Genomic analyses in cancer have been enormously impactful, leading to the identification of
driver mutations and development of targeted therapies. But the functions of the vast majority …

We report a comprehensive proteogenomics analysis, including whole-genome sequencing,
RNA sequencing, and proteomics and phosphoproteomics profiling, of 218 tumors across 7 …

DNA methylation plays a critical role in establishing and maintaining cellular identity.
However, it is frequently dysregulated during tumor development and is closely intertwined …

Despite producing a panoply of potential cancer-specific targets, the proteogenomic
characterization of human tumors has yet to demonstrate value for precision cancer …

To improve the understanding of chemo-refractory high-grade serous ovarian cancers
(HGSOCs), we characterized the proteogenomic landscape of 242 (refractory and sensitive) …

Microphthalmia transcription factor (MiT) family translocation renal cell carcinoma (tRCC) is
a rare type of kidney cancer, which is not well characterized. Here we show the …

The tyrosine kinase inhibitor (TKI) Sunitinib is one the therapies approved for advanced
renal cell carcinoma. Here, we undertake proteogenomic profiling of 115 tumors from …

We present a framework for the analysis of multiplexed mass spectrometry proteomics data
that reduces estimation error when combining multiple isobaric batches. Variations in the …

Protein phosphorylation plays an essential role in modulating cell signalling and its
downstream transcriptional and translational regulations. Until recently, protein …

Although the incidence of cervical cancer (CC) has been reduced in high-income countries
due to human papillomavirus (HPV) vaccination and screening strategies, it remains a …