Drug repurposing for viral cancers: A paradigm of machine learning, deep learning, and virtual screening‐based approaches

F Ahmed, IS Kang, KH Kim, A Asif… - Journal of Medical …, 2023 - Wiley Online Library
… been successfully repurposed various viral cancers. Here in this study, a critical review of
viral cancer related databases, tools, and different machine learning, deep learning and virtual …

A deep learning approach reveals unexplored landscape of viral expression in cancer

A Elbasir, Y Ye, DE Schäffer, X Hao… - Nature …, 2023 - nature.com
deep learning-based method to identify viruses from human RNA sequencing and demonstrate
its ability to rapidly characterize viruses that are expressed in tumors and uncover viral

Deep learning detects virus presence in cancer histology

JN Kather, J Schulte, HI Grabsch, C Loeffler, H Muti… - BioRxiv, 2019 - biorxiv.org
… of virus-driven and non-virus driven cancers are sufficiently different to be detectable by artificial
intelligence (AI) through deep learning-… We show that deep transfer learning can predict …

Liver cancer prediction in a viral hepatitis cohort: A deep learning approach

DV Phan, CL Chan, AHA Li, TY Chien… - … Journal of Cancer, 2020 - Wiley Online Library
… However, this cancer is often diagnosed in the later stages, which makes treatment difficult
… This study applied deep learning (DL) models for the early prediction of liver cancer in a …

Development and validation of deep learning classifiers to detect Epstein-Barr virus and microsatellite instability status in gastric cancer: a retrospective multicentre …

HS Muti, LR Heij, G Keller, M Kohlruss… - The Lancet Digital …, 2021 - thelancet.com
… , deep learning-based detection of EBV in gastric cancer has not been investigated to date.
Clinical adoption of deep learning… any molecular biomarker in gastric cancer. To address this …

Identifying viruses from metagenomic data using deep learning

J Ren, K Song, C Deng, NA Ahlgren… - Quantitative …, 2020 - Wiley Online Library
… To study the association between the viruses and the cancer status, we built a logistic
regression classifier with Lasso penalty to predict the CRC status based on the bin abundance on …

DeepVISP: deep learning for virus site integration prediction and motif discovery

H Xu, P Jia, Z Zhao - Advanced Science, 2021 - Wiley Online Library
… leading to cancer. [ 9 ] In summary, ≈15% of human cancer cases are attributed to oncogenic
viruses. [ 10 ] This calls for novel methods and computational tools for better detecting …

DeepHPV: a deep learning model to predict human papillomavirus integration sites

R Tian, P Zhou, M Li, J Tan, Z Cui, W Xu… - Briefings in …, 2021 - academic.oup.com
… the performance of a deep learning model on independent datasets [33]. Therefore, we used
another viral integration site … She is interested in cancer bioinformatics and deep learning. …

DeepEBV: a deep learning model to predict Epstein–Barr virus (EBV) integration sites

J Liang, Z Cui, C Wu, Y Yu, R Tian, H Xie, Z Jin… - …, 2021 - academic.oup.com
… a robust, accurate and explainable deep learning model, providing novel … virus (EBV) is
one of the first described human cancer viruses and is associated with up to 10 types of cancers, …

Characterizing the landscape of viral expression in cancer by deep learning

A Elbasir, Y Ye, DE Schäffer… - 2022 IEEE …, 2022 - ieeexplore.ieee.org
viral reads and assemble viral contigs. We apply viRNAtrap, which is based on a deep
learning model trained to discriminate viral RNAseq reads, to 14 cancer types from The Cancer