• Corpus ID: 63883995

Automated recognition algorithms for neural studies

  title={Automated recognition algorithms for neural studies},
  author={W. Brent Lindquist and Ying Ying Koh},
Morphological characterization in the biological sciences is important for the study of structure-function relationships. As new imaging approaches progress and the speed of computation increases, it has become possible to acquire large sets of two- or three-dimensional high resolution images. However, this advance in data acquisition technique has not been accompanied by comparable advance in data analysis techniques. This thesis describes a number of geometric-based automated image analysis… 
Automated 3-D Detection of Dendritic Spines from In Vivo Two-Photon Image Stacks
A new computational framework for the automated detection and quantitative analysis of dendritic spines in vivo multi-photon imaging is introduced and enables the computation of a wide range of geometric features such as spine length, spatial distribution and spine volume in a high-throughput fashion.
Automated Algorithms for Multiscale Morphometry of Neuronal Dendrites
The approach provides a highly automated, complete morphological analysis of the entire neuron; each dendritic branch segment is characterized by several parameters, including branch order, length, and radius as a function of distance along the branch.
Robust 3D reconstruction and identification of dendritic spines from optical microscopy imaging
The skeleton of the dendrite is extracted by a procedure based on the medial geodesic function that is robust and topology preserving, and it is used to accurately identify spines and the method is shown to be robust.
Improved Automatic Centerline Tracing for Dendritic and Axonal Structures
The main novelties of the proposed method are the use of a small set of Multiscale Isotropic Laplacian filters, acting as self-steerable filters, for a quick and efficient binary segmentation of dendritic arbors and axons.
Improved automatic centerline tracing for dendritic structures
A novel algorithm for centerline extraction that is both highly accurate and computationally efficient and uses a small set of Multiscale Isotropic Laplacian filters for a fast and efficient binarization of the dendritic structure.
Continuous shifts in the active set of spinal interneurons during changes in locomotor speed
The activity of pools of spinal interneurons in larval zebrafish is explored and it is concluded that fundamentally different principles may underlie the recruitment of motoneuron and interneuron pools.


Automated tracing and volume measurements of neurons from 3‐D confocal fluorescence microscopy data
Three‐dimensional (3‐D) image analysis algorithms and experimental results that demonstrate the feasibility of fully automated tracing of neurons from fluorescence confocal microscopy data are
Restoration of three-dimensional quasi-binary images from confocal microscopy and its application to dendritic trees
For the analysis of learning processes and the underlying changes of the shape of excitatory synapses (spines), 3-D volume samples of selected dendritic segments are scanned by a confocal laser
Detection of Dendritic Spines in 3-Dimensional Images
This paper demonstrates a method to analyse connections in biological neural networks based on the idea that the skeletons of the spines including radius information will constitute all significant information.
Computer-assisted registration, segmentation, and 3D reconstruction from images of neuronal tissue sections
An interactive system exploits recent computer graphics and computer vision techniques to significantly reduce the time required to build 3D nerve cell models from serial microscopy.
A computer-aided method for the quantitative analysis of dendritic arborizations reconstructed from serial sections
A methodology for measuring precisely defined morphological parameters on complete dendritic arborizations on complete brain sections by means of a numerical topological codification is presented.
Quantification of dendritic spine populations using image analysis and a tilting disector
A series of image analysis routines, stochastic geometry methodology, and a design-based stereological procedure have been developed to quantify objectively the length, layout, and the true density
Two-photon imaging in living brain slices.
Dynamic measurements of neuronal morphology of neurons expressing green fluorescent protein (GFP) and GFP fusion proteins as well as functional imaging of calcium dynamics in individual dendritic spines are presented.
Three-dimensional structure of dendritic spines and synapses in rat hippocampus (CA1) at postnatal day 15 and adult ages: implications for the maturation of synaptic physiology and long-term potentiation.
The results demonstrate that the new series sample method combined with three-dimensional reconstruction reveals quantitative changes in the frequency and structure of spines and synapses that are not discernable by other methods and are likely to have dramatic effects on synaptic physiology and plasticity.
Age-related dendritic and spine changes in corticocortically projecting neurons in macaque monkeys.
It is possible that the memory and cognitive decline known to occur in old macaque monkeys is related to rather subtle changes in the morphological and molecular integrity of neurons subserving identifiable neocortical association circuits that play a critical role in cognition.
Correlations between morphology and electrophysiology of pyramidal neurons in slices of rat visual cortex. II. Electrophysiology
  • A. Mason, A. Larkman
  • Biology, Medicine
    The Journal of neuroscience : the official journal of the Society for Neuroscience
  • 1990
It is shown that distinctive intrinsic membrane properties of pyramidal neurons in visual cortex are correlated with different morphologies, and Burst firing responses to injected current pulses were confined to the layer 5 cells with thick apical dendrites.