Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues

Julia Fangfei Yan, Hoguen Kim, Seul Ki Jeong, Hyoung Joo Lee, Manveen K. Sethi, Ling Y. Lee, Ronald C. Beavis, Hogune Im, Michael P. Snyder, Matan Hofree, Trey Ideker, Shiaw Lin Wu, Young Ki Paik, Susan Fanayan, William S. Hancock

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3 Citations (Scopus)

Abstract

V-erb-b2 erythroblastic leukemia viral oncogene homologue 2, known as ERBB2, is an important oncogene in the development of certain cancers. It can form a heterodimer with other epidermal growth factor receptor family members and activate kinase-mediated downstream signaling pathways. ERBB2 gene is located on chromosome 17 and is amplified in a subset of cancers, such as breast, gastric, and colon cancer. Of particular interest to the Chromosome-Centric Human Proteome Project (C-HPP) initiative is the amplification mechanism that typically results in overexpression of a set of genes adjacent to ERBB2, which provides evidence of a linkage between gene location and expression. In this report we studied patient samples from ERBB2-positive together with adjacent control nontumor tissues. In addition, non-ERBB2-expressing patient samples were selected as comparison to study the effect of expression of this oncogene. We detected 196 proteins in ERBB2-positive patient tumor samples that had minimal overlap (29 proteins) with the non-ERBB2 tumor samples. Interaction and pathway analysis identified extracellular signal regulated kinase (ERK) cascade and actin polymerization and actinmyosin assembly contraction as pathways of importance in ERBB2+ and ERBB2- gastric cancer samples, respectively. The raw data files are deposited at ProteomeXchange (identifier: PXD002674) as well as GPMDB.

Original languageEnglish
Pages (from-to)4995-5006
Number of pages12
JournalJournal of Proteome Research
Volume14
Issue number12
DOIs
Publication statusPublished - 2015 Dec 4

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Chemistry(all)

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    Yan, J. F., Kim, H., Jeong, S. K., Lee, H. J., Sethi, M. K., Lee, L. Y., Beavis, R. C., Im, H., Snyder, M. P., Hofree, M., Ideker, T., Wu, S. L., Paik, Y. K., Fanayan, S., & Hancock, W. S. (2015). Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues. Journal of Proteome Research, 14(12), 4995-5006. https://doi.org/10.1021/acs.jproteome.5b00827