title: Phosphoproteomics-based modeling defines the regulatory mechanism underlying aberrant EGFR signaling.
abstract: BACKGROUND
  Mutation of the epidermal growth factor receptor (EGFR) results in a discordant cell signaling, leading to the development of various diseases. However, the mechanism underlying the alteration of downstream signaling due to such mutation has not yet been completely understood at the system level. Here, we report a phosphoproteomics-based methodology for characterizing the regulatory mechanism underlying aberrant EGFR signaling using computational network modeling.
  
  
  RESULTS
  Our phosphoproteomic analysis of the mutation at tyrosine 992 (Y992), one of the multifunctional docking sites of EGFR, revealed network-wide effects of the mutation on EGF signaling in a time-resolved manner. Computational modeling based on the temporal activation profiles enabled us to not only rediscover already-known protein interactions with Y992 and internalization property of mutated EGFR but also further gain model-driven insights into the effect of cellular content and the regulation of EGFR degradation. Our kinetic model also suggested critical reactions facilitating the reconstruction of the diverse effects of the mutation on phosphoproteome dynamics.
  
  
  CONCLUSIONS
  Our integrative approach provided a mechanistic description of the disorders of mutated EGFR signaling networks, which could facilitate the development of a systematic strategy toward controlling disease-related cell signaling.
authors.affiliation: Medical Proteomics Laboratory, Institute of Medical Science, University of Tokyo, Tokyo, Japan.
authors.forename: Shinya
authors.initials: S
authors.lastname: Tasaki
authors.forename: Masao
authors.initials: M
authors.lastname: Nagasaki
authors.forename: Hiroko
authors.initials: H
authors.lastname: Kozuka-Hata
authors.forename: Kentaro
authors.initials: K
authors.lastname: Semba
authors.forename: Noriko
authors.initials: N
authors.lastname: Gotoh
authors.forename: Seisuke
authors.initials: S
authors.lastname: Hattori
authors.forename: Jun-ichiro
authors.initials: J
authors.lastname: Inoue
authors.forename: Tadashi
authors.initials: T
authors.lastname: Yamamoto
authors.forename: Satoru
authors.initials: S
authors.lastname: Miyano
authors.forename: Sumio
authors.initials: S
authors.lastname: Sugano
authors.forename: Masaaki
authors.initials: M
authors.lastname: Oyama
mesh_terms: D000465:Algorithms; D019943:Amino Acid Substitution; D000818:Animals; D015153:Blotting, Western; D002460:Cell Line; D002853:Chromatography, Liquid; D003198:Computer Simulation; D004815:Epidermal Growth Factor / Q000494:pharmacology; D066246:ErbB Receptors / Q000032:analysis* / Q000235:genetics / Q000378:metabolism; D006801:Humans; D013058:Mass Spectrometry / Q000379:methods; D008954:Models, Biological; D009154:Mutation; D010750:Phosphoproteins / Q000032:analysis* / Q000378:metabolism; D010766:Phosphorylation / Q000187:drug effects; D020543:Proteome / Q000032:analysis* / Q000378:metabolism; D040901:Proteomics / Q000379:methods*; D015398:Signal Transduction; D014443:Tyrosine / Q000378:metabolism
chemical_list: D010750:Phosphoproteins; D020543:Proteome; D014443:Tyrosine; D004815:Epidermal Growth Factor; D066246:ErbB Receptors