U.S. patent application number 11/398489 was filed with the patent office on 2006-11-02 for method and apparatus for use in temperature controlled processing of microfluidic samples.
This patent application is currently assigned to Caliper Life Sciences, Inc.. Invention is credited to Andrea W. Chow, Morten J. Jensen, Colin B. Kennedy, Stephane Mouradian.
Application Number | 20060246493 11/398489 |
Document ID | / |
Family ID | 37234895 |
Filed Date | 2006-11-02 |
United States Patent
Application |
20060246493 |
Kind Code |
A1 |
Jensen; Morten J. ; et
al. |
November 2, 2006 |
Method and apparatus for use in temperature controlled processing
of microfluidic samples
Abstract
Embodiments of the invention comprise microfluidic devices,
instrumentation interfacing with those devices, processes for
fabricating that device, and methods of employing that device to
perform PCR amplification. Embodiments of the invention are also
compatible with quantitative Polymerase Chain Reaction ("qPCR")
processes. Microfluidic devices in accordance with the invention
may contain a plurality of parallel processing channels. Fully
independent reactions can take place in each of the plurality of
parallel processing channels. The availability of independent
processing channels allows a microfluidic device in accordance with
the invention to be used in a number of ways. For example, separate
samples could be processed in each of the independent processing
channels. Alternatively, different loci on a single sample could be
processed in multiple processing channels.
Inventors: |
Jensen; Morten J.; (San
Francisco, CA) ; Chow; Andrea W.; (Los Altos, CA)
; Kennedy; Colin B.; (Greenbrae, CA) ; Mouradian;
Stephane; (Menlo Park, CA) |
Correspondence
Address: |
CALIPER LIFE SCIENCES, INC.
605 FAIRCHILD DRIVE
MOUNTAIN VIEW
CA
94043-2234
US
|
Assignee: |
Caliper Life Sciences, Inc.
Mountain View
CA
|
Family ID: |
37234895 |
Appl. No.: |
11/398489 |
Filed: |
April 4, 2006 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
|
|
60668274 |
Apr 4, 2005 |
|
|
|
Current U.S.
Class: |
435/6.19 ;
435/91.2 |
Current CPC
Class: |
B01L 3/5027 20130101;
B01L 2300/0816 20130101; B01L 7/525 20130101; B01L 3/502746
20130101; B01L 2300/1827 20130101; B01L 2300/087 20130101; B01L
2300/1822 20130101; B01L 2400/0418 20130101; B01L 7/5255 20130101;
B01L 2300/0877 20130101; B01L 2400/0487 20130101; B01L 2300/0864
20130101; B01L 2300/0829 20130101; B01L 3/502715 20130101; B01L
3/50851 20130101; B01L 2300/0609 20130101; B01L 3/5025 20130101;
B01L 2300/0867 20130101 |
Class at
Publication: |
435/006 ;
435/091.2 |
International
Class: |
C12Q 1/68 20060101
C12Q001/68; C12P 19/34 20060101 C12P019/34 |
Claims
1. A method for processing a microfluidic sample, comprising:
heating the microfluidic sample to a first temperature for a first
predetermined time by contacting a predetermined portion of a
microfluidic device with a first temperature controlled thermal
element; and heating the microfluidic sample to a second
temperature for a second predetermined time by contacting the
predetermined portion of the microfluidic device with a second
temperature controlled thermal element.
2. The method of claim 1, further comprising successively
positioning the microfluidic device to contact the predetermined
portion thereof with each of the thermal elements.
3. The method of claim 1, further comprising successively
positioning each of the thermal elements to contact the
predetermined portion of the microfluidic device.
4. The method of claim 3, wherein successively positioning each of
the thermal elements includes selectively rotating a shaft to which
the thermal elements are mounted.
5. The method of claim 3, wherein successively positioning each of
the thermal elements includes successively laterally translating
and lifting the thermal elements.
6. The method of claim 1, further comprising heating the
microfluidic sample to a third temperature for a third
predetermined period of time by contacting the predetermined
portion of the microfluidic device with a third temperature
controlled thermal element.
7. The method of claim 6, wherein the microfluidic sample comprises
a solution of a target DNA sequence, a plurality of PCR primers, a
polymerase, and a plurality of nucleotides and: heating the
microfluidic sample to the first temperature for the first
predetermined time includes denaturing the microfluidic sample;
heating the microfluidic sample to the second temperature for the
second predetermined time includes annealing the microfluidic
sample; and heating the microfluidic sample to the third
temperature for the third predetermined period of time includes
extending the microfluidic sample.
8. The method of claim 6, wherein heating the microfluidic sample
to the first temperature for the first predetermined time includes
heating the microfluidic sample to the temperature of 95.degree. C.
for approximately 10 minutes.
9. The method of claim 6, wherein heating the microfluidic sample
to the second temperature for the second predetermined time
includes heating the microfluidic sample to 55.degree. C. for 5-30
seconds.
10. The method of claim 6, wherein heating the microfluidic sample
to the third temperature for the third predetermined period of time
includes heating the microfluidic sample to 72.degree. C. for 4-10
seconds.
11. The method of claim 6, wherein heating the microfluidic sample
to the first temperature for the first predetermined period of time
includes heating the microfluidic sample to 95.degree. C. for 3-10
seconds.
12. The method of claim 1, wherein the microfluidic sample
comprises a solution of a target DNA sequence, a plurality of PCR
primers, a polymerase, and a plurality of nucleotides and: heating
the microfluidic sample to the first temperature for the first
predetermined time includes denaturing the microfluidic sample; and
heating the microfluidic sample to the second temperature for the
second predetermined time includes annealing the microfluidic
sample.
13. The method of claim 12, wherein heating the microfluidic sample
to the first temperature for the first predetermined time includes
heating the microfluidic sample to the temperature of 95.degree. C.
for 10 minutes.
14. The method of claim 12, wherein heating the microfluidic sample
to the second temperature for the second predetermined time
includes heating the microfluidic sample to 55.degree. C. for 5-30
seconds.
15. The method of claim 1, further comprising interposing an
interface material between the respective thermal element and the
microfluidic device prior to heating.
16. The method of claim 15, wherein the interface material is a wax
that melts at the lower of the predetermined temperatures, a
compliant polymer, or a Berquest Sil-pad material.
17. The method of claim 1, wherein at least one of heating the
microfluidic sample to a first temperature and heating the
microfluidic sample to a second temperature includes heating from
below the microfluidic sample.
18. The method of claim 1, wherein at least one of heating the
microfluidic sample to a first temperature and heating the
microfluidic sample to a second temperature includes heating from
above the microfluidic sample.
19. The method of claim 1, wherein at least one of heating the
microfluidic sample to a first temperature and heating the
microfluidic sample to a first temperature includes heating from
above and below the microfluidic sample.
20. The method of claim 1, further comprising fluorescently
monitoring the microfluidic sample during at least one of the first
and second predetermined time periods.
21. The method of claim 20, wherein fluorescently monitoring the
microfluidic sample includes fluorescently monitoring the
microfluidic sample at a plurality of wavelengths.
22. The method of claim 21, further comprising thermally ramping
the microfluidic sample while fluorescently monitoring the
microfluidic sample.
23. The method of claim 20, further comprising thermally ramping
the microfluidic sample while fluorescently monitoring the
microfluidic sample.
24. The method of claim 1, further comprising thermally ramping the
microfluidic sample.
25-73. (canceled)
Description
CROSS-REFERENCE TO RELATED APPLICATIONS
[0001] We claim the earlier effective filing data of co-pending
provisional application 60/668274, entitled "Method and Apparatus
for Performing PCR in a Microfluidic Device", filed Apr. 4, 2005,
which is hereby incorporated by reference for all purposes as if
set forth herein verbatim.
BACKGROUND OF THE INVENTION
[0002] 1. Field of the Invention
[0003] The present invention relates to microfluidic processing of
biological samples and, more particularly, to methods and
apparatuses for use in temperature controlled processing of
biological samples in a microfluidic device.
[0004] 2. Description of the Related Art
[0005] Microfluidics refers to a set of technologies involving the
flow of fluids through channels having at least one linear interior
dimension, such as depth or diameter, of less than 1 mm. It is
possible to create microscopic equivalents of bench-top laboratory
equipment such as beakers, pipettes, incubators, electrophoresis
chambers, and analytical instruments within the channels of a
microfluidic device. Since it is also possible to combine the
functions of several pieces of equipment on a single microfluidic
device, a single microfluidic device can perform a complete
analysis that would ordinarily require the use of several pieces of
laboratory equipment. A microfluidic device designed to carry out a
complete chemical or biochemical analyses is commonly referred to
as a micro-Total Analysis System (.mu.-TAS) or a "lab-on-a
chip."
[0006] A lab-on-a-chip type microfluidic device, which can simply
be referred to as a "chip," is typically used as a replaceable
component, like a cartridge or cassette, within an instrument. The
chip and the instrument form a complete microfluidic system. The
instrument can be designed to interface with microfluidic devices
designed to perform different assays, giving the system broad
functionality. For example, the commercially available Agilent 2100
Bioanalyzer system can be configured to perform four different
types of assays--DNA (deoxyribonucleic acid), RNA (ribonucleic
acid), protein, and cell assays--by simply placing the appropriate
type of chip into the instrument.
[0007] In a typical microfluidic system, the microfluidic channels
are in the interior of the chip. The instrument interfacing with
the chip performs a variety of different functions: supplying the
driving forces that propel fluid through the channels in the chip,
monitoring and controlling conditions (e.g., temperature) within
the chip, collecting signals emanating from the chip, introducing
fluids into and extracting fluids out of the chip, and possibly
many others. The instruments are typically computer controlled so
that they can be programmed to interface with different types of
chips and to interface with a particular chip in such a way as to
carry out a desired analysis.
[0008] Microfluidic devices designed to carry out complex analyses
will often have complicated networks of intersecting channels.
Performing the desired assay on such chips will often involve
separately controlling the flows through certain channels, and
selectively directing flows through channel intersections. Fluid
flow through complex interconnected channel networks can be
accomplished either by building microscopic pumps and valves into
the chip or by applying a combination of externally-generated
driving forces to the chip. Examples of microfluidic devices with
pumps and valves are described in U.S. Pat. No. 6,408,878, which
represents the work of Dr. Stephen Quake at the California
Institute of Technology. Fluidigm Corporation of South San
Francisco, Calif., is commercializing Dr. Quake's technology. The
use of multiple electrical driving forces to control the flow
through complicated networks of intersecting channels in a
microfluidic device is described in U.S. Pat. No. 6,010,607, which
represents the work Dr. J. Michael Ramsey performed while at Oak
Ridge National Laboratories. The use of multiple pressure driving
forces to control flow through complicated networks of intersecting
channels in a microfluidic device is described in U.S. Pat. No.
6,915,679, which represents technology developed at Caliper Life
Sciences, Inc. of Hopkinton, Mass.
[0009] Lab-on-a-chip type microfluidic devices offer a variety of
inherent advantages over conventional laboratory processes such as
reduced consumption of sample and reagents, ease of automation,
large surface-to-volume ratios, and relatively fast reaction times.
Thus, microfluidic devices have the potential to perform diagnostic
assays more quickly, reproducibly, and at a lower cost than
conventional devices. The advantages of applying microfluidic
technology to diagnostic applications were recognized early on in
development of microfluidics. In U.S. Pat. No. 5,587,128, Drs.
Peter Wilding and Larry Kricka from the University of Pennsylvania
describe a number of microfluidic systems capable of performing
complex diagnostic assays. For example, Wilding and Kricka describe
microfluidic systems in which the steps of sample preparation, PCR
(polymerase chain reaction) amplification, and analyte detection
are carried out on a single chip.
[0010] For the most part, the application of microfluidic
technology to diagnostic applications has failed to reach its
potential, so only a few such systems are currently on the market.
Two of the major shortcomings of current microfluidic diagnostic
devices relate to cost and to difficulties in sample preparation.
Issues related to cost arise because materials that are inexpensive
to process into chips, such as many common polymers, are not
necessarily chemically inert, thermally stable, or optically
transparent enough to be suitable for diagnostic applications. To
address the cost issue, technology has been developed that allows
microfluidic chips fabricated from more expensive materials to be
reused, lowering the cost per use. See U.S. Published Application
No. 2005/0019213. However, when chips are reused, issues of
cross-contamination from previously processed samples could arise.
The best solution may be to overcome the limitations of currently
available polymer materials so that a chip can be manufactured
inexpensively enough to be disposed of after a single use.
[0011] It is an object of the present invention to employ
microfluidic devices for the performance of assays, such as PCR,
that could be relevant to diagnostic applications. In particular,
it is an object of the invention to provide methods and apparatuses
based on microfluidic technology that allow PCR amplification and
analyte detection to be performed in a cost-effective manner.
[0012] These and further objects will be more readily appreciated
when considering the following disclosure and appended claims.
SUMMARY OF THE INVENTION
[0013] In various embodiments and aspects, the invention comprises
a microfluidic device, instrumentation interfacing with that
device, processes for fabricating that device, and methods of
employing that device. Embodiments of the invention provide
microfluidic devices capable of performing PCR amplification.
Embodiments of the invention are also compatible with quantitative
Polymerase Chain Reaction ("qPCR") processes.
[0014] In an illustrative embodiment, the microfluidic device
contains a plurality of parallel processing channels. Fully
independent reactions can take place in each of the plurality of
parallel processing channels. The availability of independent
processing channels allows a microfluidic device in accordance with
the invention to be used in a number of ways. For example, separate
samples could be processed in each of the independent processing
channels. Alternatively, different loci on a single sample could be
processed in multiple processing channels.
[0015] Microfluidic devices in accordance with the invention may
comprise wells configured to receive the reagents to be used and
the samples to be processed in the device. In order to make the
microfluidic device compatible with industry standard liquid
handling equipment, the wells could be arranged in the same pattern
and with the same spacing as the wells on industry standard
multiwell plates. For example, the wells could be arranged in the
same pattern as the wells on standard 96, 384, or 1536 well
microtiter plates. Some of the reagents to be used in the device
could be stored in the device in dry form, so that they can be
reconstituted through the addition of liquid when the processing of
a sample is to take place.
BRIEF DESCRIPTION OF THE DRAWINGS
[0016] The invention may be understood by reference to the
following description taken in conjunction with the accompanying
drawings, in which like reference numerals identify like elements,
and in which:
[0017] FIG. 1A-FIG. 1D depict a microfluidic device in a first
embodiment in accordance with one aspect of the present
invention;
[0018] FIG. 2A-FIG. 2D show alternative well arrangements for
embodiments of the microfluidic device alternative to that
illustrated in FIG. 1A-FIG. 1D;
[0019] FIG. 3A-FIG. 3C show alternative microfluidic circuits that
may be implemented with the port layout of FIG. 1A-FIG. 1D;
[0020] FIG. 4A-FIG. 4B depict an instrument for use in
automatically processing a microfluidic device such as the
microfluidic device of FIG. 1A;
[0021] FIG. 5A-FIG. 5C depict selected aspects of the internal
workings of the instrument of FIG. 4A-FIG. 4B.
[0022] FIG. 6A-FIG. 6C, FIG. 7A-FIG. 7B, and FIG. 8 conceptually
illustrate three alternative thermocyclers as may be employed in
the instrument such as the instrument of FIG. 4A-FIG. 4B;
[0023] FIG. 9 illustrates one particular embodiment of a controller
for use in an instrument such as the instrument of FIG. 4A-FIG.
4B;
[0024] FIG. 10 illustrates the operation of the present invention
in the processing protocol in one particular embodiment;
[0025] FIG. 11 illustrates the operation of the present invention
in the processing protocol in a second particular embodiment;
[0026] FIG. 12A-FIG. 12D illustrate a PCR reaction in the
microfluidic device of FIG. 1A-FIG. 1D employing the thermocycler
of FIG. 6A-FIG. 6C operated as illustrated in FIG. 10;
[0027] FIG. 13A-FIG. 13B depict a fluorescent monitoring as may be
employed in some embodiments such as those embodiments using the
instrument of FIG. 4A-FIG. 4B;
[0028] FIG. 14A-FIG. 14C depict a microfluidic device in accordance
with the present invention in a second embodiment;
[0029] FIG. 15A-FIG. 15D depict a microfluidic device in accordance
with the present invention in a third embodiment; and
[0030] FIG. 16 depicts a microfluidic device in accordance with the
present invention in a fourth embodiment.
[0031] While the invention is susceptible to various modifications
and alternative forms, the drawings illustrate specific embodiments
herein described in detail by way of example. It should be
understood, however, that the description herein of specific
embodiments is not intended to limit the invention to the
particular forms disclosed, but on the contrary, the intention is
to cover all modifications, equivalents, and alternatives falling
within the spirit and scope of the invention as defined by the
appended claims.
DETAILED DESCRIPTION OF THE INVENTION
[0032] Illustrative embodiments of the invention are described
below. In the interest of clarity, not all features of an actual
implementation are described in this specification. It will of
course be appreciated that in the development of any such actual
embodiment, numerous implementation-specific decisions must be made
to achieve the developers' specific goals, such as compliance with
system-related and business-related constraints, which will vary
from one implementation to another. Moreover, it will be
appreciated that such a development effort, even if complex and
time-consuming, would be a routine undertaking for those of
ordinary skill in the art having the benefit of this
disclosure.
[0033] FIG. 1A illustrates a microfluidic device 100 in a first
embodiment in accordance with one aspect of the present invention.
The device 100 comprises a plate 106 defining a plurality of wells
103 (only one indicated) for holding microfluidic samples 109 (only
one indicated) or other fluids such as reagents for use in the
analysis performed within the microfluidic device 100. The precise
number of the wells 103 is not material to the practice of the
invention. The wells 103 are arranged, or laid out, in a pattern
defining a heating area 112. The geometry and location of the
heating area 112 is not material to the practice of the invention
other than to the extent that it impacts the design of the heating
elements, discussed further below. Consequently, the layout of the
wells 103 may vary in alternative embodiments.
[0034] FIG. 1B provides an exploded view of the microfluidic device
100 shown in FIG. 1A. In the illustrated embodiment, the
microfluidic device 100 is employed as part of an assembly 150,
which also comprises first and second, or "top" and "bottom,"
covers 160, 163. The plate 106 comprises a caddy 106a and a body
structure 106b. The caddy 106a includes not only the wells 103, but
also a pneumatic circuit 153 and an electrical circuit 156. The
pneumatic circuit 153 comprises a plurality of pneumatic surface
channels (not individually indicated) in the illustrated
embodiment. The electrical circuit 156 comprises embedded
conductive polymer electrodes (also not individually indicated).
Note that the pneumatic and electrical circuits 153, 156 may be
implemented in alternative embodiments in any suitable manner known
to the art. The body structure 106b includes the microfluidic
structure of the microfluidic device 100, i.e., the microfluidic
channels and such that are described more fully below.
[0035] For present purposes, however, note that the body structure
106b defines a plurality of ports 157 (only one indicated) into the
microfluidic circuits (not yet shown) that align with the wells
103, which are formed in the caddy 106b. In general, the ports 157
will be relatively small, as is the case generally with
microfluidic devices such as the device 100. To ease difficulties
associated with that size, the wells 103 of the caddy 106a are
usually significantly larger. Thus, the wells 103 are loaded with
fluids 109 and the fluids 169 are then loaded into the microfluidic
circuits within the body structure 106b through these ports 157. In
such an embodiment, the ports into the microfluidic circuits can be
formed as "funnels", with a larger opening at the surface and a
narrower opening into the microfluidic circuit. The structural
interface between the caddy 106a and the body structure 106b may
be, for example, the same as that disclosed in U.S. Pat. No,
6,488,897, entitled "Microfluidic Devices and Systems Incorporating
Cover Layers", issued Dec. 3, 2002, to Caliper Technologies Corp.
as assignee of the inventors Robert S. Dubrow, et al., although
others may be used.
[0036] In the illustrated embodiment of FIG. 1A-FIG. 1D, the caddy
106a not only provides wells for the retention of samples and
reagents, but also structurally supports and protects the body
structure 106b. Traditionally, the body structures of microfluidic
devices are constructed of glass, which can be a fragile material
and caddies helped protect the body structure from damage. Certain
embodiments may comprise a body structure 106b made of glass, and
the caddy 106a would be used in that role in those embodiments.
However, the body structure 106a of the illustrated embodiment is
fabricated from plastic, as will be discussed further below, as is
the caddy 106a.
[0037] The assembly 150 includes not only the microfluidic device
100, but also first and second, or "top" and "bottom," covers 160,
163. The first cover 160 includes pneumatic access ports 165 and
electrical access ports 168 through which a pressure (e.g. a
vacuum) and electrical power respectively may be supplied to the
pneumatic and electrical circuits 153, 156. The first cover 160
also includes a cutout 170, whose function will be discussed below.
As will be apparent from the discussion below, the cutout 170 may
be omitted in some embodiments. Note that the terms "top" and
"bottom" as used in this paragraph are defined relative to the
nominal orientation of the assembly 150 in FIG. 1B.
[0038] The microfluidic device 100, first cover 160, and second
cover 163 may be assembled in any manner known to the art. Note
that the first cover 160 does not provide access to the individual
wells 103, and is therefore assembled after the fluids 109 are
deposited into the wells 103. This may affect the techniques used
in assembly in some embodiments. In general, the caddy 106a and
body structure 106b of the plate 106, the top cover 160, and the
bottom cover 163 may be, for example, adhered or fastened together.
In the illustrated embodiment, the caddy 106a and body structure
106b are laminated together, as is the bottom cover 163. The
structural interface between the caddy 106a and the body structure
106b can be that as described in previously cited U.S. Pat. No.
6,488,897. In disposable embodiments, the manner in which the top
cover 160 is assembled is not material, but may be taken into
account in embodiments in which the microfluidic device 100 might
be reused.
[0039] A more detailed view of the ports and channels on body
structure 106b is shown in FIG. 1C. The invention admits wide
variation in the port layout and geometry, including variations in
the layout of the microfluidic channels interconnecting the ports.
The microfluidic device 100 is intended, in the illustrated
embodiment, for use in an analysis comprising PCR. The ports and
channels on the body structure 106b form a plurality of separate
microfluidic circuits 115 (only one indicated).
[0040] FIG. 1D, shows a close-up view of two microfluidic circuits
118, 118', one of which corresponds to circuit 115 indicated in
FIG. 1C. In the embodiment shown in FIG. 1D, each of the
microfluidic circuits 118, 118' comprises a plurality of ports
120-126 and microfluidic channels 128. The microfluidic channels
128 are actually fabricated in the interior of the microfluidic
device 100, more particularly in the interior of body structure
106b, and interconnect the ports 120-126 in the manner shown. The
microfluidic circuits 118, 118' also include reaction chambers 138.
The enzyme 130 for the PCR is loaded in the port 120; the
microfluidic sample 131 (or "lysate") is loaded in the ports 121,
123; the dried selective ion extraction ("SIE") buffer 132 is
loaded in the port 122; the dried primers and probes, i.e., the
locus specific reagents ("LSR"), 134 are loaded in the ports 124,
125. Waste 136 from the PCR reaction is deposited in the ports
126.
[0041] Techniques for the manufacture of microfluidic ports (e.g.,
the ports 120-126) and channels (e.g., the channels 128) are known
to the art for embodiments in which the body structure 106b is
fabricated from glass or plastic. These known techniques will be
readily adaptable to the present invention by those in the art
having the benefit of this disclosure. For embodiments in which the
body structure 106b is fabricated from plastic, traditional
manufacturing techniques employed in polymer processing may be
used. For instance, body structure 106b, or a plurality of
components that are assembled to form body structure 106b, may be
molded and laminated, or cast and milled, or some combination of
these techniques. This proposition also holds for the caddy 106a.
Such manufacturing techniques are well known across a number of
arts, and should also be readily adaptable to the present invention
by those in the art having the benefit of this disclosure.
[0042] A variety of substrate materials may be employed to
fabricate a microfluidic device such as device 100 in FIG. 1A-FIG.
1D. Typically, since some structures such as the grooves or
trenches will have a linear dimension of less than 1 mm, it is
desirable that the substrate material be compatible with known
microfabrication techniques such as photolithography, wet chemical
etching, laser ablation, reactive ion etching ("RIE"), air abrasion
techniques, injection molding, LIGA methods, metal electroforming,
or embossing. Another factor to consider when selecting a substrate
material is whether the material is compatible with the full range
of conditions to which the microfluidic devices may be exposed,
including extremes of pH, temperature, salt concentration, and
application of electric fields. Yet another factor to consider is
the surface properties of the material.
[0043] Properties of the interior channel surfaces determine how
these surfaces chemically interact with materials flowing through
the channels, and those properties will also affect the amount of
electroosmotic flow that will be generated if an electric field is
applied across the length of the channel. Techniques have been
developed to either chemically treat or coat the channel surfaces
so that those surfaces have the desired properties. Examples of
processes used to treat or coat the surfaces of microfluidic
channels can be found in: [0044] U.S. Pat. No. 5,885,470, entitled
"Controlled Fluid Transport in Microfabricated Polymeric
Substrates", issued Mar. 23, 1999, to Caliper Technologies Corp. as
assignee of the inventors John W. Parce, et al.; [0045] U.S. Pat.
No. 6,841,193, entitled "Surface Coating for Microfluidic Devices
that Incorporate a Biopolymer Resistant Moiety", issued Jan. 11,
2005, to Caliper Life Sciences, Inc. as assignee of the inventors
Hua Yang, et al.; [0046] U.S. Pat. No. 6,409,900, entitled
"Controlled Fluid Transport in Microfabricated Polymeric
Substrates", issued Jun. 25, 2002, to Caliper Technologies Corp. as
assignee of the inventors John W. Parce, et al.; and [0047] U.S.
Pat. No. 6,509,059, entitled "Surface Coating for Microfluidic
Devices that Incorporate a Biopolymer Resistant Moiety", issued
Jan. 21, 2003, to Caliper Technologies Corp. as assignee of the
inventors Hua Yang, et al. These patents are hereby incorporated by
reference as if expressly set forth verbatim herein for their
teachings regarding the treatment and/or coating of microfluidic
channels. Methods of bonding two substrates together to form a
completed microfluidic device are also known in the art, for
example: [0048] U.S. Pat. No. 6,425,972, entitled "Methods of
Manufacturing Microfabricated Substrates", issued Jul. 30, 2002, to
Caliper Technologies Corp. as assignee of the inventor Richard J.
McReynolds; and [0049] U.S. Pat. No. 6,555,067, entitled "Polymeric
Structures Incorporating Microscale Fluidic Elements", issued Apr.
29, 2003, to Caliper Technologies Corp. as assignee of the
inventors Khushroo Ghandi, et al. These patents are hereby
incorporated by reference as if expressly set forth verbatim herein
for their teachings regarding the bonding and/or joining of two
layers of substrates. Other techniques are known and may be
employed.
[0050] Materials normally associated with the semiconductor
industry are often used as microfluidic substrates since
microfabrication techniques for those materials are well
established. Examples of those materials are glass, quartz, and
silicon. In the case of semiconductive materials such as silicon,
it will often be desirable to provide an insulating coating or
layer, e.g., silicon oxide, over the substrate material,
particularly in those applications where electric fields are to be
applied to the device or its contents. The microfluidic devices
employed in the Agilent Bioanalyzer 2100 system are fabricated from
glass or quartz because of the ease of microfabricating those
materials and because those materials are generally inert in
relation to many biological compounds.
[0051] Microfluidic devices can also be fabricated from polymeric
materials such as polymethylmethacrylate ("PMMA"), polycarbonate,
polytetrafluoroethylene (e.g., TEFLON.TM.), polyvinylchloride
("PVC"), polydimethylsiloxane ("PDMS"), polysulfone, polystyrene,
polymethylpentene, polypropylene, polyethylene, polyvinylidine
fluoride, acrylonitrile-butadiene-styrene copolymer ("ABS"),
cyclic-olefin polymer ("COP"), and cyclic-olefin copolymer ("COC").
Such polymeric substrate materials are compatible with a number of
the microfabrication techniques described above. Since microfluidic
devices fabricated from polymeric substrates can be manufactured
using low-cost, high-volume processes such as injection molding,
polymer microfluidic devices could potentially be less expensive to
manufacture than devices made using semiconductor fabrication
technology. Nevertheless, there are some difficulties associated
with the use of polymeric materials for microfluidic devices. For
example, the surfaces of some polymers interact with biological
materials, and some polymer materials are not completely
transparent to the wavelengths of light used to excite or detect
the fluorescent labels commonly used to monitor biochemical
systems. So even though microfluidic devices may be fabricated from
a variety of materials, there are tradeoffs associated with each
material choice.
[0052] Similarly, techniques for preparing and loading microfluidic
samples and other fluids are also well known to the art and readily
adaptable. Any suitable technique known to the art for these tasks
may be employed. For instance, sample preparation and loading can
be performed manually, as it has been in the past. Alternatively,
sample preparation and loading may be automated, since the
illustrated embodiment is designed to meet standards employed in
automated processing of microtiter plates. In other words, the
wells 103 are arranged in the same manner as the wells on standard
format microtiter plates. That allows industry standard fluid
handling equipment to be use to add and remove fluids from the
wells 103. Note that there is one manner in which the illustrated
embodiment departs from those standards. In a standard microtiter
plate, the area corresponding to the heating area 112 would be
occupied by wells. In other words, while a standard microtiter
plate comprises a full rectangular array of wells, a microfluidic
device in accordance with the invention will be missing the wells
in the array that would occupy heating region 112. Thus, the
microfluidic device 100 will have fewer wells 103 than would a
microtiter plate meeting the same standard and some accommodation
for this departure will be made in automated handling systems.
[0053] The invention admits variation in the configuration of the
microfluidic circuits in various alternative embodiments of the
present invention. FIG. 2A-FIG. 2D illustrate several of these
alternative embodiments. FIG. 2A-FIG. 2D schematically illustrate
various methods of connecting ports 120-125 to reaction chambers
138 in fluid circuits such as 118 and 118'. Note that in FIG. 1D,
the channels 128 in one fluid circuit, e.g fluid circuit 118,
connected to four parallel channels that form reaction chambers
138, and then the fluid path from those four channels 138 lead into
port 126. In the interconnection arrangement shown in FIG. 2A, each
reaction chamber 138 is connected to a separate set of ports (one
set is designated 120, 121, 124), each set of ports being connected
by a single channel. To carry out PCR in each reaction chamber 138,
the first port 120 could contain the enzymes and dNTPs, the second
port 121 could contain a DNA sample, and the third port could
contain the probes and primers required to amplify that sample. If
a flow of fluid is established out of port 120 through ports 121
and 124, the fluid entering reaction chamber 138 would contain all
of the reagents required to PCR amplify the DNA in the sample. Flow
could then be stopped, and reaction chamber 138 could be subjected
to the sequence of temperatures required to carry out PCR
amplification. After amplification is complete, flow through the
fluid circuit would be reinitiated so the amplified product could
flow into reservoir 126. In the embodiment in FIG. 2A, each of the
four reaction chambers could be supplied with a different DNA
sample, and each sample could be supplied with different probes and
primers, so four completely different DNA amplifications could be
carried out in parallel. FIG. 2B shows an alternative port layout.
In the arrangement in FIG. 2B, common reagents, such enzymes and
dNTPs could be placed in port 120, which is connected to the four
separate flow paths leading into the four reaction chambers 138.
Four separate DNA samples, and four separate sets of probes and
primers could be placed in ports 121 and 124. PCR amplification
could then be carried out in the same manner as described with
respect to FIG. 2A. FIG. 2C illustrates a third embodiment in which
the four reaction chambers are fed with the same enzymes and dNTPs
from reservoir 120 and the same sample from reservoir 121. The four
distinct reservoirs 124 could contain probes and primers for
different loci, so four different portions of the sample can be
amplified in the four reaction chambers 138. FIG. 2D illustrates an
embodiment in which the same probes and primers flow out of port
124 into all four reaction chambers 138, the same enzymes and dNTPs
flow out of port 120 into all four chambers, but different DNA
samples flow into each of the four chambers 138 from the four ports
121. Other variations not shown are also possible.
[0054] FIG. 3A-FIG. 3C illustrate how a single port layout, e.g.,
the port layout of the microfluidic device 100, shown in FIG.
1A-FIG. 1D, can be used to implement different microfluidic
circuits. The port layout of the microfluidic device 100 includes
96 microfluidic circuits in which 96 reactions are performed, each
with a single sample in a single location e.g., a reaction
reservoir 138. FIG. 3A-FIG. 3B show an embodiment 300 in which the
port layout implements a plurality of microfluidic circuits 303,
each of which provides four reactions from a single sample in four
locations. Thus, the microfluidic device (not shown) would provide
96 reactions over 96 locations for 24 samples, each sample being
reacted four times in four locations. FIG. 3C illustrates an
embodiment 330 in which an microfluidic circuit 303 provides 24
samples, each reacting in one location such that four microfluidic
circuits 303 will yield 96 reactions.
[0055] Returning to FIG. 1A-FIG. 1B, in accordance with one aspect
of the present invention, the electrical circuit 156 comprises
electrodes. 173a-173d constructed of an electrically conductive
polymer. In general, the polymer may be any polymer having
sufficient electrical conductivity. For the illustrated embodiment,
"sufficient" electrical conductivity is approximately 250
.OMEGA./cm. Note that this also implies that the material from
which the caddy 106a is constructed from a material that is not
electrically conductive, or is an electrical insulator.
[0056] In this particular embodiment, the electrical circuit 156 is
shown on the surface of the caddy 106a , but this is not necessary
to the practice of this aspect of the invention. The electrodes
173a-173d may be at any layer of the microfluidic device 100.
(Similarly, the pneumatic circuit 153 need not be fabricated on the
surface in all embodiments.) Some embodiments may also find if
desirable to employ separate electrodes to each well 103 rather
than the four shown.
[0057] The electrodes 173a-173d may be fabricated using any
suitable technique. Exemplary techniques include co-injection
molding, insert molding, printing, or some form of flow of material
followed by some sort of curing or hardening, or by lowering heat.
However, other techniques may be employed.
[0058] Some alternative embodiments may fabricate the electrodes
173a-173d using a low melt point metal, a low melt point metal
alloy, a stamped metal, a conductive ink, or a conductive gel.
Still other alternative embodiments may employ still other
materials. Note that fabrication techniques in these alternative
embodiments will vary depending on the material from which the
electrodes 173a-173d are fabricated.
[0059] The microfluidic device 100, shown in FIG. 1A-FIG. 1D, is
designed for automated processing in an instrument 400, shown in
FIG. 4A-FIG. 4B. As is shown in FIG. 4B, the microfluidic device
100 is placed into a tray 403 that extends from and retracts into
the instrument 400. The extension and retraction of the tray 403
may be manual. However, high precision in positioning the device
100 in the instrument 400 is desirable. Accordingly, most
embodiments can use pressure sensitive servo-motor drive systems
(not shown) such as are used in consumer electronics products like
digital video disk ("DVD".) and compact disc ("CD") players. Such
drive systems have additional benefits in the illustrated
embodiment as will be discussed further below.
[0060] FIG. 5A-FIG. 5C illustrate selected aspects of the internal
workings of the instrument 400. Accordingly, the housing 500 of the
instrument is shown in ghosted lines. The drawings show the tray
403 holding the microfluidic device 100 in an extended position (in
FIG. 5A) and a retracted position (in FIG. 5B). The instrument 400
includes a landing 503 that defines a bay 506 into which the tray
403 is retracted. The tray 403 is retracted into and positioned in
the bay 506 for loading, processing, and evaluation as described
below.
[0061] The instrument 400 also includes an optical assembly 512
mounted to the top 515 of the landing 503. The optical assembly 512
is best shown in FIG. 5C. An optical head 536 reciprocates on a
pair of rails 538 between two bases 540. The optical head 536 is
driven on the rails 538 by any suitable mechanism known to the art,
e.g., a stepper motor (not shown). The optical assembly 512 is an
optional feature for use in the optional fluorescent monitoring
technique discussed more fully below in connection with FIG.
13A-FIG. 13B. Since the fluorescent monitoring technique is
optional, it may be omitted in some alternative embodiments and,
accordingly, so may the optical assembly 512.
[0062] Microfluidic devices such as the microfluidic device 100 may
be used in a variety of applications, including, e.g., the
performance of high throughput screening assays in drug discovery,
immunoassays, diagnostics, genetic analysis, and the like. The
wells 103 and the ports 157, shown in FIG. 1A, may be loaded
through parallel or serial introduction and analysis of multiple
samples. Alternatively, these devices may be coupled to a sample
introduction port, e.g., a pipettor, which serially introduces
multiple samples into the device for analysis. Examples of such
sample introduction systems are described in, for example: [0063]
U.S. Pat. 5,880,071, entitled "Electropipettor and Compensation
Means for Electrophoretic Bias", issued Mar. 9, 1999, to Caliper
Technologies Corporation as assignee of the inventors J. Wallace
Parce et al.; and [0064] U.S. Pat. 6,046,056, entitled "High
Throughput Screening Assay Systems in Microscale Fluidic Devices",
issued Apr. 4, 2000, to Caliper Technologies Corporation as
assignee of the inventors J. Wallace Parce et al. These patents are
hereby incorporated by reference as if expressly set forth verbatim
herein for their teachings regarding automated well/port
loading.
[0065] Returning to FIG. 4, the instrument 400 may, in some
embodiments, furthermore include a head (not shown) with an
interface by which the individual wells 103 of the microfluidic
device 100 may be robotically loaded. Such a head may also be
rail-mounted, and even on the rails 538. For instance, the optical
head 536 can be stored at one extreme end of the rails 538 and a
sample head at the other extreme end when not in use so as not to
interfere with the operation of each other. The head could also
carry, as a part of the interface, one or more structures through
which a electrokinetic force, such as that discussed further below,
may be imparted to the microfluidic circuits 118, 188'. For
instance, the head could also carry structures to interface with
the pneumatic circuit 153 and the electrical circuit 156 through
the pneumatic access ports 165 and electrical access ports 168.
Alternatively, these functions can be performed manually.
[0066] The instrument 400 further includes a thermocycler 530,
constructed and operated in accordance with another aspect of the
present invention, mounted to the underside 533 of the landing 503.
In general, the thermocycler-530 operates by contacting the heating
area 112 of the microfluidic device 100 with a series of thermal
elements for a predetermined time to bring the temperature of the
microfluidic samples 106 to some desired temperature and hold it
there. The invention admits some variation in the manner in which
this may be achieved. FIG. 6A-FIG. 6C, FIG. 7A-FIG. 7B, and FIG. 8
illustrate three alternative embodiments for accomplishing
this.
[0067] Turning now to FIG. 6A-FIG. 6C, a thermocycler 530a is
shown. FIG. 6B is a plan, side view and FIG. 6C is a plan, end view
from the direction of the arrows 600', 600'', respectively, in FIG.
6A. In each of FIG. 6B and FIG. 6C, the tray 403 is shown sectioned
to show the microfluidic device 100 in part. In this particular
embodiment, the thermocycler 530a includes a plurality of
temperature controlled thermal elements, i.e., three bars 603, in
the illustrated embodiment. Note that the number of bars 603 is not
material to the present invention. However, the number will be
implementation specific depending on the number of temperatures to
which the microfluidic sample 106 will be subjected during the
processing. The thermocycler 530a also includes means for
positioning a microfluidic device 100 and each of the bars 603
relative to one another in succession, i.e., a shaft 606 rotated by
a drive 609 to which the bars 603 are mounted. Note that the bars
603 are not shown contacting the microfluidic device 100, but that
such contact will be found in operation. One way to initiate such
contact would be to lift the shaft 606, and thus the bars 603,
using the drive 609. Alternatively, a lift (not shown) may be
provided for the subassembly of the drive 609, shaft 606, and bars
603. The bars 603 may be mounted to the shaft 606 using any
technique known to the art provided it suffices to overcome the
forces imparted by rotation of the shaft 606. The magnitude of
those forces will be a function of, for instance, the speed of the
rotation.
[0068] FIG. 7A-FIG. 7B illustrate a second thermocycler 530b as may
be used in the instrument 400 of FIG. 4A-FIG. 4B. FIG. 7B is a
plan, end view from the direction of the arrow 700' in FIG. 7A. In
FIG. 7B, the tray 403 is shown sectioned to show the microfluidic
tray 100 in part. In this particular embodiment, the thermocycler
530b includes a plurality of temperature controlled thermal
elements, i.e., three bars 703, in the illustrated embodiment. The
thermocycler 530b also includes means for positioning a
microfluidic device 100 and each of the bars 703 relative to one
another in succession, i.e., a laterally sliding tray 706 in which
the bars 703 are mounted; a lift 709 capable of lifting the bars
703 (with or without the tray 706) to contact the microfluidic
device 100 with they bars 703; and at least one drive 712 for the
tray 706 and the lift 709. In the illustrated embodiment, the lift
709 includes a dedicated drive (not shown).
[0069] More particularly, the bars 703 are placed securely in the
tray 706. The lift 709 includes a shaft 715 that reciprocates, as
indicated by the arrow 718. The shaft 715 operates either directly
on the bars 703 extending through the tray 706, as shown in FIG.
7B, or on the bars 703 through apertures (not shown) in the tray
706. The drive 712 powers a shaft 721 that also reciprocates, as
represented by the arrow 724, to translate the tray 706 laterally.
Thus, in operation, the lift 709 lowers the shaft 715 to allow the
bar 703 contacting the microfluidic device 100 to fall and break
the contact. The drive 712 then reciprocates the shaft 721 to
position the tray so that the next bar 703 is positioned between
the shaft 715 and the heating area 112 of the microfluidic device
100. The lift 709 then drives the shaft 715 upward to contact the
bar 703 with the microfluidic device 100. The thermocycler 530b
iterates these acts until the process is through.
[0070] FIG. 8 illustrates a third thermocycler 530c as may be used
in the instrument 400 of FIG. 4A-FIG. 4B in a plan, end view.
Again, the tray 403 is shown sectioned to show the microfluidic
device 100 in part. In this particular embodiment, the thermocycler
530c includes a plurality of temperature controlled thermal
elements, i.e., three thermal masses 803, in the illustrated
embodiment. The thermocycler 530c also includes means for
positioning a microfluidic device 100 and each of the thermal
masses 803 relative to one another in succession, i.e., a plurality
of linear actuators 806, each lifting and translating a respective
thermal mass 803 through a respective shaft 809 to contact the
microfluidic device 100.
[0071] Each of the thermocycler embodiments 530 disclosed above
operate under the aegis of a controller that controls the
positioning of the microfluidic device 100 and thermal elements
relative to one another, and the temperatures of the thermal
elements. FIG. 9 illustrates one suitable controller 900. The
controller 900 is an electronic controller, although this is not
necessary to the practice of the invention. In general, the
controller 900 comprises a processor 903, e.g., an 8-bit
microprocessor or micro-controller, communicating with a storage
906 over a bus system 909. The storage 906 may be implemented using
any of a variety of technologies, such as a read-only memory
("ROM"), an electrically programmable read-only memory ("EPROM"),
an erasable electrically programmable read-only memory ("EEPROM").
The storage 906 includes software residing thereon, such as an
operating system ("OS") 912 and a protocol application 915.
[0072] On power-on or reset, the processor 903, under the control
of the OS 912, performs a self-test and then invokes the protocol
application 915. Under the direction of the protocol application,
the processor 903 implements the testing protocol of the process to
which the microfluidic sample 109, shown in FIG. 1A, is to be
subjected. In the illustrated embodiment, the instrument 400, shown
in FIG. 4, is loaded with the microfluidic device 100 containing
the microfluidic sample 109, as is shown in FIG. 5A, FIG. 5B. The
instrument 400 may be loaded by a technician or a robotic materials
handling tool, neither of which is shown. When the instrument 400
is loaded, a START signal, shown in FIG. 9, is transmitted to the
processor 903. For instance, a technician may press a "start"
button (not shown) on the console (not shown) of the instrument 400
to indicate that the instrument 400 is loaded and ready for the
processing to start.
[0073] Upon receiving the START signal, the processor 903 begins
executing the protocol application 915. In general, on execution,
the protocol application performs a method comprising cycling a
microfluidic sample 109 through a plurality of thermal cycles. Each
thermal cycle includes contacting a predetermined portion, i.e.,
the heating area 112, of a microfluidic device 100 holding the
microfluidic sample 109 with a respective thermal element. The
microfluidic sample 109 is then heated to a predetermined
temperature for a predetermined period of time. The temperature and
time data may be either hard-coded into the protocol application
915; or, retrieved by the protocol application 915 from, e.g., a
data store 918; or, entered through a console.
[0074] To implement the protocol, the processor 903, in executing
the protocol application, generates and transmits CONTROL signals
to the various components of the instrument 400. The content of the
CONTROL signals will be implementation specific. For instance, in
embodiments employing the thermocycler 530a of FIG. 6A-FIG. 6C, the
CONTROL signals will include signals to the drive 609 to rotate the
shaft 606 at the appropriate times. On the other hand, in
embodiments employing the thermocycler 530b of FIG. 7A-FIG. 7B, the
CONTROL signals will includes signals controlling the reciprocation
of the shafts 715, 721 by the drives 712. These kinds of
adaptations in implementation will be readily apparent and within
the ability of those ordinarily skilled in the art having the
benefit of this disclosure.
[0075] Turning now to FIG. 10, the operation 1000 of the present
invention in the processing protocol in one particular embodiment
will be disclosed. FIG. 10 shows a representative microfluidic
device 100 including a heating area 112 and three thermal elements
1003a-1003c. Those in the art will appreciate that the microfluidic
device 100 may, and typically will, hold more than a single
microfluidic sample 109. The method may be applied simultaneously
to each of the microfluidic samples 109 held in the microfluidic
device 100. Similarly, the invention may be extended to
applications in which multiple microfluidic devices 100 are
processed simultaneously. Note also that FIG. 10 shows the
microfluidic device 100 being heated from below, but that
alternative embodiments may just as easily heat the microfluidic
device 100 from above.
[0076] The illustrated embodiment is intended for use in performing
a polymerase chain reaction ("PCR"). PCR is a common technique that
is well known and well understood in the art. Although temperatures
and durations may vary, PCR usually involves three thermal
cycles--hence, the use of three thermal elements 1003a-1003c. Thus,
in this particular embodiment, the microfluidic sample 109
comprises a solution of a target DNA sequence, a plurality of PCR
primers, a polymerase, and a plurality of nucleotides, none of
which are shown.
[0077] The process, according to the protocol implemented by the
protocol application 915, shown in FIG. 9, the heats the
microfluidic sample 109 denature the microfluidic sample 109.
Typically, this involves heating the microfluidic sample 109 to a
denaturing temperature of 95.degree. C. for 3-10 seconds, and
approximately 10 seconds in the illustrated embodiment. The process
then changes the temperature of the microfluidic sample 109 to an
annealing temperature of 55.degree. C. for 3-10 seconds, and
approximately 10 seconds in the illustrated embodiment. The process
then changes the temperature of the microfluidic sample 109 to an
elongation temperature of 72.degree. C. for 5-30 seconds, and
approximately 30 seconds in the illustrated embodiment. This
process is usually iterated for 25 to 50 cycles in order to get a
final product. Typically this whole process is started by heating
the microfluidic sample 109 to a hot-start temperature of
95.degree. C. for 10 minutes in order to activate the enzymes.
Note, however, that other PCR protocols are known and may be
implemented by the present invention.
[0078] However, the invention admits variation to help improve
operational efficiency. Consider the embodiment 1100, in FIG. 11.
This particular embodiment includes two optional features to
improve efficiency of the apparatus. First, this particular
embodiment employs a second set of thermal elements 1103a-1103c to
heat the top of the microfluidic device 100. The thermal elements
1003a-1003c, 1103a-1103c apply the same temperature at the same
time from both sides of the microfluidic device 100 to lower the
thermal transit time. The embodiment 1100 in FIG. 11 also includes
an interface material 1106 is interposed between the thermal
elements 1003a-1003c, 1103a-1103c and the microfluidic device 100
at least over the heating area 112. The interface material 1106
helps eliminate poorly thermally conducting air gaps and may be
some kind of phase change material, e.g., a wax that melts at the
lower of the working temperatures or compliant polymers or
materials like the Berquest Sil-pad type of materials. The thermal
interface material 1106 could also be attached to the thermal
elements 1003a-1003c, 1103a-1103c. Note that these variations may
be employed separately or, as in the illustrated embodiment,
together.
[0079] Some embodiments may also provide fewer thermal elements
1003a-1003c than there are thermal cycles in the protocol. In the
embodiments set forth illustrated herein, the implemented protocols
call for a different temperature in each thermal cycle. However,
some protocols may have multiple thermal cycles at the same
temperature. In these embodiments, a single thermal element may be
used in each thermal cycle calling for a particular temperature. It
is there possible that the number of thermal elements may differ
from the number of thermal cycles in some embodiments.
[0080] Microfluidic devices typically allow for increased
automation of standard laboratory processes. This is why
microfluidic devices are often referred to as "labs on a chip."
Thus performing PCR in a microfluidic device allows multiple steps
of the work flow associated with the PCR process to be performed on
a single microfluidic device. FIG. 12A-FIG. 12D illustrate a PCR
reaction in the microfluidic device of FIG. 1A-FIG. 1D employing
the thermocycler of FIG. 6A-FIG. 6C operated as illustrated in FIG.
10. FIG. 12A illustrates a single microfluidic circuit 118.
[0081] As mentioned above, the enzyme 130 for the PCR is loaded in
the well 120; the microfluidic sample 131 (or "lysate") is loaded
in the wells 121, 123; the dried SIE buffer 132 is loaded in the
well 122; the LSR 134 are loaded in the wells 124, 125. Waste from
the PCR reaction is deposited in the wells 126. If the SIE buffer
132 and the locus specific reagents 134 are dried in wells 122, 124
and 125 respectively, then they are reconstituted and the
electrical and pneumatic circuits 153, 156 are activated. The
nucleic acid extraction occurs in a portion 1200, shown better in
FIG. 12B, of the microfluidic circuit 118. The sample 103, by now
reconstituted with the enzyme 130 and the buffer 132, migrates
electrokinetically through the microfluidic channels 1201-1203. As
the migration progresses, the extracted nucleic acid (not show)
exits the portion 1200 through the channel 1203 in the direction
shown. The extracted nucleic acid mixes with the LSR 134 in the
portion 1205, best shown in FIG. 12C, and enters the reaction
reservoir 138, where it is subjected to the thermal cycling
described above and the PCR occurs. Here the reaction reservoir is
shown as two parallel channels, but it may as well be 1 or more
channels or containment areas.
[0082] The electrokinetic principles employed by the invention are
by now known in the art. Such principles are taught, for instance,
in: [0083] U.S. Pat. No. 6,488,897, entitled "Microfluidic Devices
and Systems Incorporating Cover Layers", issued Dec. 3, 2002, to
Caliper Technologies Corp. as assignee of the inventors Robert S.
Dubrow, et al.; [0084] U.S. Pat. No. 5,965,001, entitled "Variable
Control of Electroosmotic and/or Electrophoretic Forces Within a
Fluid-Containing Structure via Electrical Forces", issued Oct. 12,
1999, to Caliper Technologies Corporation as assignee of the
inventors Calvin Y. H. Chow and J. Wallace Parce, [0085] U.S. Pat.
No. 6,849,411, entitled "Microfluidic Sequencing Methods", issued
Feb. 1, 2005, to Caliper Life Sciences, Inc. as assignee of the
inventors Michael Knapp, et al.; and [0086] U.S. Pat. 5,858,195,
entitled "Apparatus and Method for Performing Microfluidic
Manipulations for Chemical Analysis and Synthesis", issued Jan. 12,
1999, to Lockheed Martin Energy Research Corporation as assignee of
the inventor J. Michael Ramsey. These patents are hereby
incorporated by reference as if expressly set forth verbatim herein
for their teachings regarding electrokinetic transport. Other
techniques are known and may be employed.
[0087] The invention also admits variation to accommodate
modification and differences in protocols. For instance, DNA-based
procedures like PCR routinely monitor the various aspects of the
process by tagging elements of the solution with a fluorescent tag.
FIG. 13A conceptually illustrates a DNA sequence 1300 tagged with a
fluorescent marker 1303 in accordance with conventional practice.
Thus, the present invention can implement a protocol wherein
thermal cycles are interrupted, the thermal elements are removed,
and the microfluidic solution 109 is fluorescently monitored with
one or more wavelengths. Any suitable fluorescent monitoring
technique known to the art may be used.
[0088] FIG. 13B conceptually illustrates one such fluorescent
monitoring technique. This technique is more fully disclosed in
U.S. Pat. No. 6,547,941, entitled "Ultra High Throughput
Microfluidic Analytical Systems and Methods", on Apr. 15, 2003, to
Caliper Technologies Corp., as assignee of the inventors Anne R.
Kopf-Sill et al. This patent is hereby incorporated by reference as
if set forth verbatim herein for its teachings regarding the
fluorescent monitoring techniques. A portion of that disclosure
will now be excerpted with slight modification relevant to its use
with the present invention.
[0089] More particularly, FIG. 13B illustrates an illumination and
detection system 1305 according to this particular embodiment of
the present invention. The illumination and detection system 1305
includes an excitation source 1310 and a detector array 1320
including one or more optical detectors, such as CCD arrays. The
excitation source 1310 provides an excitation beam 1312, which is
optically focused and controlled by one or more optical elements
1314 (only one shown). In a preferred embodiment, the optical
elements 1314 include one or more lenses, such as plano-convex
lenses and plano-cylindrical lenses, that focus the excitation beam
1312 into a large aspect ratio elliptical illumination beam 1316 as
shown.
[0090] The optical elements 1314 are positioned and arranged such
that the elliptical spot 1316 is focused to the detection region
1325 on the sample microfluidic device 100. Preferably, the source
1310 and/or optical elements 1314 are positioned such that the
elliptical excitation beam 1316 impinges on the microfluidic device
100 at a non-normal angle of incidence .phi.. In a preferred
embodiment, .phi. is approximately 45.degree. relative to the plane
defined by microfluidic device 100, although other non-normal
angles of incidence may be used, e.g., from about 30+ to about
100.degree.. In one embodiment, source 1310 and optical elements
1314 are arranged such that the elliptical excitation beam 1316 is
polarized with a polarization direction/vector 1318 that is
substantially parallel to the major axis of the elliptical
excitation beam 1316.
[0091] The optical elements 1314 are also preferably arranged such
that the major axis of the resulting elliptical excitation beam
1316 is substantially perpendicular to the direction of the
micro-channels 1322 in the detection region 1325 as shown.
Alternatively, the major axis of the elliptical excitation beam
spot 1316 is oriented along the length of one or more of the
microchannels 1322 in the detection region 1325. This orientation
excites and detects a longer region of each of the microchannels
1322, e.g., where a time dependent reaction is being monitored, or
where detection sensitivity requires extended detection. In this
manner, substances (not shown) in each of the microfluidic channels
1322 may be simultaneously excited by the elliptical excitation
beam 1316.
[0092] Emissions emanating from the samples 109 in each of the
plurality of the microchannels 1322 in the detection region 1325
are focused and/or directed by one or more optical elements 1334
(two elements shown) onto the detector array 1320. At least one
optical element, e.g., element 1334', such as an objective lens, is
preferably positioned to direct emissions received from the
detection region 1325 in a direction normal to the plane defined by
the microfluidic device 100 as shown. One or more band-pass filter
elements 1336 are provided to help prevent undesired wavelengths
from reaching detector array 1320. The detector results then are
processed over time to monitor the reaction. The light source may
also be a light emitting diode ("LED"), which would typically have
a larger illumination spot size. When detecting the reaction
product in a dual rotor system, one or both rotors will move out of
the optical path.
[0093] Although not shown, the radiation 1316 strikes the PCR
reaction reservoirs 138, shown best in FIG. 1D, through the cutout
170 in the cover 160 in the illustrated embodiment. As was
mentioned above, the cover 160 may be omitted, or the cover 160 may
be employed and the cutout 170 omitted. Where the cutout 170 is
omitted, the material from which the cover 160 is fabricated from a
material optically transmissive at the wavelengths employed by the
particular fluorescent monitoring techniques. The cutout 170 may
also be omitted from the cover 160 in embodiments in which
fluorescent monitoring is not performed.
[0094] As another example of a variation found in some embodiments,
not all PCR protocols employ three thermal cycles. Some only employ
two thermal cycles. In these PCR protocols, one cycles only between
the denaturation and annealing temp and no dwell time is spent at
those temperatures. The idea is that in an optimized assay, just
reaching 95.degree. C. is sufficient for denaturation and just
touching the annealing temp, say 60.degree. C., is enough for
annealing. No time is spent at the extension step because the
enzyme is active during the ramp from 60.degree. C. to 95.degree.
C. Even though no time is spent at the optimum temp for activity of
72.degree. C.-74.degree. C., there is enough activity during the
ramp to yield a PCR. Thus, as few as two thermal elements may be
used to implement certain PCR protocols.
[0095] Another alternative protocol calls for what is known as
"thermal ramping." One or more times while thermally cycling the
microfluidic sample 109, or after completing thermal cycling, one
of the heating elements can be ramped while thermally connected to
the microfluidic sample 109. Thermal ramping is typically combined
with fluorescent monitoring, which was discussed above and
performed at the same time.
[0096] As was mentioned above, the invention admits wide variation
in the implementation of the microfluidic device of the present
invention. FIG. 14A-FIG. 16 illustrate three further alternative
embodiments of the microfluidic device. More particularly: [0097]
FIG. 14A-FIG. 14C depict a microfluidic device in accordance with
the present invention in a second embodiment; [0098] FIG. 15A-FIG.
15C depict a microfluidic device in accordance with the present
invention in a third embodiment; and [0099] FIG. 16 depicts a
microfluidic device in accordance with the present invention in a
fourth embodiment. Each of these embodiments will now be discussed
in turn.
[0100] FIG. 14A and FIG. 14C are a perspective view, a top, plan
view, and a cross-sectional view, respectively, of a body structure
1400 for use in a microfluidic device. Note that the caddy has been
omitted. The cross-sectional view of FIG. 14C is taken along line
14C-14C shown in both FIG. 14A and FIG. 14B. In general, the body
structure 1400 comprises a plate 1403, a microfluidic PCR circuit
1406 (best shown in FIG. 14B) and a heating element 1409 (best
shown in FIG. 14A). Note that the heating element 1409 is omitted
from FIG. 14B to promote clarity in the disclosure of the
microfluidic PCR circuit 1406.
[0101] The plate 1403 is fabricated, in the illustrated embodiment,
from a plastic, such as COC. The plate 1403 comprises a first, or
"top", layer 1412 and a second, or "bottom" layer 1413. Note that
the terms "top" and "bottom" are defined relative to their nominal
orientations when the PCR device of the body structure 1400 is in
use. In the illustrated embodiment, the first layer 1412 is
approximately three times as thick as the first layer 1413--e.g.,
300 .mu.m to 100 .mu.m thick. (The heating element 1609 is
fabricated approximately 10 nm thick.) The term "approximately" is
an accommodation to certain factors such as manufacturing
tolerances, etc., the may interfere with some embodiments being
able to achieve high degrees of precision. However, the relative
thicknesses of the first and second layers 1412, 1413 is not
material to the practice of the invention in this embodiment so
long as the resultant device performs as intended by the
invention.
[0102] The microfluidic PCR circuit 1406 generally includes a
plurality 1415 of ports 1418, 1419 formed in the plate 1403 into
which the PCR components may be loaded, e.g., the enzyme 1421 and
the DNA and deoxyNucleotideTriPhosphate ("dNTP") 1424. The
microfluidic PCR circuit 1406 also includes a port 1427 formed in
the plate 1403 by which an electrokinetic force may be imparted to
the loaded PCR components 1421, 1424. The body structure 1400
imparts the electrokinetic force through, in the illustrated
embodiment, a continuous flow vacuum. A plurality of microfluidic
channels 1425, shown best in FIG. 14B, interconnect the ports 1418,
1419, 1427 to define the microfluidic PCR circuit 1406.
[0103] More particularly, with respect to the microfluidic channels
1425, note that the microfluidic channels 1425 are actually
fabricated in the interior of the body structure 1400. More
particularly, as is best shown in FIG. 14B, the microfluidic
channels 1425 are formed at the interface 1428 between the first
and second layers 1412, 1413. The first layer 1412 defines an upper
portion 1430 for each of the ports 1418, 1419, 1427 and the
microfluidic channels 1425. The second layer 1413 defines the
terminus (not shown) for each of the 1418, 1419, 1427 ports and a
lower portion, or floor, 1433 of the microfluidic channels 1425.
However, this is not necessary to the practice of the
invention.
[0104] The microfluidic PCR circuit 1406 also includes a detection
window 1430. This particular embodiment is intended for use with a
fluorescent monitoring technique such as that disclosed above
relative to FIG. 13A-FIG. 13B. Optical detection windows are
typically transparent such that they are capable of transmitting an
optical signal from the channel/chamber over which they are
disposed. The detection window 1430 is a solid area of the plate
1403 that is non-optically active, or optically transmissive, in
the frequency range employed in the monitoring technique. That is,
the optical detection window may merely be a region of a
transparent layer 1412 where the first layer 1412 is constructed of
an optically transparent polymer material, e.g., PMMA,
polycarbonate, etc. Thus, the detection window 1430 is not an
opening, port, or aperture in the plate 103 in this particular
embodiment, although it may be in other embodiments. Alternatively,
where opaque substrates are used in manufacturing the devices,
transparent detection windows fabricated from the above materials
may be separately manufactured into the device.
[0105] Note that this characteristic of the detection window 1430
impacts material selection at least for that part of the plate
1403. There is no requirement that the entire plate 1403 be
fabricated from the same material. However, it will generally be
convenient to fabricate at least each of the first and second
layers 1412, 1412 from the same material throughout. Thus, the
first layer 1412 will typically, in this particular embodiment, be
fabricated of a material that is optically transmissive in the
frequency range employed in the monitoring technique.
[0106] The footprint 1433 of the heating element 1409 is shown in
FIG. 14B in which the microfluidic PCR circuit 1406 is best shown.
That portion of the microfluidic PCR circuit 1406 lying under the
footprint 1433 is to be heated by the heating element 1409. It is
also that portion in which the PCR reaction occurs in this
particular embodiment. Note that this portion of the microfluidic
PCR circuit 1406 comprises a plurality 1436 of parallel, branching
channels 1439 (only one indicated). This structure helps facilitate
the PCR reaction in this particular embodiment by providing a
larger flow volume at the point at which heating occurs.
[0107] The heating element 1409 is formed on the plate 1403 and
permits a portion of the microfluidic PCR circuit 1406 to be
selectively heated. More particularly, in this embodiment, the
heating element 1409 heats that portion of the microfluidic PCR
circuit 1406 comprising the plurality 1436 of parallel, branching
channels 1439. The heating element 1409 will typically employ a
resistive heating. To this end, a voltage can be applied across the
heating element 1409 to generate a current therethrough, which will
generate heat therein that will conduct into the plate 1403. The
heating element 1409 can be formed on the plate 1403 using any
suitable technique known to the art. In the illustrated embodiment,
the heating element 1409 is formed on the plate 1403 using a
physical vapor deposition techniques such as is port known to those
in the art. However, the heating element 1409 may alternatively be
separately fabricating and adhered or fastened to the plate 1403.
Any suitable technique known to the art may be used.
[0108] In operation, the enzyme 1421 and the DNA and dNTP 1424 are
loaded into the ports 1418, 1419, respectively. A continuous flow
vacuum is applied through the port 1427 to impart the
electrokinetic force to the enzyme 1421 and the DNA and dNTP 1424.
The heating element 1409 is heated to the proper temperature so
that, when the enzyme 1421 and the DNA and dNTP 1424 mixture enters
the plurality 1436 of parallel, branching channels 1439, it can
begin the thermal cycling for the PCR reaction. Note that the level
of the vacuum is selected so that the mixture remains in the
reaction chamber while the PCR reaction occurs. When the PCR
reaction is completed, the vacuum is applied once again and the
result monitored through the detection window. Detection can be
performed by either using continuous flow or just filling the
microfluidic channels 1425 and monitoring for clouds of
fluorescence. Note that quantitation is possible in this particular
embodiment, as port.
[0109] FIG. 15A and FIG. 15C are a perspective view, a top, plan
view, and a cross-sectional view, respectively, of a body structure
1500. Note that the caddy has been omitted. The cross-sectional
view of FIG. 15C is taken along line 15C-15C shown in both FIG. 15A
and FIG. 15B. In general, the body structure 1500 comprises a plate
1503, a microfluidic PCR circuit 1506 (best shown in FIG. 15B) and
a heating element 1509 (best shown in FIG. 15A). Note that the
heating element 1509 is omitted from FIG. 15B to promote clarity in
the disclosure of the microfluidic PCR circuit 1506.
[0110] The plate 1503 is fabricated in largely the same manner as
is the plate 1403 in FIG. 14A-FIG. 14C, using the same types of
techniques and materials. Thus, the plate 1503 comprises a first,
or "top", layer 1512 and a second, or "bottom" layer 1513
constructed from a plastic such as COC and the first layer 1512 is
approximately three times as thick as the first layer 1513--e.g.,
300 .mu.m to 100 .mu.m thick. The microfluidic channels 1525 are
fabricated in the interior of the body structure 1500 and, as is
best shown in FIG. 15B, are formed at the interface 1528 between
the first and second layers 1512, 1513. The first layer 1512
defines an upper portion 1530 (only one indicated) for each of the
ports 1518, 1519, 1527 and the microfluidic channels 1525. The
second layer 1513 defines the terminus (not shown) for each of the
1518, 1519, 1527 ports and a lower portion, or floor, 1533 (only
one indicated) of the microfluidic channels 1525. The detection
windows 1530a, 1530b are solid areas of the plate 1503 that are
optically transmissive in the frequency range employed in the
monitoring technique.
[0111] The heating element 1509 is also fabricated and employed
similarly to the heating element 1409 in FIG. 14A-FIG. 14C. The
heating element 1509 is formed on the plate 1503 and permits a
portion of the microfluidic PCR circuit 1506 to be selectively
heated. The heating element 1509 will typically employ a resistive
heating, e.g., by application of a voltage applied across the
heating element 1509 to generate a current therethrough. The
heating element 1509 can be formed on the plate 1503 using any
suitable technique known to the art and, in this particular
embodiment, using a physical vapor deposition technique such as is
port known to those in the art.
[0112] However, the microfluidic PCR circuit 1506 of the embodiment
in FIG. 15A-FIG. 15C differs from the microfluidic PCR circuit 1406
in FIG. 14A-FIG. 14C. As is apparent from the above discussion, for
example, it employs two detection windows 1530a, 1530b, one for
detecting without separation and one for detecting with separation,
respectively. Also, that portion of the microfluidic PCR circuit
1506 lying under the footprint 1533 comprises a plurality 1536 of
looping, continuous channels 1539 (only one indicated) to be heated
by the heating element and in which the PCR reaction occurs.
[0113] The microfluidic PCR circuit 1506 also differs in the number
of ports it employs. In addition to the loading ports 1518, 1519
for the enzyme 1521 and the DNA and dNTP 1524, but also a loading
port 1530 for a DNA ladder reference 1522 such as is commonly used
in the art. In addition to the port 1527 through which a continuous
flow vacuum may be applied, the microfluidic PCR circuit 1506 also
includes ports 1542, 1543 by which positive and negative load
voltages, respectively, may be applied and ports 1544, 1545 by
which positive and negative separation voltages may be applied,
respectively.
[0114] The microfluidic PCR circuit 1506 also differs in the number
of ports it employs. In addition to the loading ports 1518, 1519
for the enzyme 1521 and the DNA and dNTP 1524, but also a loading
port 1530 for a DNA ladder reference 1522 such as is commonly used
in the art. In addition to the port 1527 through which a continuous
flow vacuum may be applied, the microfluidic PCR circuit 1506 also
includes ports 1542, 1543 by which positive and negative load
voltages, respectively, may be applied and ports 1544, 1545 by
which positive and negative separation voltages may be applied,
respectively.
[0115] Turning now to FIG. 15D, in operation, the enzyme 1521, the
DNA and dNTP 1524, and the DNA ladder 1522 are loaded into the
ports 1518-1520, respectively. A continuous vacuum is applied
through the port 1527, which pulls the components out of the ports
1518-1520 and to the looping, continuous channels 1539 (shown in
FIG. 15B) as indicated by the arrows 1550. As the components pass
through the channel 1525a, they mix to create the reaction solution
before entering the channels 1539 in which the PCR reaction takes
place. The length of the channels 1539 and the level of the vacuum
imparted via the port 1527 are designed so that the mixture of the
enzyme 1521 and the DNA and dNTP 1524 remains in the channels 1539
for the duration of the PCR protocol for the desired number of
thermocycles. As the mixture passes through the channels 1529, the
heating element 1509 and, in some embodiments, an external thermal
element (not shown) thermocycle the mixture at the temperatures and
for the durations specified by the PCR protocol being applied.
[0116] Once the PCR reaction is complete, a load voltage is imposed
on the microfluidic circuit 1506 via the ports 1543, 1542 to impart
an electrokinetic force to the mixture. More particularly, a
negative load voltage is applied to the port 1543 and a positive
load voltage is applied to the port 1542. This imparts an
electro-osmotic force such that the mixture travels from the
channels 1539 through the channel 1525b and the intersection 1553
to the detection window 1530a on the channel 1525c as indicated by
the arrow 1556. (The channels 1525b-1525c are coated in a manner
known to the art to help facilitate the electro-osmotic movement.)
At this point, fluorescent monitoring can yield detection without
separation.
[0117] Once the mixture reaches the detection window 1530a, the
load voltages are lifted from the ports 1543, 1542 and a separation
voltage is imposed on the ports 1545, 1544. More particularly, a
positive negative separation voltage is imposed on the port 1545
and a positive separation voltage on the port 1544. (Note that the
timing can be determined from the flow rate of the mixture.) This
imparts an electrophoretic force on the mixture, causing it to
reverser course in the channel 1525c back toward the intersection
1553, as represented by the arrow 1559.
[0118] At the intersection 1553, the electrophoretic force turns
the mixture into the channel 1525d, as indicated by the arrow 1562,
and approaches the intersection 1565. (The channel 1525d is coated
in a manner known to the art to help inhibit electro-osmotic
movement.) The electrophoretic force turns the mixture into the
channel 1525e at the intersection 1565, as indicated by the arrow
1571. The electrophoretic force continues driving the mixture, as
indicated by the arrow 1574, to the detection window 1530b. At this
point, fluorescent monitoring will yield detection with
separation.
[0119] FIG. 16 is a cross-sectional view of a body structure 1600
in a fourth embodiment of the present invention. Note that the
caddy has been omitted once again. In general, the body structure
1600 comprises a plate 1603, a microfluidic PCR circuit (shown only
by the channels 1625) and a heating element 1609. Note that the
heating element 1609 includes two contacts 1610 by which the
voltage may be applied. Note also that FIG. 16 also shows a thermal
element 1650, which may be a thermal element from a thermocycler
such as those disclosed above. Alternatively, the thermal element
1650 may be a Peltier device, such as are known in the art for use
in temperature control.
[0120] The plate 1603 is fabricated in largely the same manner as
is the plate 1403 in FIG. 14A-FIG. 14C, using the same types of
techniques and materials. Thus, the plate 1603 comprises a first,
or "top", layer 1612 and a second, or "bottom" layer 1613
constructed from a plastic such as COC, and the first layer 1612 is
approximately three times as thick as the first layer 1613--e.g.,
300 .mu.m to 100 .mu.m thick. The microfluidic channels 1625 are
fabricated in the interior of the body structure 1600 and, as is
best shown in FIG. 16B, are formed at the interface 1628 between
the first and second layers 1612, 1613. Thus, unlike in
conventional practice where microfluidic channels typically are
fabricated in the middle of the body structure, the microfluidic
channels 1625 are fabricated toward the bottom of the body
structure 1600. The first layer 1612 defines an upper portion 1630
(only one indicated) for each of the ports (not shown) and the
microfluidic channels 1625. The second layer 1613 defines the
terminus (not shown) for each of the ports and a lower portion, or
floor, 1633 (only one indicated) of the microfluidic channels 1625.
Although not shown, the body structure 1600 also includes detection
windows as described for the alternative embodiments disclosed
above.
[0121] The heating element 1609 is also fabricated and employed
similarly to the heating element 1409 in FIG. 14A-FIG. 14C. The
heating element 1609 is formed on the plate 1603 and permits a
portion of the microfluidic PCR circuit 1606 to be selectively
heated. The heating element 1609 will typically employ a resistive
heating, e.g., by application of a voltage applied across the
heating element 1609 at the contacts 1610 to generate a current.
The heating element 1609 can be formed on the plate 1603 using any
suitable technique known to the art, such as physical vapor
deposition.
[0122] The heating element 1609 and the thermal element 1650
establish a temperature gradient through the first layer 1612.
Isothermal lines 1652 (only one indicated), shown in broken lines,
illustrate the conduction of heat generated by the heating element
1609 through the first layer 1612 in the presence of the
temperature gradient. The material of the first layer 1612 and the
temperature gradient dampen the conduction to produce the profile
presented. Note that the isothermal lines 1652 are nearly flat at
the microfluidic channels 1625, which is desirable so that the
microfluidic channels 1652 can heat uniformly. This is one
desirable consequence of fabricating the microfluidic channels 1625
toward the bottom of the body structure 1600. Note that, even in
the presence of completely flat isothermal lines 1652, the
microfluidic channels 1625 will experience 4 C temperature
variations within due to Taylor-Ari-like behavior. These heating
principles apply equally to those embodiments disclosed in FIG.
14A-FIG. 14C and FIG. 15A-FIG. 15C.
[0123] Note that the various aspects of the disclosed embodiment
are but various means by which the associated functionalities may
be implemented. For instance, in each of the embodiments shown in
FIG. 14A-FIG. 14C and FIG. 15A-FIG. 15C, the microfluidic channels
therein are but two different means for interconnecting the ports
of the microfluidic PCR circuit. Other means may instead comprise
channels formed in the bottom layer, for instance. Also: [0124]
other embodiments may vary the layout of the microfluidic channels
that are selectively heated by the heating elements; [0125]
alternative embodiments may also employ means for detecting the
fluorescence emanating from the microfluidic PCR circuit other than
the disclosed detection windows, where fluorescent monitoring is
employed; [0126] alternative embodiments may alternatives to the
ports shown for loading PCR components and for imparting the
electrokinetic force; and [0127] means for selectively heating a
portion of the microfluidic PCR circuit. Still other alternative
embodiments may employ other, alternative means.
[0128] Thus, that aspect of the invention presented in FIG.
14A-FIG. 16 presents a number of advantages relative to
conventional practice. For instance, in some embodiments, it
presents a disposable chip platform for research and/or diagnostics
that can be located near the sample source and preparation can be
manual or automated. It is furthermore compatible with a wide array
of assays and tests such as gene expression, multiplexed assays,
low sample concentration (if throughput is not important) and
isothermal amplification. Note, however, that not all embodiments
will necessarily exhibit all such advantages and that those in the
art may appreciate other advantages not set forth.
[0129] This concludes the detailed description. The particular
embodiments disclosed above are illustrative only, as the invention
may be modified and practiced in different but equivalent manners
apparent to those skilled in the art having the benefit of the
teachings herein. Furthermore, no limitations are intended to the
details of construction or design herein shown, other than as
described in the claims below. It is therefore evident that the
particular embodiments disclosed above may be altered or modified
and all such variations are considered within the scope and spirit
of the invention. Accordingly, the protection sought herein is as
set forth in the claims below.
* * * * *