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| Item Type: | Article |
|---|---|
| Title: | Proteogenomic integration reveals therapeutic targets in breast cancer xenografts |
| Creators Name: | Huang, K.L., Li, S., Mertins, P., Cao, S., Gunawardena, H.P., Ruggles, K.V., Mani, D.R., Clauser, K.R., Tanioka, M., Usary, J., Kavuri, S.M., Xie, L., Yoon, C., Qiao, J.W., Wrobel, J., Wyczalkowski, M.A., Erdmann-Gilmore, P., Snider, J.E., Hoog, J., Singh, P., Niu, B., Guo, Z., Sun, S.Q., Sanati, S., Kawaler, E., Wang, X., Scott, A., Ye, K., McLellan, M.D., Wendl, M.C., Malovannaya, A., Held, J.M., Gillette, M.A., Fenyö, D., Kinsinger, C.R., Mesri, M., Rodriguez, H., Davies, S.R., Perou, C.M., Ma, C., Townsend, R.R., Chen, X., Carr, S.A., Ellis, M.J. and Ding, L. |
| Abstract: | Recent advances in mass spectrometry (MS) have enabled extensive analysis of cancer proteomes. Here, we employed quantitative proteomics to profile protein expression across 24 breast cancer patient-derived xenograft (PDX) models. Integrated proteogenomic analysis shows positive correlation between expression measurements from transcriptomic and proteomic analyses; further, gene expression-based intrinsic subtypes are largely re-capitulated using non-stromal protein markers. Proteogenomic analysis also validates a number of predicted genomic targets in multiple receptor tyrosine kinases. However, several protein/phosphoprotein events such as overexpression of AKT proteins and ARAF, BRAF, HSP90AB1 phosphosites are not readily explainable by genomic analysis, suggesting that druggable translational and/or post-translational regulatory events may be uniquely diagnosed by MS. Drug treatment experiments targeting HER2 and components of the PI3K pathway supported proteogenomic response predictions in seven xenograft models. Our study demonstrates that MS-based proteomics can identify therapeutic targets and highlights the potential of PDX drug response evaluation to annotate MS-based pathway activities. |
| Keywords: | Breast Neoplasms, Molecular Targeted Therapy, Phosphorylation, Proteogenomics, Signal Transduction, Transcriptome, Xenograft Model Antitumor Assays, Animals, Mice |
| Source: | Nature Communications |
| ISSN: | 2041-1723 |
| Publisher: | Nature Publishing Group |
| Volume: | 8 |
| Page Range: | 14864 |
| Date: | 28 March 2017 |
| Additional Information: | Corrigendum: The original version of this Article contained a typographical error in the spelling of the author Beifang Niu, which was incorrectly given as Beifung Niu. This has now been corrected in both the PDF and HTML versions of the Article. |
| Official Publication: | https://doi.org/10.1038/ncomms14864 |
| PubMed: | View item in PubMed |
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