Extended References

Growing and Studying Cells in Culture

Bissell, M. J., A. Rizki, and I. S. Mian. 2003. Tissue architecture: the ultimate regulator of breast epithelial function. Curr. Opin. Cell Biol. 15:753–762.

Battye, F. L., and K. Shortman. 1991. Flow cytometry and cell-separation procedures. Curr. Opin. Immunol. 3:238–241.

Davis, J. M., ed. 1994. Basic Cell Culture: A Practical Approach. IRL Press.

Edwards, B., et al. 2004. Flow cytometry for high-throughput, high-content screening. Curr. Opin. Chem. Biol. 8:392–398.

Eggert, U. S., and T. J. Mitchison. 2006. Small molecule screening by imaging. Curr. Opin. Chem. Biol. 10:232–237.

Goding, J. W. 1996. Monoclonal Antibodies: Principles and Practice. Production and Application of Monoclonal Antibodies in Cell Biology, Biochemistry, and Immunology, 3d ed. Academic Press.

Griffith, L. G., and M. A. Swartz. 2006. Capturing complex 3D tissue physiology in vitro. Nature Rev. Mol. Cell Biol. 7:211–224.

Herzenberg, L. A., et al. 2002. The future and history of fluorescence activated cell sorter and flow cytometry: a view from Stanford. Clin. Chem. 48:1819–1827.

Krutzik, P., et al. 2004. Analysis of protein phosphorylation and cellular signaling events by flow cytometry: techniques and clinical applications. Clin. Immunol. 110:206–221.

Paszek, M. J., and V. M. Weaver. 2004. The tension mounts: mechanics meets morphogenesis and malignancy. J. Mammary Gland Biol. Neoplasia 9:325–342.

Shaw, A. J., ed. 1996. Epithelial Cell Culture. IRL Press.

Tyson, C. A., and J. A. Frazier, eds. 1993. Methods in Toxicology. Vol. I (Part A): In Vitro Biological Systems. Academic Press. Describes methods for growing many types of primary cells in culture.

Light Microscopy: Exploring Cell Structure and Visualizing Proteins within Cells

Chen, X., M. Velliste, and R. F. Murphy. 2006. Automated interpretation of subcellular patterns in fluorescence microscope images for location proteomics. Cytometry (Part A) 69A:631–640.

Egner, A., and S. Hell. 2005. Fluorescence microscopy with super-resolved optical sections. Trends Cell Biol. 15:207–215.

Gaietta, G., et al. 2002. Multicolor and electron microscopic imaging of connexin trafficking. Science 296:503–507.

Giepmans, B. N. G., et al. 2006. The fluorescent toolbox for assessing protein location and function. Science 312:217–224.

Gilroy, S. 1997. Fluorescence microscopy of living plant cells. Ann. Rev. Plant Physiol. Plant Mol. Biol. 48:165–190.

Huang, B., H. Babcock, and X. Zhuang. 2010. Breaking the diffraction barrier: super-resolution imaging of cells. Cell 143:1047–1058.

Inoué, S., and K. Spring. 1997. Video Microscopy, 2d ed. Plenum Press.

Komatsu, N., et al. 2011. Development of an optimized backbone of FRET biosensors for kinases and GTPases. Mol. Biol. Cell 22:4647–4656.

Lakadamyali, M. 2014. Super-resolution microscopy: going live and going fast. Chem. Phys. Chem. 15:630636.

Lippincott-Schwartz, J. 2010. Imaging: visualizing the possibilities. J. Cell Sci. 123:3619–3620.

Lippincott-Schwartz, J. 2011. Emerging in vivo analyses of cell function using fluorescence imaging. Ann. Rev. Biochem. 80:327–332.

Matsumoto, B., ed. 2002. Methods in Cell Biology. Vol. 70: Cell Biological Applications of Confocal Microscopy. Academic Press.

Mayer, T. U., et al. 1999. Small molecule inhibitor of mitotic spindle bipolarity identified in a phenotype-based screen. Science 286:971–974.

Mayor, S., and S. Bilgrami. 2007. Fretting about FRET in cell and structural biology. In D. Zuk, ed., Evaluating Techniques in Biochemical Research. Cell Press.

Misteli, T., and D. L. Spector. 1997. Applications of the green fluorescent protein in cell biology and biotechnology. Nature Biotech. 15:961–964.

Newman, R. H., M. Fosbrink, and J. Zhang. 2011. Genetically encoded fluorescent biosensors for tracking signaling dynamics in living cells. Chem. Biol. 115:3614–3666.

Pepperkok, R., and J. Ellenberg. 2006. High-throughput fluorescence microscopy for systems biology. Nature Rev. Mol. Cell Biol. AOP, published online July 19, 2006 (doi:10.1038/nrm1979).

Roukos, V., T. Misteli, and C. K. Schmidt. 2010. Descriptive no more: the dawn of high-throughput microscopy. Trends Cell Biol. 20:503–506.

Sako, Y., S. Minoguchi, and T. Yanagida. 2000. Single-molecule imaging of EGFR signalling on the surface of living cells. Nature Cell Biol. 2:168–172.

Schermelleh, L., R. Heintzmann, and H. Leonhardt. 2010. A guide to super-resolution fluorescence microscopy. J. Cell Biol. 190:165–175.

Simon, S., and J. Jaiswal. 2004. Potentials and pitfalls of fluorescent quantum dots for biological imaging. Trends Cell Biol. 14:497–504.

Sluder, G., and D. Wolf, eds. 1998. Methods in Cell Biology. Vol. 56: Video Microscopy. Academic Press.

So, P. T. C., et al. 2000. Two-photon excitation fluorescence microscopy. Ann. Rev. Biomed. Eng. 2:399–429.

Tsien, R. Y. 2009. Indicators based on fluorescence resonance energy transfer (FRET). Cold Spring Harbor Protoc., doi:10.1101/pdb.top57.

Weigert, R., N. Porat-Shliom, and P. Amornphimoltham. 2013. Imaging cell biology in live animals: ready for prime time. J. Cell Biol. 201:969–979.

Willig, K. I., et al. 2006. STED microscopy reveals that synaptotagmin remains clustered after synaptic vesicle exocytosis. Nature 440:935–939.

Zipfel, W. R., R. M. Williams, and W. W. Webb. 2003. Non-linear magic: multiphoton microscopy in the biosciences. Nature Biotechnol. 21:1369–1377.

Electron Microscopy: High-Resolution Imaging

Beck, M., et al. 2004. Nuclear pore complex structure and dynamics revealed by cryoelectron tomography. Science 306:1387–1390.

Frey, T. G., G. A. Perkins, and M. H. Ellisman. 2006. Electron tomography of membrane-bound cellular organelles. Ann. Rev. Biophys. Biomol. Struc. 35:199–224.

Hyatt, M. A. 2000. Principles and Techniques of Electron Microscopy, 4th ed. Cambridge University Press.

Koster, A., and J. Klumperman. 2003. Electron microscopy in cell biology: integrating structure and function. Nature Rev. Mol. Cell Biol. 4:SS6–SS10.

Lučić, V., et al. 2005. Structural studies by electron tomography: from cells to molecules. Ann. Rev. Biochem. 74:833–865.

Medalia, O., et al. 2002. Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography. Science 298:1209–1213.

Nickell, S., et al. 2006. A visual approach to proteomics. Nature Rev. Mol. Cell Biol. 7:225–230.

Isolation of Cell Organelles

Bainton, D. 1981. The discovery of lysosomes. J. Cell Biol. 91:66s–76s.

Cuervo, A. M., and J. F. Dice. 1998. Lysosomes: a meeting point of proteins, chaperones, and proteases. J. Mol. Med. 76:6–12.

de Duve, C. 1996. The peroxisome in retrospect. Ann. NY Acad. Sci. 804:1–10.

de Duve, C. 1975. Exploring cells with a centrifuge. Science 189:186–194. The Nobel Prize lecture of a pioneer in the study of cellular organelles.

de Duve, C., and H. Beaufay. 1981. A short history of tissue fractionation. J. Cell Biol. 91:293s–299s.

Foster, L. J., et al. 2006. A mammalian organelle map by protein correlation profiling. Cell 125:187–199.

Holtzman, E. 1989. Lysosomes. Plenum Press.

Howell, K. E., E. Devaney, and J. Gruenberg. 1989. Subcellular fractionation of tissue culture cells. Trends Biochem. Sci. 14:44–48.

Lamond, A., and W. Earnshaw. 1998. Structure and function in the nucleus. Science 280:547–553.

Mootha, V. K., et al. 2003. Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 115:629–640.

Palade, G. 1975. Intracellular aspects of the process of protein synthesis. Science 189:347–358. The Nobel Prize lecture of a pioneer in the study of cellular organelles.

Ormerod, M. G., ed. 1990. Flow Cytometry: A Practical Approach. IRL Press.

Rickwood, D. 1992. Preparative Centrifugation: A Practical Approach. IRL Press.

Wanders, R., and H. R. Waterham. 2006. Biochemistry of mammalian peroxisomes revisited. Ann. Rev. Biochem. 75:295–332.