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    Mofrad, Mohammad

    TitleBiological Faculty Engineer
    SchoolLawrence Berkeley National Lab
    DepartmentMolecular Biophys & Integ Bio
    Address1 Cyclotron Road
    Berkeley CA 94720
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      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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      1. Shams H, Hoffman BD, Mofrad M. The "Stressful" Life of Cell Adhesion Molecules: On the Mechanosensitivity of Integrin Adhesome. J Biomech Eng. 2018 Feb 01; 140(2). PMID: 29272321.
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      2. Arzani A, Mofrad M. A strain-based finite element model for calcification progression in aortic valves. J Biomech. 2017 Dec 08; 65:216-220. PMID: 29100595.
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      3. Shams H, Mofrad M. a-Actinin Induces a Kink in the Transmembrane Domain of ß3-Integrin and Impairs Activation via Talin. Biophys J. 2017 Aug 22; 113(4):948-956. PMID: 28834730.
        View in: PubMed
      4. Bakhaty AA, Govindjee S, Mofrad M. Consistent trilayer biomechanical modeling of aortic valve leaflet tissue. J Biomech. 2017 Aug 16; 61:1-10. PMID: 28830591.
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      5. Seo BB, Jahed Z, Coggan JA, Chau YY, Rogowski JL, Gu FX, Wen W, Mofrad M, Tsui TY. Mechanical Contact Characteristics of PC3 Human Prostate Cancer Cells on Complex-Shaped Silicon Micropillars. Materials (Basel). 2017 Aug 02; 10(8). PMID: 28767082.
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      6. Madani A, Garakani K, Mofrad M. Molecular mechanics of Staphylococcus aureus adhesin, CNA, and the inhibition of bacterial adhesion by stretching collagen. PLoS One. 2017; 12(6):e0179601. PMID: 28665944.
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      7. Pezeshki-Modaress M, Mirzadeh H, Zandi M, Rajabi-Zeleti S, Sodeifi N, Aghdami N, Mofrad M. Gelatin/chondroitin sulfate nanofibrous scaffolds for stimulation of wound healing: In-vitro and in-vivo study. J Biomed Mater Res A. 2017 Jul; 105(7):2020-2034. PMID: 27588562.
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      8. Garakani K, Shams H, Mofrad M. Mechanosensitive Conformation of Vinculin Regulates Its Binding to MAPK1. Biophys J. 2017 May 09; 112(9):1885-1893. PMID: 28494959.
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      9. Jahed Z, Shahsavan H, Verma MS, Rogowski JL, Seo BB, Zhao B, Tsui TY, Gu FX, Mofrad M. Bacterial Networks on Hydrophobic Micropillars. ACS Nano. 2017 Jan 24; 11(1):675-683. PMID: 28045495.
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      10. Soheilypour M, Mofrad M. Regulation of RNA-binding proteins affinity to export receptors enables the nuclear basket proteins to distinguish and retain aberrant mRNAs. Sci Rep. 2016 Nov 02; 6:35380. PMID: 27805000.
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      11. Jahed Z, Zareian R, Chau YY, Seo BB, West M, Tsui TY, Wen W, Mofrad M. Differential Collective- and Single-Cell Behaviors on Silicon Micropillar Arrays. ACS Appl Mater Interfaces. 2016 Sep 14; 8(36):23604-13. PMID: 27536959.
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      12. Jahed Z, Soheilypour M, Peyro M, Mofrad M. The LINC and NPC relationship - it's complicated! J Cell Sci. 2016 Sep 01; 129(17):3219-29. PMID: 27530973.
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      13. Moussavi-Baygi R, Mofrad M. Rapid Brownian Motion Primes Ultrafast Reconstruction of Intrinsically Disordered Phe-Gly Repeats Inside the Nuclear Pore Complex. Sci Rep. 2016 Jul 29; 6:29991. PMID: 27470900; PMCID: PMC4965864.
      14. Haji Abdolvahab M, Mofrad M, Schellekens H. Interferon Beta: From Molecular Level to Therapeutic Effects. Int Rev Cell Mol Biol. 2016; 326:343-72. PMID: 27572132.
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      15. Hasan A, Saliba J, Pezeshgi Modarres H, Bakhaty A, Nasajpour A, Mofrad M, Sanati-Nezhad A. Micro and nanotechnologies in heart valve tissue engineering. Biomaterials. 2016 Oct; 103:278-292. PMID: 27414719.
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      16. Shams H, Golji J, Garakani K, Mofrad M. Dynamic Regulation of a-Actinin's Calponin Homology Domains on F-Actin. Biophys J. 2016 Mar 29; 110(6):1444-55. PMID: 27028653; PMCID: PMC4816760 [Available on 03/29/17].
      17. Peyro M, Soheilypour M, Ghavami A, Mofrad M. Nucleoporin's Like Charge Regions Are Major Regulators of FG Coverage and Dynamics Inside the Nuclear Pore Complex. PLoS One. 2015; 10(12):e0143745. PMID: 26658558; PMCID: PMC4676729.
      18. Asgari E, Mofrad M. Continuous Distributed Representation of Biological Sequences for Deep Proteomics and Genomics. PLoS One. 2015; 10(11):e0141287. PMID: 26555596; PMCID: PMC4640716.
      19. Peyro M, Soheilypour M, Lee BL, Mofrad M. Evolutionarily Conserved Sequence Features Regulate the Formation of the FG Network at the Center of the Nuclear Pore Complex. Sci Rep. 2015 Nov 06; 5:15795. PMID: 26541386; PMCID: PMC4635341.
      20. Heidari M, Mehrbod M, Ejtehadi MR, Mofrad M. Cooperation within von Willebrand factors enhances adsorption mechanism. J R Soc Interface. 2015 Aug 06; 12(109):20150334. PMID: 26179989; PMCID: PMC4535404.
      21. Jahed Z, Shams H, Mofrad M. A Disulfide Bond Is Required for the Transmission of Forces through SUN-KASH Complexes. Biophys J. 2015 Aug 04; 109(3):501-9. PMID: 26244732; PMCID: PMC4571000.
      22. Lazarus C, Soheilypour M, Mofrad M. Torsional behavior of axonal microtubule bundles. Biophys J. 2015 Jul 21; 109(2):231-9. PMID: 26200859; PMCID: PMC4621814.
      23. Truong T, Shams H, Mofrad M. Mechanisms of integrin and filamin binding and their interplay with talin during early focal adhesion formation. Integr Biol (Camb). 2015 Oct; 7(10):1285-96. PMID: 26156744.
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      24. Bakhaty AA, Mofrad M. Coupled Simulation of Heart Valves: Applications to Clinical Practice. Ann Biomed Eng. 2015 Jul; 43(7):1626-39. PMID: 26101029.
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      25. Soheilypour M, Peyro M, Peter SJ, Mofrad M. Buckling behavior of individual and bundled microtubules. Biophys J. 2015 Apr 07; 108(7):1718-26. PMID: 25863063; PMCID: PMC4390818.
      26. Mahboobi SH, Javanpour AA, Mofrad M. The interaction of RNA helicase DDX3 with HIV-1 Rev-CRM1-RanGTP complex during the HIV replication cycle. PLoS One. 2015; 10(2):e0112969. PMID: 25723178; PMCID: PMC4344243.
      27. Shamloo A, Heibatollahi M, Mofrad M. Directional migration and differentiation of neural stem cells within three-dimensional microenvironments. Integr Biol (Camb). 2015 Mar; 7(3):335-44. PMID: 25633746.
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      28. Kheradvar A, Groves EM, Dasi LP, Alavi SH, Tranquillo R, Grande-Allen KJ, Simmons CA, Griffith B, Falahatpisheh A, Goergen CJ, Mofrad M, Baaijens F, Little SH, Canic S. Emerging trends in heart valve engineering: Part I. Solutions for future. Ann Biomed Eng. 2015 Apr; 43(4):833-43. PMID: 25488074.
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      29. Kheradvar A, Groves EM, Goergen CJ, Alavi SH, Tranquillo R, Simmons CA, Dasi LP, Grande-Allen KJ, Mofrad M, Falahatpisheh A, Griffith B, Baaijens F, Little SH, Canic S. Emerging trends in heart valve engineering: Part II. Novel and standard technologies for aortic valve replacement. Ann Biomed Eng. 2015 Apr; 43(4):844-57. PMID: 25449148.
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      30. Golji J, Mofrad M. The talin dimer structure orientation is mechanically regulated. Biophys J. 2014 Oct 21; 107(8):1802-9. PMID: 25418161; PMCID: PMC4213724.
      31. Kheradvar A, Groves EM, Simmons CA, Griffith B, Alavi SH, Tranquillo R, Dasi LP, Falahatpisheh A, Grande-Allen KJ, Goergen CJ, Mofrad M, Baaijens F, Canic S, Little SH. Emerging trends in heart valve engineering: Part III. Novel technologies for mitral valve repair and replacement. Ann Biomed Eng. 2015 Apr; 43(4):858-70. PMID: 25287646.
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      32. Azimi M, Bulat E, Weis K, Mofrad M. An agent-based model for mRNA export through the nuclear pore complex. Mol Biol Cell. 2014 Nov 05; 25(22):3643-53. PMID: 25253717; PMCID: PMC4230623.
      33. Jahed Z, Molladavoodi S, Seo BB, Gorbet M, Tsui TY, Mofrad M. Cell responses to metallic nanostructure arrays with complex geometries. Biomaterials. 2014 Nov; 35(34):9363-71. PMID: 25123921.
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      34. Rui X, Mehrbod M, Van Agthoven JF, Anand S, Xiong JP, Mofrad M, Arnaout MA. The a-subunit regulates stability of the metal ion at the ligand-associated metal ion-binding site in ß3 integrins. J Biol Chem. 2014 Aug 15; 289(33):23256-63. PMID: 24975416; PMCID: PMC4132822.
      35. Zhao CL, Mahboobi SH, Moussavi-Baygi R, Mofrad M. The interaction of CRM1 and the nuclear pore protein Tpr. PLoS One. 2014; 9(4):e93709. PMID: 24722547; PMCID: PMC3983112.
      36. Mahalingam B, Van Agthoven JF, Xiong JP, Alonso JL, Adair BD, Rui X, Anand S, Mehrbod M, Mofrad M, Burger C, Goodman SL, Arnaout MA. Atomic basis for the species-specific inhibition of aV integrins by monoclonal antibody 17E6 is revealed by the crystal structure of aVß3 ectodomain-17E6 Fab complex. J Biol Chem. 2014 May 16; 289(20):13801-9. PMID: 24692540; PMCID: PMC4022854.
      37. Jahed Z, Lin P, Seo BB, Verma MS, Gu FX, Tsui TY, Mofrad M. Responses of Staphylococcus aureus bacterial cells to nanocrystalline nickel nanostructures. Biomaterials. 2014 May; 35(14):4249-54. PMID: 24576805.
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      38. Jahed Z, Shams H, Mehrbod M, Mofrad M. Mechanotransduction pathways linking the extracellular matrix to the nucleus. Int Rev Cell Mol Biol. 2014; 310:171-220. PMID: 24725427.
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      39. Shams H, Holt BD, Mahboobi SH, Jahed Z, Islam MF, Dahl KN, Mofrad M. Actin reorganization through dynamic interactions with single-wall carbon nanotubes. ACS Nano. 2014 Jan 28; 8(1):188-97. PMID: 24351114.
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      40. Azimi M, Mofrad M. Higher nucleoporin-Importinß affinity at the nuclear basket increases nucleocytoplasmic import. PLoS One. 2013; 8(11):e81741. PMID: 24282617; PMCID: PMC3840022.
      41. Abdul Rahim NA, Pelet S, Mofrad M, So PT, Kamm RD. Quantifying intracellular protein binding thermodynamics during mechanotransduction based on FRET spectroscopy. Methods. 2014 Mar 15; 66(2):208-21. PMID: 24184188; PMCID: PMC4094350.
      42. Hasan A, Ragaert K, Swieszkowski W, Selimovic S, Paul A, Camci-Unal G, Mofrad M, Khademhosseini A. Biomechanical properties of native and tissue engineered heart valve constructs. J Biomech. 2014 Jun 27; 47(9):1949-63. PMID: 24290137.
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      43. Mehrbod M, Trisno S, Mofrad M. On the activation of integrin aIIbß3: outside-in and inside-out pathways. Biophys J. 2013 Sep 17; 105(6):1304-15. PMID: 24047981; PMCID: PMC3785890.
      44. Golji J, Mofrad M. The interaction of vinculin with actin. PLoS Comput Biol. 2013 Apr; 9(4):e1002995. PMID: 23633939; PMCID: PMC3635976.
      45. Mehrbod M, Mofrad M. Localized lipid packing of transmembrane domains impedes integrin clustering. PLoS Comput Biol. 2013; 9(3):e1002948. PMID: 23516344; PMCID: PMC3597534.
      46. Shams H, Golji J, Mofrad M. A molecular trajectory of a-actinin activation. Biophys J. 2012 Nov 21; 103(10):2050-9. PMID: 23200039; PMCID: PMC3512038.
      47. Holt BD, Shams H, Horst TA, Basu S, Rape AD, Wang YL, Rohde GK, Mofrad M, Islam MF, Dahl KN. Altered cell mechanics from the inside: dispersed single wall carbon nanotubes integrate with and restructure actin. J Funct Biomater. 2012 May 23; 3(2):398-417. PMID: 24955540; PMCID: PMC4047933.
      48. Golji J, Wendorff T, Mofrad M. Phosphorylation primes vinculin for activation. Biophys J. 2012 May 02; 102(9):2022-30. PMID: 22824265; PMCID: PMC3341567.
      49. Yoon SH, Kim YK, Han ED, Seo YH, Kim BH, Mofrad M. Passive control of cell locomotion using micropatterns: the effect of micropattern geometry on the migratory behavior of adherent cells. Lab Chip. 2012 Jul 07; 12(13):2391-402. PMID: 22534829.
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      50. Peter SJ, Mofrad M. Computational modeling of axonal microtubule bundles under tension. Biophys J. 2012 Feb 22; 102(4):749-57. PMID: 22385845; PMCID: PMC3283805.
      51. Mehrbod M, Mofrad M. On the significance of microtubule flexural behavior in cytoskeletal mechanics. PLoS One. 2011; 6(10):e25627. PMID: 21998675; PMCID: PMC3187798.
      52. Azimi M, Jamali Y, Mofrad M. Accounting for diffusion in agent based models of reaction-diffusion systems with application to cytoskeletal diffusion. PLoS One. 2011; 6(9):e25306. PMID: 21966493; PMCID: PMC3179499.
      53. Yoon SH, Chang J, Lin L, Mofrad M. A biological breadboard platform for cell adhesion and detachment studies. Lab Chip. 2011 Oct 21; 11(20):3555-62. PMID: 21874200.
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      54. Yoon SH, Mofrad M. Cell adhesion and detachment on gold surfaces modified with a thiol-functionalized RGD peptide. Biomaterials. 2011 Oct; 32(30):7286-96. PMID: 21813174.
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      55. Moussavi-Baygi R, Jamali Y, Karimi R, Mofrad M. Brownian dynamics simulation of nucleocytoplasmic transport: a coarse-grained model for the functional state of the nuclear pore complex. PLoS Comput Biol. 2011 Jun; 7(6):e1002049. PMID: 21673865; PMCID: PMC3107250.
      56. Moussavi-Baygi R, Jamali Y, Karimi R, Mofrad M. Biophysical coarse-grained modeling provides insights into transport through the nuclear pore complex. Biophys J. 2011 Mar 16; 100(6):1410-9. PMID: 21402022; PMCID: PMC3059569.
      57. Golji J, Lam J, Mofrad M. Vinculin activation is necessary for complete talin binding. Biophys J. 2011 Jan 19; 100(2):332-40. PMID: 21244829; PMCID: PMC3021670.
      58. Jamali T, Jamali Y, Mehrbod M, Mofrad M. Nuclear pore complex: biochemistry and biophysics of nucleocytoplasmic transport in health and disease. Int Rev Cell Mol Biol. 2011; 287:233-86. PMID: 21414590.
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      59. Kolahi KS, Mofrad M. Mechanotransduction: a major regulator of homeostasis and development. Wiley Interdiscip Rev Syst Biol Med. 2010 Nov-Dec; 2(6):625-39. PMID: 20890961.
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      60. Jamali Y, Azimi M, Mofrad M. A sub-cellular viscoelastic model for cell population mechanics. PLoS One. 2010 Aug 10; 5(8). PMID: 20856895; PMCID: PMC2938372.
      61. Golji J, Mofrad M. A molecular dynamics investigation of vinculin activation. Biophys J. 2010 Aug 09; 99(4):1073-81. PMID: 20712990; PMCID: PMC2920635.
      62. Chandran PL, Mofrad M. Averaged implicit hydrodynamic model of semiflexible filaments. Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Mar; 81(3 Pt 1):031920. PMID: 20365783.
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      63. Leach JR, Rayz VL, Soares B, Wintermark M, Mofrad M, Saloner D. Carotid atheroma rupture observed in vivo and FSI-predicted stress distribution based on pre-rupture imaging. Ann Biomed Eng. 2010 Aug; 38(8):2748-65. PMID: 20232151; PMCID: PMC2900591.
      64. Bao G, Kamm RD, Thomas W, Hwang W, Fletcher DA, Grodzinsky AJ, Zhu C, Mofrad M. Molecular Biomechanics: The Molecular Basis of How Forces Regulate Cellular Function. Mol Cell Biomech. 2010 Mar 02; 3(2):91-105. PMID: 20700472.
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      65. Weinberg EJ, Shahmirzadi D, Mofrad M. On the multiscale modeling of heart valve biomechanics in health and disease. Biomech Model Mechanobiol. 2010 Aug; 9(4):373-87. PMID: 20066464.
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      66. Chen HS, Kolahi KS, Mofrad M. Phosphorylation facilitates the integrin binding of filamin under force. Biophys J. 2009 Dec 16; 97(12):3095-104. PMID: 20006946; PMCID: PMC2793350.
      67. Leach JR, Rayz VL, Mofrad M, Saloner D. An efficient two-stage approach for image-based FSI analysis of atherosclerotic arteries. Biomech Model Mechanobiol. 2010 Apr; 9(2):213-23. PMID: 19756798; PMCID: PMC2851741.
      68. Weinberg EJ, Schoen FJ, Mofrad M. A computational model of aging and calcification in the aortic heart valve. PLoS One. 2009 Jun 18; 4(6):e5960. PMID: 19536285; PMCID: PMC2693668.
      69. Golji J, Collins R, Mofrad M. Molecular mechanics of the alpha-actinin rod domain: bending, torsional, and extensional behavior. PLoS Comput Biol. 2009 May; 5(5):e1000389. PMID: 19436721; PMCID: PMC2676514.
      70. Kolahi KS, White PF, Shreter DM, Classen AK, Bilder D, Mofrad M. Quantitative analysis of epithelial morphogenesis in Drosophila oogenesis: New insights based on morphometric analysis and mechanical modeling. Dev Biol. 2009 Jul 15; 331(2):129-39. PMID: 19409378; PMCID: PMC3145632.
      71. Chandran PL, Mofrad M. Rods-on-string idealization captures semiflexible filament dynamics. Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Jan; 79(1 Pt 1):011906. PMID: 19257068.
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      72. Karimi R, Zhu T, Bouma BE, Mofrad M. Estimation of nonlinear mechanical properties of vascular tissues via elastography. Cardiovasc Eng. 2008 Dec; 8(4):191-202. PMID: 19048372; PMCID: PMC2703584.
      73. Wolf C, Mofrad M. On the octagonal structure of the nuclear pore complex: insights from coarse-grained models. Biophys J. 2008 Aug; 95(4):2073-85. PMID: 18487299; PMCID: PMC2483776.
      74. Lee SE, Chunsrivirot S, Kamm RD, Mofrad M. Molecular dynamics study of talin-vinculin binding. Biophys J. 2008 Aug; 95(4):2027-36. PMID: 18408041; PMCID: PMC2483755.
      75. Mandadapu KK, Govindjee S, Mofrad M. On the cytoskeleton and soft glassy rheology. J Biomech. 2008; 41(7):1467-78. PMID: 18402964.
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      76. Kolahi KS, Mofrad M. Molecular mechanics of filamin's rod domain. Biophys J. 2008 Feb 01; 94(3):1075-83. PMID: 17921200; PMCID: PMC2186249.
      77. Lee SE, Kamm RD, Mofrad M. Force-induced activation of talin and its possible role in focal adhesion mechanotransduction. J Biomech. 2007; 40(9):2096-106. PMID: 17544431.
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      78. Vaziri A, Mofrad M. Mechanics and deformation of the nucleus in micropipette aspiration experiment. J Biomech. 2007; 40(9):2053-62. PMID: 17112531.
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      79. Khalil AS, Chan RC, Chau AH, Bouma BE, Mofrad M. Tissue elasticity estimation with optical coherence elastography: toward mechanical characterization of in vivo soft tissue. Ann Biomed Eng. 2005 Nov; 33(11):1631-9. PMID: 16341928.
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      80. Mofrad M, Golji J, Abdul Rahim NA, Kamm RD. Force-induced unfolding of the focal adhesion targeting domain and the influence of paxillin binding. Mech Chem Biosyst. 2004 Dec; 1(4):253-65. PMID: 16783922.
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