COLORcation: A new application to phenotype exploratory behavior models of anxiety in mice.

Abstract:

BACKGROUND:Behavioral analyses in rodents have successfully delineated the function of many genes and signaling pathways in the brain. Behavioral testing uses highly defined experimental conditions to identify abnormalities in a given mouse strain or genotype. The open field (OF) is widely used to assess both locomotion and anxiety in rodents. In this test, the more a mouse explores and spend time in the center of the arena, the less anxious it is considered to be. However, the simplistic distinction between center and border substantially reduces the information content of the analysis and may fail to detect biologically meaningful differences. NEW METHOD:Here we describe COLORcation, a new application for improved analyses of mouse behavior in the OF. RESULTS:The application analyses animal exploration patterns in detailed spatial resolution (e.g. 10×10 bins) to provide a color-encoded heat map of mouse activity. In addition, COLORcation provides new parameters to track activity and locomotion of the test animals. We demonstrate the use of COLORcation in different experimental paradigms, including pharmacological and restraint-based induction of stress and anxiety. COMPARISON WITH EXISTING METHOD(S):COLORcation is compatible with multiple acquisition systems, giving users the option to make the most of their raw data organized text files containing time and coordinates of animal locations as input. CONCLUSION:These analyses validate the utility of the software and establish its reliability and potential as a new tool to analyze OF data.

journal_name

J Neurosci Methods

authors

Dagan SY,Tsoory MM,Fainzilber M,Panayotis N

doi

10.1016/j.jneumeth.2016.06.003

subject

Has Abstract

pub_date

2016-09-01 00:00:00

pages

9-16

eissn

0165-0270

issn

1872-678X

pii

S0165-0270(16)30124-8

journal_volume

270

pub_type

杂志文章
  • Quantitative morphological study of microglial cells in the ischemic rat brain using principal component analysis.

    abstract::Pathogenic stimuli induce alterations in the morphology of microglial cells. We analysed changes in lectin-stained cells on the 1st, 3rd, 7th or 14th day after transient global ischemia. Three areas differing in the degree of microglial reaction were selected for analysis: the upper cerebral cortex, the hippocampal CA...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2005.01.009

    authors: Soltys Z,Orzylowska-Sliwinska O,Zaremba M,Orlowski D,Piechota M,Fiedorowicz A,Janeczko K,Oderfeld-Nowak B

    更新日期:2005-07-15 00:00:00

  • Measurement of phase gradients in the EEG.

    abstract::Previous research has shown that spatio-temporal waves in the EEG are generally of long spatial wavelength and form smooth patterns of phase gradients at particular time-samples. This paper describes a method to measure smooth phase gradients of long spatial wavelength in the EEG. The method depends on the global patt...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2006.02.016

    authors: Alexander DM,Trengove C,Wright JJ,Boord PR,Gordon E

    更新日期:2006-09-30 00:00:00

  • New methods of dye application for staining motor neurons in an insect.

    abstract::Motor neurons innervating tiny muscles in the antennal system of the cockroach, Periplaneta americana, were stained by two new approaches to backfilling motor axons and somata. Both methods are easier, and produce less leakage of dye, than conventional methods that rely on application of dye to the distal cut end of a...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(00)00203-x

    authors: Baba Y

    更新日期:2000-06-01 00:00:00

  • Method for in situ detection of the mitochondrial function in neurons.

    abstract::Conventional studies of neuronal mitochondria have been limited to the use of purified preparations of isolated mitochondria, neural cell homogenates, living neurons, or brain slices. However, each technique has several drawbacks. Here, we demonstrate that the neuronal cell's membrane can be effectively permeabilized ...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2004.02.027

    authors: Safiulina D,Kaasik A,Seppet E,Peet N,Zharkovsky A,Seppet E

    更新日期:2004-08-15 00:00:00

  • Long-term survival of dopaminergic neurones in free-floating roller tube cultures of human fetal ventral mesencephalon.

    abstract::Transplantation of human fetal ventral mesencephalon (VM) to Parkinsonian patients has shown beneficial effects in several clinical trials. However, further improvements in the transplantation technique are needed. Delayed surgery, i.e., the in vitro maintenance of the tissue prior to transplantation would present sev...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/0165-0270(94)90160-0

    authors: Spenger C,Studer L,Evtouchenko L,Egli M,Burgunder JM,Markwalder R,Seiler RW

    更新日期:1994-09-01 00:00:00

  • MR connectomics: Principles and challenges.

    abstract::MR connectomics is an emerging framework in neuro-science that combines diffusion MRI and whole brain tractography methodologies with the analytical tools of network science. In the present work we review the current methods enabling structural connectivity mapping with MRI and show how such data can be used to infer ...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章,评审

    doi:10.1016/j.jneumeth.2010.01.014

    authors: Hagmann P,Cammoun L,Gigandet X,Gerhard S,Grant PE,Wedeen V,Meuli R,Thiran JP,Honey CJ,Sporns O

    更新日期:2010-12-15 00:00:00

  • High capacity and low cost detection of prion protein gene variant alleles by denaturing HPLC.

    abstract::Mutations in the human prion protein gene (PRNP) are responsible for hereditary diseases called transmissible spongiform encephalopathies (TSE) and a polymorphic site at codon 129 determines sensitivity to infectious forms of these maladies. More recently, codon 129 has been related to cognition performance in the eld...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2004.05.001

    authors: Castro RM,Landemberger MC,Walz R,Carlotti CG Jr,Huang N,Cunha DR,Moura R,Caballero OL,Sakamoto AC,Nitrini R,Brentani RR,Martins VR

    更新日期:2004-10-30 00:00:00

  • Beam-walking in rats: studies towards developing an animal model of functional recovery after brain injury.

    abstract::While it has long been recognized that humans recover function after stroke or head injury, the direct impact of drugs on recovery has only recently received attention. The ability of rats to traverse a narrow, elevated beam has proven to be particularly useful when studying the effects of pharmacologic manipulations ...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/0165-0270(90)90154-8

    authors: Goldstein LB,Davis JN

    更新日期:1990-02-01 00:00:00

  • Anterograde tracing of human hippocampus in vitro-a neuroanatomical tract tracing technique for the analysis of local fiber tracts in human brain.

    abstract::Hippocampal slices were obtained from hippocampi of patients with temporal lobe epilepsy or from patients with mass lesions located in the temporal lobe. Hippocampal slices were kept alive in a slice chamber and the anterograde tracer neurobiotin was iontophoretically injected into the granule cell layer of the dentat...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(02)00187-5

    authors: Freiman TM,Gimbel K,Honegger J,Volk B,Zentner J,Frotscher M,Deller T

    更新日期:2002-10-15 00:00:00

  • The use of a muscle graft to repair a segmentary nerve defect. An experimental study using the sciatic nerve of rats as model.

    abstract::The use of a devitalized skeletal muscle graft and conventional nerve graft to repair a 5mm long segmentary sciatic nerve lesion was studied in rats by means of functional, morphometric and spinal cord motor neuron cell response evaluation. Thirty-four rats were used and divided into four groups according to the proce...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2003.09.010

    authors: Oliveira EF,Mazzer N,Barbieri CH,DelBel EA

    更新日期:2004-02-15 00:00:00

  • Modeling of evoked field potentials in hippocampal CA1 area describes their dependence on NMDA and GABA receptors.

    abstract::A computer model of the hippocampal CA1 area, which receives synaptic inputs from CA3 neurons via the Schaffer collaterals, was constructed. Pyramidal cells (PC) and two types of interneurons were represented by compartmental models, and mechanisms of feed-forward inhibition (FFI) and recurrent inhibition were incorpo...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(00)00334-4

    authors: Sargsyan AR,Papatheodoropoulos C,Kostopoulos GK

    更新日期:2001-01-15 00:00:00

  • Localization of cortical primary motor area of the hand using navigated transcranial magnetic stimulation, BOLD and arterial spin labeling fMRI.

    abstract:BACKGROUND:Although the relationship between neuronavigated transcranial magnetic stimulation (nTMS) and functional magnetic resonance imaging (fMRI) has been widely studied in motor mapping, it is unknown how the motor response type or the choice of motor task affect this relationship. NEW METHOD:Centers of gravity (...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2016.09.002

    authors: Kallioniemi E,Pitkänen M,Könönen M,Vanninen R,Julkunen P

    更新日期:2016-11-01 00:00:00

  • Aspects of the quantitative analysis of neurons in the cerebral cortex.

    abstract::We address three problems concerning the quantitative analysis of nerve cell distribution in the cerebral cortex: (i) preparatory tissue deformation (shrinkage); (ii) difficulties in differentiating between small neurons and astroglia; and (iii) the bias introduced by the counting method. We found that staining with R...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(96)00119-7

    authors: Skoglund TS,Pascher R,Berthold CH

    更新日期:1996-12-28 00:00:00

  • PG25, a pineal-specific cDNA, cloned by differential display PCR (DDPCR) and rapid amplification of cDNA ends (RACE).

    abstract::Synthesis of melatonin in the mammalian pineal gland is regulated by the rhythmic expression of acetyl-CoA: serotonin N-acetyltransferase (SNAT) and other unknown factors. To screen for pineal-specific mRNAs potentially involved in melatonin synthesis and/or regulation, differential display PCR (DDPCR) was employed. W...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(97)02237-1

    authors: Wang X,Brownstein MJ,Young WS

    更新日期:1997-05-16 00:00:00

  • An algorithm for neurite outgrowth reconstruction.

    abstract::We present a numerical method which provides the ability to analyze digitized microscope images of retinal explants and quantify neurite outgrowth. Few parameters are required as input and limited user interaction is necessary to process an entire experiment of images. This eliminates fatigue related errors and user-r...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(03)00017-7

    authors: Weaver CM,Pinezich JD,Lindquist WB,Vazquez ME

    更新日期:2003-04-15 00:00:00

  • Generation of a neurodegenerative disease mouse model using lentiviral vectors carrying an enhanced synapsin I promoter.

    abstract:BACKGROUND:Certain inherited progressive neurodegenerative disorders, such as spinocerebellar ataxia (SCA), affect neurons in large areas of the central nervous system (CNS). The selective expression of disease-causing and therapeutic genes in susceptible regions and cell types is critical for the generation of animal ...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2013.12.004

    authors: Matsuzaki Y,Oue M,Hirai H

    更新日期:2014-02-15 00:00:00

  • Simultaneous in vivo determination of acetylcholinesterase activity and acetylcholine release in the cortex of waking rat by microdialysis. Effects of VX.

    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

    authors: Testylier G,Micoud N,Martinez S,Lallement G

    更新日期:1998-06-01 00:00:00

  • Head movements and actographic recordings in free-moving animals, using computer analysis of video images.

    abstract::A method is described to record the X,Y-coordinates of two bright spots on a TV image. These spots are produced by a light-emitting diodes (LEDs) assembly, which must be affixed on the moving target. The system was developed to record head movements of free-moving animals, chronically implanted to bear a socket LEDs h...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/0165-0270(83)90066-3

    authors: Lecas JC,Dutrieux G

    更新日期:1983-12-01 00:00:00

  • Essential tremor quantification based on the combined use of a smartphone and a smartwatch: The NetMD study.

    abstract:BACKGROUND:The use of wearable technology is an emerging field of research in movement disorders. This paper introduces a clinical study to evaluate the feasibility, clinical correlation and reliability of using a system based in smartwatches to quantify tremor in essential tremor (ET) patients and check its acceptance...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2018.02.015

    authors: López-Blanco R,Velasco MA,Méndez-Guerrero A,Romero JP,Del Castillo MD,Serrano JI,Benito-León J,Bermejo-Pareja F,Rocon E

    更新日期:2018-06-01 00:00:00

  • Transcardial perfusion is not required to accurately measure cytokines within the brain.

    abstract:BACKGROUND:Cytokines are key signaling molecules within the immune system that regulate a host's response to pathogens and neuronal damage. Aberrant cytokine signaling has been implicated in many neurological diseases. Therefore, accurately measuring cytokine concentrations within the brain is crucial. NEW METHOD:This...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2020.108601

    authors: Walker WH 2nd,Bumgarner JR,Nelson RJ,Courtney DeVries A

    更新日期:2020-01-22 00:00:00

  • Slow waves during sleep in crayfish: a time-frequency analysis.

    abstract::NREM phases of sleep in vertebrates are characterized by slow waves. Crayfish also sleeps while lying on one side on the surface of the water. At this time the numerous spikes on an almost flat base line generated by the brain when alert are replaced by slow waves of 15-20 Hz. In this work, we conducted experiments to...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2007.01.025

    authors: Mendoza-Angeles K,Cabrera A,Hernández-Falcón J,Ramón F

    更新日期:2007-05-15 00:00:00

  • A minimally invasive approach to long-term head fixation in behaving nonhuman primates.

    abstract::We have designed a device for long-term head fixation for use in behaving nonhuman primates that is robust yet minimally invasive and simple to use. This device is a modified version of the halo system that is used in humans for cervical traction and stabilization after spinal column injuries. This device consists of ...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2009.04.012

    authors: Davis TS,Torab K,House P,Greger B

    更新日期:2009-06-30 00:00:00

  • Application of scanning electron microscopy in an analysis of the retina of lower vertebrates.

    abstract::The scanning electron microscope (SEM) is a useful tool in the study of the retina of lower vertebrates. SEM analysis (preparation over the critical point) offers a useful addition to the existing histological preparations. It is suitable for a comparative analysis, in which the arrangement of different cellular eleme...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/0165-0270(84)90049-9

    authors: Breidbach O

    更新日期:1984-11-01 00:00:00

  • Cognitive assessment strategies in Huntington's disease research.

    abstract::The number of studies examining cognition in Huntington's disease (HD) has increased dramatically in recent decades, and cognitive research methods in HD have become much more sophisticated. In this review, we provide a summary of the advances in cognitive research in HD to date, and outline the key considerations for...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章,评审

    doi:10.1016/j.jneumeth.2015.12.007

    authors: Stout JC,Glikmann-Johnston Y,Andrews SC

    更新日期:2016-05-30 00:00:00

  • Common spatial pattern and wavelet decomposition for motor imagery EEG- fTCD brain-computer interface.

    abstract:BACKGROUND:Recently, hybrid brain-computer interfaces (BCIs) combining more than one modality have been investigated with the aim of boosting the performance of the existing single-modal BCIs in terms of accuracy and information transfer rate (ITR). Previously, we introduced a novel hybrid BCI in which EEG and fTCD mod...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2019.03.018

    authors: Khalaf A,Sejdic E,Akcakaya M

    更新日期:2019-05-15 00:00:00

  • Odor-induced emotion recognition based on average frequency band division of EEG signals.

    abstract:BACKGROUND:Emotion recognition plays a key role in multimedia. To enhance the sensation of reality, smell has been incorporated into multimedia systems because it can directly stimulate memories and trigger strong emotions. NEW METHOD:For the recognition of olfactory-induced emotions, this study explored a combination...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2020.108599

    authors: Hou HR,Zhang XN,Meng QH

    更新日期:2020-01-21 00:00:00

  • Microwave-stimulated recovery of myosin-V immunoreactivity from formalin-fixed, paraffin-embedded human CNS.

    abstract::The lability of brain myosin-V (BM-V) to aldehyde-fixation has hindered immunohistochemical (IH) studies of this actin-based motor. We show here that BM-V immunoreactivity (IR) can be retrieved from formalin-fixed, paraffin-embedded human tissue. BM-V IR was optimally retrieved by boiling 5 microm cerebellar tissue se...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/s0165-0270(99)00090-4

    authors: Martins AR,Dias MM,Vasconcelos TM,Caldo H,Costa MC,Chimelli L,Larson RE

    更新日期:1999-10-15 00:00:00

  • Simulating human sleep spindle MEG and EEG from ion channel and circuit level dynamics.

    abstract:BACKGROUND:Although they form a unitary phenomenon, the relationship between extracranial M/EEG and transmembrane ion flows is understood only as a general principle rather than as a well-articulated and quantified causal chain. METHOD:We present an integrated multiscale model, consisting of a neural simulation of tha...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2018.10.002

    authors: Rosen BQ,Krishnan GP,Sanda P,Komarov M,Sejnowski T,Rulkov N,Ulbert I,Eross L,Madsen J,Devinsky O,Doyle W,Fabo D,Cash S,Bazhenov M,Halgren E

    更新日期:2019-03-15 00:00:00

  • Quantitative 3-D analysis of GFAP labeled astrocytes from fluorescence confocal images.

    abstract:BACKGROUND:There is a need for effective computational methods for quantifying the three-dimensional (3-D) spatial distribution, cellular arbor morphologies, and the morphological diversity of brain astrocytes to support quantitative studies of astrocytes in health, injury, and disease. NEW METHOD:Confocal fluorescenc...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/j.jneumeth.2015.02.014

    authors: Kulkarni PM,Barton E,Savelonas M,Padmanabhan R,Lu Y,Trett K,Shain W,Leasure JL,Roysam B

    更新日期:2015-05-15 00:00:00

  • Membrane ultrastructure preservation and membrane potentials after isolation of rabbit retinal glial (Müller) cells by papain.

    abstract::Enzymatically isolated retinal glial (Müller) cells have been the subject of many electrophysiological studies. Local high membrane conductivities for potassium ions have been speculated to correspond with local occurrence of orthogonal arrays of intramembranous particles (OAP) observed in freeze-fracture replicas of ...

    journal_title:Journal of neuroscience methods

    pub_type: 杂志文章

    doi:10.1016/0165-0270(90)90145-6

    authors: Reichenbach A,Wolburg H,Richter W,Eberhardt W

    更新日期:1990-06-01 00:00:00