1. M. A. Ochoa. Lossy anharmonic polaritons under periodic driving. Phys. Rev. B. 110, 155411 (2024).
2. M. A. Ochoa, K. Liu, M.Zieliński, G. Bryant. Single-electron states of phosphorus-atom arrays in silicon. Phys. Rev. B. 109, 205412 (2024).
3. M. A. Ochoa, J. E. Maslar,  H. S. Bennett. GaSb band-structure models for electron density determinations from Raman measurements. J. Appl. Phys. 133, 155702 (2023).
4. M. A. Ochoa. Quantum thermodynamics of periodically driven polaritonic systems. Phys. Rev. E. 106, 064113 (2022).
5. M. Mondal, A. Semenov, M. A. Ochoa, A. Nitzan. Strong coupling in infrared plasmonic cavities. J. Phys. Chem. Lett. 13, 9673 (2022).
6. M. Mondal, M. A. Ochoa, M. Sukharev, A. Nitzan. Coupling, lifetimes and “strong coupling” maps for single molecules at plasmonic interfaces. J. Chem. Phys. 156, 154303 (2022).
7. M. A. Ochoa, J. E. Maslar,  H. S. Bennett. Extracting electron densities in n-type GaAs from Raman spectra: comparison with Hall measurements. J. Appl. Phys. 128, 075703  (2020). 
8. C. Rohmann, M. A. Ochoa, M. Zwolak. Metal adsorbate interactions and the convergence of density functional calculations. J. Chem. Phys. 152, 061102 (2020).
9. M. A. Ochoa, M. Zwolak. Optimal in situ electromechanical sensing of molecular species. J. Chem. Phys. 152, 034109 (2020).
10. M. A. Ochoa, M. Zwolak. Generalized Voigt broadening due to thermal fluctuations of electromechanical nanosensors and molecular electronic junctions. J. Chem. Phys. 150, 141102 (2019).
11. M. A. Ochoa, W. Belzig, A. Nitzan. Simultaneous measurement of non-commuting observables: a generalized Arthurs-Kelly protocol. Sci. Rep. 8, 15781 (2018).
12. W. Dou, M. A. Ochoa, A. Nitzan, J. E. Subotnik. A universal approach to quantum thermodynamics in the strong coupling regime. Phys. Rev. B 98, 134306 (2018).
13. M. A. Ochoa, N. Zymbovskaya, A. Nitzan. Quantum thermodynamics for driven dissipative bosonic systems. Phys. Rev. B 97, 085434 (2018).
14. C. Feng, M. A. Ochoa, M. Galperin. Nonequilibrium diagrammatic technique for Hubbard Green functions. J. Chem. Phys. 149 092301 (2017).
15. M. A. Ochoa, A. Bruch, A. Nitzan. Energy distribution and local fluctuations in strongly coupled open quantum systems: The extended resonant level model Phys. Rev. B 94, 035420 (2016).
16. M. A. Ochoa, Y. Selzer, U. Peskin, M. Galperin. Pump-probe Noise Spectroscopy of Molecular Junctions. J. Phys. Chem. Lett. 6, 470-476 (2015).
17. M. Esposito, M. A. Ochoa, M. Galperin. Nature of heat in strongly coupled open quantum systems. Phys. Rev. B 92, 235440 (2015).
18. M. Esposito, M. A. Ochoa, M. Galperin. Efficiency fluctuations in quantum thermoelectric devices. Phys. Rev. B 91, 115417 (2015).
19. M. Esposito, M. A. Ochoa, M. Galperin. Quantum thermodynamics: A nonequilibrium Green’s function approach. Phys. Rev. Lett. 114, 080602 (2015).[Editors’ Suggestion]
20. M. A. Ochoa, M. Galperin, M. A. Ratner. A non-equilibrium equation-of-motion approach to quantum transport utilizing projection operators. J. Phys.: Condens. Matter. 26, 455301 (2014). [Cover]
21.  A. J. White, M. A. Ochoa, M. Galperin. Nonequilibrium atomic limit for transport and optical response of molecular junctions. J. Phys. Chem. C 118, 11159-11173 (2014).[Feature Article]
22. M. A. Ochoa, P. Chen, R. F. Loring. Single Turnover Measurements of Nanoparticle Catalysis Analyzed with Dwell Time Correlation Functions and Constrained Mean Dwell Times J. Phys. Chem. C 117, 19074-19081 (2013).
23. M. A. Ochoa, X. Zhou, P. Chen, R. F. Loring. Interpreting single turnover catalysis measurements with constrained mean dwell times. J. Chem. Phys. 135 174509 (2011).

Book Chapters

1. M. A. Ochoa and A. Villaveces. Sheaves of Metric Structures. Berlin, Heidelberg: Springer Berlin Heidelberg, Chapter 20, 297-315, (2016). (Book Chapter)

Theses

1. Statistical Analysis of Single Nanoparticle Catalysis.
2. Model theory of Metric Sheaves.