Journal Publications
2026
SD Deb, S Dey, DK Agrawal, “Synthesis of ventilator dyssynchrony waveforms using a hybrid generative model and a lung model”, Biomedical Signal Processing and Control 117, 109452, 2026
2025
AS Ben Geoffrey, D Agrawal, NM Kulkarni, M Gunasekaran, “Molecular Glue-Design-Evaluator (MOLDE): an advanced method for in-silico molecular glue design”, ACS omega 10 (7), 6650-6662, 2025
2024
D. K. Agrawal, B. J. Smith, P. D. Sottile, G. Hripcsak and D. J. Albers, “Quantifiable identification of flow-limited ventilator dyssynchrony with the deformed lung ventilator model”, Computers in Biology and Medicine, 173, 2023.
2023
K. J. Souza, and D. K. Agrawal, “Employing Toehold-Mediated DNA Strand Displacement Reactions for Biomedical Applications”, under review, 2023.
2021
D. K. Agrawal, B. J. Smith, P. D. Sottile and D. J. Albers, “A damaged-informed lung model for ventilator waveforms”, Frontiers in Physiology, section Respiratory Physiology, no. 14, 2021 (Impact Factor (IF): 4.8).
2020
S. W. Schaffter, J. Schneider, D. K. Agrawal, E. Rothchild, T. M. Murphy and R. Schulman “Reconfigurable DNA nanotube architectures via selective regulation of terminating structures”, ACS Nano, vol. 14, no. 10, pp. 13451–13462, 2020 (IF: 18).
D. K. Agrawal, and R. Schulman, “Modular protein-oligonucleotide signal exchange”, Nucleic Acids Research, vol. 48, no. 12, pp. 6431-6444, 2020 (IF: 19.6).
D. K. Agrawal, E.M. Dolan, N. E. Hernandez, K. M. Blacklock, S. D. Khare, and E. D Sontag, “Mathematical models of protease-based enzymatic biosensors”, ACS Synthetic Biology, vol. 9, no. 2, pp. 198-208, 2020 (IF: 5.1).
2019
D. K. Agrawal, R. Marshall, V. Noireaux, and E. D Sontag, “In vitro Implementation of Robust Gene Regulation in a Synthetic Biomolecular Integral Controller” Nature Communications, no.10, pp. 5760, 2019 (IF: 14.9).
Westbrook, X. Tang, R. Marshall, C. Maxwell, J. Chappell, D. K. Agrawal, M. J. Dunlop, V. Noireaux, C. Beisel, J. Lucks, E. Franco, “Distinct Timescales of RNA Regulators Enable the Construction of a Genetic Pulse Generator”, Biotechnology and Bioengineering, vol. 116, no. 5, pp. 1139-1151, 2019 (IF: 4.3).
2018
D. K. Agrawal, X. Tang, A. Westbrook, R. Marshall, C. S. Maxwell, J. Lucks, V. Noireaux, Chase L. Beisel, Mary J. Dunlop, and E. Franco, “Mathematical Modeling of RNA-Based Architectures for Closed Loop Control of Gene Expression”, ACS Synthetic Biology, vol. 7, no. 5, pp. 1219-1228, 2018 (IF: 5.1).
2017
D. K. Agrawal, R. Jiang, S. Reinhart, A. M. Mohammed, T. D. Jorgenson, and R. Schulman,“Terminating DNA Tile Assembly with Nanostructured Caps”, ACS Nano, vol. 11, no. 10, pp. 9770-9779, 2017 (IF: 18).
T. D. Jorgenson, A. M. Mohammed, D. K. Agrawal, and R. Schulman,“Self-Assembly of Hierarchical DNA Nanotube Architectures with well-defined Geometries”, ACS Nano, vol. 11, no. 2, pp. 1927-1936, 2017 (IF: 18).
2016
D. K. Agrawal, F. Bizzarri, A. Brambilla, and A. Seshia,“Numerical Verification of an Analytical Model for Phase Noise in MEMS Oscillators”, IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, vol. 63, no. 8, pp. 1204-1207, 2016 (IF: 3).
2015
D. K. Agrawal, E. Franco, and R. Schulman,“A Self-regulating Biomolecular Comparator for Processing Oscillatory Signals”, Journal of the Royal Society Interface, vol. 12, no. 111, pp. 20150586, 2015 (IF: 3.2).
2014
D. K. Agrawal and A. A. Seshia,“An Analytical Formulation for Phase Noise in MEMS Oscillators”, IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, vol. 61, no. 12, pp. 1938-1952, 2014 (IF: 3).
D. K. Agrawal, J. Woodhouse, and A. A. Seshia,“Synchronization in a Coupled Architecture of Microelectromechanical Oscillators”, Journal of Applied Physics, vol. 115, no. 16, pp. 164904, 2014 (IF: 2.3).
2013
D. K. Agrawal, J. Woodhouse, and A. A. Seshia,“Observation of Locked Phase Dynamics and Enhanced Frequency Stability in Synchronized Micromechanical Oscillators”, Physical Review Letters, vol. 111, no. 8, pp. 084101, 2013 (IF: 9.2).
D. K. Agrawal, J. Woodhouse, and A. A. Seshia,“Modeling Nonlinearities in MEMS Oscillators”, IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control, vol. 60, no. 8, pp. 1646-1659, 2013 (IF: 3).
2011
D. K. Agrawal and S. Bhattacharya,“Integrated Optical and MEMS Based Design Process for a Variable Optical Attenuator”, Optics and Lasers in Engineering, vol. 49, no. 7, pp. 848-854, 2011.