Y. Alemu, G. Girdhar, M. Xenos, J. Sheriff, J. Jesty et al., Design Optimization of a Mechanical Heart Valve for Reducing Valve Thrombogenicity???A Case Study with ATS Valve, ASAIO Journal, vol.56, issue.5, pp.389-396, 2010.
DOI : 10.1097/MAT.0b013e3181e65bf9

M. Anand, K. Rajagopal, and K. Rajagopal, A Model Incorporating Some of the Mechanical and Biochemical Factors Underlying Clot Formation and Dissolution in Flowing Blood, Journal of Theoretical Medicine, vol.138, issue.3-4, pp.183-218, 2003.
DOI : 10.1080/10273660412331317415

M. Anand, K. Rajagopal, and K. Rajagopal, A model for the formation, growth, and lysis of clots in quiescent plasma. A comparison between the effects of antithrombin III deficiency and protein C deficiency, Journal of Theoretical Biology, vol.253, issue.4, pp.725-738, 2008.
DOI : 10.1016/j.jtbi.2008.04.015

B. Armaly, F. Durst, and J. Pereira, Experimental and theoretical investigation of backward-facing step flow, Journal of Fluid Mechanics, vol.86, issue.-1, pp.473-496, 1983.
DOI : 10.1017/S0022112067001892

D. Basmadjian, M. Sefton, and S. Baldwin, Coagulation on biomaterials in flowing blood: Some theoretical considerations, pp.1511-1522, 1997.
DOI : 10.1016/s0142-9612(97)00101-4

J. Biasetti, P. Spazzini, J. Swedenborg, and T. Gasser, An Integrated Fluid-Chemical Model Toward Modeling the Formation of Intra-Luminal Thrombus in Abdominal Aortic Aneurysms, Frontiers in Physiology, vol.3, issue.266, 2012.
DOI : 10.3389/fphys.2012.00266

I. Celik, U. Ghia, P. Roache, C. Freitas, H. Coleman et al., Procedure for estimation and reporting of uncertainty due to discretization in cfd applications, J. Fluids Eng, vol.130, p.78001, 2008.

M. Chan, J. Weitz, Y. Merhi, R. Harrington, and R. Becker, Catheter thrombosis and percutaneous coronary intervention: fundamental perspectives on blood, artificial surfaces and antithrombotic drugs, Journal of Thrombosis and Thrombolysis, vol.359, issue.Suppl 1, pp.366-380, 2009.
DOI : 10.1097/00001721-200004001-00002

M. Chatterjee, W. Denney, H. Jing, S. Diamond, C. Chnafa et al., Systems biology of coagulation initiation: Kinetics of thrombin generation in resting and activated human blood The Cardio-Circulatory System : from Modeling to Clinical Applications, Springer, chap Using image-based CFD to investigate the intracardiac turbulence Chnafa C Image-based largeeddy simulation in a realistic left heart, PLoS Comp. Biol. Comput, vol.6, issue.94, pp.173-187, 2010.

C. Chnafa, S. Mendez, and F. Nicoud, Image-Based Simulations Show Important Flow Fluctuations in a Normal Left Ventricle: What Could be the Implications?, Annals of Biomedical Engineering, vol.41, issue.11, pp.443346-3358, 2016.
DOI : 10.1002/jmri.24633

URL : https://hal.archives-ouvertes.fr/hal-01303067

A. Fogelson, Continuum Models of Platelet Aggregation: Formulation and Mechanical Properties, SIAM Journal on Applied Mathematics, vol.52, issue.4, pp.1089-1110, 1992.
DOI : 10.1137/0152064

A. Fogelson and R. Guy, Immersed-boundary-type models of intravascular platelet aggregation, Computer Methods in Applied Mechanics and Engineering, vol.197, issue.25-28, pp.2087-2104, 2008.
DOI : 10.1016/j.cma.2007.06.030

URL : https://www.math.ucdavis.edu/~guy/papers/cmame07rev.pdf

A. Fogelson and K. Neeves, Fluid Mechanics of Blood Clot Formation, Annual Review of Fluid Mechanics, vol.47, issue.1, pp.377-403, 2015.
DOI : 10.1146/annurev-fluid-010814-014513

URL : http://europepmc.org/articles/pmc4519838?pdf=render

B. Furie and B. Furie, Mechanisms of thrombus formation. New Eng, J. Med, vol.359, pp.938-949, 2008.

P. Goodman, E. Barlow, P. Crapo, S. Mohammad, and K. Solen, Computational Model of Device-Induced Thrombosis and Thromboembolism, Annals of Biomedical Engineering, vol.17, issue.11, pp.780-797, 2005.
DOI : 10.1161/01.ATV.17.11.3202

M. Gorbet and M. Sefton, Biomaterial-associated thrombosis: roles of coagulation factors, complement, platelets and leukocytes, pp.5681-5703, 2004.

K. Gregory and D. Basmadjian, An analysis of the contact phase of blood coagulation: Effects of shear rate and surface are intertwined, Annals of Biomedical Engineering, vol.63, issue.1, pp.184-193, 1994.
DOI : 10.1007/BF02390376

S. Hastings, D. Ku, S. Wagoner, O. Maher, and S. Deshpande, Sources of Circuit Thrombosis in Pediatric Extracorporeal Membrane Oxygenation, ASAIO Journal, vol.63, issue.1, pp.86-92, 2017.
DOI : 10.1097/MAT.0000000000000444

J. Hellums, 1993 Whitaker lecture: Biorheology in thrombosis research, Annals of Biomedical Engineering, vol.28, issue.5, pp.445-455, 1994.
DOI : 10.7326/0003-4819-88-1-7

M. Hockin, K. Jones, S. Everse, and K. Mann, A Model for the Stoichiometric Regulation of Blood Coagulation, Journal of Biological Chemistry, vol.66, issue.21, pp.18322-18333, 2002.
DOI : 10.1074/jbc.M009116200

I. Jaffer, J. Fredenburgh, J. Hirsh, and J. Weitz, Medical device-induced thrombosis: what causes it and how can we prevent it?, Journal of Thrombosis and Haemostasis, vol.372, issue.Suppl. 2, pp.72-81, 2015.
DOI : 10.1056/NEJMoa1405760

URL : http://onlinelibrary.wiley.com/doi/10.1111/jth.12961/pdf

J. Jetsy, W. Yin, P. Perrotta, and D. Bluestein, Platelet activation in a circulating flow loop: combined effects of shear stress and exposure time, Platelets14, issue.3, pp.143-149, 2003.

J. Kim and P. Moin, Application of a fractional-step method to incompressible Navier-Stokes equations, Journal of Computational Physics, vol.59, issue.2, pp.308-323, 1985.
DOI : 10.1016/0021-9991(85)90148-2

M. Kroll, J. Hellums, L. Mcintire, A. Schafer, and J. Moake, Platelets and shear stress, Blood88, issue.5, pp.1525-1541, 1996.

A. Kuharsky and A. Fogelson, Surface-Mediated Control of Blood Coagulation: The Role of Binding Site Densities and Platelet Deposition, Biophysical Journal, vol.80, issue.3, pp.1050-1074, 2001.
DOI : 10.1016/S0006-3495(01)76085-7

L. Lanotte, J. Mauer, S. Mendez, D. Fedosov, J. Fromental et al., Red cells??? dynamic morphologies govern blood shear thinning under microcirculatory flow conditions, Proc. Natl Acad. Sc. USA113, pp.13289-13294, 2016.
DOI : 10.1039/C4SM00248B

URL : https://hal.archives-ouvertes.fr/hal-01435953

M. Larsson, V. Rayzman, M. Nolte, K. Nickel, J. Bjrkqvist et al., A factor xiia inhibitory antibody provides thromboprotection in extracorporeal circulation without increasing bleeding risk Grow with the flow: A spatial-temporal model of platelet deposition and blood coagulation under flow, Sci. Transl. Med. Math. Med. Biol, vol.628, issue.222, pp.47-84, 2011.

M. Mehra, G. Stewart, and P. Uber, The vexing problem of thrombosis in long-term mechanical circulatory support, The Journal of Heart and Lung Transplantation, vol.33, issue.1, pp.1-11, 2014.
DOI : 10.1016/j.healun.2013.12.002

S. Mendez, E. Gibaud, and F. Nicoud, An unstructured solver for simulations of deformable particles in flows at arbitrary Reynolds numbers, Journal of Computational Physics, vol.256, issue.1, pp.465-483, 2014.
DOI : 10.1016/j.jcp.2013.08.061

URL : https://hal.archives-ouvertes.fr/hal-00871557

L. Michaelis, M. Menten, K. Johson, and R. Goodoy, The original michaelis constant: translation of the 1913 michaelismenten paper, Biochemistry, issue.39, pp.508264-8269, 2011.

V. Moureau, P. Domingo, and L. Vervisch, Design of a massively parallel CFD code for complex geometries, Comptes Rendus M??canique, vol.339, issue.2-3, pp.141-148, 2011.
DOI : 10.1016/j.crme.2010.12.001

URL : https://hal.archives-ouvertes.fr/hal-01672172

K. Neeves, D. Illing, and S. Diamond, Thrombin Flux and Wall Shear Rate Regulate Fibrin Fiber Deposition State during Polymerization under Flow, Biophysical Journal, vol.98, issue.7, pp.1344-1352, 2010.
DOI : 10.1016/j.bpj.2009.12.4275

URL : https://doi.org/10.1016/j.bpj.2010.12.1300

M. Ngoepe and Y. Ventikos, Computational modelling of clot development in patient-specific cerebral aneurysm cases, Journal of Thrombosis and Haemostasis, vol.3, issue.2, pp.262-272, 2016.
DOI : 10.1111/j.1538-7836.2005.01249.x

URL : http://onlinelibrary.wiley.com/doi/10.1111/jth.13220/pdf

M. Nobili, J. Sheriff, U. Morbiducci, A. Redaelli, and D. Bluestein, Platelet Activation Due to Hemodynamic Shear Stresses: Damage Accumulation Model and Comparison to In Vitro Measurements, ASAIO Journal, vol.54, issue.1, pp.64-72, 2008.
DOI : 10.1097/MAT.0b013e31815d6898

URL : http://europepmc.org/articles/pmc2756061?pdf=render

F. Piatti, F. Sturla, G. Marom, J. Sheriff, T. Claiborne et al., Hemodynamic and thrombogenic analysis of a trileaflet polymeric valve using a fluid???structure interaction approach, Journal of Biomechanics, vol.48, issue.13, pp.483650-3658, 2015.
DOI : 10.1016/j.jbiomech.2015.08.009

N. Rice, F. Szlam, J. Varner, P. Bernstein, A. Szlam et al., Differential Contributions of Intrinsic and Extrinsic Pathways to Thrombin Generation in Adult, Maternal and Cord Plasma Samples, PLOS ONE, vol.19, issue.4, p.154127, 2016.
DOI : 10.1371/journal.pone.0154127.s001

URL : https://doi.org/10.1371/journal.pone.0154127

J. Seo, T. Abd, R. George, R. Mittal, S. Shadden et al., A coupled chemo-fluidic computational model for thrombogenesis in infarcted left ventricles Potential fluid mechanic pathways of platelet activation, Am. J. Phys. Biomech. Model. Mechanobiol, vol.12, issue.11, pp.310-1567, 2013.

J. Sigüenza, S. Mendez, and F. Nicoud, How should the optical tweezers experiment be used to characterize the red blood cell membrane mechanics?, Biomechanics and Modeling in Mechanobiology, vol.39, issue.10, pp.1645-1657, 2017.
DOI : 10.1002/cnm.2789

E. Sorensen, G. Burgreen, W. Wagner, and J. Antaki, Computational Simulation of Platelet Deposition and Activation: I. Model Development and Properties, Annals of Biomedical Engineering, vol.27, issue.4, pp.436-448, 1999.
DOI : 10.1114/1.200

J. Taylor, K. Witmer, T. Neuberger, B. Craven, R. Meyer et al., In vitro quantification of time dependant thrombus size using magnetic resonance image and computational simulations of thrombus surface shear stresses, J. Biomech. Eng, vol.136, issue.7, 2014.

J. Taylor, R. Meyer, S. Deutsch, and K. Manning, Development of a computational model for macroscopic predictions of device-induced thrombosis, Biomechanics and Modeling in Mechanobiology, vol.31, issue.3, pp.1713-1731, 2016.
DOI : 10.1161/ATVBAHA.110.213397

A. Yazdani, H. Li, J. Humphrey, and G. Karniadakis, A General Shear-Dependent Model for Thrombus Formation, PLOS Computational Biology, vol.197, issue.25, p.1005291, 2017.
DOI : 10.1371/journal.pcbi.1005291.s004

URL : https://doi.org/10.1371/journal.pcbi.1005291

M. Young, P. Carroad, and R. Bell, Estimation of diffusion coefficients of proteins, Biotechnology and Bioengineering, vol.89, issue.5, 1980.
DOI : 10.1016/B978-1-4831-4497-9.50007-1

, Bioeng, vol.22, issue.5, pp.947-955

D. Zhu, Mathematical modeling of blood coagulation cascade: kinetics of intrinsic and extrinsic pathways in normal and deficient conditions, Blood Coagulation & Fibrinolysis, vol.18, issue.7, pp.637-646, 2007.
DOI : 10.1097/MBC.0b013e3282a167bb

V. Zmijanovic, S. Mendez, V. Moureau, and F. Nicoud, About the numerical robustness of biomedical benchmark cases: Interlaboratory FDA's idealized medical device, International Journal for Numerical Methods in Biomedical Engineering, vol.17, issue.8, pp.21-38, 2017.
DOI : 10.1063/1.2001689