Neuronal Morphology Goes Digital: A Research Hub for Cellular and System Neuroscience
Neuron. Volume 77, Issue
6, p1017–1038, 20 March 2013
Abstract
The importance of neuronal morphology in brain function has been recognized for over a century. The broad applicability of “digital reconstructions” of neuron morphology across neuroscience subdisciplines has stimulated the rapid development of numerous synergistic tools for data acquisition, anatomical analysis, three-dimensional rendering, electrophysiological simulation, growth models, and data sharing. Here we discuss the processes of histological labeling, microscopic imaging, and semiautomated tracing. Moreover, we provide an annotated compilation of currently available resources in this rich research “ecosystem” as a central reference for experimental and computational neuroscience
The importance of neuronal morphology in brain function has been recognized for over a century. The broad applicability of “digital reconstructions” of neuron morphology across neuroscience subdisciplines has stimulated the rapid development of numerous synergistic tools for data acquisition, anatomical analysis, three-dimensional rendering, electrophysiological simulation, growth models, and data sharing. Here we discuss the processes of histological labeling, microscopic imaging, and semiautomated tracing. Moreover, we provide an annotated compilation of currently available resources in this rich research “ecosystem” as a central reference for experimental and computational neuroscience
http://www.cell.com/neuron/abstract/S0896-6273%2813%2900232-8
Advanced microscopy techniques for quantitative analysis in neuromorphology and neuropathology research: current status and requirements for the future.
Lemmens MA, Steinbusch HW, Rutten BP, Schmitz C.
J Chem Neuroanat. 2010 Nov;40(3):199-209. doi: 10.1016/j.jchemneu.2010.06.005.
Abstract
Visualizing neuromorphology
and in particular neuropathology has been the focus of many researchers
in the quest to solve the numerous questions that are still remaining
related to several neurological and neuropsychiatric diseases. Over the
last years, intense research into microscopy techniques has resulted in
the development of various new types of microscopes, software imaging
systems, and analysis programs. This review briefly discusses some key
techniques, such as confocal stereology and automated neuron tracing and
reconstruction, and their applications in neuroscience research.
Special emphasis is placed on needs for further developments, such as
the demand for higher-throughput analyses in quantitative neuromorphology.
These developments will advance basic neuroscience research as well as
pharmaceutical and biotechnology research and development.
http://www.ncbi.nlm.nih.gov/pubmed/20600825
http://www.ncbi.nlm.nih.gov/pubmed/20600825
Digital pathology: a tool for 21st century neuropathology.
Abstract
Digital
pathology represents an electronic environment for performing
pathologic analysis and managing the information associated with this
activity. The technology to create and support digital pathology has
largely developed over the last decade. The use of digital pathology
tools is essential to adapt and lead in the rapidly changing environment
of 21st century neuropathology. The utility of digital pathology has
already been demonstrated by pathologists in several areas including
consensus reviews, quality assurance (Q/A), tissue microarrays (TMAs),
education and proficiency testing. These utilities notwithstanding,
interface issues, storage and image formatting all present challenges to
the integration of digital pathology into the neuropathology work
environment. With continued technologic improvements, as well as the
introduction of fluorescent side scanning and multispectral detection,
future developments in digital pathology offer the promise of adding
powerful analytic tools to the pathology work environment. The
integration of digital pathology with biorepositories offers particular
promise for neuropathologists engaged in tissue banking. The utilization
of these tools will be essential for neuropathologists to continue as
leaders in diagnostics, translational research and basic science in the
21st century.
http://www.ncbi.nlm.nih.gov/pubmed/19290997
http://www.ncbi.nlm.nih.gov/pubmed/19290997
L-Measure: a web-accessible tool for the analysis, comparison and search of digital reconstructions of neuronal morphologies
Ruggero Scorcioni,
Sridevi Polavaram
&
Giorgio A Ascoli
Nature Protocols 3, 866 - 876 (2008)
Published online: 24 April 2008 | doi:10.1038/nprot.2008.51
Published online: 24 April 2008 | doi:10.1038/nprot.2008.51
Abstract
L-Measure
(LM) is a freely available software tool for the quantitative
characterization of neuronal morphology. LM computes a large number of
neuroanatomical parameters from 3D digital reconstruction files starting
from and combining a set of core metrics. After more than six years of
development and use in the neuroscience community, LM enables the
execution of commonly adopted analyses as well as of more advanced
functions. This report illustrates several LM protocols: (i) extraction
of basic morphological parameters, (ii) computation of frequency
distributions, (iii) measurements from user-specified subregions of the
neuronal arbors, (iv) statistical comparison between two groups of cells
and (v) filtered selections and searches from collections of neurons
based on any Boolean combination of the available morphometric measures.
These functionalities are easily accessed and deployed through a
user-friendly graphical interface and typically execute within few
minutes on a set of ~20 neurons. The tool is available at http://krasnow.gmu.edu/cn3 for either online use on any Java-enabled browser and platform or download for local execution under Windows and Linux.
Δεν υπάρχουν σχόλια:
Δημοσίευση σχολίου
Σημείωση: Μόνο ένα μέλος αυτού του ιστολογίου μπορεί να αναρτήσει σχόλιο.