Difference between revisions of "Fall 2012: Journal Presentations"
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{{Template:20.309}} | {{Template:20.309}} | ||
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==Presentation guidelines== | ==Presentation guidelines== | ||
| − | + | * The allotted time is 10 minutes plus 2-3 minutes Q&A | |
| + | * Provide background to motivate why the research was conducted | ||
| + | * Describe the key results of the paper (not necessarily all of the results) and explain the measurement method in an appropriate level of detail | ||
| + | * Explain the significance of the results to the general field. | ||
| + | * 10 minutes will not be nearly enough time to discuss every aspect of the paper so. Identify the most important aspects to include in your presentation. | ||
| + | * Discuss the paper you select with 20.309 staff outside of class to address questions or thoughts you have about the paper. | ||
| + | * Upload a Powerpoint or PDF file of your slides to [https://stellar.mit.edu/S/course/20/fa12/20.309/homework/assignment24/ Stellar] the day before you present so the session organizer can use only one computer to avoid connection problems. | ||
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| + | <b>Non-presenters should read the papers carefully before the session to facilitate whorthwhile discussion.</b> | ||
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===Grading=== | ===Grading=== | ||
| − | Presentation grade is worth | + | Presentation grade is worth 8% of your total grade and is divided into the following categories: |
| − | + | * 10%: sign up for your paper by the deadline: 'Monday, Nov 19''. To sign up, add both presenter's names after the link to the paper on this page. | |
| − | * Uploading presentation file 6 hours before presentation time | + | ** There are three presentation days (Dec 4, 6 and 7). If you or your partner will be away on one of these days, indicate this by your name on the wiki page. |
| − | * Presentation – clarity, interpretation of paper, organization, | + | * 25%: Uploading presentation file to Stellar 6 hours before presentation session begins and ensuring that the file works. This is important since there will not be time to do this during the session. |
| − | * Attendance at the other two sessions | + | * 40%: Presentation – clarity, interpretation of paper, organization, adhering to the 10min time limit, ability to answer questions. |
| + | * 25%: Attendance at the other two sessions | ||
==Presentation sessions== | ==Presentation sessions== | ||
| − | + | ==Suggested publications== | |
| − | + | ===Single cell analysis=== | |
| − | + | *Mettetal et al. The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae. Science 2008. [http://web.mit.edu/biophysics/papers/SCIENCE2008.pdf link] ''see also supplemental section'' '''Aislyn Schalck & Krithi Sundaram (can do either Dec 6 or Dec 7, Dec 7 is preferred)''' ; '''John Chen, Yimin Chen & Daniel Glover (only 6 Dec. works)''' | |
| − | + | *Love, et al. A microengraving method for rapid selection of single cells producing antigen-specific antibodies. Nature Biotechnology 2006. [http://www.ncbi.nlm.nih.gov/pubmed/16699501 link] '''Sabina Sood & Shireen Rudina''' | |
| − | + | *J. Kralj, D. R. Hochbaum, A. D. Douglass, A. E. Cohen. Electrical Spiking in Escherichia coli Probed with a Fluorescent Voltage-Indicating Protein. Science 2011. [http://www.sciencemag.org/content/333/6040/345.full link] | |
| − | + | *Gossett et al Hydrodynamic stretching of single cells for large population mechanical phenotyping. PNAS 2012. [http://www.pnas.org/content/109/20/7630.full.pdf+html link] '''Katie Vogel & Hannah Johnsen''' | |
| − | + | *Tyson et al Fractional proliferation: a method to deconvolve cell population dynamics from single-cell data. Nature Methods 2012. [http://www.ncbi.nlm.nih.gov/pubmed/22886092 link] '''Divya Chhabra, Mariana Duran''' | |
| − | + | *Zhang et al. Microfluidics separation reveals the stem-cell–like deformability of tumor-initiating cells. PNAS 2012. [http://www.pnas.org/content/early/2012/10/25/1209893109.abstract link] '''Michael Hwang & Paul Muir''' ; '''Robin Yeo & Colin Beckwitt''' | |
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| − | == | + | ===Biomolecular detection=== |
| − | + | *Shapiro et al. Measuring Binding of Protein to Gel-Bound Ligands Using Magnetic Levitation JACS 2012. [http://pubs.acs.org/doi/abs/10.1021/ja211788e link] '''Alexa Schulte''' | |
| − | + | *Dong and Sahin. A nanomechanical interface to rapid single-molecule interactions. Nature Communications 2011. [http://www.nature.com/ncomms/journal/v2/n3/full/ncomms1246.html link] | |
| − | + | *A. P. Fields, A. E. Cohen. Electrokinetic trapping at the one nanometer limit. PNAS 2011. [http://www.pnas.org/content/early/2011/05/09/1103554108.full.pdf+html?with-ds=yes link] '''Maxwell T Pruner''' | |
| − | + | *S. Husale, H. HJ. Persson, and O. Sahin. DNA nanomechanics allows direct digital detection of complementary DNA and microRNA targets. Nature 2009. [http://www.nature.com/nature/journal/v462/n7276/abs/nature08626.html link] '''Elizabeth Choe, Sneha Kannan (can only present on Dec. 4)''' | |
| − | + | *Hanay et al. Single-protein nanomechanical mass spectrometry in real time. Nature Nanotechnology 2012. [http://www.nature.com/nnano/journal/v7/n9/full/nnano.2012.119.html link] | |
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| − | == | + | ===Optical Microscopy: Imaging=== |
| − | + | *AR. Lowe, JJ. Siegel, P. Kalab, M. Sui, K. Weis and J. Liphardt, "Selectivity Mechanism of the Nuclear Pore Complex Characterized by Single Cargo Tracking" Nature 2010 | |
| − | + | *Z. E. Perlman ''et al.'', "Multidimensional Drug Profiling by Automated Microscopy," ''Science'' '''306''' pp. 1194-98 (2004) '''Laura Seaman & Shelley Ackerman''' | |
| − | + | *E. Chung, D. Kim, and P. T. C. So, "Extended resolution wide-field optical imaging: objective-launched standing-wave total internal reflection fluorescence microscopy," ''Opt. Lett.'' '''31'''(7) pp. 945-7 (2006). '''Nahum Seifeselassie & Gonzalo Guajardo''' | |
| − | + | *T. Ichimura ''et al.'', "Application of tip-enhanced microscopy for nonlinear Raman spectroscopy," ''Appl. Phys. Lett.'' '''84'''(10), pp. 1768-70 (2004) | |
| + | *T-W. Koo, S. Chan, and A. A. Berlin, "Single-molecule detection of biomolecules by surface-enhanced coherent anti-Stokes Raman scattering," ''Opt. Lett.'' '''30'''(9), pp. 1024-6 (2005) | ||
| + | *VF Pamplona, A Mohan, MM Oliveira, R Raskar "NETRA: Interactive Display for Estimating Refractive Errors and Focal Range," Proc. of SIGGRAPH 2010 (ACM Transactions on Graphics 29, 4), 2010. | ||
| − | == | + | ===Optical Microscopy: Biomechanics=== |
| − | + | *S. M. Block ''et al.'', "Probing the kinesin reaction cycle with a 2D optical force clamp," ''PNAS'' '''100'''(5), pp. 2351-56 (2003). '''Philip Smith''' | |
| − | + | *P. J. Verveer ''et al.'', "Quantitative Imaging of Lateral ErbB1 Receptor Signal Propagation in the Plasma Membrane," ''Science'' '''290''' pp. 1567-70 (2000). '''Jessica Li & Kevin Li (can only do Dec 7th)''' | |
| − | + | *S. Yamada, D. Wirtz, and S. C. Kuo, "Mechanics of Living Cells Measured by Laser Tracking Microrheology," ''Biophys. J'' '''78'''(4), pp. 1736-47 (2000). '''Afrah Shafquat & Samira Daswani''' | |
| − | + | *B. Yap and R. D. Kamm, "Cytoskeletal remodeling and cellular activation during deformation of neutrophils into narrow channels," ''J Appl. Physiol.'' '''99''', pp. 2323-30 (2005). '''Cara Brown (can do either 4th or 7th); Edgar Matias and Steven Carreno''' | |
| − | + | *J. C. Crocker ''et al.'', "Two-Point Microrheology of Inhomogeneous Soft Materials," ''Phys. Rev. Lett.'' '''85'''(4), pp. 888-91 (2000). '''Elizabeth Rowland and Stephanie Fung''' | |
| − | + | *C. S. Chen ''et al.'', "Geometric control of cell life and death," ''Science'' '''276''' pp. 1425-28 (1997). '''Anirudh Arun, Shirley Galbiati'''; '''Divya Chhabra, Mariana Duran''' | |
| − | + | *Y. Wang ''et al.'', "Visualizing the mechanical activation of Src," ''Nature'' '''434''', pp. 1040-45 (2005). '''Jamal Elkhader and Queenie Chan; Lauren Berry''' | |
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| − | == | + | ===3D Imaging=== |
| − | + | *D. Axelrod, "Total Internal Reflection Fluorescence Microscopy in Cell Biology," ''Traffic '' '''2''' pp. 764-774 (2001). | |
| − | + | *JM. Walter, ''et al.'', "Light-powering Escherichia coli with proteorhodopsin" ''Proceedings of the National Academy of Sciences'' '''104''', pp. 2408–2412 (2007). | |
| − | + | *M. J. Miller ''et al.'', "Two-Photon Imaging of Lymphocyte Motility and Antigen Response in Intact Lymph Node," ''Science'' '''296''' pp. 1869-73 (2002). '''Emily Brown, Meghan Nelson''' | |
| − | + | *H. Wang ''et al.'', "Coherent Anti-Stokes Raman Scattering Imaging of Axonal Myelin in Live Spinal Tissues," ''Biophys. J'' '''89'''(1), pp. 581-91 (2005). | |
| − | + | * K. M. Hanson ''et al.'', "Two-Photon Fluorescence Lifetime Imaging of the Skin Stratum Corneum pH Gradient" ''Biophys. J'' '''83'''(3) pp. 1682-90 (2002).'''Cuong Nguyen''' | |
| − | + | *P. J. Campagnola ''et al.'', "Three-Dimensional High-Resolution Second-Harmonic Generation Imaging of Endogenous Structural Proteins in Biological Tissues," ''Biophys. J'' '''81'''(1) pp. 493-508 (2002). | |
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| − | == | + | ===Superresolution microscopy=== |
| − | + | *M. J. Rust, M. Bates, X. Zhuang, "Sub-diffraction-limit imaging by stochastic reconstruction optical microscopy (STORM)," Nature Methods 3:793-795 (2006). | |
| + | * [http://www.sciencemag.org/content/337/6091/236 Molecular Architecture and Assembly Principles of Vibrio cholerae Biofilms] Berk, et. al. cience 13 July 2012: Vol. 337 no. 6091 pp. 236-239 DOI: 10.1126/science.1222981 | ||
| + | * [http://www.nature.com/nmeth/journal/v9/n10/full/nmeth.2179.html Aptamers as potential tools for super-resolution microscopy]. Opazo, et. al. Nature Methods 9, 938–939 (2012) doi:10.1038/nmeth.2179 | ||
| + | * [http://www.nature.com/nmeth/journal/v9/n8/full/nmeth.2077.html Scanning angle interference microscopy reveals cell dynamics at the nanoscale] Paszek, et. al. Nature Methods 9, 825–827 (2012) doi:10.1038/nmeth.2077 | ||
| − | + | ===Optical manipulation (laser tweezers)=== | |
| − | + | *[http://www.nature.com/nmeth/journal/v9/n10/full/nmeth.2152.html Ultrafast force-clamp spectroscopy of single molecules reveals load dependence of myosin working stroke] Capitanio, et. al. [http://www.nature.com/nmeth/index.html Nature Methods] 9, 1013–1019 (2012) doi:10.1038/nmeth.2152 '''Asmamaw Wassie, Prashant Patil''' | |
| − | + | *[http://www.biophysj.org/cgi/reprint/81/2/767 The Optical Stretcher: A Novel Laser Tool to Micromanipulate Cells, Guck, et. al] | |
| − | + | *[http://stacks.iop.org/JOptA/9/S103 Brau, R.R., ''et al.,'' "Passive and active microrheology with optical tweezers." ''Journal of Optics A: Pure and Applied Optics'' '''9''', pp. S103-S112 (2007).] | |
| − | + | *[http://www.pnas.org/cgi/reprint/0611180104v1 Muller cells are living optical fibers in the vertebrate retina, Franze, et. al] | |
| − | + | *[http://www.pnas.org/content/104/12/4892.full.pdf Khalil, A.S., ''et al.'', "Single M13 bacteriophage tethering and stretching." ''Proceedings of the National Academy of Sciences'' '''104''', pp. 4892-4897 (2007).] | |
| + | *[http://www.physics.berkeley.edu/research/liphardt/pdfs/probe.pdf Y. Nakayama, ''et al.'', "Tunable nanowire nonlinear optical probe." ''Nature'' '''447''', pp. 1098-1101 (2007).] | ||
| − | == | + | ===Magnetic Resonance Imaging and Contrast=== |
| − | + | *[http://www.sciencedirect.com/science/article/pii/S0006349594807751 Basser PJ, Mattiello J, LeBihan D, “Diffusion tensor spectroscopy and imaging,” Biophys J 1994.] | |
| − | + | *[http://www.nature.com/nature/journal/v457/n7232/full/nature07752.html Brunner et al, “Travelling-wave nuclear magnetic resonance,” Nature 2009.] | |
| − | + | *[http://europepmc.org/abstract/MED/1006309/reload=0;jsessionid=37rBV5PKyycryJLgEsEz.0 Damadian R et al, “Field focusing nuclear magnetic resonance (FONAR): visualization of a tumor in a live animal,” Science 1976.] | |
| − | + | *[http://www.nature.com/nature/journal/v435/n7046/abs/nature03808.html Gleich B & Weizenecker J, “Tomographic imaging using the nonlinear response of magnetic particles,” Nature 2005.] | |
| − | + | *[http://www.pnas.org/content/87/24/9868.short Ogawa S et al, “Brain magnetic resonance imaging with contrast dependent on blood oxygenation,” Proc Natl Acad Sci USA 1990.] | |
| − | + | *[http://www.nature.com/nature/journal/v430/n6997/abs/nature02658.html Rugar D et al, “Single spin detection by magnetic resonance force microscopy,” Nature 2004.] | |
| − | + | *[http://www.nature.com/nm/journal/v9/n8/abs/nm907.html Zhou J et al, “Using the amide proton signals of intracellular proteins and peptides to detect pH effects in MRI,” Nat Med.] | |
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| − | == | + | ===Molecular Imaging with MRI=== |
| − | + | *[http://www.nature.com/nbt/journal/v23/n8/abs/nbt1121.html Ahrens ET et al, “In vivo imaging platform for tracking immunotherapeutic cells,” Nat Biotechnol 2005.] '''Paula Trepman & Tonia Tsinman (Dec 7 only); Holly Chamberlain and Nina Jreige''' | |
| − | + | *[http://www.pnas.org/content/100/18/10158.short Ardenkjaer-Larsen JH et al, “Increase in signal-to-noise ratio of > 10,000 times in liquid-state NMR,” Proc Natl Acad Sci USA 2003.] | |
| − | + | *[http://www.nature.com/nm/journal/v13/n4/full/nm1497.html Cohen B et al, “MRI detection of transcriptional regulation of gene expression in transgenic mice,” Nat Med 2007.] '''Brian Joseph, Luis A. Juárez''' | |
| − | + | *[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910380305/abstract Lin YJ & Koretsky AP, “Manganese ion enhances T1-weighted MRI during brain activation: an approach to direct imaging of brain function,” Magn Reson Med 1997.] | |
| − | + | *[http://www.contrib.andrew.cmu.edu/~hongyanx/web%20page%20materials/nbt0300_321.pdf Louie AY et al, “In vivo visualization of gene expression using magnetic resonance imaging,” Nat Biotechnol 2000.] | |
| − | + | *[http://www.nature.com/neuro/journal/v8/n4/full/nn1422.html Higuchi M et al, “19F and 1H MRI detection of amyloid beta plaques in vivo,” Nat Neurosci 2005.] '''Ryan Keating & Carlos Castellanos''' | |
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| − | == | + | ===Electron microscopy=== |
| − | + | [http://www.nature.com/nbt/journal/vaop/ncurrent/full/nbt.2375.html Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy] Martell, et. al. Nature Biotechnology (2012) doi:10.1038/nbt.2375 '''Grant Robinson''' | |
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{{Template:20.309 bottom}} | {{Template:20.309 bottom}} | ||
Latest revision as of 17:53, 3 December 2012
Presentation guidelines
- The allotted time is 10 minutes plus 2-3 minutes Q&A
- Provide background to motivate why the research was conducted
- Describe the key results of the paper (not necessarily all of the results) and explain the measurement method in an appropriate level of detail
- Explain the significance of the results to the general field.
- 10 minutes will not be nearly enough time to discuss every aspect of the paper so. Identify the most important aspects to include in your presentation.
- Discuss the paper you select with 20.309 staff outside of class to address questions or thoughts you have about the paper.
- Upload a Powerpoint or PDF file of your slides to Stellar the day before you present so the session organizer can use only one computer to avoid connection problems.
Non-presenters should read the papers carefully before the session to facilitate whorthwhile discussion.
Grading
Presentation grade is worth 8% of your total grade and is divided into the following categories:
- 10%: sign up for your paper by the deadline: 'Monday, Nov 19. To sign up, add both presenter's names after the link to the paper on this page.
- There are three presentation days (Dec 4, 6 and 7). If you or your partner will be away on one of these days, indicate this by your name on the wiki page.
- 25%: Uploading presentation file to Stellar 6 hours before presentation session begins and ensuring that the file works. This is important since there will not be time to do this during the session.
- 40%: Presentation – clarity, interpretation of paper, organization, adhering to the 10min time limit, ability to answer questions.
- 25%: Attendance at the other two sessions
Presentation sessions
Suggested publications
Single cell analysis
- Mettetal et al. The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae. Science 2008. link see also supplemental section Aislyn Schalck & Krithi Sundaram (can do either Dec 6 or Dec 7, Dec 7 is preferred) ; John Chen, Yimin Chen & Daniel Glover (only 6 Dec. works)
- Love, et al. A microengraving method for rapid selection of single cells producing antigen-specific antibodies. Nature Biotechnology 2006. link Sabina Sood & Shireen Rudina
- J. Kralj, D. R. Hochbaum, A. D. Douglass, A. E. Cohen. Electrical Spiking in Escherichia coli Probed with a Fluorescent Voltage-Indicating Protein. Science 2011. link
- Gossett et al Hydrodynamic stretching of single cells for large population mechanical phenotyping. PNAS 2012. link Katie Vogel & Hannah Johnsen
- Tyson et al Fractional proliferation: a method to deconvolve cell population dynamics from single-cell data. Nature Methods 2012. link Divya Chhabra, Mariana Duran
- Zhang et al. Microfluidics separation reveals the stem-cell–like deformability of tumor-initiating cells. PNAS 2012. link Michael Hwang & Paul Muir ; Robin Yeo & Colin Beckwitt
Biomolecular detection
- Shapiro et al. Measuring Binding of Protein to Gel-Bound Ligands Using Magnetic Levitation JACS 2012. link Alexa Schulte
- Dong and Sahin. A nanomechanical interface to rapid single-molecule interactions. Nature Communications 2011. link
- A. P. Fields, A. E. Cohen. Electrokinetic trapping at the one nanometer limit. PNAS 2011. link Maxwell T Pruner
- S. Husale, H. HJ. Persson, and O. Sahin. DNA nanomechanics allows direct digital detection of complementary DNA and microRNA targets. Nature 2009. link Elizabeth Choe, Sneha Kannan (can only present on Dec. 4)
- Hanay et al. Single-protein nanomechanical mass spectrometry in real time. Nature Nanotechnology 2012. link
Optical Microscopy: Imaging
- AR. Lowe, JJ. Siegel, P. Kalab, M. Sui, K. Weis and J. Liphardt, "Selectivity Mechanism of the Nuclear Pore Complex Characterized by Single Cargo Tracking" Nature 2010
- Z. E. Perlman et al., "Multidimensional Drug Profiling by Automated Microscopy," Science 306 pp. 1194-98 (2004) Laura Seaman & Shelley Ackerman
- E. Chung, D. Kim, and P. T. C. So, "Extended resolution wide-field optical imaging: objective-launched standing-wave total internal reflection fluorescence microscopy," Opt. Lett. 31(7) pp. 945-7 (2006). Nahum Seifeselassie & Gonzalo Guajardo
- T. Ichimura et al., "Application of tip-enhanced microscopy for nonlinear Raman spectroscopy," Appl. Phys. Lett. 84(10), pp. 1768-70 (2004)
- T-W. Koo, S. Chan, and A. A. Berlin, "Single-molecule detection of biomolecules by surface-enhanced coherent anti-Stokes Raman scattering," Opt. Lett. 30(9), pp. 1024-6 (2005)
- VF Pamplona, A Mohan, MM Oliveira, R Raskar "NETRA: Interactive Display for Estimating Refractive Errors and Focal Range," Proc. of SIGGRAPH 2010 (ACM Transactions on Graphics 29, 4), 2010.
Optical Microscopy: Biomechanics
- S. M. Block et al., "Probing the kinesin reaction cycle with a 2D optical force clamp," PNAS 100(5), pp. 2351-56 (2003). Philip Smith
- P. J. Verveer et al., "Quantitative Imaging of Lateral ErbB1 Receptor Signal Propagation in the Plasma Membrane," Science 290 pp. 1567-70 (2000). Jessica Li & Kevin Li (can only do Dec 7th)
- S. Yamada, D. Wirtz, and S. C. Kuo, "Mechanics of Living Cells Measured by Laser Tracking Microrheology," Biophys. J 78(4), pp. 1736-47 (2000). Afrah Shafquat & Samira Daswani
- B. Yap and R. D. Kamm, "Cytoskeletal remodeling and cellular activation during deformation of neutrophils into narrow channels," J Appl. Physiol. 99, pp. 2323-30 (2005). Cara Brown (can do either 4th or 7th); Edgar Matias and Steven Carreno
- J. C. Crocker et al., "Two-Point Microrheology of Inhomogeneous Soft Materials," Phys. Rev. Lett. 85(4), pp. 888-91 (2000). Elizabeth Rowland and Stephanie Fung
- C. S. Chen et al., "Geometric control of cell life and death," Science 276 pp. 1425-28 (1997). Anirudh Arun, Shirley Galbiati; Divya Chhabra, Mariana Duran
- Y. Wang et al., "Visualizing the mechanical activation of Src," Nature 434, pp. 1040-45 (2005). Jamal Elkhader and Queenie Chan; Lauren Berry
3D Imaging
- D. Axelrod, "Total Internal Reflection Fluorescence Microscopy in Cell Biology," Traffic 2 pp. 764-774 (2001).
- JM. Walter, et al., "Light-powering Escherichia coli with proteorhodopsin" Proceedings of the National Academy of Sciences 104, pp. 2408–2412 (2007).
- M. J. Miller et al., "Two-Photon Imaging of Lymphocyte Motility and Antigen Response in Intact Lymph Node," Science 296 pp. 1869-73 (2002). Emily Brown, Meghan Nelson
- H. Wang et al., "Coherent Anti-Stokes Raman Scattering Imaging of Axonal Myelin in Live Spinal Tissues," Biophys. J 89(1), pp. 581-91 (2005).
- K. M. Hanson et al., "Two-Photon Fluorescence Lifetime Imaging of the Skin Stratum Corneum pH Gradient" Biophys. J 83(3) pp. 1682-90 (2002).Cuong Nguyen
- P. J. Campagnola et al., "Three-Dimensional High-Resolution Second-Harmonic Generation Imaging of Endogenous Structural Proteins in Biological Tissues," Biophys. J 81(1) pp. 493-508 (2002).
Superresolution microscopy
- M. J. Rust, M. Bates, X. Zhuang, "Sub-diffraction-limit imaging by stochastic reconstruction optical microscopy (STORM)," Nature Methods 3:793-795 (2006).
- Molecular Architecture and Assembly Principles of Vibrio cholerae Biofilms Berk, et. al. cience 13 July 2012: Vol. 337 no. 6091 pp. 236-239 DOI: 10.1126/science.1222981
- Aptamers as potential tools for super-resolution microscopy. Opazo, et. al. Nature Methods 9, 938–939 (2012) doi:10.1038/nmeth.2179
- Scanning angle interference microscopy reveals cell dynamics at the nanoscale Paszek, et. al. Nature Methods 9, 825–827 (2012) doi:10.1038/nmeth.2077
Optical manipulation (laser tweezers)
- Ultrafast force-clamp spectroscopy of single molecules reveals load dependence of myosin working stroke Capitanio, et. al. Nature Methods 9, 1013–1019 (2012) doi:10.1038/nmeth.2152 Asmamaw Wassie, Prashant Patil
- The Optical Stretcher: A Novel Laser Tool to Micromanipulate Cells, Guck, et. al
- Brau, R.R., et al., "Passive and active microrheology with optical tweezers." Journal of Optics A: Pure and Applied Optics 9, pp. S103-S112 (2007).
- Muller cells are living optical fibers in the vertebrate retina, Franze, et. al
- Khalil, A.S., et al., "Single M13 bacteriophage tethering and stretching." Proceedings of the National Academy of Sciences 104, pp. 4892-4897 (2007).
- Y. Nakayama, et al., "Tunable nanowire nonlinear optical probe." Nature 447, pp. 1098-1101 (2007).
Magnetic Resonance Imaging and Contrast
- Basser PJ, Mattiello J, LeBihan D, “Diffusion tensor spectroscopy and imaging,” Biophys J 1994.
- Brunner et al, “Travelling-wave nuclear magnetic resonance,” Nature 2009.
- Damadian R et al, “Field focusing nuclear magnetic resonance (FONAR): visualization of a tumor in a live animal,” Science 1976.
- Gleich B & Weizenecker J, “Tomographic imaging using the nonlinear response of magnetic particles,” Nature 2005.
- Ogawa S et al, “Brain magnetic resonance imaging with contrast dependent on blood oxygenation,” Proc Natl Acad Sci USA 1990.
- Rugar D et al, “Single spin detection by magnetic resonance force microscopy,” Nature 2004.
- Zhou J et al, “Using the amide proton signals of intracellular proteins and peptides to detect pH effects in MRI,” Nat Med.
Molecular Imaging with MRI
- Ahrens ET et al, “In vivo imaging platform for tracking immunotherapeutic cells,” Nat Biotechnol 2005. Paula Trepman & Tonia Tsinman (Dec 7 only); Holly Chamberlain and Nina Jreige
- Ardenkjaer-Larsen JH et al, “Increase in signal-to-noise ratio of > 10,000 times in liquid-state NMR,” Proc Natl Acad Sci USA 2003.
- Cohen B et al, “MRI detection of transcriptional regulation of gene expression in transgenic mice,” Nat Med 2007. Brian Joseph, Luis A. Juárez
- Lin YJ & Koretsky AP, “Manganese ion enhances T1-weighted MRI during brain activation: an approach to direct imaging of brain function,” Magn Reson Med 1997.
- Louie AY et al, “In vivo visualization of gene expression using magnetic resonance imaging,” Nat Biotechnol 2000.
- Higuchi M et al, “19F and 1H MRI detection of amyloid beta plaques in vivo,” Nat Neurosci 2005. Ryan Keating & Carlos Castellanos
Electron microscopy
Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy Martell, et. al. Nature Biotechnology (2012) doi:10.1038/nbt.2375 Grant Robinson
