Multielectrode array

# Overview
Multielectrode arrays (MEAs) or microelectrode arrays are devices that contain multiple plates or shanks through which neural signals are obtained or delivered, essentially serving as neural interfaces that connect neurons to electronic circuitry.  There are two general classes of MEAs: implantable MEAs, used in vivo, and non-implantable MEAs, used in vitro.

# Theory
Neurons and muscle cells create ion currents through their membranes when excited, causing a change in voltage both inside and outside the cell. When recording, the electrodes on an MEA transduce the change in voltage from the environment carried by ions into currents carried by electrons (electronic currents). When stimulating, electrodes transduce electronic currents into ionic currents through the media. This triggers the voltage-gated ion channels on the membranes of the excitable cells, causing the cell to depolarize and trigger an action potential if it a neuron or a twitch if it is a muscle cell.
The size and shape of a recorded signal depend upon several factors: the nature of the medium in which the cell or cells are located (e.g. the mediums conductivity, capacitance, and homogeneity); the nature of contact between the cells and the MEA electrode (e.g. area of contact and tightness); the nature of the MEA electrode itself (e.g. its geometry, impedance, and noise); the analog signal processing (e.g. the systems gain, bandwidth, and behavior outside of cutoff frequencies); and the data sampling properties (e.g. sampling rate and digital signal processing). For the recording of a single cell that partially covers a planar electrode, the voltage at the contact pad is approximately equal to the voltage of the overlapping region of the cell and electrode multiplied by the ratio the surface area of the overlapping region to the area of the entire electrode, or:
V_{pad}=V_{overlap}\times\frac{A_{overlap}}{A_{electrode}}
assuming the area around an electrode is well-insulated and has a very small capacitance associated with it. The equation above, however, relies on modeling the electrode, cells, and their surroundings as an equivalent circuit diagram. An alternative means of predicting cell-electrode behavior is by modeling the system using a geometry-based finite element analysis in an attempt to circumvent the limitations of oversimplifying the system in a lumped circuit element diagram.
An MEA can be used to perform electrophysiological experiments on tissue slices or dissociated cell cultures. With acute tissue slices, the connections between the cells within the tissue slices prior to extraction and plating are more or less preserved, while the intercellular connections in dissociated cultures are destroyed prior to plating. With dissociated neuronal cultures, the neurons spontaneously form networks.
It can be seen that the voltage amplitude an electrode experiences is inversely related to the distance from which a cell depolarizes. Thus, it may be necessary for the cells to be cultured or otherwise placed as close to the electrodes as possible. With tissue slices, a layer of electrically passive dead cells form around the site of incision due to edema. A way to deal with this is by fabricating an MEA with three-dimensional electrodes fabricated by masking and chemical etching. These 3-D electrodes penetrate the dead cell layer of the slice tissue, decreasing the distance between live cells and the electrodes. In dissociated cultures, proper adherence of the cells to the MEA substrate is important for getting robust signals.

# History
The first implantable arrays were microwire arrays developed in the 1950s. The first experiment involving the use of an array of planar electrodes to record from cultured cells was conducted in 1972 by C.A. Thomas, Jr. and his colleagues. The experimental setup used a 2 x 15 array of gold electrodes plated with platinum black, each spaced 100 m apart from each other. Myocytes harvested from embryonic chicks were dissociated and cultured onto the MEAs, and signals up to 1 mV high in amplitude were recorded. MEAs were constructed and used to explore the electrophysiology of snail ganglia independently by G. Gross and his colleages in 1977 without prior knowledge of Thomas and his colleagues work. In 1982, Gross observed spontaneous electrophysiological activity from dissociated spinal cord neurons, and found that activity was very dependent on temperature. Below about 30 C signal amplitudes decrease rapidly to relatively small value at room temperature.
Before the 1990s, significant entry barriers existed for new laboratories that sought to conduct MEA research due to the custom MEA fabrication and software they had to develop. However, with the advent of affordable computing power and commercial MEA hardware and software, many other laboratories were able to undertake research using MEAs.

# Types
Microelectrode arrays can be divided up into subcategories based on their potential use: in vitro and in vivo arrays.

## Types of in vitro arrays
The standard type of in vitro MEA comes in a pattern of 8 x 8 or 6 x 10 electrodes.  Electrodes are typically composed of indium tin oxide or titanium and have diameters between 10 and 30 m.  These arrays are normally used for single-cell cultures or acute brain slices .
One challenge among in vitro MEAs has been imaging them with microscopes that use high power lenses, requiring low working distances on the order of micrometers.  In order to avoid this problem, Thin-MEAs have been created using cover slip glass.  These arrays are approximately 180 m allowing them to be used with high-power lenses  .
In another special design, 60 electrodes are split into 6 x 5 arrays separated by 500 m.  Electrodes within a group are separated by 30 um with diameters of 10 m.  Arrays such as this are used to examine local responses of neurons while also studying functional connectivity of organotypic slices  .
Spatial resolution is one of the key advantages of MEAs and allows signals sent over a long distance to be taken with higher precision when a high-density MEA is used.  These arrays usually have a square grid pattern of 256 electrodes that cover an area of 2.8 by 2.8 mm .
In order to obtain quality signals electrodes and tissue must be in close contact with one another.  The perforated MEA design applies negative pressure to openings in the substrate so that tissue slices can be positioned on the electrodes to enhance contact and recorded signals .
The MEA60 System by MULTI CHANNEL SYSTEMS (MCS) is used for a variety of application.  It includes a 60-channel amplifier reduces noise level in the retrieved signal so that lower range voltages can be recorded  .

## Types of in vivo arrays
The three major categories of implantable MEAs are microwire, silicon- based, and flexible microelectrode arrays.  Microwire MEAs are largely made of stainless steel or tungsten and they can be used to estimate the position of individual recorded neurons by triangulation.  Silicon-based microelectrode arrays include two specific models: the Michigan and Utah arrays.  Michigan arrays allow a higher density of sensors for implantation as well as a higher spatial resolution than microwire MEAs.  They also allow signals to be obtained along the length of the shank, rather than just at the ends of the shanks.  In contrast to Michigan arrays, Utah arrays are 3-D, consisting of 100 conductive silicon needles.  However, in a Utah array signals are only received from the tips of each electrode, which limits the amount of information that can be obtained at one time.  Furthermore, Utah arrays are manufactured with set dimensions and parameters while the Michigan array allows for more design freedom.  Flexible arrays, made with polyimide, parylene, or benzocyclobutene, provide an advantage over rigid microelectrode arrays because they provide a closer mechanical match, as the Youngs modulus of silicon is much larger than that of brain tissue, contributing to shear-induced inflammation .

# Data Processing Methods
The fundamental unit of communication of neurons is, electrically, at least, the action potential. This all-or-nothing phenomenon is believed to originate at the axon hillock, resulting in a depolarization of the intracellular environment which propagates down the axon. This ion flux through the cellular membrane generates a sharp change in voltage in the exracellular environment, which is what the MEA electrodes ultimately detect. Thus, voltage spike counting and sorting is often used in research to characterize network activity.

# Advantages
In general, the major strengths of in vitro arrays when compared to more traditional methods such as patch clamping include :
- Allowing the placement of multiple electrodes at once rather than individually
- The ability to set up controls within the same experimental setup (by using one electrode as a control and others as experimental)
- The ability to select different recordings sites within the array
- The ability to simultaneously receive data from multiple sites
Furthermore, in vitro arrays are non-invasive when compared to patch clamping because they do not require breeching of the cell membrane.
With respect to in vivo arrays however, the major advantage over patch clamping is the high special resolution. Implantable arrays allow signals to be obtained from individual neurons enabling information such as position or velocity of motor movement that can be used to control a prosthetic device.

# Disadvantages
In vitro MEAs are less suited for recording and stimulating single cells due to their low spatial resolution compared to patch clamp and dynamic clamp systems.  The complexity of signals an MEA electrode could effectively transmit to other cells is limited compared to the capabilities of dynamic clamps.
There are also several biological responses to implantation of a microelectrode array, particularly in regards to chronic implantation.  Most notable among these effects are neuronal cell loss, glial scarring, and a drop in the number of functioning electrodes .  The tissue response to implantation is dependent among many factors including size of the MEA shanks, distance between the shanks, MEA material composition, and time period of insertion.  The tissue response is typically divided into short term and long term response.  The short term response occurs within hours of implantation and begins with an increased population of astrocytes and glial cells surrounding the device.  The recruited microglia then initiate inflammation and a process of phagocytosis of the foreign material begins.  Over time, the astrocytes and microglia recruited to the device begin to accumulate, forming a sheath surrounding the array that extends tens of micrometres around the device.  This not only increases the space between electrode probes, but also insulates the electrodes and increases impedance measurements.  Problems with chronic implantation of arrays have been a driving force in the research of these devices.  One novel study examined the neurodegenerative effects of inflammation caused by chronic implantation . Immunohistochemical markers showed a surprising presence of hyperphosphorylated tau, an indicator of Alzheimers disease, near the electrode recording site. The phagocytosis of electrode material also brings to question the issue of a biocompatibility response, which research suggests has been minor and becomes almost nonexistent after 12 weeks in vivo.  Research to minimize the negative effects of device insertion include surface coating of the devices with polymers such as laminin as well as coating with drug eluting substances .

# Applications

## In vitro Applications
The nature of dissociated neuronal networks does not seem to change or diminish the character of its pharmacological response when compared to in vivo models, suggesting that MEAs can be used to study pharmacological effects on dissociated neuronal cultures in a more simple, controlled environment. A number of pharmacological studies using MEAs on dissociated neuronal networks, e.g. studies with ethanol.
MEAs have been used to interface neuronal networks with non-biological systems as a controller. For example, a neural-computer interface can be created using MEAs. Dissociated rat cortical neurons were integrated into a closed stimulus-response feedback loop to control an animat in a virtual environment.
A closed-loop stimulus-response system has also been constructed using an MEA by Dr. Potter, Dr. Mandhavan, and Dr. DeMarse, and by Mark Hammond, Kevin Warwick, and Ben Whalley in the University of Reading. About 300,000 dissociated rat neurons were plated on an MEA, which was connected to motors and ultrasound sensors on a robot, and was conditioned to avoid obstacles when sensed.
MEAs have been used to observe network firing in hippocampal slices.

## In vivo Applications
There are several implantable interfaces that are currently available for consumer use including deep brain stimulators, cochlear implants, and cardiac pacemakers.  Deep brain stimulation (DBS) has been effective at treating movement disorders such as Parkinsons disease , and cochlear implants have helped many to improve their hearing by assisting stimulation of the auditory nerve.  Because of their remarkable potential, MEAs are a prominent area of neuroscience research.  Research suggests that MEAs may provide insight into processes such as memory formation and perception and may also hold therapeutic value for conditions such as epilepsy, depression, and obsessive-compulsive disorder. Clinical trials using interface devices for restoring motor control after spinal cord injury or as treatment for ALS have been initiated by CyberKinetics Neurotechnology Systems in a project entitled BrainGate (see video demo: BrainGate). MEAs provide the high resolution necessary to record time varying signals, giving them the ability to be used to both control and obtain feedback from prosthetic devices, as was shown by Kevin Warwick, Mark Gasson and Peter Kyberd,.  Research suggests that MEA use may be able to assist in the restoration of vision by stimulating the optic pathway .