About this Class

The Cancer Proteome Atlas (TCPA): a major bioinformatics resource for cancer proteomics data using reverse-phase protein arrays (RPPAs)

In contrast to the recent exploration of next-generation sequencing at both DNA and RNA levels, access to high-quality, large-scale proteomic data has been relatively limited in cancer research. This is despite proteins comprising the basic functional units in various biological processes and being major targets for many current cancer drugs.

We developed TCPA, a user-friendly web platform to analyze and visualize RPPA-based cancer functional proteomics data. Currently, TCPA contains three independent analytic web platforms:

• TCPA-patient focuses on the analysis and visualization of patient samples (Li et al., Nature Methods 2013) and includes ~8,000 TCGA samples and independent patient cohorts. 
• TCPA-cell line focuses on the analysis of cell line samples and includes >1,000 CCLE samples and ~700 cell lines from the MD Anderson Cell Line project (MCLP, Li et al., Cancer Cell 2017; Ng et al., Cancer Cell 2018). 
• TCPA-perturbation allows the analysis of perturbed protein expression profiles in >12,000 cell line samples in response to ~170 drug compounds (Zhao et al., Cancer Cell 2020).