Journal of Neuroscience Methods
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An empirical solution for over-pruning with a novel ensemble-learning method for fMRI decoding
Journal of Neuroscience Methods 239:238 (2015)We propose a solution for over-pruning called Iterative Recycling (iRec). • iRec is a novel ensemble learning method for sparse algorithms. • In iRec, classifiers are trained i...
Novel methods of applying direct chemical and mechanical stimulation to the oral mucosa for traditional behavioral pain assays in conscious ...
Journal of Neuroscience Methods 239:162 (2015)We developed two new methods to apply direct stimulations to the oral mucosa for traditional behavioral pain assays in conscious rats. • Measurements of facial grooming behavior following application of pungent solutions via the intraoral...
A method for measuring brain partial pressure of oxygen in unanesthetized unrestrained subjects: the effect of acute and chronic hypoxia on ...
We present a novel fiber optic method to measure brain PtO(2). This method can be used in unanesthetized, unrestrained animals, provides absolute values for PO(2), has a stable calibration, does not consume oxygen and is MRI compatible. Brain PtO(2) was studied during acute hypoxia, as well as befor...
Assessing spatial vision - automated measurement of the contrast-sensitivity function in the hooded rat.
We therefore designed an economical and rapid method to assess the hooded rat's CSF, using a computer monitor to display stimuli and an infrared touch screen to record responses. A six-alternative forced-choice task presented trials in which a sine-wave grating (S+), varying in spatial frequency and...
Independent component analyses for quantifying neuronal ensemble interactions.
We describe applications of principal component analysis (PCA) and independent component analysis (ICA) (Cardoso J-F, Souloumiac A. IEE-Proc F 1993;140:362-70; Hyvarinen A, Oja E. Neural Comput 1997;9:1483-92; Lee TW, Girolami M, Sejnowski TJ. Neural Comp 1999;11:417-41) to neuronal ensemble data. S...
A simple analytical method for determining the steady-state potential in models of geometrically complex neurons.
A method is presented for solving the cable equation for a spiking neuron below firing threshold or a nonspiking neuron of arbitrary geometry under constant stimulation. The neuron structure is considered as a tree composed of a set of cylinder cables of three types (terminal, intermediate and branc...
Skull-stripping with machine learning deformable organisms.
We attempt to remedy these issues using deformable organisms to create an easily customizable segmentation plan. We validate our framework by creating a plan to locate the brain in 3D magnetic resonance images of the head (skull-stripping). Our method borrows ideas from artificial life to govern a s...
The predictive role of pre-cue EEG rhythms on MI-based BCI classification performance.
One of the main issues in motor imagery-based (MI-based) brain-computer interface (BCI) systems is a large variation in the classification performance of BCI users. However, the exact reason of low performance of some users is still under investigation. Having some prior knowledge about the performa...
Superior performance of decloaking chamber-based heat-induced epitope retrieval method improves the quantification of Olig2 cells in paraffi...
We describe here a consistent and sensitive HIER method that uses a device for epitope retrieval in tissue sections, the decloaking chamber NxGen. With this method, heat temperature and time can be accurately set. Both qualitative (sensitivity and specificity of positive immunostaining) and quantita...
Burrowing and nest building behavior as indicators of well-being in mice.
The assessment of pain, distress and suffering, as well as evaluation of the efficacy of stress-reduction strategies, is crucial in animal experimentation but can be challenging in laboratory mice. Nest building and burrowing performance, observed in the home cage, have proved to be valuable and eas...