CA2580548A1

CA2580548A1 - Monitoring of cell adhesion and spreading

Info

Publication number: CA2580548A1
Application number: CA002580548A
Authority: CA
Inventors: Yama A. Abassi; Josephine Atienza; Xiao Xu; Xiaobo Wang
Original assignee: Individual
Current assignee: Acea Biosciences Inc
Priority date: 2004-09-27
Filing date: 2005-09-27
Publication date: 2006-04-06
Also published as: WO2006036952A3; EP1800312A4; EP1800312A2; WO2006036952A2

Abstract

The present invention includes devices and methods for dynamically monitoring cell adhesion and cell spreading. Cells are added to a microelectronic cell sensor array operably connected to an impedance analyzer. The device also includes a coating including biological molecule or organic compound capable of interacting with the cell. Cell adhesion and cell mobility is determined by detecting changes in impedance and comparing impedance or cell index values between samples.

Description

Dl'NAMIC MONITORING OF CELL ADHESION AND SPREADING USING THE RT-CES
SYSTEM

CROSS REFERENCE TO RELATED APPLICATIONS

This application claims benefit of priority to the following patent applications:
U.S. Patent Application Number 11/197,994, filed on August 4, 2005; U.S.
Patent Application Number 11/198,831, filed on August 4, 2005; U.S. Patent Application Number 11/055,639 filed on February 9, 2005; U.S. Patent Application Number 10/987,732, filed on November 12, 2004; U.S. Provisional Patent Application Number 60/630,131, filed on November 22, 2004; U.S. Provisional Patent Application Number 60/630,071 filed on November 22, 2004; U.S. Provisional Paterit Application Number 60/613,872 filed on September 27, 2004; U.S. Provisional Patent Application Number 60/613,749, filed on September 27, 2004; U.S. Provisional Patent Application Number 60/630,809 filed on November 24, 2004; U.S. Provisional Patent Application Number 60/633,019 filed on December 3, 2004; U.S. Provisional Patent Application Number 60/647,159 filed on January 26, 2005; U.S. Provisional Patent Application Number 60/653,904 filed on February 27, 2005; U.S. Provisional Patent Application Number 60/673,678 filed on Apri125, 2005; U.S. Provisional Patent Application Number 60/689,422 filed on June 10, 2005; PCT Patent Application Number filed on August 4, 2005 and PCT Patent Application Number PCT/US05/27891 filed on August 4, 2005; U.S. Provisional Application Number 60/614,601, filed on September 29, 2004; PCT Patent Application No. PCT/US05/04481, filed on February 9, 2005; PCT
Patent Application No. PCT/USO4/37696, filed on November 12, 2004; U.S.
Provisional Patent Application Number 60/647,189, filed on January 26, 2005; U.S.
Provisional Patent Application Number 60/647,075 filed on January 26, 2005; U.S.
Provisional Patent Application Number 60/660,829 filed on March 10, 2005, and U.S.
Provisional Patent Application Number 60/660,898 file on March 10, 2005. Each of the patent applications provided in this paragraph are incorporated by reference herein in their entirety.

The present application incorporates by reference in their entirety the following patent applications: U. S. Provisional Application 60/519,567, filed on November 12, 2003; U.S. Patent Application Number 10/705,447 filed on November 10, 2003; U.
S.
Provisional Application 60/397,749, filed on July 20, 2002; U. S. Provisional Application 60/435,400, filed on December 20, 2002; U. S. Provisional Application 60/469,572, filed on May 9, 2003; PCT application PCT/US03/22557, filed on July 18, 2003; U.S.
Patent Application Number 10/705,615, filed on November 10, 2003; U. S. Provisional Application 60/397,749 filed on July 20, 2002; U. S. Provisional Application 60/435,400, filed on December 20, 2002; U. S. Provisional Application 60/469,572, filed on May 9, 2003; and PCT application PCT/US03/22537, filed on July 18, 2003; U. S.
Provisional Patent Application Number 60/542,927 filed on February 9, 2004; U. S.
Provisional Application 60/548,713, filed on February 27, 2004; U.S. Provisional Patent Application Number 60/598,608, filed on August 4, 2004; U.S. Provisional Patent Application Number 60/598,609, filed on August 4, 2004;

TECHNICAL FIELD
The present application relates to microelectronic devices and methods of use of to detect changes in impedance of a cell, and more specifically to microelectronic devices coated with biological molecules or organic compounds and methods of dynamically monitoring cell adhesion and cell monitoring.
BACKGROUND
The cells malcing up the various tissues and organs systems are held together by specific molecules that essentially serve as "biological glue" conferring shape, structure, rigidity or plasticity. During embryogenesis, these biological molecules or extracellular matrix (ECM) proteins serve as "tracks" and direct cells to the appropriate vicinity within the embryo to give rise to tissues and organ systems. ECM proteins also play a prominent role during wound healing, and are involved in directing other cellular processes such as proliferation, survival, and differentiation. Failure of cells to interact with the appropriate biological surface or molecule can be detrimental to the faith of the cells and can contribute to cancer cell metastases.

There are several methods for assessing and quantifying cellular adhesion and spreading on an ECM coated surface. The most widely used method is to apply the cells onto surfaces coated with appropriate ECM components, allow the cells to attach and adhere for a specified length of time and wash the unbound cells. The attached cells are then fixed, labeled with fluorescent reagent such as rhodamine phalloidin and visualized using an epi-fluorescent microscope or an epi-fluorescent confocal microscope.
Alternatively, the cells can be labeled with a dye such as crystal violet and quantified by either counting the stained cells using a light microscope or solubilizing the stain and obtaining absorbance reading using a spectrophotometer. Cells can also be pre-labeled with a fluorescent dye for live cells such as 6-carboxyfluorescein diacetate (CFDA) and then applied to appropriate ECM-coated surface. The unbound cells are washed off and the bound cells are quantified using a plate reader. An additional method for assessing the role of integrins and other adhesion proteins is to coat different surfaces with antibodies or peptides which are specific for the various receptors and then seed the cells which are expressing the appropriate integrin receptors. The interaction of integrin receptor on the cell surface with the antibody or peptide-coated surface will allow the cells to adhere and undergo specific morphological and biological changes which can then be assessed by using cell biological techniques discussed above.
While the assays just described for assessing and quantifying cell adhesion have been informative, there are certain caveats associated with each of these assays. For example, each of the assays described are end-point assays which provide a "snapshot" of the adhesion process. All the assays involve pre-labeling or post-labeling of the cells and also involve fixation and permeabilization leading to destruction of the cell.
In this application we describe a label-free real-time assay using electronic cell sensor technology (RT-CES system) which addresses some of the major limitations of the current in vitro assays for assessing the interaction of bio-molecular coated surfaces with target cells. Furthermore, because the readout is non-invasive it precludes the need for fixation and lysis of the cells and allows for acquisition of information for biological events occurring after adhesion and spreading, such as proliferation and differentiation.

~

SUMM:4Rl' The present invention includes a microlectronic cell sensor array including a non-conductive substrate, a plurality of electrode arrays positioned on the substrate, and a biological molecule or an organic compound, and optionally a control molecule or a control compound positioned on a portion of the substrate. Each electrode array includes at least two electrodes and each electrode is separated from at least one adjacent electrode by an area of non-conductive material.
In another aspect of the present invention a method of coating a microelectronic cell sensor array with a biological molecule or organic compound is provided including providing a microelectronic cell sensor array and incubating a test solution on a first portion of the electrode array and optionally a control solution on a second portion of the electrode array. The microelectronic cell sensor array may include a non-conductive substrate and a plurality of electrode arrays positioned on the substrate.
Each electrode array may include at least two electrodes and each electrode may be separated from at least one adjacent electrode by an area of non-conductive material. The test solution may include a biological molecule or organic compound and the control solution may include a vehicle control and optionally a control molecule or control compound. The incubation occurs under conditions suitable for attaching the biological molecule or organic compound to the electrode array or to the nonconductive substrate.
In another aspect of the present invention, a method of monitoring cell adhesion or cell spreading is provided including-providing a microelectronic cell sensor array including a test portion and a control portion, coated at least in part with a biological molecule or organic compound and operably connected to an impedance analyzer.
A cell or cell population is introduced to the test portion and the control portion.
A series of impedaiice measurements of the test portion and the control portion are performed. The change in impedance and optionally a cell index (CI) of the test portion and the change in impedance and optionally a cell index (CI) of the control portion is determined. The change in impedance of the test portion is compared to the change in impedance of the control portion or alternatively the cell index (CI) of the test portion is compared to the cell index (Cl) of the control portion. Cell adhesion or cell spreading occurs if the comparison demonstrates.a_significant change in impedance.
In another aspect of the present invention, a method of identifi=ing a compound or biological molecule capable effecting cell adhesion or cell spreading is provided including providing a microelectronic cell sensor array that is at least in part coated with a biological molecule or organic compound and is operably connected to an impedance analyzer, introducing a cell or cell population to a test portion and to a control portion of the microelectronic cell sensor array, performing a series of impedance measurements of the test portion and the control portion, determining the change in impedatice and optionally a cell index (CI) of the test portion and the change in impedance and optionally a cell index (CI) of the control portion, comparing the change in impedance of the test portion to the change in impedance of the control portion or comparing the cell index (CI) of the test portion to the cell index (CI) of the control portion and determirung cell adhesion or cell spreading is effected if the comparison demonstrates a significant change in impedance. The substrate of the microelectronic cell sensor array is coated with biological molecule or organic compound capable of supporting cell adhesion or spreading on a test portion and a control biological molecule or control organic compound on a control portion.
In another aspect of the present invention, a method of identifying an inhibitor of cell adhesion or cell spreading is provided including providing a microlectronic cell sensor array operably connected to an impedance analyzer, the microelectronic cell sensor array including a non-conductive substrate, a plurality of electrode arrays positioned on the substrate, each electrode array including at least two electrodes, and each electrode is separated from at least one adjacent electrode by an area of non-conductive material and a biological molecule or organic compound positioned on the test portion of the substrate and on a control portion of the substrate. The biological molecule or organic compound may be known to be capable of increasing cellular adhesion or cellular spreading. The method also includes preincubating a cell or cell population with a biological molecule or compound suspected of being an effector or inhibitor of cell spreading or cell adhesion defined as a test sample and preincubating a cell or cell population with a vehicle control defined as a control sample, introducing the test sample to the test portion and the control sample to the control portion, perfoimiizg a series of impedailce measurements of the test portion and the control portion, determining the change in impedance and optionally a cell index (CI) of the test portion and the change in impedance and optionally a cell index (CI) of the control portion, comparing the change in impedance of the test portion to the change in impedance of the control portion or comparing the cell index (CI) of the test portion to the cell index (CI) of the control portion, and determining cell adhesion or cell spreading is reduced or inhibited if the comparison demonstrates the change in impedance or cell index is greater in the control portion than the test portion.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG. 1 depicts a graphical representation of attachment and spreading of NIH3T3 cells on ACEA E-plates coated with fibronectin (FN) and poly-L-Lysine (PLL) and monitored by the RT-CES system. The wells of ACEA E-plates were coated with 10 g/mL FN
or with 50 g/mL PLL for 1 hour at 37 C. The wells were washed with PBS prior to the addition of media alone for background recording. NIH3T3 cells were added at a density of 10,000 cells per well and the adhesion and spreading of the cells were monitored by the RT-CES system.
FIG. 2 depicts images demonstrating attaclunent and spreading of NIH3T3 cells on 16X
chamber slides coated with FN and PLL. 16X chamber slides were coated with PLL
and FN as described in FIG. 1. NIH3T3 cells were added to the wells and at the indicated time points the cells were fixed and stained with rhodamine-phalloidin to stain the actin cytoskeleton. The cells were visualized and imaged with an epifluorescence microscope.
FIG. 3 depicts a graphical representation of the effect of FN concentration being coated onto the ACEA E-plate on NIH3T3 cell attachment and spreading. ACEA E-plates were coated ~,ith increasinQ amounts of FN in the range of 0~Lg/mL to 20 g/mL.

NIH3T3 cells were added to the wells and the attachment and spreading of the cells were monitol-ed by the RT-CES systeni. The inset shows the averaae cell index of attachment at 3 hours in response to increasing aniounts of FNT.

FIG. 4 depicts a graphical representation of inhibition of cell attachment and spreading using the RGD containing peptides. ACEA 16X E-plates were coated with FN as described in FIG. 1. NIH3T3 cells were preincubated for 30 minutes with the indicated final concentration of the peptide GRGDS and also with the indicated concentration of the control peptide (GRADSP). The cells were added to E-plates coated with FN
and the attaclunent and spreading of NIH3T3 cells were monitored by the RT-CES system.
FIG. 5 depicts a graphical representation of attachment and spreading of Jurkat T cells on ACEA E-plates coated with anti-CD-3 antibody. E-plates were coated with 10 g/mL
of OKT3 antibody (anti-CD-3) or a control antibody for 2 hours at room temperature.
The wells were washed with PBS and then the background impedance determined using the RT-CES. 500,000 Jurkat T cells were added per well and the attachment and spreading of the cells were monitored using the RT-CES system.

FIG. 6 depicts (A) Dynamic monitoring of cell attachment and spreading on PLL
and FN-coated surfaces using the RT-CES system. (B) The RT-CES measurements correlate Z0 with the extent of cell attachment and spreading using conventional phalloidin staining of the actin cytoskeleton and immunofluorescence microscopy.

FIG 7 depicts (A) Quantitative and dynamic monitoring of cell attachment and spreading in response to increasing concentrations of FN using the RT-CES system. (B) ?5 Coniparison of ACEA units of Cell Index versus manual counting of the cells for different FN concentrations at 3 hours.

FIG. 8 depicts (A) Dose-dependent inhibition of cell attachment and spreading in response to cyclic-RGD peptides, using the RT-CES system. (B) Comparison of cell 30 attachment and spreading in response to a control peptide and cyclic-RGD
peptides at three hours.

FIG. 9 depicts (A) Dynamic monitoring of the dose-dependent effect of Latriculin on NIH3T33 cell attachment and spreading on FN-coated wells, using the RT-CES
system (B) Analysis of the dose-dependent effect of Latriculin on NIH3T3 cell attachment and spreading at two hours.

FIG. 10 depicts (A) Dynainic monitoring of the effect of the Src inhibitor, PP2 on BxPC3 cell attaclunent and spreading on FN, using the RT-CES system. (B) Comparison of the extent of cell attachment and spreading on FN in response to PP2 compared to DMSO control at two hours.

FIG. 11 depicts (A) Dynamic monitoring of cell attachment and spreading using the RT-CES system of BxPC3 cells transfected with an siRNA specific for c-Src or a control siRNA. (B) Comparison of the extent of cell attachment and spreading of BxPC3 cells transfected with c-Src siRNA or a control siRNA at two hours.

DETAILED DESCRIPTION
A. Definitions For clarity of disclosure, and not by way of limitation, the detailed description of the invention is divided irito the subsections that follow.
Unless defined otherwise, all technical and scientific terms used herein have the same meaiiing as is commonly understood by one of ordinary skill in the art to which this invention belongs. All patents, applications, published applications and other publications referred to herein are incorporated by reference in their entirety. If a defmition set forth in this section is contrary to or otherwise inconsistent with a definition set forth in the patents, applications, published applications and other publications that are herein incorporated by reference, the definition set forth in this section prevails over the defmition that is incorporated herein by reference.

As used herein_ '-a7' or "an" rneans "at least one" or "one or more."

As used herein. "membrane' is a sheet of material.
As used herein. "biocompatible membrane" means a membrane that does not hare deleterious effects on cells, including the viabilitv, attachment, spreadinQ, motility, growth, or cell division.
A"biomolecular coating" or a"bioloaical molecule coating" is a coating on a surface that comprises a molecule that is a naturally occurriilg biological molecule or biochemical, or a biochemical derived from or based on one or more naturally occurring biomolecules or biochemicals. For example, a biological molecule coating can include an extracellular matrix component (e.g., fibronectin, collagens), or a derivative thereof, or can comprise a biochemical such as polylysine or polyornithine, which are polymeric molecules based on the naturally occurring biochemicals lysine and ornithine.
Polyineric molecules based on naturally occurring biochemicals such as amino acids can use isomers or enantiomers of the naturally-occuring biochemicals.
An "organic compound coating" is a coating on a surface that includes an organic compound. For example an organic compound may include a natural ligand or an agonist or an antagonist for a cell surface receptor.
An "extracellular matrix component" is a molecule that occurs in the extracellular matrix of an animal. It can be a component of an extracellular matrix from any species and from any tissue type. Nonlimiting examples of extracellular matrix components include laminins, collagens fibronectins, other glycoproteins, peptides, glycosaminoglycans, proteoglycans, etc. Extracellular matrix components can also include growth factors.
An "electrode" is a structure having a high electrical conductivity, that is, an electrical conductivity much higher than the electrical conductivity of the surrounding materials.

As used herein, an "electrode structure" refers to a single electrode, particularly one with a complex structure (as, for example, a spiral electrode structure), or a collection of at least two electrode elements that are electrically connected together.
All the electrode elements within an "electrode structurC are electrically connected.

As used herein. "electrode element" refers to a single st1-uctural feature of an electrode structure, such as, for example, a fmRerlil:e projection of an interdigitated electrode structure.
As used herein, an "electrode array" or "electrode structure unit" is two or more electrode structures that are constructed to have dimensions and spacing such that they can, when connected to a signal source, operate as a unit to generate an electrical field in the region of spaces around the electrode structures. Preferred electrode structure units of the present invention can measure impedance changes due to cell attachment to an electrode surface. Non-limiting examples of electrode structure units are interdigitated electrode structure units and concentric electrode structure units.
An "electrode bus" is a portion of an electrode that connects individual electrode elements or substructures. An electrode bus provides a common conduction path from individual electrode elements or individual electrode substructures to another electrical connection. In the devices of the present invention, an electrode bus can contact each electrode element of an electrode structure and provide an electrical connection path to electrical traces that lead to a connection pad.
"Electrode traces" or "electrically conductive traces" or "electrical traces:', are electrically conductive paths that extend from electrodes or electrode elements or electrode structures toward one end or boundary of a device or apparatus for connecting the electrodes or electrode elements or electrode structures to an impedance analyzer.
The end or boundary of a device may correspond to the coiuiection pads on the device or apparatus.

A "connection pad" is an area on an apparatus or a device of the present invention which is electrically connected to at least one electrode or all electrode elements within at least one electrode structure on an apparatus or a device and which can be operatively connected to external electrical circuits (e.g., an impedance measurement circuit or a signal source). The electrical connection between a connection pad and an impedance measurement circuit or a signal source can be direct or indirect, throuah any appropriate electrical conduction means such as leads or wires. Such electrical conduction means mav also go through electrode or electrical conduction paths located on other regions of the apparatus or device.

"Interdiaitated" nzeans having projections comina one direction that interlace with projections coininQ from a different direction in the manner of the fingers of folded hands (witl-i the caveat that interdiaitated electrode elements preferably do not contact one another).
As used lierein, a"hiQh probability of contactinQ an electrode elenlent" means tllat, if a cell is randomly positioned within the sensor area of a device or apparatus of the present invention, the probability of a cell (or particle) contacting on an electrode eleinent, calculated from the averagge diameter of a cell used on or in a device or apparatus of the present invention, the sizes of the electrode elements, and the size of the gaps between electrode elements, is greater than about 50%, more preferably greater than about 60%, yet more preferably greater than about 70%, and even more preferably b eater than about 80%, greater than about 90%, or greater than about 95%.
As used herein, "at least two electrodes fabricated on said substrate" means that the at least two electrodes are fabricated or made or produced on the substrate. The at least two electrodes can be on the same side of the substrate or on the different side of the substrate. The substrate may. have multiple layers, the at least two electrodes can be either on the same or on the different layers of the substrate.
As used herein, "at least two electrodes fabricated to a same side of said substrate" means that.the at least two electrodes are fabricated on the sanie side of the substrate.
As used herein, "at least two electrodes fabricated to a same plane of said substrate" meall.s that, if the nonconducting substrate has multiple layers, the at least two electrodes are fabricated to the same layer of the substrate.
As used herein, "said ... electrodes (or electrode structures) have substantially the same surface area" means that the surface areas of the electrodes referred to are not substantially different from each other, so'that the impedance change due to cell attachment or gTowth on any one of the electrodes (or electrode'structures) referred to will contribute to the overall detectable change in impedance to a same or similar deo-ree as the impedance change due to cell attachment or growth on any other of the electrodes (or electrode structures) referred to. In other words, where electrodes (or electrode structures) have substantially the same surface area, any one of the electrodes can contribute to overall change in impedance upon cell attaclmzent or growth on the electrode. In most cases, the ratio of surface. area between the larQest electrode and the smallest electrode that have "substantially the same surface area" is less than 10.
Preferably, the ratio of.surfac.e area between the largest electrode and the smallest electrode of an electrode array is less than 5, 4, 3, 2, 1.5, 1.2 or 1.1. More preferably, the at least two electrodes of an electrode structure have nearly identical or identical surface area.
As used herein, "said device has a surface suitable for cell attachment or growth"
means that the electrode and/or non-electrode area of the apparatus has appropriate physical, chemical or biological properties such that cells of interest can viably attach on the surface and new cells can continue to attach, while the cell culture grows, on the surface of the apparatus. However, it is not necessary that the device, or the surface thereof, contain substances necessary for cell viability or growth. These necessary substances, e.g., nutrients or growth factors, can be supplied in a medium.
Preferably, when a suspension of viable, unimpaired, epithelial or endothelial cells is added to the "surface suitable for cell attachment" when at least 50% of the cells are adhering to the surface within twelve hours. More preferably, a surface that is suitable for cell attaclunent has surface properties so that at least 70% of the cells are adhering to the surface within twelve hours of plating (i.e., adding cells to the chamber or well that.
comprises the said device). Even more preferably, the surface properties of a surface that is suitable for cell attachment results in at least 90% of the cells adhering to the surface within twelve hours of plating. Most preferably, the surface properties of a surface that is suitable for cell attachment results in at least 90% of the cells adhering to the surface within eight, six, four, two hours of plating.
?5 As used herein, "detectable change in impedance between or among said electrodes" (or "detectable change in impedance between or among said electrode structures") means that the impedance between or among said electrodes (or electrode structures) would have a significant change that can be detected by an impedance analyzer or impedance measurement circuit when molecule binding reaction occurs on the electrode surfaces. The impedance change refers to the difference in impedance values when molecule bindina reaction occurs on the electrode surface of the apparatus and when no molecular reaction occurs on the electrode surface. Alternatively, the impedance chanQe refers to the difference in impedance values when cells are attached to the electrode surface and -,A~hen cells are not attached to the electrode surface, or when the number, type, activity, adhesiveness, or morphology of cells attached to the electrode-comprising surface of the apparatus changes. In most cases, the change in impedance is larger than 0.1 % to be detectable. Preferably, the detectable change in impedance is larger than 1%, 2%, 5%, or 8%. More preferably, the detectable change in impedance is larger than 10%. linpedance between or among electrodes is typically a function of the frequency of the applied electric field for measurement. "Detectable change in impedance between or among said electrodes" does not require the impedance change at all frequencies being detectable. "Detectable change in impedance between or among said electrodes" only requires a detectable change in impedance at any single frequency (or multiple frequencies). In addition, impedance has two components, resistance and reactance (reactance can be divided into two categories, capacitive reactance and inductive reactance). "Detectable change in impedance between or among said electrodes" requires only that either one of resistance and reactance has a detectable change at any single frequency or multiple frequencies. In the present application, impedance is the electrical or electronic impedance. The method for the measurement of such impedance is achieved by, (1) applying a voltage between or among said electrodes at a given frequency (or multiple frequencies, or having specific voltage waveform) and monitoring the electrical current through said electrodes at the frequency (or multiple frequencies, or having specific waveform), dividing the voltage amplitude value by the current amplitude value to derive the impedance value; (2) applying an electric current of a single frequency component (or multiple frequencies or having specific current wave form) through said electrodes and monitoring the voltage resulted between or among said electrodes at the frequency (or multiple frequencies, or having specific waveform), dividing the voltage amplitude value by the current amplitude value to derive the impedance value; (3) other methods that can measure or determine electric impedance.
Note that in the description above of "dividing the voltage amplitude value by the current amplitude value to derive the impedance value", the "division~' is done for the values of current amplitude and voltage amplitude at same frequencies. Measurement of such electric impedance is an electronic or electrical process that does not involve the use of anv rea2ents.

As used herein. "said at least two electrodes have substantially different surface area" means that the surface areas of any electrodes are not similar to each other so that the impedance change due to cell attachment or growth on the larger electrode will not contribute to the overall detectable impedance to a saine or similar degree as the impedance change due to cell attachment or growth on the smaller electrodes.
Preferably, any impedance change due to cell attachment or growth on the larger electrode is significantly smaller than the impedance change due to cell attachment or growth on the smaller electrode. Ordinarily, the ratio of surface area between the largest electrode and the smallest electrode is more than 10. Preferably, the ratio of surface area between the largest electrode and the smallest electrode is more than 20, 30, 40, 50 or 100.
As used herein, "multiple pairs of electrodes or electrode structures spatially arranged according to wells of a multi-well microplate" means that the multiple pairs of electrodes or electrode structures of a device or apparatus are spatially arranged to match the spatial configuration of wells of a multi-well microplate so that, wlien desirable, the device can be inserted into, joined with, or attached to a multiwell plate (for example, a bottomless multiwell plate) such that multiple wells of the multi-well microplate will comprise electrodes or electrode structures.
As used herein, "arranged in a row-colunm configuration" means that, in terms of electric connection, the position of an electrode, an electrode array or a switching circuit is identified by both a row position number and a column position number.
As used herein, "each well contains substantially same number ... of cells"
means that the lowest number of cells in a well is at least 50% of the highest number of cells in a well. Preferably, the lowest number of cells in a well is at least 60%, 70%, 80%, 90%, 95% or 99% of the hiahest number of cells in a well. More preferably, each well contains an identical number of cells.

As used herein, "each well contains...same type of cells" means that, for the intended purpose, each well contains same type of cells; it is not necessary that each well contains exactly identical type of cells. For example, if the intended purpose is that each well contains manuzialian cells, it is permissible if each well contains same type of manunalian cells, e.c., hunlan cells, or different mammalian cells, e.g., hunian cells as well as other non-human manunalian cells such as mice, goat or monkey cells, etc.
As used herein, "each well contains . . . serially different concentration of a test compound" means that each well contains a test compound with a serially diluted concentrations, e.g., an one-tenth serially diluted concentrations of 1 M, 0.1 M, 0.01 M, etc.
As used herein, "dose-response curve" means the dependent relationship of response of cells on the dose concentration of a test compound. The response of cells can be measured by many different parameters. For example, a test compound is suspected to have cytotoxicity and cause cell death. Then the response of cells can be measured by percentage of non-viable (or viable) cells after the cells are treated by the test compound.
Plotting this percentage of non-viable (or viable) cells as a function of the does concentration of the test compound constructs a dose response curve. In the present application, the percentage of non-viable (or viable) cells can be expressed in terms of measured impedance values, or in terms of cell index derived from impedance measurement, or in terms of cell change indexes. For exanlple, for a give cell type and under specific cellular physiological condition (e.g., a particular cell culture medium), cell index can be shown to have a linear correlation or positive correlation with the number of viable cells in a well from which cell index was derived from the impedance measurement. Thus, in the present application, one can plot cell index as a function of the dose concentration of the test compound to construct a "dose-response curve". Note that, generally, cell index not only correlate with the number of viable cells in the wells but also relate to the cell morphology and cell attachment. Thus plotting cell index versus doss concentration provides information not only about number of cells but also about their physiological status (e.g. cell morphology and cell adhesion).
Furthermore, an important advantage offered by the system and devices of the present i.nvention is that in a sinale experiment, one can obtain "dose-response curves" at multiple time points since the system allows for the continuous monitoring of cells and provides impedance measurement at many time points over a time range as short as a few minutes to as long as days or weeks.

As used herein. "the electrodes have. alonR the lenath of the microchaimel. a lenath that is substantially less than the largest single-dimension of a particle to be analyzed" means that the electrodes have, alona the len,th of the microchannel, a length that is at least less than 90% of the laraest sinale-dimension of a particle to be analyzed.
Preferably, the electrodes have, along the length of the microchaimel, a length that is at least less than 80%, 70%, 60%, 50%, 40%, 30%, 20%, 10%, 5% of the largest single-dimension of a particle to be analyzed.
As used herein, "the microelectrodes span the entire height of the microchannel"
means that the microelectrodes span at least 70% of the entire height of the microchannel.
Preferably, microelectrodes span at least 80%, 90%, 95% of the entire height of the rnicrochamlel. More preferably, microelectrodes span at least 100% of the entire height of the microchannel.
As used herein, "an aperture having a pore size that equals to or is slightly larger than size of said particle" means that aperture has a pore size that at least equals to the particle size but less than 300% of the particle size. Here both pore size and particle size ar'e measured in terms of single dimension value.
As used herein, "microelectrode strip or electrode strip" means that a non-conducting substrate strip on which electrodes or electrode structure units are fabricated or incorporated. The non-limiting examples of the non-conducting substrate.
strips include polymer membrane, glass, plastic sheets, ceramics, insulator-on-semiconductor, fiber glass (like those for manufacturing printed-circuits-board). Electrode structure units having different geometries can be fabricated or made on the substrate strip by any suitable microfabrication, micromachining, or other methods. Non-limiting examples of electrode geometries include uzterdigitated electrodes, circle-on-line electrodes, diamond-on-line electrodes, castellated electrodes, or sinusoidal electrodes.
Characteristic dimensions of these electrode geometries may vary from as small as less than 5 micron, or less than 10 micron, to as large as over 200 micron, over 500 micron, over 1 mm. The characteristic dimensions of the electrode geometries refer to the smallest width of the electrode elements, or smallest gaps between the adjacent electrode elements, or size of a repeatirig feature on the electrode geometries. The microelectrode strip can be of any geometry for the present invention. One exemplary aeometry for the microelectrode strips is rectanaular shape - having the width of the strip between less than 50 nucron to over 10 mm. and having the length of the strip betu~een less than 60 micron to over 15 mm. An exemplary geometryo of the microelectrode strips may have a geometry having a width of 200 micron and a length of 20 nun. A sinale microelectrode strip may have two electrodes serving as a measurement unit, or multiple such two-electrodes serving as multiple measurement units, or a sinQle electrode structure unit as a measurement unit, or multiple electrode structure units serving as multiple electrode structure units. In one exemplary embodiment, when multiple electrode structure units are fabricated on a single microelectrode strip, these electrode structure units are positioned along the lengtll direction of the strip. The electrode structure units may be of squared-shape, or rectangular-shape, or circle shapes: Each of electrode structure units may occupy size from less than 50 micron by 50 micron, to larger than 2 nun x 2mm.
As used herein, "sample" refers to anything which may contain a moiety to be isolated, manipulated, measured, quantified, detected or analyzed using apparatuses, microplates or methods in the present application. The sample may be a biological sample, such as a biological fluid or a biological tissue. Examples of biological fluids include suspension of cells in a medium such as cell culture medium, urine, blood, plasma, serum, saliva, semen, stool, sputum, cerebral spinal fluid, tears, mucus, amniotic fluid or the like. Biological tissues are aggregates of cells, usually of a particular kind together with their intercellular substance that form one of the structural materials of a human, ai-dmal, plant, bacterial, fungal or viral structure, including connective, epithelium, muscle and nerve tissues. Examples of biological tissues also include organs, tumors, lymph nodes, arteries and individual cell(s). The biological samples may further include cell suspensions, solutions containing biological molecules (e.g.
proteins, enzymes, nucleic acids, carbohydrates, chemical molecules binding to biological molecules).

As used herein, a "liquid (fluid) sample" refers to a sample that naturally exists as a liquid or fluid, e.g., a biological fluid. A "liquid sample" also refers to a sample that naturally exists in a non-liquid status, e.g.. solid or gas, but is prepared as a liquid. fluid, solution or suspension containing the solid or gas sample material. For example, a liquid sample can encompass a liquid. fluid_ solution or suspension contairuna a biological tissue.
A"compound" or "test compound" is any compound whose activity or direct or indirect effect or effects on cells is investiQated in any assay. A test compound can be any compound, including, but not limited to, a small molecule, a large molecule, a molecular complex, an organic molecule, an inorganic molecule, a biomolecule or biological molecule such as but not limited to a lipid, a steroid, a carbohydrate, a fatty acid, an amino acid, a peptide, a protein, a nucleic acid, or any combination thereof. A
test compound can be a synthetic compound, a naturally occurring compound, a derivative of a naturally-occurring compound, etc. The structure of a test compound can be known or unknown. In one application of the present invention, a compound is capable of, or is suspected of, effecting cell adhesion or cell spreading. In another application of present invention, a compound is capable of, or is suspected of, stimulating or inhibiting cell adhesion or cell spreading. In still another application, a compound is capable of, or is suspected of, interacting witli cells (for example, binding to cell surface receptor, or inhibiting certain intracellular signal transduction pathway, or activating cells).
A "known compound" is a compound for which at least one activity is known. In the present invention, a known compound preferably is a compound for which one or more direct or indirect effects on cells is known. Preferably, the structure of a known compound is known, but this need not be the case. Preferably, the mechanism of action of a lcnown compound on cells is luiown, for example, the effect or effects of a known compound on cells can be, as nonlimiting examples, effects- on cell viability, cell adhesion, apoptosis, cell differentiation, cell proliferation, cell morphology, cell cycle, IaE-mediated cell activation or stimulation, receptor-ligandbinding, cell number, cell quality, cell cycling, cell adhesion, cell spreading, etc.
An "impedance value" is the impedance measured for electrodes in a well with or without cell present. Impedance is generally a function of the frequency, i.e., impedance values depend on frequencies at ~~hich the measurement was conducted. For the present application, impedance value refers to impedance measured at either single frequency or multiple frequencies. Furthermore, impedance has two components, one resistance component and one i-eactance component. Impedance value in the present application refers to resistailce component, or reactance component, or both resistance and reactance component. Thus. when "impedance value" was measured or monitored, we are referring to that, resistance, or reactance, or both resistance and reactance were measured or monitored. In many embodiments of the methods of the present application, impedance values also refer to parameter values that are derived from raw, measured impedance data. For exaniple, cell index, or normalized cell index, or delta cell index could be used to repi-eseiit inipedance values.
A "Cell Index" or "CI" is a parameter that can derived from measured impedance values and that ca.n be used to reflect the change in impedance values. There are a number of methods to derive or calculate Cell Index.
A"Normalized Cell Index" at a given time point is calculated by dividing the Cell Index at the time point by the Cell Index at a reference time point. Thus, the Normalized Cell Index is 1 at the reference time point.
A "delta cell index" at a given time point is calculated by subtracting the cell index at a standard time point frorim the cell index at the given time point.
Thus, the delta cell index is the absolute change in the cell index from an initial time (the standard time point) to the measurement time.
A "Cell Change Index" or "CCI" is a parameter derived from Cell Index and "CCI" at a time point is equal to the l st order derive of the Cell Index with respect to time, divided by the Cell Index at the time point. In other words, CCI is calculated as CCI (t) = dCl (t) CI (t) = dt As used herein, "target cell" or "target cells" refers to any cell that is to be monitored for adhesion or spreading. Non-limiting examples of target cells include eukaryotic or prokaryotic cells of interest. Eukaryotic cells of particular interest may be human cells, a human cell population or a human cell line. Immune cells may be utilized such as B-lymphocytes, T-lymphocytes Natural Killer (NK) cells, Cytotoxic T-Lymphocytes (CTLs), neutrophils, easonophils, macrophages, Natural Killer T(1'KT) cells, PBMCs and the like.

As used herein. "primary cell" or "priniary cells" refers to any non-inimortalized cell that has been derived from various tissues and oraans of a patient or an animal.

B. Devices and systems for monitoring cell-substrate impedance Devices for Measurina Cell-Substrate Impedance The present invention includes devices for measuring cell-substrate impedance that comprise a nonconducting substrate; two or more electrode arrays fabricated on the substrate, where each.of the two or more electrode arrays comprises two electrode structures; and at least two connection pads, each of wliich is located on an edge of the substrate. Each electrode array of the device may have approximately u.iliform electrode resistance across the entire array. The substrate of the device has a surface suitable for attaching a biological molecule or organic coinpound (such as covalentl.y or noncovelently bonding). The substrate may also be suitable for a attaching a cell where cell attachment or spreading on the substrate can result in a detectable change in impedance between or among the electrode structures within each electrode array.
An electrode array is two or more electrode structures that are constructed to have dimensions and spacing such that they can, when connected to a signal source, operate as a unit to generate an electrical field in the region of spaces around the electrode structures. An electrode structure refers to a single electrode, particularly-one with a complex structure. (For example, an electrode structure can comprise two or more electrode elements that are electrically connected together.) In devices of the preserit invention, an electrode array comprises two electrode structures, each of which comprises multiple electrode elements, or substructures. In preferred embodiments of the present invention, the electrode structures of each of the two or more electrode arrays of a device have substantially the same surface area. In preferred embodiments of a device of the present invention, each of the two or more electrode arrays of a device comprise two electrode structures, and each electrode structure comprises multiple electrode elements.
Each of the two electrode structures of an electrode array is connected to a separate connection pad that is located at the edge of the substrate.

Thus_ in devices of the present invention, for each of the two or more electrode arrays of the device. the first of the two electrode structures is connected to one of the two or more connection pads, and the second of the two elecuode structures is connected to another of the two or more connection pads. Preferably, each array of a device is individually addressed; meaning that the electrical traces and connection pads of the arrays are configured such that an array can be connected to an impedance analyzer in such a way that a measuring voltage can be applied across a single array at a given time by using switches (such as electronic switches).
Each electrode array of the device has an approximately uniform electrode resistance distribution across the entire array. By "uniform resistance distribution across the array" is meant that when a measurement voltage is applied across the electrode sti-uctures of the array, the electrode resistance at any given location of the array is approximately equal to the.electrode resistance at ariy other location on the.array.
Preferably, the electrode resistance at a first location on an array of the device and the electrode resistance at a second location on the same array does not differ by more than 30%. More preferably, the electrode resistance at a first location on an array of the device and the electrode resistance at a second location on the same array does not differ by more than 15%. Even more preferably, the electrode resistance at a first location on an array of the device and a second location on the same array does not differ by more than 5%. More preferably yet, the electrode resistance at a first location on an array of the device and a second location on the same array does not differ by more than 2%.
For a device of the present invention, preferred arrangements for the electrode elements, gaps between the electrodes and electrode buses in a given electrode array are used to allow all cells, no matter where they land and attach to the electrode surfaces, to contribute similarly to the total impedance change measured for the electrode array. Thus, it is desirable to have similar electric field strengths at any two locations within any given a.rray of the device when a measurement voltage is applied to the electrode array. At any aiven location of the array, the field streng-th is related to the potential difference between the nearest point on a first electrode structure of the array and the nearest point on a second electrode structure of the array. It is therefore desirable to have similar electric potential drops across the electrode elements and across the electrode buses of a Qiven arrav. Based on this requirement, it is preferred to have an approximately uniform electrode resistance distribution across the whole array where the electrode resistance at a location of interest is equal to the sum of the electrode resistance between the nearest point on a first electrode structure (that is the point on the first electrode structure nearest the locatiori of interest) and a first connection pad connected to the first electrode structure and the electrode resistance between the nearest point on a second electrode structure (that is the point on the first electrode structure nearest the location of interest) and a second connection pad connected to the second electrode structure.
Devices of the present invention are designed such that the arrays of the device have an approximately uniform distribution across the whole array. This can be achieved, for example, by having electrode structures and electrode buses of particular spacing and dimensions (lengths, widths, thiclcnesses and geometrical shapes) such that the resistance at any single location on the array is approximately equal to the resistance at any single other location on the array. In most embodiments, the electrode elements (or electrode structures) of a given array will have even spacing and be of similar thicknesses and widths, the electrode buses of a given array will be of similar thicknesses and widths, and the electrode traces leading from a given array to a connection pad will be of closely similar thicknesses and widths. Thus, in these preferred embodiments, an array is designed such that the lengths and geometrical shapes of electrode elements or structures, the lengths and geometrical shapes of electrode traces, and the lengths and geometrical shapes of buses allow for approximately uniform electrode resistance distribution across the array.
In some preferred embodiments of cell-substrate impedance measurement devices, electrode structures comprise multiple electrode elements, and each electrode element connects directly to an electrode bus. Electrode elements of a first electrode structure connect to a first electrode bus, and electrode elements of a second electrode structure connect to a second electrode bus. In these embodiments, each of the two electrode buses connects to a separate connection pad via an electrical trace.
Although the resistances of the traces contribute to the resistance at a location on the array, for any two locations on the array the trace connections from the first bus to a first connection pad and from the second bus to a second connection pad are identical. Thus, in these T) preferred embodiments trace resistances do not need to be tahen into account in designina the geometry of the array to provide for uniform resistances across the array.
In preferred embodiments of the present invention, a device for monitoring cell-substrate impedance has two or more electrode arrays that share a connection pad.
Preferably one of the electrode structures of at least one of the electrode arrays of the device is comlected to a connection pad that also connects to ati electrode structure of at least one other of the electrode arrays of the device. Preferably for at least two arrays of the device, each of the two or more arrays has a first electrode structure connected to a connection pad that connects with an electrode structure of at least one other electrode array, and each of the two or more arrays has a second electrode structure that connects to a connection pad that does not connect with any other electrode structures or arrays of the device. Thus, in preferred designs of a device there are at least two electrode arrays each of which has a first electrode structure that is connected to a common connection pad and a second electrode structure that is connected to an independent connection pad.
In some preferred embodiments of the present invention, each of the electrode structures of an array is connected to an electrode bus that is connected to one of the two or more connection pads of the device via an electrically conductive trace. In preferred embodiments, each of the two electrode structures is connected to a single bus, such that each array connects to two buses, one for each electrode structures. In this arrangement, each of the two buses connects to a separate connection pad of the substrate.
The electrically conductive traces that connect a bus with a connection can be fabricated of any electrically conductive material. The traces can be localized to the surface of the substrate, and can be optionally covered with an insulating layer.
Alternatively the traces can be disposed v.1 a second plane of the substrate.
Description of arrangements and design of electrically conductive traces on impedance measurement devices can be found in parent U.S. Patent Application 10/705,447, herein incorporated by reference for all disclosure on fabrication and design of electrically conductive trace on substrates.
Appropriate electronic connection means such as metal clips engaged onto the connection pads on the substrate and connected printed-circuit-boards can be used for leading the electronic connections from the connection pads on the devices to ea-ternal ~

electronic circuitn? (e.g. an impedance anal}-zer). Description of the design of cell-subst rate impedance devices and their manufacture can be found in U.S. Patent Application No. 10/705,447, herein incorporated by reference for all description and disclosure of the design, features, and manufacture of impedance device comprising electrode arrays.
Preferably the nonconducting substrate is planar, and is flat or approxi.mately flat.
Exemplary substrates can comprise many materials, including, but not limited to, silicon dioxide on silicon, silicon-on-insulator (SOI) wafer, glass (e.g., quartz glass, lead glass or borosilicate glass), sapphire, ceramics, polymer, fiber glass, plastics, e.g., polyimide (e.g.
Kapton, polyimide film supplied by DuPont), polystyrene, polycarbonate, polyvinyl chloride, polyester, polypropylene and urea resin. Preferably, the substrate and the surface of the substrate are not going to interfere with molecular binding reactions that will occur at the substrate surface. For cell-substrate impedance monitoring, any surface of the nonconducting substrate that can be exposed to cells during the use of a device of the present invention is preferably biocompatible. Substrate materials that are not biocompatible can be made biocompatible by coating with another material, such as polymer or biomolecular coating.
All or a portion of the surface of a substrate can be chemically treated, including but not limited to, modifying the surface such as by addition of functional groups, or addition of charged or hydrophobic groups.
In some embodiments a portion of the surface of the substrate is modified to display a biological molecule or organic compound of interest. Example of biological molecules or organic compounds that may be desired include those that are involved or may be involved in cell adhesion or cell spreading. The present invention includes a variety of biological molecules and organic compounds including a DNA
molecule, an RNA molecule, a protein, a polypeptide and oligopeptide and the like.
Molecules of particular interest may include an antibody, a ligand, a peptide, a receptor, one or more proteins or compounds present in the extracellular matrix (ECM), a molecule or compound capable of binding an integrin, a cell surface receptor and the like.
In some embodiments a peptide such as an argi.nine-glycine-aspartic acid (RGD) motif or some form thereof is the biological molecule. The present i_nvention also includes organic compounds that are agonists or antaRonists for a cell surface receptor involved in cell adhesion, includina integrins, _-rowth factor receptors. E-cadherins. N-cadherins.
PECAMS and ICAMS.
The modification may ultimately result in a coated surface or a surface that is coated at least in part with a biological molecule or organic compound. The coated portion may represent a first portion, a second portion and the like. The region may also be referred to as a test portion or a control portion depending on the assay.
Wlien utilizing wells with the present invention, an inner surface of the wells may be coated at least in part with a biological molecule or organic compound. The biological molecule or organic compound may interact with the substrate in any suitable fashion that would result in display of a biological molecule or organic compound. For example, the biological molecule or organic compound may be covalently bound, ionically bound, bound by Van der Waals forces and the like to the substrate or electrode.. The biological rriolecule or organic compound may be attached directly to the substrate or electrode or may be attached via an intermediate structure. As a nonlimiting example, a biological molecule or compound may be bound by incubating the molecule or compound in a suitable medium such as phosphate buffered saline (PBS), borate buffered saline (BBS) and the like. Alternatively, an intermediate such as poly-L-lysine may be applied to the substrate then attached to the biological molecule or organic compound.
Descriptions of electrode arrays used for impedance measurement that apply to the devices of the present invention are described in U.S. Patent Application No.
10/705,447,.herein incorporated by reference for all disclosure relating to electrode arrays (or structural units), electrode structures, electrode materials, electrode dimensions, and methods of manufacturing electrodes on substrates.
Preferred electrode arrays for devices of the present invention include arrays comprising two electrode structures, such as, for example, spiral electrode arrays and interdigitated arrays. In some preferred devices of the present invention, electrode arrays are fabricated on a substrate, in which the arrays comprises two electrode structures, each of which comprises multiple circle-on-line electrode elements, in which the electrode elements of one structure.altemate with the electrode elements of the opposite electrode s micture.

Preferablv. the electrode elements (or electrode structures) of an array of the present device of the present_invention are of approximately equal widths.
Preferably the electrode elements (or electrode structures) of an array of the present device of the present invention are greater than 30 microns in width, more preferably from about 50 to about 300 inicrons in width, and nlore preferably yet about 90 microns in width.
Preferably, the electrode elenients (or electrode structures) of an array of the present device of the present invention are approximately evenly spaced.
Preferably, the gap between electrode elements (or electrode structures) of an array of the present device of the present invention is less than 50 microns in width, more preferably from about 5 to about 30 microns in width, and more preferably yet about 20 microns in width.
A device of the present invention can include one or more fluid-impermeable receptacles which serve as fluid containers. Such receptacles may be reversibly or irreversibly attached to or formed within the substrate or portions thereof (such as, for example, wells formed as in a microtiter plate). In another exaniple, the device of the present invention includes microelectrode strips reversibly or irreversibly attached to plastic housings that have openings that correspond to electrode structure units located on the microelectrode strips. Suitable fluid container materials comprise plastics, glass, or plastic coated materials such as ceramics, glass, metal, etc. Descriptions and disclosure of devices that comprise fluid containers can be found in parent U.S. Patent Application No.
10/705,447, herein incorporated by reference for all disclosure of fluid containers and fluid container structures that can engage a substrate comprising electrodes for impedance measurements, including their dimensions, design, composition, and methods of manufacture.
In preferred embodiments, each electrode array on the substrate of a device of the present invention is associated with a fluid-impermeable container or receptacle, such as, for example, a well. Preferably, the device of the present invention is assembled to a bottomless; multiwell plastic plate or strip with a fluid tight seal. The device is assembled such that a single array of the substrate is at the bottom of a receptacle or well.
Preferably, each array of a device is associated with a well of a multiwell plate. In some preferred embodiments, a multiwell device for cell-substrate impedance measurement has "non-array" wells that are attached to the substrate but not associated with arrays. Such wells can optionally be used for performina non-impedance based assays, or for vielAina cells microscopically.
The design and assembly of multiwell impedance measurement devices is described in U.S. Patent Application No. 10/705,447_ and also in U.S. Patent Application No. 10/987,732, both herein incorporated by reference for disclosure of multiwell impedance measurement devices, including their design, composition, and manufacture.
A device of the present invention preferably has between 2 and 1,536 wells, more preferably between 4 and 384 wells, and even more preferably, between 16 and 96 wells, all or less than all or which are associated with electrode arrays.
In some preferred embodiments, commercial tissue culture plates can be adapted to fit a device of the present invention. Bottomless plates may also be custom-made to preferred dimensions. Preferably, well diameters are from about 1 millimeter to about 20 millimeters, more preferably from about 2 millimeters to about 8 inillimeters at the bottom of the well (the end disposed on the substrate). The wells can have a uniform diameter or can taper toward the bottom so that the diameter of the container at the end in contact with the substrate is smaller than the diameter of the opposing end.

Methods of Use The present invention also includes methods of using a device of the present invention that comprises fluid containers situated over electrode arrays to measure cell-substrate impedance. Such methods include: providing a device of the present invention optionally including wells or fluid chambers situated over electrode arrays, coating at least in part the substrate or optionally the wells with a biological molecule or organic compound, attaching an impedance analyzer to a device of the present invention, adding cells to one or more fluid containers of the device, and measuring impedance over one or more arrays of the device. Methods of.performing cell assays using impedance measurement devices can be found in parent U.S. Patent Application No.
10/987,732 and U.S. Patent Application 10/705,447, both herein incorporated by reference for all disclosure of methods of using impedance measurement devices, as well as in Sections D
and E of the present application.

Cell-Substrate Impedance Measurement Systems In another aspect, the present invention is directed to a cell-substrate impedance measurement svstem comprising a) at least one multiple-well cell-substrate impedance measuring device, in which at least two of the multiple wells comprise an electrode array at the bottom of the well and include a biolocrical molecule or or(yanic compound coating;
b) an impedance analyzer electronically connected to the multiple-well cell-substrate impedance measuring device; c) a device station capable of engaging the one or more multiple-well devices and comprising electronic circuitry capable of selecting and connecting electrode arrays within any of the multiple wells to the impedance analyzer;
and d) a software program connected to the device station and impedance analyzer to control the device station and perform data acquisition and data analysis from the iinpedance a.nalyzer.
In a cell-substrate impedance measurement system of the present invention, the impedance analyzer engages connection pads of one or more multi-well devices to measure iinpedance. In one embodiment of the above system, the impedance analyzer is capable of measuring impedance between 0.1 ohm and 105 ohm in frequency range of 1 Hz to 1 MHz. The impedance analyzer is preferably capable of measuring both resistance and reactance (capacitive reactance and inductive reactance) components of the inipedance. In a preferred embodiment of the above system, the impedance analyzer is capable of measuring impedance between 0.1 ohm and 103 ohm in frequency range of 100 Hz to 100 kHz.
A cell-substrate measurement system can be used to efficiently and simultaneously perform multiple assays by using circuitry of the device station to digitally switch from recording from measuring impedance over an array in one well to measuring impedance over an array in another well. In one embodiment of the above system, the system under software control is capable of completing an impedance measurement for an individual well at a single frequency within less than ten seconds. In another embodiment, the averaged time used by the system to complete an impedance measurement for an individual well at a single frequency is less than one second.

A multiple-well cell-substrate impedance measuring device in a system of the present invention can be any multiple-well cell-subst.rate impedance measuring device in which at least two of the multiple wells comprise an electrode array at the bottom of the well, and in which at least two of the multiple wells comprise an electrode array are individually addressed. In one embodiment of the above system, the multi-well device takes the form of a specialized microtiter plate which has microelectronic sensor arrays integrated into the bottom of the wells and a biological molecule or organic compound covalently or noncovelently bound thereto.
A device used in a system of the present invention, when connected to an impedance analyzer, can measure differences in impedance values that relate to cell behavior. For example, a cell-substrate impedance measuring device used in a system of the present uivention can measure differences in impedance values when cells are attached to the electrode array and when cells are not attached to the electrode array, or can detect differences in impedance values when the number, type, activity, adhesiveness, or morphology of cells attached to the electrode-comprising surface of the apparatus changes. In particular the present invention can detect adhesion of cells as well as cell spreading.
Preferred devices that can be part of a cell-substrate impedance monitoring system can be those described in U.S. Patent Application No. 10/705,447, and in U.S.
Patent Application No. 10/987,732, both herein incorporated by reference for disclosure of cell-substrate impedance monitoring devices that comprise electrode arrays, including disclosure of their design, composition, and manufacture. Preferred devices that can be part of a cell-substrate impedance monitoring system can also be those described in the present application.
Preferably a multi-well device of a system of tlie present invention comprises between 4 and 1,536 wells, some or all of which can comprise electrode arrays.
In some embodiments of the present invention, a device station can comprise one or more platforms or one or more slots for positioning one or more multiwell devices.
The one or more platforms or one or more slots can comprise sockets, pins or other devices for electrically comiecting the device to the device station. The device station preferably can be positioned in a tissue culture incubator during cell impedance measurement assays. It can be electrically connected to an impedance analyzer and computer that are preferably located outside the tissue culture incubator.

The device station comprises electronic circuitq that can cotinect to an impedance monitorinR device and an impedance analvzer and electronic switches that can sWitch on and off connections to each of the two or more electrode arrays of the rnultiwell devices used in the system. The switches of the device station are controlled by a software program. The software program directs the device station to coiuiect arrays of the device to an impedance analyzer and monitor impedance from one or more of the electrode arrays. During impedance monitoring, the impedance analyzer can monitor impedance at one frequency or at more than one frequency. Preferably, impedance naonitoring is performed at more than one time point for a given assay, and preferably, impedance is monitored at at least three time points. The device station can connect individual arrays of a device to an impedance analyzer to monitor one, some, or all of the arrays of a device for a measurement time point. The switches of the device station allow the selected 'uldividual arrays to be monitored in rapid succession for each desired monitoring time point. Each monitoring time point is in fact a narrow time frame (for example from less than one second to minutes) of measurement in the assay during which impedance monitoring is performed. In some preferred embodiments of the present invention, the device station software is programmable to direct irripedance monitoring of any of the wells of the device that comprise arrays at chosen time intervals.
The software of the impedance monitoring system can also store and display data.
Data can be displayed on a screen, as printed data, or both. Preferably the software can allow entry and display of experimental parameters, such as descriptive information including cells types, compound concentrations, time intervals monitored, etc.
Preferably, the software can also analyze impedance data. In preferred embodiments, the software can calculate a cell index (CI) for one or more time points for one or more wells of the multiwell device. In some preferred embodiments, the software can calculate a cell change index (CCI) from impedance measurements of one or more wells of the multiwell device. The software can preferably generate plots of impedance data and impedance values, such as but not limited to CI or CCI, with respect to time.
The softvvare may perform other analysis as well, such as calculate cell number from CI, generate dose-response curves based on impedance data, calculate IC values based on impedance values, and calculate kinetic parameters of cell orowth or behavior based on inipedance values and impedance value curves. The software of the impedance nionitoring system can also store and display analyses of the data. such as calculated impedance values and kinetic parameters derived therefrom, Data can be displayed on a screen, as printed data, or both.

C. Methods for Calculating Cell Index (CI) and Cell Change Index (CCI) Cell Index Based on the dependent relationship between the measured impedance, cell number (more accurately, the viable cell number, or attached cell number) and cell attachment status, it is possible to derive a so-called "cell number uidex" or "cell index"
from the measured impedance frequency spectra that provides a useful index for quantitating and comparing cell behavior in the impedance-based assays of the present invention. In some applications of the present invention, "cell index" in the present application is the same as "cell number index" in PCT Application No.
PCT/US03/22557,entitled "IMPEDANCE BASED DEVICES AND METHODS FOR
USE IN ASSAYS", filed on July 18, 2003 and in United States patent application No.
10/705,447,entitled "IMPEDANCE BASED DEVICES AND METHODS FOR USE IN
ASSAYS," Attorney Docket No. ACE-00101.P.1.1-US, filed on November 10, 2003., U.S. Patent Application No. 10/987,732, filed November 12, 2004, U.S. Patent application 10/705,447 and PCT Application No. PCT/US03/22557 are hereby incorporated by reference for the discussions and disclosures of cell index and cell number index they contain.
Various methods for calculating such a cell number index can be used, some of which are novel methods disclosed herein.
The present invention provides several methods of calculating cell index numbers for cells attached to two or more essentially identical arrays of a cell-substrate impedance device, where the cells are monitored for impeda.nce changes. In preferred embodiments of the present invention, the methods calculate cell index number with better accuracy than previous methods of calculating cell index for cells on two or more arrays of a cell-substrate monitorina device. In some preferred methods of the present invention, methods of calculatina a cell index rely on novel methods for calculatina the resistances of electrical traces leading to two or more essentially identical arrays. The present invention therefore also includes methods of calculating resistances of electrical traces leading to two or inore essentially identical arrays on a substrate.
By "essentially identical electrode arrays" or "essentially identical arrays' is meant that the dimensions and arrangement of electrodes, electrode structures, and electrode elements is the same for the referenced arrays. Thus, two essentially identical electrode arrays will have electrode structures of the same dimensions (length, width, thickness), where the electrode structures have the same number of electrode elements, and the arrangement of electrode structures and electrode elements in each array are the same. By arrangement is meant the distance between structures or elements (gap widtli), their physical position with respect to one another, and their geometry (angles, degree of curvature, circle-on-line or castellated geometries, etc.), including the same features of any electrode buses that may be connected to electrode structures or electrode elements.
Electrodesof essentially identical arrays also comprise the same materials.
For the purposes of calculating trace resistances and cell index number, a substrate can have any number of essentially identical arrays.
The following discussion provides novel methods of calculating cell index of cells adhered to arrays of a cell-substrate impedance monitoring device and novel methods for the calculation of the resistances of the electrical connection traces leading to two or more electrode arrays of a cell-substrate impedance monitoring device.
Impedance (Z) has two components, namely the resistance Rs and reactance Xs. Mathematically, the impedance Z is expressed as follows, Z=Rs+j Xs, (2) where jdepicting that for the (serial) reactance component Xs, the voltage applied over it is 90 degree phased-out from the current Qoing through it. For the (serial) resistance, the volta6e applied over it is in phase with the current going through it.

As it is well-l:noArn in electronic and electrical engineering, the impedance can also be expressed in tenns of parallel resistance Rp and parallel reactance Xp, as follows.

Z-RP*o Xp)/(Rp+j Xp), (3) where jI. Nevertheless, these expressions (serial resistance and serial reactance, or parallel resistance and parallel reactance) are equivalent. Those who are skilled in electrical and electronic engineering can readily derive one form of expression from the parameter values in the other expression. For the sake of clarity and consistency, the description and discussion in the present invention utilizes the expression.
of serial resistance and serial reactance. For simplicity, serial resistance and serial reactance are simply called resistance and reactance.
As described in US patent application no. 10/705,447, entitled "Impedance based devices and methods for use in assays", filed on November 10, 2003 and PCT
application number PCT/US03/22557, entitled "Impedance based devices and methods for use in assays", filed on July 18, 2003, both of which are herein incorporated by reference for disclosures relating to cell-substrate impedance monitoring, monitoring cell-substrate impedance for detection or measurement of change in impeda nce can be done by measuring impedance in any suitable range of frequencies. For, example, the impedance can be measured in a frequency range from about 1 Hz to about 100 MHz. In another example, the irnpedance can be_measured in a frequency range from about 100 Hz to .about 2 MHz. The iinpedance is typically a function of the frequency, i.e., the impedance values change as frequency changes. Monitoring cell-substrate impedance can be done either in a single frequency or multiple frequencies. If the impedance measurement is performed at multiple frequencies, then a frequency-dependent impedance spectrum is obtained - i.e., there is an impedance value at each measured frequency. As mentioned above, the impedance has two components - a resistance component and a reactance component. A change in either resistance component or reactance component or both components can constitute a change in impedance.
As described in the US patent application no. 10i705.447,entitled --Impedance based devices and methods for use in assays", filed on November 10, 2003 and PCT
application ~, ~) number PCT/LJ1S03/22557.entitled "Inipedance based devices and methods for use in assavs". filed on July 18. 2003, herein incorporated by reference for disclosure of methods of measuring electrical impedance, the method for the measurement of electrical (or electronic) impedance is achieved by , (1) applying a voltaae between or among said electrodes at a aiven frequency (or multiple frequencies, or having specific voltage waveform) and monitoring the electrical current through said electrodes at the fi=equency (or multiple frequencies, or having specific wavefonn), dividing the voltage amplitude value by the current amplitude value to derive the impedance value; (2) applying an electric current of a single frequency component (or multiple frequencies or having specific current wave form) tlirough said electrodes and monitoring the voltage resulted between or among said electrodes at the fiequency (or multiple frequencies, or having specific wavefonn), dividing the voltage amplitude value by the current amplitude value to derive the impedance value; (3) other methods that can measure or determine electric impedance. Note that in the description above of "dividing the voltage amplitude value by the current amplitude value to derive the impedaiice value", the "division"
is done for the values of current amplitude and voltage amplitude at same frequencies. As it is well-known in electrical and electronic engineering, in such calculations (e.g.
divisions mentioned above), the current amplitude and voltage amplitude are expressed in the form of complex numbers, which take into account of how big the current and the voltage are and what the phase difference between the sinusoidal waves of the current and the voltage is. Similarly, the impedance value is also expressed in a complex foim, having both resistance and reactance component, as shown in equations above.
As described in the US patent application no. 10/705,447, entitled "Impedance based devices and methods for use in assays", filed on November 10, 2003 and PCT
application number PCT/US03/22557,entitled "Impedance based devices and methods for use in assays", filed on July 18,. 2003, both incorporated herein by reference for disclosure relating to Cell Index or Cell Number Index, the measured cell-substrate impedance can be used to calculate a parameter termed Cell Index or Cell Number Index.
Various methods for calculating such a cell number index can be used based on the changes in resistance. or reactance when cells are attached to the electrode structures with respect to th cases no cells are attached to the electrode structures. The impedance (resistance and reactance) of the electrode structures with no cell attached but with sanle cell culture medium over the electrode structures is sometimes referred as baseline impedance. The baseline unpedance may be obtained by one or more of the follouing ways: (1) the impedance measured for the electrode structures with a cell-free culture medium inti-oduced into the well containing the electrode structures, wherein the culture medium is the same as that used for the impedance measurements for the condition where the cell attachment or spreading is monitored; (2) the impedance measured shortly (e.g.

minutes) after the cell-containing medium was applied to the wells comprising the electrode structures on the well bottom (during the short period after cell-containing medium addition, cells do not have enough time to attach to the electrode surfaces. The length of this short-period may depend on cell type and/or surface treathnent or modification on the electrode surfaces); (3) the impedance measured for the electrode structures when all the cells in the well were killed by certain treatment (e.g. high-temperature treatment) and/or reagents (e.g. detergent) (for this method to be used, the treatment and/or reagents should not affect the dielectric property of the medium wluch is over the electrodes).

In one example (A), the cell index or cell number index can be calculated by:
(Al) at each measured frequency, calculating the resistance ratio by dividing the resistance of the electrode arrays when cells are present and/or attached to the electrodes by the baseline resistance, (A2) finding or determining tlie maximum value in the resistance ratio over the frequency spectrum, (A3.) and subtracting one from the maximum value in the resistance ratio.
Using a mathematically formula, Cell Index is derived as Cell Index = maa (4) i=i,2-n' 'Where N is the number of the frequency points at which the impedance is measured. For example. if the frequencies used for the measurements are at 10 kHz. 25 kHz and 50 l:Hz, then N=' ). f~= 10 l:Hz. f= 25 kHz. f;= 50 kHz. R õ ( f,.) is the resistance (cell-substrate resistance) of the electrode arrays or electrode structures when the cells are present on the electrodes at the frequency f and Rh (f) is the baseline resistance of the electrode array or structures at the frequency f.
The cell index obtained for a given well reflects: 1) how many cells are attached to the electrode surfaces in this well, 2) how well cells are attached to the electrode surfaces in the well. In this case, a zero or near-zero "cell index or cell number index" indicates that no cells or very small number of cells are present on or attached to the electrode surfaces. In other words, if no cells are present on the electrodes, or if the cells are not well-attached onto the electrodes, R,,õ ( f,. ) is about the same as Rh ( f), leading to Cell Index =0. A higher value of "cell nuinber index" indicates that, for same type of the cells and cells under similar physiological conditions, more cells are attached to the electrode surfaces. In otlier words, under same physiological conditions, more cells attached on the electrodes, the larger the values RCeõ ( f. ) is, leading to a large value for Cell Index. Thus Cell Index is a quantitative measure of cell number present in a well. A higher value of "cell index" may also indicate that, for same type of the cells and same number of the cells, cells are attached better (for example, cells spread out more, or cell adhesion to the electrode surfaces is stronger) on the electrode surfaces.
Thus, for same number of the cells present in the well, change in a cell status will lead to a change in cell index. For example, an increase in cell ad.hesion or a cell spread leading to large cell/electrode contact area will result in an increase in R,,õ (f) and a larger Cell Index. On the other hand, a cell death or toxicity induced cell detachment, cell rounding up, will lead to smaller (f) and thus smaller Cell Index.

In another example (B), the cell number index can be calculated by:

(BI) at each measured frequency. calculating the reactance ratio by dividinR
the reactance of the electrode arrays when cells are present on and/or attached to the electrodes by the baseline reactance, (B2) findinQ or determining the maximum value in the reactance ratio over the frequency spectrum, (B3) and subtracting one from the maximum value in the resistance ratio.

In tl-iis case, a zero or near-zero "cell number index" indicates that no cells or very small number of cells are present on or attached to the electrode surfaces. A higher value of "cell number index" indicates that, for same type of the cells and cells under similar physiological conditions, more cells are attached to the electrode surfaces.
In yet another example (C), the cell index can be calculated by:
(C1) at each measured frequency, subtracting the baseline resistance from the resistance of the electrode arrays when cells are present or attached to the electrodes to determine the change in the resistance with the cells present relative to the baseline resistance;
(C2) then finding or determining the maximum value in the change of the resistance.
In this case, "cell-number index" is derived based on the maximum change in the resistance across the measured frequency range with the cells present relative to the baseline resistance. This cell index would have a dimension of olun.

In yet another example (D), the cell index can be calculated by:
(D1) at each measured frequency, calculating the magnitude of the impedance (eualing to ~ R.' +~i'.,' , where R. and X, are the serial resistance and reactance, respectively).
(D2) subtracting the ma'grutude of the baseline impedance from the magnitude of the impedance of the electrode arrays when cells are present or attached to the electrodes to determine the change in the ma'cnitude of the impedance with the cells present relative to the baseline impedance;
(D3) then fmding or determining the maximum value in the change of the mao-nitude of the impedance.

In this case, "cell-nuniber index" is derived based on the maximum change in the maQnitude of the impedance across the measured frequency range with the cells present relative to the baseline impedance. This cell index would have a dimension of ohm.
In yet another example (E), the index can be calculated by:
(El) at each measured frequency, calculating the resistance ratio by dividing the resistance of electrode arrays when cells are present or attached to the electrodes by the baseline resistance, (E2) then calculating the relative change in resistance in each measured frequency by subtracting one from the resistance ratio, (E3) then integrating all the relative-change value (i.e., summing together all the relative-change values at different frequencies).
In this case, "cell-number index" is derived based on multiple-frequency points, instead of single peak-frequency like above examples. Again, a zero or near-zero "cell number index" indicates that on cells are present on the electrodes. A
higher value of "cell number index" indicates that, for same type of the cells and cellsunder similar physiological conditions, more cells are attached to the electrodes.

In yet another example (F), the cell index can be calculated by:
(Fl) at each measured frequency, subtracting the baseline resistance from the resistance of the electrode arrays when cells are attached to the electrodes to determine the change in the resistance with the cells present relative to the baseline impedance; (here the change in the resistance is given by AR(f)- R,-,eu (.f )- Rs-ha.ccline (.fr ) for the frequency f. , R,-,,, and R,.-ho,.el11e are the serial resistances with the cells present on the electrode array and the baseline serial resistances; respectively);

(F3) analyzina the frequency dependency of the chanae of the resistance to derive certain parameters that can quantify such dependency. In one example. such parameters can be calculated as PAR(,, )]2 . In another example, such parameter can be calculated as IDR( f,_ ). The parameter(s) are used as cell index or cell number index.
In this case, "cell-number u7dex" is derived based on the analysis of the frequency spectrum of the change in the resistance. Depending how the parameters are calculated, the cell index may have a dimension of ohm.

In yet another example (G), the cell index can be calculated by:
(Gl) at each measured frequency, calculating the magnitude of the impedance (equaling to JR~.'" + X t.2 , where R, and X, are the serial resistance and reactance, respectively).
(G2) subtracting the magnitude of the baseline impedance from the magnitude of the impedance of the electrode arrays when cells are attached to the electrodes to determine the change in the magnitude of the impedance with the cells present relative to the baseline impedance; (here, the change in the magnitude of the impedance is given by AZ (f, )= ZCeõ (/ i)I -lZbaseline (.f; )I for the fi=equency Z,eõ ( f,~ )= R,-eeõ ( f. ) 2+ X.-~en ( f)~~ R,-cen and X,-eeõ being the serial resistance and reactance with the cells present on the electrode arrays, respectively, ZeGõ ( f. )I is the magnitude of the impedance of the electrode array with cells present on the electrode arrays, Zbaseline V) is the magnitude of the baseline impedance of the electrode array);
?5 (G3) analyzing the frequency dependency of the change of the magnitude of the impedance to derive certain parameters that can quantify such dependency. In one example, such parameters can be calculated as ~- In another example, such parameter can be calculated as ~ hZ( f, )I . The parameter(s) are used as cell index or cell nun7ber index.
In this case, "cell-number index" is derived based on the analysis of the frequency spectrum of the chanae in the magnitude of the impedance. Depending how the parameters are calculated, the cell index may have a dimension of ohn1.

As described in the US patent application no. 10/705,447, entitled "hnpedance based devices and methods for use in assays", filed on November 10, 2003 and PCT
application number PCTlUS03/22557,entitled "Inipedance based devices and methods for use in assays", filed on July 18,. 2003, and U.S. Patent Application No.
10/987,732, all herein incorporated by reference for disclosure of Cell Index or Cell Number Index and its calculation, there are different methods for calculating the parameter termed Cell Index or Cell Number Index from the measured cell-substrate impedance (resistance or reactance). Cell Index or Cell Number Index is a quantitative measure of cells in the wells under cell-substrate impedance measurement.
It is worthwhile to point out that it is not necessary to derive such a "cell number index" for utilizing the impedance information for monitoring cell conditions over the electrodes. Actually, one may choose to directly use measured impedance (e.g., at a single fixed frequency; or at a maximum relative-change frequency, or at multiple .20 frequencies) as an indicator of cell conditions. If measured impedance values are directly used for monitoring cell conditions, then resistance, or reactance or-both resistance and reactance can be used.
Still, deriving "cell index" or "cell number index" and using such index to monitor cell conditions may have advantages. There are several advantages of using "cell number index" to monitor cell growth and/or attachment and/or viability conditions.
First, one can compare the performance of different electrode geometries by utilizing such cell number index.

Secondly, for a given electrode geometry; it is possible to construct "calibration curve" for depicting the relationship between the cell number and the cell number index bv performing impedance measurements for different number of cells added to the electrodes (in such an experiment, it is important to make sure that the seeded cells have well-attached to the electrode surfaces). With such a calibration curve, when a new impedance measurement is performed, it is then possible to estimate cell number from the newly-measured cell number index.
Thirdly, cell number index can also be used to compare different surface conditions. For the same electrode geometry and same number of cells, a surface treatment given a larger cell number index indicates a better attachment for the cells to the electrode surface and/or better surface for cell attachment.
As shown above, for some methods of calculating cell index or cell number index, it is important to know the impedance (resistance and/or reactance) of the electrode structures with and without cells present on them. Based on the equation (1), the impedance of the electrode array (with or without cells present on the electrodes) is given by Zelectrode-array= Ztotal - Ztrace - Z.rwrtch (5) Where Z,s,,,;t,h is the impedance of electronic switch at its on stage, Zt,.aCe is the impedance of the electrical connection traces (or electrical conductive traces) on the substrate between the connection pads and the electrode buses, Ztotal is the total impedance measured at the impedance analyzer. By choosing electronic switches with good quality, it is possible to have all the electronic switches have a consistent on-impedance (mainly resistance). For example, the on=resistance of electronic switches can be about 3 ohni (+/- 10%) with the on reactance being negligible (for example, less than 0.2 ohm in the frequency range of interest). Thus, if the trace impedance is determined or calculated, then formula (5) can be used to calculate the impedance of the electrode arrays with or without cells present.

A method is invented in the present application to determine the impedance of electrical conductive (electrical connection) traces (mainly trace resistance, trace reactance is very small for the thin conductive film trace) based on the relationships among two or more essentially identical arrays on a cell-substrate impedance monitorinQ
device. In the following, the four electrode arrays A, B. C and D as indicated in Fiwre 1, are used to illustrate this method. The electrical reactance (serial reactance) of the electronic switches and the electrical reactance (serial reactance) of the electrical connection traces are small as compared with_the corresponding electrical resistances (serial resistances). Thus, we focus on the analysis of the resistance of the electrical connection traces. The impedance determined from the impedance analyzer does contain both resistance (serial resistance, R,a,a, ) and reactance (serial reactance).
For the electrode arrays A - D, the measured total resistance R,a,ar , the resistance ( R,,.QLe ) of electrical conductive (connection) trace, the switch resistance and the resistance ( Re_arra,, ) of the electrode array satisfy the following equations:

Re-arrar-A = R,a,al-A - R,race-A - R,,i,ch-A (6A) Re-arra,,-B = R,a,al-B - R,race-B - R,fch-B (6B) Re-arra,.-c = R,a,al-c - R,race-c - Rsw;,ch-c (6C) Re-arrav-D = R,a,al-D - R(race-D - R..i,ch-D (6D) With chosen electronic switches having consistent switch-on resistance, R,,,,;,c,,_A, R,,;,c,,_B , R,,,,;,c,,-c and R.,,;,ch-D have very similar values and can be assumed to be the same, R.,,,,;,c,, . Thus, in above equations, the known parameters are R,alal-A , R,o,al-B ~
R,a,al-c: ) and R,o,al-D ~ and R,~,r,ch-A ~ R.,,eh-B ~ R.,,ch-c and R. õheh-D
. and there are eight unknown parameters Re-array-A ~ Re-array-B 5 Re-array-c ~ and Re-array-D ) and Rn=ac=e-A 5 R,race-B
R,race_c and R,,.ace_D . It is impossible to solve these equations for the eight unknown variables from these four equations directly. Additional relationships between these variables are needed to solve for them. Each trace resistance ( R,rac=e-A , R,raca-B ) R,race-c and R,rac=e-D ) depends on the metal film type used, and the geometry of the trace such as the how many rectangular segments the trace has, the film thickness(es) of the segments, the width(s) of the segments, the length(s) of the segment(s). For example, n A_; (7) R, ~ L
?~ race-.4 - ,~ r *
d : -;
where N is the number of the se2nents of the trace-A, t,;-,, d4_; and L,q-; is the thickness, width and lenc-th of the i-th seament of the -traces for the electrode array A, and p is the resistivity of the thin fihii. The equation here applies to the film comprisinQ a single type of metal. The equation can be readily modified to be applicable to the film comprisina two or more metal nrpes (e.g. Qold film over chromium adhesion laver).
If the film thicl:ness is reasonably uniform (for eaanlple, less than 10% in thickness variation) across the substrate, then the relationship among the trace resistances is simply determined by the pre-determined geometrical shapes (e.g. the length, width of the segments). For example, it would be straightforward to calculate the ratio aA-,D
between the resistance of the electrically conductive traces for the electrode array A to the resistance of the electrically conductive traces for the electrode array D
as below, where the film thickness is assumed to be the same everywhere on these traces and the resistivity is also the same everywhere on these traces, ~ P LA_; ~ LA-;
* ~,7 =1 A-!
a = R,ruce_A _ i=1 tA-i U~A-i _ . (8) A-D R M L M L
n=ace-D ~P D-i D-i #d l=1 tD-; D-i ;-1 D-i Similarly, one can determine the ratio aB-D and ac-D based on the pre-determined geometrical relationships for the traces of the electrode arrays B, C and D.
Note that above equations can be similarly derived for the cases where the thin film in these traces comprises more than one metal type. Thus, based on the equalities R.,,,.;,ch-A - R.,";lcl,-B = R.,,,;,a,-c = Rsõ-,Yd,-D = R"õl;leh ~ (9A) Runc=e-A = aA-D o Rlrace-D ~ (9B) R,race-B = aB-D R1race-D ~ (9C) and Rlroce-C = ac-D * R,raee-D (9D) equations (6A)-(6D) can be re-written in the followina format:

Re-arrar-.; = Rioaal-A - aA-D ' Rirnce-D - "av,ncn (10A) Re-urrm,-B = RIaa!-B - aB-D' R,ruce-D - R.cxuch (l OB) Rc -urrm -( R,aml-(' - a('-D * Rvace-D - R,xaci, (1 OC) Re-arra,.-n = R,~,a/-D - R,raee-D - R,,hch-D (l OD) For equations (l0A) througll (10D), there are five unl:nown variables, Re_arra,_A , Re-arrar-B 3 Re-arrav-(' and Re-arrav-D and R,ro,e-D = Mathematically, these unk-iiown variables cannot be determined from these equations. Additional iuiformation is needed to solve for these variables Re_arra,,_A , Re-array-B 3 Re-orrrn,-(: 3 and Re-arrm,-D and Rlrac=e-D =

One approach is invented and described in the present invention. In this approach, same biological or chemical solutions or suspensions are applied to the electrode-arrays A through D. Because the electrode arrays A tlirough D have essentially identical electrode structures, the electrode array resistances Re-or.an-A 3 Re-arratl-B 5 Re_ar,.o),_c and Re-arrav-D should be of same, or very similar value for such a condition when all the electrode arrays are exposed to the same biological or chemical solutions or suspensions, i.e.: Re-array-A "' Re-array-B ~ Re-array-C.C "" Re-array-D . If we assume the averaged electrode array resistance is Re_orray , then these approximate relationship exists Re-array-A ~ Re-array-B ~ Re-arrm,-C "-, Re-array-D "' Re-arra)- . Thus, equations (10A - l OD) can be changed to the following:

Re-arrav R7alal-A - aA-D ' R,race-D - R.cwilch (11A) Re-arren, Ria,al-B - aB-D ' R,raee-D - R.s,,.;,eh (11B) Re_array R,a,a/-C - aC-D = R,race-D - Rswi,ch (11 C) Re-arrav R,a,al-D - R,race-D - R.,, ;,cn-D (11 D) Thus, we would need to fmd Rlrac=e-D and Re_arra,, that satisfy the above approximate equality as close as possible. One mathematical approach is to fmd R,race-D
and R,_arra, that would result in the minimum value for the following expression - an expression that quantifies the differences between the two sides of the approximate equali-n. in (1 lA, 11B, 11 C and 11D), -F(R,rtrc=e-D' Re-arrtn' ) - LRe-orrrm (R,oltd-.-I - aA-DR,racr-D - R.~,,Ic'r, )J 2 LRe-urrar -\R,am!-B - aB-DR,race-D - R.~ hch lJ , r l 2 LRe-arrar -\R,a,ar-C - aC-DR,ruc=e-D - R,'i,ch 1 T

- (RlalaI-D - R,ruce-D - R.,',,.;,Ch 2 (12) The expression F(R,race-D ~ Re-arrm ) is the sum of the squared-differences between the two-sides of the approximate equality in (1 lA, 11B, 11 C and 11D). The smaller F(R race_D , Re_orro,, the closer the two sides of the approximate equality (11 A, 11 B, 11 C
and 11D). Thus, values of R,ra,e_D and Re-arratthat result in the minimum value of F(R,,.ace_D , Re-arror ) should be determined. Mathematical approach involves in the calculation of the first order derivative of F(R,race-D, Re-arro, ) to R,roce-D and to Re-arroland let such first order derivatives equal to zero. The values of R,roce-D and Re-arra,- that result in zero for these first-order-derivatives are those that result in the minimum value of F(R,rac=c-D ~ Re-arro,, )= The first order derivatives are as follows:

a'F(Rlrace-D,Re-aaror )J _ 2 o aA-D ' LRe-array - \Rlo,ar-A - aA-DR,race-D -Rswllch !J+
a R,roce-D

2 o aB-D - [Re-arra>> - lRla,aI-B - aB-DRtrace-D - Rs~,ilch )J +
2 o aC-D 0 [Re-arrav - \Rla1a!-C - aC-D Rlrace-D - Rsu hch +
2 o LRe-arrar - \Rm,a!-D - Rlrace-D - R=,,,ch )J
=0; (13A) ~LF\Rlrace-D,Re-aarq~)J ( ll _ ? = [Re-arrar - \Rtnlal-A - aA-DR,race-D - Rs~,i,ch !J+
a Re-arrav 2 .
LRr-arrqr - (Rla,al-B - aB-r>R,race-D - R.,rch / l +
~ I I
. = LRe-arrm' - (Rraral-(' - aC=_DR,raee-D - R.o+=aeh )J

2 * lRe-arrm- (Rmla!-D - Rrrace-D - R.M'i,dr )J

=0. (13B) Equations (13A) and (13B) can be re-written as Re-arrm' 0 La.-I-D -r IXB_D + aC_D + 1]+ Rlrace-D 0 la.-1-D2 + aB_!)7 + a(.-D2 + 1,=
a.9-D o LRmlal-A - R., vilch J+ aB-D o LRlolal-B - Rs"=ilch J+

aC-D o LRralal-c - Rs~!ireh J+ LRlnral-D - Rsirilch J (14A) 4* Re-arrar + Rlrace-D * LaA-D + aB-D + aC_D + 1]=

[Rlnlal-A - Rswilch ~+ LRtolaf-B - Rswilch J+LR[olal-c - R.%wilch ~+ LRinlal-D
- R.cwilch ~
(14B) Thus, we can solve for R,,.ace-D as follows:

_ 4 = S, - Aõ = S, Rlrace-D (15) 49A,2 -Aõ =B12 where Aõ _IaA-D + aB-D + ac-D + 1] ;
A12 = [aA-D 2 + aB-D 2 + aC_D 2 + 1 ;

S1 = aA-D a LRlnlal-A - R.%N,ilch I+ aB-D ~ LRIala!-B - R.wilcb 1+
aC-D ~ LRlnlal-C.. - Rwilch J+ LRrolal-D - Rsvilch J~

B12 _ [aA_D + aB_D + aC_D +1];

S2 [Rrolal-A - 'Rilch J+ LRrntal-B - R.rx=ilclr )+ LRlnla!-C - R.M'ilch ]+
LRlnlal-D - Rswilch J' Thus, With the determined R,ra,_,D . the trace resistances of R,race_A, Rlrace-B ~ and Rlrace-C
can be calculated using equations (9B). (9C) and (9D). Furthermore, the electrode array resistance R, R R and Rc-crrcr-D can be calculated from the .-arra: -., ' c-arra=,-B ' e-arrm-C' measured resistance R,o,a,-n- R,,,,or-c and R,,,,respectivel y using equations (l0A), (lOB). (I OC) and (I OD).
T11us_ one aspect of the present invention is directed to a method of calculation of the resistances of the electrical connection traces s from the measured_ total resistances for two or more essentially identical electrode arrays, comprising the following steps:
(1) exposing the electrode arrays to the solutions havin-, same or similar solutions or suspensions;
(2) with an impedance analyzer or impedance measurement circuit, measuring the resistance (serial resistance) for each electrode array, such resistance being the sum of the resistance of electronic switches, the resistance of the electrical connection traces between the connection pads and the electrode structures (for example, between the connection pads and the electrode buses), and the resistance of the electrode array with the solutions or suspensions present;

(3) solving for the resistances of electrical connection traces using equation (15)and equations (9B), (9C) and (9D), noting in the calculation with equation (15), the geometrical relationships between the electrode arrays are used to determine the factor aA_D , aB_D and ac-o Another aspect of the present invention is directed to a method of calculating the resistance of the electrode arrays from the measured, total electrode resistances for two ro more essentially identical electrode arrays (such as, for example arrays A-D
in Figure 1) if the same or similar solutions or suspensions are added to be in contact with the electrode assays, comprising the following steps:
(1) exposing the electrode arrays to the solutions having same or similar solutions or suspensions;
(2) with an impedance analyzer or impedance measurement circuit, measuring the resistance (serial resistance) for each electrode array, such resistance being the sum of the resistance of electronic switches, the resistance of the electrical connection traces between the connection pads and the electrode structures (for example_ between the connection pads and the electrode buses) and the resistance of the electrode arrays with the solutions or suspensions present;
(3) solving for the resistances of electrical connection traces using equation (15) and equations (9B), (9C) and (9D), noting in the calculation with equation (15), the geometrical relationships between the electrode arrays are used to determine the factor a.9_o , aB_o and aC_o ;

(4) calculating the resistances of the electrode arrays using equations (10A, lOB, l OC and 10D) ).
In mairy applications, the solutions or suspensions (for example, cell suspension) applied to each electrode array may have different compositions. For exainple, cell suspensions of different cell numbers may be used so that the suspensions applied to each electrode array are quite different. Under such cases, the determination of the resistance of the electrode arrays with the cells present would require the determination of the resistance of the electrical connection traces by performing a "reference run"
or "calibration run" in which the electrode arrays are exposed to a same, reference solution.
From the "reference run", the resistances of the electrical connection traces can be determined. In a separate test, the electrode arrays are exposed to the solutions or cell suspensions of interest and the resistances for the electrode arrays under such conditions are measured with an impedance analyzer or impedance measuring circuit. The resistance of the electrode arrays with such cell suspensions present can be determined (or continuously determined) from the measured resistance by subtracting the sum of the resistance of the electronic switches and the resistance of the electrical connection traces for corresponding electrode arrays from the measured resistances.

Thus, another aspect of the present invention is directed to a method of calculatina the resistance of the electrode arrays from the total electrical resistances measured at an impedance anah,zer for essentialh~ identical electrode arrays (such as electrode arrays A-D in Figure 1 used as an example) if different solutions or suspensions of interest are applied to the electrode assays; comprising the folloNAring steps:

(1) exposinQ ttie electrode arravs to the solutions having same or similar solutions or suspensions (reference solutions);
(2) with an impedance analyzer or impedance measurement circuit, measuanQ the resistance (serial resistance) for each electrode array, such resistance beinc, the sum of the resistance of electronic switches. the resistance of the electrical com7ection traces between the connection pads and the electrode structures (for example, between the connection pads and the electrode buses) and the resistance of the electrode arrays with the reference solutions present;
(3) solving for the resistances of electrical connection traces using equation (15) and equations (9B), (9C) and (9D), noting in the calculation with equation (15), the geometrical relationships between the electrode arrays are used to detennine the factor aA-o , aB-p and aC-o ;

(4) applying the solutions or suspensions of interest to each electrode array;
and with an impedance analyzer or impedance measurement circuit, measuring the resistance (serial resistance) of each electrode array, such resistance being the sum of the resistance of electronic switches, the resistance of the electrical coiuiection traces between the connection pads and the electrode structures, the resistance of the electrode arrays with the solutions or suspensions of the interest present, (5) Calculating the resistance of the electrode arrays using equations (l0A), (lOB), (10C) and (10D) by subtracting the electronic switch resistances and the resistances of electrical connection traces from the measured resistances in the step (4).

Note that in above method, the steps of exposing the electrode arrays to reference solutions for the determination of the resistances of electrically conductive traces (step (1), (2) and (3)) may be performed before or after the steps of applying the solutions or suspensions of interest to the electrode arrays and measuring the total electrical resistance (step (4)). For example, step (4) may be performed first. After that, the solutions or suspensions of the interest may be removed from the electrode array. The reference solutions can then be added to the electrode arravs (step (1)). Step (2) and step (3) can be then performed to determine the resistances of electrical connection traces.
Finally, Step (5) can be done.
in another approach, step (1) and (2) can be performed allead of step (4).
Another aspect of the present invention is directed to a method of detemlining the resistance of the electrode arrays with the cells present for a cell-based assay based on the total electrical resistance measured at an impedance analyzer for essentially identical electrode arrays. In this method, the electrode arrays are exposed to a same, reference solution (for exaniple, a same cell culture medium that does not contain any cells) and electrical measurement is conducted to determine the resistance of electrical connection traces. With the resistances of the electrical connection traces determined, electrical resistances of the electrode arrays with cell suspensions added to electrode arrays can be calculated from the total electrical resistances measured at an impedance analyzer. Such total electrical resistance would include the resistance of the electrode arrays with.cells present, the resistance of electronic switches and the resista.nce of electrical connection traces. The metllod comprises following steps (1) exposing the electrode arrays to the solutions having same or similar solutions or suspensions (reference solutions);
(2) with an. impedance analyzer or impedance measurement circuit, measuring the resistance (serial resistance) for each electrode array, such resistance being the sum of the resistance of electronic switches, the resistance of the electrical connection traces between the connection pads and the electrode structures (for example, between the connection pads and the electrode buses) and the resistance of the electrode arrays with the reference solutions present;
(3) solving for the resistances of electrical connection traces using equation (15) and equations (9B), (9C) and (9D), noting in the calculation with equation (15), the geometrical relationships between the electrode arrays are used to determine the factor aA_o , aB-D and ac-o ;

(4) applying the cell suspensions of interest to each electrode array; and with an impedance analyzer or impedance measurement circuit measuring the resistance (serial resistance) of each electrode arrav, such resistance being the sum of the resistance of electronic s-witches_ the resistance of the electrical connection traces between the connection pads and the electrode structures.
the resistance of the electrode arrays with the cell suspensions of the interest present.
(5) Calculating the resistance of the electrode arrays using equations (10A), (l OB), (I OC) and (l OD) by subtracting the electronic switch resistances and the resistances of electrical connection traces from the measured resistances in step (4).

Note that in above method, the steps of exposing the electrode arrays to reference solution for the determination of the electrical resistance of electrically conductive traces (step (1), (2) and (3 ))) may be performed before or after the steps of applying the solutions of interest or cell suspensions of interest to the electrode arrays and measuring the total electrical resistance (step (4)). For example, step (4) may be performed first, followed by steps (1) and (2). In one approach, after step (4), the cell suspensions of the interest may be removed from the electrode array. Then reference solutions can be added to the electrode arrays. In another approach, after step (4), the cells are all lysed with some cell lysis solutions so that the electrodes are exposed to the same, reference solutions for the measurement and calculation of step (2) and (3). And then, step (5) is performed to determine the electrical resistance of electrode arrays with the cell suspensions of interest present.

The determination of the resistances of the electrical conductive traces for the electrode arrays that essentially identical electrode arrays may be, or may not be, part of the monitoring of cell-substrate impedance for cell-based assays. It depends on how the impedance data (measured at a single frequency or multiple frequencies, measured at multiple tune points) of the electrode arrays is analyzed.
In some assays, one is interested in the relative change in the resistance or impedance of the electrode arrays with the cells present relative to the baseline resistance or impedance. For such cases, it is preferred to determine the resistance (or impedance) of the electrode arrays from the totaL measures resistance (or impedance) by subtracting the resistance of the electrical conductive traces and the resistance of electronic svvitches.

Thus. determination of the resistaiices or impedance of the electrically conductive traces may be required.
In some other assays, one is interested in the absolute changes in the resistance (or impedance) of the electrode arrays with cells present relative to the baseline resistance (or impedance). In these cases, one can directly subtract the measured resistance or impedance for the baseline condition from the measured resistance or impedance for the condition that the cells are present on the electrode arrays. The contribution of the resistance (or impedance) of the electronic switches and the resistance (or impedance) of the electrically conductive traces to the total measured resistance (or impedance) values is cancelled out in such subtractions. Thus, there is no need for determining the resistances of the electrically conductive traces.
In some assays, one is interested in calculating the Cell Index or Cell Number Index based on the monitored impedance values. Depending on which method is used for calculating the Cell Index, it may, or may not, be necessary to determine the resistances of the electrically conductive traces. For example, for the Cell Index calculation method (A) described above, the resistances of the electrically conductive traces are needed, in order to remove the effect of the resistance of the electrically conductive traces on the analysis of the relative change of the resistance or impedance.
In anotlier example, for the Cell Index calculation method (F) described above, there is no need to determine the resistances of the electrically conductive traces since the effect of the resistance of the electrically conductive traces is canceled out in the calculations.
The monitoring of the cell-substrate impedance may be or may not be based on the change with respect to the baseline impedance (or resistance). For example, a cell-based assay is performed to assess the effect of a test compound on the cells.
One method in performing such an assay is by monitoring of the cell-substrate impedance and deterrriining the change in the cell-substrate impedance before and after the addition of the test compound to the cells. The monitoring of cell-substrate unpedance can be performed at a sinale frequency point or multiple frequency points, at a single time point or multiple time points after drug addition. For example, the impedan ce is first measured at a single frequency or multiple frequencies for the electrode arrays with the cells present jus-L before addition of test compound. The test compound is then added to the cells. The impedance is then measured asain at the sanie single frequency or multiple frequencies for the electrode arrays with the cells after the addition of test compound.
Such post-compound addition measurement may be performed for many time points continuously in a regular or uregular time intervals. The chanae in the cell-substrate impedances can be deterrnined or quantified by subtracting the impedance(s) (resistance and/or reactance) measured before addition of the test cotnpound from the impedance(s) (resistance and/or reactance) measured after addition of the test compound. If the measurement is done at multiple frequencies, a single parameter or multiple parameters may be further derived for each time point after compound addition based on the calculated change in the cell-substrate impedances. Such parameters are used to quantify the cell changes after compound addition. Such approaches can be used further to analyze the responses of the cells to a test compound at multiple concentrations to derive dose-dependent response curves.

Normalized Cell Index, Delta Cell Index A "Normalized Cell Index" at a given time point is calculated by dividing the Cell Index at the time point by the Cell Index at a reference time point. Thus, the Normalized Cell Index is 1 at the reference time point. Normalized cell index is cell index nomzalized against cell index at a particular time point. In most cases in the present applications, normalized cell 'uzdex is derived as normalized relative to the time point immediately before a compound addition or treatment. Thus, normalized cell index at such time point (immediately before compound addition) is always unit one for all wells. One possible benefit for using such normalized cell index is to remove the effect from difference in cell number in different wells. A well having more cells may produce a larger impedance response following compound treatment. Using norinalized cell index, it helps to remove such variations caused by different cell numbers.
A "delta cell index" at a given time point is calculated by subtracting the cell index at a standard time point from the cell index at the given time point.
Thus, the delta cell index is the absolute change in the cell index from an initial time (the standard time point) to the measurement time.

Cell Chanae Index The time-dependent cellular response (including cvtotoxicity response) may be analyzed bv deriNIr:ng parameters that directly reflect the changes in cell status. For example, tirne dependent celluler response may be analyzed by calculating the slope of change in the measured impedance responses (that is equivalent to the first order derivative of the impedance response with respect to time, impedance response here can be measured impedance data or derived values such as cell index, normalized cell index or delta cell index). In another example, the time-dependent cellular responses (including cytotoxicresposnes) responses may be analyzed for their higher order derivatives with respect to time. Such high order derivatives may provide additional information as for how cells responding to different compounds and as for the mechanisms of compound action.
As an example, we describe how one can to derive a parameter, called Cell Change Index, based on the real time, quantitative information (i.e., cell index, CI) about biological status of cells in the wells provided from RT-CES system. This new parameter, Cell Change Index (CCI), can effectively link time dependent cell index I with cell status, is calculated as, CCI(t) = dCI(t) (5) CI(t)=dt Thus CCI is the normalized rate of change in cell index. CCI values can be used to quantify the cell status change. For cells in an exponential growth under regular cell culture condition, the cell index determined by a cell-substrate impedance moiutoring system described herein is expected to be a proportionate measure of the cell number in the well since the cell morphology and average extent of cell adhesion to the electrode surfaces among the whole cell population do not exhibit significant changes over time.
Thus, the cell index (CI) increase with time following an exponential function, such that CI(t)=CI(0)*2D7' (6) ,here DT is the cell doublin, tinie. For such exponential growth culture.
CCI(t) is a constant Rivino CCI (~) = 0.69~ N~ 0_7 (7) DT DT

Thus, several types of CCI(t) can be classified as:

(1) If CCI is about 0.7/DT, cell index increases in the same rate as that expected for an exponential growth of the cells.
(2) If CCI 0.7/DT, cell index increases faster than that expected for an exponential growth (or log growth) of the cells. This indicates that cells may grow faster than regular exponential growth, or cells may exhibit some morphology change (e.g. cell spreading out or adhering better to the electrode surfaces), leading to large impedance signal, or both of above effects, or there may be other cell behaviors occurring particular to the assay or culture conditions.
(3) If CCI is more than zero but somewhat smaller than 0.7/DT, then cell index increases in the rate slowed than that expected for an exponential growth.
This indicates that cell growth rate may be slowed down relative to exponential growth, or cell growth may be somewhat inhibited by chemical compounds added to the culture media or by other cell culture parameters, or that certain populations of cells are dying off and detaching from the electrode surfaces, or there nlay be other cell behaviors occurring particular to the assay or culture conditions.
(4) If CCI is about zero, then cell index shows a near constant value. This may indicate that the cell growth is nearly-completely inhibited. For example, all the cells are arrested at certain points of cell cycle and are not progressing further. Or, this may indicate that the number of cells dying off in the culiure is nearly as the number of newly-divided cells. Alternatively this may indicate that cells reach stationary phase of cell culture. A.lternativelv this mav- indicate that number of cells are above the detection upper limit of the cell-substrate impedance monitoring system. There is also the possibility of other cell behaviors occurring particular to the assay or culture conditions.
(5) If CCI is negative, then the cell index is decreasulg with time, showing the cells losing attachment to the electrode surface or changing their morphology.

(6) If CCI is very negative, then the cell index decreases rapidly with time, showing that either cells lose attachment to the electrode surfaces quickly or cells change their morphology very quiclcly.

D. Methods for performing real=time cell-based.assays The present invention provide cell-based assays that can be performed in real time to assess cell proliferation, cell growth, cell death, cell morphology, cell membrane propei-ties (for exainple, size, morphology, or composition of the cell membrane) cell adhesion, cell spreading and/or cell motility. Thus the assays can be cytotoxicity assays, proliferation assays, apoptosis assays, cell adhesion assays, cell activation or stimulation assays, anti-cancer compound efficacy assays, receptor-ligand binding or signal transduction analysis, assays of cytoskeletal changes, assays of cell structural changes (including but not limited to, changes in cell membrane size, morphology, or composition), cell quantification, cell quality control, time-dependent cytotoxicity profiling, assays of cell differentiation or de-differentiation, detection or quantitation of neutralizing antibodies, specific T-cell mediated cytotoxic effect assays, assays of cell adhesivity or spreading, assays of cell-cell interactions, analysis of microbial, viral, or environmental toxins, etc.
The assays are real-time assays in the sense that cell behavior or cell status being assayed can be assessed continuously at regular or irregular intervals. Cell behaviors, cell responses, or cell status can be assayed and the results recorded or displayed within seconds to minutes of their occurrence. The cell response during an assay can be monitored essentially continuously over a selected time period. For example, a culture can be monitored every five to fifteen minutes for several hours to several days after addition of a reagent. The interval between impedance monitorins, whether impedance monitorinQ is perfomled at regular or irreaular intervals, and the duration of the impedance monitorinQ assay can be determined by the experimenter.
Thus, the cell-based impedance assays of the present invention avoid inadvertently biased or misleadina evaluation of cell responses due to the time point or time points chosen for samplino, or assayinc, the cells. In addition, the assays do not require sampling of cell cultures or addition of reaQents and thus eliminate the inconvenience, delay in obtaining results, and error introduced by many assays.
Descriptions of cell-substrate monitoring and associated devices, systems and methods of use have been provided in United States provisional application number 60/379,749, filed on July 20, 2002; United States provisional application number 60/435,400, filed on December 20, 2002; United States Provisional application 60/469,572, filed on May 9, 2003, PCT application number PCT/US03/22557,entitled "Impedance based devices and methods for use in assays", filed on July 18, 2003; PCT
application number PCT/US03/22537,entitled "Impedaiice based apparatuses and methods for analyzing cells and particles", filed on July 18, 2003; United States patent application number 10/705,447,entitled "Iinpedance based devices and methods for use in assays", filed on November 10, 2003; U.S. Patent Application No. 10/987,732 United States patent application numberl0/705,615,entitled "Impedance based apparatuses and methods for analyzing cells and particles", filed on November 10, 2003, all incorporated herein by reference for their disclosure of cell-substrate impedance devices, systems, and methods of use. Additional details of cell-substrate impedance monitoring technology is furtlier disclosed in the present invention.
In brief, for measurement of cell-substrate or cell-electrode impedance using the technology of the present invention, cell-substrate impedance monitoring devices are used that have microelectrode arrays with appropriate geometries fabricated onto the bottom surfaces of wells such as microtiter plate wells, or have a similar design of havinc, multiple fluid containers (such as wells) having electrodes fabricated on their bottom surfaces facinc, into the fluid containers. Cells are introduced into the fluid containers of the devices, and make contact with and attach to the electrode surfaces. The presence, absence or chanae of properties of cells affects the electronic and ioni.c passage on the electrode sensor surfaces. Measuring the impedance bet ,e'n or amona electrodes provides important information about biological status of cells present on the sensors.
vWhen there are changes to the bioloaical status of the cells analoaue electronic readout signals can be measured automatically and in real time, and can be converted to digital signals for processing and for analysis.
Preferably, cell-substrate impedance assays are performed using a system of the present invention that comprises a device of the present iuivention, an impedance monitor, a device station that comprises electronic circuitry and engages the device and the impedance analyzer, and a software program that controls the device station and records and analyzes impedance data.
Using a system of the present invention, a cell index can optionally be automatically derived and provided based on measured electrode impedance values. The cell index obtained for a given well reflects: 1) how many cells are attached to the electrode surfaces in this well, and 2) how well (tightly or extensively) cells are attached to the electrode surfaces in this well. Thus, the more the cells of same type in similar physiological conditions attach the electrode surfaces, the larger the cell index. And, the better the cells attach to the electrode surfaces (e.g., the cells spread-out more to have larger contact areas, or the cells attach tighter to electrode surfaces), the larger the cell index.
In another aspect of the present invention, a method is provided for performing cell-based assays, comprising: a) providing a cell-substrate impedance monitoring device of the present invention that comprises two or more electrode arrays, each of which is associated with a fluid container of the device and coated at least in part with a biological rnolecule or organic compound; b) attaching the device to an impedance monitor; c) introducing cells into one or more fluid containers of the device; and d) monitoring cell-substrate impedance of at least one of the fluid containers that comprises an electrode array and cells. Preferably, impedance is monitored from the at least one fluid container to obtain impedance measurements at at least three time points. Preferably, impedance measurements or impedance values derived from impedance measurements from at least three time points are plotted versus time to generate one or more impedance curves for the one or more fluid containers.

In a related aspect of the present invention, a method is provided for performing cell-based assays in an impedance-monitoring system, comprising: a) providing a cell-substrate impedance monitoring system of the present invention that comprises a device having two or more electrode arrays, each of which is associated with a well of the device and coated at least in partwith a biological molecule or organic compound; b) introducing cells into one or more wells of the device; and c) monitoring cell-substrate impedance of at least one of the wells that coniprises an electrode array and cells.
Preferably, impedance is monitored from the one or more wells of the device to obtain impedance measurements at at least three time points. Preferably, impedance measurements or impedance values derived from impedance measurements from at least three time points are plotted versus time to generate one or more impedance curves for the one or more wells.
The method can be used to assay cell status, where cell status includes, but is not limited to, cell attachment or adhesion status (e.g. the degree of cell spread, the . 15 attachment area of a cell, the degree of tightness of cell attachment, cell morphology) on the substrate including on the electrodes, cell growth or proliferation status; number of viable cells and/or dead cells in the well; cytoskeleton change and re-organization and nuinber of cells going through apoptosis andlor necrosis. The cell-based assays that be perfonned with above methods include, but are not limited to, cell adhesion, cell apoptosis, cell differentiation, cell proliferation, cell survival, cytotoxicity, cell morphology detection, cell quantification, cell quality control, time-dependent cytotoxicity profiling, IgE-mediated cell activation or stimulation, receptor-ligand binding, viral and bacterial toxin mediated cell pathologic changes and cell death, detection and quantification of neutralizing antibodies, specific T-cell mediated cytotoxic effect, and cell-based assays for screening and measuring ligand-receptor binding.
In preferred embodiments of this aspect of the present invention, cells are added to at least two fluid containers of a device, each of which comprises an electrode array, a biological molecule coatincy or oraanic compound coating, and impedance is monitored from at least two wells that comprise cells and an electrode array.
The cells used in the assay can be primary cells isolated from any species or cells of cell lines. Primary cells can be from blood or tissue. The cells can be engineered cells into which nucleic acids or proteins have been introduced. In some embodiments_ different cell types are added to different wells and the behavior of the cell types is compared.
An impedance monitoring assay can be from minutes to days or even weeks in duration. Preferably, impedance is nlonitored at three or more time points, although tlus is not a requirement of the present invention. Impedance can be monitored at regular or irregular time intervals, or a combination of irregular and regular tnne intervals. In one embodiment of a cell-based impedance assay, the cell-substrate impedance is monitored at regular time intervals. In some embodiments of the present invention, impedance is monitored at irregular intervals and then at regular intervals during a particular time window of the assay. Impedance can be monitored at one frequency or at more than one frequency. For example, in some preferred embodiments, impedance is monitored over a range of frequencies for each time point at which impedance is monitored.
Preferably, impedance is monitored at at least one frequency between about 1 Hz and about MHz, more preferably at at least one frequency between about 100 Hz and about 21VIHz.
In yet another aspect, the present invention provides a method for performing real-time cell-based assay investigating the effect of a compound on cells, comprising: a) providing an above described system; b) seeding the cells to the wells of multiple-well devices; c) adding a compound to the wells containing cells; d) monitoring cell-substrate impedance before and after adding the compound at a regular or irregular time interval;
wherein the time dependent impedance change provides information about time dependent cell status before addition of the compound and about time dependent cell status under the interaction of the compound. Information about cell status includes, not limited to, cell attachment or adhesion status (e.g. the degree of cell spread, the attachment area of a cell, the degree of tightness of cell attachment, cell morphology) on the substrate including on the electrodes, cell growth or proliferation status; number of viable cells and/or dead cells in the well; cytoskeleton change and re-organization and number of cells going through apoptosis and/or necrosis. Information about cell status may also include any compound-cell interaction leading to any change to one or more of above cell status indicators. For example, if the compound binds to a receptor on the cell surface and such binding leads to a change in cell morphology, then the binding of compound to the receptor can be assayed by the monitored cell-substrate impedance. The cell-based assays that be performed with above methods include, but not limited to, cell adhesion, cell apoptosis, cell differentiation, cell proliferation, cell survival, cytotoxicity, cell morphology detection, ce11 quantification, cell quality control, time-dependent cytotoxicity profiling, IQE-mediated cell activation or stimulation, receptor-ligand binding, viral and bacterial toxin mediated cell pathologic chanQes and cell death, detection and quantification of neutralizing antibodies, specific T-cell mediated cytotoxic effect, cell-based assay for screening and measuring ligand-receptor binding.
In one embodiment of the above cell-based assay, the cell-substrate impedance is monitored at regular time intervals. In exemplary embodirnents, the impedance is measured at a regular 2 hour, 1 hour, 30 min or 15 min time interval before and after adding the compound. In the present application, a real-time assay means that one can perform the measurement on cell-substrate impedance with various time resolutions, for example, measurement taking place at a longer time interval such as everyhour or every two hours, or at a shorter time interval every minute or a few minutes. Real-time assay does not mean that the measurements are provided in a continuous, uninterrupted fashion.
In another word, real-time assay does not mean that the measurements are performed at every single moment.

D.l. Cell proliferation assays The present invention provides methods for performing cell proliferation assays.
In these assays, an increase in monitored impedance is indicative of an increases cell number. The impedance measurements or impedance values derived from impedance measurements can be plotted versus time to obtain growth curves for cells growing in a fluid container of a cell-substrate nlonitoring device of the present invention.
The present invention provides a method of generating at least one cell growth curve, comprising: providing a device of the present invention having two or more electrode arrays, each of which is associated with a fluid container of the device;
attaching the device to an impedance analyzer; addin~ cells to one or more fluid containers of the device; monitoring impedance from the one or more fluid containers to obtain impedance measurements at three or more time points after adding the cells to the one or fluid containers; and plotting the impedance measurements or values for the three or more time points versus time to generate at least one growth curve for the cells in the one or more fluid containers.
The present invention also provides a method of generating at least one oTowth cunJe using a system of the present invention, where the system includes a multi-well cell-substrate unpedance monitoring device, an impedance analyzer, a device station, and a software program. The method includes; providing a multi-well cell-substrate impedance measuring system; adding cells to one or more wells of the system;
monitoring impedance from the one or more wells to obtain impedance measurements at tliree or more. time points after adding cells to the one or more wells; and plotting impedance measurements orimpedance values for the three or more time points versus time to generate a growth curve for the cells in the one or more wells.
Preferably, using a device or system of the present invention, impedance is monitored at four or more time points, in which at least one of the four or more time points is measured from a fluid container prior to adding cells to the fluid container.
Preferably, impedance is monitored at regular or irregular time intervals for an assay period of from minutes to days. In many cases, proliferation assays can be performed by monitoring impedance for a period of between several hours and several days.
It is preferable to perform replicate proliferation assays in which more than one fluid container is seeded with same number of cells of the same type. In this case, a plot can optionally be generated by plottuig averaged impedance measurements of values at assayed time points for replicate wells versus time. Preferably, a standard deviation for the averaged values is also calculated.
A growth curve can be generated by plotting impedance measurements versus time, or by plotting cell index values that are calculated froni impedance measurements, such as normalized cell index values or delta cell index values versus time.
The impedance measurement or cell index axis (typically the y-axis) can optionally.use a log scale.
An impedance value can be any indices of impedance derived from impedance measurement, including, as nonlimiting examples, a cell index, a normalized cell index or a delta cell index. In certain embodiment, impedance value can also be a"ra'W' measured or monitored impedance value. Cell index (including normalized and delta cell index) can be a useful value for plottinc, srowth curves, as it relates impedance measurements to cell number. For cell Qrowth curves, a delta cell index for a given time point can be derived by subtractina the cell index at a baseline point, such as a time poult after cell attacliment and just before log phase growth, from the cell index measurement at the given time point. Preferably, determinations of impedance values and generating growth curves based on iinpedance measurements or values can be performed by software, and preferably by software that interfaces directly with the impedance analyzer.
For example, where the growth assays are performed by a system of the present invention, impedance values (wllere used) can be measured or derived or calculated and growth curves generated by a software program that controls and receives data from the impedance analyzer.
A growth curve generated from impedance measurements or cell index values (including nomialized cell index values and delta cell index values) can optionally be used to calculate one or more kinetic parameters of cell growth or behavior.
For example, a growth curve can be used to calculate the length of a lag phase, cell attachment time, cell attachment rate, or a cell doubling time.

Conzparing Growth Curves of Two of More Cell Types Two or more cell types can be seeded to separate wells in a proliferation assay using the methods of the present invention to generate growth curves of the two or more cell types. The growth curves or kinetic parameters derived from the growth curves of the cell types can be compared.
In this aspect, the invention includes a method of generating growth curves for at least two cell types, comprising: providing a device of the present invention having two or more electrode arrays, each of which is associated with a fluid container of the device;
attaclung the device to an impedance analyzer; adding cells of two or more cell types to two or more fluid containers of the device, in which at least one of the two or more fluid containers receives one cell type and at least one other of the two or more fluid containers receives a different cell type, to provide two or more fluid containers comprising two or more different cell types; monitoring impedance from the two or more fluid containers comprisulg different cell types at three or more time points after adding the two or more cell t\pes to tlie two or more fluid containers; and plotting impedance measurements or impedance values for the three or more time points versus time to aenerate a growth curve for the two or more cell types.
The present invention also provides a method of generating at least one growth curve using a system of the present invention, where the system includes a multi-well cell-substrate impedance monitoring device, an impedance analyzer, a device station, and a software program. The metliod includes; providing a multi-well cell-substrate impedance measuring system; adding cells of two or more cell types to two or more wells of the device, in which at least one of the two or more wells receives one cell type and at least one other of the two or more wells receives a different cell type, to provide two or more wells comprising two or more different cell types; monitoring impedance from the two or more wells comprising different cell types at three or more time points after adding the two or more cell types to the two or more wells; and plotting impedance measurements or impedance values for the three or more time points versus time to generate a growth curve for the two or more cell types.
As, described above for proliferation assays, impedance is preferably monitored using an impedance monitoring device or system at four or more time points,.
in which at least one of the four or more time points is measured from fluid containers prior to adding cells to the fluid containers. Preferably, impedance is monitored at regular or irregular time intervals for an assay period of from minutes to days, for example, for a period of between several hours and several days.

It is preferable to perform replicate proliferation assays in which more than one fluid container is seeded with same number of cells of the same type. In this case, a plot can optionally be generated by plotting averaged impedance measurements of values at assayed time points for replicate wells versus time. Preferably, a standard deviation for the averaged values is also calculated.

Growth curves for different cell types can be generated as described above.
Impedance or impedance values, such as cell index, normalized cell index, or delta cell index can be plotted versus time. The impedance measurement or cell index axis (typically the y-axis) can optionally use a log scale.

A growrth curve generated from impedance measurements or cell index values (includina normalized cell index values and delta cell index values) can optionally be used to calculate one or more kinetic parameters of cell growth or behavior.
For example;
a g-ro-Mh curve can be used to calculate the duration of a lag phase, cell attachment time, cell attachment rate, or a cell doubling time.
Preferably, the growth curves of the two or more different cell types, or kinetic parameters derived from the growth curves of the two or more different cell types, are compared to determine differences among the cell types in proliferation patterns or rates, or in kinetic parameters that can be derived from growth curves. The different cell types used can be any cell types, including primary cells isolated from blood or tissue of an animal or human, or cells from cell lines. For example, proliferation rates of two types of primary cancer cell can be compared, or of primary cancer cells of tlie same type but different grades. In another example, primary cells of individuals of different genotypes can be compared. In another example, proliferation rates of primary or cell line stem cells can be compared. In yet another example, growth curves or parameters of control and genetically modified cells of a cell line can be compared. In yet another example, growth curves or parameters of cells infected with virus and control cells can be compared.

D.2. Quantifying Cells Using Cell-Substrate lmpedance Devices The present invention also includes a method of quantifying cells, compri sing:
providing a device of the present invention having two or more electrode arrays, each of which is associated with a fluid container of the device; attaching the device to an impedance analyzer; adding cells to one or more fluid containers of the device;
monitoring impedance from the one or more fluid containers to obtain impedance measurements at one or more time points after adding the cells to the one or more fluid containers; deriving a cell index for the one or more time points; and using the cell index to determine the number of cells in the one or more fluid containers at least one of the one or more time points. The cell index is used to determine the number of cells using a formula that relates cell index to cell number, in which the formula is obtained by:
providinQ a device for cell-substrate monitoring, attaching the device to an impedance mon.itor; addina, cells to one or more fluid containers of the device;
measuring impedance of the one or more fluid containers comprising cells: calculating a cell index from the impedance measurements; determining the nunlber of cells of said at least one fluid container at the time of impedance monitoring by a means other than impedance monitoring; and deriving a formula that relates the number of cells of the one or more fluid containers at the two or more time points with the impedance measurements at the two or mor-e time points.
In the embodiment of above method for obtaining the formula, sometime, the number of cells introduced to the wells are pre-known or predetermined before cells are added in to the wells. Under such conditions, one assumes that there will be no change in cell number or little change in cell nuniber when the impedance measurement for obtaining the formula is performed.
The number of cells determined by a method other than impedance monitoring can be determined by, for example, cell plating, hemacytometer counting, flow cytometry, or Coulter counting.
The method can also be practiced using an impedance monitor ing system of the present invention, where the system includes a multi-well cell-substrate impedance monitoring device, an impedance analyzer, a device station, and a software program. The method includes; providing a multi-well cell-substrate impedance measuring system;
adding cells one or more wells of the system; monitoring impedance from the one or more wells comprising cells at one or more time points after adding the cells to the one or more wells; deriving a cell index for the one or more time points; and using the cell index to determine the number of cells in said at least well at at least one of said one or more time points.
The cell index is used to determine the number of cells using a formula that relates cell index to cell number, in which the formula is obtained by:
providing a system for cell-substrate monitoring, where the system comprises at least one multi-well cell-substrate impedance monitoring device, adding cells to one or more wells of a device of the system; measuring impedance of the one or more wells comprising cells at two or more time points; calculating a cell index from the impedance measurement at the two or' more time points; determining the number of cells of the one or more wells at the two or more time points by a means other than impedance monitorinQ: and deriving a formula that relates the number of cells of the one or more wells at the two or more tinie points with the impedance measurements at the two or more tinle points.
In the embodiment of above method for obtaining the formula, sometime, the number of cells introduced to the wells are pre-known or predetermined before cells are added in to the wells. Under such conditions, one assumes that there will be no change in cell number or little change in cell number when the impedance measurement for obtaining the fomlula is performed.
The number of cells detemlined by a method other than impedance monitoring can be determined by, for example, cell plating, hemacytometer counting, flow cytometry, or Coulter counting.
Formulas relating cell index (including normalized cell index and delta cell index, which can also be used) to cell number for a given cell type can be used lo quantitate cells of that type in assays using a cell-substrate impedance monitoring device, such as a device described herein. Generally, for a give cell type and for cells under similar physiological conditions, the derived formulas relating cell index to cell number can be used in subsequent assays. There is no need to obtain the formula each time when an assay is performed. However, it is worthwhile to point that .the formula can only be valid .as long as the cells are under same physiological conditions in the assays where the formula was derived and where the formula is used. If the cell condition is different, for example, the composition of culture medium changed, or the cell attachment surface is altered, then the formula will not hold. In another example, if cells are in log-growth phase in one assay and are in stationary phase in another assay, then the formula may not hold. Another point worth mentioni.ng here is that relates the fact the derived cell index or impedance also depends on cell attachment quality on the surface as well as cell morphology. If cell morphology or cell attachment changes during an assay, then one need to distinguish between the changes caused by change in cell number or in cell morphology or in cell attachment.
As an example, we can derive the correlation formula between cell index and cell number for NrII-i3T3 cells under the experimental conditions. The formula for converting cell index to cell number for this particular case is: Cell number = 2000*
Cell index -145. To test this fonnula, we found the error in estimating cell number based on the cell index data shown in FiQure 8 as compared to the seeded cell number is less than 20%

.5 D.3. Cell-based assays to test the effects of compounds on cells In yet another aspect, the present invention provides a method for performuzg a cell-based assay investigating the effect of one or more test compounds on cells, comprising: providing a device of the present invention having two or more electrode arrays, each of which is associated with a fluid container or well that is at least in part coated with a biological compound or organic molecule; attaching the device to an impedance analyzer; introducing cells into two or more fluid containers of tlie device that comprise an electrode array; adding at least one test compound to at least one of the one or more of the fluid containers comprising cells and an electrode array to provide at least one test compound well; providing at least one control well to which cells are added that does not receive test compound; and monitoring cell-substrate impedance of the one or more test compound fluid containers and the one or more control fluid containers at least three time points after adding the one or more test compounds, and analyzing impedance measurements from the one or more test compound fluid containers and the one or more control fluid containers at at least three time points after adding the one or more test compounds, in which changes in impedance can provide information about cell responses to the one or more test compounds.
In a related aspect the present invention also provides a method for performing a cell-based assay investigating the effect of one or more test compounds on cells, where the system includes a multi-well cell-substrate impedance monitoring device, an impedance analyzer, a device station comprising electronic circuitry that engages the device and connects the two or more electrode arrays of the device to the impedance analyzer, and a software program that controls the device station and can record and analyze data from the impedance analyzer. The method includes; providing a multi-well cell-substrate impedance measuring system; introducing cells into two or more wells of the device coated with a biological molecule or orcyanic compound; adding at least one test compound to at least one of the one or more of the wells comprising cells to provide at least one test compound well; providing at least one control well to which cells ai-e added that does not receive test compound; monitoring cell-substrate impedance of the one or more test compound wells and the one or more control wells at at least three time points after adding the one or more test compounds; and analyzing impedance measurements from the one or more test compound wells and the one or more control wells at at least tlv-ee time points after adding the one or more test compounds, in which changes in impedance can provide information about cell responses to the one or more test compounds.

A test compound can be any compound, including a small molecule, a large molecule, a molecular complex, an organic molecule, an inorganic molecule, a biomolecule such as but not limited to a lipid, a steroid, a carbohydrate, a fatty acid, an amino acid, a peptide, a protein, a nucleic acid, or any combination of these.
A test coinpou.nd can be a syntlietic compound, a naturally occurring compound, a derivative of a naturally-occurring compound, etc. The structure of a test compound can be known or unlcnown.
Inforination about cell responses to the one or more test compounds includes, but is not limited to, information about cell attachment or adhesion status (e.g.
the degree of cell spread, the attachnient area of a cell, the degree of tightness of cell attachment, cell morphology) on the substrate including on the electrodes, cell growth or proliferation status; number of viable cells and/or dead cells in the well; cytoskeleton change and re-organization and number of cells going through apoptosis and/or necrosis.
Information about cell status may also include any compound-cell interaction leading to any change to one or more of above cell status indicators. For example, if the compound binds to a receptor on the cell surface and such binding leads to a change in cell morphology, then the binding of compound to the receptor can be assayed by the monitored cell-substrate impedance.
The cells used in the assay can be primary cells isolated from any species or can be cells of cell lines. The cells can be genetically engineered cells (For example, cells from a Qeneticall}~ modified organism, such as for example from a"Qene knockout"
oraanism, or cells that have been enaineered to over-express an endogenous gene or a transQene. or cells whose normal Qene expression has been manipulated by use of antisense molecules or silencing Ri\TA.) In sonie embodiments. different cell types are added to different wells and the behavior-of the different cell types in response to one or more compounds is compared.
The cell-based assays that be performed with above methods include, but are not limited to, cell adhesion, cell spreading apoptosis, cell differentiation, cell proliferation, cell survival, cytotoxicity, cell morphology detection, cell quantification, cell quality control, time-dependent cytotoxicity profiling, IgE-mediated cell activation or stimulation, receptor-ligand binding, viral, bacterial, or environmental toxiui mediated cell pathologic changes or cell death, detection or quantification of neutralizing antibodies, specific T-cell mediated cytotoxic effect, and cell-based assay for screening or measuring ligand-receptor binding.
In the methods of the present invention that investigate test compound effects on cells, impedance is preferably monitored from at least one test compound well at at least one time point before adding said at least one test compound to said at least one test conZpound well. Preferably, impedance is monitored at four or more time points, at least one of which is prior to the addition of one or more test compounds.
Preferably, impedance is monitored at regular or irregular time intervals for an assay period of from minutes to days, for example, for a period of between several hours and several days. In one embodiment of the above cell-based assay, the cell-substrate impedance is monitored at at least one time point prior to addition of the test compound, and at regular time intervals tllereafter. For example, impedance can be measured at one or more intervals before adding the compound and at a regular 2 hour, 1 hour, 30 min or 15 min time intervals after adding the compound. Preferably, impedance is measured at three or more time points spaced at regular intervals. In the present application, a real-time assay means allows one to perform the measurement on cell-substrate impedance with various time resolutions, for example, measurement taking place at a longer time interval such as every hour or every two hours, or at a shorter time interval every ininute or a few minutes.
Impedance can be monitored at one frequency or at more than one frequency. For example, in some preferred embodiments, impedance is monitored over a ranae of frequencies for each time point at which impedance is monitored. Preferably, impedance is monitored at at least one frequency between about 1 Hz and about 100 MHz, more preferably at at least one frequency between about 100 Hz and about 2 MHz.
It is preferable to perform replicate test compound assays in which more than one fluid container of cetls receives the same compound at the same concentration.
hi tlus case, impedance measurements or values can be averaged for the assayed time points for replicate wells. Preferably, a standard deviation for the averaged values is also calculated.
In the methods of the present invention, analyzing impedance can comprise plotting cell impedance versus time to obtain at least one test compound impedance curve and at least one control impedance curve. Preferably, at least one test compound impedance curve and said at least one control impedance curve are compared to identify a time frame, if any, in which a test compound curve differs significantly from a control curve, indicating a time frame of an . effect of a test compound on cells. For example, depending on the time frame at which a test compound curve differs significantly from a control curve, the test compound can be hypothesized to affect one or more of, for exaniple, cell attachment or adhesion, cell growth or proliferation, cytoskeleton organization or function, or apoptosis or cell death.
Preferably, data from impedance monitoring of.a well that comprises cells and a test compound is compared with data from impedance monitoring of a well.that comprises cells in the absence of a test compound, however, this is not a requirement of the present invention. For example, it is also possible to compare impedance measurements from one or more time points prior to the addition of compound to compare impedance measurements from one or more time points after the addition of compound. Such comparisons can be used directly to assess the cells' response to a compound. It is also possible to calculate a cell index (or cell number index) using the impedance values obtained.
Methods of calculating a cell index (cell number index) are disclosed herein as well as in parent application U.S. Patent Application 10/705,447, U.S. Patent Application No. 10/987,732..both herein incorporated by reference for disclosures relating to cell number index and its calculation. The cell index calculated from impedance measurements of wells receiving compound can be compared Arith the cell index calculated from impedance measurements of control wells to assess the effect of a conlpound on cells. Altematively, cell index calculated from impedance measurements of wells from one or more time points after the addition of a compound can be compared with the cell index calculated from impedance measurements of wells from.one or more time points prior to the addition of a compound to assess the effect of a compound on cells. In some preferred embodiments, the cell index can be used as an indicator of cytotoxicity.
The derivation of cell index from iunpedance measurements is provided in Section C of the present application. Cell index values (including normalized cell uidex values and delta cell index values) from at least three time points from at least one test compound well and at least one control well can be plotted versus time to obtain one or more test compound cell index curve and one or more control cell index curves.
The one or more test compound cell index curves and the one or more control cell index curves can be conipared to identify a time frame, if any, in which a test compound curve differs significantly from a control curve, uzdicating a time frame of an effect of a test compound on cells. For example, depending on the time frame at which a test compound curve differs significantly from a control curve, the test compound can be hypothesized to affect one or more of, for example, cell attachment or adhesion, cell growth or proliferation, cytoskeleton organization or function, or apoptosis or cell death.
Cell index values at three or more assay time points for one or more test .20 compound wells and one or more control wells can be used to derive cell change index (CCI) values or a second order derivatives of cell index at three or more assay time points. The calculation of cell change index is provided in Section C of the present application. The value of CCI at a give time point can be determined to be either approximately equal to 0.7, much greater than 0.7, greater than zero and less than 0.7, approximately equal to zero, less than zero, or much less than zero. These values can indicate cell behavior at an assay time point, as CCI approximately equal to 0.7 indicates log rate growth, a CCI much greater than 0.7 indicates faster than log rate growth, a CCI
greater than zero and less than 0.7 indicates slower than log rate growth, a CCI
approximately equal to zero indicates no aTowth (a constant cell index), a CCI
less than zero indicates cells are detaching from the substrate, and a CCI much less than zero indicates cell are detaching rapidly from the substrate.

For a Riven assay time point, differences in CCI value between control and compound treated wells can indicate a time at which the compound has an_effect on cells, as well as providing information on the type of effect the compound has.
The CCI can further be used to obtain information on the effect of a test compound by plotting CCI versus time for at least tlu-ee assay time points to obtain a cell change index cunle (CCI curve) for at least one control container or well and at at least one test compound container or well. One or more test compound CCI curves can be compared wit17 one or more control CCI curves to obtaul information on cell statusor behavior in response to said at least one test compound, wherein said cellular status or behavior is at least one of: cell attachment or adhesion status; cell growth or proliferation status; the number of viable cells or dead cells; cytoskeleton change or re-organization; or the number of cells going through apoptosis or necrosis.

Cell-based Assays with More Than One Cell Type The present invention also provides metliods of comparing the effects of a compound on two or more cell types. In one aspect, the method comprises:
providing a device of the present invention having two or more electrode arrays, each of which is associated with a fluid container of the device; attaching the device to an impedance analyzer; introducing cells into two or more fluid containers of the device that comprise an electrode array, wherein at least one of the two or more fluid containers receives one cell type and at least one other of the two or more fluid containers receives a different cell type; adding a test compound to the one or more fluid containers receiving one cell type and adding the test compound to the one or more fluid containers receiving a different cell type to provide at least two test compound fluid containers that comprise cells of different types; providing at least two control fluid containers that do not receive test compound, in which at least one of the control fluid containers receives cells of the one type and at least one of the control fluid containers receives cells of the different type; monitoring cell-substrate impedance of the two or more test compound fluid containers that comprise different cell types and the one or more control fluid containers at at least three time points after adding the one or more test compounds; and analyzing impedance measurements from the two or more test compound fluid containers comprising diffei-ent cell types and from the one or more control fluid containers at at least three time points after adding the one or more test compounds, in -hich changes in impedance can provide information about cell responses to the one or more test compounds.

In a related aspect the present invention also provides a method for perfomiing a cell-based assay investigating the effect of one or more test conipounds on cells using a cell-substrate impedance monitoring system of the present invention, where the system includes a multi-well cell-substrate impedance monitoring device, an impedance analyzer, a device station comprising electronic circuitry that engages the device and com-iects the two or more electrode arrays of the device to the impedance analyzer, and a software program that controls the device station and can record and analyze data from the impedance analyzer. The method includes: providing a multi-well cell-substrate impedance measuring system; introducing cells into two or more wells of the device that conzprise an electrode array, wherein at least one of the two or more wells receives one cell type and at least one other of the two or more wells receives a different cell type;
adding a test compound to the one or more wells receiving one cell type and adding the test compound to the one or more wells receiving a different cell type to provide at least two test compound wells that comprise cells of different types; providing at least two control wells that do not receive test compound, in which at least one of the wells receives cells of the one type and at least one of the control wells receives cells of the different type; monitoring cell-substrate impedance of the two or more test compound wells that coinprise different cell types and the one or more control wells at at least three time points after adding the one or more test compounds; and analyzing impedance measurements from the two or more test compound wells comprising different cell types and from the one or more control wells at at least three time points after adding the one or more test compounds, in which changes in impedance can provide information about cell responses to the one or more test compounds. -In the methods of the present invention that investiaate test compound effects on cells, impedance is preferably monitored from at least two test compound wells comprising different cell types at at least one time point before adding test compound to the at least one two compound wells. Preferably, impedance is monitored at four or more time points_ af least one of which is prior to the addition of one or more test conlpounds.
Preferably. impedance is monitored at regular or irregular time intervals.for an assay period of from minutes to days, for example, for a period of between several hours and several days. In one embodiment of the above cell-based assay, the cell-substrate inlpedance is monitored at at least one time point prior to addition of the test compound, and at regular time intervals thereafter. For example, impedance can be measured at one or more intervals before adding the compound and at a regular 2 hour, 1 hour, 30 min or niin time intervals after adding the compound. Preferably, impedance is measured at tliree or more time points spaced at regular intervals. In the present application, a real-10 time assay means allows one to perform the measurement on cell-substrate impedance with various time resolutions, for example, measurement taking place at a longer time interval such as every hour or every two hours, or at a shorter time interval every minute or a few minutes.
Impedance can be monitored at one frequency or at more than one frequency. For 15 example, in some preferred embodiments, impedance is monitored over a range of frequencies for each time point at wh.ich impedance is monitored. Preferably, impedance is moilitored at at least one frequency between about 1 Hz and about 100 MHz, more preferably at at least one frequency between about 100 Hz and= about 2 MHz.
As disclosed in an earlier section on compound assays, a test compound can be any compound whose effect on cells can be investigated. A test compound used in assays comparing cell responses can be a compound whose effect on one or more of the cell types to be assayed is known, or can be a conlpound whose effects on any of the cell types to be assayed are unknown. In preferred methods of the present invention, cells are introduced into at least three wells of the device that each comprise an electrode array, and at least one well that comprises an electrode array and comprises cells does not receive a test compound. A control well that does not receive a test compound can be monitored, and its impedance data can be compared with that of wells that receive a compound to determine the effect of the test compounds on cells.
As disclosed in a previous section for compound assays, the cell types used in the 3 '0 assay can be primary cells isolated from any species or can be cells of cell lines. In some preferred embodiments, the different cell t~,pes are the same t.Te of cell from different individuals, and thus have different genotypes. One or more of the cell types can be venetically engineered (For example, cells from a Qenetically modified organism, such as for example from a"gene knockout" organism, or cells that have been engineered to overexpress an endogenous gene or a transgene, or cells whose normal gene expression has been mauipulated by use of antisense molecules or silencing RNA.) In these cases, Qenetically modified cells can be compared with control cells. In another example the cells can be, for example, stem cells from different stages of differentiation or of different genotypes whose response to growth factors is being compared. In other examples the cells can be cancer cells where the test compound is tested for its cytotoxic effects. The cells can be primary cancer cells of the same type isolated from different individuals, for exanlple, or different cancer cell li.nes, or cancer cells of the same type but of different grades. In some embodiments, three or more different cell types are added to different wells and the behavior of the three or more different cell types in response to one or more compounds is compared. In preferred embodiments of the present invention, for each cell type tested there is a control performed in which the control does not receive test compound.
A variety of assays can be employed, where the effect of a test compound on the behavior of two or more cell types in the assay is under investigation. Such assays include, as noitlimiting examples, cell adhesion assays, apoptosis assays, cell differentiation assays, cell proliferation assays, cell survival assays, cytotoxicity assays, cell morphology detection assays, cell quantification assays, cell quality control assays, time-dependent cytotoxicity profiling assays, IgE-mediated cell activation or stimulation assays, receptor-ligand binding assays, viral, bacterial, or enviroiunental toxin mediated cell pathologic changes or cell death assays, detection or quantification of neutralizing antibodies, specific T-cell mediated cytotoxic effect assays, and cell-based assays for screeiiuig or measuring ligand-receptor binding.
In the assaysof the present invention is preferable to perform replicate test compound assays in which more than one fluid container of cells of the same type receives the same compound at the same concentration. In this case, impedance measurements or values can optionally be averaged for the assayed time points for replicate wells. Preferably, a standard deviation for the averaged values is also calculated.

Preferablv. time-dependent responses of the first and second types of cells are compared to see how similar or different the responses from the two types of cells are.
In one method of the present invention, impedance from a first cell type well is plotted versus time to Qive a first cell type impedance curve and impedance from a second cell type well is plotted versus time to give a second cell type impedance curve.
Cell index (including normalized cell index or delta cell index) from wells comprising cells of different types ca.n also be calculated from impedance data and plotted versus time to give cell index curves.
The impedance curves or cell index curves from the different cell types can be compared to deterniine whether the time frame, magnitude, and duration of a cells response to a compound are similar or different. Preferably, impedance curves or cell index curves generated from control wells comprising each cell type in the absence of compound are compared with the test compound curves to assess the compound-specific effects on each cell type. The effects of the compounds on one or more of the two or more cell types can be effects on cell attachment or adhesion, cell growth or proliferation;
the number of viable cells or dead cells; cytoskeleton organization or.
fimction; or the number of cells going through apoptosis or necrosis in response to a test compound.
Assays can be designed to investigate the compound's effects on particular cellular processes or activities.
The effect of a compound on at least one of the cell types used in the assay may be known. The mechanisin of action of a compound on at least one of the cell types used in the assay may be known. In such cases, comparison of the compound response of one or more different cell types with the compound response of a cell type whose response to the compound is characterized can give information as to the similarity or difference in response of a different cell type to the compound.
The CI derived from impedance data from wells comprising different cell types and a test compound can be used to derive cell change index (CCI) values for assay time points. CCI values of particular cell types at assa), time points can be compared. Such comparisons can indicate wbether different cell types are responding similarly to a compound_ CCI can also be plotted versus time, and CCI curves of cells of different types assayed with one or more test compounds can be compared to determine the similarities or differences in cellular responses of different cell types to a test compound.
Cell-based Assays iilith More Than One Con7pound The present invention also provides metllods of comparing the effects of two or more different compounds on cells. In one aspect, the method comprises:
providing a device of the present invention having three or more electrode arrays, each of which is associated with a fluid container of the device; attaching the device to an impedance analyzer; introducing cells into three or more fl uid containers of the device that coinprise an electrode array; adding at least one test compound to at least one of the tliree or more fluid containers comprising cells and adding at least one different test compound to at least one other of the three or more fluid containers comprising cells to provide at least two different test compound fluid containers; providing as a control fluid container at least one of the three or more fluid containers, in which the control fluid container receives cells but does not receive compound; attaching an impedance analyzer to the device; monitoring cell=substrate impedance of the two or more different test compound fluid containers that comprise different compounds and the one or more control fluid containers at at least three time points after adding the one or more test compounds; and analyzing impedance measurements from the two or more different test conlpound fluid containers and from the one or more control fluid containers at at least three time points after adding the one or more test compounds, in which changes in impedance can provide information about cell responses to the one or more test compounds.
In a related aspect, the present invention provides a method for performing a cell-based assay investigating the effect of two or more test compounds on cells using a cell-substrate impedance monitoring system. The method includes: a) providing a cell-substrate impedance monitoring system of the present invention; b) introducing cells into at least two wells of the device that each comprise an electrode array; c) adding to at least one well of the device comprising cells and an electrode array a first test compound; d) adding to at least one other well of the device comprising cells and an electrode array a second test compound, and e) monitoring cell-substrate impedance of at l:zst.one well comprisinR cells and a first compound and at least one well comprising cells and a second compound, in which changes in impedance can provide information about cell responses to the first and second compounds.
Preferably, time-dependent responses of cells to the first compound and the second compound are compared to see how similar or different the responses from the two compounds are. In one preferred embodiment of this method, time-dependent cytotoxic responses are compared.
The cells and test compound that can be used in the assay can be any as described above for assays testing effects of test compounds.
In the assays of the present invention is preferable to perform replicate test compound assays in which more than one fluid container of cells of the same type receives the same compound at the same concentration. In this case, impedance measurements or values can optionally be averaged for the assayed time points for replicate wells. Preferably, a standard deviation for the averaged values is also calculated.
Impedance monitoring can be as described above for assays testing effects of test compounds. Preferably impedance is monitored from the at least two different test compound wells and at least one control well at at least one time point before adding said at least one test compound to said at least one test compound well.
Preferably, impedance is monitored at four or more time points, at least one of which is prior to the addition of one or more test compounds. Preferably, impedance is monitored, at regular or irregular time intervals for an assay period of from minutes to days, for exainple, for a period of between several hours and several days. In one embodiment of the above cell-based assay, the cell-substrate impedance is monitored at at least one time point prior to addition of the test compound, and at regular time intervals thereafter. For example, impedance can be measured at one or more intervals before adding the compound and at a regular 2 hour, 1 hour, 30 min or 15 min time intervals after adding the compound.
Preferably, impedance is measured at three or more time points spaced at regular intervals. In the present application, a real-time assay means allows one to perform the measurement on cell-substrate impedance with various time resolutions, for example, measurement taking place at a longer time interval such as every hour or every two hours, or at a shorter time interval every mi.nute or a few minutes.

Impedance can be monitored at one frequency or at more than one frequency. For exanlple_ in some preferred embodinlents, impedance is monitored over a range of frequencies for each time point at which impedance is monitored. Preferably, impedance is monitored at at least one frequency between about 1 Hz and about 100 h411z, more preferably at at least one frequency between about 100 Hz and about 2 1\glz.
Preferably, data from impedance monitoring of wells that comprise different test compounds are compared.
In one embodiment, for at least two different compound wells, impedance at three or more assay time points can be plotted versus tinie. Preferably, for a control well that does not receive compound, impedance at the same three or more assay time points is also-plotted versus time. The impedance curves of different compound wells can be compared with the control impedance curve to determine whether the compounds have a similar or different effect on cells.
Cell uidex (including normalized cell index or delta cell index) from wells comprising cells of different types can also be calculated from impedance data and plotted versus time to give cell index curves.
The impedance curves or cell index curves from the different cell types can be compared to determine whether the time frame, magnitude, and duration the response of cells to different compounds are similar or different. Preferably, impedance curves or cell index curves generated from one or more control wells comprising cells in the absence of compound are coinpared with the test compound curves to assess the compound-specific effects of each compound. The effects of the compounds on cells can be for example, effects on cell attachment or adhesion, cell growth or proliferation; the number of viable cells or dead cells; cytoskeleton organization or function; or the number of cells going through apoptosis or necrosis in response to a test compound. Assays can be designed to investigate the compound's effects on particular cellular processes or activities.
The effect on cells of one or more of the compounds used in the assay may be knoNArn. The mechanism of action of one or more compounds used in the assay may be knoxvn. In such cases, comparison of the responses of cells to other test compounds used in the assay -;rith cellular responses to the one or more compounds whose effects are characterized can give information as to the similarity or difference in response of different compounds to a l:no-wn compound.
In.formation about cell responses to the compound includes, but is not limited to, information about cell attachn-tent or adhesion status (e.g. the degree of cell spread, the attachrnent area of a cell, the degree of tightness of cell attaclinient, cell morphology) on the substrate includina on the electrodes, cell growth or proliferation status; number of viable cells and/or dead cells in the well; cytoskeleton change and re-organization and number of cells going through apoptosis and/or necrosis. Information about cell status may also include any compound-cell interaction leading to any change to one or more of above cell status indicators. For example, if the compound binds to a receptor on the cell surface and such binding leads to a change in cell morphology, then the binding of compound to the receptor can be assayed by the monitored cell-substrate impedance. The cell-based assays that be performed with above methods include, but not limited to, cell adhesion, cell apoptosis, cell differentiation, cell proliferation, cell survival, cytotoxicity, ] 5 cell morphology detection, cell quantification, cell quality control, time-dependent cytotoxicity profiling, IgE-mediated cell activation or stimulation, receptor-ligand binding, viral and bacterial toxin mediated cell pathologic changes and cell death, detection and quantification of neutralizing antibodies, specific T-cell mediated cytotoxic effect, cell-based assay for screening and measuring ligand-receptor binding.
A plurality of compounds can be assayed with multiple cell types. In one prefen-ed embodiment of this method, time-dependent cytotoxic responses of different cell types to a set of compounds are compared. .
The CI derived from impedance data from wells comprising different cell types and a test compound can be used to derive cell change index (CCI) values for assay time points. CCI values of particular cell types at assay time pouits can be compared. Such comparisons can indicate whether different cell types are responding similarly to a compound. CCI can also be plotted versus tinse, and CCI curves of cells of different types assayed with one or niore test compounds can be compared to determine the similarities or differences in cellular responses of different cell types to a test compound.
For example, the time frame, magnitude; and duration of a difference in response as evidenced b~- the curves can indicate a difference in efficacy or mechanism of compounds. The inlpedance differences can.reflect differences in, for exaniple, cell attachment or adhesion, cell g-rowth or proliferation; the number of viable cells or dead cells: cytosl:eleton organization or function; or the number of cells goinc, through apoptosis or necrosis in response to a test compound.
A variety of assays can be employed, where the effect of two or more test compound on the behavior cells is under investigation. Such assays include, as nonliiniting examples, cell adhesion assays, apoptosis assays, cell differentiation assays, cell proliferation assays, cell survival assays, cytotoxicity assays, cell morphology detection assays, cell quantification assays, cell quality control assays, time-dependent cytotoxicity profiling assays, IgE-mediated cell activation or stimulation assays, receptor-ligand binding assays, viral, bacterial, or environmental toxin mediated cell pathologic changes or cell death assays, detection or quantification of neutralizing antibodies, specific T-cell mediated cytotoxic effect assays, and cell-based assays for screeiung or measuring ligand-receptor binding.
In one preferred embodiment of this method, time-dependent cytotoxic responses of cells to a set of compounds are compared. "Cytotoxicity profiling" in which the impedance responses of cells in response to a plurality of potentially cytotoxic compounds are compared, can provide information on the efficacy and mechanism of a test compound. Cytotoxicity profiling can be performed by comparing any combination of impedance plots, kinetic parameters derived from impedance plots, CI plots, CCI
values, and CCI plots.
In one embodiment of the method, analyzing the cytotoxicity response may include derivation of the slope of change in the time dependent cytotoxicity response at a given compound concentration. In yet another embodiment of the method, analyzing real-time cytotoxicity response may include derivation of high-order derivatives of the time dependent cytotoxicity response with respect to time at a given compound concentration.

Evaluatinc the Effeci of Different Concentrations qf a Compound os? Cells .
The present invention also includes methods of performing assays to test the effect of different concentrations of one or more test compounds on cells.

In one aspecL a method for testing different concentrations of a test compound on cells comprises: providina a device of the present invention having three or more electrode arrays, each of which is associated with a fluid container of the device;
attachinQ the device to an impedance analyzer; introducing cells into at least two of the three or more fluid containers of the device that comprise.an electrode array;
adding diffei-ent concentrations of a test compound to the two or more fluid containers of the device that comprise cells; providing a control fluid container that comprises cells but does not receive compound; monitoring cell-substrate impedance of the two or more different test compound fluid containers that comprise different concentrations of a test compound and of the one or more control fluid containers at at least three time points after adding a test compound; and analyzing impedance measurements from the two or more different test compound fluid containers and one or more control fluid containers at at least three time points after adding a test compound, in which changes in impedance can provide information about cell responses to the test compounds.
In a related aspect, the present invention provides a method for performing a cell-based assay investigating the effect of two or more concentrations of a test compound on cells using a cell-substrate impedance monitoring system. The method includes:
providing a cell-substrate impedance monitoring system of the present invention;
introducing cells into at least two of the three or more wells of the device that comprise an electrode array; adding different concentrations of a test compound to the two or more wells of the device that comprise cells; providing a control well that comprises cells but does not receive test compound; monitoring cell-substrate impedance of the two or more different test compound wells that comprise different concentrations of a test compound and the one or more control wells at at least three time points after adding a test compound; and analyzing inlpedance measurements from the two or more different test compound wells and the one or more control wells at at least three time points after adding a test compound, in which changes in impedance can provide information about cell responses to the test compounds.
The cells and test compound that can be used in the assay can be any as described above for assays testing effects of test compounds.

Impedance monitoring can be as described above for assavs testinR effects of test compounds. Preferably impedance is monitored from the at least two different test compound wells and at least one control well at at least one time point before adding said at least one test compound to said at least one test compound well.
Preferably, impedance is monitored at four or more time points, at least one of which is prior to the addition of one or more test compounds. Preferably, impedance is monitored at regular or irregular time intervals for an assay period of from minutes to days, for example, for a period of between several hours and several days. In one embodiment of the above cell-based assay, the cell-substrate impedance is monitored at at least one time point prior to addition of the test compound, and at regular time intervals thereafter. For example, impedance can be measured at one or more intervals before adding the compound and at a regular 2 hour, 1 hour, 30 min or 15 min tinze intervals after adding the compound.
Preferably, impedance is measured at three or more time points spaced at regular intervals. In the present application, a real-time assay means allows one to perform the measurement on cell-substrate itnpedance with various time resolutions, for example, measurements taking place at a longer time interval such as every hour or every two hours, or at a shorter time interval every minute or a few minutes.
Impedance can be monitored at one frequency or at more than one frequency. For example, in some preferred embodiments, impedance is monitored over a range of frequencies for each time point at which impedance is monitored. Preferably, impedance is monitored at at least one frequency between about 1 Hz and about 100 MHz, more preferably at at least one frequency between about 100 Hz and about 2 MHz.
In one embodiment, for at least two different compound concentrations, impedance or, preferably, cell index (including normalized cell index or delta cell index), at three or more assay time points is be plotted versus tune. Preferably, for a control well that does not receive compound, impedance at the same three or more assay time points is also plotted versus time. An impedance curve or cell index curve can give an indication of the time frame at which a compound affects cell response. In some preferred embodiments, the cell index can be used as an indicator of cytotoxicity.

C>>totoxicitl= Profiling, In another aspect_ the present invention provides a method for performinQ real-time cytotoxicity assay of a compound. comprising: a) providina an above described system;
b) seeding cells to the wells of multiple-well devices; c) adding the compound to the wells contauun(y cells; d) monitoring cell-substrate impedance before and after adding the conipound at a regular or iuregular time interval; wherein the time dependent impedance change provides information about time dependent cytotoxicity of the compound.
In one embodiment, the cell-substrate impedance is monitored at regular tiriie intervals. In exemplary embodiments, the impedance is measured at a regular 2 hour, 1 hour, 30 min or 15 min time interval before and after adding the compound.
lil one embodiment of the above method, multiple wells with same cell types are used, wherein each well is added with the compound of different concentrations. The method provides the time-dependent and concentration-dependent cytotoxic responses.
In yet auother aspect, the present invention provides a method for analyzing and comparing time-dependent cytotoxic effects of a first compound and a second compound on a cell type, comprising : a) performing a real-time cytotoxicity assay on a cell type with the first compound using the method described above; b) performing a real-time cytotoxicity assay on said cell type with the second compound using the method described above; c) comparing the time-dependent cytotoxic responses of the first compound and the second compound to see how similar or different the responses from the two compounds are. In one embodiment of this method, time-dependent cytotoxic responses are determined for the first compound at multiple dose concentrations. In another embod"unent, time-dependent cytotoxic responses are determined for the second compound at multiple dose concentrations. In yet another embodiment, time-dependent cytotoxic responses are determined for both first compound and second compound at multiple dose concentrations.
In another embodiment of above methods, the first compound is a compound with a known mechanism for its cytotoxic effect and the second compound is a compound with an unl:nown mechanism for its cytotoxic effect. If the time dependent cytotoxic responses from the second compound are similar to that of the first one, the second compound max, follow a similar mechanism for its cytotoxic effect to the first compound.

Various approaches may be used in comparing the cytotoxic responses of the compounds. A cell index (or cell nunzber index) can optionally be calculated using the impedance values obtained. In one embodiment of the method described above, time dependent IC50 may be derived for the compounds and comparison between their cytotoxic responses is done by comparing their time dependent IC50 curves based on cell index values. If the IC50 curves follow a similar time-dependent trend, the two coinpounds may follow a similar mechanism for inducing cytotoxicty effects. In another embodiment of the method described, direct comparison of time-dependent cytotoxic responses of two compounds are done where the concentrations for the two compounds may be the sanle or may be different. Direct comparison between time-dependent cytotoxic responses may be done by analyzing the slope of change in the measured responses (that is equivalent to the first order derivative of the response with respect to tinie) and comparing the time-dependent slopes for the two compounds. In another approach, the time-dependent cytotoxic responses may be analyzed for their higher order derivatives witli respect to time. Comparing such high order derivatives may provide additional information as for the mechanisms of compound-induced cytotoxicity.
In one embodiment of the method, analyzing real-time cytotoxicity response may include the derivation of time-dependent IC50 values for the compound on the multiple cell types. In another embodiment of the method, analyzing real-time cytotoxicity response may include derivation of the slope of change in the time dependent cytotoxicity response at a given compound concentration. In yet another embodiment of the method, analyzing real-time cytotoxicity response may include derivation of high-order derivatives of the time dependent cytotoxicity response with respect to time at a given compound concentration.

In yet another embodiment, the above methods are applied to perform cytotoxicity profiling of multiple compounds on multiple cell types.
In another embodiment of the method, analyzing real-time cytotoxicity response may include derivation of the slope of change in the time dependent cytotoxicity response at a given compound concentration. In yet another embodiment of the method, analvzing real-time cvtotoxiciry response may include derivation of high-order derivatives of the time dependent cvtotoxicin- response with respect to time at a aiven compound concentration.
Some examples of compound assays that can be perfornied using a cell-substrate impedance system of the present invention are provided by way of illustration with reference to the fi'ures. In these examples, cell index is calculated using the same method as the Cell Index calculation method (A) as described in Section C of the present application. In some of the figures of the present application, Normalized Cell Index was plotted. The Noiznalized Cell Index at a given time point is calculated by dividing the Cell Index at the time point by the Cell Index at a reference time point.
Thus, tlie Normalized Cell Index is 1 at the reference time point.
As described in the present application, if the cell attachment conditions remain unchanged or exhibit little change over the course of an assay that uses impedan ce monitoring, then the larger the cell index, the larger the number of the cells in the wells.
A decrease in cell index suggests that some cells are detaching from the substrate surface or dying under the influence of the coinpound. An increase in cell index suggests that more cells are attaching to the substrate surfaces, indicating an increase in overall cell number.

D.4. Dynamic Monitoring of Cell Adhesion and Spreading The methods and devices of the present invention have a particular utility for monitoring cell adhesion and spreading. More specifically, the present invention includes a method of monitoring cell adhesion or cell spreading including providing a inicroelectronic cell sensor array that displays a biological molecule or organic molecule on a test portion and a control portion, introducing a cell or cell population to the test portion and control portion, performing a series of impedance measurements of the test portion and the control portion, determining the change in impedance and optionally a cell index (CI) of the test portion and the control portion, comparing the change in impedance of the test portion to the change in impedance of the control portion or comparing the cell index (CI) of the test portion to the cell index. (CI) of the control portion and determining cell adhesion or cell spreading occurs if the comparison demonsiTates a sigmif cant change in impedance.
The device for use in monitoring cell adhesion and cell spreadinQ has many of the features previously discussed in the present document and those incorporated by reference. The device includes a non-conductive substrate, a plurality of electrode arrays positioned on the substrate, where each electrode array includes at least two electrodes and each electrode is separated from at least one electrode by an area of non-conductive material. The device also includes a biological molecule or organic compound and optionally a control molecule or a control compound positioned on a portion of the substrate.
As previously discussed, the non-conductive substrate may be substantially flat and may have two opposing ends along a longitudinal axis. The device may have electrically conductive traces in electrical communication with at least one of the electrode arrays and extending substantially longitudinally to one of the two opposing ends. The substrate may be constructed at least in part from any suitable non-conductive material such as glass, sapphire, silicon dioxide on silicon or an appropriate polymer.
The device may have electrodes that have a width at a widest point of more than 1.5 and less than 10 times the width of the area of non-conductive material. Each electrode array may have a plurality of evenly spaced electrodes and each electrode array may be provided in any of the previously described configurations such as but not limited to interdigitated, concentric, sinusoidal, castellated and the like.
The methods of the present invention utilize a biological molecule or organic compound attached or closely associated with the substrate or electrode.
Molecules or compounds of interest may be bound or associated with the substrate or electrode to evaluate the effect on cell adhesion or cell spreading such as inducing, increasing, decreasing or inhibition. The biological molecule or organic compound is attached to the substrate or electrode using techniques that utilize covalent bonds, ionic bonds, Van der Waals forces and the like. The biological molecule may be directly attached or bound to the device or may be bound via an intermediate compound such as by usinQ poly-L-lysine.

ss Examples of binding bioloo--ical molecules or organic compounds are provided in the examples. The general method includes providing a microelectronic cell sensor array and incubatuig the biological molecule or organic conipound along a portion of the substrate (such as but not limited to in a well) under conditions suitable to form a bond or to closely associate the molecule or compound with the substrate or electrode.
Although tecluuques may vary, the incubation may occur utilizing a solution having an appropriate pH and salt concentration such as but not limited to phosphate buffered saline (PBS), borate buffered saline (BBS) and the like. The incubation may occur at a temperature appropriate for the molecule or compound such as 4 degrees Celsius, room temperature, 37 degrees Celsius and the like. The device may be washed one or more times using a suitable solution or may be blocked.using a blocking solution such as a solution including a protein that does not noticeably affect the assay. In some embodiments bovine serum albumin (BSA) is provided in solution form as a blocking solution.
Biological molecules or organic compounds that may be of particular interest include a DNA molecule, an RNA molecule, a protein, a polypeptide, an oligopeptide, individual amino acids and the like. Another example is an antibody such as a polyclonal, monoclonal or humanized antibody or a fragnient thereof including light chain, heavy chain, Fc portion, Fab portion, Fab'2 portion and the like. Also, the biological molecule or organic compound may be a ligand, a receptor, may target an integrin or cell surface receptor or may be an agonist or an antagonist. In one embodiment, the biological molecule includes a molecule having an arginine-glycine-aspartic acid (RGD) motif. The biological molecule or organic compound may be purified or may be provided as an extract. For example, when using extracellular matrix proteins, the proteins may be isolated then bound to the substrate or electrode or alternatively, a combination of proteins may be provided in the form of an extract or unpurified mixture.
Preferably, the display of the biological molecule or organic compound is such that a corresponding binding member or cell having the appropriate cell surface receptor is capable of recognizina and binding the molecule or compound. For example, when utilizing an antibody as a biological molecule, the preferred display would lil:ely be such that the Fab pornion is positioned generally upwards relative to the substrate and the Fc portion positioned downwards toward the substrate. However, if the Fc portion where to be the desired bindinQ site for a cell or protein of interest (such as but not limited to protein A) it may be desired to have the Fc portion positioned generally upwards.
Nonetheless, when proteins, DNA, RNA, polypeptides, oliQopeptides and the like are attached to the substrate of the device, it is likely that a variety of orientations will result.
In some embodiments the device includes at least one well. The well acts as a fluid container to perform the analysis. The well would include an electrode array and may include a biological molecule or organic conipound. The wells may be defined by the particular purpose such as a test well and a control well. The control well provided as a control for the experiment or test and the test well typically as an experimental well.
Depending on the desired test, both the control well and test well may include the same biological molecule or organic compound or a different biological molecule or organic compound. The test well and the control well may provide a molecule or compound in the same concentration or they may be provided in different concentrations.
In one embodiment the test well and the control well contain different biological molecules or organic compounds. The test well may contain a biological molecule that is suspected of having an effect on cell adhesion or cell spreading and the control well may contain a biological molecule or organic compound with a known effect on cell adhesion or cell spreading (such as increasing, decreasing or no effect).
In another embodiment the same sample of biological molecule or organic compound is aliquoted between the test well and the control well. In this configuration, different cells may be added to the test well versus the control well, a compound such as an inhibitor or inducer may be added to one of the wells (or preincubated with the cells) or the biological molecule or organic compound rriay be provided at different concentrations.
Cells may be added directly to tlie devices such as in the test well or control well or may be preincubated with one or more compounds. Preincubation may be desired when assaying for an inhibitor of cell adhesion or cell spreading.
Alternatively; the inhibitor or other compound of interest may be added to the device at the same time as the cell or cell population or may be added later. The types of cells that may be used to monitor cell adhesion or cell spreading may vary. Typically a cell type or cell capable of adhering to the device, the bioloRical molecule or the electrode would be desired. Cells may be from any suitable oraanism such as human. bovine_ hamster, swine, and the like. The cells may be prokaryotic or eukaryotic. Cells may be primarly cells or cell lines. Human cells or cell lines derived from human cells have a particular utility. Cells may be those associated with the imnlune system such as B-lymphocytes, T-lymphocytes, macrophages, granulocytes, mast cells and PBMCs.
A series of impedance measurements are performed to detect changes in cell adhesion or cell spreading. Impedance may be measured at regular time intervals, irregular time intervals, or a combination thereof. Time intervals of interest may be 1) after coating a device with a biological molecule or compound of interest and before adding cells, 2) shortly after adding cells and 3) one or more measurements over time.
However alternative time points may be desired. The impedance of the test portion such as the test well and control well are preferably taken simultaneously or nearly simultaneously. The impedance values between the test portion and the control portion may be compared or corresponding cell indexes may be compared to one another to determine changes in cell adhesion or cell spreading.
Cell substrate impedance measurement is directly related to the number of cells added to the electrodes and the electrode area covered by the cells. During cell adhesion experiments the number of cells added to each well is fixed and therefore the change in impedance is primarily derived from the degree of cell attachment and spreading on the electrode surface. Therefore as the suspended cells settle onto the surface of the electrode, adhere and undergo morphological transfonnation, the cell substrate impedance increases proportionately with the area of the electrode covered by the cell. In addition, the strengtli of attachment, which may depend on the cell attachment receptors expressed on the surface of the cell or the biological molecule coated onto the surface of the electrode can also affect cell electrode impedance measurements.

Cell Index The methods of the present invention may include comparing one or more impedance measurements or comparing one or more cell indexes or cell index values. In one embodiment, a cell indea is deteruuned by calculating, for each measurement frequency, 9i the relative-change iu resistance (a component of impedance) of a well when target cells are present in the well ~3,ith respect to that of the well when no cell is present and then fmding the maximum relative-chanQe in resistance for all frequencies measured.
The maximum relative-change in resistance is used as cell indea. (see equation (4) in Section C. Methods for Calculating Cell Index (CI) and Cell Change Index (CCI) of the present invention). If impedance is measured_at a single frequency, then the relative change in resistance (a component of impedance) of a well when cells are present in the well with respect to that of the well when no cell is present. Other methods for calculating cell index have been disclosed in a previous Section C. Methods for Calculating Cell Index (CI) and Cell Change Index (CCI) of the present invention).

Ex4h4PLES

Example 1: Coating a Microelectronic Plate with a_Biolobical Molecule or Organic Compound including Extracellular Matrix (ECM) Protein Manunalian cells express membrane -bound receptors called integrins which interact with ECM proteins in a specific manner. Upon interaction of integrins with their cognate ECM proteins, a signali.ng cascade is initiated inside the cell leading to attachment, spreading, growth, differentiation and morphological dynamics depending on the integrin and the ECM substrate. Coating of ACEA E-plates with ECM proteins will allow label-free, quantitative and real-time measurements of cellular interaction with the ECM protein using the RT-CES system.

As a nonlimiting example, the steps involved in coating a microelectronic plate, such as the ACEA E-plates, and determining cellular response may include the following steps:

(1) Pipette 40-50 L of the appropriate ECM protein dissolved in phosphate-buffered saline (PBS) at a pre-determined concentration into the wells of the ACEA E-plate. As a control, add PBS alone to one of the wells or alternatively, coat with poly-L-Lysine which coats the surface but does not interact with integrins.
(2) Allow the E-plate to coat with the matrix solution for 1-2 hours at 37 C
or overnight at 4 C.
(3) Wash the wells once with PBS. Add 50 L of media to the wells and obtain the background impedance using the RT-CES system.
(4) Add the cells at the appropriate density to the wells and monitor attachment, spreading, uowth and morphological dynamics using the RT-CES s;stem.

As an exanlple. we describe here the use of the ACEA RT-CESTM system to measure and monitor the attachment and spreading of NIH-3 ) T3 cells on ACEA E-plates coated with fibronectin (FN) or with poly-L-lysine (PLL) as a control. 40 uL
of 10 JrnL FN solution in PBS and 40 L of 50 ghnL PLL were added to the wells of ACEA 16X E-plate. The plate was placed at 37 C for lhour to allow coating to take place followed with PBS wash and then 50 L of media was added to E-plate to measure the background impedance. 5000 NIH3T3 cells in 100 L volume were then added to the wells and the plates were placed on the device station in the 37 C. The attachment and spreading of NIH3T3 cells on the two different surfaces were then monitored every 5 minutes using the RT-CES system (FIG. 1). The kinetic trace of NIH3T3 cells on FN
shows an immediate increase in cell index which correlates with the attachment and spreading of these cells wlule on PLL it is steady increase overtime. The attachment and spreading of NIH3T3 cells on FN is a rapid process and takes place within 5 minutes of adding the cells to the coated wells (FIG. 2). The cells spread for approximately an hour at which time they contract due to stress fiber formation. On PLL the cells attach non-specifically due to charge interaction between PLL and the negatively charged proteins on the cell membrane. However, on PLL cell spreading does not take place for at least the first two hours after which the cells spread due to the fact that they secrete their own matrix. Also, to demonstrate that quantitative nature of the. Cell Index readout, the wells of ACEA E-plates were coated with increasing amounts of FN in the range of 0 g/mL to 20 g/mL and the attaclunent and spreading of NIH3T3 cells were monitored by the RT-CES (FIG. 3). T'he kinetic measurements for attachrnent and spreading clearly indicate that with increasing amounts of FN being coated on the wells, the index of cell attachnlent and spreading increases accordingly. In order to demonstrate the specificity of the interaction between integrins on the cell surface and the FN-coated dish, arginine-.glycine-aspartic acid (RGD) peptides were added to the wells in increasing concentration prior to adding the cells. As shown in FIG. 4, the RGD peptides effectively block the attachment and spreading of NU-I3T3 cells in a concentration-dependent manner, whereas a control peptide does not. In summary, these experiments demonstrate that the wells in ACEA E-plates containing the microelectronic cell sensor arrays can be coated A-ith matrix proteins which can affect cellular function in a specific way.
Furthermore, the results obtained are very quantitative and can be performed in a high throughput manner and in real-time.

Example 2: Coating a Microelectronic Plate with a Biological Molecule or Organic Compound Including an Antibody Against a Cell Surface Receptor In addition to coating the wells of ACEA E-plates with ECM proteins, the wells can also be coated with other biological molecules such as antibodies specific for a particular receptor present on the cell surface. These antibodies can be functional antibodies (triggering a specific cellular response) or non-functional antibodies. The main requirement being that they recognize and bind to specific epitopes within the receptor of interest at the cell surface. As an example, we have coated the wells of ACEA
E-plate with the OKT-3 antibody which is specific for the CD3 co-receptor of the T
cell receptor complex. OKT-3 is a functional antibody and upon binding to the CD3 co-receptor on T
lymphocytes triggers a signaling pathway leading to activation and adhesion of the T cell.
As a control, the wells were also coated with an irrelevant mouse monoclonal antibody.
As shown in FIG. 5, upon addition of Jurkat T cells, which express the CD-3 receptor, to the wells coated witlz the OKT-3, the cells immediately attach and spread as evidenced by an immediate increase in cell index. However, in wells coated with the control antibody very little attachmerit and spreading is taking place.

The following steps provide a method of coating microelectronic plate (the ACEA
E-plate) wells with an antibody specific. for cell surface receptors:

(1) Adjust the antibody to be coated to the appropriate concentration in PBS and add 40-50 L per well of the ACEA E-plate. It may also be required with some antibodies to covalently li.nk the antibody to the surface of the sensors in the E-plate. Under those circumstances the covalent cross-linking should be performed as directed by antibody manufacturers.
(2) Allow the coating process to take place at 4 C overnight or at room temperature for 1-2 hours.

(3) Wash the wells with PBS, add 50 L of the appropriate media and perform background measurement using the RT-CES system.

(4) Add the appropriate density of cells in 100-150 RL volume to the wells and monitor cellular status using the RT-CES system.

Example 3: Coating a Microelectronic Plate with a Biological Molecule or Organic Compound Including a Ligand, a Peptide or a Compound Directed Against a Specific Receptor on a Cell Surface That Effects Cell Attachment, Growth, Differentiation or Morphological Changes as Monitored by a Microelectronic System (RT-CES system) The wells in ACEA E-plates can also be coated covalently or non-covalently with specific peptides, ligands or compounds wluch can illicit some specific cellular response such as adhesion and spreading. For example, RGD containing peptides when coated upon a surface, are sufficient to promote attachment and spreading of cells via interaction with specific integrin receptors on the cell surface.

The following steps need to be followed for coating the wells of ACEA E-plates with peptides, ligands or compounds specific for a particular receptor or other proteins on the cell surface:

(1) Dissolve the peptide, ligand or compound to be used in PBS and add to the wells of the ACEA E-plate. Allow coating to take place at 4 C overnight or 1-2 hours at 4 C. The optimal time of coatin~
may need to be optimized. Alternatively, these reagents may need to be covalently linked to the surface of the sensors and therefore specialized linking procedures may need to be followed.
(2) 'A'ash the wells Arith PBS, add media and perform backg-round impedance reading using the RT-CES system.
(3) Count and adjust the cells to be added to the appropriate density and add to the wells which have been coated with the peptide, ligand or compound.
(4) Monitor cellular response using the RT-CES.
Example 4: Dynamic Monitoring of Cell Adhesion and Spreading on Different Surfaces Using the RT-CES system Cells. All the cells used in this study were obtained from ATCC and maintained at 37 C
incubator with 5 % CO2 saturation. NTH3T3 cells were maintained in DMEM media containing 10 % FBS and 1% penicillin and streptomycin. Jurkat T cells and BxPC3 cells were maintained in RPMI containing 10 % FBS and 1% penicillin and strptomycin.
Cell Adhesion assays using the RT-CES system. ACEA e-plates were coated with the indicated ECM protein or PLL for 1 hour at 37 C. The plates were washed with PBS and coated with 0.5% BSA solution in PBS for 20 minutes at 37 C. The wells were washed with PBS prior to addition of the media and cells. The cells were trypsinized, spun and resuspended in serum-free media containing 0.25% BSA. The cells were adjusted to appropriate concentration and 100 L of the cell suspension was transferred to the wells of ACEA e-plates coated with the various ECM proteins. The adhesion and spreading of the cells were monito"red continuously every 3 minutes using the RT-CES system for a period of 1-3 hours dependinc, on the experiment. The electronic readout, cell sensor impedance is displayed as an arbitrary unit called the Cell Index (CI) where the CI is defined as Rn-Rb/Rp; Rn is defined as the cell-electrode impedance of the well with the cells at a particular time point and Rb is defined as the background impedance of the wells -with just the media alone.

lnhibitor Treannent and siRhjA Transfection. For assessment of the effect of evclic RGD
peptides and chemical inhibitors on cell adhesion and spreading, cells were pre-incubated with the indicated concentration of the inhibitors for 15-30 minutes prior to addition to ECM-coated wells in e-plate. All other steps were exactly as described above.
BxPc3 cells were transfected with 20 nM of siSRC using siPORTatnine at a final volume of 60 L. Cells were assayed for adhesion function 48 hours after transfection.
Im7nunofluorescence and Light Microscopy. The cells were seeded in 16X chamber slides coated with either PLL or FN. The cells were allowed to attach and were fixed with 4%
parafannaldehyde at the indicated time points. The cells were permeabilized, stained with rhodamine-phalloidin (Molecular Probes), visualized and photographed using a Nikon E-400 epi-fluorescent niicroscope comiected to a digital camera.

In order to assess the extent of adhesion and spreading by the RT-CES system, ACEA E-plates were coated with FN or PLL as a control. N1II3T3 cells were applied onto the coated wells and the extent of adhesion and spreading was monitored by the. RT-CES system. Simultaneously, chamber slides were also coated with FN and PLL
and the same numbers of cells were.added to each well and its attachment and spreading were determined by staining with rhodamine-phalloidin and visualization by using the epifluorescent microscope. As shown in FIG. 6, application of the cells onto the FN-coated wells leads to a dramatic increase in cell index whereas on PLL it leads to steady increase overtime. Similarly, immunofluorescent images show that cell attachnient on FN
is accompanied by immediate spreading which is maximal by 1 hour (FIG. 6A). On PLL
coated wells, the cells tend to remain round even up two hours after initial attachment (FIG. 6A).

In order to determine the effect of FN concentration being coated on the extent of cell adhesion and spreadina, ACEA E-plates were coated with inereasing concentration of FNI ra.nging from 0 ug/mL to 20 g/mL. NIH3T3 cells were added to the wells and the ex-tent of attachment and spreading was monitored using the RT-CES system. As shown in FIG. 7A, the CI increases proportionately with increasinQ amounts of coated FN. In order to demonstrate that the CI is proportional to the number of cells adhering to the substrate, the cells were trvpsinized at 3 hours post-adhesion and manually counted. As shown in FIG. 7B, the ac.tual raw cell number at three hours for the different FN
concentrations is proportional to the CI obtained at three hours. Taken together, these experiments demonstrate that the RT-CES system can be used to quantitatively assess cell attachn-ient and spreading under label free conditions and in real-time.

Example 5: Inhibition of Cell Attachment and Spreading Using RGD Containing Peptides Integi in heterodimers such as a5 (31 integrins which bind to FN recognize specific motif in FN, the arginine-glycine-aspartic acid (RGD) motif (1). It has been shown peptides containing the RGD motif can effectively compete for the binding of cells expressing the FN receptor to FN (2). In order to determine the extent of inhibition of cell attachment to FN by RGD containing peptides, NIH3T3 cells were detached and incubated in the presence of increasing amounts of cyclic-RGD peptides (FIG.
8A) and then plated onto FN-coated E-plates and monitored by the RT-CES system. As seen in FIG. 8, cyclic-RGD containing peptides blocked NIH3T3 cell adhesion and spreading in a concentration-dependent manner. A control peptide, laclcing the RGD motif had no effect on cell attachment and spreading (FIG. 8A and B). Comparison of the relative extent of cell attachment and spreading at two hours indicate that the 0.1 M
and 1 M
cyclic-RGD peptides block cells adhesion and spreading by 20 % and 40 %, respectively.
In summary these experiments indicate that, perturbation with integrin receptor function can be assessed quantitatively and in real-time using the RT-CES system.

Example 6: Inhibition of Cell Attachment and Spreading Using Actin-Disrupting Agents or Compounds and Specific Inhibitors of Signaling Proteins Involved In Attachment and Spreading Integ-in-mediated cell adhesion is knowm to orsanize the actin cytoskeleton in a specific manner. Vise versa. the actin cytoskeleton also participates in organizina integzins and other intracellular signalina proteins into signalina modules which regulates cell attachnlent and spreadinQ (1). To determine the.role of.the actin.cy-tosheleton in cell attachment and spreading using the RT-CES system, NIIH3T3 cells were detached and pre-i.ncubated with increasing concentrations of Latriculin, which is a potent inhibitor of actin polynlerization. The cells were then seeded onto FN-coated wells in ACEA
E-plates and the extent of adhesion and spreading was monitored usiug the RT-CES
system. As shown in FIG. 9A, Latriculin inhibits cell attachment and spreading in a concentration-dependent manner. Analysis of the extent of cell attachment and spreading at two hours, clearly demonstrates that Latriculin is a potent inhibitor of cell attachment and spreading (FIG. 9B).
One of the main signaling proteins which participates in integrin-mediated cell attachment and spreading is the Src family of non-receptor tyrosine kinases (1). In order to determine the contribution of Src family kinases to cell attachment and spreading, BxPC3 cells were pre-incubated with the Src kinase inhibitor PP2 and then seeded onto FN-coated wells in ACEA E-plate. The extent of cell attachment and spreading was rnonitored using the RT-CES system. As shown in FIG. 10, cell attachment and spreading is significantly inhibited in the presence of the Src inhibitor. At two hoursafter seeding the cells treated with the PP2 compound displayed an approxinlately 60 %
inhibition of cell attachment and spreading relative to DMSO treated cells.
This fmding confirms previous results using conventional methods to assess cell attachnient and spreading in the presence of the Src family inhibitor (3).
As an additional method for assessing the role of Src kinase in cell attaclunent and spreading, BxPC3 cells were transfected with a control siRNA or a siRNA
specific for the c-Src mRNA. Forty eight hours after transfection, the cells were detached and seeded onto FN-coated wells in ACEA E-plate and the extent of cell adhesion and spreading was monitored using the RT-CES system. As shown in FIG. 11A and B, down regulation of the c-Src gene product leads to a 30 % decrease in cell attachment and spreading at two hours post-cell seeding. The disparity between the extent of cell attachment and spreading using the PP2 inhibitor and the c-Src siRNA can be explained by the fact that PP2 inhibits all Src family members and the siRNA is only specific for c-Src.

In sununan-. the RT-CES svstem can monitor and assess cell attachment and spreadinR quantitativelv, under label-free conditions and in real-time. The preclusion of labelinQ saves on expensive reaQents and time. Moreover, the other major advantaQe of usinQ the RT-CES svstem is that since the readout is non-invasive, the user, in addition to nlonitorina the effect of matrix proteins on adhesion and spreading can continue to monitor its effect on other bioloaical events such as differentiation or proliferation. Using traditional methods, it would have been necessary to perform separate experiments for each of these events.

All headings used with the present invention are provided to assist the reader and are not intended as liuniting the scope of the invention.

Claims

1. A microlectronic cell sensor array comprising:
a) a non-conductive substrate;
b) a plurality of electrode arrays positioned on said substrate, wherein each electrode array comprises at least two electrodes, further wherein each electrode is separated from at least one adjacent electrode by an area of non-conductive material; and c) a biological molecule or an organic compound, and optionally a control molecule or a control compound positioned on a portion of said substrate.

2. The device according to claim 1, wherein said non-conductive substrate has two opposing ends along a longitudinal axis.

3. The device according to claim 2, wherein electrically conductive traces extend substantially longitudinally to one of said two opposing ends of said substrate, and further wherein each trace is in electrical communication with at least one of said electrode arrays.

4. The device according to claim 2, wherein the substrate is configured as a flat surface.

5. The device according to claim 1, wherein said substrate is constructed at least in part from a material selected from the group consisting of glass, sapphire, silicon dioxide on silicon, and a polymer.

6. The device according to claim 1, wherein said at least two electrodes have a width at a widest point of more than 1.5 and less than 10 times the width of said area of non conductive material.

7. The device according to claim 1, wherein said each electrode array comprises a plurality of evenly spaced electrodes.

8. The device according to claim 1, wherein said each electrode array is organized in an interdigitated configuration.

9. The device according to claim 1, wherein said each electrode array is organized in a configuration selected from the group consisting of concentric, sinusoidal, or castellated.

10. The device according to claim 1, wherein said biological molecule is selected from the group consisting of a DNA molecule, an RNA molecule and a protein.

11. The device according to claim 1, wherein said biological molecule is selected from the group consisting of an antibody, a ligand, a peptide and a receptor.

12. The device according to claim 1, wherein said biological molecule is a protein isolated from an extracellular matrix.

13. The device according to claim 1, wherein said biological molecule is capable of binding to an integrin or a cell surface receptor.

14. The device according to claim 1, wherein said biological molecule comprises an extracellular matrix protein or a peptide with arginine-glycine-aspartic acid (RGD) motif.

15. The device according to claim 1, wherein said organic compound is an agonist or antagonist for a cell surface receptors involved in cell adhesion.

16. The device according to claim 1, further comprising at least two wells, wherein said at least two wells are disposed on said nonconductive substrate in a perpendicular orientation thereto, further wherein said at least two wells comprise said electrode array and said biomolecule or said organic compound.

17. A method of coating a microlectronic cell sensor array with a biological molecule or organic compound comprising:
a) providing a microelectronic cell sensor array comprising:
i) a non-conductive substrate;
ii) a plurality of electrode arrays positioned on said substrate, wherein each electrode array comprises at least two electrodes, and further wherein each electrode is separated from at least one adjacent electrode by an area of non-conductive material; and b) incubating a test solution on a first portion of said electrode array and a control solution on a second portion of said electrode array, wherein said test solution comprises a biological molecule or organic compound and said control solution comprises a vehicle control and optionally a control molecule or control compound, further wherein said incubation occurs under conditions suitable for attaching said biological molecule or organic compound to said electrode array or said nonconductive substrate.

18. The method according to claim 17, wherein said biological molecule is a protein isolated from an extracellular matrix.

19. The method according to claim 17, wherein said biological molecule or organic compound covalently attaches to said electrode array or said nonconductive substrate.

20. The method according to claim 17, wherein said biological molecule or organic compound noncovalently attaches to said electrode array or said nonconductive substrate.

21. The method according to claim 17, wherein said organic compound is a agonist or antagonist for a cell surface receptor.

22. The method according to claim 17, wherein said microelectronic cell sensor array further comprises a test well and a control well, further wherein said test well is positioned along said first portion and said control well is positioned along said second portion.

23. The method according to claim 17, further comprising washing said first and second portion of said electrode array.

24. A method of monitoring cell adhesion or cell spreading comprising:
a) providing the device according to claim 1 operably connected to an impedance analyzer; said device comprising a test portion and a control portion;
b) introducing a cell or cell population to a test portion and to a control portion;
c) performing a series of impedance measurements of said test portion and said control portion;
d) determining the change in impedance and optionally a cell index (CI) of said test portion and the change in impedance and optionally a cell index (CI) of said control portion;

e) comparing said change in impedance of said test portion to said change in impedance of said control portion or comparing said cell index (CI) of said test portion to said cell index (CI) of said control portion; and f) determining cell adhesion or cell spreading occurs if said comparison demonstrates a significant change in impedance.

25. The method according to claim 24, wherein said device comprises at least two test portions, wherein said biological molecule or said organic compound is positioned on said at least two test portions optionally in different concentrations, further wherein said impedance measurement is performed for each of said at least two test portions and said change in impedance and optionally said cell index (CI) is determined for each of said at least two test portions.

26. The method according to claim 24, wherein said at least two test portions are at least two test wells and said control portion is a control well, wherein said at least two test wells and said control well are perpendicularly oriented to said longitudinal axis.

27. The method according to claim 24, wherein said cell is a eukaryotic cell or said cell population is a eukaryotic cell population.

28. The method according to claim 27, wherein said eukaryotic cell is a human cell or said eukaryotic cell population is a human cell population.

29. The method according to claim 24, wherein said cell is a B-lymphocyte, T-lymphocyte or other immune cell or said cell population is a B-lymphocyte population, T-lymphocyte population or other immune cell population.

30. The method according to claim 24, wherein said series of measurements are performed at regular time intervals.

31. The method according to claim 24, wherein said series of measurements are performed at irregular time intervals.

32. A method of identifying a compound or biological molecule capable effecting cell adhesion or cell spreading comprising:
a) providing a device according to claim 1 operably connected to an impedance analyzer, wherein the substrate is coated with biological molecule or organic compound capable of supporting cell adhesion or spreading on a test portion and a control biological molecule or control organic compound on a control portion;
b) introducing a cell or cell population to said test portion and to said control portion;
c) performing a series of impedance measurements of said test portion and said control portion;
d) determining the change in impedance and optionally a cell index (CI) of said test portion and the change in impedance and optionally a cell index (CI) of said control portion;
e) comparing said change in impedance of said test portion to said change in impedance of said control portion or comparing said cell index (CI) of said test portion to said cell index (CI) of said control portion; and f) determining cell adhesion or cell spreading is effected if said comparison demonstrates a significant change in impedance.

33. The method according to claim 32, wherein said biological compound or organic compound increases cell spreading or cell adhesion if said test portion is significantly greater than said control portion.

34. The method according to claim 32. wherein said biological compound or organic compound inhibits or reduces cell spreading or cell adhesion if said control portion is significantly greater than said test portion.

35. A method of identifying an inhibitor of cell adhesion or cell spreading comprising:
a) Providing a microlectronic cell sensor array operably connected to an impedance analyzer, said microelectronic cell sensor array comprising:
i) a non-conductive substrate;
ii) a plurality of electrode arrays positioned on said substrate, wherein each electrode array comprises at least two electrodes, further wherein each electrode is separated from at least one adjacent electrode by an area of non-conductive material;
iii) a biological molecule or organic compound positioned on said test portion of said substrate and on a control portion of said substrate, wherein said biological molecule or organic compound is known to be capable of increasing cellular adhesion or cellular spreading;
b) preincubating a cell or cell population with a biological molecule or compound suspected of being an inhibitor of cell migration or cell adhesion defined as a test sample and preincubating a cell or cell population with a vehicle control defined as a control sample;
c) introducing said test sample to said test portion and said control sample to said control portion;
d) performing a series of impedance measurements of said test portion and said control portion;
e) determining the change in impedance and optionally a cell index (CI) of said test portion and the change in impedance and optionally a cell index (CI) of said control portion;
f) comparing said change in impedance of said test portion to said change in impedance of said control portion or comparing said cell index (CI) of said test portion to said cell index (CI) of said control portion; and g) determining cell adhesion or cell spreading is reduced or inhibited if said comparison demonstrates said change in impedance or cell index is greater in said control portion than said test portion.