U.S. patent application number 15/146293 was filed with the patent office on 2016-08-25 for methods and apparatus for conducting multiple measurements on a sample.
This patent application is currently assigned to Meso Scale Technologies, LLC.. The applicant listed for this patent is Meso Scale Technologies, LLC.. Invention is credited to Hans Biebuyck, Jeff D. Debad, Paula Denney Eason, Eli N. Glezer, Kent Johnson, John H. Kenten, Niranjan Y. Sardesai, George Sigal, Michael Tsionsky, Robert M. Umek, James Wilbur, Jacob N. Wohlstadter.
Application Number | 20160245799 15/146293 |
Document ID | / |
Family ID | 27502157 |
Filed Date | 2016-08-25 |
United States Patent
Application |
20160245799 |
Kind Code |
A1 |
Glezer; Eli N. ; et
al. |
August 25, 2016 |
METHODS AND APPARATUS FOR CONDUCTING MULTIPLE MEASUREMENTS ON A
SAMPLE
Abstract
Multiplexed test measurements are conducted using an assay
module having a plurality of assay domains. In preferred
embodiments, these measurements are conducted in assay modules
having integrated electrodes with a reader apparatus adapted to
receive assay modules, induce luminescence, preferably electrode
induced luminescence, in the wells or assay regions of the assay
modules and measure the induced luminescence.
Inventors: |
Glezer; Eli N.; (Del Mar,
CA) ; Johnson; Kent; (Colombus, OH) ;
Tsionsky; Michael; (Rockville, MD) ; Kenten; John
H.; (Boyds, MD) ; Debad; Jeff D.;
(Gaithersburg, MD) ; Umek; Robert M.; (Silver
Spring, MD) ; Eason; Paula Denney; (Germantown,
MD) ; Biebuyck; Hans; (Gaithersburg, MD) ;
Wohlstadter; Jacob N.; (Potomac, MD) ; Wilbur;
James; (Boyds, MD) ; Sigal; George;
(Rockville, MD) ; Sardesai; Niranjan Y.; (North
Wales, PA) |
|
Applicant: |
Name |
City |
State |
Country |
Type |
Meso Scale Technologies, LLC. |
Rockville |
MD |
US |
|
|
Assignee: |
Meso Scale Technologies,
LLC.
Rockville
MD
|
Family ID: |
27502157 |
Appl. No.: |
15/146293 |
Filed: |
May 4, 2016 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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12977271 |
Dec 23, 2010 |
9354230 |
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15146293 |
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10238391 |
Sep 10, 2002 |
7858321 |
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12977271 |
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60363498 |
Mar 11, 2002 |
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60318293 |
Sep 10, 2001 |
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60318284 |
Sep 10, 2001 |
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60318289 |
Sep 10, 2001 |
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Current U.S.
Class: |
1/1 |
Current CPC
Class: |
G01N 33/54373 20130101;
G01N 2333/57 20130101; G01N 33/573 20130101; G01N 2333/11 20130101;
C12Q 1/485 20130101; G01N 33/54386 20130101; G01N 33/6842 20130101;
G01N 33/5304 20130101; G01N 33/54366 20130101; G01N 33/6803
20130101; G01N 33/68 20130101; G01N 2333/525 20130101; G01N
2333/135 20130101; G01N 33/6845 20130101; G01N 33/56944 20130101;
G01N 33/56988 20130101; G01N 33/5438 20130101; G01N 2333/5412
20130101; Y10S 436/807 20130101; G01N 2333/16 20130101; G01N
33/56983 20130101; G01N 2333/545 20130101; G01N 2333/71 20130101;
G01N 2333/9121 20130101 |
International
Class: |
G01N 33/53 20060101
G01N033/53; G01N 33/573 20060101 G01N033/573; G01N 33/68 20060101
G01N033/68; G01N 33/569 20060101 G01N033/569 |
Claims
1. An assay module for conducting luminescence assays comprising a
plurality of assay domains, said assay domains comprising a first
assay domain having a first reagent and a second assay domain
having a second reagent, wherein said first assay domain is capable
of generating luminescence at least 10 times brighter than said
second assay domain and said first assay domain and said second
assay domains are not adjacent and/or are separated by at least one
other assay domain to reduce luminescence emitted from said first
assay domain from interfering with luminescence emitted from said
second assay domain.
2. The assay module of claim 1, wherein said first assay domain
comprises at least 10 times capture reagent than said second assay
domain.
3. The assay module of claim 1, wherein said first assay domain is
capable of generating luminescence at least 100 times brighter than
said second assay domain.
4. The assay module of claim 1, wherein said first assay domain is
capable of generating luminescence at least 1,000 times brighter
than said second assay domain.
5. The assay module of claim 1, wherein said second assay domain
has one or more properties that diminish emitted luminescence.
6. The assay module of claim 5, wherein said one or more properties
include a capture reagent that diminishes emitted luminescence
and/or a target analyte that diminishes emitted luminescence.
7. The assay module of claim 1, wherein said first assay domain is
separated from said second assay domain by at least one other assay
domain.
8. The assay module of claim 1, wherein said first assay domain and
said second assay domain are separately addressable.
9. The assay module of claim 1, wherein said assay module is a
multi-well plate comprising a plurality of wells, each of said
wells having a copy of said plurality of assay domains.
10. An assay module comprising a plurality of assay domains for
measuring a panel of analytes, said panel comprising a plurality of
analytes that are members of an analyte category selected from
cytokines and/or their receptors; growth factors and/or their
receptors; second messengers; drugs of abuse; therapeutic drugs;
auto-antibodies; allergen specific antibodies; tumor markers;
cardiac markers; markers associated with hemostasis; markers of
acute viral hepatitis infection; markers of Alzheimers Disease;
markers of osteoporosis; markers of fertility; markers of
congestive heart failure; markers of thyroid disorders; markers of
prostrate cancer; nucleic acid arrays for measuring mRNA levels of
mRNA coding for cytokines, growth factors, components of the
apoptosis pathway, expression of the P450 enzymes or expression of
tumor related genes; nucleic acid arrays for genotyping
individuals, pathogens, or tumor cells.
11. An assay module of claim 10, wherein said assay domains
comprise: (i) analytes or analogs of analytes; (ii) binding
reagents that bind analytes; and/or (iii) substrates for catalytic
activity of analytes.
12. A method of performing an assay for a plurality of analytes
using an assay module of claim 10, said method comprising: (a)
contacting a sample with a plurality of assay domains within said
assay module; and (b) measuring said analytes at said assay
domains.
13. A method for detecting or correcting for a source of assay
error in an assay for an analyte comprising: (a) introducing a
sample comprising analyte into an assay module comprising (i) a
first assay domain comprising a first reagent capable of binding
said analyte; and (ii) a second assay domain comprising said first
reagent; wherein said first assay domain and said second binding
domain having different properties, said different properties
selected from the group consisting of surface area, reagent
concentration, heat stability, pH stability, hydrophobic or
hydrophilic properties, co-reactants, epitope specificity, binding
kinetics, non-specific binding properties, binding constants,
and/or thermodynamics; and (b) comparing the binding of the analyte
to the first and second assay domains so as to detect or correct
for sources of assay error.
14. An assay module for conducting an assay on a sample comprising
an analyte and at least one interferent, said module comprising:
(a) an assay domain capable of binding said analyte; and (b) a
sequestering domain capable of binding said interferent.
15. The assay module of claim 14, wherein said module is adapted to
measure said interferent bound to said sequestering domain.
16. A method for measuring an analyte in the presence of an
interferent comprising: (a) introducing the sample into the assay
module of claim 14; and (b) detecting the binding of said analyte
to said assay domain.
17. An assay module comprising a plurality of assay domains,
wherein said plurality of assay domains comprises one or more assay
domains comprising one or more binding reagents and further
comprising a first control domain comprising pre-bound label, a
second control domain providing a defined reaction and a third
control domain consisting essentially of blocking agent.
18. The assay module of claim 17, wherein said first control domain
controls for one or more of the following: (i) chemical
interference with ECL generation; (ii) optical interference with
light transmission; and/or (iii) module variation.
19. The assay module of claim 17, wherein said second control
domain controls for one or more of the following: (i) non-specific
binding or biochemical activity; (ii) chemical interference with
ECL generation; (iii) optical interference with light transmission;
(iv) pipetting errors; (v) timing errors; (vi) variations in
mixing; (vii) variations in temperature; and (viii) assay module
variation.
20. The assay module of claim 17, wherein said third control domain
controls for non-specific binding.
21. An assay module comprising one or more assay domains comprising
assay reagents and one or more sequestrating domains comprising
sequestration agents for sequestering interfering species.
22. The assay module of claim 21, wherein said one or more
sequestrating domains sequest one or more of the following
interfering species: biotin; anti-Streptavidin; hemoglobin;
bilirubin; lipid; high and low albumin; HAMA; anti-ruthenium; high
Rheumatoid Factor; DLIF's for digoxin or digitoxin type molecules;
drugs/co meds; cross reactive analytes; and combinations
thereof.
23. An assay module comprising one or more assay domains comprising
assay reagents and one or more sequestrating domains comprising
sequestration agents capable of sequestering a labeled reagent.
Description
CROSS-REFERENCE TO RELATED APPLICATIONS
[0001] The present application is a continuation of copending
application Ser. No. 12/977,271, filed Dec. 23, 2010, which is a
divisional of copending application Ser. No. 10/238,391, filed Sep.
10, 2002, now U.S. Pat. No. 7,858,321, which claims priority to
U.S. Provisional Application No. 60/363,498, filed Mar. 11, 2002;
U.S. Provisional Application Ser. No. 60/318,293, filed Sep. 10,
2001; U.S. Provisional Application No. 60/318,284, filed Sep. 10,
2001; and U.S. Provisional Application Ser. No. 60/318,289, filed
Sep. 10, 2001, each of which are hereby incorporated by
reference.
FIELD OF THE INVENTION
[0002] This application relates to reagents, apparatus, systems,
kits and methods for conducting multiple chemical, biochemical
and/or biological assays on a sample.
BACKGROUND OF THE INVENTION
[0003] At this time, there are a number of commercially available
instruments that utilize electrochemiluminescence (ECL) for
analytical measurements including drug screening. Species that can
be induced to emit ECL (ECL-active species) have been used as ECL
labels. Examples of ECL labels include: i) organometallic compounds
where the metal is from, for example, the noble metals of group
VIII, including Ru-containing and Os-containing organometallic
compounds such as the tris-bipyridyl-ruthenium (RuBpy) moiety and
ii) luminol and related compounds. Species that participate with
the ECL label in the ECL process are referred to herein as ECL
coreactants. Commonly used coreactants include tertiary amines
(e.g., see U.S. Pat. No. 5,846,485), oxalate, and persulfate for
ECL from RuBpy and hydrogen peroxide for ECL from luminol (see,
e.g., U.S. Pat. No. 5,240,863). The light generated by ECL labels
can be used as a reporter signal in diagnostic procedures (Bard et
al., U.S. Pat. No. 5,238,808, herein incorporated by reference).
For instance, an ECL label can be covalently coupled to a binding
agent such as an antibody, nucleic acid probe, receptor or ligand;
the participation of the binding reagent in a binding interaction
can be monitored by measuring ECL emitted from the ECL label.
Alternatively, the ECL signal from an ECL-active compound may be
indicative of the chemical environment (see, e.g., U.S. Pat. No.
5,641,623 which describes ECL assays that monitor the formation or
destruction of ECL coreactants). For more background on ECL, ECL
labels, ECL assays and instrumentation for conducting ECL assays
see U.S. Pat. Nos. 5,093,268; 5,147,806; 5,324,457; 5,591,581;
5,597,910; 5,641,623; 5,643,713; 5,679,519; 5,705,402; 5,846,485;
5,866,434; 5,786,141; 5,731,147; 6,066,448; 6,136,268; 5,776,672;
5,308,754; 5,240,863; 6,207,369; 6,214,552 and 5,589,136 and
Published PCT Nos. WO99/63347; WO00/03233; WO99/58962; WO99/32662;
WO99/14599; WO98/12539; WO97/36931 and WO98/57154.
[0004] Commercially available ECL instruments have demonstrated
exceptional performance. They have become widely used for reasons
including their excellent sensitivity, dynamic range, precision,
and tolerance of complex sample matrices. The commercially
available instrumentation uses flow cell-based designs with
permanent reusable flow cells. Recently, ECL instrumentation has
been disclosed that uses reagents immobilized on the electrode used
to induce ECL (see, e.g., U.S. Pat. Nos. 6,140,045; 6,066,448;
6,090,545; 6,207,369 and Published PCT Appl. No. WO98/12539).
Multi-well plates having integrated electrodes suitable for such
ECL measurements have also been recently disclosed (see, e.g.,
copending U.S. application Ser. Nos. 10/185,274 and 10/185,363
(entitled "Assay Plates, Reader Systems and Methods for
Luminescence Test Measurements", each filed on Jun. 28, 2002,
hereby incorporated by reference). These multi-well plates having
integrated electrodes include plates having multiple assay domains
within a well.
[0005] The use of multi-well assay plates allows for the parallel
processing and analysis of multiple samples distributed in multiple
wells of a plate. Typically, samples and reagents are stored,
processed and/or analyzed in multi-well assay plates (also known as
microplates or microtiter plates). Multi-well assay plates can take
a variety of forms, sizes and shapes. For convenience, some
standards have appeared for some instrumentation used to process
samples for high throughput assays. Assays carried out in
standardized plate formats can take advantage of readily available
equipment for storing and moving these plates as well as readily
available equipment for rapidly dispensing liquids in and out of
the plates. Some well established multi-well plate formats include
those found on 96-well plates (12.times.8 array of wells), 384-well
plates (24.times.16 array of wells) and 1536-well plate
(48.times.32 array of well). The Society for Biomolecular Screening
has published recommended microplate specifications for a variety
of plate formats, the recommended specifications hereby
incorporated by reference.
SUMMARY OF THE INVENTION
[0006] The present invention includes apparatus, systems, system
components, reagents, kits and methods for performing a plurality
of assays on a sample. The invention includes assay modules having
one or more assay cells (e.g., wells, compartments, chambers,
channels, flow cells, etc.) that comprise a plurality of assay
domains (e.g., discrete locations on a module surface where an
assay reaction occurs and/or where an assay signal is emitted for
carrying out a plurality of assay measurements. The assay cell is,
preferably, adapted to hold a volume of fluid in contact with assay
domains within the assay cell without contacting assay domains in
other assay cells of an assay module. In preferred embodiments, the
assay modules are multi-well plates, the plates comprising a
plurality of wells, one or more of the wells comprising a plurality
of assay domains (referred to herein as Multi-Domain Multi-Well
Plates or MDMW Plates). Preferably, the plates are designed to be
compatible with plate handling equipment (e.g., fluid dispensers,
plate washers, plate stackers, plate movers, and/or plate readers)
designed for use with standard format multi-well plates.
[0007] The assays of the invention are preferably coupled to a
detection step that involves the use of an electrode, the
generation of light, and the measurement of the generated light.
Examples of processes that may be used in such a detection step
include electrochemiluminescence (also referred to as
electrogenerated chemiluminescence), electroluminescence, and
chemiluminescence triggered by an electrochemically- generated
species. For the purposes of the application and for convenience,
these three processes will be referred to as "electrode induced
luminescence". Electrochemiluminescence involves electrogenerated
species and the emission of light. For example,
electrochemiluminescence may involve luminescence generated by a
process in which one or more reactants are generated
electrochemically and undergo one or more chemical reactions to
produce species that emits light, preferably repeatedly. The
invention also relates to assays and measurements that do not
require the use of an electrode, for example, the assays of the
invention may be based on measurements of chemiluminescence,
fluorescence, bioluminescence, phosphorescence, optical density and
processes that involve the emission of light from a scintillant.
The invention also relates to assays and measurements that do not
involve luminescence, for example, the assays of the invention may
be based on measurements of electrochemical processes (e.g.,
processes involving the measurement or generation of current or
voltage), electrical processes (e.g., processes involving the
measurement of resistance or impedance), surface plasmon resonance
or optical interference effects.
[0008] Accordingly, in certain preferred embodiments of the
invention, the assay modules and/or MDMW Plates are adapted to
allow assay measurements to be conducted using electrode induced
luminescence measurements (most preferably,
electrochemiluminescence measurements), e.g., as described in
copending U.S. application Ser. Nos. 10/185,274 and 10/185,363
(entitled "Assay Plates, Reader Systems and Methods for
Luminescence Test Measurements"), each filed on Jun. 28, 2002,
hereby incorporated by reference. Advantageously, assay domains
patterned on a surface of a well (e.g., on an electrode in a well
adapted for conducting electrode induced luminescence measurements)
are defined by physical boundaries which can include ledges or
depressions in the surface, patterned materials deposited or
printed on the surface, and or interfaces between regions of the
surface that vary in a physical property (e.g., wettability). Such
physical boundaries simplify the patterning of reagents on surfaces
of a well by confining and preventing the spreading of small drops
of reagents applied to an assay domain.
[0009] By providing two levels of multiplexing (multiple wells per
plate and multiple domains per well), MDMW Plates provide a variety
of advantages over conventional multi-well plates that only have
one assay domain per well. For example, a MDMW Plate having N wells
and M assay domains per well allows a panel of M assays to be run
on a plurality of N samples. Conducting the same series of assays
on conventional N-well plates would require M plates, M times more
sample and reagents, and considerably more pipetting and plate
handling steps to achieve the same performance. Conducting the same
series of assays on conventional array "chips" would involve the
handling and movement of N chips and would likely not be compatible
with standard plate handling equipment designed for use with
multi-well plates. Conducting the same series of assays on a single
ultra-high density multi-well plate with M.times.N wells would
generally lead to reduced assay sensitivity (sample volume and,
therefore, number of analyte molecules, tends to scale inversely
with the density of wells on a plate) as well as to other problems
associated with ultra-high density plate formats (e.g., expensive
and complicated fluid dispensing equipment, lack of mixing,
evaporative losses, trapping of air bubbles, inability to carry out
wash steps, etc.).
[0010] The invention includes assay formats that take advantage of
multiplexing available through the use of assay cells comprising
multiple assay domains and, in particular, through the use of MDMW
Plates. Some examples of preferred assay formats are described
below. It is understood that while some of the forms are described
in terms of MDMW Plates, they can be applied to other assay modules
comprising assay cells with multiple domains. It is also understood
that the multiplicity of assay domains available within an assay
cell allows many of the formats described below to be combined
within one cell.
[0011] In one preferred assay format, a plurality of analytes or
activities are measured within one well of a MDMW plate. For
example, panels of assays may be developed for measuring a
plurality of analytes or activities associated with a particular
biological system (e.g., panels of immunoassays or hybridization
assays for monitoring cytokine mRNA or protein levels), disease
state (e.g., panels of assays for cardiac markers, for identifying
allergens responsible for allergic reactions, for identifying
infectious organisms, etc.), tissue type, organism, class of
protein, enzyme or biological molecule, etc. In one embodiment, a
panel of assays is used to provide a fingerprint for identifying a
biological system (e.g., a pattern of analyte levels associated
with a particular cell type, organelle type, organism type, tissue
type, bacteria or virus). For example, a plurality of assays for
different components found within a genus of biological systems can
be used to identify species or subspecies within that genus. In
another embodiment, a differential measurement involving a
plurality of assays for different components within a biological
system is used to identify the state of the biological system
(e.g., diseased vs. normal state, activated vs. normal state, etc.)
or to identify the components within a biological system that are
affected by an external condition or stimulus (e.g., changes in the
distribution of components associated with development of a disease
state, addition of a stimulatory species, addition of a potential
drug candidate, changes in environmental conditions such as pH,
temperature, etc.). Assay panels may also be used to determine the
function of one or more proteins. For example, a protein may be
screened against a patterned library of enzyme substrates and/or
potential binding partners to identify enzymatic or binding
activities. Conversely, a patterned library of proteins may be
exposed to a known biological material to determine if any of the
proteins binds to, reacts with or is otherwise transformed by the
biological material.
[0012] In another preferred assay format, some fraction of the
assay domains present in a well are devoted to internal standards,
controls or calibrators. For example, one or more assay domains may
be left uncoated or may be coated with a blocking agent or a
biomaterial not expected to participate in a reaction with a
sample; such assay domains may be used to measure and/or correct
for non-specific binding of labels to surface in the well. In
another example, one or more assay domains is coated with a labeled
reagent (e.g., a reagent labeled with an ECL label); such assay
domains may be used to measure and/or correct for conditions that
may affect the generation and measurement of signal (e.g., ECL)
from a label (e.g., pH, temperature, chemical interferents, colored
species, etc.). In another example, one or more assay domains are
used to carry out a control assay for a control analyte that is
spiked into the assay mixture. Preferably, the control assay is
similar in format to assays carried out on other assay domains.
Control assays may be used to measure and/or correct for
non-specific binding, conditions that affect the generation of
signal from a label and conditions that affect assay reactions
(variations in incubation time, temperature, mixing, etc.).
[0013] In another preferred assay format the same analyte or
activity is measured in multiple domains within a well; such
redundancy can allow for greater statistical confidence in an assay
result. Such multiple measurements of the same analyte may involve
the use of multiple roughly identical assay domains or,
alternatively, may involve the use of assay domains that vary in
some property (for example, domain size, domain location, surface
density of an assay reagent, blocking agent, assay reagent
affinity, assay reagent specificity, assay format, sensitivity to
interferents, sensitivity to temperature, assay kinetics,
sensitivity to optical distortion, etc.) so as to account for,
detect, and/or compensate for a source of assay error (e.g.,
inconsistent or non-homogenous mixing, steric crowding of assay
reagents in an assay domain, non-specific binding, matrix effects,
interfering species, imprecise temperature control, imprecise
timing of assay steps, exceeding of assay dynamic range, variation
in fluid volume or meniscus shape, etc.).
[0014] In another preferred assay format, the same analyte or
activity is measured in multiple domains within a well, the domains
being comprised on individually addressable electrodes. In such a
system one may measure the kinetics of an assay reaction by
sequentially applying electrical energy to individual assay domains
at selected times and measuring the change in electrical current,
electrical potential, or, preferably, electrode induced
luminescence (most preferably, ECL) over time. By measuring
different time points at different assay domains, it is not
necessary to repeatedly apply possibly damaging electrical energy
to the same assay domain.
[0015] In another preferred assay format, the same analyte is
measured at different assay domains within a well, the different
assay domains being designed to measure a different property or
activity of the analyte. In one embodiment, an enzyme with multiple
different activities is measured in a well comprising different
assay domains that differ in their selectivity for each enzymatic
activity of the enzyme (e.g., assay domains that comprise
substrates for selected enzymatic activities and/or assay domains
that are capable of capturing and measuring the substrates or
products of selected enzymatic activity), that are designed to
measure binding activities of the enzyme (e.g., assay domains
comprising potential binding partners of the enzyme or that are
designed to capture the enzyme so as to allow the measurement of
interaction with potential binding partners in solution) and/or
assay domains designed to measure the ability of the enzyme to act
as a substrate for a second enzyme (e.g., binding domains designed
to allow for a specific binding assay of the product of the action
of the second enzyme on the first enzyme). In another embodiment, a
well comprises a domain for measuring the amount of an enzyme
(e.g., via a binding assay such as an immunoassay) and one or more
other domains for measuring one or more activities associated with
the enzyme; this embodiment allows the measured activity to be
referenced to the amount of enzyme. The inclusion of assay domains
capable of capturing an enzyme of interest has the added advantage
of allowing the purification of the enzyme from a crude sample
within the assay well. In yet another embodiment of the invention,
a well comprises an assay domain capable of capturing an enzyme of
interest and one or more additional assay domains for measuring an
activity of the enzyme of interest. Methods using such a well may
include a wash step for purifying the enzyme from impurities in a
crude enzyme preparation.
[0016] In another preferred assay format, the number of
measurements that can be carried out in one well is increased by
co-immobilizing a plurality of assay reagents in each domain within
the well. For example, one can screen for the binding partner of a
biomaterial of interest by patterning a library of M potential
binding partners on M assay domains in a well, exposing the well to
a sample containing a labeled biomaterial and looking for the assay
domain that produces a signal indicative of a binding event.
Alternatively, one can pattern a library of M.times.I potential
binding partners by co-immobilizing I potential binding partners in
each assay domain. A signal at a specific assay domain would
indicate that one of I potential binding partners has binding
activity; the identity of the binding partner could be determined
by then individually testing each component of that assay domain.
Advantageously, an assay kit may contain a first MDMW plate that
multiplexes assay reagents within assay domains of a well and a set
of additional MDMW plates that are patterned so as to allow the
testing of each individual component of an assay domain in the
first plate (e.g., a second MDMW Plate having a well with a
plurality of assay domains each comprising one component of an
assay domain on the first plate).
[0017] In another preferred embodiment, the number of assay
components that can be patterned and uniquely identified on an
array of M domains(where M is an integer greater than three) is
increased by patterning each reagent into a unique group of assay
domains. For example, one can pattern a library of up to
Z=(M!)/[2!(M-2)!] potential binding partners (preferably, >M
binding partners) so that up to (M-1) binding partners are
immobilized in each domain but one or more (preferably, all)
binding partners are immobilized in a unique pair of domains (the
other binding partners, preferably, being immobilized in unique
sets of one domain. In this case, those one or more binding
partners can be identified by looking for pairs of assay domains
producing signals indicative of a binding event. By way of example,
wells comprising 4, 7, 10, and 25 assay domains have, respectively,
6, 21, 45 and 300 unique pairs of domains per well. Similarly, one
can pattern a library of up to (M!)/[Z!(M-Z)!] potential binding
partners (preferably, >M binding partners) so that one or more
(preferably, all) binding partners are immobilized in a unique
group of Z domains. The number of components that can be screened
in a given well can be further increased by patterning some
components in groups of Z.sub.1 domains, others in groups of
Z.sub.2 domains and so on, where Z.sub.1, Z.sub.2, . . . are
integers greater than or equal to one and less than or equal to
M.
[0018] In another preferred assay format, potentially
cross-reacting analytes are measured in different domains in the
same well. For example, two similar analytes (a first analyte and a
second analyte) may be measured using two assay domains comprising
binding reagents (a first domain selective for the first analyte
and a second domain selective for the second analyte) even if the
binding reagents are only partially selective for each analyte. By
carrying out the assays in the same well, the binding of the second
analyte to the second domain reduces its effective concentration in
solution and reduces its ability to interfere with the measurement
of the first analyte at the first domain. To the extent that such
effects do not completely eliminate cross-reactions, the ability to
measure both cross-reacting species allows for the mathematical
deconvolution of signals so as to further reduce the effect of
cross-reactions on assay results. Such deconvolutions can, e.g., be
based on empirical calibrations (e.g., using a two dimensional
matrix of calibrators varying the concentrations of both analytes,
preferably the calibrators are chosen and the results modeled using
Design of Experiment techniques) or on theoretical models (e.g.,
models derived using the thermodynamic and/or kinetic parameters
associated with each possible binding interaction). Optionally,
only the first analyte is measured and the second domain serves
only to sequester the second analyte and prevent it from
interfering with the measurement of the first analyte. The methods
described above for reducing cross-reactions and interferences can
be used to i) reduce and/or account for interfering substances in
crude biological samples (e.g., blood, plasma, serum, tissue
extracts, cell extracts) such as bilirubin, lipid, hemaglobin
and/or ii) to aid in preventing and/or to prevent assay
interference and cross-reactions from closely related species,
e.g., to aid in measuring and distinguishing between closely
related drugs and related metabolites, steroidal hormones and
related metabolites, vitamins and related metabolites, modified
forms of proteins, nucleic acids and saccharides (e.g., different
phosphorylation states of an analyte, between different degradation
states of an analyte, different bound states of an analyte, etc.),
etc.
[0019] In another preferred assay format, a plurality of different
assay domains in a well are adapted to measure different forms of
an analyte of interest. By way of example, domains may be adapted
to measure free and bound forms of an analyte of interest (e.g.,
free PSA vs. bound PSA), to measure unmodified and/or modified
forms of an analyte of interest (examples of modifications that can
be measured include, but are not limited to, phosphorylation,
ubiquitnation, prenylation, myristoylation, glyosidation), and/or
to measure cleavage or degradation products of an analyte (e.g.,
protease, nuclease or glycosidase products). Alternatively, one
assay domain generically measures the total amount of multiple
forms of an analyte and a second assay domain is specific for one
form of the analyte (e.g., for measuring free PSA vs. total
PSA).
[0020] In another preferred assay format, the starting
material/substrate and product (and, optionally, intermediates
and/or side products) in a reaction of interest are measured at
different assay domains of a well of a MDMW Plate. In one
embodiment, measurements in different wells are carried out for
different reaction times, allowing for a complete kinetic
characterization of the reaction. In a second embodiment, assays
for the starting material and product (or any two species produced
and/or consumed in the reaction) show some level of
cross-reactivity; as described above, measurement of both species
can be used to reduce the effect of the cross-reactivity. In a
third embodiment, measurement of both starting material and product
allows one to correct for variations in the original amount of the
starting material. Such corrections are especially important when
following reactions or activities in complex biological systems
such as cells or tissue. For example, in following the
phosphorylation of a cellular receptor in response to activation of
the cell, it is desirable to correct the measured amount of
phosphorylated receptor to account for variations in the level of
receptor protein expression in the cell line. Measurement of
phosphorylated and nonphosphorylated forms of the receptor allows
the extent of phosphorylation to be expressed as a percentage.
Alternatively, the same information can be obtained through
measurements of total receptor and phosphorylated receptor.
[0021] In another preferred assay format, a well comprises a first
assay domain containing a labeled substrate for a cleavage reaction
and a second assay domain containing a binding reagent capable of
capturing the product of the cleavage reaction. Preferably, the
substrate is linked to a label (preferably an ECL label) such that
the cleavage reaction results in the release, from the first assay
domain of a cleavage product linked to the label. The extent of the
cleavage reaction may be followed by measuring the drop of signal
from the first assay domain and the increase in signal from the
second assay domain. By way of example, the binding reagent may be
an antibody (e.g., an antibody specific for a peptide released by
proteolytic activity) or a nucleic acid probe (e.g., a probe
specific against an oligonucleotide released by a nuclease
activity) directed against the cleavage product. Alternatively, the
substrate may be further linked to a capture moiety (e.g., a hapten
or biotin) such that the released cleavage product comprises both a
label and a capture moiety. In this alternate embodiment, the
binding reagent can be a binding reagent directed against the
capture moiety (e.g., an antibody directed against the hapten,
avidin, or streptavidin).
[0022] In another preferred assay format, a library of enzymes is
co-immobilized with binding reagents capable of capturing enzyme
products so as to form an array of assay domains having assay
domains that contain both an enzyme and a binding reagent capable
of capturing a product of the enzyme. Such an array allows the
signals derived from the enzyme reactions to be produced in a
pattern that corresponds to the arrangement of enzymes. In one
embodiment, the enzymes are paired with binding reagents that are
preferentially specific for the product of that enzyme. In another
embodiment, the binding reagents are capable of binding the
products of a plurality of enzymes in the well. In such a case, the
assay domains are spaced appropriately and carried out under
appropriate conditions (e.g., in the absence of mixing) to increase
the probability that a product produced in one domain will bind
binding reagents in that same domain before it has the opportunity
to diffuse to a different domain. For example, a library of
tyrosine kinases may be patterned into an array of assay domains,
each domain also comprising an anti-phosphotyrosine antibody.
Introduction of one or more tyrosine kinase substrates (preferably,
linked to a label, most preferably, linked to an ECL label) leads
to phosphorylation of the substrates and capture of the labeled
product by the anti-phosphotyrosine antibody. The labeled product
produced in a domain will be preferentially captured by antibodies
in the same domain, ensuring that the signal generated in a domain
is representative of the activity of the enzyme in that domain.
[0023] In another preferred assay format, multiple assay domains
are used to aid in screening antibodies (or other binding reagents)
for a binding reagent with a desired specificity for a binding
species. Samples (e.g., supernatants from hybridoma cultures) are
contacted with a plurality of assay domains. One assay domain
comprises the binding species. The others include controls for
specificity and cross-reactivity (e.g., closely related substances,
potential assay interferents, a carrier protein used in an
immunization procedure used to generate the binding reagents,
linkers used in generating carrier protein-hapten conjugates,
etc.). In one embodiment, the binding of a binding reagent can be
detected using a labeled secondary binding reagent that broadly
binds a class of binding reagents (e.g., an anti-species antibody).
In another embodiment, a plurality of binding domains comprise a
panel of anti-species antibodies directed against different
antibody classes (alternatively, any antibody class specific
binding reagent may be used) and the binding domains are contacted
with a hybridoma supernatant (or other sample containing
antibodies) in order to determine the class of the antibody in the
supernatant. In one preferred embodiment, the binding of binding
reagents to specific domains is detected using a labeled secondary
binding reagent that broadly binds a class of binding reagents
(e.g., an anti-species antibody) so as to measure the amount of all
antibodies in the sample. Alternatively, a labeled hapten may be
used as the detection reagent so that only the class of antibodies
having a desired specificity is determined.
[0024] In another preferred assay format, multiple assay domains
are used to expand the dynamic range of an assay beyond what can be
achieved using a single assay domain. For example, a binding assay
may involve the use of a plurality of binding domains comprising
binding reagents that differ in their affinity for the analyte of
interest. The domain with the highest affinity binding reagent is
used to measure low concentrations of analyte. Domains with
intermediate or weak affinity binding reagents are used for samples
having intermediate or high concentrations of analyte. In the case
of assay domains with intermediate or weak affinity binding
reagents, the binding reagents are, preferably, selected to have
dissociation constants roughly centered in the range of analyte
concentrations to be measured by that assay domain.
[0025] In the specific case of sandwich binding assays that
experience a hook effect at high concentrations, the dynamic range
of the assay may be expanded by pairing the sandwich immunoassay
(conducted in a first assay domain) with a competitive assay for
the same analyte (conducted in a second assay domain). Preferably,
the competitive assay involves the competition of analyte in a
sample with an immobilized analog of the analyte for binding to a
labeled anti-analyte antibody. More preferably, the analog of the
analyte does not comprise the epitope recognized by the capture
antibody in the sandwich assay (e.g., the analog of the analyte may
be a peptide fragment derived from a protein analyte that does not
include the epitope recognized by the capture antibody). The
sandwich and competitive assays may use the same labeled detection
antibody. Advantageously, the amount of detection antibody is
roughly equal to the sum of the amount of analog of the analyte and
capture antibody. For amounts of analyte lower than the amount of
capture antibody, the sandwich assay will give a signal roughly
linearly dependent on the concentration of analyte and the
competitive assay will be roughly independent of analyte
concentration. Amounts of analyte higher than the amount of capture
antibody will lead to decreases is signal from both the sandwich
assay (due to hook effect, i.e., the increase in the probability
that the analyte will be bound to only one of the detection or
capture antibody and not both at the same time) and the competitive
assay (due to competition). In this region, the competitive assay
may be used to quantify analyte or to simply warn that the dynamic
range of the sandwich assay has been exceeded. In an alternate
embodiment, capture reagents are chosen that differ in binding
kinetics; the binding time and kinetic constants are chosen so that
i) low concentrations of analyte are measured in fast binding assay
domains and ii) high concentrations of analyte (exceeding the
binding capacity of the assay domains) are measured in kinetically
controlled binding reactions at slow binding domains.
[0026] In another preferred assay format, one or more assay domains
in a well are used for purposes other than as a solid phase for a
solid phase assay. By way of example: i) an assay domain may
comprise binding reagents for sequestering an assay interferent;
ii) an assay domain may comprise binding reagents for capturing and
purifying a biological material (e.g., a protein of unknown
function, an enzyme, an enzyme substrate, a binding partner in a
binding reaction, etc.) from a crude preparation such as blood,
serum, cell lysates, tissue samples, etc. and/or iii) an assay
domain may be used as a location for storing dried reagents to be
rehydrated and dissolved during the course of an assay (e.g.,
binding reagents, enzymes, enzyme substrates, controls,
calibrators, buffers, blocking agents, detergents,
labeled-reagents, ECL coreactants, inhibitors, drug candidates,
etc.). Preferably, the dried reagents in one assay domain are
prevented, during preparation and storage of an assay well, from
contacting the other assay domains in a well so as to prevent
unwanted interactions between reagents. In such case, the dried
reagents do not contact other assay domains until sufficient sample
volume is added to the well to spread the sample across all the
domains Advantageously, when storing dried reagents in an assay
domain, the assay domain is surrounded by a physical boundary
(e.g., ledges or depressions on a surface of the well, patterned
materials deposited or printed on the surface, and or interfaces
between regions of the surface that vary in a physical property
such as wettability) that allows small drops of fluids to be
confined on the assay domain but also allows a larger volume of
fluid to spread over multiple domains. In one embodiment of a
competitive binding assay, one assay domain of a well comprises an
immobilized binding reagent and another assay domain comprises a
dried labeled competitor; this arrangement prevents the competitor
from binding to the binding reagent prior to the addition of
sample. In one embodiment of a sandwich binding assay, a first
assay domain of a well comprises an immobilized capture binding
reagent and a second assay domain comprises a dried labeled binding
reagent; this arrangement prevents the labeled binding reagent from
binding non-specifically to the first assay domain, e.g., during
drying or storage of the reagents. In one embodiment of an enzyme
inhibition assay, a first assay domain of a well comprises an
enzyme substrate (dried on or immobilized in the assay domain) and
a second assay domain comprises a dried enzyme; this arrangement
prevents the enzyme from acting on the substrate prior to the
addition of the sample containing an inhibitor.
[0027] The invention includes assay modules and MDMW Plates adapted
to carry out assays using one or more assay formats of the
invention, methods of using the modules or plates, methods of
making the modules or plates, kits including the plates and one or
more reagents used in an assay, and systems including plates and
apparatuses for reading plates. The invention includes the
measurement of analytes or chemical, biological or biochemical
activities using the modules, plates or methods of the invention.
The invention also includes the measurement or identification
(e.g., in a screen of a library of potential drugs) of modulators
(e g , inhibitors or enhancers) of such chemical, biological or
biochemical activities. The invention also includes the application
of the plates, modules or methods of the invention to the
characterization of a protein. For example a protein may be
screened against a library of biological materials to identify
biological materials that bind the protein, accept the protein as
an enzymatic substrate, are modified by an enzymatic activity of
the protein, or otherwise interact with the protein. Conversely, a
biological material may be screened against a library of proteins
to identify the proteins that bind the biological material, accept
the biological material as an enzymatic substrate, are modified by
an activity of the biological material, or otherwise interact with
the biological material.
DESCRIPTION OF THE FIGURES
[0028] FIG. 1A is a schematic representation, according to one
embodiment of the invention, of a panel of binding assays.
[0029] FIG. 1B is a schematic representation, according to one
embodiment of the invention, of a panel of sandwich binding
assays.
[0030] FIG. 1C is a schematic representation, according to one
embodiment of the invention, of a panel of competitive binding
assays.
[0031] FIG. 1D is a schematic representation, according to one
embodiment of the invention, of a panel of enzyme assays.
[0032] FIG. 2 is a schematic representation, according to one
embodiment of the invention, of an assay panel that includes a test
binding assay, a control for non-specific binding, a control for
the efficiency of signal generation and transmission, and a control
binding assay.
[0033] FIG. 3 is a schematic representation, according to one
embodiment of the invention, of an assay panel that includes assays
for several activities of an enzyme with a plurality of
activities.
[0034] FIG. 4 is a schematic representation, according to one
embodiment of the invention, of an assay panel comprising a binding
assay for an enzyme and a binding assay for an enzyme product.
[0035] FIG. 5 is a schematic representation, according to one
embodiment of the invention, of an assay panel comprising binding
assays for the substrate and product of an enzymatic reaction.
[0036] FIG. 6 is a schematic representation, according to one
embodiment of the invention, of an assay panel for a cleaving
enzyme comprising an assay domain having a labeled substrate for
the enzyme and an assay domain comprising a binding reagent capable
of capturing a labeled product of the invention.
[0037] FIG. 7 is a schematic representation, according to one
embodiment of the invention, of an assay panel comprising an array
of assay domains comprising different enzymes, the enzymes being
co-immobilized for binding reagents capable of binding enzymatic
products.
[0038] FIGS. 8A-8C are schematic representations of expanded
dynamic range binding assays, according to preferred embodiments of
the invention, comprising three assay domains of varying affinity
for the analyte.
[0039] FIGS. 9A-9B are schematic representations of expanded
dynamic range binding assays, according to preferred embodiments of
the invention, comprising a sandwich binding assay and a
competitive binding assay for the same analyte.
[0040] FIG. 10A shows a layered view of MDMW plate 1000, a MDMW
plate that is adapted for electrode induced chemiluminescence
measurements.
[0041] FIG. 10B shows a stylized cross sectional view of 3 wells of
MDMW plate 1000, a MDMW plate that is adapted for electrode induced
chemiluminescence measurements.
[0042] FIG. 10C shows dielectric layer 1140, a modification of
dielectric layer 1040 shown in FIGS. 10A and 10B.
[0043] FIG. 10D shows a stylized cross-sectional view of 3 wells of
MDMW plate 1100, a modification of plate 1000 employing dielectric
layer 1140
[0044] FIG. 11 shows a view of a MDMW plate adapted for electrode
induced chemiluminescence measurements.
[0045] FIG. 12 is a schematic description of an assay for two
activities of HIV RT enzyme.
[0046] FIGS. 13A and 13B are graphical representations of the
inhibition of two activities of HIV RT by an inhibitor.
[0047] FIG. 14 is a graphical representation of the selectivity of
a MDMW Plate designed to measure 4 different infectious agents.
[0048] FIG. 15 is a table showing the selectivity of a MDMW Plate
designed to measure two different kinase activities.
[0049] FIG. 16 plots signal as a function of the concentration of
bovine IgG that is labeled with biotin and a sulfonated derivative
of Ru(bpy).sub.3. Data is plotted for MDMW Plates having
avidin-coated assay domains that vary in number and size.
[0050] FIGS. 17A-17D demonstrate the independent measurement by ECL
sandwich immunoassay of four analytes (IL-1.beta., IL-6,
TNF-.alpha. and IFN-.gamma.) in wells of a multi-well assay plate.
The working electrode in each well is patterned with four assay
domains, each assay domain comprising a capture antibody specific
for one of the analytes. The plots show the ECL signal emitted from
each assay domain as a function of the concentration of each
analyte.
[0051] FIG. 18 is a CCD camera image showing the independent
measurement by ECL sandwich immunoassay of four analytes
(IL-1.beta., IL-6, TNF-.alpha. and IFN-.gamma.) in wells of a
multi-well assay plate. The working electrode in each well is
patterned with four assay domains, each assay domain comprising a
capture antibody specific for one of the analytes. The figure shows
an image of the ECL emitted from a sector of wells used to assay
samples containing varying mixtures of the four analytes. The
highlighted well is annotated to show the arrangement of the four
assay domains. That specific well was used to assay a sample having
250 pg/mL each of IL-1.beta. and TNF-.alpha. and 8 pg/mL each of
IL-6 and IFN-.gamma..
[0052] FIG. 19A is a schematical representation of a 4-spot well
adapted for an assay for EGF induced Receptor Autophosphorylation
at Tyrosine 1173 using MSD.TM. Standard 4-spot MULTI-ARRAY.RTM.
Plates according to one embodiment of the invention. FIGS. 19B-19D
are CCD images of wells of the plate having different
concentrations of EGF.
DETAILED DESCRIPTION OF THE INVENTION
[0053] The assay domains of the invention may be adapted to carry
out assays in a wide range of formats. Preferably, assay
measurements are coupled to the capture or release of detectable
label (e.g., an enzyme, particle, photoluminescent species,
chemiluminescent species, electrochemiluminescent species,
electroactive species, radioactive species, magnetic species, etc.)
from a solid phase, preferably, a surface of an assay domain.
Preferably, the label is detectable by electrode induced
luminescence (most preferably, electrochemiluminescence) and the
solid phase is an electrode adapted to induce electrode induced
luminescence (preferably, electrochemiluminescence). By analogy,
the assay concepts described herein can also be applied to solid
phase assay formats that do not require the use of a label such as
surface plasmon resonance and optical interference techniques.
[0054] FIGS. 1A-1D are schematic representations that show selected
examples of assay panels that may be carried out in assay cells
(preferably, wells of a MDMW Plate) comprising multiple assay
domains. FIG. 1A illustrates a panel of binding assays carried out
in a well 100 of a MDMW Plate having assay domains 105A-C,
comprising immobilized binding reagents 110A-C directed against
labeled analytes 115A-C. Suitable binding reagent/analyte pairs are
known in the art and include antibody/hapten, antibody/antigen,
receptor/ligand, nucleic acid sequence/complementary sequence,
lectin/sugar, nucleic acid/nucleic acid binding protein,
protein/protein (e.g., proteins that dimerize, aggregate form
binding complexes), etc.
[0055] FIG. 1B illustrates a panel of sandwich binding assays
carried out in a well 120 of a MDMW Plate having assay domains
125A-C comprising immobilized capture binding reagents 130A-C and
soluble detection binding reagents 132A-C directed against analytes
135A-C. In one preferred embodiment, the panel is a panel of
sandwich immunoassays. In another preferred embodiment, the panel
is a panel of sandwich nucleic acid hybridization assays.
[0056] FIG. 1C illustrates a panel of competitive binding assays
carried out in a well 140 of a MDMW Plate having assay domains
145A-C. Analytes 155A-C compete with competitors 152A-C for binding
to binding reagents 150A-C. If the competitor of an analyte is
labeled, the corresponding binding reagent is immobilized, or visa
versa. In one preferred embodiment, the panel is a panel of
competitive immunoassays.
[0057] FIG. 1D illustrates a panel of enzyme assays carried out in
well 160 of a MDMW Plate. Enzyme 170A cleaves labeled substrate 175
(immobilized in assay domain 165A) to release a labeled product
from the assay domain. Enzyme 170B joins substrate 176 (immobilized
in assay domain 165B) and labeled substrate 177 to link the label
to the assay domain. Enzyme 170C modifies substrate 178
(immobilized in assay domain 165C) to make a product 179 that is
recognized by labeled binding reagent 180. Enzyme 170D catalyzes
the conversion of labeled substrate 181 to labeled product 182.
Labeled product 182 is then captured by binding reagent 183
(immobilized in assay domain 165D). In an alternate embodiment, the
label is omitted from substrate 181 and product 182 and product 182
is detected by addition of a labeled detection binding reagent to
form a sandwich complex. Enzymes (and other chemical, biochemical,
and/or biological activities) that can be measured by one or all of
the formats described in FIG. 1D include, but are not limited to,
nucleic acid polymerases, nucleic acid ligases, helicases,
integrases, nucleases, proteases, protein synthesis, glycosidases,
phosphatases, kinases, prenylation enzymes, myristoylation enzymes,
etc.
[0058] Useful panels include panels of assays for analytes or
activities associated with a specific biochemical system,
biochemical pathway, tissue, organism, cell type, organelle,
disease state, class of receptors, class of enzymes, etc. Preferred
panels include immunoassay for cytokines and/or their receptors
(e.g., one or more of TNF-.alpha., TNF-.beta., IL1-.alpha.,
IL1-.beta., IL2, IL4, IL6, IL10, IL12, IFN-.gamma., etc.), growth
factors and/or their receptors (e.g., one or more of EGF, VGF, TGF,
VEGF, etc.), second messengers (e.g., cAMP, cGMP, phosphorylated
forms of inositol and phosphatidyl inositol, etc.) drugs of abuse,
therapeutic drugs, auto-antibodies (e.g., one or more antibodies
directed against the Sm, RNP, SS-A, SS-B Jo-1, and Scl-70
antigens), allergen specific antibodies, tumor markers, cardiac
markers (e.g., one or more of Troponin T, Troponin I, myoglobin,
CKMB, etc.), markers associated with hemostasis (e.g., one or more
of Fibrin monomer, D-dimer, thrombin-antithrombin complex,
prothrombin fragments 1 & 2, anti-Factor Xa, etc.), markers of
acute viral hepatitis infection (e.g., one or more of IgM antibody
to hepatitis A virus, IgM antibody to hepatitis B core antigen,
hepatitis B surface antigen, antibody to hepatitis C virus, etc.),
markers of Alzheimers Disease (.beta.-amyloid, tau-protein, etc.),
markers of osteoporosis (e.g., one or more of cross-linked N or
C-telopeptides, total deoxypyridinoline, free deoxypyridinoline,
osteocalcin, alkaline phosphatase, C-terminal propeptide of type I
collagen, bone-specific alkaline phosphatase, etc.), markers of
fertility (e.g., one or more of Estradiol, progesterone, follicle
stimulating hormone (FSH), luetenizing hormone (LH), prolactin,
.beta.-hCG, testosterone, etc.), markers of congestive heart
failure (e.g., one or more of .beta.-natriuretic protein (BNP),
.alpha.-natriuretic protein (ANP), endothelin, aldosterone, etc.),
markers of thyroid disorders (e.g., one or more of thyroid
stimulating hormone (TSH), Total T3, Free T3, Total T4, Free T4,
and reverse T3), and markers of prostrate cancer (e.g., one or more
of total PSA, free PSA, complexed PSA, prostatic acid phosphatase,
creatine kinase, etc.). Preferred panels also include nucleic acid
arrays for measuring mRNA levels of mRNA coding for cytokines,
growth factors, components of the apoptosis pathway, expression of
the P450 enzymes, expression of tumor related genes, etc. Preferred
panels also include nucleic acid arrays for genotyping individuals
(e.g., SNP analysis), pathogens, tumor cells, etc. Preferred panels
also include libraries of enzymes and/or enzyme substrates (e.g.,
substrates and/or enzymes associated with ubiquitination, protease
activity, kinase activity, phosphatase activity, nucleic acid
processing activity, GTPase activity, guanine nucleotide exchange
activity, GTPase activating activity, etc.). Preferred panels also
include libraries of receptors or ligands (e.g., panels of
G-protein coupled receptors, tyrosine kinase receptors, nuclear
hormone receptors, cell adhesion molecules (integrins, VCAM, CD4,
CD8), major histocompatibility complex proteins, nicotinic
receptors, etc.). Preferred panels also include libraries of cells,
cell membranes, membrane fragments, reconstituted membranes,
organelles, etc. from different sources (e.g., from different cell
types, cell lines, tissues, organisms, activation states,
etc.).
[0059] Applications of panels include the determination of a state
of a biological system, the detection or identification of disease
state. The determination of analytes associated with a state of a
biological system (e.g., by differential measurements of a
plurality of analytes in samples derived from normal or diseased
biological systems or from normal and activated biological systems,
etc.). Panels may also be employed in drug screening. Through the
use of panels, the effect of a potential drug on a plurality of
biological activities (e.g., binding interactions or enzymatic
activities) can be determined in one well of a MDMW Plate. Panels
may also be used to speed up the characterization of a protein. For
example a protein may be screened against a library of biological
materials to identify biological materials that bind the protein,
accept the protein as an enzymatic substrate, are modified by an
enzymatic activity of the protein, or otherwise interact with the
protein. Conversely, a biological material may be screened against
a library of proteins to identify the proteins that bind the
biological material, accept the biological material as an enzymatic
substrate, are modified by an activity of the biological material,
or otherwise interact with the biological material.
[0060] Some assay domains in an assay cell or well may be reserved
for assay controls or calibrators. FIG. 2 is a schematic
representation, according to one embodiment of the invention, of an
assay panel that includes a test binding assay for an analyte of
interest, a control for non-specific binding, a control for the
efficiency of signal generation and transmission, and a control
binding assay. FIG. 2 shows a well 200 of a MDMW Plate having assay
domains 210A-D. Assay domain 210A comprises a capture binding
reagent 215 (e.g., an antibody or a nucleic acid) specific for the
analyte of interest 217. Assay domain 210B comprises a blocking
agent 225 (e.g., BSA, or bovine IgG) that, preferably, was also
used to block open sites in assay domain 210A. Alternatively,
blocking agent 225 is a reagent with similar properties to capture
binding reagent 215 except that it is not expected to interact with
samples introduced into the assay. Assay domain 210C comprises a
labeled reagent 235. Assay domain 210D comprises a capture binding
reagent 245 specific for control analyte 247. The well also
comprises labeled detection antibody 219 that is specific for
analyte 215, labeled detection antibody 249 that is specific for
control analyte 247, an unknown quantity of analyte 217, and a
predetermined amount of control analyte 247. Formation of a
sandwich complex in assay domain 210A allows for measurement of the
analyte. Assay domain 210B is used to measure the amount of
background signal including non-specific binding of the labeled
reagents. Assay domain 210C is used to control for factors that
influence the efficiency of signal generation by the label and the
efficiency of signal detection. Measurement of a sandwich complex
in assay domain 210D is used to control for factors that influence
the efficiency of binding reactions. In alternate embodiments,
assay domains 210A and/or 210D comprise reagents for conducting
other types of measurements such as other binding assay formats or
enzymatic activity assays.
[0061] FIG. 3 illustrates an assay, according to one embodiment of
the invention, for the activities of an enzyme with multiple
activities. The assay is carried out in well 300 of a MDMW Plate.
Enzyme 370 cleaves labeled substrate 375 (immobilized in assay
domain 365A) to release a labeled product from the assay domain.
Enzyme 370 also joins substrate 376 (immobilized in assay domain
365B) and labeled substrate 377 to link the label to the assay
domain. Enzyme 370 also modifies substrate 378 (immobilized in
assay domain 365C) to make a product 379 that is recognized by
labeled binding reagent 380. Enzyme 370 also catalyzes the
conversion of labeled substrate 381 to labeled product 382. Labeled
product 382 is then captured by binding reagent 383 (immobilized in
assay domain 365D). In an alternate embodiment, the label is
omitted from substrate 381 and product 382 is detected by addition
of a labeled detection binding reagent to form a sandwich
complex.
[0062] FIG. 4 illustrates an assay, according to one embodiment of
the invention, of an enzymatic activity. Well 400 of a MDMW Plate
comprises assay domain 410 having an immobilized capture binding
reagent 412 (e.g., an antibody) capable of binding enzyme 415 and
assay domain 420 comprising an immobilized binding reagent 425
(e.g., an antibody) capable of binding a product of enzyme 415.
Addition of a sample containing the enzyme leads to the capture of
the enzyme in assay domain 420. Optionally, a wash step may be
introduced to remove interfering substances in the enzyme sample.
Addition of a labeled substrate results in the generation of a
labeled product that is captured and measured in assay domain 420.
Addition of labeled detection reagent 417 (e.g., an antibody)
allows for the measurement of the amount of enzyme 415 in assay
domain 410 via sandwich binding assay. This measurement allows the
measured enzymatic activity to be referenced to the amount of
enzyme. Alternatively, enzyme 410 is labeled and labeled detection
reagent 417 may be omitted. In another alternative embodiment,
labeled detection reagent 417 is omitted and enzyme 415 is captured
and, optionally, purified but not directly measured. In a preferred
embodiment of the assay, enzyme 415 is a phosphatase or kinase and
binding reagent 425 is an antibody that preferentially binds to one
of a phospho-peptide or its nonphosphorylated form.
[0063] FIG. 5 illustrates an assay, according to one embodiment of
the invention, where an enzymatic activity is measured by measuring
the consumption of substrate and the generation of product. Well
500 in a MDMW Plate comprises an assay domain 510A comprising
immobilized capture binding reagent 512 specific for labeled enzyme
substrate 515 and an assay domain 510B comprising immobilized
capture binding reagent 517 specific for labeled enzyme product
520. A sample comprising a mixture of labeled substrate 515 and
labeled product 520 resulting from the action of an enzyme on the
enzyme substrate is introduced into well 500. Measurement of
substrate and product by binding assay allows the extent of
conversion to be calculated even if the initial amount of substrate
was unknown. Alternatively, substrate 515 is not labeled and
substrate 515 and product 520 are measured via sandwich binding
assay or competitive binding assay. In a preferred embodiment of
the invention, the enzyme is a kinase or phosphatase and the
binding reagents are antibodies specific for the phosphorylated or
non-phosphorylated form of a peptide or protein. Alternatively, one
capture reagent is specific for either product or substrate and the
other capture reagent binds both equally. This panel allows the
measurement of product or substrate in one domain and the combined
total of product and substrate in the other domain.
[0064] FIG. 6 illustrates an assay, according to one embodiment of
the invention, for an enzyme with a cleaving activity. Well 600 of
a MDMW Plate comprises assay domain 610 comprising an immobilized
labeled substrate 615 and assay domain 620 comprising an
immobilized binding reagent 622 that is specific for labeled enzyme
product 625. Enzyme 630 cleaves substrate 615 forming product 625
which is captured in assay domain 620. The assay format allows the
measurement of both the consumption of substrate and the production
of product. Optionally, substrate 615 is not labeled and product
625 is measured via a sandwich or competitive binding assay. In a
preferred embodiment, enzyme 630 is a protease, substrate 615 is a
labeled peptide, and binding reagent 622 is an antibody specific
for the peptide. Alternatively, substrate 615 also comprises a
capture moiety and binding reagent 622 is specific for the capture
moiety.
[0065] FIG. 7 illustrates an assay format, according to one
embodiment of the invention, for measuring the activity of an
immobilized array of enzymes. Well 700 of a MDMW Plate comprises
assay domains 710A-C which comprise immobilized enzymes 715A-C and
immobilized binding reagents 720A-C, the binding reagents being
specific for a product of the enzyme co-immobilized in the same
assay domain. Introduction of labeled substrates 725A-C (which may
the same or different) leads to the generation of labeled products
730A-C (which may be the same or different). The close proximity of
the enzymes to binding reagents leads to preferential capture of
products in the assay domain in which they were produced (as
opposed to the diffusion and capture of products in adjacent
domains). Preferably, the assay domains are in slight depressions
in the bottom of the well so as to inhibit convection near the
surface of the domains and to inhibit horizontal diffusion away
from the surface of the domains. In an alternate embodiment, the
substrates are not labeled and the product is measured via a
sandwich or competitive binding assay. In one preferred embodiment,
the enzymes are kinases, the substrates have consensus sequences
for specific members of the kinase library, and the binding
reagents are antibodies specific for the product of the enzymes
with which they are co-immobilized. Alternatively, the binding
reagents are broadly specific for phosphopeptides (e.g., an
anti-phosphotyrosine or an anti-phosphoserine antibody). In another
preferred embodiment, the enzymes are kinases, the substrates are
the same and are a generic kinase substrate, and the binding
reagents are the same and are binding reagents broadly specific for
phosphopeptides (e.g., an anti-phosphotyrosine or an
anti-phosphoserine antibody).
[0066] FIGS. 8A-8C illustrate expanded dynamic range binding
assays, according to preferred embodiments of the invention,
comprising three assay domains of varying affinity for the analyte
of interest. This assay format is particularly advantageous when
the dynamic range must extend to analyte concentrations that are
greater than the binding capacity of assay domains in a well. Well
800 in a MDMW Plate comprises assay domains 810A-C for measuring
analyte 820, the well comprising i) assay domain 810A comprising
immobilized binding reagent 815A, binding reagent 815A having a
dissociation constant for analyte=K.sub.d.sup.a, ii) assay domain
810B comprising immobilized binding reagent 815B, binding reagent
815B having a dissociation constant for analyte=K.sub.d.sup.b and
iii) assay domain 810C comprising immobilized binding reagent 815C,
binding reagent 815C having a dissociation constant for
analyte=K.sub.d.sup.c, wherein
K.sub.d.sup.a<K.sub.d.sup.b<K.sub.d.sup.c and wherein
K.sub.d.sup.b and K.sub.d.sup.c are, preferably, greater than the
concentration of analyte needed to saturate assay domain 810A. A
labeled analyte 820 is introduced into the well. Preferably, the
dissociation constants differ by a factor of 10 or more so that: i)
when the concentration of analyte is <<K.sub.d.sup.b, only
assay domain 810A will be significantly populated (FIG. 8A); ii)
when the concentration of analyte is .about.K.sub.d.sup.b, assay
domain 810A will be saturated, assay domain 810B will be partially
populated, and assay domain 810C will be negligibly populated (FIG.
8B); and iii) when the concentration of analyte is
.about.K.sub.d.sup.c, assay domains 810A and 810B will be saturated
and assay domain 810C will be partially populated (FIG. 8C). In
each concentration range, the signal from the partially populated
assay domain is used to quantitate analyte. Optionally, assay
domain 810C is omitted or additional assay domains are included for
extending the dynamic range into additional concentration
ranges.
[0067] FIGS. 9A-9B illustrate expanded dynamic range binding
assays, according to preferred embodiment of the inventions,
comprising a sandwich binding assay and a competitive binding assay
for the same analyte. This assay format is particularly
advantageous when the dynamic range must extend to analyte
concentrations that are greater than the binding capacity of assay
domains in a well. Well 900 in a MDMW Plate comprises i) assay
domain 910 comprising an immobilized capture binding reagent 912
that is specific for analyte 915 and ii) assay domain 920
comprising an immobilized competitor 925 that competes with analyte
915 for binding to labeled binding reagent 917. Introduction of
analyte 915 and labeled binding reagent 917 leads to the binding of
labeled binding reagent 917 to assay domain 910 via a sandwich
complex and to assay domain 920 via direct binding. Preferably, the
amount of capture binding reagent 912 is roughly the same as the
amount of competitor 925 and is roughly half of the amount of
labeled binding reagent 917. For amounts of analyte less than the
amount of capture binding reagent (i.e., the binding capacity of
assay domain 910), the amount of label bound to assay domain 910 is
roughly proportional to the amount of analyte and the amount of
label bound to assay domain 920 is roughly constant and saturated
(FIG. 9A). For amounts of analyte greater than the amount of
capture binding reagent, the amount of label bound to assay domain
910 decrease with increasing analyte due to the "hook effect" and
the amount of label bound to assay domain 920 also decreases due to
competitive binding (FIG. 9B). The competitive assay can therefore
be used to quantitate analyte at high concentrations of analyte or
simply to provide warning that the sandwich assay has exceeded its
dynamic range. In a preferred embodiment, analyte 915 is a protein
and binding reagents 912 and 917 are antibodies specific for
different epitopes on analyte 915. Competitor 925 may be a labeled
version of analyte 915 or, more preferably, is a peptide that binds
to binding reagent 917 but not binding reagent 912 (thereby,
reducing the possibility of binding reagent 912 or competitor 925
leaching from the surface and binding).
[0068] According to preferred embodiments of the invention, the
assay domains of the invention are incorporated in assay modules or
plates adapted for electrode induced luminescence (preferably,
electrochemiluminescence) assays, e.g., assay domains are supported
on one or more integrated electrodes within an assay cell (e.g.,
the well of a MDMW plate). Suitable assay modules and well plates,
and methods of using such assay modules and plates and systems
incorporating the same are set forth in U.S. application Ser. Nos.
10/185,274 and 10/185,363, entitled "Assay Plates, Reader Systems
and Methods for Luminescence Test Measurements", filed Jun. 28,
2002 (see Sections 3, 4 and 5.1-5.6), hereby incorporated by
reference. According to one preferred embodiment of the invention,
an assay module or plate comprises one or more (preferably two or
more, 6 or more, 24 or more, 96 or more, 384 or more, 1536 or more
or 9600 or more) assay wells, assay chambers and/or assay domains
(e.g., discrete locations on a module surface where an assay
reaction occurs and/or where an assay signal is emitted; typically
an electrode surface, preferably a working electrode surface).
According to an even more preferred embodiment, the assay module is
a multi-well assay plate having a standard well configuration
(e.g., 6 well, 24 well, 96 well, 384 well, 1536 well, 6144 well or
9600 well). The wells of such plates can further comprise a
plurality (e.g., 2 or more, 4 or more, 7 or more, 25 or more, 64 or
more, 100 or more, etc.) of discrete assay domains.
[0069] One aspect of the invention relates to improved assay
modules (e.g., plates) adapted for use in assays, preferably
luminescence assays, more preferably electrode induced luminescence
assays, even more preferably electrochemiluminescence assays. The
assay modules of the invention are preferably suitable not only for
ECL assays, but also suitable for fluorescence assays,
chemiluminescence assays, bioluminescence assays, phosphorescence
assays, optical transmittance assays (e.g., measurements of optical
density or light scattering) and electrochemical assays (e.g.,
wherein the measurement involves measuring current or voltage).
[0070] According to one preferred embodiment of the invention, an
assay module or plate comprises one or more (preferably two or
more, 6 or more, 24 or more, 96 or more, 384 or more, 1536 or more
or 9600 or more) assay wells, assay chambers and/or assay domains
(e.g., discrete locations on a module surface where an assay
reaction occurs and/or where an assay signal is emitted; typically
an electrode surface, preferably a working electrode surface).
According to a particularly preferred embodiment, the assay plate
is a multi-well assay plate having a standard well configuration
(e.g., 6 well, 24 well, 96 well, 384 well, 1536 well, 6144 well or
9600 well).
[0071] An electrode induced luminescence well (preferably
electrochemiluminescence well (i.e., a well adapted for
electrochemiluminescence)) or electrode induced luminescence domain
(preferably electrochemiluminescence assay domain (i.e., an assay
domain adapted for electrochemiluminescence assays)) may include a
first electrode surface (such as a working electrode surface) and,
preferably also includes a second electrode surface (such as a
counter electrode surface).
[0072] The invention also relates to a multi-well module,
preferably an assay plate, for conducting one or more assays, the
module having a plurality of wells (and/or chambers), wherein two
or more of the plurality of wells (and/or chambers) comprise at
least one first electrode surface and, preferably at least one
counter electrode surface. According to a preferred embodiment, two
or more of the plurality of wells (and/or chambers) comprise a
working electrode surface and, preferably a counter electrode
surface, adapted to induce luminescence in the wells. The invention
also relates to a multi-well module, preferably a plate, for
conducting one or more assays, the module having a plurality of
wells, wherein one or more of the plurality of wells comprise a
working electrode surface and a counter electrode surface adapted
to induce luminescence in the wells. Preferably, all or
substantially all of the wells comprise an electrode surface.
[0073] Another embodiment relates to a multi-well assay module,
preferably an assay plate, for conducting electrode induced
luminescence (preferably electrochemiluminescence) assays, the
module, preferably a plate, having a plurality of wells, wherein
each of the plurality of wells comprises at least one first
electrode surface (e.g., a working electrode) and, preferably, at
least one second electrode surface (e.g., a counter electrode).
[0074] Another embodiment relates to an assay plate for conducting
one or more electrode induced luminescence (preferably
electrochemiluminescence) assays, the plate having a plurality of
wells or assay regions comprising electrode surfaces, wherein the
electrode surfaces consist essentially of at least one working
electrode surface and at least one counter electrode surface.
[0075] Preferably, the assay regions or assay wells are free of
reference electrodes allowing for a greater density of assay
domains and simplified instrumentation for inducing and measuring
luminescence.
[0076] One aspect of the invention relates to improved assay
modules (e.g., plates) adapted for use in assays, preferably
luminescence assays, more preferably electrode induced luminescence
assays, even more preferably electrochemiluminescence assays. The
assay modules of the invention are preferably suitable not only for
ECL assays, but also suitable for fluorescence assays,
chemiluminescence assays, bioluminescence assays, phosphorescence
assays, optical transmittance assays (e.g., measurements of optical
density or light scattering) and electrochemical assays (e.g.,
wherein the measurement involves measuring current or voltage).
[0077] According to one preferred embodiment of the invention, an
assay module or plate comprises one or more (preferably two or
more, 6 or more, 24 or more, 96 or more, 384 or more, 1536 or more
or 9600 or more) assay wells, assay chambers and/or assay domains
(e.g., discrete locations on a module surface where an assay
reaction occurs and/or where an assay signal is emitted; typically
an electrode surface, preferably a working electrode surface).
According to a particularly preferred embodiment, the assay plate
is a multi-well assay plate having a standard well configuration
(e.g., 6 well, 24 well, 96 well, 384 well, 1536 well, 6144 well or
9600 well).
[0078] An electrode induced luminescence well (preferably
electrochemiluminescence well (i.e., a well adapted for
electrochemiluminescence)) or electrode induced luminescence domain
(preferably electrochemiluminescence assay domain (i.e., an assay
domain adapted for electrochemiluminescence assays)) may include a
first electrode surface (such as a working electrode surface) and,
preferably also includes a second electrode surface (such as a
counter electrode surface).
[0079] The invention also relates to a multi-well module,
preferably an assay plate, for conducting one or more assays, the
module having a plurality of wells (and/or chambers), wherein two
or more of the plurality of wells (and/or chambers) comprise at
least one first electrode surface and, preferably at least one
counter electrode surface. According to a preferred embodiment, two
or more of the plurality of wells (and/or chambers) comprise a
working electrode surface and, preferably a counter electrode
surface, adapted to induce luminescence in the wells. The invention
also relates to a multi-well module, preferably a plate, for
conducting one or more assays, the module having a plurality of
wells, wherein one or more of the plurality of wells comprise a
working electrode surface and a counter electrode surface adapted
to induce luminescence in the wells. Preferably, all or
substantially all of the wells comprise an electrode surface.
[0080] Another embodiment relates to a multi-well assay module,
preferably an assay plate, for conducting electrode induced
luminescence (preferably electrochemiluminescence) assays, the
module, preferably a plate, having a plurality of wells, wherein
each of the plurality of wells comprises at least one first
electrode surface (e.g., a working electrode) and, preferably, at
least one second electrode surface (e.g., a counter electrode).
[0081] Another embodiment relates to an assay plate for conducting
one or more electrode induced luminescence (preferably
electrochemiluminescence) assays, the plate having a plurality of
wells or assay regions comprising electrode surfaces, wherein the
electrode surfaces consist essentially of at least one working
electrode surface and at least one counter electrode surface.
[0082] Preferably, the assay regions or assay wells are free of
reference electrodes allowing for a greater density of assay
domains and simplified instrumentation for inducing and measuring
luminescence.
[0083] The working electrode surface area may be smaller, the same
or larger than the counter electrode surface area. In some
embodiments, the working electrode surface is preferably much
larger than the counter electrode surface. This configuration
allows for a greater working electrode surface on which to
immobilize assay reagents. Preferably, the surface ratio of the
working electrode surface to the counter electrode surface is at
least 2 to 1, more preferably at least 5 to 1, even more preferably
at least 10 to 1, still more preferred at least 50 to 1, even more
preferably at least 100 to 1 and most preferred at least 500 to 1.
Surprisingly, the assay modules of the invention provide for the
performance of electrochemiluminescence assays with very little
counter electrode surface. Preferably, the working electrode is
substantially centered within the well so as to maximize the
percentage of ECL emitted from the electrode that can be captured
by a light detector placed above the well.
[0084] According to another embodiment, the first electrode surface
(e.g., working electrode surface) is centered at the bottom of each
well and the second electrode surface (e.g., counter electrode
surface) is adjacent the periphery of the bottom of each well. In
some embodiments, the working electrode surface is centered at the
bottom of each well and is completely surrounded by the counter
electrode surface.
[0085] Alternatively, for some applications it is desirable that
working electrode surfaces be small, e.g., relative to the surface
area of a well or well bottom. In some applications, this
configuration may reduce non-specific signals. According to one
embodiment of the invention, the multi-well assay module has a
plurality of wells, each well having a well bottom comprising a
first electrode surface, a second electrode surface and a
dielectric surface (preferably the dielectric surface is the
surface of the bottom of the well between the first electrode
surface and the second electrode surface), wherein the ratio of the
first electrode surface and the dielectric surface (or
alternatively the surface of the well bottom) is less than 1 to 5,
preferably 1 to 10, more preferably 1 to 30.
[0086] According to one preferred embodiment of the invention, the
assay module comprises a first electrode surface (preferably a
working electrode surface) that is bounded by a dielectric surface,
the dielectric surface being raised or lowered (preferably, raised)
and/or of different hydrophobicity (preferably, more hydrophobic)
than the electrode surface. Preferably, the dielectric boundary is
higher, relative to the electrode surface, by 0.5-100 micrometers,
or more preferably by 2-30 micrometers, or most preferably by 8-12
micrometers. Even more preferably, the dielectric boundary has a
sharply defined edge (i.e., providing a steep boundary wall and/or
a sharp angle at the interface between the electrode and the
dielectric boundary). Preferably, the first electrode surface has a
contact angle for water 10 degrees less than the dielectric
surface, preferably 15 degrees less, more preferably 20 degrees
less, more preferably 30 degrees less, even more preferably 40
degrees less, and most preferred 50 degrees less. One advantage of
having a dielectric surface that is raised and/or more hydrophobic
than the electrode surface is in the reagent deposition process
where the dielectric boundary may be used to confine a reagent
within the boundary of the electrode surface. In particular, having
a sharply defined edge with a steep boundary wall and/or a sharp
angle at the interface between the electrode and dielectric
boundary is especially useful for "pinning" drops of solution and
confining them to the electrode surface.
[0087] According to another embodiment, an assay module comprises
one or more (preferably two or more) wells, the wells having one or
more first electrode surfaces (preferably one or more working
electrode surfaces) and a plurality of assay domains immobilized
therein. Preferably, at least two of the plurality of the assay
domains comprises different binding reagents. Preferably, each well
comprises at least four, more preferably at least seven, even more
preferably at least ten assay domains and most preferred at least
15 assay domains. One preferred embodiment is a 24 well plate
wherein each well comprises at least 16, preferably at least 25,
more preferably at least 64, even more preferably at least 100
assay domains per well and most preferably at least 250 assay
domains per well.
[0088] Another embodiment of the invention relates to a multi-well
module (preferably a multi-well plate) having a plurality of wells,
wherein the wells comprise a plurality of working electrode
surfaces having assay domains immobilized thereon. Preferably, the
assay domains are independently addressable. For example, a well
may comprise a plurality of assay domains, wherein each assay
domain comprises an electrode which is independently addressable
from the other assay domains within the well. In another example, a
group of wells may each comprise a plurality of assay domains,
wherein each assay domain comprises an electrode which is
independently addressable from the other assay domains within the
well, but which is jointly addressable with an assay domain in each
of the other wells.
[0089] Alternatively, for some applications it is desirable that
working electrode surfaces be small, e.g., relative to the surface
area of a well or well bottom. In some applications, this
configuration may reduce non-specific signals. According to one
embodiment of the invention, the multi-well assay module has a
plurality of wells, each well having a well bottom comprising a
first electrode surface, a second electrode surface and a
dielectric surface (preferably the dielectric surface is the
surface of the bottom of the well between the first electrode
surface and the second electrode surface), wherein the ratio of the
first electrode surface and the dielectric surface (or
alternatively the surface of the well bottom) is less than 1 to 5,
preferably 1 to 10, more preferably 1 to 30.
[0090] According to one preferred embodiment of the invention, the
assay module comprises a first electrode surface (preferably a
working electrode surface) that is bounded by a dielectric surface,
the dielectric surface being raised or lowered (preferably, raised)
and/or of different hydrophobicity (preferably, more hydrophobic)
than the electrode surface. Preferably, the dielectric boundary is
higher, relative to the electrode surface, by 0.5-100 micrometers,
or more preferably by 2-30 micrometers, or most preferably by 8-12
micrometers. Even more preferably, the dielectric boundary has a
sharply defined edge (i.e., providing a steep boundary wall and/or
a sharp angle at the interface between the electrode and the
dielectric boundary). Preferably, the first electrode surface has a
contact angle for water 10 degrees less than the dielectric
surface, preferably 15 degrees less, more preferably 20 degrees
less, more preferably 30 degrees less, even more preferably 40
degrees less, and most preferred 50 degrees less. One advantage of
having a dielectric surface that is raised and/or more hydrophobic
than the electrode surface is in the reagent deposition process
where the dielectric boundary may be used to confine a reagent
within the boundary of the electrode surface. In particular, having
a sharply defined edge with a steep boundary wall and/or a sharp
angle at the interface between the electrode and dielectric
boundary is especially useful for "pinning" drops of solution and
confining them to the electrode surface.
[0091] According to another embodiment, an assay module comprises
one or more (preferably two or more) wells, the wells having one or
more first electrode surfaces (preferably one or more working
electrode surfaces) and a plurality of assay domains immobilized
therein. Preferably, at least two of the plurality of the assay
domains comprises different binding reagents. Preferably, each well
comprises at least four, more preferably at least seven, even more
preferably at least ten assay domains and most preferred at least
15 assay domains. One preferred embodiment is a 24 well plate
wherein each well comprises at least 16, preferably at least 25,
more preferably at least 64, even more preferably at least 100
assay domains per well and most preferably at least 250 assay
domains per well.
[0092] Another embodiment of the invention relates to a multi-well
module (preferably a multi-well plate) having a plurality of wells,
wherein the wells comprise a plurality of working electrode
surfaces having assay domains immobilized thereon. Preferably, the
assay domains are independently addressable. For example, a well
may comprise a plurality of assay domains, wherein each assay
domain comprises an electrode which is independently addressable
from the other assay domains within the well. In another example, a
group of wells may each comprise a plurality of assay domains,
wherein each assay domain comprises an electrode which is
independently addressable from the other assay domains within the
well, but which is jointly addressable with an assay domain in each
of the other wells.
[0093] The invention also relates to methods and apparatus for the
measurement of signals from assay modules and MDMW plates of the
invention. The preferred apparatus of the invention can be used to
induce and measure luminescence in assays conducted in assay
modules, preferably in multi-well assay plates. It may incorporate,
for example, one or more photodetectors; a light tight enclosure;
electrical connectors for contacting the assay modules; mechanisms
to transport multi-well assay modules into and out of the apparatus
(and in particular, into and out of light tight enclosures);
mechanisms to align and orient multi-well assay modules with the
photodetector(s) and with electrical contacts; mechanisms to track
and identify modules (e.g. bar code readers); mechanisms to make
electrical connections to modules, one or more sources of
electrical energy for inducing luminescence in the modules; and
appropriate electronics and software.
[0094] The apparatus may also include mechanisms to store, stack,
move and/or distribute one or more assay modules (e.g. multi-well
plate stackers). The apparatus may advantageously use arrays of
photodetectors (e.g. arrays of photodiodes) or imaging
photodetectors (e.g. CCD cameras) to measure light. These detectors
allow the apparatus to measure the light from multiple wells, assay
domains, and/or assay cells simultaneously and/or to image the
intensity and spatial distribution of light emitted from an
individual well, assay cell and/or assay domain.
[0095] The apparatus can preferably measure light from one or more
sectors of an assay module, preferably a multi-well assay plate. In
some embodiments, a sector comprises a group of wells, assay
domains and/or assay cells numbering between one and a number fewer
than the total number of wells (and/or chambers) in the assay
module (e.g. a row, column, or two-dimensional sub-array of wells
in a multi-well plate). In preferred embodiments, a sector
comprises between 4 percent and 50 percent of the wells of a
multi-well plate. In especially preferred embodiments, multi-well
assay plates are divided into columnar sectors (each sector having
one row or column of wells) or square sectors (e.g., a standard
sized multi-well plate can be divided into six square sectors of
equal size). In some embodiments, a sector may comprise one or more
wells with more than one fluid containment region within the wells.
The apparatus, preferably, is adapted to sequentially induce ECL in
and/or sequentially measure ECL from the sectors in a given module,
preferably plate.
[0096] One aspect of the invention relates to the immobilization of
materials in assay domains on electrodes having improved electrode
compositions and surfaces and assay modules comprising these
electrode compositions and surfaces. Electrodes in the present
invention are preferably comprised of a conductive material. The
electrode may comprise a metal such as gold, silver, platinum,
nickel, steel, iridium, copper, aluminum, a conductive alloy, or
the like. They may also comprise oxide coated metals (e.g. aluminum
oxide coated aluminum) Electrodes may comprise non-metallic
conductors such as conductive forms of molecular carbon. Electrodes
may also be comprised of semiconducting materials (e.g. silicon,
germanium) or semi-conducting films such as indium tin oxide (ITO),
antimony tin oxide (ATO) and the like. Electrodes may also be
comprised of mixtures of materials containing conducting
composites, inks, pastes, polymer blends, metal/non-metal
composites and the like. Such mixtures may include conductive or
semi-conductive materials mixed with non-conductive materials.
Preferably, electrode materials are substantially free of
silicone-based materials.
[0097] Electrodes (in particular working electrodes) used in assay
modules of the invention are advantageously able to induce
luminescence from luminescent species. Preferable materials for
working electrodes are materials able to induce
electrochemiluminescence from Ruthenium-tris-bipyridine in the
presence of tertiary alkyl amines (such as tripropyl amine)
Examples of such preferred materials include platinum, gold, ITO,
carbon, carbon-polymer composites, and conductive polymers.
[0098] Preferably, electrodes are comprised of carbon-based
materials such as carbon, carbon black, graphitic carbon, carbon
nanotubes, carbon fibrils, graphite, carbon fibers and mixtures
thereof. Advantageously, they may be comprised of conducting
carbon-polymer composites, conducting particles dispersed in a
matrix (e.g. carbon inks, carbon pastes, metal inks), and/or
conducting polymers. One preferred embodiment of the invention is
an assay module, preferably a multi-well plate, having electrodes
(e.g., working and/or counter electrodes) that comprise carbon,
preferably carbon layers, more preferably screen-printed layers of
carbon inks Some useful carbon inks include materials produced by
Acheson Colloids Co. (e.g., Acheson 440B, 423ss, PF407A, PF407C,
PM-003A, 30D071, 435A, Electrodag 505SS, and Aquadag.TM.), E. I. Du
Pont de Nemours and Co. (e.g., Dupont 7105, 7101, 7102, 7103, 7144,
7082, 7861D, and CB050), Conductive Compounds Inc (e.g., C-100),
and Ercon Inc. (e.g., G-451).
[0099] In another preferred embodiment, the electrodes of the
invention comprise carbon fibrils. The terms "carbon fibrils",
"carbon nanotubes", single wall nanotubes (SWNT), multiwall
nanotubes (MWNT), "graphitic nanotubes", "graphitic fibrils",
"carbon tubules", "fibrils" and "buckeytubes", all of which terms
may be used to describe a broad class of carbon materials (see
Dresselhaus, M. S.; Dresselhaus, G.; Eklund, P. C.; "Science of
Fullerenes and Carbon Nanotubes", Academic Press, San Diego,
Calif., 1996, and references cited therein). The terms "fibrils"
and "carbon fibrils" are used throughout this application to
include this broad class of carbon-based materials. Individual
carbon fibrils as disclosed in U.S. Pat. Nos. 4,663,230; 5,165,909;
and 5,171,560 are particularly advantageous. They may have
diameters that range from about 3.5 nm to 70 nm, and length greater
than 10.sup.2 times the diameter, an outer region of multiple,
essentially continuous, layers of ordered carbon atoms and a
distinct inner core region. Simply for illustrative purposes, a
typical diameter for a carbon fibril may be approximately between
about 7 and 25 nm, and a typical range of lengths may be 1000 nm to
10,000 nm. Carbon fibrils may also have a single layer of carbon
atoms and diameters in the range of 1 nm-2 nm. Electrodes of the
invention may comprise one or more carbon fibrils, e.g., in the
form of a fibril mat, a fibril aggregate, a fibril ink, a fibril
composite (e.g., a conductive composite comprising fibrils
dispersed in an oil, paste, ceramic, polymer, etc.). One preferred
embodiment of the invention relates to a multi-well plate
comprising a substrate comprising a carbon nanotube-containing
composite (preferably, carbon nanotubes dispersed in a polymeric
matrix), wherein the surface of the substrate is etched to expose
the carbon nanotubes, thereby forming one or more working
electrodes.
[0100] Electrodes may be formed into patterns by a molding process
(i.e., during fabrication of the electrodes), by patterned
deposition, by patterned printing, by selective etching, through a
cutting process such as die cutting or laser drilling, and/or by
techniques known in the art of electronics microfabrication.
Electrodes may be self supporting or may be supported on another
material, e.g. on films, plastic sheets, adhesive films, paper,
backings, meshes, felts, fibrous materials, gels, solids (e.g.
metals, ceramics, glasses), elastomers, liquids, tapes, adhesives,
other electrodes, dielectric materials and the like. The support
may be rigid or flexible, flat or deformed, transparent,
translucent, opaque or reflective. Preferably, the support
comprises a flat sheet of plastic such as acetate or polystyrene.
Electrode materials may be applied to a support by a variety of
coating and deposition processes known in the art such as painting,
spray-coating, screen-printing, ink-jet printing, laser printing,
spin-coating, evaporative coating, chemical vapor deposition, etc.
Supported electrodes may be patterned using photolithographic
techniques (e.g., established techniques in the microfabrication of
electronics), by selective etching, and/or by selective deposition
(e.g., by evaporative or CVD processes carried out through a mask).
In a preferred embodiment, electrodes are comprised of extruded
films of conducting carbon/polymer composites. In another preferred
embodiment, electrodes are comprised of a screen printed conducting
ink deposited on a substrate. Electrodes may be supported by
another conducting material. Advantageously, screen printed carbon
ink electrodes are printed over a conducting metal ink (e.g.,
silver ink) layer so as to improve the conductivity of the
electrodes.
[0101] According to one preferred embodiment of the invention, the
electrode surface (preferably a working electrode surface of an
assay module or assay plate) is bounded by a dielectric surface,
the dielectric surface being raised or lowered (preferably, raised)
and/or of different hydrophobicity (preferably, more hydrophobic)
than the electrode surface. Preferably, the dielectric boundary is
higher, relative to the electrode surface, by 0.5-100 micrometers,
or more preferably by 2-30 micrometers, or most preferably by 8-12
micrometers. Even more preferably, the dielectric boundary has a
sharply defined edge (i.e., providing a steep boundary wall and/or
a sharp angle at the interface between the electrode and the
dielectric boundary).
[0102] Preferably, the first electrode surface has a contact angle
for water 10 degrees less than the dielectric surface, preferably
15 degrees less, more preferably 20 degrees less, more preferably
30 degrees less, even more preferably 40 degrees less, and most
preferred 50 degrees less. One advantage of having a dielectric
surface that is raised and/or more hydrophobic than the electrode
surface is in the reagent deposition process where the dielectric
boundary may be used to confine a reagent within the boundary of
the electrode surface. In particular, having a sharply defined edge
with a steep boundary wall and/or a sharp angle at the interface
between the electrode and dielectric boundary is especially useful
for "pinning" drops of solution and confining them to the electrode
surface. In an especially preferred embodiment of the invention,
the dielectric boundary is formed by printing a patterned
dielectric ink on and/or around the electrode, the pattern designed
so as to expose one or more assay domains on the electrode.
[0103] Electrodes may be modified by chemical or mechanical
treatment to improve the immobilization of reagents. The surface
may be treated to introduce functional groups for immobilization of
reagents or to enhance its adsorptive properties. Surface treatment
may also be used to influence properties of the electrode surface,
e.g., the spreading of water on the surface or the kinetics of
electrochemical processes at the surface of the electrode.
Techniques that may be used include exposure to electromagnetic
radiation, ionizing radiation, plasmas or chemical reagents such as
oxidizing agents, electrophiles, nucleophiles, reducing agents,
strong acids, strong bases and/or combinations thereof. Treatments
that etch one or more components of the electrodes may be
particularly beneficial by increasing the roughness and therefore
the surface area of the electrodes. In the case of composite
electrodes having conductive particles or fibers (e.g., carbon
particles or fibrils) in a polymeric matrix or binder, selective
etching of the polymer may be used to expose the conductive
particles or fibers.
[0104] One particularly useful embodiment is the modification of
the electrode, and more broadly a material incorporated into the
present invention by treatment with a plasma, specifically a low
temperature plasma, also termed glow-discharge. The treatment is
carried out in order to alter the surface characteristics of the
electrode, which come in contact with the plasma during treatment.
Plasma treatment may change, for example, the physical properties,
chemical composition, or surface-chemical properties of the
electrode. These changes may, for example, aid in the
immobilization of reagents, reduce contaminants, improve adhesion
to other materials, alter the wettability of the surface,
facilitate deposition of materials, create patterns, and/or improve
uniformity. Examples of useful plasmas include oxygen, nitrogen,
argon, ammonia, hydrogen, fluorocarbons, water and combinations
thereof. Oxygen plasmas are especially preferred for exposing
carbon particles in carbon-polymer composite materials. Oxygen
plasmas may also be used to introduce carboxylic acids or other
oxidized carbon functionality into carbon or organic materials
(these may be activated, e.g., as active esters or acyl chlorides)
so as to allow for the coupling of reagents. Similarly,
ammonia-containing plasmas may be used to introduce amino groups
for use in coupling to assay reagents.
[0105] Treatment of electrode surfaces may be advantageous so as to
improve or facilitate immobilization, change the wetting properties
of the electrode, increase surface area, increase the binding
capacity for the immobilization of reagents (e.g., lipid, protein
or lipid/protein layers) or the binding of analytes, and/or alter
the kinetics of electrochemical reactions at the electrode. In some
applications, however, it may be preferable to use untreated
electrodes. For example, we have found that it is advantageous to
etch carbon ink electrodes prior to immobilization when the
application calls for a large dynamic range and therefore a high
binding capacity per area of electrode. We have discovered that
oxidative etching (e.g., by oxygen plasma) has additional
advantages in that the potential for oxidation of tripropyl amine
(TPA) and the contact angle for water are both reduced relative to
the unetched ink. The low contact angle for water allows reagents
to be adsorbed on the electrode by application of the reagents in a
small volume of aqueous buffer and allowing the small volume to
spread evenly over the electrode surface. Surprisingly, we have
found that excellent assays may also be carried out on unetched
carbon ink electrodes despite the presence of polymeric binders in
the ink. In fact, in some applications requiring high sensitivity
or low-non specific binding it is preferred to use unetched carbon
ink electrodes so as to minimize the surface area of exposed carbon
and therefore minimize background signals and loss of reagents from
non-specific binding of reagents to the exposed carbon. Depending
on the ink used and the process used to apply the ink, the
electrode surface may not be easily wettable by aqueous solutions.
We have found that we can compensate for the low wettability of the
electrodes during the adsorption of reagents by adding low
concentrations of non-ionic detergents to the reagent solutions so
as to facilitate the spreading of the solutions over the electrode
surface. Even spreading is especially important during the
localized immobilization of a reagent from a small volume of
solution. For example, we have found that the addition of
0.005-0.04% Triton.RTM. X-100 allows for the spreading of protein
solutions over unetched carbon ink surfaces without affecting the
adsorption of the protein to the electrode and without disrupting
the ability of a dielectric film applied on or adjacent to the
electrode (preferably, a printed dielectric film with a thickness
of 0.5-100 micrometers, or more preferably 2-30 micrometers, or
most preferably 8-12 micrometers and having a sharply defined edge)
to confine fluids to the electrode surface. Preferably, when
non-ionic detergents such as Triton.RTM. X-100 are used to
facilitate spreading of reagents (e.g., capture reagents) onto
unetched screen-printed electrodes (i.e., so as to allow the
immobilization of the reagents), the solutions containing the
reagents are allowed to dry onto the electrode surface. It has been
found that this drying step greatly improves the efficiency and
reproducibility of the immobilization process.
[0106] Electrodes can be derivatized with chemical functional
groups that can be used to attach other materials to them.
Materials may be attached covalently to these functional groups, or
they may be adsorbed non-covalently to derivatized or underivatized
electrodes. Electrodes may be prepared with chemical functional
groups attached covalently to their surface. These chemical
functional groups include but are not limited to COOH, OH,
NH.sub.2, activated carboxyls (e.g., N-hydroxy succinimide
(NHS)-esters), poly-(ethylene glycols), thiols, alkyl
((CH.sub.2).sub.n) groups, and/or combinations thereof). Certain
chemical functional groups (e.g., COOH, OH, NH.sub.2, SH, activated
carboxyls) may be used to couple reagents to electrodes. For
further reference to useful immobilization and bioconjugation
techniques see G. Hermanson, A. Mallia and P. Smith, Immobilized
Affinity Ligand Techniques (Academic Press, San Diego, 1992) and G.
Hermanson, Bioconjugate Techniques (Academic Press, San Diego,
1996).
[0107] In preferred embodiments, NHS-ester groups are used to
attach other molecules or materials bearing a nucleophilic chemical
functional group (e.g., an amine). In a preferred embodiment, the
nucleophilic chemical functional group is present on and/or in a
biomolecule, either naturally and/or by chemical derivatization.
Examples of suitable biomolecules include, but are not limited to,
amino acids, proteins and functional fragments thereof, antibodies,
binding fragments of antibodies, enzymes, nucleic acids, and
combinations thereof. This is one of many such possible techniques
and is generally applicable to the examples given here and many
other analogous materials and/or biomolecules. In a preferred
embodiment, reagents that may be used for ECL may be attached to
the electrode via NHS-ester groups.
[0108] It may be desirable to control the extent of non-specific
binding of materials to electrodes. Simply by way of non-limiting
examples, it may be desirable to reduce or prevent the non-specific
adsorption of proteins, antibodies, fragments of antibodies, cells,
subcellular particles, viruses, serum and/or one or more of its
components, ECL labels (e.g., Ru.sup.II(bpy).sub.3 and
Ru.sup.III(bpy).sub.3 derivatives), oxalates, trialkylamines,
antigens, analytes, and/or combinations thereof). In another
example, it may be desirable to enhance the binding of
biomolecules.
[0109] One or more chemical moieties that reduce or prevent
non-specific binding (also known as blocking groups) may be present
in, on, or in proximity to an electrode. Such moieties, e.g., PEG
moieties and/or charged residues (e.g., phosphates, ammonium ions),
may be attached to or coated on the electrode. Examples of useful
blocking reagents include proteins (e.g., serum albumins and
immunoglobins), nucleic acids, polyethylene oxides, polypropylene
oxides, block copolymers of polyethylene oxide and polypropylene
oxide, polyethylene imines and detergents or surfactants (e.g.,
classes of non-ionic detergents/surfactants known by the trade
names of Brij, Triton, Tween, Thesit, Lubrol, Genapol, Pluronic
(e.g., F108), Tetronic, Tergitol, and Span).
[0110] Materials used in electrodes may be treated with surfactants
to reduce non-specific binding. For example, electrodes may be
treated with surfactants and/or detergents that are well known to
one of ordinary skill in the art (for example, the Tween, Triton,
Pluronics (e.g., F108), Span, and Brij series of detergents).
Solutions of PEGs and/or molecules which behave in similar fashion
to PEG (e.g., oligo- or polysaccharides, other hydrophilic
oligomers or polymers) ("Polyethylene glycol chemistry:
Biotechnical and Biomedical Applications", Harris, J. M. Editor,
1992, Plenum Press) may be used instead of and/or in conjunction
with surfactants and/or detergents. Undesirable non-specific
adsorption of certain entities such as those listed above may be
blocked by competitive non-specific adsorption of a blocking agent,
e.g., by a protein such as bovine serum albumin (BSA) or
immunoglobulin G (IgG). One may adsorb or covalently attach an
assay reagent on an electrode and subsequently treat the electrode
with a blocking agent so as to block remaining unoccupied sites on
the surface.
[0111] In preferred embodiments, it may be desirable to immobilize
(by either covalent or non-covalent means) biomolecules or other
media to carbon-containing materials, e.g., carbon black, fibrils,
and/or carbon dispersed in another material. One may attach
antibodies, fragments of antibodies, proteins, enzymes, enzyme
substrates, inhibitors, cofactors, antigens, haptens, lipoproteins,
liposaccharides, cells, sub-cellular components, cell receptors,
viruses, nucleic acids, antigens, lipids, glycoproteins,
carbohydrates, peptides, amino acids, hormones, protein-binding
ligands, pharmacological agents, and/or combinations thereof. It
may also be desirable to attach non-biological entities such as,
but not limited to polymers, elastomers, gels, coatings, ECL tags,
redox active species (e.g., tripropylamine, oxalates), inorganic
materials, chelating agents, linkers, etc. A plurality of species
may be co-adsorbed to form a mixed layer on the surface of an
electrode. Most preferably, biological materials (e.g., proteins)
are immobilized on carbon-containing electrodes by passive
adsorption. Surprisingly, biological membranes (e.g., cells, cell
membranes, membrane fragments, membrane vesicles, lipsomes,
organelles, viruses, bacteria, etc.) may be directly adsorbed on
carbon without destroying the activity of membrane components or
their accessibility to binding reagents (see, e.g., copending U.S.
application Ser. No. 10/208,526 (entitled "Assay Electrodes Having
Immobilized Lipid/Protein Layers, Methods Of Making The Same And
Methods Of Using The Same For Luminescence Test Measurements"),
filed on Jul. 29, 2002, hereby incorporated by reference.
[0112] Electrodes used in the multi-well assay plates of the
invention are typically non-porous, however, in some applications
it is advantageous to use porous electrodes (e.g., mats of carbon
fibers or fibrils, sintered metals, and metals films deposited on
filtration membranes, papers or other porous substrates. These
applications include those that employ filtration of solutions
through the electrode so as to: i) increase mass transport to the
electrode surface (e.g., to increase the kinetics of binding of
molecules in solution to molecules on the electrode surface); ii)
capture particles on the electrode surface; and/or iii) remove
liquid from the well.
[0113] The assay modules of the present invention may use
dielectric inks, films or other electrically insulating materials
(hereinafter referred to as dielectrics). Dielectrics in the
present invention may be used to prevent electrical connectivity
between electrodes, to define patterned regions, to adhere
materials together (i.e., as adhesives), to support materials, to
define assay domains, as masks, as indicia and/or to contain assay
reagents and other fluids. Dielectrics are non-conducting and
advantageously non-porous (i.e., do not permit transmission of
materials) and resistant to dissolving or degrading in the presence
of media encountered in an electrode induced luminescence
measurement. The dielectrics in the present invention may be
liquids, gels, solids or materials dispersed in a matrix. They may
be deposited in uncured form and cured to become solid. They may be
inks, solid films, tapes or sheets. Materials used for dielectrics
include polymers, photoresists, plastics, adhesives, gels, glasses,
non-conducting inks, non-conducting pastes, ceramics, papers,
elastomers, silicones, thermoplastics. Preferably, dielectric
materials of the invention are substantially free of silicones.
Examples of non-conducting inks include UV curable dielectrics such
as materials produced by Acheson Colloids Co. (e.g., Acheson 451SS,
452SS, PF-021, ML25251, ML25240, ML25265, and Electrodag 38DJB16
clear) and E. I. du Pont de Nemours and Co. (e.g., Dupont: 5018,
3571, and 5017).
[0114] Dielectrics of the present invention may be applied by a
variety of means, for example, printing, spraying, laminating, or
may be affixed with adhesives, glues, solvents or by use of
mechanical fasteners. Patterns and/or holes in dielectric layers
may be formed by molding processes (i.e., during fabrication of the
layer), by selective etching and/or by a cutting process such as
die cutting or laser drilling. Dielectrics may be deposited and/or
etched in patterns through the use of established photolithographic
techniques (e.g., techniques used in the semiconductor electronics
industry) and/or by patterned deposition using an evaporative or
CVD process (e.g., by deposition through a mask). In a preferred
embodiment, a dielectric ink is deposited on a substrate by
printing (e.g., ink jet printing, laser printing or, more
preferably, screen printing) and, optionally, UV cured. Preferably,
the screen printed dielectric is UV curable allowing for improved
edge definition than solvent based dielectrics. In another
preferred embodiment, a non-conducting polymeric film is affixed to
a support using an adhesive.
[0115] When using a dielectric ink printed on or adjacent an
electrode to confine fluids to regions of the electrode surface,
the dielectric film preferably has a thickness of 0.5-100
micrometers, or more preferably 2-30 micrometers, or most
preferably 8-12 micrometers and also, preferably, has a sharply
defined edge with steep walls.
[0116] The invention includes plate tops and assembled plates
comprising a plate top and, preferably, a plate bottom defining
well bottoms having one or more electrode surfaces, most preferably
having one or more working electrode surfaces and, optionally, one
or more counter electrode surfaces. Preferably, the plate top is a
structure with holes, wherein the structure may be combined with a
plate bottom to form a multi-well plate, the walls of the wells of
the plate being at least partially defined by the inside surfaces
of the holes through the plate top. The holes through the plate top
may be a variety of shapes (e.g., round, oval, square, rectangular,
triangular, star shaped, etc.). The holes may be of various sizes.
They can also have irregular dimensions within a hole (e.g., the
hole may become more narrow or more wide at different depths). For
example, the hole may be shaped like a cone, becoming more narrow
at the bottom so as to optimize the collection of light emitted
from the well bottom. The plate top may also have structures or
indicia thereon that aid in identifying the plate top,
distinguishing the plate top from other configurations of plate
top, or in aligning and handling the plate top. Advantageously, the
dimensions and structure of the plate top are preferably in
accordance with, or at least compatible with, industry standards
for the footprints and shapes of assay plates.
[0117] The plate top may be made from conducting or non-conducting
materials. Preferably, the majority of the plate top is a unitary
molded structure made from rigid thermoplastic material such as
polystyrene, polyethylene or polypropylene. Optimally, this unitary
structure is formed of (or, alternatively, coated with) inexpensive
material that is generally impervious to reactants, can withstand
modest levels of heat and light and is, preferably, resistant to
the adsorption of biomolecules. Preferably, the plate top is
substantially free of silicones. Plate tops may be clear or
translucent. Different colored materials may be used to improve the
results of certain ECL measurement processes.
[0118] It is preferable that the plate top comprise a material that
does not transmit light so as to prevent cross-talk between wells.
A highly reflective metallic coating or constituent material may
provide an especially reflective interior surface for each of wells
so as to increase the efficiency with which light can be
transmitted to photodetectors. An opaque white plastic material
such as a plastic filled with light scattering particles (e.g.,
lead oxide, alumina, silica or, preferably, titanium dioxide
particles) may provide an interior surface for the wells that is
highly light scattering thereby improving light gathering
efficiency. In one embodiment, preferred plate tops comprise
plastics (e.g., well walls) comprising such light scattering
particles at a concentration of from 4-20 wt %, preferably 6-20%,
more preferably 6-15%, even more preferably 6-12%, and most
preferred approximately 9%. In an alternate preferred embodiment,
the plate top comprises an opaque, preferably non-reflective, black
material to prevent the reflection or scattering of ECL-generated
light from different locations within a well and to prevent
reflective interference during ECL test measurements. In general,
when imaging light emitted from a well (e.g., when using a camera
to produce an image of light emitted from the well) it is
advantageous that the interior surface of the well (e.g., as
defined by a plate top) comprise an absorptive (e.g., black)
preferably non-scattering material since the detection of scattered
light will reduce the fidelity of the image. In general, when
detecting light in a non-imaging mode (e.g., when a single light
detector is used to detect all the light emitted from a well) it is
advantageous that the interior surface of the well comprise a
reflective or highly scattering material so as to prevent the loss
of light due to adsorption of light at the well walls and to
maximize the collection of light at the detector.
[0119] The invention also includes assay module tops and assembled
assay modules comprising an assay module top and a plate bottom or
assay module substrate. The assay module top may be a plate top (as
described above). The assay module top may have, e.g., holes,
channels, and/or wells that when mated to a plate bottom or assay
module substrate define wells and/or chambers, such wells and/or
chambers preferably comprising one or more electrodes (and/or assay
domains) provided by the plate bottom or assay module substrate.
The assay module top may have additional channels, tubes or other
microfluidics so as to allow the flow of samples into, out of
and/or between wells, flow cells and chambers of an assay
module.
[0120] FIGS. 10A and 10B show a layered view and a stylized
cross-sectional view, respectively, of an embodiment of the
multi-well assay plate of the invention. Multi-well assay plate
1000 is a laminar structure comprising, in sequence, a plate top
1020, an adhesive layer 1030, a dielectric layer 1040, a conductive
layer 1050, a substrate layer 1060 and a contact layer 1070. Holes
1022 and 1032 through plate top 1020 and adhesive layer 1030,
respectively, are aligned so as to form a plurality of wells 1002
having well bottoms defined by dielectric layer 1040, conductive
layer 1050 and/or substrate layer 1060 and well walls defined by
the interior surfaces of holes 1022 and 1032. Through-holes 1062
and 1064 through substrate layer 1060 provide an electrical path
between elements of conductive layer 1050 and elements of contact
layer 1070. Details A-D show the pattern of layers 1070, 1060, 1050
and 1040 within a given sector of plate 1000. Element 1080 shows
layers 1070, 1060, 1050 and 1040 aligned and stacked, in order from
top to bottom--1040 (top), 1050, 1060, and 1070 (bottom)--so as to
form a plate bottom with integrated electrodes.
[0121] Plate top 1020 is a plate top as described above. Adhesive
layer 1030 is an adhesive suitable for forming a fluid-tight seal
between plate top 1020 and dielectric layer 1040, conductive layer
1050 and/or substrate layer 1060. Adhesive layer 1030 may be an
adhesive coating applied, e.g., by spray coating, onto plate top
1020. In a preferred embodiment, adhesive layer 1030 is a double
sided adhesive tape (i.e., a plastic film coated on both sides with
adhesive). Holes 1032 are preferably formed by a cutting process
such as laser drilling or die cutting. Optionally, adhesive 1030
may be omitted (e.g., when the adjoining layers have adhesive
properties or when sealing is accomplished without the use of
adhesives, e.g., by clamping, heat sealing, sonic welding, solvent
welding, etc.). Alternatively, both plate top 1020 and adhesive
layer 1030 may be omitted.
[0122] Conductive layer 1050 comprises materials suitable for use
as working electrodes and/or counter electrodes in an ECL assay and
is supported on substrate 1060, a non-conductive substrate such as
a plastic sheet or film. Preferably, conductive layer 1050 is a
conductive coating such as a carbon ink and may be formed by a
printing process such as screen printing. Conductive layer 1050 is
sectioned, e.g., by screen printing in a defined pattern, into 6
electrically isolated working electrode sections 1052 and 6
electrically isolated counter electrode sections 1054 so as to
divide plate 1000 into 6 independently addressable square sectors.
As shown in the figure, the sectioning is designed so that fluid in
a given well will be in contact with at least one working electrode
section and at least one counter electrode section. The working
electrode sections may have a different composition than the
counter electrode sections so as to optimize the performance of the
electrodes or they may comprise the same materials so as to
minimize the complexity of manufacturing, e.g., to reduce the
number of printing steps. Preferably, they both comprise a carbon
ink overlayer over a silver ink underlayer; the carbon ink
providing the active electrode surface and the silver ink providing
sufficient conductivity so that, during use of the plate in an
assay, electrical potential is evenly distributed throughout a
particular section. When forming such layers, e.g., by a two step
printing process, it is beneficial that the overlayer be of
slightly larger dimensions than the underlayer and that it be of
suitable thickness to ensure that a sample in wells 1002 is not
exposed to the underlayer material. It may be beneficial to print
or deposit the overlayer in multiple layers so as to ensure that
the underlayer is completely covered so that the underlayer does
not interfere with subsequent processing steps or with ECL
measurements (e.g., a preferred electrode material comprises three
layers of carbon ink over a layer of silver ink, the layers most
preferably being deposited by screen printing). Dielectric layer
1040 is an electrically insulating film, preferably formed from a
dielectric ink by a printing process such as screen printing.
Dielectric layer 1040 is patterned so as to define the surfaces of
conductive layer 1050 that contact fluids in wells 1002 (i.e., the
surfaces that are not covered). Holes 1042 in dielectric layer 1040
define fluid containment regions on the working electrode sections
1052 of conductive layer 1050. In such fluid containment regions,
the dielectric layer acts as a barrier that can be used to confine
small volumes of fluids over the working electrode, e.g., to aid in
depositing assay reagents onto selected assay domains within a
well. Holes 1042 in dielectric layer 1040 define one fluid
containment regions and/or assay domains on the working electrode
surface within each well of plate 1000. Optionally, dielectric
layer 1040 may be omitted (in such a case, reagents may still be
deposited into defined assay domains by controlled deposition,
e.g., using microdispensing or pin transfer techniques).
[0123] Contact layer 1070 is a conductive layer that allows for
electrical connection of the multi-well assay plate to an external
source of electrical energy. The contact layer is sectioned in a
series of working electrode contacts 1072 and counter electrode
contacts 1074 to allow independent connection to specific sections
of electrodes 1052 and 1054. The contact layers are, preferably,
formed by printing, most preferably screen printing, a silver ink
under layer (to provide high conductivity) followed by a carbon ink
overlayer (to prevent corrosion of the silver ink and prevent any
deleterious effects by the exposed silver on a subsequent plasma
processing step). Holes 1062 and 1064 in substrate 1060 are,
preferably, made by a cutting process such as die cutting or laser
drilling. Holes 1062 are filled with a conductive material to
provide an electrical connection between working electrode contacts
1072 and working electrode sections 1052. Holes 1064 are filled
with conductive material to provide an electrical connection
between counter electrode contacts 1074 and counter electrode
sections 1054. Holes 1062 and 1064 are preferably filled with
conductive material during the formation of conductive layer 1050
or contact layer 1070, e.g., during the printing of a conductive
ink on a substrate, excess ink is forced into holes in the
substrate so as to fill the holes with the conductive ink.
[0124] In operation, test samples are introduced into wells of
plate 1000. A source of electrical energy is connected across one
or more working electrode sections 1052 and one or more counter
electrode sections 1054 (via one or more of working electrode
contacts 1072 and one or more of counter electrode contacts 1074,
respectively). Application of electrical energy across these
connections leads to the application of an electrochemical
potential across the test samples via the exposed surfaces of
electrode sections 1052 and 1054 (the application of
electrochemical potential being confined to wells in sectors
contacting working electrode and counter electrode sections that
are in electrical connection to the source of electrical
energy).
[0125] The structure shown in FIGS. 10A and 10B is readily modified
so as to be applicable to plates having different numbers of wells,
different arrangements of wells and/or different arrangements of
independently addressable sectors. Preferred embodiments include
96-well plates having 4, 7, or 10 assay domains per well and
24-well plates having 25, 64 or 100 wells per plate. FIG. 10C shows
dielectric layer 1140, a modification of dielectric layer 1040
designed to expose 4 "fluid containment regions" 1141 on the
working electrode surface of each well (the figure is only shown
for one sector of the plate). FIG. 10D shows a stylized
cross-sectional view of 3 wells of plate 1100 which is identical to
plate 1000 except for the replacement of dielectric layer 1040 with
dielectric layer 1140.
[0126] FIG. 11 shows, multi-well assay plate 1500, an embodiment of
the invention that is particularly well suited for genomic or
proteomic analysis. The size of the wells is chosen so as to
optimize the efficiency of the imaging of luminescence generated
from the wells by the imaging instrument (as described below).
Multi-well assay plate 1500 is a laminar structure comprising, in
sequence, plate top 1520, adhesive layer 1530, conductive tape
layer 1514B, dielectric layer 1540, conductive layer 1552,
substrate 1560, contact layer 1572 and conductive tape layer 1514A.
Element 1580 shows layers 1572, 1560, 1552 and 1540 aligned and
stacked, in order from top to bottom, 1540 (top), 1552, 1560, 1572
(bottom). Conductive tape layers 1514A and 1514B are provided by
folding conductive tape 1510 around element 1580 at fold 1516.
Holes 1522, 1532 and 1518 are aligned so as to form a plurality of
wells having well bottoms defined by element 1580. Through-holes
1562 through substrate 1560 provide an electrical path between
conductive layer 1552 and contact layer 1572. Through holes 1512
through conductive tape layer 1514A provide access to contact layer
1572 (and, therefore a way to contact conductive layer 1552). Plate
top 1520 is analogous to plate top 1020 from FIG. 10 except for the
specific arrangement of wells. Adhesive layer 1530 is an adhesive
analogous to adhesive layer 1030 in FIG. 10 and may be omitted.
Conductive tape 1510 is a laminate structure comprising a
conductive film on an insulating and adhesive substrate
(preferably, a plastic film coated on one side with an evaporated
layer of aluminum and on the other side with an adhesive).
Substrate 1560, conductive layer 1552, dielectric layer 1540 and
contact layer 1572 are similar in composition and preparation to
substrate 1060, conductive layer 1050, dielectric layer 1040 and
contact layer 1072 as described for FIG. 10. Conductive layer 1552
is sectioned into 6 square sections so as to divide plate 1500 into
6 independently addressable sectors (each having one well). Holes
1542 through dielectric layer 1540, define a large number
(preferably 10-50,000, more preferably 100-10,000; 256 are shown in
the figure) of fluid containment regions in each well. Binding
reagents such as specific nucleic acid sequences or specific
proteins can be selectively introduced and or immobilized into
specific fluid containment regions by selectively microdispensing
the binding reagents into the specific fluid containment
regions.
[0127] While the figures illustrating embodiments of the plates of
the invention have shown specific patterns for number, shape and
distribution of wells, sectors and fluid containment regions/assay
domains, it should be clear that the designs are adaptable so as to
allow for a wide variation in these parameters.
[0128] The assay domains and immobilized layers of the invention
are useful for carrying out a wide variety of established assay
formats, e.g., assays based on the measurement of electrochemical
voltage and/or current or, preferably, an electrode-induced
luminescence, most preferably, electrochemiluminescence. For
examples of methods for conducting ECL assays, the reader is
directed towards U.S. Pat. Nos. 5,591,581; 5,641,623; 5,643,713;
5,705,402; 6,066,448; 6,165,708; 6,207,369; and 6,214,552 and
Published PCT Applications WO87/06706 and WO98/12539, these
references hereby incorporated by reference. Assays may be directed
to, but are not limited to, the measurement of the quantity of an
analyte; the measurement of a property of a sample (e.g.,
temperature, luminescence, electrochemical activity, color,
turbidity, etc.); the measurement of a chemical, biochemical and/or
biological activity (e.g., an enzymatic activity); the measurement
of a kinetic or thermodynamic parameter (e.g., the rate or
equilibrium constant for a reaction), etc.
[0129] The embodiments of the invention can be used to test a
variety of samples which may contain an analyte or activity of
interest. Such samples may be in solid, emulsion, suspension,
liquid, or gas form. They may be, but are not limited to, samples
containing or derived from, for example, cells (live or dead) and
cell-derived products, cell fragments, cell fractions, cell
lysates, organelles, cell membranes, cell culture supernatants
(including supernatants from antibody producing organisms such as
hybridomas), waste or drinking water, food, beverages,
pharmaceutical compositions, blood, serum, plasma, hair, sweat,
urine, feces, tissue, saliva, mucous, oils, sewage, environmental
samples, organic solvents or air. The sample may further comprise,
for example, water, organic solvents (e.g., acetonitrile, dimethyl
sulfoxide, dimethyl formamide, n-methyl-pyrrolidone or alcohols) or
mixtures thereof.
[0130] Analytes that may be measured include, but are not limited
to, whole cells, cell surface antigens, subcellular particles
(e.g., organelles or membrane fragments), viruses, prions, dust
mites or fragments thereof, viroids, antibodies, antigens, haptens,
fatty acids, nucleic acids (and synthetic analogs), proteins (and
synthetic analogs), lipoproteins, polysaccharides, inhibitors,
cofactors, haptens, cell receptors, receptor ligands,
lipopolysaccharides, glycoproteins, peptides, polypeptides,
enzymes, enzyme substrates, enzyme products, second messengers,
cellular metabolites, hormones, pharmacological agents, synthetic
organic molecules, organometallic molecules, tranquilizers,
barbiturates, alkaloids, steroids, vitamins, amino acids, sugars,
lectins, recombinant or derived proteins, biotin, avidin,
streptavidin, or inorganic molecules present in the sample.
Activities that may be measured include, but are not limited to,
the activities of phosphorylases, phosphatases, esterases,
trans-glutaminases, nucleic acid damaging activities, transferases,
oxidases, reductases, dehydrogenases, glycosidases, ribosomes,
protein processing enzymes (e.g., proteases, kinases, protein
phosphatases, ubiquitin-protein ligases, etc.), nucleic acid
processing enzymes (e.g., polymerases, nucleases, integrases,
ligases, helicases, telomerases, etc.), cellular receptor
activation, second messenger system activation, etc.
[0131] In one embodiment of the invention, a sample potentially
containing a luminescent, chemiluminescent and/or redox-active
substance (preferably an ECL-active substance) is introduced to an
assay plate or one or more wells of an assay plate of the invention
and an electrochemical or luminescent signal (preferably,
electrochemiluminescence) from the sample is induced and measured
from one or more assay domains so as to measure the quantity of the
substance and/or identify the substance. In another embodiment of
the invention, a sample containing a luminescent, chemiluminescent
and/or redox-active substance (preferably an ECL-active substance)
is introduced to an assay plate or one or more wells of an assay
plate of the invention and an electrochemical or luminescent signal
(preferably, electrochemiluminescence) from the sample is induced
and measured from one or more assay domains so as to measure the
presence of substances, chemical activities or biological
activities that affect the production of the signal from the
substance (e.g., the presence, production and/or consumption of ECL
coreactants, hydrogen ions, luminescence quenchers,
chemiluminescence triggers, etc.). In other embodiments of the
invention, luminescent, chemiluminescent and/or redox-active
substances (preferably ECL-active substances) are used as labels to
allow the monitoring of assay reagents such as enzyme substrates or
binding reagents. Assay formats for measuring analytes through the
use of labeled binding reagents specific for the analyte include
homogeneous and heterogeneous methods. Heterogeneous methods may
include a wash step to separate labels (and/or labels attached to a
material) on a solid phase/electrode from labels in solution.
[0132] A wide variety of materials have been shown to emit
electrode induced luminescence, particularly
electrochemiluminescence, and may be used with the methods, plates,
kits, systems and instruments of the invention. In preferred
electrochemiluminescence systems, ECL-active materials and/or
labels are regenerated after the emission of
electrochemiluminescence and, during an electrochemiluminescence
experiment, may be repeatedly excited to an excited state and/or
induced to emit luminescence. For example, one class of ECL-active
materials are believed to function via a mechanism that includes
the steps of i) oxidation of the material; ii) reduction of the
oxidized material by a strong reducing agent so as to produce the
material in an excited state and iii) emission of a photon from the
excited state so as to regenerate the ECL-active material.
Preferably, the difference in redox potentials between the
ECL-active material and the strong reducing agent is sufficient so
that the energy released by step (ii) is equal to or greater than
the energy of the photon. In an analogous mechanism, steps (i) and
(ii) may be replaced by i) reduction of the material and ii)
oxidation of the reduced material by a strong oxidizing agent. In
some especially preferred systems, the mechanism is believed to
further comprise the step of oxidizing an ECL coreactant so as to
form the strong reducing agent or, analogously, reducing an ECL
coreactant to form the strong oxidizing agent.
[0133] Preferred luminescent materials and labels include
luminescent organometallic complexes of Ru, Os and Re. Some
especially useful materials are polypyridyl complexes of ruthenium
and osmium, in particular, complexes having the structure
ML.sup.1L.sup.2L.sup.3 where M is ruthenium or osmium, and L.sup.1,
L.sup.2 and L.sup.3 each are bipyridine, phenanthroline,
substituted bipyridine and/or substituted phenanthroline. We have
found that the inclusion of substituted bipyridines or
phenanthrolines presenting substituents comprising negatively
charged groups, preferably sulfate groups and most preferably
sulfonate groups (as described in copending U.S. patent application
Ser. No. 09/896,974, entitled "ECL Labels Having Improved
Non-Specific Binding Properties, Methods of Using and Kits
Containing the Same" filed Jun. 29, 2001, the disclosure hereby
incorporated by reference) are especially preferred due to their
resistance to non-specific binding, in particular to electrodes
comprising carbon, carbon particles, carbon fibrils, carbon
composites, carbon fibril composites and/or carbon inks.
[0134] The invention also relates to detection methods using the
electrodes of the present invention.
[0135] One aspect of the invention relates to methods of measuring
an analyte of interest, wherein the analyte of interest is
immobilized on an electrode (preferably in an assay domain of an
assay cell or assay well). One embodiment comprises the steps of:
i) immobilizing the analyte of interest on an electrode, preferably
within an assay domain, e.g., by contacting the electrode with a
sample comprising the analyte of interest and ii) measuring the
analyte of interest. The immobilization preferably proceeds via the
formation of covalent bonds to functional groups on the electrode,
or more preferably via the formation of specific binding
interactions with binding reagents immobilized on the electrode, or
most preferably via passive adsorption on the electrode.
[0136] Another aspect of the invention relates to methods of
measuring an analyte of interest that binds to a biomaterial,
wherein the biomaterial is immobilized on an electrode (preferably
in an assay domain of an assay cell or assay well). One embodiment
comprises the steps of i) contacting the biomaterial with a sample
comprising the analyte; ii) forming a complex on the electrode
comprising the analyte and the biomaterial and ii) measuring the
analyte of interest. The biomaterial is preferably immobilized on
the electrode via covalent bonds to functional groups on the
electrode, or more preferably via specific binding interactions
with a capture reagent immobilized on the electrode, or most
preferably via passive adsorption on the electrode. Optionally, the
assay method also comprises the step of immobilizing the
biomaterial on the electrode. This immobilization step can be
carried out before, during and/or after the step of contacting the
biomaterial with the sample.
[0137] Preferably, the aforementioned methods of measuring an
analyte further comprise the steps of applying electrical energy
(e.g., current or voltage) to the electrode (preferably, under
conditions appropriate for inducing electrochemiluminescence, e.g.,
in the presence of an ECL coreactant) and measuring luminescence
(preferably, electrochemiluminescence) induced at the electrode
(e.g., from a luminescent species, preferably an
electrochemiluminescent species, associated with the analyte),
wherein the luminescence signal correlates to the amount of analyte
present. Optionally, the method may comprise the step of
introducing an ECL coreactant prior to the induction of
luminescence. The luminescent species may be the analyte itself or
it may be a luminescent species linked to the analyte. Such
linkages may include i) a covalent bond, ii) a specific binding
interaction (e.g., via a labeled antibody directed against the
analyte) and/or iii) a non-specific binding interaction. The assay
method, preferably, further comprises the step of forming the
linkage between the label and the analyte, e.g., by contacting or
mixing the analyte with a label or a labeled reagent such as a
labeled binding reagent. The formation of the linkage may be
carried out before, during and/or after the immobilization step.
The assay method may also include one or more wash steps to remove
material (e.g., analyte, biomaterial, blocking reagent, labeled
reagent, etc.) that is not bound to the electrode.
[0138] Another aspect of the invention relates to methods of
measuring a binding interaction of a biomaterial with a binding
partner, wherein the biomaterial is immobilized on an electrode
(preferably in an assay domain of an assay cell or assay well). One
embodiment comprises the steps of i) contacting the biomaterial
with a binding partner of the biomaterial; ii) forming a complex on
the electrode comprising the biomaterial and the binding partner
and ii) measuring the complex so as to measure the binding
interaction. The biomaterial is preferably immobilized on the
electrode via covalent bonds to functional groups on the electrode,
or more preferably via specific binding interactions with a capture
reagent immobilized on the electrode, or most preferably via
passive adsorption on the electrode. Optionally, the assay method
also comprises the step of immobilizing the biomaterial on the
electrode. This immobilization step can be carried out before,
during and/or after the step of contacting the biomaterial with the
binding partner. The measurement of the binding interaction may be
used in a variety of applications including, but not limited to, i)
measuring the amount of the biomaterial; ii) measuring the amount
of the binding partner and iii) measuring the affinity of a
biomaterial for binding partner. The assay method may further
comprise the step of contacting the biomaterial and/or the binding
partner with an inhibitor of the binding interaction so that the
extent of binding is indicative, e.g., of the amount of the
inhibitor or the inhibition constant of the inhibitor. The
inhibition assay may also be used to screen compounds for
inhibitors of the binding interaction.
[0139] Preferably, the aforementioned method of measuring a binding
interaction further comprises the steps of applying electrical
energy (e.g., current or voltage) to the electrode (preferably,
under conditions appropriate for inducing electrochemiluminescence,
e.g., in the presence of an ECL coreactant) and measuring
luminescence (preferably, electrochemiluminescence) induced at the
electrode (e.g., from a luminescent species, preferably an
electrochemiluminescent species, associated with the binding
partner), wherein the luminescence signal correlates to the number
of binding interactions. Optionally, the method may comprise the
step of introducing an ECL coreactant prior to the induction of
luminescence. The luminescent species may be the binding partner
itself or it may be a luminescent species linked to the binding
partner. Such linkages may include i) a covalent bond, ii) a
specific binding interaction (e.g., via a labeled antibody directed
against the binding partner) and/or iii) a non-specific binding
interaction. The assay method, preferably, further comprises the
step of forming the linkage between the label and the binding
partner, e.g., by contacting or mixing the binding partner with a
label or a labeled reagent such as a labeled binding reagent. The
formation of the linkage may be carried out before, during and/or
after the immobilization step. The assay method may also include
one or more wash steps to remove material (e.g., binding partner,
biomaterial, blocking reagent, labeled reagent, etc.) that is not
bound to the electrode.
[0140] Another aspect of the invention relates to methods of
measuring an activity or process that modifies a substance, the
method comprising the steps of subjecting the substance to a sample
comprising the activity or to conditions under which the process
occurs and measuring the extent of the modification so as to
measure the activity or process. The extent of the modification is,
preferably, measured by selectively measuring the modified
substance and/or the remaining unmodified substance according to
the assay methods of the invention (e.g., by using labeled
antibodies specific for the starting material or product).
Optionally, the activity or process is carried out in the presence
of an inhibitor of the activity or process so that the extent of
modification is indicative, e.g., of the amount of the inhibitor or
the inhibition constant of the inhibitor. The inhibition assay may
also be used to screen compounds for inhibitors of the binding
interaction and/or for measuring an activity or process that
modifies a binding partner of an immobilized substance.
[0141] In one embodiment, a substance is immobilized on an
electrode (preferably in an assay domain of an assay cell or assay
well) and subjected to a modifying activity or process, and assayed
to determine the extent of modification. In another embodiment, a
substance is subjected to a modifying activity or process,
immobilized on an electrode, and assayed to determine the extent of
modification. In yet another embodiment, a cell is subjected to a
modifying activity or process, the cell is lysed, a biological
membrane or other component derived from the cell (e.g., an
protein, nucleic acid, second messenger, organelle, membrane
fragment, membrane vesicle, membrane ghost, membrane protein,
membrane lipid, etc) is immobilized on an electrode, and assayed to
determine the extent of modification. Examples of activities and
processes that can be measured include kinase
activity/phosphorylation (including autophosphorylation of membrane
bound kinases), phosphatase activity/dephosphorylation, changes in
membrane lipid composition or orientation (e.g., changes in
phosphatidyl serine levels during apoptosis), hydrolysis or changes
in phosphorylation state of membrane phosphatidyl inositols,
prenylation or myristoylation of proteins, binding and/or release
of soluble proteins and/or peripheral membrane proteins to
biological membranes, transfer of proteins and/or lipids between
biological membranes (e.g., between organelles and/or between an
organelle and the cytoplasmic membrane), etc.
[0142] One embodiment of the method of measuring an activity or
process (or, alternatively, an inhibitor of an activity or process)
that modifies a substance relates to measuring an activity or
process that results from the activation of a membrane protein
(e.g., as a result of a change in the physical or chemical
environment, a change in membrane potential, the aggregation of the
protein, the binding of a ligand to a membrane receptor, etc.). For
example, the activation of a membrane protein may lead to
phosphorylation of the protein or of other components of the
membrane (the phosphorylated components being measured, e.g., using
phosphopeptide specific antibodies); ii) the sequestration or
binding (or, alternatively, the release) to the membrane of soluble
cellular components such as peripheral membrane proteins or
cytoplasmic proteins (the binding of soluble cellular components
being measured, e.g., using antibodies specific for the
components); iii) the up or down regulation of membrane proteins
(the membrane proteins being measured, e.g., using antibodies
specific for the specific membrane protein being monitored),
etc.
[0143] Another aspect of the invention relates to kits for use in
conducting assays, preferably luminescence assays, more preferably
electrode induced luminescence assays, and most preferably
electrochemiluminescence assays, comprising an assay module,
preferably an assay plate, more preferably a multi-well assay
plate, and at least one assay component selected from the group
consisting of binding reagents, enzymes, enzyme substrates and
other reagents useful in carrying out an assay. Examples include,
but are not limited to, whole cells, cell surface antigens,
subcellular particles (e.g., organelles or membrane fragments),
viruses, prions, dust mites or fragments thereof, viroids,
antibodies, antigens, haptens, fatty acids, nucleic acids (and
synthetic analogs), proteins (and synthetic analogs), lipoproteins,
polysaccharides, lipopolysaccharides, glycoproteins, peptides,
polypeptides, enzymes (e.g., phosphorylases, phosphatases,
esterases, trans-glutaminases, transferases, oxidases, reductases,
dehydrogenases, glycosidases, protein processing enzymes (e.g.,
proteases, kinases, protein phosphatases, ubiquitin-protein
ligases, etc.), nucleic acid processing enzymes (e.g., polymerases,
nucleases, integrases, ligases, helicases, telomerases, etc.)),
enzyme substrates (e.g., substrates of the enzymes listed above),
second messengers, cellular metabolites, hormones, pharmacological
agents, tranquilizers, barbiturates, alkaloids, steroids, vitamins,
amino acids, sugars, lectins, recombinant or derived proteins,
biotin, avidin, streptavidin, luminescent labels (preferably
electrochemiluminescent labels), electrochemiluminescence
coreactants, pH buffers, blocking agents, preservatives,
stabilizing agents, detergents, dessicants, hygroscopic agents,
etc. Such assay reagents may be unlabeled or labeled (preferably
with a luminescent label, most preferably with an
electrochemiluminescent label). One embodiment of the invention
includes a kit for use in conducting assays, preferably
luminescence assays, more preferably electrode induced luminescence
assays, and most preferably electrochemiluminescence assays,
comprising an assay module, preferably an assay plate, more
preferably a multi-well assay plate, and at least one assay
component selected from the group consisting of: (a) at least one
luminescent label (preferably electrochemiluminescent label); (b)
at least one electrochemiluminescence coreactant); (c) one or more
binding reagents; (d) a pH buffer; (e) one or more blocking
reagents; (f) preservatives; (g) stabilizing agents; (h) enzymes;
(i) detergents; (j) desiccants and (k) hygroscopic agents.
[0144] Preferably, the kit comprises the assay module, preferably
an assay plate, and the assay component(s) in one or more,
preferably two or more, more preferably three or more
containers.
[0145] Preferably, the assay module is a multi-well plate is
adapted for use in conducting the electrode induced luminescence
assays (preferably electrochemiluminescence assays) in sectors.
[0146] According to one embodiment, the kit comprises one or more
of the assay components in one or more plate wells, preferably in
dry form.
[0147] According to one embodiment, the assay components are in
separate containers. According to another embodiment, the kit
includes a container comprising binding reagents and stabilizing
agents. According to another embodiment, the well reagents may
include binding reagents, stabilizing agents. Preferably, the kits
do not contain any liquids in the wells.
[0148] One preferred embodiment relates to a kit for use in
conducting electrode induced luminescence assays (preferably
electrochemiluminescence assays) comprising an assay plate,
preferably a multi-well assay plate, and at least one assay
component selected from the group consisting of at least one
luminescent label (preferably electrochemiluminescent label) and at
least one electrochemiluminescence coreactant).
[0149] Another embodiment relates to a kit comprising a multi-well
plate and at least one electrode induced luminescent label
(preferably electrochemiluminescent label) and/or at least one
bioreagent and/or at least one blocking reagent (e.g., BSA).
[0150] According to one preferred embodiment, the kit comprises at
least one bioreagent, preferably immobilized on the plate surface
selected from: antibodies, fragments of antibodies, proteins,
enzymes, enzyme substrates, inhibitors, cofactors, antigens,
haptens, lipoproteins, liposaccharides, cells, sub-cellular
components, cell receptors, viruses, nucleic acids, antigens,
lipids, glycoproteins, carbohydrates, peptides, amino acids,
hormones, protein-binding ligands, pharmacological agents,
luminescent labels (preferably ECL labels) or combinations
thereof.
[0151] According to another preferred embodiment, the kit comprises
at least one biological membrane or component thereof, preferably
immobilized on the plate surface, that comprises an active protein
selected from: single transmembrane receptors with intrinsic
tyrosine kinase activity; non-tyrosine kinase transmembrane
receptors (e.g., transferrin receptor); G-protein coupled receptors
(GPCR); GPCR effector proteins (e.g., adenylate cyclase);
phosphoinositides (e.g., phosphatidy inositol 4,5 bisphosphate
(PIP.sub.2)); phospholipid or sphingolipid composition,
identification, or function (i.e., changes in phosphotidylserine
presence during apoptosis); organelle-bound GTPases/guanine
nucleotide exchange factors (GEFs)/GTPase activating proteins
(GAPs); cytokine/chemokine receptors; cell adhesion molecules
(e.g., VCAM, integrins); cytoplasmic peripheral membrane protein
kinases (e.g., src); intracellular protein kinase adaptor/docking
proteins (e.g., insulin receptor substrate 1, GRB2); ion channels
(e.g., nicotinic acetylcholine receptor, CFTR, etc.); passive
transporters (e.g., glucose); active (ATP-driven) transporters;
ion-linked transporters (e.g., Na+/glucose);
glycosyltranferases/glycoprotein modifying enzymes; nuclear
membrane fragments; and soluble receptors.
[0152] Preferably, the kit includes immobilized reagents comprised
of proteins, nucleic acids, or combinations thereof.
[0153] According to one preferred embodiment, the plurality of
wells includes at least two different bioreagents. For example, a
well may include two or more assay domains, wherein two or more
assay domains have different bioreagents.
[0154] Preferably, the kit comprises at least one
electrochemiluminescence coreactant and/or at least one electrode
induced luminescence label (preferably electrochemiluminescent
label).
[0155] Another aspect of the invention relates to improved methods
and systems for selecting or identifying biologically active
compounds and, optionally, incorporating such biologically active
compounds into suitable carrier compositions in appropriate
dosages. The invention includes the use of the assay electrodes,
kits and/or methods of the invention to screen for new drugs,
preferably, by high-throughput screening (HTS), preferably
involving screening of greater than 50, more preferably 100, more
preferably 500, even more preferably 1,000, and most preferably
5,000. According to a particularly preferred embodiment, the
screening involves greater than 10,000, greater than 50,000,
greater than 100,00, greater than 500,000 and/or greater than
1,000,000 compounds.
[0156] One embodiment of the invention relates to a method for
selecting or identifying biologically active compounds from a
library of compounds, said method comprising screening said library
of compounds for biological or biochemical activity, wherein said
screening includes assaying the library of compounds for the
biological or biochemical activity, the assays being conducted
using the assay electrodes of the invention.
[0157] Preferably, the method further comprises identifying one or
more active compounds.
[0158] Preferably, the method further comprises testing said one or
more active compounds for bioavailability, toxicity and/or
biological activity in vivo. According to one preferred embodiment,
the testing comprises further screening using the assay electrodes
of the invention.
[0159] Preferably, the method further comprises synthesizing
analogues of said one or more active compounds. According to one
preferred embodiment, the analogues are screened for
bioavailability, biological activity and/or toxicity using the
assay electrodes of the invention.
[0160] According to a particularly preferred embodiment, the method
further comprises formulating the one or more compounds into drugs
for administrating to humans and/or animals.
[0161] Preferably, the formulating comprises determining the
suitable amount of the one or more active compounds in the drug and
mixing the suitable amount with one or excipients or carriers.
Preferably, the excipient comprises sugar and/or starch.
[0162] Another embodiment of the invention relates to a method of
analyzing one or more complex mixtures of biochemical substances to
measure a plurality of binding components therein, comprising:
[0163] (a) contacting said mixtures with one or more assay
electrodes having one or more lipid/protein layers immobilized
thereon, preferably by adding said mixtures to a multi-well plate
adapted for electrode induced luminescence assays (preferably
electrochemiluminescence assays), wherein the wells of the plate
include the assay electrodes;
[0164] (b) applying a voltage or current to the electrodes
sufficient to induce luminescence; and
[0165] (c) measuring emitted luminescence.
[0166] Another embodiment of the invention relates to a method of
analyzing the output of one or more combinatorial (biological
and/or chemical) mixtures to measure a plurality of binding
components therein, comprising:
[0167] (a) contacting said mixtures to one or more assay
electrodes, preferably by introducing said mixture into a
multi-well plate adapted for electrode induced luminescence
(preferably electrochemiluminescence) assays, said plate having a
plurality of wells comprising one or more assay electrodes;
[0168] (b) applying a voltage or current to the electrodes
sufficient to induce luminescence; and
[0169] (c) measuring emitted luminescence.
[0170] Another embodiment of the invention relates to a method for
measuring a single biochemical substance in a sample in a
multiplicity of simultaneous assays, comprising:
[0171] (a) contacting said sample with an assay electrode,
preferably by introducing said sample into a multi-well plate
adapted for electrode induced luminescence (preferably
electrochemiluminescence) assays, said plate having a plurality of
wells comprising one or more assay electrodes;
[0172] (b) applying a voltage or current to the electrodes
sufficient to induce luminescence; and
[0173] (c) measuring emitted luminescence.
[0174] A further embodiment of the invention relates to a method of
drug discovery comprising:
[0175] (a) selecting a multiplicity of compounds for testing;
[0176] (b) screening said multiplicity of compounds for biological
activity (using any one of the multi-well plates and/or apparatus
described above) to find one or more biologically active compounds;
and
[0177] (c) modifying said one or more biologically active compounds
to reduce toxicity and/or enhance biological activity thereby
forming one or more modified biologically active compounds.
[0178] Preferably, the method further comprises screening said
modified biologically active compounds for biological activity
and/or toxicity (using the assay electrodes of the invention
described above).
[0179] Preferably, the method further comprises determining the
appropriate dosage of one or more of said modified biologically
active compounds. Preferably, the method still further comprises
incorporating such dosage into a suitable carrier such as sugar or
starch to form a drug in solid (e.g., pill or tablet) or liquid
form.
[0180] Advantageously, the assay electrodes, assay modules and
methods of the invention may be integrated into and/or used in a
variety of screening and/or drug discovery methods. Such screening
and/or drug discovery methods include those set forth in U.S. Pat.
No. 5,565,325 to Blake; U.S. Pat. No. 5,593,135 to Chen et al.;
U.S. Pat. No. 5,521,135 to Thastrup et al.; U.S. Pat. No. 5,684,711
to Agrafiotis et al.; U.S. Pat. No. 5,639,603 to Dower et al.; U.S.
Pat. No. 5,569,588 to Ashby et al.; U.S. Pat. No. 5,541,061; U.S.
Pat. No. 5,574,656; and U.S. Pat. No. 5,783,431 to Peterson et
al.
[0181] According to another embodiment, the invention further
comprises identifying adverse effects associated with the drug and
storing information relating to the adverse effects in a database.
See, U.S. Pat. No. 6,219,674 by Classen, hereby incorporated by
reference.
[0182] Another aspect of the invention relates to improved
biologically active compounds and/or drugs made using the inventive
methods.
EXAMPLES
[0183] The following examples are illustrative of some of the
electrodes, plates, kits and methods falling within the scope of
the present invention. They are, of course, not to be considered in
any way limitative of the invention. Numerous changes and
modification can be made with respect to the invention by one of
ordinary skill in the art without undue experimentation.
Example 1
Fabrication of Multi-Well Assay Plates having Screen Printed
Electrodes
[0184] Multi-layer plate bottoms were prepared by screen printing
electrodes and electrical contacts on 0.007'' thick Mylar polyester
sheet. The Mylar sheet was first cut with a CO.sub.2 laser so to
form conductive through-holes (i.e., holes that were subsequently
made conductive by filling with conductive ink) as well as to form
alignment holes that were used to align the plate bottom with the
plate top. Electrical contacts were formed on the bottom of the
Mylar sheet by screen printing an appropriately patterned silver
ink layer (Acheson 479ss) and a carbon ink overlayer (Acheson
407c). The carbon ink layer was dimensioned slightly larger (0.01
inches) than the silver ink layer to prevent exposure of the edge
of the silver film. Working and counter electrodes were formed on
the top of the Mylar film in a similar fashion except that three
layers of carbon ink were used to ensure that no silver remained
exposed. The conductive through-holes filled with conductive ink
during these screen-printing steps. A dielectric ink was
subsequently printed over the electrode layers so as to define the
active exposed surface area of the working electrode. Typically,
nine plate bottoms were simultaneously printed on an
18''.times.12'' Mylar sheet. Typical registrational tolerances
during the screen printing steps were +/-0.007-0.008 inches on the
top side of the substrate and +/-0.010 inches on the bottom side.
The separation between the printed counter and working electrode
strips was kept at >0.010 inches to prevent the formation of
short circuits. Optionally, the working electrodes were conditioned
by treating the patterned plate bottoms for 5 min. with an oxygen
plasma (2000 W, 200 mtorr) in a plasma chamber (Series B, Advanced
Plasma Systems, St. Petersburg, Fla.) modified with large area flat
electrodes.
[0185] Multi-well assay plates were assembled using the plate
bottoms described above and injection molded plate tops. The
dimensions of the plate tops met industry standards as established
by the Society of Biomolecular Screening. The plate tops were
either made of black plastic (polystyrene loaded with black
pigment) or white plastic (polystyrene loaded with titanium
dioxide). The bottom surfaces of the plate tops were contacted with
die-cut double sided tape (1 mil PET coated on each side with 2 mil
of acrylic pressure sensitive adhesive) so as to allow for sealing
of the plate tops to the plate bottoms. The tape was cut to form
holes that were slightly oversized relative to the holes in the
plate tops. The plate bottoms were fixed (using the laser cut
alignment holes) onto alignment pins on an X-Y table. The plate
bottoms were optically aligned to the plate tops and then sealed
together using a pneumatic press (400 pounds, 10 s). Alignment was
carried out sufficiently accurately so that the exposed working
electrodes were centered within the wells (+/-0.020 inches for
96-well plates and +/-0.015 inches for 384 well plates). These
tolerances ensured that the exposed regions of the working
electrodes were within the wells and that there were exposed
counter electrode surfaces on both sides of the working electrode.
In some examples, assay reagents were deposited and dried on the
plate bottoms prior to assembly of the plate.
[0186] A variety of types of multi-well assay plates were prepared
according to the procedure described above. A few specific plate
designs are described in more detail below to allow for reference
in subsequent examples. Plate B, a 96-well plate sectioned into 6
square sectors of 4.times.4 wells, was prepared using components
and patterns as pictured in FIG. 10A and had a black plate top.
Plate C, a 96-well plate sectioned into 6 square sectors of
4.times.4 wells, was prepared using components and patterns as
pictured in FIG. 10 (except that the dielectric layer in Plate C is
patterned so as to expose four isolated "fluid containment regions"
on the working electrode surface within each well, see FIGS. 10C
and 10D) and a black plate top. Plate D was similar to Plate C
except that the dielectric layer was patterned so as to expose 7
isolated "fluid containment regions" on the working electrode
within each well. Plate E was similar to Plate C except that the
dielectric layer was patterned so as to expose 10 isolated "fluid
containment regions" on the working electrode within each well.
Plate F, G and H were analogous to Plate C, except that they had 24
wells that were square in shape (the plates being sectored into 6
square sectors of 4 wells) and the dielectric layer was patterned
to expose 25, 64 or 100 fluid containment regions, respectively. In
FIG. 10A, details A, B, C and D show for Plate B: the printed
contact layer, the Mylar film with through-holes, the printed
electrode layer and the printed dielectric layer (in one sector of
the plate) , respectively.
Example 2
ECL Measurements
[0187] Plates were read on an instrument designed to make
electrical contact to individual square sectors. The sector in
electrical contact with the instrument was aligned with a
telecentric lens (having a front element with a diameter of 4.1'')
coupled to a cooled CCD camera (VersArray: 1300F, Princeton
Instruments) that was used to image ECL emitted from the sector.
The camera employed a CCD chip with dimensions of roughly 2.6
cm.times.2.6 cm and having a 1340.times.1300 array of pixels. The
pixel size was 0.02 mm.times.0.022 mm. An optical band pass filter
in the optical path was used to select for light matching the
emission profile of ruthenium-tris-bipyridine. A translation table
was used to translate the plate under the telecentric lens so as to
allow all 6 sectors to be read. Image analysis software was used to
identify wells or assay domains within wells and to quantitate ECL
from specific wells or domains. ECL from plates having screen
printed carbon working electrodes was induced using a linear
voltage scan from roughly 2-5 V over 3 seconds unless otherwise
indicated. ECL is reported as the total integrated light signal
measured over the period of the voltage scan (after correcting for
background light levels and detector offset).
Example 3
An ECL Assay Measuring Multiple Activities of an Enzyme in One Well
of an MDMW Plate
[0188] Many nucleic acid processing enzymes have both nucleic acid
synthesizing (e.g., polymerase or ligase) activities and nuclease
activities. One example is HIV Reverse Transcriptase (RT), an
enzyme with both a RNA-dependent DNA polymerase (RDDP) activity and
an RNAse H activity. The following example demonstrates an ECL
assay for measuring both HIV RT activities in one well of an MDMW
Plate.
[0189] The assay format is illustrated in FIG. 12. The enzyme
substrate is a 5'-labeled (using TAG phosphoramidite, IGEN
International, Inc.) DNA primer bound to the 3'-end of an RNA
target sequence. The RDDP activity extends the DNA primer to make a
complementary copy of the RNA sequence. The RNAse H activity
selectively hydrolyzes RNA in RNA-DNA duplexes. RNAse activity is
measured by hybridizing the labeled DNA product to an immobilized
probe (3'-B13) that is complementary to the DNA primer sequence
(thus measuring the RNAse catalyzed exposure of the DNA primer).
The RDDP activity is measured by hybridizing the labeled DNA
product to an immobilized probe (5'-B13) that is complementary to
the extended DNA sequence (thus measuring the RDDP extension of the
DNA primer).
[0190] The assay was conducted on a MDMW plate adapted for
electrode induced chemiluminescence measurements and having four
fluid containment regions exposed on the working electrode surface
of each well (Plate C of Example 1). The two probes (3'-B13 and
5'-B13) were biotin-labeled to facilitate immobilization. Each
probe was pre-bound to avidin. Assay domains were formed by
immobilizing each probe in one fluid containment region of each
well by microdispensing the avidin-probe complexes onto the fluid
containment regions (between 100-1000 nL containing 1 pmol of
probe) using a non-contact microdispensor (BioDot or Cartesian
Technologies) and allowing the solutions to dry. The two additional
fluid containment regions were used as control domains (one was
coated with avidin, the other was not treated). The plates were
blocked with a solution containing BSA and washed prior to use.
[0191] The assays were carried out by adding to the wells of plates
1 nmol of the dNTPs, 5 pmol of the substrate, 3 pmol of the enzyme
and varying amounts of an RT inhibitor in 100 uL of a buffer
containing 50 mM Tris ph 8.0, 40 mM KCl, 10 mM MgCl.sub.2, 0.025%
Triton.RTM. X-100, 2.5 mM DTT. The reaction mixture was incubated
for 20 min at 22.degree. C. and then quenched by the addition of
EDTA. The plates were incubated for an additional 2 hours to allow
the hybridization reactions to proceed. Tripropylamine was added
(ORIGEN Assay Buffer, IGEN International and the products assayed
by electrochemiluminescence measurements. The ECL signals were
corrected by subtracting assay background (measured in wells in
which EDTA was added prior to the enzyme). FIGS. 13A-B show that
the inhibitor aurintricarboxylic acid (ATA; DuPont) inhibits both
RNAse H (FIG. 13B) and RDDP activities (FIG. 13A). By contrast, 125
uM ddCTP (a chain terminating agent) completely inhibited the RDDP
activity but had no effect on the RNAse H activity (data not
shown).
Example 4
Detection of a Panel of Respiratory Disease Antigens
[0192] An MDMW plate adapted for ECL measurements and having 4
fluid containment regions on the working electrode surface exposed
in each well (Plate C of Example 1) was coated with antibodies
specific to four respiratory diseases: Influenza A, Influenza B,
Respiratory Syncytial Virus (RSV), and Streptococcus Pyogenes
(Strep A). Capture antibody solutions (50 ug/ml in phosphate
buffered saline, PBS) were dispensed using a BioDot Dispenser onto
the fluid containment regions within the wells (250 nl/spot) such
that each well contained one assay domain coated with each
antibody. The solutions were allowed to dry, at which time a 5% BSA
solution was added (200 ul/well) and the plate refrigerated
overnight. The plate was washed with PBS before use (4.times.250
ul/well).
[0193] Antigen solutions were prepared by diluting solutions of
bacteria or purified virus obtained from commercial sources by
1000.times. or 100.times., respectively, using PBS. The approximate
titers after dilution were: 2.3.times.10.sup.11 virus particles/ml
Influenza A; 320 HA units/0.05 ml, or 0.1 mg/ml protein for
Influenza B; 6.6.times.10.sup.8 virus particles/ml RSV;
1.5.times.10.sup.4 CFU/ml Strep A.
[0194] To perform the assay, 100 ul of the diluted antigen
solutions were combined with 450 ul of PBS containing 0.2%
Tween-20. 75 ul of these solutions were combined with 10 ul of a
solution of the appropriate labeled antibody solution (sulfonated
derivative of Ru(bpy).sub.3) such that the final concentration was
3 ug/ml labeled antibody. 50 ul of this solution was added to
individual wells of the washed plate and incubated for 8 minutes.
The plate was then washed with PBS (4.times.200 ul/well) and 100 ul
of ORIGEN Assay Buffer (IGEN International) was added to each well.
The plate was then analyzed using electrochemiluminescence
detection. FIG. 14 shows that each antigen was selectively measured
in the appropriate assay domain.
Example 5
Measurement of Tyrosine Kinase and Serine/Threonine Kinase
Activities in a Well of a MDMW Plate
[0195] This example used an MDMW plate adapted for ECL measurements
and having 4 fluid containment regions on the working electrode
surface exposed in each well (Plate C of Example 1). Each fluid
containment region received 250 nL of one of the following
solutions: 1 mg/ml Poly-Glu:Tyr (4:1) (PGT) in PBS buffer with
0.0075% Triton; 1 mg/ml Myelin Basic Protein (MBP) in PBS buffer
with 0.0075% Triton; 0.5 mg/ml Avidin in PBS buffer with 0.0075%
Triton; 5% BSA solution in PBS. The plate was then dried overnight
and blocked in a 5% BSA solution at 4.degree. C. for 2 days. The
plate was washed to remove blocking agent prior to use.
[0196] For phosphorylation of PGT (tyrosine kinase assay) 0.1
mU/.mu.l of c-SRC was used, for phosphorylation of MBP (threonine
kinase) 15 pg/.mu.l of ERK-1 was used. The capture efficiency of
the avidin-coated domain was determined by measuring the binding of
bovine IgG labeled with biotin and a sulfonated form of
Ru(bpy)3.
[0197] Each spot (PGT, MBP, Avidin and BSA) was exposed to a
solution of each enzyme/analyte (as well as to mixtures of the
enzymes and analytes) in the presence of labeled (sulfonated
derivative of Ru(bpy).sub.3) antibodies directed against the kinase
products (anti-phosphotyrosine and anti-phospho-MBP (or,
alternatively, using unlabeled primary antibodies and labeled
secondary antibodies). After incubating the plates to allow the
enzyme and binding reactions to proceed, a TPA-containing buffer
was added and the plates were analyzed by ECL (no wash was
required). Reported signals were corrected by subtracting
background measured in the absence of enzyme/analyte. Each point
includes an average of four measurements for background signal and
12 measurements for specific signal. The table in FIG. 15
summarizes results of this experiment.
[0198] The PGT domain only showed high signal in the presence of
the tyrosine kinase src. As expected, the MPB gave high signal in
the presence of the ERK-1, but also gave elevated signals in the
presence of SRC, presumably because of the presence of several
tyrosines in MPB and the relative non-specific nature of both SRC
and the anti-phophotyrosine antibody. The avidin domain gave a good
signal in the presence of the biotinylated analyte and did not act
as a substrate for the kinases. This result demonstrates the
utility of including a binding domain, e.g., for capturing (and,
optionally, purifying) kinases to be tested from crude samples. The
BSA spot did not provide a significant signal in the presence of
the analyte/enzymes and shows that the blocking agent did not show
non-specific reactions with the assay reagents.
Example 6
Evaluation of the Detection Limits of MDMW Plates
[0199] In this Example, Applicants measured the detection limits of
the ECL measurement of bovine IgG labeled with biotin and a
sulfonated derivative of Ru(bpy).sub.3 (.about.2.3 labels per
protein) as a function of the area of the binding domain. Binding
domains were formed by coating Avidin onto one or more of the
exposed regions (fluid containment regions) of the electrode (by
microdispensing avidin solutions and drying on the surface of the
electrode). Five plate types were prepared: [0200] Standard 96:
Plate type B from Example 1 having a single large binding domain
coated with avidin. [0201] 4-Spot-1: Plate type C from Example 1
having 4 small fluid containment regions, three of which are coated
with avidin to form a binding domain. [0202] 4-Spot-3: Plate type C
from Example 1 having 4 small fluid containment regions, only one
of which is coated with avidin to form binding domains. [0203]
7-Spot-1: Plate type D from Example 1 having 7 smaller fluid
containment regions, three of which are coated with avidin to form
a binding domain. [0204] 7-Spot-3: Plate type D from Example 1
having 7 smaller fluid containment egions, only one of which is
coated with avidin to form binding domains.
[0205] After standard blocking and washing procedures, a serial
dilution of tag-IgG-biotin was assayed in 50 microliter volumes
with 2 hour incubation time using intermittent shaking. The plates
were read with a 2.5-4.5 volt scan for 5 seconds. FIG. 16 shows a
log-log plot of the uncorrected data. Surprisingly, the detection
limits are actually significantly better for the multi-array format
than for the standard format. The relative detection limits
(relative to the standard 96 plate) calculated for each plate type
are: standard 96 (1.0), 4-spot-1 (4.2), 4-spot-3 (1.4), 7-spot-1
(4.4), 7-spot-3 (2.1). This is expected if most of the tag is
captured at the working electrode spot. As the spot gets smaller,
the total specific light emitted should stay constant, while the
background signal decreases with area. On average for all
calibrators above the detection limit, the signal for 1 of the 4
spots spotted is 2.7 times as high as the average signal when 3
spots are spotted. This indicates that most (.about.90%) of the
tagged molecules are being captured on the single spot. This
example demonstrates that assays in MDMW plates having small assay
domains can have the same or better performance as assays in
conventional single domain plates.
Example 7
Multi-Analyte Immunoassay of MDMW Plates
[0206] Sandwich immunoassays for four different
cytokines--interleukin 1.beta. (IL-1.beta.), interleukin 6 (IL-6),
interferon .gamma. (IFN-.gamma.) and tumor necrosis factor .alpha.
(TNF-.alpha.)--were carried out simultaneously in the wells of
plates manufactured according to the design and procedure described
for Plate C in Example 1. Four capture antibodies (each selective
for one of the analytes of interest) were patterned into distinct
assay domains by microdispensing solutions of the antibodies on the
fluid containment regions within each well (one antibody per
region) and allowing the antibodies to adsorb to the surface of the
working electrode. Solutions (0.25 uL) containing the antibody (at
a concentration of 32 ug/mL for IL-1.beta. and TNF-.alpha. or 64
ug/mL for IL-6 and IFN-.gamma.) and 0.1% BSA in phosphate buffered
saline were dispensed onto the fluid containment regions using a
solenoid valve controlled microdispensor (Biodot Dispensor,
Cartesian Technologies) and allowed to evaporate to dryness. The
volume of the antibodies was sufficient to spread over all of the
exposed electrode surface within a fluid containment region but was
small enough so that the fluid did not spread past the boundary
formed by the dielectric layer. After drying the antibody solution
on the working electrode, the plate tops were attached and the
excess unbound antibody was removed (and uncoated surfaces blocked)
by filling the wells with a solution containing 5% (w/v) bovine
serum albumin (BSA) in phosphate buffered saline (PBS). The plates
were incubated with the blocking solution overnight at 4.degree. C.
and then washed with PBS.
[0207] The assays were carried out by the steps of i) adding 0.02
mL of the sample to the well and incubating for 1 hour on a plate
shaker; ii) washing the wells with PBS; iii) adding 0.02 mL of a
solution containing 2,000 ng/mL each of four detection antibodies
(labeled with NHS ester 1) against the four analytes of interest
and incubating for 1 hour on a plate shaker; iv) washing with PBS;
v) introducing 0.1 mL of a solution containing tripropylamine in
phosphate buffer (ORIGEN Assay Buffer, IGEN International) and vi)
measuring ECL. FIGS. 17A-17D demonstrate that each of the analytes
of interest can be independently measured in a single sample in a
single well of a multi-well assay plate. The figures show ECL
emitted from each assay domain as a function of the concentration
of each analyte. The introduction of a specific analyte led to a
linear increase in ECL with analyte concentration (relative to the
background signal measured in the absence of any analyte) at assay
domains having capture antibodies directed against that analyte,
but did not affect the ECL at assay domains having antibodies
directed against the other analytes. FIG. 18 shows a CCD image of
the ECL emitted from a sector of wells used to assay solutions
containing mixtures of the four analytes. The highlighted well is
annotated to show the arrangement of the four assay domains. That
specific well was used to assay a sample having 250 pg/mL each of
IL-1.beta. and TNF-.alpha. and 8 pg/mL each of IL-6 and
IFN-.gamma..
Example 8
Multi-Plex Assay for Total EGF Receptor and Auto-Phosphorylated EGF
Receptor
[0208] This example shows an ECL assay that measures in one well of
a MDMW Plate total (phosphorylated and non-phosphorylated) EGF
Receptor (T-EGFR) and phosphorylated EGF Receptor (P-EGFR).
[0209] Preparation of Lysates for Multi-Plex: [0210] 1. A-431 cells
were cultured in 150 mm tissue culture dishes and serum starved
overnight (DMEM supplemented with 1% Penicillin-Streptomycin and 1%
Sodium Pyruvate). [0211] 2. Following two rinses with serum-free
media, one dish was stimulated with 200 nM EGF in serum-free media
for 15 minutes at room temperature. The unstimulated plate was
given serum-free media only. [0212] 3. The cells were rinsed with
two volumes of PBS. [0213] 4. 2 mls of a modified RIPA buffer
(fresh sodium orthovanadate added the morning of the assay) was
added to the dishes. RIPA buffer included: 1 mM neat sodium
orthovanadate, 150 mM NaCl, 50 mM Tris, 6 mM Deoxycholate, 0.5%
NP40, in water with a fresh protease inhibitor tablet, 1 tablet per
10 mL buffer). Cells were incubated with the RIPA for 10 minutes on
ice. [0214] 5. Supernatant was collected and quantitated using the
Pierce BCA Protein Assay.
[0215] Protocol for Multiplex Assay: [0216] 1. Biotin-labeled
antibodies for T-EGFR (specific for the cytoplasmic domain of EGFR)
and P-EGFR (anti-phosphotyrosine) were prebound (1 hour) with one
equivalent of avidin and deposited by microdispensing (one antibody
per region, 0.5 pmol per region in 0.25 uL) onto two of the four
fluid containment regions in each well of a MDMW Plate (Plate C of
Example 1). The two remaining fluid containment regions were used
as controls for non-specific binding and cross-reactions. One
region was coated with Avidin only. The other was left bare but
eventually blocked with BSA. [0217] 2. The antibodies were allowed
to dry. The wells were then blocked for one hour at room
temperature with 200 .mu.l per well of 5% BSA in water. [0218] 3.
The plates were washed four times with dH.sub.2O. [0219] 4. 50
.mu.g/well of lysate was added to each well of the 96 well plates
and shaken intermittently for one hour. [0220] 5. The plates were
washed four times with dH.sub.2O. [0221] 6. The
Sulfo-Tag.TM.-labeled .alpha.-EGFR antibody (50 uL of 33 nM) was
added and the binding reaction allowed to proceed for 1 hour at
room temperature with shaking. The plates were washed four times
with dH.sub.2O. [0222] 7. 100 .mu.l per well of 100 mM TPA with 400
mM gly-gly assay buffer was added just prior to ECL analysis.
[0223] 8. The plates were analyzed using ECL detection.
[0224] The table below compares the ECL signals measured from the
T-EGFR and P-EGFR assays for lysates from stimulated and
unstimulated cells. As expected, over the time course of the
experiment, the levels of T-EGFR do not change considerably on
stimulation, however, a large increase in P-EGFR was observed.
TABLE-US-00001 Analyte Sample T-EGFR P-EGFR Unstimulated 24,200 57
Stimulated 23,545 122
Example 9
Multi-Plex Assay for Detection of Autophosphorylated and
Nonphosphorylated EGF Receptor
[0225] This example shows an ECL assay that measures both
nonphosphorylated EGF receptor and EGF receptor that is
phosphorylated at tyrosine 1173 in a single well of a MDMW
Plate.
[0226] A-431 cell lysates were prepared as described in Example 8,
except that separate dishes of cells were stimulated with 0.2 nM, 5
nM and 200 nM EGF.
[0227] Protocol for Multiplex Assay: [0228] 1. Antibodies specific
for EGF receptor that is autophosphorylated at tyrosine 1173
(pY1173) and antibodies specific for EGF receptor that is not
phosphorylated at tyrosine 1173 (Y1173) were deposited by
microdispensing (one antibody per region, 0.2 pmol per region in
0.25 uL) and passively adsorbed onto two of the four fluid
containment regions in each well of a MDMW Plate (Plate C of
Example 1). The two remaining fluid containment regions were used
as controls for non-specific binding and cross-reactions; these
regions were left bare but eventually blocked with BSA. [0229] 2.
The antibodies were allowed to dry overnight. The wells were then
blocked for one hour at room temperature with 200 .mu.l per well of
5% BSA in water. [0230] 3. The plates were washed with PBS. [0231]
4. 5 .mu.g/well of lysate was added to each well of the 96 well
plates and the plates were shaken intermittently for three hours.
[0232] 5. The plates were washed with PBS. [0233] 6. A Sulfo-TAG
label labeled .alpha.-EGFR antibody directed against the
extracellular domain of the receptor (50 uL of a 33 nM solution)
was added and the binding reaction allowed to proceed for 1 hour at
room temperature with shaking. The plates were washed four cycles
with PBS. [0234] 7. 150 .mu.l per well of 100 mM TPA with 400 mM
gly-gly assay buffer was added just prior to ECL analysis. [0235]
8. The plates were analyzed using ECL detection in a Sector HTS.TM.
plate reader (Meso Scale Discovery).
[0236] FIGS. 19A-D demonstrate that the amount of
autophosphorylation of the tyrosine at position 1173 on the EGF
receptor can be controlled and quantified in a single well of a
multi-well assay plate. The schematic in FIG. 19A shows placement
of the pY1173 and Y1173 antibodies on two diagonally opposed fluid
containment regions in the same well. The EGF receptor contained in
A-431 cell lysates binds to the appropriate surface immobilized
antibody. Specifically, only the phosphorylated tyrosine at
position 1173 binds the pY1173 antibody, and only the
nonphosphorylated tyrosine at position 1173 binds to the Y1173
antibody. Competition for binding of the receptor to more than one
assay domain in a single well is circumvented in this format. The
reporter .alpha.-EGFR antibody binds the extracellular domain of
both receptors. The CCD images in FIGS. 19B-D show ECL emitted from
each assay domain as a function of increasing EGF concentration. No
detectable autophosphorylation of tyrosine 1173 was observed at 0.2
nM EGF, approximately 50% of the receptor was phosphorylated at 5
nM EGF, and approximately 90% was phosphorylated at 200 nM EGF.
Example 10
Measurement of Tyrosine Kinase and Serine/Threonine Kinase
Activities in a Well of a MDMW Plate
[0237] This example used an MDMW plate adapted for ECL measurements
and having 4 fluid containment regions on the working electrode
surface exposed in each well (Plate C of Example 1). Each of the
four fluid containment regions received 250 nL of one of the four
following solutions: (i) 0.5 mg/ml Poly-Glu:Tyr (4:1) (PGT) in PBS
buffer with 0.015% Triton; (ii) 0.2 mg/ml Myelin Basic Protein
(MBP) in PBS buffer with 0.015% Triton; (iii) 0.3 mg/ml
Streptavidin in PBS buffer with 0.015% Triton; (iv) 0.3 mg/ml BSA
solution in PBS with 0.15% Triton. The plate was then dried for
1-1.5 hours at ambient conditions, vigorously washed with PBS
containing 0.1% Triton, washed with water and blocked in a 5% BSA
solution for at least 2 hours at room temperature. The washing
included a bottom wash using a 96-well Plate Washer from Biotech
that allows the creation of a constant flow of wash solution in the
well and was very efficient for washing out an excess of
peptides/proteins from the electrode surface. The washing with the
Triton-containing solution was followed by 3x washes to remove
traces of Triton. After blocking, the plate was washed again to
remove blocking agent prior to use.
[0238] For phosphorylation of PGT (tyrosine kinase assay), 0.05
mU/.mu.l of c-SRC was used; for phosphorylation of MBP (threonine
kinase), 2 nM of ERK-2 was used. The capture efficiency of the
Streptavidin-coated domain was determined by measuring the binding
of bovine IgG labeled with biotin and a sulfonated form of Ru(bpy)3
(Sulfo-TAG.TM. label by Meso Scale Discovery).
[0239] Each spot (PGT, MBP, Streptavidin and BSA) was exposed to a
solution of unlabeled primary antibodies directed against
phosphotyrosine and phosphorylated MBP and labeled secondary
antibodies. After incubating the plates to allow the enzyme and
binding reactions to proceed, a TPA-containing buffer was added and
the plates were analyzed by ECL (no wash was required). Each point
includes an average of 12 measurements with CV's of 7-10%. Table A
below summarizes the results obtained from this experiment.
TABLE-US-00002 TABLE A No Enzyme/ Analyte blgG* SRC- ERK2- Domain
No blgG* Only only only SA 272 5,447 324 309 PGT 990 953 17,223
1,153 MBP 1,241 1,354 1,237 32,810 BSA 138 134 168 209
[0240] The bold faced values are specific signals; the other
numbers are ECL due to non-specific interactions.
[0241] The PGT and MBP domains only showed high signal in the
presence of the tyrosine kinase SRC and Threonine kinase (ERK2),
respectively. Titration curves of the activity of both kinases (SRC
and ERK) exhibited nearly linear response on corresponding domains,
The Streptavidin domain gave a good signal in the presence of the
biotinylated analyte and did not act as a substrate for the
kinases. This result demonstrates the utility of including a
binding domain, e.g., for capturing (and, optionally, purifying)
kinases to be tested from crude samples. The BSA spot did not
provide a significant signal in the presence of the analyte/enzymes
and shows that the blocking agent did not show non-specific
reactions with the assay reagents.
INCORPORATION OF REFERENCES
[0242] The present invention is not to be limited in scope by the
specific embodiments described herein. Indeed, various
modifications of the invention in addition to those described
herein will become apparent to those skilled in the art from the
foregoing description and accompanying figures. Such modifications
are intended to fall within the scope of the claims. Various
publications are cited herein, the disclosures of which are
incorporated by reference in their entireties.
* * * * *