Publications

ADAPT in SC Year 1 Publications

Chou T, Hoover A, Goldstein S, Greco-Henderson D, Martin C, Raynor H, Muth E, Thomas J (2024). An Explanation for the Accuracy of Sensor-based Measures of Energy Intake: Amount of Food Consumed Matters More Than Dietary Composition. Appetite, Volume 194, 1-6. DOI: https://doi.org/10.1016/j.appet.2023.107176.

Tang Z, Patyk A, Jolly J, Goldstein S, Thomas J, Hoover A (2024). Detecting Eating Episodes From Wrist Motion Using Daily Pattern Analysis. IEEE Journal of Biomedical and Health Informatics, Volume 28, Issue 2, 1054-1065. DOI: https://doi.org/10.1109/jbhi.2023.3341077.

Popp C, Wang C, Hoover A, Gomez L, Curran M, St-Jules D, Barua S, Sevick M, Kleinberg S (2024). Objective Determination of Eating Occasion Timing: Combining Self-Report, Wrist Motion, and Continuous Glucose Monitoring to Detect Eating Occasions in Adults With Prediabetes and Obesity. Journal of Diabetes Science and Technology, Volume 18, Issue 2, 266-272. DOI: https://doi.org/10.1177/19322968231197205.

 Indah D, Mwakalonge J, Comert G, Siuhi S (2024). Enhancing Data Efficiency for Autonomous Vehicles: Using Data Sketches for Detecting Driving Anomalies. Machine Learning with Applications, Volume 15, 1-9. DOI: https://doi.org/10.1016/j.mlwa.2024.100530.

Chengula T, Mwakalonge J, Comert G, Siuhi S (2023). Improving Road Safety with Ensemble Learning: Detecting Driver Anomalies Using Vehicle Inbuilt Cameras. Machine Learning with Applications, Volume 14, 1-10. DOI: https://doi.org/10.1016/j.mlwa.2023.100510.

Wei X, Ma D, Ou J, Song G, Guo J, Robertson J, Wang Y, Wang Q, Liu C (2024). Narrowing Signal Distribution by Adamantane Derivatization for Amino Acid Identification Using an α-Hemolysin Nanopore. NANO Letters, Volume 24, Issue 5, 1494-1501. DOI: https://doi.org/10.1021/acs.nanolett.3c03593.

Rajeoni A, Pederson B, Clair D, Lessner S, Valafar H (2023). Automated Measurement of Vascular Calcification in Femoral Endarterectomy Patients Using Deep Learning. Diagnostics, Volume 13, Issue 21, 1-19. DOI: https://doi.org/10.3390%2Fdiagnostics13213363.

 Zhang Z, Fan H, Richardson W, Gao B, Ye T (2023). Management of Autofluorescence in Formaldehyde-fixed Myocardium: Choosing the Right Treatment. European Journal of Histochemistry, Volume 67, Issue 4, 211-221. DOI: https://doi.org/10.4081/ejh.2023.3812.

Fan H, Xu P, Chen X, Li Y, Zhang Z, Hsu J, Le M, Ye E, Gao B, Demos H, Yao H, Ye T (2023). Mask R-CNN Provides Efficient and Accurate Measurement of Chondrocyte Viability in the Label-free Assessment of Articular Cartilage. Osteoarthritis and Cartilage Open, Volume 5, Issue 4, 1-7. DOI: https://doi.org/10.1016/j.ocarto.2023.100415.

ADAPT IN SC Year 2 Publications

Chou T, Hoover AW, Goldstein SP, Greco-Henderson D, Martin CK, Raynor HA, Muth ER, Thomas JG. An explanation for the accuracy of sensor-based measures of energy intake: Amount of food consumed matters more than dietary composition. Appetite. 2024;194:107176. DOI: https://doi.org/10.1016/j.appet.2023.107176

Cheng R, Sun Y, Niyato D, Zhang L, Zhang L, Imran MA. 2025. A Wireless AI-Generated Content (AIGC) Provisioning Framework Empowered by Semantic Communication. IEEE Transactions on Mobile Computing 24, 3 (March 2025), 2137–2150. https://doi.org/10.1109/TMC.2024.3493375

Huang B, Coventry B, Borowska MT, Arhontoulis DC, Exposit M, Abedi M, Jude KM, Halabiya SF, Allen A, Cordray C, Goreshnik I, Ahlrichs M, Chan S, Tunggal H, DeWitt M, Hyams N, Carter L, Stewart L, Fuller DH, Mei Y, Garcia KC, Baker D. De novo design of miniprotein antagonists of cytokine storm inducers. Nat Commun. 2024;15:7064. doi: https://doi.org/10.1038/s41467-024-50919-4

Tang Z, Patyk A, Jolly J, Goldstein SP, Thomas JG, Hoover A. “Detecting Eating Episodes From Wrist Motion Using Daily Pattern Analysis,” in IEEE Journal of Biomedical and Health Informatics, vol. 28, no. 2, pp. 1054-1065, Feb. 2024, doi: https://doi.org/10.1109/JBHI.2023.3341077

Kelley J, Buchweitz N, Madden A, Fan H, Hepfer G, Kern M, Townsend DM, Ye T, Yao H, Wu Y. Effect of cigarette smoke exposure and cessation on regional diffusion properties in rat intervertebral discs. JOR Spine. 2024;7(4):e70015. doi: https://doi.org/10.1002/jsp2.70015

Lyu S, Sun Y, Guo L, Yuan X, Fang F, Zhang L, Wang X. Improving Channel Resilience for Task-Oriented Semantic Communications: A Unified Information Bottleneck Approach. IEEE Communications Letters. PP. 1-1. 10.1109/LCOMM.2024.3466995.

Hyams, N.A., Kerr, C.M., Arhontoulis, D.C. Ruddy JM, Mei Y. Improving human cardiac organoid design using transcriptomics. Sci Rep 14, 20147 (2024). https://doi.org/10.1038/s41598-024-61554-w

Zhang Z, Gao BZ, Ye T. In Situ Structural Characterization of Cardiomyocyte Microenvironment by Multimodal STED Microscopy. Photonics. 2024; 11(6):533. https://doi.org/10.3390/photonics11060533

Li C, Wang L, Li K, Deng H, Wang Y, Chang L, Zhou P, Zeng J, Sun M, Jiang H, Wang Q. Machine-learning-enabled prognostic models for sepsis. 2024;10:100167. doi: https://doi.org/10.1016/j.ibmed.2024.100167 

Baminiwatte R, Torsu B, Scherbakov D, Mollalo A, Obeid JS, Alekseyenko AV, Lenert LA. Machine learning in healthcare citizen science: A scoping review. Int J Med Inform. 2025;195:105766. doi: https://doi.org/10.1016/j.ijmedinf.2024.105766

Scherbakov D, Hubig N, Lenert L, Alekseyenko A, Obeid J. Natural Language Processing and Social Determinants of Health in Mental Health Research: AI-Assisted Scoping Review JMIR Ment Health 2025;12:e67192. DOI: https://doi.org/10.2196/67192

Popp CJ, Wang C, Hoover A, Gomez LA, Curran M, St-Jules DE, Barua S, Sevick MA, Kleinberg S. Objective determination of eating occasion timing: combining self-report, wrist motion, and continuous glucose monitoring to detect eating occasions in adults with prediabetes and obesity. J Diabetes Sci Technol. 2024;18(2). DOI: https://doi.org/10.1177/19322968231197205

Zhang Z, Chen X, Richardson W, Gao BZ, Razi A, Ye T. Quantification of cardiac capillarization in basement-membrane-immunostained myocardial slices using Segment Anything Model. Sci Rep 14, 15344 (2024). https://doi.org/10.1038/s41598-024-65567-3

Sk, M.S., Mwangomo, R., Daniel, L. and Gilmore, J. (2025), Solution Blow Spinning: An Emerging Nanomaterials-Based Wound-Care Technology. J Biomed Mater Res, 113: e35513. https://doi.org/10.1002/jbm.b.35513

Brennan C, Joly AG, Wang C-F, Xie T, O’Callahan BT, Crampton K, Teklu A, Shi L, Hu M, Zhang Q, Kuthirummal N, Suriya Arachchige H, Chaturvedi A, Zhang H, Mandrus D, Gong C, Gong Y. Strong surface-enhanced coherent phonon generation in van der Waals materials. J Phys Chem Lett. 2024;15(42). doi: https://doi.org/10.1021/acs.jpclett.4c02208

Museck IJ, Brinton DL, Dean JC. The Use of Wearable Sensors and Machine Learning Methods to Estimate Biomechanical Characteristics During Standing Posture or Locomotion: A Systematic Review. Sensors. 2024; 24(22):7280. https://doi.org/10.3390/s24227280

 Tang X, Hoover A. 2025. Video-based Intake Gesture Recognition Using Meal-length Context. ACM Trans. Comput. Healthcare 6, 2, Article 15 (April 2025), 24 pages. https://doi.org/10.1145/3709151

ADAPT in SC Year 3 Journal Publications

Knox S, Aghamoosa S, Heider PM, Cutty M, Wright A, Scherbakov D, Hood A, Nolin SA, Obeid JS. AI approaches for phenotyping Alzheimer’s disease and related dementias using electronic health records. Alzheimer’s Dement. 2025;11:e70089. https://doi.org/10.1002/trc2.70089

Tanarsuwongkul S, Liu J, Spaulding M, Perea-Schmittle K, Lohman M, Wang Q. Associations between social determinants of health and mental health disorders among U.S. population: a cross-sectional study. Epidemiol Psychiatr Sci. 2025 Jan 15;34:e4. doi: 10.1017/S2045796024000866.

Bagheri Rajeoni A, Pederson B, Lessner SM, Valafar H. Automated Aneurysm Boundary Detection and Volume Estimation Using Deep Learning. Diagnostics. 2025; 15(14):1804. https://doi.org/10.3390/diagnostics15141804

Dinkel Z, Baker A, Akins A, King KL, Harrington M, Kunkel D, Gao Z, Ye T, Dunn H. (2025) Collagen architecture in triple negative breast cancer. PLOS ONE 20(5):  e0324655. https://doi.org/10.1371/journal.pone.0324655

Sun S, Li J, Wang Q, Cross-coupling in hydrodynamic phase-field models for nonisothermal binary fluids. Chaos, Solitons & Fractals, Volume 195, 2025, 116286,ISSN 0960-0779, https://doi.org/10.1016/j.chaos.2025.116286

Gu X, Wang Q. (2025). Energy-Stable Swarm-Based Inertial Algorithms for Optimization. Journal of Scientific Computing. https://doi.org/10.48550/arXiv.2507.09909

Pan G, Ma H, Helke K, Pullen WM, Mukherji M, Eldridge D, Chen P, Mueller D, Sun S, Wua Y, Ye T, Yao H, Wang S. Four-month evaluation of vitrified meniscal allograft transplantation in a pig model. https://doi.org/10.1016/j.cryobiol.2025.105353

Salauddin SK M, Jamison A, Gilmore J. “Investigation of Structure-Processing-Property Relationships in Solution Blow-Spun PLA Nanofiber Mats.” Macromolecular Materials and Engineering311, no. 3 (2026): e70203. https://doi.org/10.1002/mame.70203

Cao, X, Wang, D, He, JX, Hou J, Li J, Jiang H, Wang Q. Machine learning glucose forecasting models for septic patients. Sci Rep 15, 40432 (2025). https://doi.org/10.1038/s41598-025-23057-0

Smith A, Jerzmanowski K, Raynor P, Corbett CF, Valafar H. Monitoring Opioid-Use-Disorder Treatment Adherence Using Smartwatch Gesture Recognition. Sensors. 2025; 25(8):2443. https://doi.org/10.3390/s25082443

Chen T, Quinn Z, Mishra K, O’Connor EC, Silver SE, Zhang Y, Valencia MJ, Mei Y, Behmoaras, Ferreira LMR, Chatterjee P. moPPIt: De Novo Generation of Motif-Specific and Functionally Active Peptide Binders via Discrete Flow Matching. bioRxiv. 2026. https://doi.org/10.1101/2024.07.31.606098

Wang M, Deng Y, Wang Y, Chen J, Li X, Du P, Zheng X, Qu J, Gao B, Peng X, and Shao Y. Analytical Chemistry 2025 97 (8), 4379-4386. DOI: https://doi.org/10.1021/acs.analchem.4c05470

Chen P, Chai J, Soundararajan A, Hepfer RG, Kheyfets B, Hu J, Alshanqiti I, Raman S, Tosa I, Huh JT, Yee M, Damon BJ, Wang S, Kim YS, Chung MK, Embree MC, Lee JS, Ye T, Yao H. Multiscale 3D Whole Joint Cellular and Molecular Mapping Reveals Disease-Specific Neurovascular Plasticity Underlying the Structure-Pain Relationship. Adv. Sci.13, no. 1 (2026): e11226. https://doi.org/10.1002/advs.202511226

King KL, Abdollahi H, Dinkel Z, Akins A, Valafar H, Dunn H. Pilot study: Initial investigation suggests differences in EMT-associated gene expression in breast tumor regions. Computational and Structural Biotechnology Journal, Volume 27, 2025, Pages 548-555, ISSN 2001-0370, https://doi.org/10.1016/j.csbj.2025.01.027

Turner-McGrievy GM, Delgado-Díaz DC, DuBois KE, Aydin HZ, Monroe CM, Kim Y, Hardin J, Wilcox S, Valafar H. The mLIFE randomized trial examining the impact of gamifying social support provision for weight loss. Obesity (Silver Spring). 2025;33(8):1447-1456. doi: https://doi.org/10.1002/oby.24330

Brown AL, Lian X, Wang Q. The Structure, Pathogenesis, and Inhibition of the p53-MDM2 Pathway. Cancers. 2026; 18(4):546. https://doi.org/10.3390/cancers18040546

Wang M, Wang L, Guo Y, Wang Y, Chen, Weng X, Li X, Du P, Qu J, Gao B, Yan W, Shao Y. (2025). Two-Photon Scanning Structured Illumination Super-Resolution Volume Microscopy Utilizing a Synthetic Beam by Superposing a Nondiffracting Airy Beam and a Gaussian Beam. ACS Photonics. 12. https://doi.org/10.1021/acsphotonics.5c00323

Knight, H. L., Schonhaut, E. B., Jacobs, C. J., & Dean, J. C. (2025). Validity of Poststroke Gait Spatiotemporal and Joint Excursion Metrics Between Inertial Measurement Units and a Marker-Based System. Journal of Applied Biomechanics, 41(6), 528-535. Retrieved Apr 24, 2026,  https://doi.org/10.1123/jab.2025-0098