[HTML][HTML] A review of transformers in drug discovery and beyond

J Jiang, L Chen, L Ke, B Dou, C Zhang, H Feng… - Journal of …, 2024 - Elsevier
Transformer models have emerged as pivotal tools within the realm of drug discovery,
distinguished by their unique architectural features and exceptional performance in …

SYNBIP 2.0: epitopes mapping, sequence expansion and scaffolds discovery for synthetic binding protein innovation

Y Li, F Li, Z Duan, R Liu, W Jiao, H Wu… - Nucleic Acids …, 2025 - academic.oup.com
Synthetic binding proteins (SBPs) represent a pivotal class of artificially engineered proteins,
meticulously crafted to exhibit targeted binding properties and specific functions. Here, the …

[HTML][HTML] The integration of machine learning into traditional Chinese medicine

Y Hong, S Zhu, Y Liu, C Tian, H Xu, G Chen… - Journal of …, 2024 - Elsevier
Traditional Chinese medicine (TCM) is an ancient medical system distinctive and effective in
treating cancer, depression, coronavirus disease 2019 (COVID-19), and other diseases …

Chem(Pro)2: the atlas of chemoproteomic probes labelling human proteins

S Fu, Z Chen, Z Luo, M Nie, T Fu, Y Zhou… - Nucleic Acids …, 2025 - academic.oup.com
Chemoproteomic probes (CPPs) have been widely considered as powerful molecular
biological tools that enable the highly efficient discovery of both binding proteins and modes …

OncoSexome: the landscape of sex-based differences in oncologic diseases

X Shen, Y Zhang, J Li, Y Zhou, SD Butensky… - Nucleic acids …, 2025 - academic.oup.com
The NIH policy on sex as biological variable (SABV) emphasized the importance of sex-
based differences in precision oncology. Over 50% of clinically actionable oncology genes …

OPTICS: an interactive online platform for photosensory and bio-functional proteins in optogenetic systems

Z Zhang, F Li, Z Duan, C Shi, X Wang, F Zhu… - Computers in Biology …, 2024 - Elsevier
High-precise modulation of bio-functional proteins related to signaling is crucial in life
sciences and human health. The cutting-edge technology of optogenetics, which combines …

FERREG: ferroptosis-based regulation of disease occurrence, progression and therapeutic response

Y Zhou, Z Chen, M Yang, F Chen, J Yin… - Briefings in …, 2024 - academic.oup.com
Ferroptosis is a non-apoptotic, iron-dependent regulatory form of cell death characterized by
the accumulation of intracellular reactive oxygen species. In recent years, a large and …

Bioactive compounds from Ocimum tenuiflorum and Poria cocos: A novel natural Compound for insomnia treatment based on A computational approach

O Ranteh, A Tedasen, MA Rahman, MA Ibrahim… - Computers in Biology …, 2024 - Elsevier
Insomnia, a widespread public health issue, is associated with substantial distress and
daytime functionality impairments and can predispose to depression and cardiovascular …

DrugMAP 2.0: molecular atlas and pharma-information of all drugs

F Li, M Mou, X Li, W Xu, J Yin, Y Zhang… - Nucleic Acids …, 2025 - academic.oup.com
The escalating costs and high failure rates have decelerated the pace of drug development,
which amplifies the research interests in developing combinatorial/repurposed drugs and …

Bilinear optimization of protein structure prediction: An exact approach via AB off-lattice model

LSA da Silva, LO Seman, E Camponogara… - Computers in Biology …, 2024 - Elsevier
Protein structure prediction (PSP) remains a central challenge in computational biology due
to its inherent complexity and high dimensionality. While numerous heuristic approaches …