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FORESEE: a tool for the systematic comparison of translational drug response modeling pipelines

机译:FORESEE:用于系统比较转化药物反应建模流程的工具

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摘要

SummaryTranslational models that utilize omics data generated in in vitro studies to predict the drug efficacy of anti-cancer compounds in patients are highly distinct, which complicates the benchmarking process for new computational approaches. In reaction to this, we introduce the uniFied translatiOnal dRug rESponsE prEdiction platform FORESEE, an open-source R-package. FORESEE not only provides a uniform data format for public cell line and patient datasets, but also establishes a standardized environment for drug response prediction pipelines, incorporating various state-of-the-art pre-processing methods, model training algorithms and validation techniques. The modular implementation of individual elements of the pipeline facilitates a straightforward development of combinatorial models, which can be used to re-evaluate and improve already existing pipelines as well as to develop new ones.
机译:摘要利用在体外研究中生成的组学数据来预测患者抗癌化合物的药物疗效的转化模型非常不同,这使新计算方法的基准测试过程变得复杂。为此,我们引入了统一的翻译药品责任预测平台FORESEE,这是一个开源R-package。 FORESEE不仅为公共细胞系和患者数据集提供统一的数据格式,而且为药物反应预测管道建立了标准化的环境,并结合了各种最新的预处理方法,模型训练算法和验证技术。管道中各个元素的模块化实现有利于组合模型的直接开发,该模型可用于重新评估和改进现有管道以及开发新管道。

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