Deep learning methods for drug response prediction in cancer: predominant and emerging trends

A Partin, TS Brettin, Y Zhu, O Narykov, A Clyde… - Frontiers in …, 2023 - frontiersin.org
Cancer claims millions of lives yearly worldwide. While many therapies have been made
available in recent years, by in large cancer remains unsolved. Exploiting computational …

A cross-study analysis of drug response prediction in cancer cell lines

F **a, J Allen, P Balaprakash, T Brettin… - Briefings in …, 2022 - academic.oup.com
To enable personalized cancer treatment, machine learning models have been developed
to predict drug response as a function of tumor and drug features. However, most algorithm …

Converting tabular data into images for deep learning with convolutional neural networks

Y Zhu, T Brettin, F **a, A Partin, M Shukla, H Yoo… - Scientific reports, 2021 - nature.com
Convolutional neural networks (CNNs) have been successfully used in many applications
where important information about data is embedded in the order of features, such as …

Anatomic radical prostatectomy: evolution of the surgical technique

PC Walsh - The Journal of urology, 1998 - auajournals.org
Purpose: Although radical prostatectomy provided excellent cancer control, it never gained
widespread popularity because of the major side effects of incontinence, impotence and …

AI-accelerated protein-ligand docking for SARS-CoV-2 is 100-fold faster with no significant change in detection

A Clyde, X Liu, T Brettin, H Yoo, A Partin, Y Babuji… - Scientific reports, 2023 - nature.com
Protein-ligand docking is a computational method for identifying drug leads. The method is
capable of narrowing a vast library of compounds down to a tractable size for downstream …

A systematic literature review for the prediction of anticancer drug response using various machine‐learning and deep‐learning techniques

DP Singh, B Kaushik - Chemical Biology & Drug Design, 2023 - Wiley Online Library
Computational methods have gained prominence in healthcare research. The accessibility
of healthcare data has greatly incited academicians and researchers to develop executions …

Integrating multi-omics using bayesian ridge regression with iterative similarity bagging

TM Almutiri, KH Alomar, NA Alganmi - Applied Sciences, 2024 - mdpi.com
Cancer research has increasingly utilized multi-omics analysis in recent decades to obtain
biomolecular information from multiple layers, thereby gaining a better understanding of …

Improving model transferability for clinical note section classification models using continued pretraining

W Zhou, M Yetisgen, M Afshar, Y Gao… - Journal of the …, 2024 - academic.oup.com
Objective The classification of clinical note sections is a critical step before doing more fine-
grained natural language processing tasks such as social determinants of health extraction …

DWUT-MLP: Classification of anticancer drug response using various feature selection and classification techniques

DP Singh, A Gupta, B Kaushik - Chemometrics and Intelligent Laboratory …, 2022 - Elsevier
Drug response classification constitutes a major challenge in personalized medicine. The
suitable drug selection for cancer patients is substantial and the drug response prediction is …

Data augmentation and multimodal learning for predicting drug response in patient-derived xenografts from gene expressions and histology images

A Partin, T Brettin, Y Zhu, JM Dolezal… - Frontiers in …, 2023 - frontiersin.org
Patient-derived xenografts (PDXs) are an appealing platform for preclinical drug studies. A
primary challenge in modeling drug response prediction (DRP) with PDXs and neural …