D. Bray, Cell Movements: from molecules to motility, 2001.

A. C. Dufour, J. Olivo-marin, and N. Guillen, Amoeboid movement in protozoan pathogens, Seminars in Cell & Developmental Biology, vol.46, pp.128-134010, 2015.
DOI : 10.1016/j.semcdb.2015.10.010

B. Maugis, Dynamic instability of the intracellular pressure drives bleb-based motility, Journal of Cell Science, vol.123, issue.22, pp.3884-9210, 2010.
DOI : 10.1242/jcs.065672
URL : https://hal.archives-ouvertes.fr/hal-00821337

G. Salbreux, G. Charras, and E. Paluch, Actin cortex mechanics and cellular morphogenesis, Trends in Cell Biology, vol.22, issue.10, pp.536-545, 2012.
DOI : 10.1016/j.tcb.2012.07.001

O. Campàs, Quantifying cell-generated mechanical forces within living embryonic tissues, Nature Methods, vol.95, issue.2, pp.183-92761, 2014.
DOI : 10.1002/jps.20150

O. Du-roure, Force mapping in epithelial cell migration, Proceedings of the National Academy of Sciences, vol.88, issue.1, pp.2390-23950408482102, 2005.
DOI : 10.1002/cm.20041
URL : https://hal.archives-ouvertes.fr/hal-00188271

H. Delanoe-ayari, J. P. Rieu, and M. Sano, 4D traction force microscopy reveals asymmetric cortical forces in migrating dictyostelium cells, Physical Review Letters, vol.105, pp.2-5, 2010.

D. Álamo and J. C. , Three-Dimensional Quantification of Cellular Traction Forces and Mechanosensing of Thin Substrata by Fourier Traction Force Microscopy, PLoS ONE, vol.8, 2013.

K. Keren, P. T. Yam, A. Kinkhabwala, A. Mogilner, and J. A. Theriot, Intracellular fluid flow in rapidly moving cells, Nature Cell Biology, vol.192, issue.10, pp.1219-122410, 2009.
DOI : 10.1016/j.tcb.2003.09.002
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2867054

E. A. Katrukha, Probing cytoskeletal modulation of passive and active intracellular dynamics using nanobody-functionalized quantum dots, Nature communications, vol.8, pp.1-8, 2017.

S. Marion, N. Guillen, J. C. Bacri, and C. Wilhelm, Acto-myosin cytoskeleton dependent viscosity and shear-thinning behavior of the amoeba cytoplasm, European Biophysics Journal, vol.93, issue.3, pp.262-27210, 2005.
DOI : 10.1091/mbc.9.6.1537

A. D. Lieber, S. Yehudai-resheff, E. L. Barnhart, J. A. Theriot, and K. Keren, Membrane Tension in Rapidly Moving Cells Is Determined by Cytoskeletal Forces, Current Biology, vol.23, issue.15, pp.1409-1426, 2013.
DOI : 10.1016/j.cub.2013.05.063
URL : http://doi.org/10.1016/j.cub.2013.05.063

O. Brzobohatý, Three-dimensional optical trapping of a plasmonic nanoparticle using low numerical aperture optical tweezers Scientific reports 5, pp.10-1038, 2015.

R. J. Adrian, Twenty years of particle image velocimetry, Experiments in Fluids, vol.10, issue.2, pp.159-169, 2005.
DOI : 10.1007/978-3-662-03637-2

O. L. Lewis, S. Zhang, R. D. Guy, and C. A. Juan, Coordination of contractility, adhesion and flow in migrating Physarum amoebae, Journal of The Royal Society Interface, vol.8, issue.67, 2015.
DOI : 10.1088/1748-3182/8/3/035001

C. T. Lim, E. H. Zhou, and S. T. Quek, Mechanical models for living cells???a review, Journal of Biomechanics, vol.39, issue.2, pp.195-216008, 2004.
DOI : 10.1016/j.jbiomech.2004.12.008

A. Mogilner, Mathematics of cell motility: have we got its number?, Journal of Mathematical Biology, vol.54, issue.101, pp.105-13410, 2009.
DOI : 10.1137/04060370X
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2862828

W. R. Holmes and L. Edelstein-keshet, A Comparison of Computational Models for Eukaryotic Cell Shape and Motility, PLoS Computational Biology, vol.49, issue.19, 2012.
DOI : 10.1371/journal.pcbi.1002793.t001

J. Brugués, Dynamical organization of the cytoskeletal cortex probed by micropipette aspiration, Proceedings of the National Academy of Sciences, vol.134, issue.3475, pp.15415-1542010, 2010.
DOI : 10.1126/science.134.3475.336

A. Taloni, Volume Changes During Active Shape Fluctuations in Cells, Physical Review Letters, vol.114, issue.20, 2015.
DOI : 10.1002/(SICI)1097-4652(199604)167:1<156::AID-JCP18>3.0.CO;2-9
URL : http://arxiv.org/pdf/1505.03397

T. E. Woolley, Global contraction or local growth, bleb shape depends on more than just cell structure, Journal of Theoretical Biology, vol.380, pp.83-97, 2015.
DOI : 10.1016/j.jtbi.2015.04.023

M. Tozluoglu, Y. Mao, P. A. Bates, and E. Sahai, Cost-benefit analysis of the mechanisms that enable migrating cells to sustain motility upon changes in matrix environments, Journal of The Royal Society Interface, vol.58, issue.4-5, 2015.
DOI : 10.1007/s00285-008-0217-8

W. Strychalski and R. D. Guy, Intracellular Pressure Dynamics in Blebbing Cells, Biophysical Journal, vol.110, issue.5, pp.1168-79012, 2016.
DOI : 10.1016/j.bpj.2016.01.012
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4788720

R. Lockley, G. Ladds, and T. Bretschneider, Image based validation of dynamical models for cell reorientation, Cytometry Part A, vol.111, issue.32, pp.471-80, 2015.
DOI : 10.1073/pnas.1412197111

R. Niwayama, Bayesian Inference of Forces Causing Cytoplasmic Streaming in Caenorhabditis elegans Embryos and Mouse Oocytes, PLOS ONE, vol.508, issue.7, p.159917, 2016.
DOI : 10.1371/journal.pone.0159917.s009

B. K. Horn and B. G. Schunck, Determining optical flow, Artificial Intelligence, vol.17, issue.1-3, pp.185-203, 1981.
DOI : 10.1016/0004-3702(81)90024-2
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.185.1651

O. Talagrand and P. Courtier, Variational Assimilation of Meteorological Observations With the Adjoint Vorticity Equation. I: Theory, Quarterly Journal of the Royal Meteorological Society, vol.8, issue.10, pp.1311-132810, 1987.
DOI : 10.1007/978-3-642-65024-6

F. De-chaumont, Icy: an open bioimage informatics platform for extended reproducible research, Nature Methods, vol.9, issue.7, pp.690-62075, 2012.
DOI : 10.1038/nmeth.1924

M. D. Gunzberger, Perspectives in Flow Control and Optimization (Advances in Design and Control), 2003.

L. Vayssié, M. Vargas, C. Weber, and N. Guillén, Double-stranded RNA mediates homology-dependant gene silencing of ??-tubulin in the human parasite Entamoeba histolytica, Molecular and Biochemical Parasitology, vol.138, issue.1, pp.21-28005, 2004.
DOI : 10.1016/j.molbiopara.2004.07.005

C. G. Clark, Structure and Content of the Entamoeba histolytica Genome, Advances in Parasitology, vol.65, pp.51-19065002, 2007.
DOI : 10.1016/S0065-308X(07)65002-7

K. Matsumoto, S. Takagi, and T. Nakagaki, Locomotive Mechanism of Physarum Plasmodia Based on Spatiotemporal Analysis of Protoplasmic Streaming, Biophysical Journal, vol.94, issue.7, pp.2492-504, 2008.
DOI : 10.1529/biophysj.107.113050

H. Keller and P. Eggli, Protrusive activity, cytoplasmic compartmentalization, and restriction rings in locomoting blebbing Walker carcinosarcoma cells are related to detachment of cortical actin from the plasma membrane, Cell Motility and the Cytoskeleton, vol.9, issue.2, pp.181-19310, 1998.
DOI : 10.1242/jcs.1988.Supplement_9.9

J. V. Small, T. Stradal, E. Vignal, and K. Rottner, The lamellipodium: where motility begins, Trends in Cell Biology, vol.12, issue.3, pp.112-12010, 2002.
DOI : 10.1016/S0962-8924(01)02237-1

F. Y. Lim, Y. L. Koon, and K. Chiam, A computational model of amoeboid cell migration Computer methods in biomechanics and biomedical engineering 16, pp.1085-95757598, 2013.

J. F. Casella, M. D. Flanagan, and S. Lin, Cytochalasin D inhibits actin polymerization and induces depolymerization of actin filaments formed during platelet shape change, Nature, vol.227, issue.5830, pp.302-307, 1981.
DOI : 10.1101/SQB.1973.037.01.069

E. Purcell, Life at low Reynolds number, American Journal of Physics, vol.45, issue.1, pp.3-11, 1977.
DOI : 10.1119/1.10903

S. Marion, C. Wilhelm, H. Voigt, J. Bacri, and N. Guillén, Overexpression of myosin IB in living Entamoeba histolytica enhances cytoplasm viscosity and reduces phagocytosis, Journal of Cell Science, vol.117, issue.15, pp.3271-327910, 2004.
DOI : 10.1242/jcs.01178

U. S. Schwarz, Calculation of Forces at Focal Adhesions from Elastic Substrate Data: The Effect of Localized Force and the Need for Regularization, Biophysical Journal, vol.83, issue.3, pp.1380-139410, 2002.
DOI : 10.1016/S0006-3495(02)73909-X

C. Franck, S. A. Maskarinec, D. Tirrell, and G. Ravichandran, Three-Dimensional Traction Force Microscopy: A New Tool for Quantifying Cell-Matrix Interactions, PLoS ONE, vol.38, issue.3, 2011.
DOI : 10.1371/journal.pone.0017833.s003
URL : http://doi.org/10.1371/journal.pone.0017833

J. R. Soiné, Model-based Traction Force Microscopy Reveals Differential Tension in Cellular Actin Bundles, PLOS Computational Biology, vol.110, issue.3, 2015.
DOI : 10.1371/journal.pcbi.1004076.s003

O. C. Zienkiewicz, R. L. Taylor, P. Nithiarasu, . Biofluid, and . Dynamics, In The Finite Element Method for Fluid Dynamics, pp.451-84, 2014.

S. Butterworth, On the Theory of Filter Amplifiers, Wireless Engineer, vol.7, pp.536-541, 1930.

N. Morone, Three-dimensional reconstruction of the membrane skeleton at the plasma membrane interface by electron tomography, The Journal of Cell Biology, vol.74, issue.6, pp.851-86210, 2006.
DOI : 10.1038/ncb1371

K. Aoki, A RhoA and Rnd3 cycle regulates actin reassembly during membrane blebbing, Proceedings of the National Academy of Sciences, vol.10, issue.4, pp.1863-711600968113, 2016.
DOI : 10.1038/nprot.2013.143
URL : http://www.pnas.org/content/113/13/E1863.full.pdf

R. Bharadwaj, R. Arya, S. Bhattacharya, and A. Bhattacharya, EhRho1 regulates plasma membrane blebbing through PI3 kinase in Entamoeba histolytica. Cellular Microbiology, p.12751, 2017.

B. He, K. Doubrovinski, O. Polyakov, and E. Wieschaus, Apical constriction drives tissue-scale hydrodynamic flow to mediate cell elongation, Nature, vol.120, issue.7496, pp.392-398, 2014.
DOI : 10.1006/jcph.2000.6582
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4111109

J. G. Goetz, Endothelial Cilia Mediate Low Flow Sensing during Zebrafish Vascular Development, Cell Reports, vol.6, issue.5, pp.799-808032, 2014.
DOI : 10.1016/j.celrep.2014.01.032
URL : https://hal.archives-ouvertes.fr/hal-01311698

L. S. Diamond, D. R. Harlow, and C. C. Cunnick, A new medium for the axenic cultivation of Entamoeba histolytica and other Entamoeba, Transactions of the Royal Society of Tropical Medicine and Hygiene, vol.72, issue.4, pp.431-433, 1978.
DOI : 10.1016/0035-9203(78)90144-X

J. A. Cooper, Effects of cytochalasin and phalloidin on actin, The Journal of Cell Biology, vol.105, issue.4, pp.1473-8069, 1987.
DOI : 10.1083/jcb.105.4.1473

S. Münter, Actin polymerisation at the cytoplasmic face of eukaryotic nuclei, BMC cell biology, vol.7, issue.23, pp.10-1186, 2006.

R. Thibeaux, Newly visualized fibrillar collagen scaffolds dictate Entamoeba histolytica invasion route in the human colon, Cellular Microbiology, vol.20, issue.5, pp.609-621, 2012.
DOI : 10.1016/j.semcdb.2009.08.005

L. Dimet, F. Talagrand, and O. , Variational algorithms for analysis and assimilation of meteorological observations: theoretical aspects, Tellus A, vol.109, issue.2, pp.97-110, 1986.
DOI : 10.1007/978-3-642-65024-6

A. Dufour, R. Thibeaux, E. Labruyère, N. Guillén, and J. Olivo-marin, 3-D Active Meshes: Fast Discrete Deformable Models for Cell Tracking in 3-D Time-Lapse Microscopy, IEEE Transactions on Image Processing, vol.20, issue.7, pp.1925-3710, 2010.
DOI : 10.1109/TIP.2010.2099125

A. Logg, K. Mardal, and G. Wells, Automated Solution of Differential Equations by the Finite Element Method, Lecture Notes in Computational Science and Engineering, vol.84, 2012.
DOI : 10.1007/978-3-642-23099-8

P. R. Amestoy, I. S. Duff, J. L-'excellent, and J. Koster, A Fully Asynchronous Multifrontal Solver Using Distributed Dynamic Scheduling, SIAM Journal on Matrix Analysis and Applications, vol.23, issue.1, pp.15-4110, 2001.
DOI : 10.1137/S0895479899358194
URL : https://hal.archives-ouvertes.fr/hal-00808293