title: Network Analyses of Gene Expression following Fascin Knockdown in Esophageal Squamous Cell Carcinoma Cells.
abstract: Fascin-1 (FSCN1) is an actin-bundling protein that induces cell membrane protrusions, increases cell motility, and is overexpressed in various human epithelial cancers, including esophageal squamous cell carcinoma (ESCC). We analyzed various protein-protein interactions (PPI) of differentially-expressed genes (DEGs), in fascin knockdown ESCC cells, to explore the role of fascin overexpression. The node-degree distributions indicated these PPI sub-networks to be characterized as scale-free. Subcellular localization analysis revealed DEGs to interact with other proteins directly or indirectly, distributed in multiple layers of extracellular membrane-cytoskeleton/ cytoplasm-nucleus. The functional annotation map revealed hundreds of significant gene ontology (GO) terms, especially those associated with cytoskeleton organization of FSCN1. The Random Walk with Restart algorithm was applied to identify the prioritizations of these DEGs when considering their relationship with FSCN1. These analyses based on PPI network have greatly expanded our comprehension of the mRNA expression profile following fascin knockdown to future examine the roles and mechanisms of fascin action.
authors.affiliation: Department of Pathology, Shantou Central Hospital, Shantou, Guangdong Province, China E-mail : blwu@stu.edu.cn; lyxu@stu.edu.cn.
authors.forename: Ze-Peng
authors.initials: ZP
authors.lastname: Du
authors.forename: Bing-Li
authors.initials: BL
authors.lastname: Wu
authors.forename: Jian-Jun
authors.initials: JJ
authors.lastname: Xie
authors.forename: Xuan-Hao
authors.initials: XH
authors.lastname: Lin
authors.forename: Xiao-Yang
authors.initials: XY
authors.lastname: Qiu
authors.forename: Xiao-Fen
authors.initials: XF
authors.lastname: Zhan
authors.forename: Shao-Hong
authors.initials: SH
authors.lastname: Wang
authors.forename: Jin-Hui
authors.initials: JH
authors.lastname: Shen
authors.forename: En-Min
authors.initials: EM
authors.lastname: Li
authors.forename: Li-Yan
authors.initials: LY
authors.lastname: Xu
mesh_terms: D014408:Biomarkers, Tumor / Q000235:genetics* / Q000378:metabolism; D002294:Carcinoma, Squamous Cell / Q000235:genetics* / Q000378:metabolism; D002352:Carrier Proteins / Q000037:antagonists & inhibitors* / Q000235:genetics; D004938:Esophageal Neoplasms / Q000235:genetics* / Q000378:metabolism; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D053263:Gene Regulatory Networks; D006801:Humans; D008840:Microfilament Proteins / Q000037:antagonists & inhibitors* / Q000235:genetics; D060066:Protein Interaction Maps; D034741:RNA, Small Interfering / Q000235:genetics*; D014407:Tumor Cells, Cultured
chemical_list: D014408:Biomarkers, Tumor; D002352:Carrier Proteins; C502658:FSCN1 protein, human; D008840:Microfilament Proteins; D034741:RNA, Small Interfering