Biomolecules | Highly Viewed Papers and Hot Topic Special Issues on Bioinformatics and Systems Biology

We are delighted to share a collection of highly viewed papers and successful Special Issues on bioinformatics and systems biology that were published in Biomolecules (ISSN: 2218-273X) in 2025. The following is a list of articles and Special Issues that we believe may be of interest to you:

Articles:

“Structure-Based Approaches for Protein–Protein Interaction Prediction Using Machine Learning and Deep Learning”
by Despoina P. Kiouri, Georgios C. Batsis and Christos T. Chasapis
Biomolecules 2025, 15(1), 141; https://doi.org/10.3390/biom15010141
Available online: https://www.mdpi.com/2218-273X/15/1/141

“Transcriptomic Analysis Corroborates the New Radial Model of the Mouse Pallial Amygdala”
by Gloria Fernández, Lara López-González, Eduardo Pons-Fuster, Luis Puelles and Elena Garcia-Calero
Biomolecules 2025, 15(8), 1160; https://doi.org/10.3390/biom15081160
Available online: https://www.mdpi.com/2218-273X/15/8/1160

“Unraveling the Engagement of Kinases to CRBN Through a Shared Structural Motif to Optimize PROTACs Efficacy”
by Serena Rosignoli, Sara Giordani, Maddalena Pacelli, Giulia Guarguaglini and Alessandro Paiardini
Biomolecules 2025, 15(2), 206; https://doi.org/10.3390/biom15020206
Available online: https://www.mdpi.com/2218-273X/15/2/206

“Conditioned Generative Modeling of Molecular Glues: A Realistic AI Approach for Synthesizable Drug-like Molecules”
by Naeyma N. Islam and Thomas R. Caulfield
Biomolecules 2025, 15(6), 849; https://doi.org/10.3390/biom15060849
Available online: https://www.mdpi.com/2218-273X/15/6/849

“Challenges and Opportunities in Quantifying Bioactive Compounds in Human Breastmilk”
by Amna Ghith, Reza Maleki, Luke E. Grzeskowiak, Lisa H. Amir and Wendy V. Ingman
Biomolecules 2025, 15(3), 325; https://doi.org/10.3390/biom15030325
Available online: https://www.mdpi.com/2218-273X/15/3/325

“Overview of Proteomic Analysis of Amyloid Plaques and Neurofibrillary Tangles in Alzheimer’s Disease”
by Amber Grewal, Simran Raikundalia, Joseph Zaia and Manveen K. Sethi
Biomolecules 2025, 15(9), 1310; https://doi.org/10.3390/biom15091310
Available online: https://www.mdpi.com/2218-273X/15/9/1310

“Real-World Analysis of HRD Assay Variability in High-Grade Serous Ovarian Cancer: Impacts of BRCA1/2 Mutation Subtypes on HRD Assessment”
by Giovanni Luca Scaglione, Valentina Lombardo, Maurizio Polano, Giuseppa Scandurra, Angela Pettinato, Corrado Giunta, Rosario Iemmolo, Paolo Scollo and Ettore D. Capoluongo
Biomolecules 2025, 15(5), 745; https://doi.org/10.3390/biom15050745
Available online: https://www.mdpi.com/2218-273X/15/5/745

“Omics Investigations of Prostate Cancer Cells Exposed to Simulated Microgravity Conditions”
by Herbert Schulz, Fatima Abdelfattah, Anna Heinrich, Daniela Melnik, Viviann Sandt, Marcus Krüger, Markus Wehland, Per Hoffmann, José Luis Cortés-Sánchez, Matthias Evert et al.
Biomolecules 2025, 15(2), 303; https://doi.org/10.3390/biom15020303
Available online: https://www.mdpi.com/2218-273X/15/2/303

“A Map of the Lipid–Metabolite–Protein Network to Aid Multi-Omics Integration”
by Uchenna Alex Anyaegbunam, Aimilia-Christina Vagiona, Vincent ten Cate, Katrin Bauer, Thierry Schmidlin, Ute Distler, Stefan Tenzer, Elisa Araldi, Laura Bindila, Philipp Wild et al.
Biomolecules 2025, 15(4), 484; https://doi.org/10.3390/biom15040484
Available online: https://www.mdpi.com/2218-273X/15/4/484

“Prediction of circRNA–Disease Associations via Graph Isomorphism Transformer and Dual-Stream Neural Predictor”
by Hongchan Li, Yuchao Qian, Zhongchuan Sun and Haodong Zhu
Biomolecules 2025, 15(2), 234; https://doi.org/10.3390/biom15020234
Available online: https://www.mdpi.com/2218-273X/15/2/234

Special Issues:

“Advances in Neuroproteomics”
Guest Editors: Dr. Kenneth R. Williams and Prof. Dr. Angus C. Nairn
Published papers: 10
Viewed by 31385+

“In Silico Drug Design and Discovery: Big Data for Small Molecule Design 2nd Edition”
Guest Editors: Dr. Carmen Cerchia and Prof. Dr. Antonio Lavecchia
Published papers: 7
Viewed by 18055+

“Unveiling Protein Functions, Dynamics and Interactions in Health and Disease Using Experimental and Theoretical Approaches”
Guest Editors: Dr. Daniele Di Marino, Dr. Cristina Maracci, Dr. Alice Romagnoli and Dr. Stefano Motta
Published papers: 9
Viewed by 41810+

“Artificial Intelligence (AI) in Biomedicine”
Guest Editor: Dr. Le Nguyen Quoc Khanh
Published papers: 14
Viewed by 50015+