Nonlinear Dynamics and Modeling of Complex Systems                                                       

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1. Control of modular tissue flows shaping the embryo in avian gastrulation
   G. Serrano Nájera*, A. M. Plum*, B. Steventon, C. J. Weijer and M. Serra
    (submitted) biorxiv:2024.07.04.601785 [PDF] 
    

2. Control of epiblast cell fate by mechanical cues
   C. Guillot*, Y. Djeffal*, M. Serra*, and O. Pourquié
   (submitted) biorxiv:2024.06.24.600402 [PDF] 
    

3. Mechanochemical pre-gastrulation patterning mechanisms in the chick embryo
   S. Santhosh, M. Chuai, C. J. Weijer and M. Serra 
   (submitted)
                                                                      [PDF]

4. Activity-driven extracellular volume expansion drives vertebrate axis elongation
   A. Michaut, A. Mongera, A. Gupta, M. Serra,..., O. Pourquie
   (submitted) biorxiv:2022.06.27.497799 [PDF] 
    

5. A multimodal zebrafish developmental atlas reveals the state-transition dynamics of late-vertebrate pluripotent axial progenitors
   M. Lange,..., M. Serra, N. Neff, A.O. Pisco, and L.A. Royer 
   Cell (in press) (2024) [PDF] 
    

6. Optimal Control of Short-Time Attractors in Active Nematics
   C. Sinigaglia, F. Braghin, and M. Serra
   PRL 132, 218302 (2024) [PDF]     
    

7. A mechanochemical model recapitulates distinct vertebrate gastrulation modes                                                        M. Serra, G. S. Nájera, M. Chuai, A. M. Plum, S. Santhosh, V. Spandan, C. J. Weijer, and L. Mahadevan        Science Advances 9.49 (2023) [PDF] Featured image in Science Advances, UCSD News
    

8. Reconstruction of distinct vertebrate gastrulation modes via modulation of key cell behaviors in the chick embryo
   M.Chuai*, G. S. Nájera*, M. Serra, L. Mahadevan, and C. J. Weijer                                             
   Science Advances 9.1 (2023) [PDF]  
    

9. Defect-mediated dynamics of coherent structures in active nematics
   M. Serra, L. Lemma, L. Giomi, Z. Dogic, and L. Mahadevan
   Nature Physics 1-7 (2023) [PDF]  
    

10. Spike formation theory in three-dimensional flow separation
    S. Santhosh, H. Qin, B. F. Klose, G. B. Jacobs, J. Vétel, and M. Serra          
    J. Fluid Mech. 969, A25 (2023) [PDF]     
     

11. Optimal Locomotion for Limbless Crawlers
    S. Santhosh and M. Serra
    PRE 106,024610 (2022) [PDF] 
     

12. Detecting Lagrangian coherent structures from sparse and noisy trajectory data
    ​S. Molawi, M. Serra, E. Maiorino, and L. Mahadevan
    J. Fluid Mech. 948, A4. (2022)  [PDF] Python code available here                                                                       

13. Optimal policies for mitigating pandemic costs: a tutorial model
    M. Serra*, S. al-Mosleh*, S Ganga Prasath*, V. Raju*, S. Mantena, J. Chandra, S. Iams, and L. Mahadevan
    Physical Biology, 19 055001 (2022) [PDF] MATLAB code available here                                                                    

14. Horizontal transport in oil-spill modeling
    R. Duran, T. Nordam, M. Serra, and C. Barker 
    Elsevier, In Marine Hydrocarbon Spill Assessments, pp. 59-96., (2021)  [PDF]
     

15. A Measure of Morphodynamics
    M. Serra and L. Mahadevan
    SIAM News, vol. 54, n. 03, April (2021) [PDF]
     

16. Objective early identification of kinematic instabilities in shear flows                                                                      B. F. Klose*, M. Serra*, and G. B. Jacobs                                                                                                  arXiv:2009.05851 [PDF]                                                                                                                                                

17. Finite-time Lyapunov exponents in the instantaneous limit and material transport
    P. Nolan, M. Serra, and S. Ross
    Nonlinear Dynamics, 1-28  (2020) [PDF] 
     

18. Search and rescue at sea aided by hidden flow structures
    M. Serra, P. Sathe, I. Rypina, A. Kirincich, S. Ross, P. Lermusiaux, A. Allen, T. Peacock, and G. Haller 
    Nature Communications, 11 2525 (2020). [PDF] MATLAB code available here 
    MIT News, ETH News, US NSF News, Scientific American,  BBC Science, AMS   
    Science Journal for kids version
     

19. Dynamic morphoskeletons in development
    M. Serra, S. Streichan, M. Chuai, C. J. Weijer, and L. Mahadevan
    PNAS 117.21 (2020) [PDF] - featured on Harvard SEAS News 
     

20. Vortex boundaries as barriers to diffusive vorticity transport in two-dimensional flows
    S. Katsanoulis, M. Farazmand, M. Serra, and G. Haller 
    Physical Review Fluids, 5 024701 (2020) [PDF] MATLAB code available here 
     

21. The Kinematics of Lagrangian Flow Separation in External Aerodynamics
    B. F. Klose, G. B. Jacobs, and M. Serra 
    AIAA Journal, (2020) [PDF]
     

22. Material spike formation in highly unsteady separated flows
    M. Serra, S. Crouzat, G. Simon, J. Vétel, and G. Haller
    J. Fluid Mech. 883 A30 (2019) [PDF]  
     

23. Variational Lagrangian formulation of the Euler equations for incompressible flow: A simple derivation
    M. Farazmand and M. Serra
    arXiv:1807.02726 (2018) [PDF]
     

24. Exact Theory of Material Spike Formation in Flow Separation
    M. Serra, J. Vétel, and G. Haller
    J. Fluid Mech. 845 (2018) 51-92. [PDF]
    
    

25. Uncovering the Edge of the Polar Vortex
    M. Serra, P. Sathe, F. Beron-Vera, and G. Haller
    J. Atm. Sci. 74 (11) 3871–3885, (2017). [PDF]
    Featured on Forbes - (31-01-19) 
     

26. Efficient Computation of Null Geodesics with Applications to Coherent Vortex Detection
    M. Serra and G. Haller
    Proc. of the Royal Soc. A (2017) 473 20160807. [PDF] MATLAB code available here 
    Featured on the journal's cover page
     

27. Forecasting Long-Lived Lagrangian Vortices from their Objective Eulerian Footprints
    M. Serra and G. Haller
    J. Fluid Mech. 813 (2017) 436-457. [PDF] 
     

28. Objective Eulerian coherent structures
    M. Serra and G. Haller
    Chaos, 26 (2016) 053110. [PDF] Editor's pick 
     

29. Dependent modal space control: Experimental test rig
    M. Serra, F. Ripamonti, and F. Resta
    J. Vibration and Control (2015): 1077546315616699. [PDF]
     

30. Dependent modal space control
    M. Serra, F. Ripamonti, and F. Resta
    Smart Materials and Structures 22.10 (2013): 105004. [PDF]