Molecular, Cellular, and Tissue Biomechanics

4-0-8 units · Undergraduate

See description under subject 20.310[J] .

Spring 2015

Topics

Term Project Group Presentations
Term Project Group Presentations (cont.)
Muscle from the Molecular, Cellular and Tissue Perspectives

Readings

[Phillips] = Phillips, R., J. Kondev, and J. Theriot. Physical Biology of the Cell . Garland Science, 2008. ISBN: 9780815341635.
Listed reading
[Dill & Bromberg] = Dill, K., and S. Bromberg. Molecular Driving Forces: Statistical Thermodynamics in Chemistry & Biology . Garland Publishing, 2003. [Preview with Google Books ] ↗
Listed reading
[Howard] = Howard, J. Mechanics of Motor Proteins and the Cytoskeleton . Sinauer Associates, 2001. ISBN: 9780878933334.
Listed reading
[Jackson] = Jackson, M. B. Molecular and Cellular Biophysics . Cambridge University Press, 2006. ISBN: 9780521624701. [Preview with Google Books ] ↗
Listed reading
[Grodzinsky] = Grodzinsky, A. Fields, Forces and Flows in Biological Systems . Garland Science, 2011. ISBN: 9780815342120. [Preview with Google Books ] ↗
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[Lodish] = Lodish, H., D. Baltimore, et al. Molecular Cell Biology . W. H. Freeman and Company, 2012. ISBN: 9781464109812.
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Mahadevan. Macromolecular Mechanics. Chapter 3.
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[Dill & Bromberg] Chapter 17.
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[Howard] Chapters 4 and 6.
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[Grodzinsky] Chapter 1, pp. 15–21.
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[Howard] Chapter 5.
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Yu, Hao, et al. “ Energy Landscape Analysis of Native Folding of the Prion Protein Yields the Diffusion Constant, Transition Path Time, and Rates .” Proceedings of the National Academy of Sciences of the United States of America 109, no. 36 (2012): 14452–7. ↗
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Vliet, Van, et al. “ The Biomechanics Toolbox: Experimental Approaches for Living Cells and Biomolecules .” Acta Materialia 51, no. 19 (2003): 5881–905. ↗
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[Grodzinsky] Chapters 7, Section 7.3.
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Hynes, Richard O., and Alexandra Naba. “ Overview of the Matrisome—an Inventory of Extracellular Matrix Constituents and Functions .” Cold Spring Harbor Perspectives in Biology 4, no. 1 (2012): a004903. ↗
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Kadler, Karl E., Clair Baldock, et al. “ Collagens at a Glance .” Journal of Cell Science 120, no. 12 (2007): 1955–8. ↗
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Gordon, Marion K., and Rita A. Hahn. “ Collagens .” Cell and Tissue Research 339, no. 1 (2010): 247–57. ↗
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Schwartz, Nancy B. “ Proteoglycans .” eLS (2009). ↗
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[Grodzinsky] Chapter 7, Section 7.4.
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Gautieri, Alfonso, et al. “ Viscoelastic Properties of Model Segments of Collagen Molecules .” Matrix Biology 31, no. 2 (2012): 141–9. ↗
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Darling, E. M., et al. “ Viscoelastic Properties of Zonal Articular Chondrocytes Measured by Atomic Force Microscopy .” Osteoarthritis and Cartilage 14, no. 6 (2006): 571–9. ↗
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[Grodzinsky] Chapter 7, Section 7.5.
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Rosenbluth, Michael J., et al. “ Slow Stress Propagation in Adherent Cells .” Biophysical Journal 95, no. 12 (2008): 6052–9. ↗
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Nia, Hadi Tavakoli, et al. “ Poroelasticity of Cartilage at the Nanoscale .” Biophysical Journal 101, no. 9 (2011): 2304–13. ↗
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Nia, Hadi Tavakoli, et al. “ High-bandwidth AFM-based Rheology Reveals that Cartilage is most Sensitive to High Loading Rates at Early Stages of Impairment .” Biophysical Journal 104, no. 7 (2013): 1529–37. ↗
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[Grodzinsky] Chapter 7, Section 7.6.
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Nia, Hadi Tavakoli, et al. “ Aggrecan Nanoscale Solid–Fluid Interactions Are a Primary Determinant of Cartilage Dynamic Mechanical Properties .” ACS Nano 9, no. 3 (2015): 2614–25. ↗
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Moeendarbary, Emad, et al. “ The Cytoplasm of Living Cells Behaves as a Poroelastic Material .” Nature Materials 12, no. 3 (2013): 253–61. ↗
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Kamm. Chapter 2.2 (PDF) “Mechanics of the Cytoskeleton.” pp. 1–15. ↗
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Kamm. Chapter 2.2: “Mechanics of the Cytoskeleton.” pp. 15–32.
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Kamm. Chapter 2.2: “Mechanics of the Cytoskeleton.” pp. 32–42.
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Kamm. Chapter 2.1 (PDF – 1.3MB) “Cell Membrane Mechanics and Adhesion.” pp. 1–13 and 25–30. ↗
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Kamm. Chapter 2.3 (PDF – 1.4MB) “Active Cell Processes.” pp. 7–17 and 32–48. ↗
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Even–Ram, Sharona, and Kenneth M. Yamada. “ Cell Migration in 3D Matrix .” Current Opinion in Cell Biology 17, no. 5 (2005): 524–32. ↗
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Wirtz, Denis, et al. “ The Physics of Cancer: The Role of Physical Interactions and Mechanical Forces in Metastasis .” Nature Reviews Cancer 11, no. 7 (2011): 512–22. ↗
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Wieland, Heike A., et al. “ Osteoarthritis—an Untreatable Disease? ” Nature Reviews Drug Discovery 4, no. 4 (2005): 331–44. ↗
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Frank, Eliot H., et al. “ Streaming Potentials: A Sensitive Index of Enzymatic Degradation in Articular Cartilage .” Journal of Orthopaedic Research 5, no. 4 (1987): 497–508. ↗
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LEC #: 24 · TOPICS: Muscle from the Molecular, Cellular and Tissue Perspectives · READINGS: Kamm. Chapter 2.3 (PDF - 1.4MB) “Active Cell Processes.” pp. 18–32. ↗
Reading assignment
Grodzinsky, A. Fields, Forces and Flows in Biological Systems . Garland Science, 2011. ISBN: 9780815342120. [Preview with Google Books ] ↗
Listed reading
Boal, D. Mechanics of the Cell . Cambridge University Press, 2001. ISBN: 9780815342120.
Listed reading
Lodish, H., D. Baltimore, et al. Molecular Cell Biology . W. H. Freeman & Company, 2012. ISBN: 9781464109812.
Listed reading
Dill, K., S. Bromberg. Molecular Driving Forces: Statistical Thermodynamics in Chemistry & Biology . Garland Science, 2003. [Preview with Google Books ] ↗
Listed reading
Howard, J. Mechanics of Motor Proteins and the Cytoskeleton . Sinauer Associates, 2001. ISBN: 9780878933334.
Listed reading
Phillips, R., J. Kondev, et al. Physical Biology of the Cell . Garland Science, 2008. ISBN: 9780815341635.
Listed reading
Jackson, M. B. Molecular and Cellular Biophysics . Cambridge University Press, 2006. ISBN: 9780521624701. [Preview with Google Books ] ↗
Listed reading
Nelson, P. Biophysics Chemistry . Wiley-blackwell, 2008. ISBN: 9781405124362.
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Mofrad, M., and R. Kamm. Cytoskeletal Mechanics: Models and Measurements in Cell Mechanics . Cambridge University Press, 2011. ISBN: 9781107648289.
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Mofrad, M., and R. Kamm. Cellular Mechanotransduction: Diverse Perspectives from Molecules to Tissues . Cambridge University Press, 2009. ISBN: 9780521895231.
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Haynie, D. Biological Thermodynamics . Cambridge University Press, 2008. ISBN: 9780521711340. [Preview with Google Books ] ↗
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Wales, D. J. Energy Landscapes. With Applications to Clusters, Biomolecules, and Glasses . Cambridge University Press, 2004. ISBN: 9780521814157.
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Downarowicz, T. Entropy in Dynamical Systems . Cambridge University Press, 2011. ISBN: 9780521888851. [Preview with Google Books ] ↗
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Ben-naim, A. Entropy Demystified: The Second Law Reduced to Plain Common Sense . World Scientific, 2008. ISBN: 9789812832252. [Preview with Google Books ] ↗
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Prerequisites & course information

Same subject as 2.797[J] , 6.4840J, 20.310[J] Subject meets with 2.798[J] , 3.971[J] , 6.4842J, 10.537[J] , 20.410[J] Prereq: Biology (GIR) and 18.03 U (Spring) 4-0-8 units

Sources

Course catalogue ↗2026–2027
MIT OpenCourseWare ↗Spring 2015
MIT OCW readings ↗
MIT OCW calendar ↗
MIT OCW syllabus ↗
Historical MIT OpenCourseWare offering. Named reading entries and schedule topics are automatically extracted from the linked source pages.