Now showing items 1-20 of 33

    • 3D Axon Structure Extraction and Analysis in Confocal Fluorescence Microscopy Images 

      Zhang, Yong; Zhou, Xiaobo; Lu, Ju; Lichtman, Jeff; Adjeroh, Donald; Wong, Stephen T. C. (Massachusetts Institute of Technology Press, 2008)
      The morphological properties of axons, such as their branching patterns and oriented structures, are of great interest for biologists in the study of the synaptic connectivity of neurons. In these studies, researchers use ...
    • 3D Multicolor Super-Resolution Imaging Offers Improved Accuracy in Neuron Tracing 

      Lakadamyali, Melike; Babcock, Hazen P.; Bates, Mark; Zhuang, Xiaowei; Lichtman, Jeff (Public Library of Science, 2012)
      The connectivity among neurons holds the key to understanding brain function. Mapping neural connectivity in brain circuits requires imaging techniques with high spatial resolution to facilitate neuron tracing and high ...
    • Agrin and Synaptic Laminin Are Required to Maintain Adult Neuromuscular Junctions 

      Samuel, Melanie Ann; Valdez, Gregorio; Tapia, Juan; Lichtman, Jeff; Sanes, Joshua R. (Public Library of Science, 2012)
      As synapses form and mature the synaptic partners produce organizing molecules that regulate each other’s differentiation and ensure precise apposition of pre- and post-synaptic specializations. At the skeletal neuromuscular ...
    • Attenuation of age-related changes in mouse neuromuscular synapses by caloric restriction and exercise 

      Valdez, G; Tapia, J; Kang, H.; Clemenson, G. D.; Gage, F. H.; Lichtman, Jeff; Sanes, Joshua R. (Proceedings of the National Academy of Sciences, 2010)
      The cellular basis of age-related behavioral decline remains obscure but alterations in synapses are likely candidates. Accordingly, the beneficial effects on neural function of caloric restriction and exercise, which are ...
    • The Big and the Small: Challenges of Imaging the Brain's Circuits 

      Lichtman, Jeff; Denk, W. (American Association for the Advancement of Science (AAAS), 2011)
      The relation between the structure of the nervous system and its function is more poorly understood than the relation between structure and function in any other organ system. We explore why bridging the structure-function ...
    • Correlative light and electron microscopy using cathodoluminescence from nanoparticles with distinguishable colours 

      Glenn, David R.; Zhang, Huidan; Kasthuri, Narayanan; Schalek, Richard L.; Lo, P. K.; Trifonov, Alexei; Park, Hongkun; Lichtman, Jeff; Walsworth, Ronald L. (Nature Publishing Group, 2012)
      Correlative light and electron microscopy promises to combine molecular specificity with nanoscale imaging resolution. However, there are substantial technical challenges including reliable co-registration of optical and ...
    • Delayed synapse elimination in mouse levator palpebrae superioris muscle 

      Fox, Michael; Tapia, Juan; Kasthuri, Narayanan; Lichtman, Jeff (Wiley-Blackwell, 2011)
      At birth, synaptic sites in developing rodent muscles are innervated by numerous motor axons. During subsequent weeks, this multiple innervation disappears as one terminal strengthens, and all the others are eliminated. ...
    • Developmental Bias in Cleavage-Stage Mouse Blastomeres 

      Tabansky, Inna; Lenarcic, Alan; Draft, Ryan Wesley; Loulier, Karine; Keskin, Derin Benerci; Rosains, Jacqueline; Rivera-Feliciano, Jose; Lichtman, Jeff; Livet, Jean; Stern, Joel N H; Sanes, Joshua R.; Eggan, Kevin Carl (Elsevier BV, 2013)
      BACKGROUND: The cleavage-stage mouse embryo is composed of superficially equivalent blastomeres that will generate both the embryonic inner cell mass (ICM) and the supportive trophectoderm (TE). However, it remains unsettled ...
    • Exploring the Connectome: Petascale Volume Visualization of Microscopy Data Streams 

      Beyer, Johanna; Hadwiger, Markus; Al-Awami, Ali; Jeong, Won-Ki; Kasthuri, Narayanan; Lichtman, Jeff; Pfister, Hanspeter (Institute of Electrical & Electronics Engineers (IEEE), 2013)
      Recent advances in high-resolution microscopy let neuroscientists acquire neural-tissue volume data of extremely large sizes. However, the tremendous resolution and the high complexity of neural structures present big ...
    • Functional muscle regeneration with combined delivery of angiogenesis and myogenesis factors 

      Borselli, C.; Storrie, H.; Benesch-Lee, F.; Shvartsman, Dmitry; Cezar, Christine Anne; Lichtman, Jeff; Vandenburgh, H. H.; Mooney, David J. (Proceedings of the National Academy of Sciences, 2009)
      Regenerative efforts typically focus on the delivery of single factors, but it is likely that multiple factors regulating distinct aspects of the regenerative process (e.g., vascularization and stem cell activation) can ...
    • Generating and Imaging Multicolor Brainbow Mice 

      Weissman, T. A.; Sanes, Joshua R.; Lichtman, Jeff; Livet, J. (Cold Spring Harbor Laboratory Press, 2011)
      Visualizing the precise morphology of closely juxtaposed cells and their interactions can be highly informative, particularly when studying the complex organization of neuronal and glial networks in the nervous system. To ...
    • Generation and Imaging of Brainbow Mice 

      Weissman, T. A.; Sanes, Joshua R.; Lichtman, Jeff; Livet, J. (Cold Spring Harbor Laboratory Press, 2011)
      This protocol describes how to generate Brainbow transgenes and mice, how to induce recombination in Brainbow mice with tamoxifen, and how to fix tissue samples from these animals. It also describes how to acquire multichannel ...
    • Imaging ATUM ultrathin section libraries with WaferMapper: a multi-scale approach to EM reconstruction of neural circuits 

      Hayworth, Kenneth J.; Morgan, Josh L.; Schalek, Richard; Berger, Daniel R.; Hildebrand, David G. C.; Lichtman, Jeff W. (Frontiers Media S.A., 2014)
      The automated tape-collecting ultramicrotome (ATUM) makes it possible to collect large numbers of ultrathin sections quickly—the equivalent of a petabyte of high resolution images each day. However, even high throughput ...
    • Improved Tools for the Brainbow Toolbox 

      Cai, Dawen; Cohen, Kimberly B; Luo, Tuanlian; Lichtman, Jeff; Sanes, Joshua R. (Nature Publishing Group, 2013)
      In the transgenic multicolor labeling strategy called 'Brainbow', Cre-loxP recombination is used to create a stochastic choice of expression among fluorescent proteins, resulting in the indelible marking of mouse neurons ...
    • The Interscutularis Muscle Connectome 

      Lu, Ju; Tapia, Juan Carlos; White, Olivia L; Lichtman, Jeff (Public Library of Science, 2009)
      The complete connectional map (connectome) of a neural circuit is essential for understanding its structure and function. Such maps have only been obtained in Caenorhabditis elegans. As an attempt at solving mammalian ...
    • Lysosomal Activity Associated with Developmental Axon Pruning 

      Song, J; Misgeld, T.; Kang, H; Knecht, S.; Lu, J; Cao, Y.; Cotman, Susan L.; Bishop, D. L.; Lichtman, Jeff (Society for Neuroscience, 2008)
      Clearance of cellular debris is a critical feature of the developing nervous system, as evidenced by the severe neurological consequences of lysosomal storage diseases in children. An important developmental process, which ...
    • Motor Axon Regeneration and Muscle Reinnervation in Young Adult and Aged Animals 

      Kang, Hyuno; Lichtman, Jeff (Society for Neuroscience, 2013)
      Injuries to peripheral nerves can cause paralysis and sensory disturbances, but such functional impairments are often short lived because of efficient regeneration of damaged axons. The time required for functional recovery, ...
    • Multicolor Brainbow Imaging in Zebrafish 

      Pan, Y. A.; Livet, J.; Sanes, Joshua R.; Lichtman, Jeff; Schier, Alexander F (Cold Spring Harbor Laboratory Press, 2011)
      This protocol describes how to use the Brainbow strategy to label neurons in many different hues. The Brainbow system uses a random Cre/lox recombination to create varied combinations of red, blue, and green fluorescent ...
    • Multispectral labeling technique to map many neighboring axonal projections in the same tissue 

      Tsuriel, Shlomo; Gudes, Sagi; Draft, Ryan Wesley; Binshtok, Alexander M.; Lichtman, Jeff (Nature Publishing Group, 2015)
      We describe a method to map the location of axonal arbors of many individual neurons simultaneously based on the spectral properties of retrogradely transported dyelabeled vesicles. We inject overlapping regions of an axon ...
    • Neural Process Reconstruction from Sparse User Scribbles 

      Roberts, Mike; Jeong, Won-Ki; Vázquez-Reina, Amelio; Unger, Markus; Bischof, Horst; Lichtman, Jeff; Pfister, Hanspeter (Springer Verlag, 2011)
      We present a novel semi-automatic method for segmenting neural processes in large, highly anisotropic EM (electron microscopy) image stacks. Our method takes advantage of sparse scribble annotations provided by the user ...