| Jul 01, 2026 | “Interpretable spatial multi-omics data integration and dimension reduction with SpaMV” is published in Nature Communications. paper |
| Jul 01, 2026 | New grant: “Biomedical AI Agent for Traditional Chinese Medicine Treatment of Gastrointestinal Cancer: Research on Microbiome-Host Interaction Mechanisms”, Guangdong and Hong Kong Universities “1+1+1” Joint Research Collaboration Scheme (PI, 1,500,000 HKD). |
| Jun 01, 2026 | “Causal transformer for learning embeddings from structured medical history records and multi-source data integration for complex disease risk prediction” is published in Interdisciplinary Sciences: Computational Life Sciences. paper |
| May 01, 2026 | “Enhanced disease susceptible variant identification via short identity by descent segments” is published in IEEE/ACM Transactions on Computational Biology and Bioinformatics. paper |
| Feb 28, 2026 | “stDyer-image improves clustering analysis of spatially resolved transcriptomics and proteomics with morphological images” is published in Bioinformatics. paper |
| Jan 17, 2026 | “Exploring differences in the human gut microbiome between Han Chinese and non-Chinese populations” is published in Genome Biology. paper |
| Nov 05, 2025 | “MaskGraphene: an advanced framework for interpretable joint representation for multi-slice, multi-condition spatial transcriptomics” is published in Genome Biology. paper |
| Nov 01, 2025 | “TRAFICA: an open chromatin language model to improve transcription factor binding affinity prediction” is published in Bioinformatics. paper |
| Oct 01, 2025 | “The antimicrobial peptide pipeline: a bacteria-centric AMP predictor” is published in Current Gene Therapy. paper |
| Sep 26, 2025 | “Using large language models to assess the consistency of randomized controlled trials on AI interventions with CONSORT-AI: a cross-sectional survey” is published in Journal of Medical Internet Research. paper |
| Sep 01, 2025 | “DBNX: a machine learning method for ensembling polygenic risk scores and non-genetic factors” is published in IEEE/ACM Transactions on Computational Biology and Bioinformatics. paper |
| Sep 01, 2025 | “Mitigation of multi-scale biases in cell-type deconvolution for spatially resolved transcriptomics using HarmoDecon” is published in Bioinformatics. paper |
| Sep 01, 2025 | “Strategies for the analysis and elimination of hallucinations in artificial intelligence generated medical knowledge” is published in Journal of Evidence-Based Medicine. paper |
| Sep 01, 2025 | New grant: “Enhancing Small Molecule Drug Synergy Prediction Using Multi-Modality and Multi-source Data”, Research Cluster Matching Scheme RCMS/24-25/03 (PI, 1,000,000 HKD). |
| Aug 01, 2025 | “RAPID: reliable and efficient automatic generation of submission reporting checklists with large language models” is published in Journal of the American Medical Informatics Association. paper |
| Jul 01, 2025 | New grant: “Towards Trustworthy Foundation Models under Imperfect Scenarios”, RGC Young Collaborative Research Grant C2005-24Y (Co-PI, 4,006,800 HKD). |
| Jun 01, 2025 | “Large language models in integrative medicine: a review of progress, challenges, and opportunities” is published in Journal of Evidence-Based Medicine. paper |
| Feb 20, 2025 | “stDyer enables spatial domain clustering with dynamic graph embedding” is published in Genome Biology. paper |
| Jan 01, 2025 | Received the Best Research Award, Department of Computer Science, Hong Kong Baptist University (2025). |
| Oct 09, 2024 | Deepurify got accepted by Nature Machine Intelligence! |
| Sep 01, 2024 | New grant: “Advancing clinical differentiation between constipation-predominant irritable bowel syndrome and functional constipation using machine learning models”, Health and Medical Research Fund 11221026 (PI, 487,800 HKD). |
| Jun 17, 2024 | LRTK got published on GigaSicence! |
| Jun 01, 2024 | New grant: “Improved Metabolic Network Reconstruction and Metabolite Profiles Prediction using Complete and Strain-Resolved Microbial Genomes”, RGC Young Collaborative Research Grant C2004-23Y (PC, 4,494,061 HKD). |
| May 31, 2024 | Pangaea got published on Nature Communication! |
| Jan 17, 2024 | “Structural and Functional Disparities within the Human Gut Virome in Terms of Genome Topology and Representative Genome Selection” is published in Viruses. paper |
| Jan 01, 2024 | “The impact of generative artificial intelligence on the development, evaluation, and application of clinical practice guidelines” is published in Medical Journal of Peking Union Medical College Hospital. paper |
| Jan 01, 2024 | Received the Excellent Paper Award, Faculty of Science, Hong Kong Baptist University (2024). |
| Jan 19, 2023 | “A comprehensive investigation of statistical and machine learning approaches for predicting complex human diseases on genomic variants” is published in Briefings in Bioinformatics. paper |
| Jan 01, 2023 | New grant: “基于长读长测序技术的宏基因组组装算法研究”, BGI Open Fund BGIRSZ20220014 (PI, 450,000 RMB). |
| Jan 01, 2023 | Received the President’s Award for Outstanding Performance as Early Career Researcher, Hong Kong Baptist University (2023). |
| Nov 19, 2022 | “dynDeepDRIM: a dynamic deep learning model to infer direct regulatory interactions using time-course single-cell gene expression data” is published in Briefings in Bioinformatics. paper |
| Sep 01, 2022 | New grant: “Computational models for health management system using multi-source data”, Guangdong-Hong Kong Technology Cooperation Funding Scheme GHX/133/20SZ (PI, 1,844,600 HKD). |
| Jan 01, 2022 | Received the Best Teaching Award, Department of Computer Science, Hong Kong Baptist University (2022). |
| Nov 05, 2021 | “DeepDRIM: a deep neural network to reconstruct cell-type-specific gene regulatory network using single-cell RNA-seq data” is published in Briefings in Bioinformatics. paper |
| Sep 01, 2021 | New grant: “A graph-based diploid assembly algorithm for detecting structural variants on 10x Linked-Read sequencing”, Guangdong Basic and Applied Basic Research Foundation 2021A1515012226 (PI, 100,000 RMB). |
| Aug 01, 2021 | New grant: “一种基于单体型局部组装和共有单体型分析的复杂疾病罕见变异识别算法”, Shenzhen Virtual University Park Special Fund 2021Szvup135 (PI, 187,000 RMB). |
| May 01, 2021 | “METAMVGL: a multi-view graph-based metagenomic contig binning algorithm by integrating assembly and paired-end graphs” is published in BMC Bioinformatics. paper |
| Jan 01, 2021 | “A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data” is published in Computational and Structural Biotechnology Journal. paper |
| Dec 01, 2020 | “A comprehensive investigation of metagenome assembly by linked-read sequencing” is published in Microbiome. paper |
| Sep 01, 2019 | New grant: “A novel metagenome assembly algorithm by using single-tube long-fragment sequencing”, Guangdong Basic and Applied Basic Research Foundation 2019A1515011046 (PI, 100,000 RMB). |
| Sep 01, 2019 | New grant: “A computational framework to prioritize disease-associated low frequency variants from Identity-By-Descent regions”, RGC Early Career Scheme HKBU22201419 (PI, 651,769 HKD). |