Research

Research within MOABC is organized around 3 research "cores":

Core 1: Spectroscopy

Single and multimodal measurement systems integrating optical and microscale systems for characterizing cells and other biologically significant molecules.
Dawn N. Vitek, Erica Block, Yves Bellouard, Daniel E. Adams, Sterling Backus, David Kleinfeld, Charles G. Durfee and Jeffrey A. Squier, “Spatio-temporally focused femtosecond laser pulses for nonreciprocal writing into optically transparent materials,” Optics Express, 18, Issue 24, pp. 24673-24678 2010.

Dawn N. Vitek, Daniel E. Adams, Adrea Johnson, Philbert S. Tsai, Sterling Backus, Charles G. Durfee, David Kleinfeld, and Jeffrey A. Squier, “Temporally focused femtosecond laser pulses for low numerical aperture micromachining through optically transparent materials,” Optics Express, 18 (17), pp. 18086-18094 2010.

K. Sheetz, J. Squier, “Ultrafast Optics: Imaging and Manipulating Biological Systems,” Journal of Applied Physics, 2009, 105, 051101. (Invited review)

Philbert Tsai, Pablo Blinder , Benjamin J Migliori, Joseph Neev, Yishi Jin, Jeffrey A Squier, and David Kleinfeld, “Plasma-mediated ablation: an optical tool for submicrometer surgery on neuronal and vascular systems,” Current Opinion in Biotechnology, 2009, 20, 90. (Invited review)

Dawn Schafer, Emily A. Gibson, Evan Salim, Amy E. Palmer, Ralph Jimenez, and Jeff Squier, "Microfluidic cell counter with embedded optical fibers fabricated by femtosecond laser ablation and anodic bonding," Optics Express, 2009, 17, 6068.

D. Schafer, J. A. Squier, J. van Maarseveen, D. Bonn, M. Bonn and M. Müller, “In situ Quantitative measurement of concentration profiles in a microreactor with submicron resolution using multiplex CARS microscopy,” J. Am. Chem. Soc., 2008, 130, 11592.

W. Amir, C. Durfee, D. Schafer, E. Gibson, L. Kost, E. Prezkwas, R. Jimenez, J. Squier, “Linear spatio-temporal characterization of a UV microscope objective for nonlinear imaging and spectroscopy by using two -dimensional spectral interferometry,” Journal of Microscopy, 2008, 230, 4.

D. Schafer, E.A. Gibson, W. Amir, R. Erikson, J. Lawrence, T. Vestad, J.A. Squier, R. Jimenez, D.W.M. Marr, “Three-dimensional Chemical Concentration Maps in a Microfluidic Device using Two-photon Absorption Fluorescence Imaging”, Optics Letters, 2007, 32, 2568.

J.J. Field, C. Durfee, J. A. Squier, S. Kane, "Quartic-phase-limited grism-based ultrashort pulse shaper," Optics Letters, 2007, 32, 3101.

Core 2: Microscopy

The implementation and integration of multidimensional characterization techniques within researcher accessible hardware.

J. Field, K. Sheetz, E. Chandler, E. Hoover, M. Young, S. Ding, A. Sylvester, D. Kleinfeld, J.A. Squier, “Differential Multiphoton Microscopy,” invited paper, accepted to appear in IEEE J.Q.E.

Erich E. Hoover, Michael D. Young, Eric V. Chandler, Anding Luo, Jeffrey J. Field, Kraig E. Sheetz, Anne W. Sylvester, and Jeff A. Squier, “Remote focusing for programmable multi-layer differential multiphoton microscopy”, Biomedical Optics Express Vol. 2, Issue 1, pp. 113–122 2011.

E. Chandler, C. Durfee, J. Squier, “Integrated spectrometer design with application to multiphoton microscopy,” Optics Express, Vol. 19, Issue 1, pp. 118-127 2011.

Jeffrey J. Field, Charles G. Durfee, and Jeff A. Squier, “Blind FROG pulse characterization for quantitative differential multiphoton microscopy,” Opt. Lett., Vol. 35, No. 20, 3369-3371 2010.

Jeffrey J. Field, Ramón Carriles, Kraig E. Sheetz, Eric V. Chandler, Erich E. Hoover, Shane E. Tillo, Thom E. Hughes, Anne W. Sylvester, David Kleinfeld, and Jeff A. Squier, “Optimizing the fluorescent yield in two-photon laser scanning microscopy with dispersion compensation, “ Optics Express, 2010, Vol. 18(13), 13661-13672.

Dawn Schafer, Michiel Müller, Mischa Bonn, David W. M. Marr, Jan van Maarseveen, and Jeff Squier, "Coherent anti-Stokes Raman scattering microscopy for quantitative characterization of mixing and flow in microfluidics," Optics. Letters, 2009, 34, 211.

Ramón Carriles, Dawn N. Schafer, Kraig E. Sheetz, Jeffrey J. Field, Richard Cisek, Virginijus Barzda, and Jeffrey A. Squier, “Invited Review Article: Imaging techniques for harmonic and multiphoton absorption fluorescence microscopy, “ Review of Scientific Instruments, 2009, 80, 081101. (Invited review)

E. Chandler, E. Hoover, J. Field, K. Sheetz, W. Amir, R. Carriles, S.Y. Ding, J. Squier, “High-resolution mosaic imaging with multifocal, multiphoton photon-counting microscopy,” Applied Optics, 2009, 48, 2067.

R. Carriles, K. E. Sheetz, E. E. Hoover, J. A. Squier, and V. Barzda, "Simultaneous multifocal, multiphoton, photon counting microscopy," Optics Express, 2008, 16, 10364.

K. Sheetz, E. Hoover, R. Carriles, D. Kleinfeld, J. A. Squier, “Advancing multifocal nonlinear microscopy: development and application of a novel multibeam Yb:KGd(WO4)2 oscillator,” Optics Express, 2008, 16,.17574.

W. Amir, R. Carriles, E. Hoover, T.A. Planchon, C. Durfee, J.A. Squier, “Simultaneous Imaging of Multiple Focal Planes using a Two-Photon Scanning Microscope”, Optics Letters, 2007, 32, 1731-1733.

Core 3: Manipulation

Optical-based control of cells and label-free sensing of cell mechanical properties.

I. Sraj, D.W.M. Marr, C.D. Eggleton, “Linear Diode Bar Optical Stretchers for Cell Deformation”, Biomedical Optics Express, 2010, 1, 482-488.

I. Sraj, A.C. Szatmary, D.W.M. Marr, C.D. Eggleton, “Dynamic Ray Tracing for Modeling Optical Cell Manipulation”, Optics Express, 2010, 18, 16702-16704.

I. Sraj, C.D. Eggleton, R. Jimenez, E. Hoover, J. Squier, J. Chichester, D.W.M. Marr, “Cell Deformation Cytometry using Diode-Bar Optical Stretchers”, Journal of Biomedical Optics, 2010, 15, 047010.

Dawn N. Vitek, Daniel E. Adams, Adrea Johnson, Philbert S. Tsai, Sterling Backus, Charles G. Durfee, David Kleinfeld, and Jeffrey A. Squier, “Temporally focused femtosecond laser pulses for low numerical aperture micromachining through optically transparent materials” , 2010, Vol. 18(17), 18086-18094.

R.W. Applegate Jr., D.W.M. Marr, J. Squier, S. Graves, “Particle Size Limits when using Optical Trapping and Deflection of Particles for Sorting using Diode Laser Bars”, Optics Express, 2009, 17, 16731-16738.

K.B. Neeves and S.L. Diamond. "A membrane-based microfluidic device for controlling the flux of platelet agonists into flowing blood,"  Lab on a Chip, 2008, 8, 701.

R.W. Applegate Jr., J. Squier, T. Vestad, J. Oakey, D.W.M. Marr, “Fiber-Focused Diode-Bar Optical Trapping for Microfluidic Flow Manipulation”, Applied Physics Letters, 2008, 92, 013904 (Also featured in the Virtual Journal of Biological Physics Research the Virtual Journal of Nanoscience and Technology).

R.W. Applegate Jr., D. Schafer, W. Amir, J. Squier, T. Vestad, J. Oakey, D.W.M. Marr, “Optically-Integrated Microfluidic Systems for Cellular Characterization and Manipulation”, Journal of Optics A: Pure and Applied Optics, 2007, 9, S122.

R.W. Applegate Jr., J. Squier, T. Vestad, J. Oakey, D.W.M. Marr, P. Bado, M.A. Dugan, A.A. Said, “Microfluidic Sorting System Based on Optical Waveguide Integration and Diode Laser Bar Trapping”, Lab on a Chip, 2006, 6, 422.

T. Stiles, R. Fallon, T. Vestad, J. Oakey, D.W.M. Marr, J. Squier, R. Jimenez, “Hydrodynamic Focusing for Vacuum-Pumped Microfluidics”, Microfluidics and Nanofluidics, 2005, 1, 280.

R.W. Applegate Jr., J. Squier, T. Vestad, J. Oakey, D.W.M. Marr, “Optical Trapping, Manipulation, and Sorting of Cells and Colloids in Microfluidic Systems with Diode Laser Bars”, Optics Express, 2004, 12, 4390.(Also featured in Technology Research News)