View source for Hyperfinite set

'''Models of neural computation''' are attempts to elucidate, in an abstract and mathematical fashion, the core principles that underlie information processing in biological nervous systems, or functional components thereof. This article aims to provide an overview of the most definitive models of neuro-biological computation as well as the tools commonly used to construct and analyze them.

==Introduction==
Due to the complexity of nervous system behavior, the associated experimental error bounds are ill-defined, but the relative merit of the different [[scientific model|models]] of a particular subsystem can be compared according to how closely they reproduce real-world behaviors or respond to specific input signals. In the closely related field of computational [[neuroethology]], the practice is to include the environment in the model in such a way that the [[Control theory#Closed-loop transfer function|loop is closed]]. In the cases where competing models are unavailable, or where only gross responses have been measured or quantified, a clearly formulated model can guide the scientist in designing experiments to probe biochemical mechanisms or network connectivity.

In all but the simplest cases, the mathematical equations that form the basis of a model cannot be solved exactly. Nevertheless, computer technology, sometimes in the form of specialized software or hardware architectures, allow scientists to perform iterative calculations and search for plausible solutions. A computer chip or a robot that can interact with the natural environment in ways akin to the original organism is one embodiment of a useful model. The ultimate measure of success is however the ability to make testable predictions.

==General criteria for evaluating models==

===Speed of information processing===
The rate of information processing in biological neural systems are constrained by the speed at which an action potential can propagate down a nerve fibre. This conduction velocity ranges from 1&nbsp;m/s to over 100&nbsp;m/s, and generally increases with the diameter of the neuronal process. Slow in the timescales of biologically-relevant events dictated by the speed of sound or the force of gravity, the nervous system overwhelmingly prefers parallel computations over serial ones in time-critical applications.

===Robustness===
A model is robust if it continues to produce the same computational results under small variations in inputs or operating parameters. For example, the direction of motion as computed by a robust [[motion perception|motion detector]] would not change under small changes of [[luminance]], [[contrast (vision)|contrast]] or velocity jitter.

===Gain control===
This refers to the principle that the response of a nervous system should stay within certain bounds even as the inputs from the environment change drastically. For example, when adjusting between a sunny day and a moonless night, the retina changes the relationship between light level and neuronal output by a factor of more than <math>10^6</math>  so that the signals sent to later stages of
the visual system always remain within a much narrower range of amplitudes.<ref name=Ferster>{{cite news
 | title = A New Mechanism for Neuronal Gain Control
 | author = Nicholas J. Priebe and David Ferster
 | publisher = Neuron
 | year = 2002
 | volume = 35
 | pages = 602–604
| issue=4}}</ref> <ref>Klein, S. A., Carney, T., Barghout-Stein, L., & Tyler, C. W. (1997, June). Seven models of masking. In Electronic Imaging'97 (pp. 13-24). International Society for Optics and Photonics. </ref> <ref> Barghout-Stein, Lauren. On differences between peripheral and foveal pattern masking. Diss. University of California, Berkeley, 1999. </ref>

===Linearity versus nonlinearity===
A '''linear''' system is one whose response in a specified unit of measure, to a set of inputs considered at once, is the sum of its responses due to the inputs considered individually.

[[Linear algebra|Linear]] systems are easier to analyze mathematically. Linearity may occur in the basic elements of a neural circuit such as the response of a postsynaptic neuron, or as an emergent property of a combination of nonlinear subcircuits.<ref name=barlow>{{cite journal
 | doi = 10.1007/s10827-009-0170-6
 | title = Crossover inhibition in the retina: circuitry that compensates for nonlinear rectifying synaptic transmission
 | author = Alyosha Molnar, Hain-Ann Hsueh, Botond Roska, Frank S. Werblin,
 | journal = J Comput Neurosci
 | year = 2009
 | volume = 27
 | issue = 3
 | pages = 569–590
 | pmid = 19636690
 | pmc = 2766457
 }}</ref>

==Examples==

A computational neural model may be constrained to the level of biochemical signalling in individual [[neurons]] or it may describe an entire organism in its environment. The examples here are grouped according to their scope.

===Models of information transfer in neurons===
{{main|biological neuron model}}
The most widely used models of information transfer in biological neurons are based on analogies with electrical circuits. The equations to be solved are time-dependent differential equations with electro-dynamical variables such as current, conductance or resistance, capacitance and voltage.

====Hodgkin–Huxley model and its derivatives====
{{main|Hodgkin–Huxley model}}
The Hodgkin–Huxley model, widely regarded as one of the great achievements of 20th-century biophysics, describes how [[action potential]]s in neurons are initiated and propagated in axons via [[voltage-gated ion channel]]s. It is a set of [[nonlinearity|nonlinear]] [[ordinary differential equation]]s that were introduced by [[Alan Lloyd Hodgkin]] and [[Andrew Huxley]] in 1952 to explain the results of [[voltage clamp]] experiments on the [[squid giant axon]]. Analytic solutions do not exist, but the [[Levenberg–Marquardt algorithm]], a modified [[Gauss–Newton algorithm]], is often used to [[curve fitting|fit]] these equations to voltage-clamp data.

The [[FitzHugh–Nagumo model]] is a simplication of the Hodgkin–Huxley model. The [[Hindmarsh–Rose model]] is an extension which describes neuronal spike bursts. The Morris–Lecar model is a modification which does not generate spikes, but describes slow-wave propagation, which is implicated in the inhibitory synaptic mechanisms of [[central pattern generator]]s.

====Solitons====
{{Empty section|date=January 2011}}

====Transfer functions and linear filters====
This approach, influenced by [[control theory]] and [[signal processing]], treats neurons and synapses as time-invariant entities that produce outputs that are [[LTI System Theory|linear combinations]] of input signals, often depicted as sine waves with a well-defined temporal or spatial frequencies.

The entire behavior of a neuron or synapse are encoded in a [[transfer function]], lack of knowledge concerning the exact underlying mechanism notwithstanding. This brings a highly developed mathematics to bear on the problem of information transfer.

The accompanying taxonomy of [[linear filter]]s turns out to be useful in characterizing neural circuitry. Both [[low-pass filter|low-]] and [[high-pass filter]]s are postulated to exist in some form in sensory systems, as they act to prevent information loss in high and low contrast environments, respectively.

Indeed, measurements of the transfer functions of neurons in the [[horseshoe crab]] retina according to linear systems analysis show that they remove short-term fluctuations in input signals leaving only the long-term trends, in the manner of low-pass filters.  These animals are unable to see low-contrast objects without the help of optical distortions caused by underwater currents.<ref name=barlow>{{cite journal
 | title = The Neural Network of the Limulus Retina: From Computer to Behavior
 | author = Robert B. Barlow, Jr., Ramkrishna Prakash, Eduardo Solessio
 | journal = American Zoologist
 | year = 1993
 | volume = 33
 | pages = 66–78
 }}</ref><ref>{{cite journal
 | doi = 10.2307/1543311
 | title = Limulus Vision in the Marine Environment
 | author = Robert B. Barlow, James M. Hitt and Frederick A. Dodge
 | journal = The Biological Bulletin
 | year = 2001
 | volume = 200
 | issue = 2
 | pages = 169–176
 | pmid = 11341579
 | jstor = 1543311
 }}</ref>

===Models of computations in sensory systems ===

====Lateral inhibition in the retina: Hartline–Ratliff equations====
In the retina, an excited neural receptor can suppress the activity of surrounding neurons within an area called the inhibitory field. This effect, known as [[lateral inhibition]], increases the contrast and sharpness in visual response, but leads to the epiphenomenon of [[Mach bands]]. This is often illustrated by the [[illusion|optical illusion]] of light or dark stripes next to a sharp boundary between two regions in an image of different luminance.

The Hartline-Ratliff model describes interactions within a group of ''p'' [[photoreceptor cell]]s.<ref name=kuhnhadeler>{{cite journal
 | doi = 10.1007/BF00319520
 | title = Stationary States of the Hartline–Ratliff Model
 | author = K. P. Hadeler and D. Kuhn
 | journal = Biological Cybernetics
 | year = 1987
 | volume = 56
 | pages = 411–417
 | issue = 5–6
 }}</ref> Assuming these interactions to be '''linear''', they proposed the following relationship for the '''steady-state response rate''' <math>r_p</math> of the given ''p''-th photoreceptor in terms of the steady-state response rates <math>r_j</math> of the ''j'' surrounding receptors:

<math>r_{p}=\left|\left[e_{p}-\sum_{j=1,j\ne p}^{n}k_{pj}\left|r_{j}-r_{pj}^{o}\right|\right]\right|</math>.

Here,

<math>e_p</math> is the excitation of the target ''p''-th receptor from sensory transduction

<math>r_{pj}^o</math> is the associated threshold of the firing cell, and

<math>k_{pj}</math> is the coefficient of inhibitory interaction between the ''p''-th and the ''j''th receptor. The inhibitory interaction decreases with distance from the target ''p''-th receptor.

====Cross-correlation in sound localization: Jeffress model====
According to Jeffress,<ref>Jeffress, L.A., 1948. A place theory of sound localization. ''Journal of Comparative and Physiological Psychology 41'', 35–39.</ref> in order to compute the location of a sound source in space from [[interaural time difference]]s, an auditory system relies on [[delay line]]s: the induced signal from an [[ipsilateral]] auditory receptor to a particular neuron is delayed for the same time as it takes for the original sound to go in space from that ear to the other.  Each postsynaptic cell is differently delayed and thus specific for a particular inter-aural time difference. This theory is equivalent to the mathematical procedure of [[cross-correlation]].

Following Fischer and Anderson,<ref>Brian J. Fischer and Charles H. Anderson, 2004. A computational model of sound localization in the barn owl ''Neurocomputing" 58–60 (2004) 1007–1012</ref> the response of the postsynaptic neuron to the signals from the left and right ears is given by

<math>y_{R}\left(t\right) - y_{L}\left(t\right)</math>

where

<math>y_{L}\left(t\right)=\int_{0}^{\tau}u_{L}\left(\sigma\right)w\left(t-\sigma\right)d\sigma</math>

<math>y_{R}\left(t\right)=\int_{0}^{\tau}u_{R}\left(\sigma\right)w\left(t-\sigma\right)d\sigma</math>

and

<math>w\left(t-\sigma\right)</math> represents the delay function. This is not entirely correct and a clear eye is needed to put the symbols in order.

Structures have been located in the barn owl which are consistent with Jeffress-type mechanisms.<ref>Catherine E. Carr, 1993. Delay Line Models of Sound Localization in the Barn Owl "American Zoologist" Vol. 33, No. 1 79–85</ref>

====Cross-correlation for motion detection: Hassenstein–Reichardt model====
A motion detector needs to satisfy three general requirements: pair-inputs, asymmetry and nonlinearity.<ref>Borst A, Egelhaaf M., 1989. Principles of visual motion detection. "Trends in Neuroscience"  12(8):297–306</ref> The cross-correlation operation implemented asymmetrically on the responses from a pair of photoreceptors satisfies these minimal criteria, and furthermore, predicts features which have been observed in the response of neurons of the lobula plate in bi-wing insects.<ref>Joesch, M. et al. (2008) Response properties of motion-sensitive visual interneurons in the lobula plate of Drosophila melanogaster. Curr. Biol. 18, 368–374</ref>

The master equation for response is

<math>R = A_1(t-\tau)B_2(t) - A_2(t - \tau)B_1(t)</math>

The HR model predicts a peaking of the response at a particular input temporal frequency. The conceptually similar Barlow–Levick model is deficient in the sense that a stimulus presented to only one receptor of the pair is sufficient to generate a response. This is unlike the HR model, which requires two correlated signals delivered in a time ordered fashion. However the HR model does not show a saturation of response at high contrasts, which is observed in experiment. Extensions of the Barlow-Levick model can provide for this discrepancy.<ref>Gonzalo G. de Polavieja, 2006. Neuronal Algorithms That Detect the Temporal Order of Events "Neural Computation" 18 (2006) 2102–2121</ref>

====Watson–Ahumada model for motion estimation in humans====
This uses a cross-correlation in both the spatial and temporal directions, and is related to the concept of [[optical flow]].
<ref>Andrew B. Watson and Albert J. Ahumada, Jr., 1985. Model of human visual-motion sensing "J. Opt. Soc. Am. A" 2(2) 322–341</ref>

===Neurophysiological metronomes: neural circuits for pattern generation===
Mutually [[inhibitory]] processes are a unifying motif of all [[central pattern generator]]s. This has been demonstrated in the stomatogastric  (STG)  nervous system of crayfish and lobsters.<ref>Michael P. Nusbaum and Mark P. Beenhakker, A small-systems approach to motor pattern generation, Nature 417, 343–350 (16 May 2002)</ref> Two and three-cell oscillating networks based on the STG have been constructed which are amenable to mathematical analysis, and which depend in a simple way on on synaptic strengths and overall activity, presumably the knobs on these things.<ref>Cristina Soto-Treviño, Kurt A. Thoroughman and Eve Marder, L. F. Abbott, 2006. Activity-dependent modification of inhibitory synapses in models of rhythmic neural networks Nature Vol 4 No 3 2102–2121</ref> The mathematics involved is the theory of [[dynamical systems]].

===Anti-Hebbian adaptation: spike-timing dependent plasticity===
<ref>Tzounopoulos T, Kim Y, Oertel D, Trussell LO (2004) Cell-specific, spike timing-dependent plasticities in the dorsal cochlear nucleus. Nat Neurosci 7:719–725</ref>

<ref>Patrick D. Roberts, Christine V. Portfors (2008) Cell-specific, spike timing-dependent plasticities in the dorsal cochlear nucleus. Biological Cybernetics 98:491–507</ref>

===Feedback and control: models of flight control in the fly===
Flight control in the fly is believed to be mediated by inputs from the visual system and also the [[halteres]], a pair of knob-like organs which measure angular velocity. Integrated computer models of [[Drosophila]], short on neuronal circuitry but based on the general guidelines given by [[control theory]] and data from the tethered flights of flies, have been constructed to investigate the details of flight control [http://strawlab.org/2011/03/23/grand-unified-fly/][http://www.mendeley.com/download/public/2464051/3652638122/d3bd7957efd2c8a011afb0687dfb6943731cb6d0/dl.pdf].

==Software modelling approaches and tools==

===Neural networks===
{{main|neural network}}
In this approach the strength and type, excitatory or inhibitory, of synaptic connections are represented by the magnitude and sign of weights, that is, numerical [[coefficients]] <math>w'</math> in front of the inputs ''x'' to a particular neuron. The response of the ''j''-th neuron is given by a sum of nonlinear, usually "[[sigmoid function|sigmoidal]]" functions <math>g</math> of the inputs as:

<math>f_{j}=\sum_{i}g\left(w_{ji}'x_{i}+b_{j}\right)</math>.

This response is then fed as input into other neurons and so on. The goal is to solve for the weights given a desired response at the output layer to a set given inputs at the input layer.

===Genetic algorithms===
[[Genetic algorithms]] are used to evolve neural (and sometimes body) properties in a model brain-body-environment system so as to exhibit some desired behavioral performance. The evolved agents can then be subjected to a detailed analysis to uncover their principles of operation. Evolutionary approaches are particularly useful for exploring spaces of possible solutions to a given behavioral task because these approaches minimize a priori assumptions about how a given behavior ought to be instantiated. They can also be useful for exploring different ways to complete a computational neuroethology model when only partial neural circuitry is available for a biological system of interest [http://www.scholarpedia.org/article/Computational_neuroethology].

===MATLAB===
[[MATLAB]] is a programming environment that is used globally in virtually all neuroscience and cognitive psychology laboratories [http://www.elsevier.com/wps/find/bookdescription.cws_home/716634/description#descriptiontitle]. MATLAB integrates the modelling and experimental processes by bringing together, under the aegis of an intuitive [[scripting language]], powerful data analysis and mathematical modelling tools.

===NEURON===
NEURON, developed at Duke University, is a simulation environment for modeling individual neurons and networks of neurons [http://www.neuron.yale.edu/neuron/]. With the NEURON interface, it is possible to generate publication-quality results without having to write any program code at all. The NEURON simulation engine is based on a Hodgkin–Huxley type model with a Borg–Graham formulation.

==Embodiment in electronic hardware==

===Conductance-based silicon neurons===
Nervous systems differ from the majority of silicon-based computing devices in that they resemble [[analog computer]]s (not [[digital data]] processors) and massively [[parallel computing|parallel]] processors, not [[von Neumann architecture|sequential]] processors. To model nervous systems accurately, in real-time, alternative hardware is required.

The most realistic circuits to date make use of [[analogue electronics|analog]] properties of existing [[digital electronics]] (operated under non-standard conditions) to realize Hodgkin–Huxley-type models ''in silico''<ref>L. Alvadoa, J. Tomasa, S. Saghia, S. Renauda, T. Balb, A. Destexheb, G. Le Masson, 2004. Hardware computation of conductance-based neuron models. Neurocomputing 58–60 (2004) 109 – 115</ref>[http://www.scholarpedia.org/article/Silicon_neurons].

===Retinomorphic chips===
<ref>Kwabena Boahen, "A Retinomorphic Chip with Parallel Pathways: Encoding INCREASING, ON, DECREASING, and OFF Visual Signals", Analog Integrated Circuits and Signal Processing, 30, 121–135, 2002</ref>

==See also==
*[[Computational neuroscience]]
*[[Motion perception]]
*[[Neuroethology]]
*[[Neuroinformatics]]
*[[Systems neuroscience]]

==References==
{{Reflist}}

==External links==
* [http://home.earthlink.net/~perlewitz/sftwr.html Computational Neuroscience – Software] – A list of commonly used modelling tools.
* [http://www.proberts.net/research/ Neural Dynamics at NSI] – Web page of Patrick D Roberts at the Neurological Sciences Institute
* [http://www.dickinson.caltech.edu/ Dickinson Lab] – Web page of the Dickinson group at Caltech which studies flight control in ''Drosophila''

{{NeuroethologyNavbox}}
{{animal cognition}}
{{Use dmy dates|date=January 2011}}

{{DEFAULTSORT:Models Of Neural Computation}}
[[Category:Ethology]]
[[Category:Neuroscience]]
[[Category:Neurophysiology]]
[[Category:Neuroethology]]

[[de:Neuroethologie]]
[[es:Neuroetología]]
[[it:Neuroetologia]]
[[pl:Neuroetologia]]
[[sv:Neuroetologi]]
[[tr:Nöroetoloji]]
[[ur:عصبی سلوکیات]]