Philipp J Keller

Summary

Affiliation: Howard Hughes Medical Institute
Country: USA

Publications

  1. doi Visualizing whole-brain activity and development at the single-cell level using light-sheet microscopy
    Philipp J Keller
    Howard Hughes Medical Institute, Janelia Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA Electronic address
    Neuron 85:462-83. 2015
  2. pmc In vivo imaging of zebrafish embryogenesis
    Philipp J Keller
    Howard Hughes Medical Institute, Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA
    Methods 62:268-78. 2013
  3. doi Imaging morphogenesis: technological advances and biological insights
    Philipp J Keller
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, VA 20147, USA
    Science 340:1234168. 2013
  4. doi Light sheet microscopy of living or cleared specimens
    Philipp J Keller
    Janelia Farm Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, VA 20147, USA
    Curr Opin Neurobiol 22:138-43. 2012
  5. pmc Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy
    Philipp J Keller
    Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Methods 7:637-42. 2010
  6. doi Towards comprehensive cell lineage reconstructions in complex organisms using light-sheet microscopy
    Fernando Amat
    Janelia Farm Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, VA 20147, USA
    Dev Growth Differ 55:563-78. 2013
  7. doi Efficient processing and analysis of large-scale light-sheet microscopy data
    Fernando Amat
    Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia, USA
    Nat Protoc 10:1679-96. 2015
  8. doi Reconstruction of zebrafish early embryonic development by scanned light sheet microscopy
    Philipp J Keller
    Cell Biology and Biophysics Unit, European Molecular Biology Laboratory EMBL, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Science 322:1065-9. 2008
  9. doi Nlcam modulates midline convergence during anterior neural plate morphogenesis
    Katherine E Brown
    Developmental Biology, European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Dev Biol 339:14-25. 2010
  10. doi Real-Time Three-Dimensional Cell Segmentation in Large-Scale Microscopy Data of Developing Embryos
    Johannes Stegmaier
    Howard Hughes Medical Institute, Janelia Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA Karlsruhe Institute of Technology, Institute for Applied Computer Science, Hermann von Helmholtz Platz 1, 76344 Eggenstein Leopoldshafen, Germany Electronic address
    Dev Cell 36:225-40. 2016

Collaborators

Detail Information

Publications22

  1. doi Visualizing whole-brain activity and development at the single-cell level using light-sheet microscopy
    Philipp J Keller
    Howard Hughes Medical Institute, Janelia Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA Electronic address
    Neuron 85:462-83. 2015
    ..Together with new tools for reporting and manipulating neuronal activity and gene expression, these techniques promise new insights into the large-scale function and development of neural systems. ..
  2. pmc In vivo imaging of zebrafish embryogenesis
    Philipp J Keller
    Howard Hughes Medical Institute, Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA
    Methods 62:268-78. 2013
    ..This unique combination of capabilities makes light sheet microscopy an indispensable tool for the in vivo long-term imaging of large developing organisms. ..
  3. doi Imaging morphogenesis: technological advances and biological insights
    Philipp J Keller
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, VA 20147, USA
    Science 340:1234168. 2013
    ..To unlock their full potential, these methods need to be matched with new computational approaches and physical models that help convert highly complex image data sets into biological insights...
  4. doi Light sheet microscopy of living or cleared specimens
    Philipp J Keller
    Janelia Farm Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, VA 20147, USA
    Curr Opin Neurobiol 22:138-43. 2012
    ..Here, we provide an overview of the history of light sheet microscopy, review the development of tissue clearing methods, and discuss recent technical breakthroughs that have the potential to influence the future direction of the field...
  5. pmc Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy
    Philipp J Keller
    Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Methods 7:637-42. 2010
    ..We reconstructed cell positions over time from the Drosophila DSLM-SI data and created a fly digital embryo...
  6. doi Towards comprehensive cell lineage reconstructions in complex organisms using light-sheet microscopy
    Fernando Amat
    Janelia Farm Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, VA 20147, USA
    Dev Growth Differ 55:563-78. 2013
    ....
  7. doi Efficient processing and analysis of large-scale light-sheet microscopy data
    Fernando Amat
    Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia, USA
    Nat Protoc 10:1679-96. 2015
    ..These software modules are open source. They provide high data throughput using a single computer workstation and are readily applicable to a wide spectrum of biological model systems. ..
  8. doi Reconstruction of zebrafish early embryonic development by scanned light sheet microscopy
    Philipp J Keller
    Cell Biology and Biophysics Unit, European Molecular Biology Laboratory EMBL, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Science 322:1065-9. 2008
    ..We further derive a model of germ layer formation and show that the mesendoderm forms from one-third of the embryo's cells in a single event. Our digital embryos, with 55 million nucleus entries, are provided as a resource...
  9. doi Nlcam modulates midline convergence during anterior neural plate morphogenesis
    Katherine E Brown
    Developmental Biology, European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Dev Biol 339:14-25. 2010
    ....
  10. doi Real-Time Three-Dimensional Cell Segmentation in Large-Scale Microscopy Data of Developing Embryos
    Johannes Stegmaier
    Howard Hughes Medical Institute, Janelia Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA Karlsruhe Institute of Technology, Institute for Applied Computer Science, Hermann von Helmholtz Platz 1, 76344 Eggenstein Leopoldshafen, Germany Electronic address
    Dev Cell 36:225-40. 2016
    ..RACE is easy to use, as it requires adjustment of only three parameters, takes full advantage of state-of-the-art multi-core processors and graphics cards, and is available as open-source software for Windows, Linux, and Mac OS. ..
  11. doi Whole-animal functional and developmental imaging with isotropic spatial resolution
    Raghav K Chhetri
    Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia, USA
    Nat Methods 12:1171-8. 2015
    ..Compared with existing high-resolution light-sheet techniques, IsoView microscopy effectively doubles the penetration depth and provides subsecond temporal resolution for specimens 400-fold larger than could previously be imaged. ..
  12. pmc Whole-central nervous system functional imaging in larval Drosophila
    William C Lemon
    Howard Hughes Medical Institute, Janelia Research Campus, 19700 Helix Drive, Ashburn, Virginia 20147, USA
    Nat Commun 6:7924. 2015
    ....
  13. pmc Fast and robust optical flow for time-lapse microscopy using super-voxels
    Fernando Amat
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, VA 20147, USA
    Bioinformatics 29:373-80. 2013
    ..Thus, new approaches to optical flow are required to improve performance for such data...
  14. doi Quantitative high-speed imaging of entire developing embryos with simultaneous multiview light-sheet microscopy
    Raju Tomer
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia, USA
    Nat Methods 9:755-63. 2012
    ..SiMView data sets provide quantitative morphological information even for fast global processes and enable accurate automated cell tracking in the entire early embryo...
  15. doi Whole-brain functional imaging at cellular resolution using light-sheet microscopy
    Misha B Ahrens
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia, USA
    Nat Methods 10:413-20. 2013
    ....
  16. doi Light sheet microscopy in cell biology
    Raju Tomer
    Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA
    Methods Mol Biol 931:123-37. 2013
    ..We furthermore describe computational tools for basic image processing and data inspection...
  17. doi Reconstructing embryonic development
    Khaled Khairy
    Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA
    Genesis 49:488-513. 2011
    ..We argue that the substantial increase in data complexity and size requires sophisticated new strategies to data analysis to exploit the enormous potential of these new resources...
  18. doi Fast, accurate reconstruction of cell lineages from large-scale fluorescence microscopy data
    Fernando Amat
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia, USA
    Nat Methods 11:951-8. 2014
    ..Using our system, we performed the first cell lineage reconstruction of early Drosophila melanogaster nervous system development, revealing neuroblast dynamics throughout an entire embryo. ..
  19. doi Light sheet-based imaging and analysis of early embryogenesis in the fruit fly
    Khaled Khairy
    Howard Hughes Medical Institute, Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA, 20147, USA
    Methods Mol Biol 1189:79-97. 2015
    ....
  20. doi Live imaging of nervous system development and function using light-sheet microscopy
    William C Lemon
    Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia
    Mol Reprod Dev 82:605-18. 2015
    ..We discuss key considerations in the design of light-sheet microscopy experiments, including sample preparation and fluorescent marker strategies, and provide an outlook for future directions in the field...
  21. doi Light-sheet functional imaging in fictively behaving zebrafish
    Nikita Vladimirov
    Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia, USA
    Nat Methods 11:883-4. 2014
  22. doi Shedding light on the system: studying embryonic development with light sheet microscopy
    Raju Tomer
    Janelia Farm Research Campus, Howard Hughes Medical Institute, 19700 Helix Drive, Ashburn, VA 20147, USA
    Curr Opin Genet Dev 21:558-65. 2011
    ..We conclude with a discussion of promising future directions...