Zhaohan Meng, Zaiqiao Meng, Iadh Ounis (2024). FusionDTI: Fine-grained Binding Discovery with Token-level Fusion for Drug-Target Interaction. AI4Science@ICML 2024.
Zhaohan Meng, Siwei Liu, Shangsong Liang, Bhautesh Jani, Zaiqiao Meng (2024). Heterogeneous biomedical entity representation learning for gene-disease association prediction. Briefings in Bioinformatics. Oxford University Press.
Xinhao Yi, Siwei Liu, Yu Wu, Douglas McCloskey, Zaiqiao Meng (2024). BPP: a platform for automatic biochemical pathway prediction. Briefings in Bioinformatics, 25(5). Oxford Academic.
E. Frayling, Jake Lever, G. McDonald (2024). Zero-shot and Few-shot Generation Strategies for Artificial Clinical Records. arXiv preprint arXiv:2403.08664. Accessed: Aug. 20, 2024.
E. Frayling, Jake Lever, G. McDonald (2024). UoG Siephers at “Discharge Me!”: Exploring Ways to Generate Synthetic Patient Notes From Multi-Part Electronic Health Records. In Proceedings of the 23rd Workshop on Biomedical Natural Language Processing, pp. 712–718. Accessed: Aug. 20, 2024.
Xi Zhang, Zaiqiao Meng, Jake Lever, Edmond S.L. Ho (2024). Gla-AI4BioMed at RRG24: Visual Instruction-tuned Adaptation for Radiology Report Generation. BioNLP@ACL 2024.
Giacomo Frisoni, Alessio Cocchieri, Alex Presepi, Gianluca Moro, Zaiqiao Meng (2024). To generate or to retrieve? on the effectiveness of artificial contexts for medical open-domain question answering. ACL 2024.
Jinyuan Fang, Zaiqiao Meng, Craig Macdonald (2024). TRACE the Evidence: Constructing Knowledge-Grounded Reasoning Chains for Retrieval-Augmented Generation. arXiv preprint arXiv:2406.11460.
Jinyuan Fang, Zaiqiao Meng, Craig Macdonald (2024).REANO: Optimising Retrieval-Augmented Reader Models through Knowledge Graph Generation. ACL 2024.
Jiahang Cao, Jinyuan Fang, Zaiqiao Meng, Shangsong Liang (2024). Knowledge Graph Embedding: A Survey from the Perspective of Representation Spaces. ACM Computing Surveys.
Zihao Fu, Meiru Zhang, Zaiqiao Meng, Yannan Shen, Anya Okhmatovskaia, David Buckeridge, Nigel Collier (2024). BAND: Biomedical Alert News Dataset. AAAI 2024.
K. Krysiak, Jake Lever, et al. (2023). CIViCdb 2022: evolution of an open-access cancer variant interpretation knowledgebase. Nucleic Acids Research, 51(D1), D1230–D1241.
D. N. Sosa, Jake Lever, Rogier Hintzen, Betty Xiong, Alex De Giorgio, Julien Fauqueur, Mark Davies, Russ B. Altman (2023). Associating biological context with protein-protein interactions through text mining at PubMed scale. Journal of Biomedical Informatics, 145, 104474.
Daniel N. Sosa, Rogier Hintzen, Betty Xiong, Alex De Giorgio, Julien Fauqueur, Mark Davies, Jake Lever, Russ B. Altman (2023). Associating biological context with protein-protein interactions through text mining at PubMed scale. Journal of Biomedical Informatics.
Jinyuan Fang, Xiaobin Wang, Zaiqiao Meng, Pengjun Xie, Fei Huang, Yong Jiang (2023). MANNER: A Variational Memory-Augmented Model for Cross Domain Few-Shot Named Entity Recognition. ACL 2023.
Zihao Fu, Yixuan Su, Zaiqiao Meng, Nigel Collier (2023). Biomedical Named Entity Recognition via Dictionary-based Synonym Generalization. EMNLP 2023.
Zaiqiao Meng, Anya Okhmatovskaia, Maxime Polleri, Yannan Shen, Guido Powell, Zihao Fu, Iris Ganser, Meiru Zhang, Nicholas B. King, David Buckeridge (2022). BioCaster in 2021: automatic disease outbreaks detection from global news media. Bioinformatics, 38(18), 4446-4448. Oxford University Press.
Zaiqiao Meng, Fangyu Liu, Ehsan Shareghi, Yixuan Su, Charlotte Collins, Nigel Collier (2022). Rewire-then-Probe: A Contrastive Recipe for Probing Biomedical Knowledge of Pre-trained Language Models. ACL 2022.
Zaiqiao Meng, Fangyu Liu, Thomas Hikaru Clark, Ehsan Shareghi, Nigel Collier (2021). Mixture-of-Partitions: Infusing Large Biomedical Knowledge Graphs into BERT. EMNLP 2021.
Fangyu Liu, Ehsan Shareghi, Zaiqiao Meng, Marco Basaldella, Nigel Collier (2021). Self-alignment Pre-training for Biomedical Entity Representations. NAACL 2021.
Jake Lever, R. B. Altman (2021). Analyzing the vast coronavirus literature with CoronaCentral. Proceedings of the National Academy of Sciences, 118(23), e2100766118.
Jake Lever, R. Altman, J.-D. Kim (2020). Extending TextAE for annotation of non-contiguous entities. Genomics & Informatics, 18(2).