Abstract：
:The biological and clinical relevance of axonal transport has driven the development of a variety of new approaches to its study, including the generation of fluorescence or brightfield movies of moving cargoes within axons. Kymograph analysis is a simple and effective tool used to analyze axonal transport in neurons. Typically, kymographs are built by having a user trace the path of the axon in one frame of a time-lapse movie and extracting intensity profiles from subsequent frames along that path. This method cannot accommodate movies in which translation of the axon, or changes in axonal orientation or geometry, occur. Both are frequently observed in long-term movies of neurons, both in vitro and in vivo. To solve this problem and automate the creation of kymographs from these movies, we developed a two step algorithm. The first step implemented a simple image registration algorithm that aligned axons based on identification of a reference point on the axon in each image. The second step used a Hough transformation (HT) to automatically detect the axonal contour in each frame. Intensity profiles along this contour were then used to construct a kymograph. This algorithm was able to build an accurate kymograph of mitochondrial and actin transport in dynamic cultured sensory neurons, which were not amenable to previously used analytical methods. Although developed as a tool for analyzing transport, this algorithm is easily modified to analyze movies for the directionality and speed of axonal outgrowth, another metric of interest to neuroscientists.
journal_name
J Neurosci Methodsjournal_title
Journal of neuroscience methodsauthors
Chetta J,Shah SBdoi
10.1016/j.jneumeth.2011.05.013subject
Has Abstractpub_date
2011-08-15 00:00:00pages
230-40issue
2eissn
0165-0270issn
1872-678Xpii
S0165-0270(11)00271-8journal_volume
199pub_type
杂志文章abstract：:The feasibility of spindle afferent recording during naturally or electrically induced hindlimb movements is demonstrated in the case of spinalized, decapitated turtles. Since these recordings are obtained from fine filaments of exposed dorsal roots, it is possible for the experimenter to select the afferents of inter...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/0165-0270(86)90144-5
更新日期：1986-02-01 00:00:00
abstract：BACKGROUND:Previous studies have measured whisker movements and locomotion to characterise mouse models of neurodegenerative disease. However, these studies have always been completed in isolation, and do not involve standardized procedures for comparisons across multiple mouse models and background strains. NEW METHO...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章,评审
doi：10.1016/j.jneumeth.2019.108532
更新日期：2020-02-01 00:00:00
abstract：BACKGROUND:The construction of multichannel micro-electrode arrays (MEA) generally requires complex and expensive procedures. Here we describe a simple, cheap, flexible method of linear MEA construction. NEW METHOD:Our method allows manufacture of linear MEA (cross section ∼ 375 × 250 μm with 12 electrodes) of any des...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2020.109011
更新日期：2021-01-15 00:00:00
abstract：:Xenopus laevis oocytes were injected with synthetic mRNA coding for a rat VMAT2 mutant (rVMAT2-I483A/L484A) shown previously to be retained on the plasma membrane as a result of a presumed reduction of endocytosis. Binding of the specific VMAT inhibitor [3H]dihydrotetrabenazine indicated that expression did occur at a...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2003.10.010
更新日期：2004-02-15 00:00:00
abstract：BACKGROUND:Spike-wave discharges (SWD) found in neuroelectrical recordings are pathognomonic to absence epilepsy. The characteristic spike-wave morphology of the spike-wave complex (SWC) constituents of SWDs can be mathematically described by a subset of possible spectral power and phase values. Morlet wavelet transfor...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2014.12.016
更新日期：2015-03-15 00:00:00
abstract：:The use of drugs for recreational purposes, in particular Methamphetamine, is associated with an increased risk of infection with human immunodeficiency virus (HIV)-1. HIV-1 infection in turn can lead to HIV-associated neurological disorders (HAND) that range from mild cognitive and motor impairment to HIV-associated ...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2009.11.007
更新日期：2010-02-15 00:00:00
abstract：BACKGROUND:Saccades are rapid eye movements used to gather information about a scene which requires both action and perception. These are usually studied separately, so that how perception influences action is not well understood. In a dual task, where the subject looks at a target and reports a decision, subtle change...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2014.05.010
更新日期：2014-07-30 00:00:00
abstract：BACKGROUND:Mixed frequency and phase coding (FPC) can achieve the significant increase of the number of commands in steady-state visual evoked potential-based brain-computer interface (SSVEP-BCI). However, the inconsistent phases of the SSVEP over channels in a trial and the existence of non-contributing channels due t...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2018.04.001
更新日期：2018-07-01 00:00:00
abstract：BACKGROUND:Deep brain stimulation (DBS) in experimental animals has promoted new indications and refined existing treatments. Implantation of downscaled clinical DBS leads directly compatible with commercially available implantable pulse generators can however be challenging. Accordingly, we have developed a lead impla...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2011.06.011
更新日期：2011-08-30 00:00:00
abstract：:The Utah Intracortical Electrode Array (UIEA) is an array of 100 penetrating silicon microelectrodes designed to focally electrically stimulate or record neurons residing in a single layer up to 1.5 mm beneath the surface of the cerebral cortex. Apart from its use as a unique tool to study parallel processing in the c...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/s0165-0270(98)00031-4
更新日期：1998-07-01 00:00:00
abstract：:A method is described enabling the recording of synaptic currents from an isolated interganglionic interneurone in the central nervous system of the cockroach, Periplaneta americana, using an oil-gap recording system. The circuitry contains a Wheatstone bridge in which the preparation is the unknown resistance. Using ...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/0165-0270(88)90146-x
更新日期：1988-09-01 00:00:00
abstract：:Aberrant central nervous system zinc homeostasis has been reported in Alzheimer's disease (AD). However, there are conflicting reports describing zinc concentration either increased or decreased in the brain of AD patients. Such discrepancies may be due to differences in the brain area examined, zinc detection method,...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2011.09.008
更新日期：2012-01-15 00:00:00
abstract：BACKGROUND:Experimental stroke studies use multiple techniques to evaluate histopathological damage. Unfortunately, sensitivity and reproducibility of these techniques are poorly characterized despite pivotal influence on results. METHOD:The present study compared several quantification methods to differentiate betwee...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2014.11.001
更新日期：2015-01-30 00:00:00
abstract：:The study of dendritic spine shape and number has become a standard in the analysis of synaptic transmission anomalies since a considerable number of neuropsychiatric and neurological diseases have their foundation in alterations in these structures. One of the best ways to study possible alterations of dendritic spin...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2008.08.021
更新日期：2009-01-30 00:00:00
abstract：:A rapid, sensitive, non-isotopic in situ hybridization histochemistry protocol is presented to study the expression of mRNA at the single cell level in anatomically complex structures of the mammalian central nervous system. The protocol uses digoxigenin-UTP-labeled riboprobes, freefloating sections, and alkaline phos...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/0165-0270(92)90057-k
更新日期：1992-02-01 00:00:00
abstract：:It has become increasingly evident that continuous EEG monitoring is necessary to observe the development of epilepsy in animals, and to determine the effect of drugs on spontaneous seizures. Telemetric recording systems have been increasingly used to monitor EEG in freely moving animals. One challenge faced by such s...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2011.07.018
更新日期：2011-09-30 00:00:00
abstract：BACKGROUND:The sound fed to a loudspeaker may significantly differ from that reaching the ear of the listener. The transformation from one to the other consists of spectral distortions with strong dependence on the relative locations of the speaker and the listener as well as on the geometry of the environment. With th...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2018.08.025
更新日期：2018-11-01 00:00:00
abstract：:The hypothesis that the aortic depressor nerve (ADN) from spontaneously hypertensive rats (SHR) does not show the expected correlation between myelin sheath area and the axonal diameter of myelinated fibers detected in normotensive rat myelinated fibers was tested by means of regression analysis. Proximal and distal s...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2005.04.007
更新日期：2005-10-30 00:00:00
abstract：BACKGROUND:This manuscript describes a new, multidimensional and data-driven approach to identify outlying datapoints from a first-level fMRI dataset. NEW METHOD:Using three different indicators of data corruption (the fast variance component of DVARS [Δ%D-var], scan-to-scan total displacement [STS], and each scan's o...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2019.02.008
更新日期：2019-04-15 00:00:00
abstract：:We have designed a microdialysis technique to measure acetylcholinesterase (AChE) activity in the cortex of freely moving rats while simultaneously measuring the release of acetylcholine (ACh). Our approach was validated using ethyl S-2-di-isopropylaminoethyl-phosphonothiolate (VX), an irreversible inhibitor of AChE a...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/s0165-0270(98)00014-4
更新日期：1998-06-01 00:00:00
abstract：:Recently there has been an increase in the use of spectral methods for the analysis of experimental data. These analytical methods allow the study of interactions between simultaneously recorded signals and are particularly suited to the study of systems displaying rhythmic behaviour. A useful parameter in this contex...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/s0165-0270(96)02214-5
更新日期：1997-04-25 00:00:00
abstract：:We have developed and characterized a method for the rapid autoradiographic determination of receptor sites for the non-competitive NMDA receptor antagonist, MK-801, using an iodinated form of the compound, (+)-3-[125I]-iodo-MK-801. The binding site was shown to exhibit those criteria necessary for its definition as a...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/0165-0270(93)90137-g
更新日期：1993-01-01 00:00:00
abstract：:An important issue for neurophysiological studies of the visual system is the definition of the region of the visual field that can modify a neuron's activity (i.e., the neuron's receptive field - RF). Usually a trade-off exists between precision and the time required to map a RF. Manual methods (qualitative) are fast...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2013.09.012
更新日期：2014-01-15 00:00:00
abstract：:This study examined the effect of two dissection techniques on the quality of human brain specimens. Frozen cerebellar samples were obtained from postmortem brains of 10 subjects free from neurological and psychiatric disease. These tissues were tested for RNA and DNA concentration and quality after being dissected wi...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2008.12.027
更新日期：2009-04-30 00:00:00
abstract：:There are many reasons for wishing to determine the rate of uptake of a drug from blood into brain parenchyma. However, when faced with doing so for the first time, choosing a method can be a formidable task. There are at least 7 methods from which to choose: indicator dilution, brain uptake index, microdialysis, exte...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章,评审
doi：10.1016/0165-0270(94)00081-q
更新日期：1995-01-01 00:00:00
abstract：BACKGROUND:To map and quantify the proton exchange rate (kex) of brain tissues using improved omega plots in ischemic stroke patients and to investigate whether kex can serve as a potential endogenous surrogate imaging biomarker for detecting the metabolic state and the pathologic changes due to ischemic stroke. NEW M...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2020.108926
更新日期：2020-12-01 00:00:00
abstract：:The brain is a complex neural network with interleaving functional connectivity among anatomical regions. However, current functional parcellation algorithms usually emphasize independence or orthogonality between the spatial components, with the interleaving nature underrepresented. This study investigates a method, ...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2011.05.001
更新日期：2011-07-15 00:00:00
abstract：BACKGROUND:The trigeminal subnucleus caudalis (Vc) plays a critical role in transmission and modulation of nociceptive afferent inputs, and exhibits a similar layer construction to the spinal dorsal horn. However, afferent inputs enter the brainstem and project to a separately located nucleus. It has previously been di...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2017.05.019
更新日期：2017-07-15 00:00:00
abstract：:Three-dimensional (3D) reconstruction from serial sections that are undistorted and true-to-life is only possible when a reference system exists that allows correct matching of the section drawings. This paper describes a simple method for producing reference lines that ensures proper alignment of the drawings. (1) Th...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/0165-0270(88)90162-8
更新日期：1988-12-01 00:00:00
abstract：BACKGROUND:Intracranial electrical recordings (iEEG) and brain stimulation (iEBS) are invaluable human neuroscience methodologies. However, the value of such data is often unrealized as many laboratories lack tools for localizing electrodes relative to anatomy. To remedy this, we have developed a MATLAB toolbox for int...
journal_title：Journal of neuroscience methods
pub_type： 杂志文章
doi：10.1016/j.jneumeth.2017.01.022
更新日期：2017-04-01 00:00:00
