- You Wu, Li Xu, Xiaohong Cong, Hanxiao Li, Yanli Li. Scmaskgan: masked multi-scale CNN and attention-enhanced GAN for scRNA-seq dropout imputation. BMC Bioinformatics, 26(1):130, December 2025.
- Patrick Gohl, Baldo Oliva. SNPeBoT: a tool for predicting transcription factor allele specific binding. BMC Bioinformatics, 26(1):81, December 2025.
- Aissa Houdjedj, Yacine Marouf, Mekan Myradov, Süleyman Onur Dogan, Burak Onur Erten, Oznur Tastan, Cesim Erten, Hilal Kazan. SCITUNA: single-cell data integration tool using network alignment. BMC Bioinformatics, 26(1):92, December 2025.
- Arash Shahbazpoor Shahbazi, Farzin Irandoost, Reza Mahdavian, Seyedehsamaneh Shojaeilangari, Abdollah Allahvardi, Hossein Naderi-manesh. A multi-stage weakly supervised design for spheroid segmentation to explore mesenchymal stem cell differentiation dynamics. BMC Bioinformatics, 26(1):20, December 2025.
- Xianfang Tang, Yawen Hou, Yajie Meng, Zhaojing Wang, Changcheng Lu, Juan Lv, Xinrong Hu, Junlin Xu, Jialiang Yang. CDPMF-DDA: contrastive deep probabilistic matrix factorization for drug-disease association prediction. BMC Bioinformatics, 26(1):5, December 2025.
- Binhua Tang, Yiyao Chen. scFTAT: a novel cell annotation method integrating FFT and transformer. BMC Bioinformatics, 26(1):62, December 2025.
- Mateusz Mazdziarz, Sebastian Zajac, Lukasz Paukszto, Jakub Sawicki. RSCUcaller: an R package for analyzing differences in relative synonymous codon usage (RSCU). BMC Bioinformatics, 26(1):141, December 2025.
- Tatiana A. Semashko, Gleb Y. Fisunov, Georgiy Y. Shevelev, Vadim M. Govorun. BAC-browser: the tool for synthetic biology. BMC Bioinformatics, 26(1):27, December 2025.
- Xiaomin Liu, Yi-Ju Li, Qiao Fan. Zim4rv: an R package to modeling zero-inflated count phenotype on regional-based rare variants. BMC Bioinformatics, 26(1):18, December 2025.
- Dimitrios Kioroglou. Omilayers: a Python package for efficient data management to support multi-omic analysis. BMC Bioinformatics, 26(1):40, December 2025.