Biomedical subjects

Shawn Mikula

Publications and source records attributed to Shawn Mikula.

6 recordsLinked to original sources

PubMed2007

Internet-enabled high-resolution brain mapping and virtual microscopy.

Virtual microscopy involves the conversion of histological sections mounted on glass microscope slides to high-resolution digital images. Virtual microscopy offers several advantages over traditional microscopy, including remote viewing and data sharing, annotation, and various forms of data mining. We describe a method utilizing virtual microscopy for generation of internet-enabled, high-resolution brain maps and atlases. Virtual microscopy-based digital brain atlases have resolutions approaching 100,000 dpi, which exceeds by three or more orders of magnitude resolutions obtainable in conventional print atlases, MRI, and flat-bed scanning. Virtual microscopy-based digital brain atlases are superior to conventional print atlases in five respects: (1) resolution, (2) annotation, (3) interaction, (4) data integration, and (5) data mining. Implementation of virtual microscopy-based digital brain atlases is located at BrainMaps.org, which is based on more than 10 million megapixels (35 terabytes) of scanned images of serial sections of primate and non-primate brains with a resolution of 0.46 microm/pixel (55,000 dpi). The method can be replicated by labs seeking to increase accessibility and sharing of neuroanatomical data. Online tools offer the possibility of visualizing and exploring completely digitized sections of brains at a sub-neuronal level and can facilitate large-scale connectional tracing, histochemical, and stereological analyses.

Animals↗

PubMed2006

A novel method for visualizing functional connectivity using principal component analysis.

Functional connectivity is a useful measure of voxel-wise functional magnetic resonance imaging signals that allows for the identification of functionally related brain areas and distributed networks. However, the high dimensionality of functional connectivity makes it difficult to visualize. In most studies, a small percentage of the total functional connectivity is visualized through diagrams that are constructed using individual seed voxels. In the present study describes a new method for visualizing most of the functional connectivity through a single diagram. This method does not rely on seed voxels, but rather employs a reduction of the high-dimensionality of the functional connectivity via a projection onto a three-dimensional color space using principal components analysis. With this new method, most of the information contained in a functional connectivity matrix can be represented through a single color-coded functional connectivity map, thereby facilitating a greater visual appreciation of functional connectivity.

Brain↗

PubMed2005

Rate and synchrony in feedforward networks of coincidence detectors: analytical solution.

We provide an analytical recurrent solution for the firing rates and cross-correlations of feedforward networks with arbitrary connectivity, excitatory or inhibitory, in response to steady-state spiking input to all neurons in the first network layer. Connections can go between any two layers as long as no loops are produced. Mean firing rates and pairwise cross-correlations of all input neurons can be chosen individually. We apply this method to study the propagation of rate and synchrony information through sample networks to address the current debate regarding the efficacy of rate codes versus temporal codes. Our results from applying the network solution to several examples support the following conclusions: (1) differential propagation efficacy of rate and synchrony to higher layers of a feedforward network is dependent on both network and input parameters, and (2) previous modeling and simulation studies exclusively supporting either rate or temporal coding must be reconsidered within the limited range of network and input parameters used. Our exact, analytical solution for feedforward networks of coincidence detectors should prove useful for further elucidating the efficacy and differential roles of rate and temporal codes in terms of different network and input parameter ranges.

Action Potentials↗

PubMed2004

Correlated inhibitory and excitatory inputs to the coincidence detector: analytical solution.

We present a solution for the steady-state output rate of an ideal coincidence detector receiving an arbitrary number of excitatory and inhibitory inputspike trains. All excitatory spike trains have identical binomial count distributions (which includes Poisson statistics as a special case) and arbitrary pairwise cross correlations between them. The same applies to the inhibitory inputs, and the rates and correlation functions of excitatory and inhibitory populations may be the same or different from each other. Thus, for each population independently, the correlation may range from complete independence to perfect correlation (identical processes). We find that inhibition, if made sufficiently strong, will result in an inverted U-shaped curve for the output rate of a coincidence detector as a function of input rates for the case of identical inhibitory and excitory input rates. This leads to the prediction that higher presynaptic (input) rates may lead to lower postsynaptic (output) rates where the output rate may fall faster than the inverse of the input rate, and shows some qualitative similarities to the case of purely excitatory inputs with synaptic depression. In general, we find that including inhibition invariably and significantly increases the behavioral repertoire of the coincidence detector over the case of pure excitatory input.

Action Potentials↗

PubMed2003

The effects of input rate and synchrony on a coincidence detector: analytical solution.

We derive analytically the solution for the output rate of the ideal coincidence detector. The solution is for an arbitrary number of input spike trains with identical binomial count distributions (which includes Poisson statistics as a special case) and identical arbitrary pairwise cross-correlations, from zero correlation (independent processes) to complete correlation (identical processes).

Afferent Pathways↗

PubMed2003

Synaptic depression leads to nonmonotonic frequency dependence in the coincidence detector.

In this letter, we extend our previous analytical results (Mikula & Niebur, 2003) for the coincidence detector by taking into account probabilistic frequency-dependent synaptic depression. We present a solution for the steady-state output rate of an ideal coincidence detector receiving an arbitrary number of input spike trains with identical binomial count distributions (which includes Poisson statistics as a special case) and identical arbitrary pairwise cross-correlations, from zero correlation (independent processes) to perfect correlation (identical processes). Synapses vary their efficacy probabilistically according to the observed depression mechanisms. Our results show that synaptic depression, if made sufficiently strong, will result in an inverted U-shaped curve for the output rate of a coincidence detector as a function of input rate. This leads to the counterintuitive prediction that higher presynaptic (input) rates may lead to lower postsynaptic (output) rates where the output rate may fall faster than the inverse of the input rate.

Action Potentials↗