Research
I. AI-Enabled Hyperspectral Microscopy
Investigating source-specific variations in hyperspectral signatures of Salmonella Infantis
G Kuehnle, M Papa, M Milicevic, B Park, and J Yi
IAFP 2025 (P2-85) – 1st Place, Undergraduate Student Award Competition
Funded by USDA ARS
[ Conference | Poster (upcoming) ]
Rapid Salmonella serovar classification using AI-enabled hyperspectral microscopy with different data preprocessing approaches
M Papa, S Bhattacharya, B Park, J Yi
IAFP 2025 (T6-02) – 1st Place, Developing Scientist Awards Competition
Foods (special issue on AI/ML for foods)
Funded by USDA ARS
[ Conference | Preprint | Publisher Page ]
AI-enabled imaging for pathogen detection under stress conditions: A systematic review
M Papa, G Kuehnle, Y Oh, and J Yi
IAFP 2025 (P2-80)
Pre-registered at PROSPERO
Funded by MSU Research Foundation Tetrad Award
[ PROSPERO | Conference | Poster (upcoming) | Publisher Page (upcoming) ]
Detection of viable but nonculturable E. coli induced by low-level antimicrobials using AI-enabled hyperspectral microscopy
M Papa, A Wasit, J Pecora, TM Bergholz, and J Yi
ASABE 2024 (302-1)
Journal of Food Protection (special issue on AI and food safety)
Funded by MSU Research Foundation Tetrad Award, MSU Startup
[ Conference | Publisher Page ]
II. Generalizable AI Modeling for Microscopy
Generative Modeling for Advanced Microscopic Imaging
S Sinha, J Harper, and J Yi
Funded by MSU Startup
[ Preprint (upcoming) ]
Out-of-distribution generalization of bacterial detection with uncertainty-aware multimodal fusion
T Shin, B Park, and J Yi
Funded by USDA ARS
[ Publisher Page (upcoming) ]
Enhancing AI microscopy for foodborne bacterial classification via adversarial domain adaptation across optical and biological variability
S Bhattacharya, A Wasit, M Earles, N Nitin, L Ma, and J Yi
IAFP 2025 (T15-04)
Frontiers in AI (AI in Food, Agriculture and Water)
Funded by MSU Startup, USDA NIFA, USDA/NSF AI Institute for Food Systems (AIFS)
[ Conference | Preprint | Publisher Page ]
Label-free prediction of fluorescence markers in bovine satellite cells using deep learning
S Sinha, A Wasit, WS Kim, J Kim, and J Yi
arXiv
Funded by MSU Startup
[ Preprint | Publisher Page (upcoming) ]
Rapid and data-efficient classification of Salmonella serovars using augmentation and deep learning on hyperspectral microscope images
A Wasit, B Park, and J Yi
IAFP 2024 (P1-295)
Funded by USDA ARS, MSU Startup
[ Conference ]
III. Microbiome and Genomic Data Modeling
Improving soil health modeling using imputed microbiome relative abundance data
M Milicevic and J Yi
Inverse Problems Symposium 2025
Funded by MSU Startup
[ Preprint (upcoming) ]
Genomic and Phenotypic Predictive Modeling of Recurring E. coli Strains
M Milicevic, TM Bergholz, and J Yi
Funded by Center for Produce Safety
[ Project Page ]
Impact of biotic and abiotic factors on Listeria monocytogenes, Salmonella enterica, and Enterohemorrhagic Escherichia coli in agricultural soil extracts
D Sharma, AL Kraft, JO Owade, M Milicevic, J Yi, and TM Bergholz
Microorganisms
[ Publisher Page ]
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