Publications

Preprints (*trainee)

1. Bacteria Through Obstacles: Unifying Fluxes, Entropy Production, and Extractable Work in Living Active Matter   Read
   S Anand*, X Ma, S Guo, S. Martiniani, X Cheng, arXiv preprint arXiv:2308.08421 (2023)
2. Element-wise and Recursive Solutions for the Power Spectral Density of Biological Stochastic Dynamical Systems at Fixed Points  Read
   S. Rawat*, S. Martiniani, arXiv preprint arXiv:2305.19890 (2023)
3. Fast Generation of Spectrally-Shaped Disorder  Read
   A. Shih*, M. Casiulis*, S. Martiniani, arXiv preprint arXiv:2305.15693 (2023)

Published

4. ColabFit Exchange: open-access datasets for data-driven interatomic potentials  Read
   A. Vita*, E. G. Fuemmeler*, A. Gupta*, G.P. Wolfe*, A. Q. Tao*, R. S. Elliott, S. Martiniani, E. B. Tadmor, J. Chem. Phys. 159, 154802 (2023)
5. Predicting and Interpreting Protein Developability via Transfer of Convolutional Sequence Representation  Read
   A. W. Golinski*, Z. D. Schmitz*, G. H. Nielsen, B. Johnson*, D. Saha*, S. Appiah*, B. J. Hackel, S. Martiniani, ACS Synthetic Biology 12 (9), 2600-2615
6. Coherence influences the dimensionality of communication subspaces  Read
   S. Rawat*, D. Heeger, S. Martiniani. Cosyne Abstracts (2023)
7. Bit-propelled active matter  Read
   S. Martiniani, Journal Club for Condensed Matter Physics, March 2023.
8. When you can’t count sample! Computable entropies beyond equilibrium from basin volumes  Read
   M. Casiulis*, S. Martiniani, Papers in Physics, 15, 150001 (2023).
• Invited perspective in “Focus Series on Challenges in Granular Matter”, Editors: K. Daniels, L. Pugnaloni, J. Zhao.
9. Estimating random close packing in polydisperse and bidisperse hard spheres via an equilibrium model of crowding  Read
   C. Anzivino, M. Casiulis*, T. Zhang,* A. S. Moussa, S. Martiniani, A. Zaccone, J. Chem. Phys., 158, 044901 (2023)
10. Model-Free Measurement of Local Entropy Production and Extractable Work in Active Matter  Read
    S. Ro, B. Guo, A. Shih*, T.V. Phan, R.H. Austin, D. Levine, P.M. Chaikin, S. Martiniani, Phys. Rev. Lett. 129, 220601 (2022).
• Cover article for Phys. Rev. Lett.
• Highlighted as Editor's Suggestion in Phys. Rev. Lett.
• Highlighted in “ Viewpoint: Measuring Entropy in Active-Matter Systems”, Physics 15, 179 (2022)
11. High-Throughput Developability Assays Enable Library-Scale Identification of Producible Protein Scaffold Variants  Read
    A. W. Golinski*, K. M. Mischler, S. Laxminarayan, N. Neurock, M. Fossing, H. Pichman, S. Martiniani, B. J. Hackel, Proc. Natl. Acad. Sci., 118, 23 (2021)
12. Vicsek Model by Time-Interlaced Compression: a Dynamical Computable Information Density  Read
    A. Cavagna, P. M. Chaikin, D. Levine, S. Martiniani, A. Puglisi, M. Viale, Phys. Rev. E 103, 062141 (2021)
13. Correlation lengths in the language of computable information  Read
    S. Martiniani, Y. Lemberg, P. M. Chaikin, D. Levine, Phys. Rev. Lett., 125, 170601 (2020)
14. Quantifying hidden order out of equilibrium  Read
    S. Martiniani, P. M. Chaikin, D. Levine, Phys. Rev. X, 9, 011031 (2019)
• Highlighted in “File compression uncovers hidden order”, Physics Today (2019).
15. Numerical test of the Edwards conjecture shows that all packings become equally probable at jamming  Read
    S. Martiniani, K. J. Schrenk, K. Ramola, B. Chakraborty, D. Frenkel, Nature Physics, 13, 848-851 (2017)
• Highlighted in “Intuition harnessed in the name of particle packing”, Nature, 546, 575 (2017).
• Highlighted in “A thermodynamic theory of granular materials endures”, Physics Today 70, 9 (2017).
• Highlighted in “Material Witness: A jammy guess?”, Nature Materials, 15, 1227 (2016).
16. Monte Carlo sampling for stochastic weight functions  Read
    D. Frenkel, K. J. Schrenk, S. Martiniani, Proc. Natl. Acad. Sci., 114, 27 (2017)
17. A. J. Ballard, R. Das, S. Martiniani, D. Mehta, L. Sagun, J. D. Stevenson, D. J. Wales, “Energy Landscapes for Machine Learning”, Phys. Chem. Chem. Phys., 19, 12585 (2017)   Read
• Cover article for Phys. Chem. Chem. Phys.
18. Structural analysis of high dimensional basins of attraction  Read
    Martiniani, K. J. Schrenk, J. D. Stevenson, D. J. Wales, D. Frenkel, Phys. Rev. E 94, 031301 (2016)
19. Turning intractable counting into sampling: computing the configurational entropy of three-dimensional jammed packings  Read
    S. Martiniani, K. J. Schrenk, J. D. Stevenson, D. J. Wales, D. Frenkel, Phys. Rev. E 93, 012906 (2016)
• Highlighted in NewScientist and other news sources, see Press.
20. Exploiting the potential energy landscape to sample free energy   Read
    A. J. Ballard, S. Martiniani, J. D. Stevenson, S. Somani, D. J. Wales, WIREs Comput. Mol. Sci. 5, 273 (2015)
21. Superposition Enhanced Nested Sampling  Read
    S. Martiniani, J. D. Stevenson, D. J. Wales, D. Frenkel, Phys. Rev. X 4, 031034 (2014)
22. Near-infrared absorbing squaraine dye with extended π conjugation for dye-sensitized solar cells  Read
    C. Magistris†, S. Martiniani†, N. Barbero, J. Park, C. Benzi, A. Anderson, C. H. Law, C. Barolo, B. C. O'Regan, Renewable Energy 60, 672 (2013)
23. The Mechanism of Iodine Reduction by TiO2 Electrons and the Kinetics of Recombination in Dye-Sensitized Solar Cells  Read
    C. E. Richards, A. Y. Anderson, S. Martiniani, C. Law, B. C. O'Regan, J. Phys. Chem. Lett. 3, 1980 (2012)
24. New insight into the regeneration kinetics of dye sensitised solar cells  Read
    S. Martiniani, A. Y. Anderson, C. Law, B. C. O'Regan and C. Barolo, Chem. Commun. 48, 2406 (2012)

Ph.D. Theses

25. Data-driven approach to engineering protein evolvability and developability  Read
    A. Golinsky*, University of Minnesota (2021)
26. On the complexity of energy landscapes: algorithms and a direct test of the Edwards conjecture  Read
    S. Martiniani, University of Cambridge (2017)