Generative artificial intelligence in drug discovery: basic framework, recent advances, challenges, and opportunities

A Gangwal, A Ansari, I Ahmad, AK Azad… - Frontiers in …, 2024 - frontiersin.org
There are two main ways to discover or design small drug molecules. The first involves fine-
tuning existing molecules or commercially successful drugs through quantitative structure …

A comprehensive review of the recent advances on predicting drug-target affinity based on deep learning

X Zeng, SJ Li, SQ Lv, ML Wen, Y Li - Frontiers in Pharmacology, 2024 - frontiersin.org
Accurate calculation of drug-target affinity (DTA) is crucial for various applications in the
pharmaceutical industry, including drug screening, design, and repurposing. However …

CFSSynergy: combining feature-based and similarity-based methods for drug synergy prediction

F Rafiei, H Zeraati, K Abbasi, P Razzaghi… - Journal of chemical …, 2024 - ACS Publications
Drug synergy prediction plays a vital role in cancer treatment. Because experimental
approaches are labor-intensive and expensive, computational-based approaches get more …

DeepTraSynergy: drug combinations using multimodal deep learning with transformers

F Rafiei, H Zeraati, K Abbasi, JB Ghasemi… - …, 2023 - academic.oup.com
Motivation Screening bioactive compounds in cancer cell lines receive more attention.
Multidisciplinary drugs or drug combinations have a more effective role in treatments and …

CCL-DTI: contributing the contrastive loss in drug–target interaction prediction

A Dehghan, K Abbasi, P Razzaghi, H Banadkuki… - BMC …, 2024 - Springer
Abstract Background The Drug–Target Interaction (DTI) prediction uses a drug molecule and
a protein sequence as inputs to predict the binding affinity value. In recent years, deep …

MCL-DTI: using drug multimodal information and bi-directional cross-attention learning method for predicting drug–target interaction

Y Qian, X Li, J Wu, Q Zhang - BMC bioinformatics, 2023 - Springer
Background Prediction of drug–target interaction (DTI) is an essential step for drug discovery
and drug reposition. Traditional methods are mostly time-consuming and labor-intensive …

Innovative super-resolution in spatial transcriptomics: a transformer model exploiting histology images and spatial gene expression

C Zhao, Z Xu, X Wang, S Tao… - Briefings in …, 2024 - academic.oup.com
Spatial transcriptomics technologies have shed light on the complexities of tissue structures
by accurately map** spatial microenvironments. Nonetheless, a myriad of methods …

DeepCompoundNet: enhancing compound–protein interaction prediction with multimodal convolutional neural networks

F Palhamkhani, M Alipour, A Dehnad… - Journal of …, 2025 - Taylor & Francis
Virtual screening has emerged as a valuable computational tool for predicting compound–
protein interactions, offering a cost-effective and rapid approach to identifying potential …

AMGDTI: drug–target interaction prediction based on adaptive meta-graph learning in heterogeneous network

Y Su, Z Hu, F Wang, Y Bin, C Zheng, H Li… - Briefings in …, 2024 - academic.oup.com
Prediction of drug–target interactions (DTIs) is essential in medicine field, since it benefits
the identification of molecular structures potentially interacting with drugs and facilitates the …

MMDG-DTI: Drug–target interaction prediction via multimodal feature fusion and domain generalization

Y Hua, Z Feng, X Song, XJ Wu, J Kittler - Pattern Recognition, 2025 - Elsevier
Recently, deep learning has become the essential methodology for Drug–Target Interaction
(DTI) prediction. However, the existing learning-based representation methods embed the …