Abstract 4931: The Cancer Proteome Atlas: Expanded datasets and empowered with an AI-driven chatbot

Abstract Reverse-phase protein arrays (RPPAs) represent a powerful functional proteomic approach to elucidate cancer-related molecular mechanisms and develop novel cancer therapies. To facilitate community-based investigation of the large-scale protein expression data generated by this platform, we have developed a user-friendly, open-access bioinformatic resource, The Cancer Proteome Atlas (TCPA, http://tcpaportal.org), which contains several applications. The first one focuses on RPPA data of patient tumors, which contains >8,000 samples of 32 cancer types from The Cancer Genome Atlas (TCGA) and other independent patient cohorts. The second application focuses on the RPPA data of >1,500 cancer cell lines with publicly available, high-quality DNA, RNA and drug screening data. The third one focuses on perturbed RPPA profiles of >14,000 samples given drug treatments. We recently expanded our RPPA protein set from 200 to 500 proteins Importantly, this highly selected set is enriched in therapeutic targets and biomarkers and covers key oncogenic pathways such as PI3K/AKT, RAS/MAPK, Src/FAK, TGFβ/SMAD, JAK/STAT, epithelial-mesenchymal transition, DNA damage repair, Hippo, Notch, cell cycle, apoptosis, and immune-oncology. Using this upgraded RPPA platform, we generated an harmonized, expanded RPPA dataset of 8000 TCGA patient samples and 1000 CCLE cell line samples. To further address the informatic challenges of analyzing such large, diverse datasets, in addition to the GUI interfaces, we recently developed a chatbot through which users can analyze the RPPA data through human nature languages and obtain the results and related analytic reports without a learning curve. Such a chatbot empowers a broad research community to explore high-quality RPPA datasets and generate testable hypotheses in an effective and intuitive manner, representing the direction of next-generation data analytics. Citation Format: Han Liang, Wei Liu, Jun Li, Yitao Tang. The Cancer Proteome Atlas: Expanded datasets and empowered with an AI-driven chatbot [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 4931.