Enhanced Bayesian modelling in BAPS software for learning genetic structures of populations. - Jukka Corander; Pekka Marttinen; Jukka Sirén; Jing Tang 002 (BMC Bioinform., 2008)

Bayesian Clustering of Fuzzy Feature Vectors Using a Quasi-Likelihood Approach. - Pekka Marttinen; Jing Tang 002; Bernard De Baets; Peter Dawyndt; Jukka Corander (IEEE Trans. Pattern Anal. Mach. Intell., 2009)

Identifying Currents in the Gene Pool for Bacterial Populations Using an Integrative Approach. - Jing Tang 002; William P. Hanage; Christophe Fraser; Jukka Corander (PLoS Comput. Biol., 2009)

Target Inhibition Networks: Predicting Selective Combinations of Druggable Targets to Block Cancer Survival Pathways. - Jing Tang 002; Leena Karhinen; Tao Xu; Agnieszka Szwajda; Bhagwan Yadav; Krister Wennerberg; Tero Aittokallio (PLoS Comput. Biol., 2013)

Making Sense of Large-Scale Kinase Inhibitor Bioactivity Data Sets: A Comparative and Integrative Analysis. - Jing Tang 002; Agnieszka Szwajda; Sushil Kumar Shakyawar; Tao Xu; Petteri Hintsanen; Krister Wennerberg; Tero Aittokallio (J. Chem. Inf. Model., 2014)

Toward more realistic drug-target interaction predictions. - Tapio Pahikkala; Antti Airola; Sami Pietilä; Sushil Kumar Shakyawar; Agnieszka Szwajda; Jing Tang 002; Tero Aittokallio (Briefings Bioinform., 2015)

TIMMA-R: an R package for predicting synergistic multi-targeted drug combinations in cancer cell lines or patient-derived samples. - Liye He; Krister Wennerberg; Tero Aittokallio; Jing Tang 002 (Bioinform., 2015)

A Bayesian Predictive Model for Clustering Data of Mixed Discrete and Continuous Type. - Paul Blomstedt; Jing Tang 002; Jie Xiong; Christian Granlund; Jukka Corander (IEEE Trans. Pattern Anal. Mach. Intell., 2015)

Drug Target Commons 2.0: a community platform for systematic analysis of drug-target interaction profiles. - ZiaurRehman Tanoli; Zaid Alam; Markus Vähä-Koskela; Balaguru Ravikumar; Alina Malyutina; Alok Jaiswal; Jing Tang 002; Krister Wennerberg; Tero Aittokallio (Database J. Biol. Databases Curation, 2018)

Numerical evaluation of the transition probability of the simple birth-and-death process. - Alberto Pessia; Jing Tang 002 (CoRR, 2019)

DrugComb: an integrative cancer drug combination data portal. - Bulat Zagidullin; Jehad Aldahdooh; Shuyu Zheng; Wenyu Wang; Yinyin Wang; Joseph Saad; Alina Malyutina; Mohieddin Jafari; ZiaurRehman Tanoli; Alberto Pessia; Jing Tang 002 (Nucleic Acids Res., 2019)

Drug combination sensitivity scoring facilitates the discovery of synergistic and efficacious drug combinations in cancer. - Alina Malyutina; Muntasir Mamun Majumder; Wenyu Wang; Alberto Pessia; Caroline Heckman; Jing Tang 002 (PLoS Comput. Biol., 2019)

Predicting Meridian in Chinese traditional medicine using machine learning approaches. - Yinyin Wang; Mohieddin Jafari; Yun Tang 001; Jing Tang 002 (PLoS Comput. Biol., 2019)

SynergyFinder: a web application for analyzing drug combination dose-response matrix data. - Aleksandr Ianevski; Liye He; Tero Aittokallio; Jing Tang 002 (Bioinform., 2020)

Drug Repurposing for COVID-19 using Graph Neural Network with Genetic, Mechanistic, and Epidemiological Validation. - Kanglin Hsieh; Yinyin Wang; Luyao Chen; Zhongming Zhao; Sean I. Savitz; Xiaoqian Jiang; Jing Tang 002; Yejin Kim 001 (CoRR, 2020)

Network-guided identification of cancer-selective combinatorial therapies in ovarian cancer. - Liye He; Daria Bulanova; Jaana Oikkonen; Antti Häkkinen; Kaiyang Zhang; Shuyu Zheng; Wenyu Wang; Erdogan Pekcan Erkan; Olli Carpén; Titta Joutsiniemi; Sakari Hietanen; Johanna Hynninen; et al. (Briefings Bioinform., 2021)

Exploration of databases and methods supporting drug repurposing: a comprehensive survey. - ZiaurRehman Tanoli; Umair Seemab; Andreas Scherer; Krister Wennerberg; Jing Tang 002; Markus Vähä-Koskela (Briefings Bioinform., 2021)

Network-based modeling of herb combinations in traditional Chinese medicine. - Yinyin Wang; Hongbin Yang; Linxiao Chen; Mohieddin Jafari; Jing Tang 002 (Briefings Bioinform., 2021)

Comparative analysis of molecular fingerprints in prediction of drug combination effects. - Bulat Zagidullin; Ziyan Wang; Yuanfang Guan; Esa Pitkänen; Jing Tang 002 (Briefings Bioinform., 2021)

R-BERT-CNN: Drug-target interactions extraction from biomedical literature. - Jehad Aldahdooh; ZiaurRehman Tanoli; Jing Tang 002 (CoRR, 2021)

Bayesian supervised predictive classification and hypothesis testing toolkit for partition exchangeability. - Ville Kinnula; Jing Tang 002; Ali Amiryousefi (CoRR, 2021)

Bayes in Wonderland! Predictive supervised classification inference hits unpredictability. - Ali Amiryousefi; Ville Kinnula; Jing Tang 002 (CoRR, 2021)

Anticancer drug synergy prediction in understudied tissues using transfer learning. - Yejin Kim 001; Shuyu Zheng; Jing Tang 002; W. Jim Zheng; Zhao Li; Xiaoqian Jiang (J. Am. Medical Informatics Assoc., 2021)

DrugComb update: a more comprehensive drug sensitivity data repository and analysis portal. - Shuyu Zheng; Jehad Aldahdooh; Tolou Shadbahr; Yinyin Wang; Dalal Aldahdooh; Jie Bao; Wenyu Wang; Jing Tang 002 (Nucleic Acids Res., 2021)

Minimal information for chemosensitivity assays (MICHA): a next-generation pipeline to enable the FAIRification of drug screening experiments. - ZiaurRehman Tanoli; Jehad Aldahdooh; Farhan Alam; Yinyin Wang; Umair Seemab; Maddalena Fratelli; Petr Pavlis; Marián Hajdúch; Florence Bietrix; Philip Gribbon; Andrea Zaliani; Matthew D. Hall; et al. (Briefings Bioinform., 2022)

The ENDS of assumptions: an online tool for the epistemic non-parametric drug-response scoring. - Ali Amiryousefi; Bernardo Williams; Mohieddin Jafari; Jing Tang 002 (Bioinform., 2022)

Using BERT to identify drug-target interactions from whole PubMed. - Jehad Aldahdooh; Markus Vähä-Koskela; Jing Tang 002; ZiaurRehman Tanoli (BMC Bioinform., 2022)

Classification of datasets with imputed missing values: does imputation quality matter? - Tolou Shadbahr; Michael Roberts; Jan Stanczuk; Julian D. Gilbey; Philip Teare; Sören Dittmer; Matthew Thorpe; Ramón Viñas Torné 001; Evis Sala; Pietro Lió; Mishal Patel; AIX-COVNET Collaboration; et al. (CoRR, 2022)

PGMG: A Pharmacophore-Guided Deep Learning Approach for Bioactive Molecular Generation. - Huimin Zhu; Renyi Zhou; Jing Tang 002; Min Li 007 (CoRR, 2022)

SynergyFinder Plus: Toward Better Interpretation and Annotation of Drug Combination Screening Datasets. - Shuyu Zheng; Wenyu Wang; Jehad Aldahdooh; Alina Malyutina; Tolou Shadbahr; ZiaurRehman Tanoli; Alberto Pessia; Jing Tang 002 (Genom. Proteom. Bioinform., 2022)

DTIAM: A unified framework for predicting drug-target interactions, binding affinities and activation/inhibition mechanisms. - Zhangli Lu; Chuqi Lei; Kaili Wang; Libo Qin 001; Jing Tang 002; Min Li 007 (CoRR, 2023)

Proposal for a framework of contextual metadata in selected research infrastructures of the life sciences and the social sciences & humanities. - Christian Ohmann; Maria Panagiotopoulou; Steve Canham; Petr Holub; Kurt Majcen; Gary Saunders; Maddalena Fratelli; Jing Tang 002; Philip Gribbon; Reagon Karki; Mari Kleemola; Katja Moilanen; et al. (Int. J. Metadata Semant. Ontologies, 2023)

drda: An R Package for Dose-Response Data Analysis Using Logistic Functions. - Alina Malyutina; Jing Tang 002; Alberto Pessia (J. Stat. Softw., 2023)

Navigating the development challenges in creating complex data systems. - Sören Dittmer; Michael Roberts; Julian D. Gilbey; Ander Biguri; Ian Selby; Anna Breger; Matthew Thorpe; Jonathan R. Weir-McCall; Effrossyni Gkrania-Klotsas; Anna Korhonen; Emily R. Jefferson; Georg Langs; et al. (Nat. Mac. Intell., 2023)

The Impact of Computational Drug Discovery on Society. - Jianxin Wang 001; Min Li 007; Edwin Wang; Jing Tang 002; Bin Hu 001 (IEEE Trans. Comput. Soc. Syst., 2023)

Herb-CMap: a multimodal fusion framework for deciphering the mechanisms of action in traditional Chinese medicine using Suhuang antitussive capsule as a case study. - Yinyin Wang; Yihang Sui; Jiaqi Yao; Hong Jiang; Qimeng Tian; Yun Tang 001; Yongyu Ou; Jing Tang 002; Ninghua Tan (Briefings Bioinform., 2024)

SAFER: sub-hypergraph attention-based neural network for predicting effective responses to dose combinations. - Yi-Ching Tang; Rongbin Li; Jing Tang 002; W. Jim Zheng; Xiaoqian Jiang (BMC Bioinform., 2024)

CADS: Causal Inference for Dissecting Essential Genes to Predict Drug Synergy. - Huaiwu Zhang; Jing Tang 002 (ISBRA (1), 2025)

ActivityDiff: A diffusion model with Positive and Negative Activity Guidance for De Novo Drug Design. - Renyi Zhou; Huimin Zhu; Jing Tang 002; Min Li 007 (CoRR, 2025)