Contact

  • Academic
    kotarom@stanford.edu
    University - Scholar Department: Anesthesiology, Perioperative and Pain Medicine Position: Postdoctoral Scholar

Additional Info

  • Mail Code: 5640

All Publications

  • Single-cell-level digital twins for preterm birth prevention strategies. bioRxiv : the preprint server for biology Einhaus, J., Neidlinger, P., Fondeur, O., Sato, M., Anronikov, A., Miyazaki, K., Amar, J. N., Ando, K., Badea, V., Gaudilliere, D. K., Sabayev, M., Feyaerts, D., Diop, M., Tsai, A. S., Cambriel, A., Ganio, E. A., Lagarde, R., O'Kelly, E., Stelzer, I. A., Hedou, J., Wong, R. J., Blumenfeld, Y. J., Lyell, D. J., Shaw, G. M., Oskotsky, T. T., Sirota, M., Giudice, L., Stevenson, D. K., Aghaeepour, N., Gaudilliere, B. 2025

    Abstract

    Digital twin models can accelerate therapeutic development by enabling low-risk testing of candidate interventions. In preterm labor (PTL), a major pregnancy complication where clinical trials face unique ethical and financial barriers, digital twins are especially valuable for evaluating new therapies targeting immune dysfunctions driving PTL. Yet, current models lack single-cell resolution, limiting detection of cell-type-specific mechanisms, off-target effects, and the design of personalized interventions. We present Simulated Immunome Modeling of Clinical Outcomes (SIMCO), a single-cell-level digital twin framework that models immunomodulatory treatment effects on the timing of labor using immunome-wide, single-cell simulations. SIMCO's digital twins are trained and validated on a newly generated mass cytometry atlas of the pregnant immunome exposed to nine candidate drugs preselected for PTL prevention. Applying SIMCO to an independent cohort of pregnant individuals, we simulate treatment effects on gestational length, screening for candidate drugs that delay labor timing and providing system-level mechanistic insight for each drug candidate. Tetrahydrofolate, maprotiline, and the combination of aspirin and lansoprazole emerged as top candidates for PTL prevention, delaying labor onset primarily through enhanced mTOR signaling in innate immune cells and attenuated JAK/STAT signaling in naïve CD4+ T cells. The codebase is available at https://github.com/ofondeur/SIMCO/.

    View details for DOI 10.1101/2025.09.29.679252

    View details for PubMedID 41256687

    View details for PubMedCentralID PMC12621756

  • Immune Profile of Palmar Cooling on Delayed Onset of Muscle Soreness Tsai, A., Vinh Cao, Anronikov, S., Miyazaki, K., Liu, C., Darracott, C., Einhaus, J., Gaudilliere, D., Gaudilliere, B., Heller, H. LIPPINCOTT WILLIAMS & WILKINS. 2025: 700-701

    View details for Web of Science ID 001551889100272