Zhang Yintao, Lian Xichen, Xu Hangwei, Zhu Sisi, Zhang Hao, Ni Ziheng, Fu Tingting, Liu Shuiping, Tao Lin, Zhou Ying, Zhu Feng
College of Pharmaceutical Sciences, Department of Pharmacy, Second Affiliated Hospital, Zhejiang University School of Medicine, State Key Laboratory of Advanced Drug Delivery and Release Systems, Zhejiang University, Hangzhou 310058, China.
Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, Alibaba-Zhejiang University Joint Research Center of Future Digital Healthcare, Hangzhou 330110, China.
Nucleic Acids Res. 2025 Jan 6;53(D1):D504-D515. doi: 10.1093/nar/gkae861.
Patient-derived models (PDMs, particularly organoids and xenografts) are irreplaceable tools for precision medicine, from target development to lead identification, then to preclinical evaluation, and finally to clinical decision-making. So far, PDM-based proteomics has emerged to be one of the cutting-edge directions and massive data have been accumulated. However, such PDM-based proteomic data have not been provided by any of the available databases, and proteomics profiles of all proteins in proteomic study are also completely absent from existing databases. Herein, an integrated database named 'OrgXenomics' was thus developed to provide the proteomic data for PDMs, which was unique in (a) explicitly describing the establishment detail for a wide array of models, (b) systematically providing the proteomic profiles (expression/function/interaction) for all proteins in studied proteomic analysis and (c) comprehensively giving the raw data for diverse organoid/xenograft-based proteomic studies of various diseases. Our OrgXenomics was expected to server as one good complement to existing proteomic databases, and had great implication for the practice of precision medicine, which could be accessed at: https://idrblab.org/orgxenomics/.
患者来源模型（PDM，特别是类器官和异种移植物）是精准医学中不可或缺的工具，从靶点开发到先导化合物识别，再到临床前评估，最终到临床决策。到目前为止，基于PDM的蛋白质组学已成为前沿方向之一，并积累了大量数据。然而，现有的任何数据库都未提供此类基于PDM的蛋白质组学数据，现有数据库中也完全没有蛋白质组学研究中所有蛋白质的蛋白质组学图谱。在此，开发了一个名为“OrgXenomics”的综合数据库，以提供PDM的蛋白质组学数据，该数据库的独特之处在于：（a）明确描述了大量模型的建立细节；（b）系统地提供了所研究蛋白质组分析中所有蛋白质的蛋白质组学图谱（表达/功能/相互作用）；（c）全面给出了各种疾病基于类器官/异种移植物的蛋白质组学研究的原始数据。我们的OrgXenomics有望成为现有蛋白质组学数据库的良好补充，对精准医学实践具有重要意义，可通过以下网址访问：https://idrblab.org/orgxenomics/ 。
