Journal of Neuroscience Methods
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Evaluation of optimal electrode configurations for epidural spinal cord stimulation in cervical spinal cord injured rats
• Dorsal funiculi were injured at C4 spinal cord in adult female rats. • Epidural stimulation electrodes were implanted chronically at C6 and C8....
Automated quantification of neuronal networks and single-cell calcium dynamics using calcium imaging.
We introduce FluoroSNNAP, Fluorescence Single Neuron and Network Analysis Package. FluoroSNNAP is an open-source, interactive software developed in MATLAB for automated quantification of numerous biologically relevant features of both the calcium dynamics of single-cells and network activity pattern...
Improving the use of principal component analysis to reduce physiological noise and motion artifacts to increase the sensitivity of task-bas...
We developed four variants of the CompCor method. The optimized CompCor method applies PCA to time series in a noise mask, but orthogonalizes each component to the BOLD response waveform and uses an algorithm to determine a favorable number of components to use as "nuisance regressors." Whole brain...
Evaluation of different classification methods for the diagnosis of schizophrenia based on functional near-infrared spectroscopy.
We evaluated the classification performance of four classification methods (including linear discriminant analysis, k-nearest neighbors, Gaussian process classifier, and support vector machines) on an NIRS-aided schizophrenia diagnosis. We recruited a large sample of 120 schizophrenia patients and 1...
WGA-Alexa transsynaptic labeling in the phrenic motor system of adult rats: Intrapleural injection versus intradiaphragmatic injection.
Intrapleural injection of CTB-Alexa 488, a retrograde tracer, provides an alternative labeling technique to the surgically invasive laparotomy required for intradiaphragmatic injection. However, CTB-Alexa 488 is incapable of crossing synapses restricting the tracer to the phrenic nuclei and the inte...
New methods for investigation of neuronal migration in embryonic brain explants.
We developed an immunocytochemistry (ICC) protocol to stain neurons migrating out of the MGE explant embedded in Matrigel. We also established a protocol to efficiently transfect cells in MGE explants, achieving a transduction efficiency of more than 30%. In addition, we developed microfluidic chamb...
Dynamic spatiotemporal brain analyses using high performance electrical neuroimaging: theoretical framework and validation.
We provide a theoretical comparison of the two approaches and present a new suite of data-driven analytic tools for the specific identification of the brain microstates in high-density event-related brain potentials (ERPs). This suite includes four different analytic methods. We validated this appro...
Non-causal spike filtering improves decoding of movement intention for intracortical BCIs.
We show that replacing the causal filter with an equivalent non-causal filter increases the information content extracted from the extracellular spiking signal and improves decoding of intended movement direction. This method can be used for real-time BCI applications by using a 4ms lag between reco...
How to validate similarity in linear transform models of event-related potentials between experimental conditions?
We gain the ratio between two coefficients mapping a source in brain to two points along the scalp. Based on such a ratio, we defined a relative mapping coefficient (RMC). If RMCs between two conditions for an ERP are not significantly different in practice, mapping coefficients of this ERP between...
Application of 3-D imaging sensor for tracking minipigs in the open field test.
The minipig is a promising model in neurobiology and psychopharmacology. However, automated tracking of minipig behavior is still unresolved problem. The study was carried out on white, agouti and black (or spotted) minipiglets (n=108) bred in the Institute of Cytology and Genetics. New method of au...