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- 2025
- Detection of Bacillus production strains and contaminants in food enzyme products (2025) FOOD CHEMISTRY: MOLECULAR SCIENCES. 11.
- smartSim : simulation of splice aware single cell smart-seq3 data (2025) BIOINFORMATICS ADVANCES. 5(1).
- EPS inhibitor treatment of Salmonella impacts evolution without selecting for resistance to biofilm inhibition (2025) NPJ BIOFILMS AND MICROBIOMES. 11(1).
- Prior knowledge injection into deep learning models predicting gene expression from whole slide images (2025) Second Workshop on Imageomics (Imageomics-AAAI-25) : discovering biological knowledge from images using AI.
- Assessing the authenticity and purity of a commercial Bacillus thuringiensis bioinsecticide through whole genome sequencing and metagenomics approaches (2025) FRONTIERS IN MICROBIOLOGY. 16.
- ELLIPSIS : robust quantification of splicing in scRNA-seq (2025) BIOINFORMATICS. 41(2).
- Synthetic multimodal data modelling for data imputation (2025) NATURE BIOMEDICAL ENGINEERING. 9(4). p.421-425
- 2024
- Digital profiling of gene expression from histology images with linearized attention (2024) NATURE COMMUNICATIONS. 15(1).
- Benchmarking bacterial taxonomic classification using nanopore metagenomics data of several mock communities (2024) SCIENTIFIC DATA. 11(1).
- Strain-level characterization of foodborne pathogens without culture enrichment for outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling (2024) FRONTIERS IN MICROBIOLOGY. 15.