Molecular Portrait of Breast-Cancer-Derived Cell Lines Reveals Poor Similarity with Tumors

Research output: Contribution to journalJournal articleResearchpeer-review

  • Paolo Cifani
  • Ufuk Kirik
  • Sofia Waldemarson
  • Peter James

Breast-cancer-derived cell lines are an important sample source for cancer proteomics and can be classified on the basis of transcriptomic analysis into subgroups corresponding to the molecular subtypes observed in mammary tumors. This study describes a tridimensional fractionation method that allows high sequence coverage and proteome-wide estimation of protein expression levels. This workflow has been used to conduct an in-depth quantitative proteomic survey of five breast cancer cell lines matching all major cancer subgroups and shows that despite their different classification, these cell lines display a very high level of similarity. A proteome-wide comparison with the RNA levels observed in the same samples showed very little to no correlation. Finally, we demonstrate that the proteomes of in vitro models of breast cancer display surprisingly little overlap with those of clinical samples.

Original languageEnglish
JournalJournal of Proteome Research
Issue number7
Pages (from-to)2819-27
Number of pages9
Publication statusPublished - 2 Jul 2015

    Research areas

  • Breast Neoplasms/genetics, Cell Line, Tumor, Female, Humans

ID: 203888877