; single sample prediction; stomach lineage specific gene set