Everything about Computational Neuroscience totally explained
Computational neuroscience is an interdisciplinary science that links the diverse fields of
neuroscience,
cognitive science,
electrical engineering,
computer science,
physics and
mathematics. Historically, the term was introduced by
Eric L. Schwartz, who organized a conference, held in 1985 in Carmel, California at the request of the Systems Development Foundation, to provide a summary of the current status of a field which until that point was referred to by a variety of names, such as neural modeling, brain theory and neural networks. The proceedings of this definitional meeting were later published as the book "Computational Neuroscience", MIT Press(1990). The early historical roots of the field can be traced to the work of people such as
Hodgkin &
Huxley,
Hubel &
Wiesel, and
David Marr, to name but a few. Hodgkin & Huxley developed the voltage clamp and created the first mathematical model of the
action potential. Hubel & Wiesel discovered that neurons in
primary visual cortex, the first cortical area to process information coming from the
retina, have oriented receptive fields and are organized in columns (Hubel & Wiesel, 1962). David Marr's work focused on the interactions between neurons, suggesting computational approaches to the study of how functional groups of neurons within the
hippocampus and neocortex interact, store, process, and transmit information. Computational modeling of biophysically realistic neurons and dendrites began with the work of Wilfrid Rall, with the first multicompartmental model using
cable theory.
Computational neuroscience is distinct from psychological
connectionism and theories of learning from disciplines such as
machine learning,
neural networks and
statistical learning theory in that it emphasizes descriptions of functional and biologically realistic neurons (and neural systems) and their physiology and dynamics. These models capture the essential features of the biological system at multiple spatial-temporal scales, from membrane currents, protein and chemical coupling to network oscillations, columnar and topographic architecture and learning and memory. These computational models are used to test hypotheses that can be directly verified by current or future biological experiments.
Currently, the field is undergoing a rapid expansion. There are many software packages, such as
GENESIS and
NEURON, that allow rapid and systematic in silico modeling of realistic neurons.
Blue Brain, a collaboration between
IBM and
École Polytechnique Fédérale de Lausanne, aims to construct a biophysically detailed simulation of a cortical column on the
Blue Gene supercomputer.
Major Topics
Research in computational neuroscience can be roughly categorized into several lines of inquiries. Most computational neuroscientists collaborate closely with experimentalists in analyzing novel data and synthesizing new models of biological phenomena.
Single Neuron Modeling
Even single neurons have complex biophysical characteristics. Hodgkin and Huxley's
original model only employed two voltage-sensitive currents, the fast-acting sodium and the inward-rectifying potassium. Though successful in predicting the timing and qualitative features of the action potential, it nevertheless failed to predict a number of important features such as adaptation and shunting. Scientists now believe that there are a wide variety of voltage-sensitive currents, and the implications of the differing dynamics, modulations and sensitivity of these currents is an important topic of computational neuroscience (for reference, see Johnston and Wu, 1994).
The computational functions of complex
dendrites are also under intense investigation. There is a large body of literature regarding how different currents interact with geometric properties of neurons (for reference, see Koch, 1998).
Some models are also tracking biochemical pathways at very small scales such as spines or synaptic clefts.
Development, Axonal Patterning and Guidance
How do
axons and
dendrites form during development? How do axons know where to target and how to reach these targets? How do neurons migrate to the proper position in the central and peripheral systems? How do synapses form? We know from molecular biology that distinct parts of the nervous system release distinct chemical cues, from
growth factors to
hormones that modulate and influence the growth and development of functional connections between neurons.
Theoretical investigations into the formation and patterning of synaptic connection and morphology is still nascent. One hypothesis that has recently garnered some attention is the
minimal wiring hypothesis, which postulates that the formation of axons and dendrites effectively minimizes resource allocation while maintaining maximal information storage. (for a review, see
Chklovskii, 2004
)
Sensory processing
Early models of sensory processing understood within a theoretical framework is credited to
Horace Barlow. Somewhat similar to the minimal wiring hypothesis described in the preceding section, Barlow understood the processing of the early sensory systems to be a form of
efficient coding, where the neurons encoded information which minimized the number of spikes. Experimental and computational work have since supported this hypothesis in one form or another.
Current research in sensory processing is divided among biophysical modelling of different subsystems and more theoretical modelling function of perception. Current models of perception have suggested that the brain performs some form of
Bayesian inference and integration of different sensory information in generating our perception of the physical world.
Memory and synaptic plasticity
Earlier models of memory are primarily based on the postulates of
Hebbian learning. Biologically relevant models such as
Hopfield net have been developed to address the properties of associative, rather than content-addressable style of memory that occur in biological systems. These attempts are primarily focusing on the formation of medium-term and long-term memory, localizing in the hippocampus. Models of working memory, relying on theories of network oscillations and persistent activity, have been built to capture some features of the prefrontal cortex in context-related memory. (For review, see Durstewitz et al, 2000)
One of the major problems in biological memory is how it's maintained and changed through multiple time scales. Unstable
synapses are easy to train but also prone to stochastic disruption. Stable
synapses forget less easily, but they're also harder to consolidate. One recent computational hypothesis involves cascades of plasticity (Fusi et al, 2005) that allow synapses to function at multiple time scales. Stereochemically detailed models of the
acetylcholine receptor-based synapse with
Monte Carlo method, working at the time scale of microseconds, have been built (Coggan et al, 2005). It is likely that computational tools will contribute greatly to our understanding of how synapses function and change in relation to external stimulus in the coming decades.
Behaviors of Networks
Biological neurons are connected to each other in a complex, recurrent fashion. These connections are, unlike most
artificial neural networks, sparse and most likely, specific. It isn't known how information is transmitted through such sparsely connected networks. It is also unknown what the computational functions, if any, of these specific connectivity patterns are.
The interactions of neurons in a small network can be often reduced to simple models such as the
Ising model. The
statistical mechanics of such simple systems are well-characterized theoretically. There have been some recent evidence that suggests that dynamics of arbitrary neuronal networks can be reduced to pairwise interactions (Schneidman et al, 2006; Shlens et al, 2006.) It's unknown, however, whether such descriptive dynamics impart any important computational function. With the emergence of
two-photon microscopy and
calcium imaging, we now have powerful experimental methods with which to test the new theories regarding neuronal networks.
While many neuro-theorists prefer models with reduced complexity, others argue that uncovering structure function relations depends on including as much neuronal and network structure as possible. Models of this type are typically built in large simulations platforms like
GENESIS or
Neuron. There have been some attempts to provide unified methods that bridge, and integrate, these levels of complexity (Eliasmith & Anderson, 2003).
Cognition, Discrimination and Learning
Computational modeling of higher cognitive functions has only begun recently. Experimental data comes primarily from
single unit recording in
primates. The
frontal lobe and
parietal lobe function as integrators of information from multiple sensory modalities. There are some tentative ideas regarding how simple mutually inhibitory functional circuits in these areas may carry out biologically relevant computation (Machens et al, 2005).
The
brain seems to be able to discriminate and adapt particularly well in certain contexts. For instance, human beings seem to have an enormous capacity for memorizing and recognizing faces. One of the key goals of computational neuroscience is to dissect how biological systems carry out these complex computations efficiently and potentially replicate these processes in building intelligent machines.
Consciousness
The ultimate goal of neuroscience is to be able to explain the every day experience of conscious life.
Francis Crick and
Christof Koch made some attempts in formulating a consistent framework for future work in
neural correlates of consciousness (NCC), though much of the work in this field remains speculative. (for a review, see Koch and Crick, 2003). Another attempt is done by
Andrew & Alexander Fingelkurts: they're developing the
Operational Architectonics theory of brain-mind functioning. This theory treats consciousness as a biological phenomenon in the brain which is realized by the highly organized macro-level electrophysiological (EEG) phenomena (metastable operational modules), which are brought to existence by the coordinated electrical activity (operational synchrony) of many neuronal populations dispersed throughout the brain (for a review see Fingelkurts An.A. and Fingelkurts Al.A., 2001; 2004; 2006).
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