PhDs in Pink, Master students in Green.

Preprints

  1. Mazzarisi, O., Droghetti, R., Carmichael, H., Ciandrini, L., Cosentino Lagomarsino, M., Dal Bello, M., Fant, L., Ghedini, G., Grilli, J., Yvon-Durocher, G., & others. (2025). Universal sublinear population growth density dependence unrelated to resource limitation. In bioRxiv (Number bioRxiv 2025.12.30.697033).
    BioRxiv
  2. Lavagna, E., Delfino, F., Koniukov, G., Paloni, M., Ciandrini, L., & Barducci, A. (2025). Uncovering the thermodynamic principles of enzymatic regulation in biomolecular condensates with reactive simulations. In bioRxiv (Number bioRxiv 2025.10. 13.682073).
    BioRxiv
  3. Keisers, J., Kern, N., & Ciandrini, L. (2025). Paused in translation: A model for the transcript length-dependent impact of ribosome-targeting antibiotics (Number arXiv:2507.19395).
    ArXiv

Refereed journal articles

  1. Keisers, J., Zovo, L. V. D., Kern, N., & Ciandrini, L. (2026). Biologically Relevant Finite-Size Effects in a Driven Lattice Gas with Particle Pausing and Dynamical Defects. Physical Review E (accepted).
    ArXiv
  2. Droghetti, R., Corigliano, M., Calabrese, L., Fuchs, P., Vaidyanathan, A., Keisers, J., Micali, G., Lagomarsino, M. C., & Ciandrini, L. (2026). The Hands-On Growth Laws Theory Cookbook. PRX Life, 4(1), 012001.
    DOI ArXiv
  3. Droghetti, R., Fuchs, P., Iuliani, I., Firmano, V., Tallarico, G., Calabrese, L., Grilli, J., Sclavi, B., Ciandrini, L., & Cosentino Lagomarsino, M. (2025). Incoherent feedback from coupled amino acids and ribosome pools generates damped oscillations in growing E. coli. Nature Communications, 16(1), 3063.
    DOI BioRxiv
  4. Calabrese, L., Ciandrini, L., & Cosentino Lagomarsino, M. (2024). How Total mRNA Influences Cell Growth. Proceedings of the National Academy of Sciences, 121(21), e2400679121.
    DOI BioRxiv
  5. Soubrier, C., Foxall, E., Ciandrini, L., & Dao Duc, K. (2024). Optimal Control of Ribosome Population for Gene Expression under Periodic Nutrient Intake. Journal of The Royal Society Interface, 21(212), 20230652.
    DOI ArXiv
  6. Ciandrini, L., Crisostomo, R. L., & Szavits-Nossan, J. (2023). TASEPy: A Python-based Package to Iteratively Solve the Inhomogeneous Exclusion Process. SciPost Physics Codebases, 022.
    DOI
  7. Eid, J., Socol, M., Naillon, A., Feuillard, J., Ciandrini, L., Margeat, E., Charlot, B., & Mougel, M. (2022). Viro-Fluidics: Real-time Analysis of Virus Production Kinetics at the Single-Cell Level. Biophysical Reports, 2(3).
    DOI
  8. Calabrese, L., Grilli, J., Osella, M., Kempes, C. P., Lagomarsino, M. C., & Ciandrini, L. (2022). Protein Degradation Sets the Fraction of Active Ribosomes at Vanishing Growth. PLOS Computational Biology, 18(5), e1010059.
    DOI
  9. Paloni, M., Bailly, R., Ciandrini, L., & Barducci, A. (2020). Unraveling Molecular Interactions in Liquid–Liquid Phase Separation of Disordered Proteins by Atomistic Simulations. The Journal of Physical Chemistry B, 124(41), 9009–9016.
    DOI
  10. Zúñiga, A., Guiziou, S., Mayonove, P., Meriem, Z. B., Camacho, M., Moreau, V., Ciandrini, L., Hersen, P., & Bonnet, J. (2020). Rational Programming of History-Dependent Logic in Cellular Populations. Nature Communications, 11(1), 4758.
    DOI
  11. Szavits-Nossan, J., & Ciandrini, L. (2020). Inferring Efficiency of Translation Initiation and Elongation from Ribosome Profiling. Nucleic Acids Res., 48(17), 9478–9490.
    DOI
  12. Rogalla, P. S., Rudge, T. J., & Ciandrini, L. (2019). An Equilibrium Model for Ribosome Competition. Physical Biology.
    DOI ArXiv
  13. Fernandes, L. D., & Ciandrini, L. (2019). Driven Transport on a Flexible Polymer with Particle Recycling: A Model Inspired by Transcription and Translation. Physical Review E, 99(5), 052409.
    DOI ArXiv
  14. Rousset, Y., Ciandrini, L., & Kern, N. (2019). Exclusion Process Subject to Conformational Size Changes. SciPost, 6(077).
    DOI ArXiv
  15. Szavits-Nossan, J., Ciandrini, L., & Romano, M. C. (2018). Deciphering mRNA Sequence Determinants of Protein Production Rate. Physical Review Letters, 120(12), 128101.
    DOI ArXiv
  16. Szavits-Nossan, J., Romano, M. C., & Ciandrini, L. (2018). Power Series Solution of the Inhomogeneous Exclusion Process. Physical Review E, 97(5), 1–13.
    DOI ArXiv
  17. Fernandes, L. D., de Moura, A. P. S., & Ciandrini, L. (2017). Gene Length as a Regulator for Ribosome Recruitment and Protein Synthesis: Theoretical Insights. Scientific Reports, 7(1), 17409.
    DOI
  18. Gorgoni, B., Ciandrini, L., McFarland, M. R., Romano, M. C., & Stansfield, I. (2016). Identification of the mRNA Targets of tRNA-specific Regulation Using Genome-Wide Simulation of Translation. Nucl. Acids Res., gkw630.
    DOI
  19. Ciandrini, L., Neri, I., Walter, J. C., Dauloudet, O., & Parmeggiani, A. (2014). Motor Protein Traffic Regulation by Supply–Demand Balance of Resources. Physical Biology, 11(5), 056006.
    DOI ArXiv
  20. Ciandrini, L., Romano, M. C., & Parmeggiani, A. (2014). Stepping and Crowding of Molecular Motors: Statistical Kinetics from an Exclusion Process Perspective. Biophys. J., 107(5), 1176–1184.
    DOI ArXiv
  21. Kemp, A. J., Betney, R., Ciandrini, L., Schwenger, A. C. M., Romano, M. C., & Stansfield, I. (2013-01-01, 2013). A Yeast tRNA Mutant That Causes Pseudohyphal Growth Exhibits Reduced Rates of CAG Codon Translation. Molecular Microbiology, 87(2), 284–300.
    DOI
  22. Turci, F., Parmeggiani, A., Pitard, E., Romano, M. C., & Ciandrini, L. (2013). Transport on a Lattice with Dynamical Defects. Physical Review E, 87(1), 012705.
    DOI ArXiv
  23. Ciandrini, L., Stansfield, I., & Romano, M. C. (2013). Ribosome Traffic on mRNAs Maps to Gene Ontology: Genome-Wide Quantification of Translation Initiation Rates and Polysome Size Regulation. Plos Computational Biology, 9(1), e1002866.
    DOI
  24. Greulich, P., Ciandrini, L., Allen, R. J., & Romano, M. C. (2012). Mixed Population of Competing Totally Asymmetric Simple Exclusion Processes with a Shared Reservoir of Particles. Physical Review E, 85(1).
    DOI ArXiv
  25. Brackley, C. A., Ciandrini, L., & Carmen Romano, M. (2012). Multiple Phase Transitions in a System of Exclusion Processes with Limited Reservoirs of Particles and Fuel Carriers. Journal of Statistical Mechanics: Theory and Experiment, 2012(03), P03002.
    DOI ArXiv
  26. Ciandrini, L., Stansfield, I., & Romano, M. C. (2010). Role of the Particle’s Stepping Cycle in an Asymmetric Exclusion Process: A Model of mRNA Translation. Physical Review E, 81(5).
    DOI ArXiv
  27. Ciandrini, L., Maffi, C., Motta, A., Bassetti, B., & Cosentino Lagomarsino, M. (2009). Feedback Topology and XOR-dynamics in Boolean Networks with Varying Input Structure. Physical Review E, 80(2), 026122.
    DOI ArXiv

Code

  1. Ciandrini, L., Crisostomo, R. L., & Szavits-Nossan, J. (2023). Codebase Release 1.1 for TASEPy. In SciPost Physics Codebases (p. 022).
    DOI repo

Datasets

  1. Calabrese, L., Cosentino Lagomarsino, M., & Ciandrini, L. (2021). Survey of protein degradation rates across growth conditions in E. coli and S. cerevisiae [Data set]. In Mendeley Data (p. V2).
    DOI dataset

Refereed conference proceedings

  1. Ciandrini, L. (2015). Molecular Motors with a Stepping Cycle: From Theory to Experiments. In M. Chraibi, M. Boltes, A. Schadschneider, & A. Seyfried (Eds.), Traffic and Granular Flow ’13 (pp. 619–627). Springer International Publishing.
    DOI