1932

Abstract

The principal goal of the FEBio project is to provide an advanced finite element tool for the biomechanics and biophysics communities that allows researchers to model mechanics, transport, and electrokinetic phenomena for biological systems accurately and efficiently. In addition, because FEBio is geared toward the research community, the code is designed such that new features can be added easily, thus making it an ideal tool for testing novel computational methods. Finally, because the success of a code is determined by its user base, integral goals of the FEBio project have been to offer support and outreach to our community; to provide mechanisms for dissemination of results, models, and data; and to encourage interaction between users. This review presents the history of the FEBio project, from its initial developments through its current funding period. We also present a glimpse into the future of FEBio.

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2017-06-21
2024-04-15
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Literature Cited

  1. Belytschko T, Kulak RF, Schultz AB, Galante JO. 1.  1974. Finite element stress analysis of an intervertebral disc. J. Biomech. 7:277–85 [Google Scholar]
  2. Davids N, Mani MK. 2.  1974. A finite element analysis of endothelial shear stress for pulsatile blood flow. Biorheology 11:137–47 [Google Scholar]
  3. Doyle JM, Dobrin PB. 3.  1971. Finite deformation analysis of the relaxed and contracted dog carotid artery. Microvasc. Res. 3:400–15 [Google Scholar]
  4. Farah JW, Craig RG, Sikarskie DL. 4.  1973. Photoelastic and finite element stress analysis of a restored axisymmetric first molar. J. Biomech. 6:511–20 [Google Scholar]
  5. Janz RF, Grimm AF. 5.  1972. Finite-element model for the mechanical behavior of the left ventricle. Prediction of deformation in the potassium-arrested rat heart. Circ. Res. 30:244–52 [Google Scholar]
  6. Matthews FL, West JB. 6.  1972. Finite element displacement analysis of a lung. J. Biomech. 5:591–600 [Google Scholar]
  7. Ateshian GA. 7.  2007. On the theory of reactive mixtures for modeling biological growth. Biomech. Model. Mechanobiol. 6:423–45 [Google Scholar]
  8. Bowen RM. 8.  1976. Theory of mixtures. Continuum Physics AE Eringen 31–127 New York: Academic [Google Scholar]
  9. Gu WY, Lai WM, Mow VC. 9.  1998. A mixture theory for charged-hydrated soft tissues containing multi-electrolytes: passive transport and swelling behaviors. J. Biomech. Eng. 120:169–80 [Google Scholar]
  10. Huyghe JM, Janssen JD. 10.  1997. Quadriphasic mechanics of swelling incompressible porous media. Int. J. Eng. Sci. 35:793–802 [Google Scholar]
  11. Lai WM, Hou JS, Mow VC. 11.  1991. A triphasic theory for the swelling and deformation behaviors of articular cartilage. J. Biomech. Eng. 113:245–58 [Google Scholar]
  12. Mow VC, Kuei SC, Lai WM, Armstrong CG. 12.  1980. Biphasic creep and stress relaxation of articular cartilage in compression: theory and experiments. J. Biomech. Eng. 102:73–84 [Google Scholar]
  13. Oomens CW, van Campen DH, Grootenboer HJ. 13.  1987. A mixture approach to the mechanics of skin. J. Biomech. 20:877–85 [Google Scholar]
  14. Anderson AE, Ellis BJ, Weiss JA. 14.  2007. Verification, validation and sensitivity studies in computational biomechanics. Comput. Methods Biomech. Biomed. Eng 10171–84 [Google Scholar]
  15. Henninger HB, Reese SP, Anderson AE, Weiss JA. 15.  2010. Validation of computational models in biomechanics. Proc. Inst. Mech. Eng. H 224:801–12 [Google Scholar]
  16. Simon BR, Wu JS, Carlton MW, Kazarian LE, France EP. 16.  et al. 1985. Poroelastic dynamic structural models of rhesus spinal motion segments. Spine 10:494–507 [Google Scholar]
  17. Spilker RL, Suh JK. 17.  1990. Formulation and evaluation of a finite element model for the biphasic model of hydrated soft tissues. Comput. Struct. 35:425–39 [Google Scholar]
  18. Suh JK, Spilker RL, Holmes MH. 18.  1991. A penalty finite element analysis for nonlinear mechanics of biphasic hydrated soft tissue under large deformation. Int. J. Numer. Methods Eng. 32:1411–39 [Google Scholar]
  19. Donzelli PS, Spilker RL, Baehmann PL, Niu Q, Shephard MS. 19.  1992. Automated adaptive analysis of the biphasic equations for soft tissue mechanics using a posteriori error indicators. Int. J. Numer. Methods Eng. 34:1015–33 [Google Scholar]
  20. Almeida ES, Spilker RL. 20.  1997. Mixed and penalty finite element models for the nonlinear behavior of biphasic soft tissues in finite deformation. Part I: Alternate formulations. Comput. Methods Biomech. Biomed. Eng 125–46 [Google Scholar]
  21. Vermilyea ME, Spilker RL. 21.  1993. Hybrid and mixed-penalty finite elements for 3-D analysis of soft hydrated tissue. Int. J. Numer. Methods Eng. 36:4223–43 [Google Scholar]
  22. Spilker RL, Donzelli PS, Mow VC. 22.  1992. A transversely isotropic biphasic finite element model of the meniscus. J. Biomech. 25:1027–45 [Google Scholar]
  23. Chan B, Donzelli PS, Spilker RL. 23.  2000. A mixed-penalty biphasic finite element formulation incorporating viscous fluids and material interfaces. Ann. Biomed. Eng 28589–97 [Google Scholar]
  24. Wayne JS, Woo SL, Kwan MK. 24.  1991. Application of the u-p finite element method to the study of articular cartilage. J. Biomech. Eng. 113:397–403 [Google Scholar]
  25. Ehlers W, Markert B. 25.  2001. A linear viscoelastic biphasic model for soft tissues based on the theory of porous media. J. Biomech. Eng. 123:418–24 [Google Scholar]
  26. Laible JP, Pflaster DS, Krag MH, Simon BR, Haugh LD. 26.  1993. A poroelastic-swelling finite element model with application to the intervertebral disc. Spine 18:659–70 [Google Scholar]
  27. Simon BR, Liable JP, Pflaster DS, Yuan Y, Krag MH. 27.  1996. A poroelastic finite element formulation including transport and swelling in soft tissue structures. J. Biomech. Eng. 118:1–9 [Google Scholar]
  28. Levenston ME, Frank EH, Grodzinsky AJ. 28.  1999. Electrokinetic and poroelastic coupling during finite deformations of charged porous media. J. Appl. Mech. 66:323–33 [Google Scholar]
  29. Sun DN, Gu WY, Guo XE, Lai WM, Mow VC. 29.  1999. A mixed finite element formulation of triphasic mechano-electrochemical theory for charged, hydrated biological soft tissues. Int. J. Numer. Methods Eng. 45:1375–402 [Google Scholar]
  30. Frijns AJ, Huyghe JM, Kaasschieter EF, Wijlaars MW. 30.  2003. Numerical simulation of deformations and electrical potentials in a cartilage substitute. Biorheology 40:123–31 [Google Scholar]
  31. Rabbitt RD, Weiss JA, Christensen GE, Miller MI. 31.  1995. Mapping of hyperelastic deformable templates. Proc. SPIE Int. Soc. Opt. Eng. 2552:252–64 [Google Scholar]
  32. Gardiner JC, Weiss JA. 32.  2003. Subject-specific finite element analysis of the human medial collateral ligament during valgus knee loading. J. Orthop. Res. 21:1098–106 [Google Scholar]
  33. Weiss JA, Gardiner JC. 33.  2001. Computational modeling of ligament mechanics. Crit. Rev. Biomed. Eng 29303–71 [Google Scholar]
  34. Weiss JA, Gardiner JC, Ellis BJ, Phatak NS. 34.  2005. Three-dimensional finite element modeling of ligaments: technical aspects. Med. Eng. Phys 27845–61 [Google Scholar]
  35. Phatak NS, Sun Q, Kim S-E, Parker DL, Sanders KR. 35.  et al. 2007. Noninvasive determination of ligament strain with deformable image registration. Ann. Biomed. Eng 351175–87 [Google Scholar]
  36. Veress AI, Klein G, Gullberg GT. 36.  2013. A comparison of hyperelastic warping of PET images with tagged MRI for the analysis of cardiac deformation. Int. J. Biomed. Imaging 2013:728624 [Google Scholar]
  37. Weiss JA, Rabbitt RD, Bowden AE. 37.  1998. Incorporation of medical image data in finite element models to track strain in soft tissues. Proc. SPIE Int. Soc. Opt. Eng. 3254:477 [Google Scholar]
  38. Donzelli PS, Spilker RL, Ateshian GA, Mow VC. 38.  1999. Contact analysis of biphasic transversely isotropic cartilage layers and correlations with tissue failure. J. Biomech. 32:1037–47 [Google Scholar]
  39. Krishnan R, Park S, Eckstein F, Ateshian GA. 39.  2003. Inhomogeneous cartilage properties enhance superficial interstitial fluid support and frictional properties, but do not provide a homogeneous state of stress. J. Biomech. Eng. 125:569–77 [Google Scholar]
  40. Ateshian GA, Ellis BJ, Weiss JA. 40.  2007. Equivalence between short-time biphasic and incompressible elastic material response. J. Biomech. Eng. 129:405–12 [Google Scholar]
  41. Bonet J, Wood RD. 41.  1997. Nonlinear Continuum Mechanics for Finite Element Analysis Cambridge, UK: Cambridge Univ. Press
  42. Matthies H, Strang G. 42.  1979. The solution of nonlinear finite element equations. Int. J. Numer. Methods Eng. 14:1613–26 [Google Scholar]
  43. Simo JC, Taylor RL. 43.  1991. Quasi-incompressible finite elasticity in principal stretches: continuum basis and numerical algorithms. Comput. Methods Appl. Mech. Eng. 85:273–310 [Google Scholar]
  44. Weiss JA, Maker BN, Govindjee S. 44.  1996. Finite element implementation of incompressible, transversely isotropic hyperelasticity. Comput. Methods Appl. Mech. Eng. 135:107–28 [Google Scholar]
  45. Puso MA, Weiss JA. 45.  1998. Finite element implementation of anisotropic quasi-linear viscoelasticity using a discrete spectrum approximation. J. Biomech. Eng. 120:62–70 [Google Scholar]
  46. Maker BN. 46.  1995. Rigid bodies for metal forming analysis with NIKE3D. Lawrence Livermore Lab. rep UCRL-JC-119862, Univ. Calif. Berkeley: [Google Scholar]
  47. Simo JC, Laursen TA. 47.  1992. Augmented lagrangian treatment of contact problems involving friction. Comput. Struct. 42:97–116 [Google Scholar]
  48. Veldhuizen TL, Jernigan ME. 48.  1997. Will C++ be faster than Fortran?. Proceedings of Scientific Computing in Object-Oriented Parallel Environments: 1st International Conference Y Ishikawa, RR Oldehoeft, JVW Reynders, M Tholburn 49–56 Berlin: Springer [Google Scholar]
  49. Mauck RL, Hung CT, Ateshian GA. 49.  2003. Modeling of neutral solute transport in a dynamically loaded porous permeable gel: implications for articular cartilage biosynthesis and tissue engineering. J. Biomech. Eng. 125:602–14 [Google Scholar]
  50. Ateshian GA, Weiss JA. 50.  2010. Anisotropic hydraulic permeability under finite deformation. J. Biomech. Eng. 132:111004 [Google Scholar]
  51. Ateshian GA, Maas SA, Weiss JA. 51.  2010. Finite element algorithm for frictionless contact of porous permeable media under finite deformation and sliding. J. Biomech. Eng. 132:061006 [Google Scholar]
  52. Ateshian GA, Maas SA, Weiss JA. 52.  2012. Solute transport across a contact interface in deformable porous media. J. Biomech. 45:1023–27 [Google Scholar]
  53. Ateshian GA. 53.  2007. Anisotropy of fibrous tissues in relation to the distribution of tensed and buckled fibers. J. Biomech. Eng. 129:240–49 [Google Scholar]
  54. Ateshian GA, Rajan V, Chahine NO, Canal CE, Hung CT. 54.  2009. Modeling the matrix of articular cartilage using a continuous fiber angular distribution predicts many observed phenomena. J. Biomech. Eng. 131:061003 [Google Scholar]
  55. Ateshian GA, Ricken T. 55.  2010. Multigenerational interstitial growth of biological tissues. Biomech. Model. Mechanobiol. 9:689–702 [Google Scholar]
  56. Hughes TJR. 56.  2000. The Finite Element Method Mineola, NY: Dover
  57. Gee MW, Dohrmann CR, Key SW, Wall WA. 57.  2009. A uniform nodal strain tetrahedron with isochoric stabilization. Int. J. Numer. Methods Eng. 78:429–43 [Google Scholar]
  58. Puso M, Solberg J. 58.  2006. A stabilized nodally integrated tetrahedral. Int. J. Numer. Methods Eng. 67:841–67 [Google Scholar]
  59. Maas SA, Ellis BJ, Rawlins DS, Edgar LT, Henak CR, Weiss JA. 59.  2011. Implementation and verification of a nodally-integrated tetrahedral element in FEBio SCI tech. rep. UUSCI-2011, Univ. Utah Salt Lake City:
  60. Maas SA, Ellis BJ, Ateshian GA, Weiss JA. 60.  2012. FEBio: finite elements for biomechanics. J. Biomech. Eng. 134:011005 [Google Scholar]
  61. Ateshian GA, Maas SA, Weiss JA. 61.  2013. Multiphasic finite element framework for modeling hydrated mixtures with multiple neutral and charged solutes. J. Biomech. Eng. 135:111001 [Google Scholar]
  62. Ateshian GA 3rd, Morrison B, Holmes JW, Hung CT. 62.  2012. Mechanics of cell growth. Mech. Res. Commun. 42:118–25 [Google Scholar]
  63. Azeloglu EU, Albro MB, Thimmappa VA, Ateshian GA, Costa KD. 63.  2008. Heterogeneous transmural proteoglycan distribution provides a mechanism for regulating residual stresses in the aorta. Am. J. Physiol. Heart Circ. Physiol. 294:H1197–205 [Google Scholar]
  64. Roccabianca S, Ateshian GA, Humphrey JD. 64.  2014. Biomechanical roles of medial pooling of glycosaminoglycans in thoracic aortic dissection. Biomech. Model. Mechanobiol. 13:13–25 [Google Scholar]
  65. Cortes DH, Jacobs NT, DeLucca JF, Elliott DM. 65.  2014. Elastic, permeability and swelling properties of human intervertebral disc tissues: a benchmark for tissue engineering. J. Biomech. 47:2088–94 [Google Scholar]
  66. Weinans H, Huiskes R, Grootenboer HJ. 66.  1992. The behavior of adaptive bone-remodeling simulation models. J. Biomech. 25:1425–41 [Google Scholar]
  67. Ateshian GA, Nims RJ, Maas SA, Weiss JA. 67.  2014. Computational modeling of chemical reactions and interstitial growth and remodeling involving charged solutes and solid-bound molecules. Biomech. Model. Mechanobiol. 13:1105–20 [Google Scholar]
  68. Nims RJ, Cigan AD, Albro MB, Hung CT, Ateshian GA. 68.  2014. Synthesis rates and binding kinetics of matrix products in engineered cartilage constructs using chondrocyte-seeded agarose gels. J. Biomech. 47:2165–72 [Google Scholar]
  69. Nims RJ, Cigan AD, Albro MB, Vunjak-Novakovic G, Hung CT, Ateshian GA. 69.  2015. Matrix production in large engineered cartilage constructs is enhanced by nutrient channels and excess media supply. Tissue Eng. C 21:747–57 [Google Scholar]
  70. Albro MB, Nims RJ, Durney KM, Cigan AD, Shim JJ. 70.  et al. 2016. Heterogeneous engineered cartilage growth results from gradients of media-supplemented active TGF-β and is ameliorated by the alternative supplementation of latent TGF-β.. Biomaterials 77:173–85 [Google Scholar]
  71. Ateshian GA. 71.  2015. Viscoelasticity using reactive constrained solid mixtures. J. Biomech. 48:941–47 [Google Scholar]
  72. Nims RJ, Durney KM, Cigan AD, Dusseaux A, Hung CT, Ateshian GA. 72.  2016. Continuum theory of fibrous tissue damage mechanics using bond kinetics: application to cartilage tissue engineering. Interface Focus 6:20150063 [Google Scholar]
  73. Edgar LT, Maas SA, Guilkey JE, Weiss JA. 73.  2014. A coupled model of neovessel growth and matrix mechanics describes and predicts angiogenesis in vitro. Biomech. Model. Mechanobiol. 14:767–82 [Google Scholar]
  74. Maas SA, Erdemir A, Halloran JP, Weiss JA. 74.  2016. A general framework for application of prestrain to computational models of biological materials. J. Mech. Behav. Biomed. Mater 61499–510 [Google Scholar]
  75. Hou C, Ateshian GA. 75.  2016. A Gauss–Kronrod–Trapezoidal integration scheme for modeling biological tissues with continuous fiber distributions. Comput. Methods Biomech. Biomed. Eng 19883–93 [Google Scholar]
  76. Maas SA, Ellis BJ, Rawlins DS, Weiss JA. 76.  2016. Finite element simulation of articular contact mechanics with quadratic tetrahedral elements. J. Biomech. 49:659–67 [Google Scholar]
  77. Blum MM, Ovaert TC. 77.  2012. Experimental and numerical tribological studies of a boundary lubricant functionalized poro-viscoelastic PVA hydrogel in normal contact and sliding. J. Mech. Behav. Biomed. Mater 14248–58 [Google Scholar]
  78. Chen GX, Yang L, Li K, He R, Yang B. 78.  et al. 2013. A three-dimensional finite element model for biomechanical analysis of the hip. Cell Biochem. Biophys. 67:803–8 [Google Scholar]
  79. D'Lima DD, Chen PC, Kessler O, Hoenecke HR, Colwell CW Jr. 79.  2011. Effect of meniscus replacement fixation technique on restoration of knee contact mechanics and stability. Mol. Cell Biomech. 8:123–34 [Google Scholar]
  80. Kazemi M, Li LP. 80.  2014. A viscoelastic poromechanical model of the knee joint in large compression. Med. Eng. Phys 36998–1006 [Google Scholar]
  81. Langohr GD, Willing R, Medley JB, King GJ, Johnson JA. 81.  2015. Contact analysis of the native radiocapitellar joint compared with axisymmetric and nonaxisymmetric radial head hemiarthroplasty. J. Shoulder Elbow Surg. 24:787–95 [Google Scholar]
  82. Li LP, Herzog W. 82.  2006. Arthroscopic evaluation of cartilage degeneration using indentation testing—influence of indenter geometry. Clin. Biomech. 21:420–26 [Google Scholar]
  83. Meng Q, Jin Z, Fisher J, Wilcox R. 83.  2013. Comparison between FEBio and ABAQUS for biphasic contact problems. Proc. Inst. Mech. Eng. H 227:1009–19 [Google Scholar]
  84. Radev BR, Kase JA, Askew MJ, Weiner SD. 84.  2009. Potential for thermal damage to articular cartilage by PMMA reconstruction of a bone cavity following tumor excision: a finite element study. J. Biomech. 42:1120–26 [Google Scholar]
  85. Warner MD, Taylor WR, Clift SE. 85.  2001. Finite element biphasic indentation of cartilage: a comparison of experimental indenter and physiological contact geometries. Proc. Inst. Mech. Eng. H 215:487–96 [Google Scholar]
  86. Wu JZ, Herzog W, Epstein M. 86.  1998. Evaluation of the finite element software ABAQUS for biomechanical modelling of biphasic tissues. J. Biomech. 31:165–69 [Google Scholar]
  87. Federico S, La Rosa G, Herzog W, Wu JZ. 87.  2004. Effect of fluid boundary conditions on joint contact mechanics and applications to the modeling of osteoarthritic joints. J. Biomech. Eng. 126:220–25 [Google Scholar]
  88. Galbusera F, Bashkuev M, Wilke HJ, Shirazi-Adl A, Schmidt H. 88.  2014. Comparison of various contact algorithms for poroelastic tissues. Comput. Methods Biomech. Biomed. Eng 171323–34 [Google Scholar]
  89. Pierrat B, Murphy GJ, Macmanus DB, Gilchrist MD. 89.  2015. Finite element implementation of a new model of slight compressibility for transversely isotropic materials. Comput. Methods Biomech. Bioemed. Eng 191–14 [Google Scholar]
  90. Erdemir A. 90.  2013. OpenKnee: a pathway to community driven modeling and simulation in joint biomechanics. J. Med. Devices 70409101 [Google Scholar]
  91. Erdemir A. 91.  2015. OpenKnee: open source modeling and simulation in knee biomechanics. J. Knee Surg. 29:107–16 [Google Scholar]
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