基于深度学习的个性化抗癌药物多药协同预测模型

数据集获取（Figshare）

• 源站标题：DataSheet1_Deep learning-based multi-drug synergy prediction model for individually tailored anti-cancer therapies.docx
• DOI：10.3389/fphar.2022.1032875.s001
• 发布日期：2022-12-15
• 文件数：1 个
• 文件总体积：713.23 KB
• 源站页面：https://frontiersin.figshare.com/articles/dataset/DataSheet1_Deep_learning-based_multi-drug_synergy_prediction_model_for_individually_tailored_anti-cancer_therapies_docx/21729626

命令行下载

curl -L -o "DataSheet1_Deep learning-based multi-drug synergy prediction model for individually tailored anti-cancer therapies.docx" "https://ndownloader.figshare.com/files/38555048"

文件清单

• DataSheet1_Deep learning-based multi-drug synergy prediction model for individually tailored anti-cancer therapies.docx（713.23 KB）

文件总体积 713.23 KB（源站 API 实测）。

数据加载示例（图像类）

from PIL import Image
import glob, os

files = (glob.glob(os.path.join(path, "**", "*.png"), recursive=True)
       + glob.glob(os.path.join(path, "**", "*.jpg"), recursive=True)
       + glob.glob(os.path.join(path, "**", "*.tif"), recursive=True))
print("图像文件数:", len(files))
img = Image.open(files[0]); print("尺寸/模式:", img.size, img.mode)

# torchvision Dataset 方式:
# from torchvision import datasets
# ds = datasets.ImageFolder(path)  # 要求 子目录=类别

目录组织与标注格式以源站说明和下载后实际文件为准。

数据说明

While synergistic drug combinations are more effective at fighting tumors with complex pathophysiology, preference compensating mechanisms, and drug resistance, the identification of novel synergistic drug combinations, especially complex higher-order combinations, remains challenging due to the size of combination space. Even though certain computational methods have been used to identify synergistic drug combinations in lieu of traditional in vitro and in vivo screening tests, the majority of previously published work has focused on predicting synergistic drug pairs for specific types of cancer and paid little attention to the sophisticated high-order combinations. The main objective of this study is to develop a deep learning-based approach that integrated multi-omics data to predict novel synergistic multi-drug combinations (DeepMDS) in a given cell line. To develop this approach, we firstly created a dataset comprising of gene expression profiles of cancer cell lines, target information of anti-cancer drugs, and drug response against a large variety of cancer cell lines. Based on the principle of a fully connected feed forward Deep Neural Network, the proposed model was constructed using this dataset, which achieved a high performance with a Mean Square Error (MSE) of 2.50 and a Root Mean Squared Error (RMSE) of 1.58 in the regression task, and gave the best classification accuracy of 0.94, an area under the Receiver Operating Characteristic curve (AUC) of 0.97, a sensitivity of 0.95, and a specificity of 0.93. Furthermore, we utilized three breast cancer cell subtypes (MCF-7, MDA-MD-468 and MDA-MB-231) and one lung cancer cell line A549 to validate the predicted results of our model, showing that the predicted top-ranked multi-drug combinations had superior anti-cancer effects to other combinations, particularly those that were widely used in clinical treatment. Our model has the potential to increase the practicality of expanding the drug combinational space and to leverage its capacity to prioritize the most effective multi-drug combinational therapy for precision oncology applications.

许可

CC BY 4.0

引用

学术使用请引用 DOI 10.3389/fphar.2022.1032875.s001（source: https://frontiersin.figshare.com/articles/dataset/DataSheet1_Deep_learning-based_multi-drug_synergy_prediction_model_for_individually_tailored_anti-cancer_therapies_docx/21729626）。