U.S. patent application number 08/761063 was filed with the patent office on 2001-12-27 for devices and method for using centripetal acceleration to drive fluid movement in a microfluidics system with on-board informatics.
Invention is credited to COREY, GEORGE D., KIEFFER-HIGGINS, STEPHEN G., MIAN, ALEC.
Application Number | 20010055812 08/761063 |
Document ID | / |
Family ID | 26697562 |
Filed Date | 2001-12-27 |
United States Patent
Application |
20010055812 |
Kind Code |
A1 |
MIAN, ALEC ; et al. |
December 27, 2001 |
DEVICES AND METHOD FOR USING CENTRIPETAL ACCELERATION TO DRIVE
FLUID MOVEMENT IN A MICROFLUIDICS SYSTEM WITH ON-BOARD
INFORMATICS
Abstract
This invention relates to methods and apparatus for performing
microanalytic and microsynthetic analyses and procedures. The
invention provides a microsystem platform and a micromanipulation
device for manipulating the platform that utilizes the centripetal
force resulting from rotation of the platform to motivate fluid
movement through microchannels. The microsystem platforms of the
invention are also provided having system informatics and data
acquisition, analysis and storage and retrieval informatics encoded
on the surface of the disk opposite to the surface containing the
fluidic components. Methods specific for the apparatus of the
invention for performing any of a wide variety of microanalytical
or microsynthetic processes are provided.
Inventors: |
MIAN, ALEC; (CAMBRIDGE,
MA) ; KIEFFER-HIGGINS, STEPHEN G.; (DORCHESTER,
MA) ; COREY, GEORGE D.; (NEWTON, MA) |
Correspondence
Address: |
MCDONNELL BOEHNEN HULBERT & BERGHOFF LTD
300 SOUTH WACKER DRIVE
CHICAGO
IL
60606
|
Family ID: |
26697562 |
Appl. No.: |
08/761063 |
Filed: |
December 5, 1996 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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60008215 |
Dec 5, 1995 |
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60008267 |
Dec 6, 1995 |
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60008819 |
Dec 18, 1995 |
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60023756 |
Aug 12, 1996 |
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Current U.S.
Class: |
436/45 ; 422/64;
422/67; 422/72 |
Current CPC
Class: |
B01J 2219/00783
20130101; B01L 3/0268 20130101; B01J 19/0093 20130101; B01L 3/5027
20130101; B01L 3/502715 20130101; F15C 5/00 20130101; G01N
2035/00782 20130101; B01L 2400/0655 20130101; G01N 21/07 20130101;
B29C 59/14 20130101; B01L 2400/0409 20130101; B01L 2400/0688
20130101; G01N 30/20 20130101; B01F 25/31 20220101; B01F 33/30
20220101; G01N 35/00732 20130101; B01L 3/5025 20130101; B01L
2300/0867 20130101; B01F 35/71805 20220101; B01F 2101/23 20220101;
B01J 2219/00831 20130101; B01L 2300/0654 20130101; G01N 35/00069
20130101; B01J 2219/00828 20130101; B01L 2300/087 20130101; Y10T
436/111666 20150115; G01N 30/6095 20130101; B01J 2219/00826
20130101; B01L 2300/0864 20130101; F15C 1/005 20130101; B01J
2219/00891 20130101; B01L 3/502738 20130101; B01F 35/71725
20220101; B01L 2300/0645 20130101; B01L 2200/0621 20130101; B01L
2300/1861 20130101; G01N 35/00871 20130101; B01L 3/50273 20130101;
B01L 2300/1822 20130101; B01J 2219/00995 20130101; B01L 2300/1827
20130101; B01L 2400/0406 20130101; B01L 2400/0421 20130101; B01L
2300/0887 20130101; G01N 2030/326 20130101; B01L 2300/0806
20130101; G01N 27/44704 20130101; B01J 2219/00833 20130101; B01L
2200/0605 20130101; B01J 2219/0097 20130101; B01L 2200/0668
20130101 |
Class at
Publication: |
436/45 ; 422/64;
422/67; 422/72 |
International
Class: |
B01L 003/02 |
Claims
What is claimed is:
1. A centripetally-motivated fluid micromanipulation apparatus that
is a combination of a microsystem platform, comprising a substrate
having a first flat, planar surface and a second flat, planar
surface opposite thereto, wherein the first surface comprises a
multiplicity of microchannels embedded therein and a sample input
means, wherein the sample input means and the microchannels are
connected and in fluidic contact, and wherein the second flat,
planar surface opposite to the first flat planar surface of the
platform is encoded with an eletromagnetically-readable instruction
set for controlling rotational speed, duration, or direction of the
platform, and a micromanipulation device, comprising a base, a
rotating means, a power supply and user interface and operations
controlling means, wherein the rotating means is operatively linked
to the microsystem platform and in rotational contact therewith
wherein a volume of a fluid within the microchannels of the
platform is moved through said microchannels by centripetal force
arising from rotational motion of the platform for a time and a
rotational velocity sufficient to move the fluid through the
microchannels.
2. A centripetally-motivated fluid micromanipulation apparatus that
is a combination of a microsystem platform, comprising a substrate
having a first flat, planar surface and a second flat, planar
surface opposite thereto, wherein the first surface comprises a
multiplicity of microchannels, a reaction chamber and a reagent
reservoir embedded therein, and a sample input means, wherein the
sample input means, the microchannels, the reaction chamber and the
reagent reservoir are connected and in fluidic contact, and wherein
the second flat, planar surface opposite to the first flat planar
surface of the platform is encoded with an
eletromagnetically-readable instruction set for controlling
rotational speed, duration, or direction of the platform, and a
micromanipulation device, comprising a base, a rotating means, a
power supply and user interface and operations controlling means,
wherein the rotating means is operatively linked to the microsystem
platform and in rotational contact therewith wherein a volume of a
fluid within the microchannels of the platform is moved through
said microchannels by centripetal force arising from rotational
motion of the platform for a time and a rotational velocity
sufficient to move the fluid through the microchannels.
3. A centripetally-motivated fluid micromanipulation apparatus that
is a combination of a microsystem platform, comprising a substrate
having a first flat, planar surface and a second flat, planar
surface opposite thereto, wherein the first surface comprises a
multiplicity of microchannels, a reaction chamber and a reagent
reservoir embedded therein and a sample input means, wherein the
sample input means, the microchannels, the reaction chamber and the
reagent reservoir are connected and in fluidic contact, and wherein
fluid motion from the microchannels, the reaction chamber and the
reagent reservoir is controlled by microvalves connected thereto,
and wherein the second flat, planar surface opposite to the first
flat planar surface of the platform is encoded with an
eletromagnetically-readable instruction set for controlling
rotational speed, duration, or direction of the platform, and a
micromanipulation device, comprising a base, a rotating means, a
power supply and user interface and operations controlling means,
wherein the rotating means is operatively linked to the microsystem
platform and in rotational contact therewith wherein a volume of a
fluid within the microchannels of the platform is moved through
said microchannels by centripetal force arising from rotational
motion of the platform for a time and a rotational velocity
sufficient to move the fluid through the microchannels.
4. The apparatus of claim 1, wherein the first flat, planar surface
and second flat, planar surface of the microsystem platform form a
disk.
5. The apparatus of claim 1, wherein the first and second flat,
planar surfaces of the microsystem platform define a centrally
located aperture that is engaed to a spindle on the
micromanipulation device, whereby rotational motion of the spindle
is translated into rotational motion of the microsystem
platform.
6. The apparatus of claim 1, wherein the microsystem platform is
constructed of an material selected from the group consisting of an
organic material, an inorganic material, a crystalline material and
an amorphous material.
7. The apparatus of claim 6, wherein the microsystem platform is
further comprises a material selected from the group consisting of
silicon, silica, quartz, a ceramic, a metal or a plastic.
8. The apparatus of claim 4, wherein the microsystem platform is a
disk having a radius of about 1 to 25 cm.
9. The apparatus of claim 1, wherein the microsystem platform has a
thickness of about 0.1 to 100 mm, and wherein the cross-sectional
dimension of the the microchannels between the first and second
flat, planar surfaces is less than 500 .mu.m and from 1 to 90
percent of said cross-sectional dimension of the platform.
10. The apparatus of claim 10, wherein the microsystem platform has
a thickness of about 0.1 to 100 mm, and wherein the cross-sectional
dimension of the reaction chamber or the reagent reservoir between
the first and second flat, planar surfaces is from 1 to 75 percent
of said thickness of the platform.
11. The apparatus of claim 1, wherein the microsystem platform is
rotated at a rotational velocity of about 1 to about 30,000
rpm.
12. The apparatus of claim 1, wherein the microsystem platform
comprises a multiplicity of sample input means, reagent reservoirs,
reaction chambers and microchannels connected thereto and embedded
therein, wherein a volume of a fluid containing a sample is moved
on the disk from the sample input means into and out from the
reaction chambers, and a volume of a reagent is moved from the
reagent reservoirs into and out from the reaction chambers, by
centripetal force arising from rotation of the microsystem
platform.
13. The apparatus of claim 1, wherein the microsystem platform
comprises a detecting chamber embedded within the first planar
surface of the platform and connected to a microchannel, and
wherein the micromanipulation device comprises a detecting means,
whereby the detecting chamber is assayed by the detecting means to
yield an assay output.
14. The apparatus of claim 13, wherein the detecting means on the
device is brought into alignment with the detection chamber on the
platform by rotational motion of the microsystem platform.
15. The apparatus of claim 13, wherein the detecting means
comprises a light source and a photodetector.
16. The apparatus of claim 15, wherein the light source illuminates
the detection chamber wherein light is reflected transversely
through the detection chamber and detected by a photodetector.
17. The apparatus of claim 16, wherein the detection chamber on the
microsystem platform is optically transparent.
18. The apparatus of claim 14, wherein the detecting means is
stationary and samples the detection chamber at a frequency equal
to the frequency of rotation of the platform or multiples
thereof.
19. The apparatus of claim 18, wherein the detecting means
comprises a stroboscopic light source.
20. The apparatus of claim 19, wherein the detecting means is a
monochromatic light source.
21. The apparatus of claim 13, wherein the detecting means detects
absorbance, fluorescence, chemiluminescence, light-scattering or
radioactivity.
22. The apparatus of claim 1, further comprising a temperature
controlling element in thermal contact with the microplatform.
23. The apparatus of claim 1 further comprising a thermal detecting
unit in thermal contact with the microplatform.
24. The apparatus of claim 1, wherein the microsystem platform
comprises a filtering means linked to a microchannel.
25. The apparatus of claim 1, wherein the microsystem platform
comprises a mixing element connected to a reaction reservoir or a
microchannel.
26. The apparatus of claim 25, wherein the microsystem platform
comprises a static mixer comprising a textured surface of a
reaction reservoir or microchannel.
27. The apparatus of claim 3, wherein the microsystem platform
comprises a multiplicity of microvalves operatively linked to the
microchannels, reaction reservoirs, reagent chambers, sample input
means and sample outflow ports, wherein fluid flow on the
microsystem platform is controlled by opening and closing the
microvalves.
28. The apparatus of claim 27, wherein the microsystem platform
comprises a capillary microvalve connected to a reaction chamber or
microchannel.
29. The apparatus of claim 1, wherein the microsystem platform
comprises a multiplicity of air channels, exhaust air ports and air
displacement channels.
30. The apparatus of claim 1, wherein the rotating means of the
device is an electric motor.
31. The apparatus of claim 1, wherein the device comprises a
rotational motion controlling means for controlling the rotational
acceleration and velocity of the microsystem platform.
32. The apparatus of claim 1, wherein the device includes a user
interface comprising a monitor and an alphanumeric keypad.
33. The apparatus of claim 1, wherein the device comprises an
alternating current or direct current power supply.
34. The apparatus of claim 1, wherein the microsystem platform
includes an electrical connector in contact with an electric
connector connected to the micromanipulation device.
35. The apparatus of claim 1, wherein the device comprises a
microprocessor and a memory connected thereto.
36. The apparatus of claim 1, wherein the device comprises a
reading or writing means.
37. The apparatus of claim 36, wherein the reading means is a
compact disk laser reading means.
38. The apparatus of claim 36, wherein the writing means is a
compact disk writing means.
39. The apparatus of claim 1, wherein the second flat, planar
surface of the microsystem platform is encoded with machine
language instructions.
40. The apparatus of claim 39, wherein the machine language
instructions control operation of the platform, data acquisition or
analysis from the platform, data storage and retrieval,
communication to other devices, or direct apparatus performance
diagnostics.
41. The apparatus of claim 1, wherein the micromanipulation device
includes a read-only memory or permanent storage memory that is
encoded with machine language instructions.
42. The apparatus of claim 41, wherein the machine language
instructions control operation of the platform, data acquisition or
analysis from the platform, data storage and retrieval,
communication to other devices, or direct apparatus performance
diagnostics.
43. The apparatus of claim 1 further comprising first and second
microsystem platforms in contact with one another across one planar
surface of each microsystem platform.
44. The apparatus of claim 1, wherein the microsystem platform is
rotated at a velocity of from about 1 to about 30,000 rpm.
45. The apparatus of claim 1, wherein fluid on the microsystem
platform is moved within the microchannels of the platform with a
fluid velocity of from about O.lcm/sec to about 1000 cm/sec.
46. An apparatus according to claim 1 for measuring the amount of
an analyte in a biological sample, wherein the microsystem platform
comprises a multiplicity of sample inlet ports, arranged
concentrically around the center of the platform, wherein each of
the sample inlet ports is operatively linked to a multiplicity of
microchannels arrayed radially away from the center of the
platform, said microchannels being operatively linked to a
multiplicity of reagent reservoirs containing a reagent specific
for the analyte to be measured, wherein release of the reagent from
each of the reservoirs is controlled by a microvalve, and wherein
the multiplicity of microchannels is also operatively linked to a
multiplicity of analyte detection chambers arranged peripherally
around the outer edge of the microplatform, wherein movement of the
biological sample from the sample inlet port and through the
microchannel, and movement of the reagent from the reagent
reservoir and through the microchannel, is motivated by centripetal
force generated by rotational motion of the microsystem
platform.
47. The apparatus of claim 46 wherein the biological sample is
blood, urine, cerebrospinal fluid, plasma, saliva, semen, or
amniotic fluid.
48. The apparatus of claim 46 wherein the analyte detection
chambers are opticallytransparent.
49. The apparatus of claim 46 further comprising electrical wiring
between each of the microvalves and an electrical controller unit,
wherein valve opening and closing is controlled by electrical
signals from the controller unit.
50. The apparatus of claim 46 wherein the microchannels are arrayed
linearly from the center of the platform to the periphery.
51. The apparatus of claim 46 wherein the mirochannels are arrayed
concentrically from the center of the platform to the
periphery.
52. The apparatus of claim 46 wherein the micromanipulation device
comprises a detecting means.
53. The apparatus of claim 46 wherein the detecting means is
stationary and samples the analyte detection chamber output at a
frequency equal to the frequency of rotation of the platform or
multiples thereof.
54. The apparatus of claim 46 wherein the detecting means comprises
a stroboscopic light source.
55. The apparatus of claim 46, wherein the detecting means is a
monochromatic light source.
56. The apparatus of claim 46, wherein the detecting means detects
fluorescence, chemiluminescence, light-scattering or
radioactivity.
57. A method for measuring the amount of an analyte in a biological
sample, the method comprising the steps of applying the biological
sample to a sample inlet port of the Microsystems platform of claim
46, placing the Microsystems platform in a micromanipulation
device, providing rotational motion to the Microsystems platform
for a time and at a velocity sufficient to motivate the biological
sample containing the analyte from the sample inlet port through
the microchannel, opening each of the microvalves controlling
release of the reagent from the reagent reservoirs by generating a
signal from the controlling unit, at a time and for a duration
whereby the reagent moves into the microchannel and is mixed with
the biological sample, observing the mixture of the biological
sample and the reagent in the analyte detection chamber, whereby a
detector comprising the device detects a signal proportional to the
amount of the analyte present in the biological sample, and
recording the measurement of the amount of the analyte in the
biological sample.
58. The method of claim 57, wherein the biological sample is blood,
urine, cerebrospinal fluid, plasma, saliva, semen, or amniotic
fluid.
59. The method of claim 57, wherein the measurment of the amount of
analyte in the sample is recorded in the device, on the
microplatform, or both.
60. The method of claim 57, wherein the analyte detection chamber
on the microsystem platform is optically transparent.
61. The method of claim 57, wherein the signal detected is the
analyte detection chamber is detected at a frequency equal to the
frequency of rotation of the platform ot multiplesd thereof.
62. The method of claim 57, wherein the signal detected is a
monochromatic light signal.
63. The method of claim 62, wherein the signal detected is a
fluorescence signal, a chemiluminescence signal or a calorimetric
signal.
64. An apparatus according to claim 1 for detecting gas or
particles comprising an environmental sample, wherein the
microsystem platform comprises a multiplicity of sample inlet
ports, arranged concentrically around the center of the platform,
wherein the sample ports comprise an air intake vent and connecting
funnel channel, wherein each of the sample inlet ports is
operatively linked to a multiplicity of microchannels arrayed
radially away from the center of the platform, said microchannels
being operatively linked to a multiplicity of reagent reservoirs
containing a reagent specific for the gas or particles to be
detected, wherein release of the reagent from each of the
reservoirs is controlled by a microvalve, wherein the microvalves
are in electrical contact with a controller unit, and wherein the
multiplicity of microchannels is also operatively linked to a
multiplicity of gas or particle detectors arranged peripherally
around the outer edge of the microplatform, wherein movement of the
environmental sample from the sample inlet port and through the
microchannel, and movement of the reagent from the reagent
reservoir and through the microchannel, is motivated by centripetal
force generated by rotational motion of the microsystem
platform.
65. The apparatus of claim 64, wherein the environmental sample
comprises air, water, soil, or disrupted biological matter.
66. The apparatus of claim 64, wherein the detector comprises a gas
sensor chip.
67. The apparatus of claim 64, wherein the detector comprises an
optically-transparent particle collection chamber.
68. The apparatus of claim 67, wherein the detector also comprises
a coherent light source.
69. The apparatus of claim 68, wherein the particles are detected
by light scattering.
70. The apparatus of claim 64, wherein the detector comprises a
particle collection chamber operatively connected by a microchannel
to a reagent reservoir comprising a reagent for chemically testing
the particles.
71. A method for detecting gas or particles comprising an
environmental sample, wherein the method comprises the steps of
contacting the environmental sample with a sample inlet port of the
microsystems platform of claim 64, placing the Microsystems
platform in a micromanipulation device, providing rotational motion
to the Microsystems platform for a time and at a velocity
sufficient to motivate the gaseous or pariculate environmental
sample from the sample inlet port through the microchannel, opening
each of the microvalves controlling release of the reagent from the
reagent reservoirs by generating a signal from the controlling
unit, at a time and for a duration whereby the reagent moves into
the microchannel and is mixed with the environmental sample,
detecting the mixture of the environmental sample and the reagent
or the gaseous or particulate component of the environmental sample
directly in the gas or particle detection chamber, whereby the
detector detects a signal proportional to the amount of the gas or
particulate present in the environmental sample, and recording the
measurement of the amount of the gas or particulate in the
environmental sample.
72. The method of claim 71, wherein the environmental sample
comprises air, water, soil, or disrupted biological matter.
73. The method of claim 71, wherein a gas is detected by a gas
sensor chip.
74. The method of claim 71, wherein a particle is detected in an
optically-transparent particle collection chamber.
75. The method of claim 71, wherein the particle is detected by
coherent light scattering.
76. The method of claim 71, wherein a particle is detected in a
particle collection chamber operatively connected by a microchannel
to a reagent reservoir comprising a reagent for chemically testing
the particles, wherein the particulate is mixed and reacted with
the reagent in the microchannel after release of the reagent by
activation of a micvrovalve and rotation of the platform.
77. An apparatus according to claim 1, wherein the microsystem
platform is comprised of a stacked layer of thin film disks
comprising microchannels, sample inlet ports, reactant reservoirs,
reaction chambers and sample outlet ports, wherein each of the
stacked film disks is self-contained and provides a platform of the
invention.
78. An apparatus of claim 1 for determining a hematocrit value from
a blood sample, wherein the microsystem platform is comprised of a
radial array of microchannels having a diameter of about 100 .mu.m
wherein the microchannels are treated with heparin to prevent
coagulation, and wherein the microchannels are open at one end
proximal to the center of ths disk, the apparatus also comprising a
coherent light source and a recording means operatively connected
thereto comprising the micromanipulation device, and wherein
movement of the blood sample through the microchannel is motivated
by centripetal force generated by rotational motion of the
microsystem platform.
79. An apparatus of claim 78, wherein the coherent light source is
mounted on a movable track arrayed radially from the center of
rotation of the platform.
80. An apparatus of claim 78 further comprising a Clarke electrode
operatively connected to each of the microchannels of the
microsystem platform, wherein the electrode is in contact with a
blood sample within the microchannel.
81. An apparatus of claim 78 further comprising a Severing
electrode operatively connected to each of the microchannels of the
microsystem platform, wherein the electrode is in contact with a
blood sample within the microchannel.
82. A method for determining a hematocrit value from a blood
sample, the method comprising the steps of applying the blood
sample to the proximal end of a microchannel of the Microsystems
platform of claim 78, placing the Microsystems platform in a
micromanipulation device, providing rotational motion to the
Microsystems platform for a time and at a velocity sufficient to
motivate the red blood cells comprising the blood sample to move
along the extent of the microchannel, scanning the microchannel
along its length with the coherent light source, detecting a change
in light scatter at a position along the microchannel that defines
a boundary between the red blood cells and blood plasma, recording
the position of the boundary for each microchannel, and comparing
the position of this boundary for each microchannel with a standard
curve relating hematocrit values to the position of the boundary,
and recording the hematocrit determined thereby.
83. A method for determining a blood oxygenation value from a blood
sample, the method comprising the steps of applying the blood
sample to the proximal end of a microchannel of the Microsystems
platform of claim 80, placing the Microsystems platform in a
micromanipulation device, providing rotational motion to the
Microsystems platform for a time and at a velocity sufficient to
motivate the blood sample to come in contact with the Clarke
electrode connected to the microchannel, detecting a blood
oxygenation value for he blood sample, and recording the blood
oxygenation value determined thereby.
84. An apparatus of claim 1, wherein the microsystem platform
comprises a multiplicity of sample input means, reactant
reservoirs, reaction chambers, microvalves and microchannels
operatively connected thereto and embedded therein, wherein the
microsystem platform is comprised of a stacked array of layers
wherein a first layer comprises the sample input means, reactant
reservoirs, reaction chambers and microchannels, a second layer
comprises the microvalves, a third layer comprises electrical
connections from the microvalves to an electrical controller unit,
and the fourth layer comprises a sealing layer, wherein the layers
are stacked on top of the solid substrate of the Microsystems
platform and fused thereto.
Description
[0001] This application claims priority to U.S. Provisional
Applications Ser. No. 60/008,215, filed Dec. 5, 1995, No.
60/008,267, filed Dec. 6, 1995, No. 60/008,819, filed Dec. 18,
1995, and No. 60/023,756, filed Aug. 12, 1996, the disclosures of
each of which are explicitly incorporated by reference herein.
BACKGROUND OF THE INVENTION
[0002] 1. Field of the Invention
[0003] This invention relates to methods and apparatus for
performing microanalytic and microsynthetic analyses and
procedures. In particular, the invention relates to
microminiaturization of genetic, biochemical and chemical processes
related to analysis, synthesis and purification. Specifically, the
invention provides a microsystem platform and a micromanipulation
device to manipulate the platform by rotation, thereby utilizing
the centripetal forces resulting from rotation of the platform to
motivate fluid movement through microchannels embedded in the
microplatform. The microsystem platforms of the invention are also
provided having system informatics and data acquisition, analysis
and storage and retrieval informatics emcoded on the surface of the
disk opposite to the surface containing the fluidic components.
Methods for performing any of a wide variety of microanalytical or
microsynthetic processes using the Microsystems apparatus of the
invention are also provided.
[0004] 2. Background of the Related Art
[0005] In the field of medical, biological and chemical assays, a
mechanical and automated fluid handling systems and instruments
produced to operate on a macroscopic (i.e., milliliters and
milligrams) scale are known in the prior art.
[0006] U.S. Pat. No. 4, 279,862, issued Jul. 21, 1981 to
Bertaudiere et al. Disclose a centrifugal photometric analyzer.
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analytic measurement of free ligands.
[0008] U.S. Pat. No. 4,515,889, issued May 7, 1985 to Klose et al.
teach automated mixing and incubating reagents to perform
analytical determinations.
[0009] U.S. Pat. No. 4,676,952, issued Jun. 30, 1987 to Edelmann et
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discloses immunoassay in biological fluids.
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al. discloses a centrifuge rotor for analyzing solids in a
liquid.
[0012] U.S. Pat. No. 5, 171,695, issued Dec. 15, 1992 to Ekins
discloses determination of analyte concentration using two labeling
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[0014] U.S. Pat. No. 5,242,803, issued Sep. 7, 1993 to Burtis et
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disclose cuvette filling in a centrifuge rotor.
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teach preparation of lyophilized reagent spheres for use in
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[0017] U.S. Pat. No. 5,432,009, issued Jul. 11, 1995 to Ekins
discloses a method for analyzing analytes in a liquid.
[0018] U.S. Pat. No. 5,472,603 issued Dec. 5, 1995 to Schembri
discloses an analytical rotor for performing fluid separations.
[0019] Anderson, 1968, Anal. Biochem. 28: 545-562 teach a multiple
cuvette rotor for cell fractionation.
[0020] Renoe et al., Clin. Chem. 20: 955-960 teach a "minidisc"
module for a centrifugal* analyzer.
[0021] Burtis et al., Clin. Chem. 20: 932-941 teach a method for
dynamic introduction of liquids into a centrifugal analyzer.
[0022] Fritsche et al. 1975, Clin. Biochem. 8: 240-246 teach
enzymatic analysis of blood sugar levels using a centrifugal
analyzer.
[0023] Burtis et al., Clin. Chem. 21: 1225-1233 a multipurpose
optical system for use with a centrifugal analyzer.
[0024] Hadjiioannou et al. 1976, Clin. Chem, 22: 802-805 teach
automated enzymatic ethanol determination in biological fluids
using a miniature centrifugal analyzer.
[0025] Lee et al., 1978, Clin. Chem. 24: 1361-1365 teach an
automated blood fractionation system.
[0026] Cho et al., 1982, Clin. Chem. 28: 1965-1961 teach a
multichannel electrochemical centrifugal analyzer.
[0027] Bertrand et al., 1982, Clinica Chimica Acta 119: 275-284
teach automated determination of serum 5'-nucleotidase using a
centrifugal analyzer.
[0028] Schembri et al., 1992, Clin. Chem. 38: 1665-1670 teach a
portable whole blood analyzer.
[0029] Walters et al., 1995, Basic Medical Laboratory Technologies,
3.sup.rd ed., Delmar Publishers: Boston teach a variety of
automated medical laboratory analytic techniques.
[0030] Recently, microanalytical devices for performing select
reaction pathways have been developed.
[0031] U.S. Pat. No. 5,006,749, issued Apr. 9, 1991 to White
disclose methods and apparatus for using ultrasonic energy to move
microminiature elements.
[0032] U.S. Pat. No. 5,252,294, issued Oct. 12, 1993 to Kroy et al.
teach a micromechanical structure for performing certain chemical
microanalyses.
[0033] U.S. Pat. No. 5,304,487, issued Apr. 19, 1994 to Wilding et
al. teach fluid handling on microscale analytical devices.
[0034] U.S. Pat. No. 5,368,704 issued Nov. 29, 1994 to Madou et al.
teach microelectrochemical valves.
[0035] International Application, Publication No. WO93/22053,
published Nov. 11, 1993 to University of Pennsylvania disclose
microfabricated detection structures.
[0036] International Application, Publication No. WO93/22058,
published Nov. 11, 1993 to University of Pennsylvania disclose
microfabricated structures for performing polynucleotide
amplification.
[0037] Columbus et al., 1987, Clin. Chem. 33: 1531-1537 teach fluid
management of biological fluids.
[0038] Ekins et al., 1992, Ann. Biol. Clin. 50: 337-353 teach a
multianalytical microspot immunoassay.
[0039] Wilding et al., 1994, Clin. Chem. 40: 43-47 disclose
manipulation of fluids on straight channels micromachined into
silicon.
[0040] The prior art discloses synthetic microchips for performing
microanalytic and microsynthetic methods. One drawback in the prior
art microanalytical methods and apparati has been the difficulty in
designing systems for moving fluids on the microchips through
channels and reservoirs having diameters in the 10-100 .mu.m range.
Also, the devices disclosed in the prior art have required separate
data analysis and storage media to be integrated into an instrument
for performing the microanalysis, thereby unnecessarily increasing
the complexity of the instruments designed to use the microchips,
without a concomitant increase in the flexibility or usefulness of
these machines.
[0041] There remains a need for a simple, flexible, reliable, rapid
and economical microanalytic and microsynthetic reaction platform
for performing biological, biochemical and chemical analyses and
syntheses that can move fluids within the structural components of
a Microsystems platform. Such a platform should be able to move
nanoliter-to microliter amounts of fluid, including reagents and
reactants, at rapid rates to effect the proper mixing of reaction
components, removal of reaction side products, and isolation of
desired reaction products and intermediates. There is also a need
for an instrument for manipulating the microsystem platform to
effect fluid movement, thermal control, reagent mixing, reactant
detection, data acquisition, data analysis and data and systems
interface with a user. Such devices are needed, in alternative
embodiments, that are sophisticated (for professional, e.g.,
hospital, use), easy to use (for consumer, e.g., at-home
monitoring, uses) and portable (for field, e.g., environmental
testing, use). Such devices also advantageously combine "wet"
chemistry capabilities with information processing, storing and
manipulating ability.
SUMMARY OF THE INVENTION
[0042] This invention provides an integrated,
microanalytical/microsynthet- ic system for performing a wide
variety of biological, biochemical and chemical analyses on a
microminiature scale. The invention provides apparatus and methods
for performing such microscale processes on a microplatform,
whereby fluid is moved on the platform in defined channels
motivated by centripetal force arising from rotation of the
platform.
[0043] In one aspect of the invention is provided a
microanalytic/microsynthetic system comprising a combination of two
elements. The first element is a microplatform that is a rotatable
structure, most preferably a disk, the disk comprising sample,
inlet ports, fluid microchannels, reagent reservoirs, reaction
chambers, detection chambers and sample outlet ports. The disk is
rotated at speeds from about 1-30,000 rpm for generating
centripetal acceleration that enables fluid movement. The disks of
the invention also preferably comprise fluid inlet ports, air
outlet ports and air displacement channels. The fluid inlet ports
allow samples to enter the disk for processing and/or analysis. The
air outlet ports and in particular the air displacement ports
provide a means for fluids to displace air, thus ensuring
uninhibited movement of fluids on the disk. Specific sites on the
disk also preferably comprise elements that allow fluids to be
analyzed, including thermal sources, light, particularly
monochromatic light, sources, and acoustic sources, as well as
detectors for each of these effectors. Alternatively, some or all
of these elements can be contained on a second disk that is placed
in optical or direct physical contact with the first.
[0044] The second element of the invention is a micromanipulation
device that is a disk player/ reader device that controls the
function of the disk. This device comprises mechanisms and motors
that enable the disk to be loaded and spun. In addition, the device
provides means for a user to operate the Microsystems in the disk
and access and analyze data, preferably using a keypad and computer
display.
[0045] The invention provides methods and apparatus for the
manipulation of samples consisting of fluids, cells and/or
particles containing or comprising an analyte. The microplatform
disks of the invention comprise Microsystems composed of, but no
restricted to, sample input ports, microchannels, chambers, valves,
heaters, chillers, electrophoretic and detection systems upon a
disk. Movement of the sample is facilitated by the judicious
incorporation of air holes and air displacement channels that allow
air to be displaced but prevent fluid and/or particle loss upon
acceleration.
[0046] A preferred embodiment of the disk of the invention
incorporates micromachined mechanical, optical, and fluidic control
structures (or "systems") on a substrate that is preferably made
from plastic, silica, quartz, metal or ceramic. These structures
are constructed on a submillimeter scale by photolithography,
etching, stamping or other appropriate means.
[0047] Sample movement is controlled by centripetal or linear
acceleration and the selective activation of valves on the
disk.
[0048] In preferred embodiments of the invention, a section of the
disk is dedicated to information processing by standard read/write
digital technology. Data resulting from processing and analysis is
recorded on the disk surface using digital recording means. In
additional preferred embodiments, read-only memory (ROM) on the
disk comprises disk information, instructions, experimental
protocols, data analysis and statistical methods that can be
accessed by a user operating the disk.
[0049] The process of fluid transport by centripetal acceleration
and the micromanipulation device that enables such processing have
a-wide range of applications in the synthesis and analysis of
fluids and detection of analytes comprising a fluid, particularly a
biological fluid. Chemical and biochemical reactions are performed
in a reaction chamber on the disk by the selective opening of
contiguous reagent chambers by means of capillary, mechanical or
thermal valve mechanisms. The contents of those chambers are
delivered to the reaction chamber with the application of
centripetal acceleration. The product of the reaction can then be
used as a reagent for subsequent reactions, interrogated by
detection systems or recovered.
[0050] Certain preferred embodiments of the apparatus of the
invention are described in greater detail in the following sections
of this application and in the drawings.
BRIEF DESCRIPTION OF THE DRAWINGS
[0051] FIGS. 1A (top view) and 1B (side view) illustrate the
arrangement of reservoirs (12,14,18,20), valves
(13,15,17,19,21,23,25) reaction chambers (16,22,24), ports (11,32)
and air vents (29,33,34,35) in disks comprising the microplatforms
of the invention. FIG. 1C shows the arrangement of a multiplicity
of Microsystems on a disk.
[0052] FIG. 2A is a graph and FIG. 2B is a schematic diagram of the
arrangement of a channel on a disk of the invention as described
with relation to Equation 5.
[0053] FIG. 3A is a graph and FIG. 3B is a schematic diagram of the
arrangement of a channel on a disk of the invention as described
with relation to Equations 12 and 13.
[0054] FIG. 4A is a graph and FIG. 4B is a schematic diagram of the
arrangement of a channel on a disk of the invention as described
with relation to Equation 14.
[0055] FIGS. 5A, 5B and 5C are graphs and FIG. 5D is a schematic
diagram of the arrangement of a channel on a disk of the invention
as described with relation to Equation 15.
[0056] FIG. 6 is a schematic diagram of a piezoelectric stack
microvalve.
[0057] FIG. 7 is a schematic diagram of a pneumatically-activated
microvalve.
[0058] FIG. 8 is a schematic diagram of device to deliver pneumatic
pressure to a revolving disk.
[0059] FIG. 9 is a schematic diagram of a bimetallic
microvalve.
[0060] FIG. 10 is a schematic diagram of a pressure-balanced
microvalve.
[0061] FIG. 11 is a schematic diagram of a polymeric relaxation
microvalve.
[0062] FIGS. 12A and 12B represent two different embodiments of
fluorescence detectors of the invention.
[0063] FIGS. 13A, 13B and 13C are a schematic diagrams of a
multiple loading device for the disk.
[0064] FIGS. 14A through 14F illustrate laser light-activated
CD-ROM capability of the disk of the invention.
[0065] FIG. 15 is a flow diagram of the processor control structure
of a player/reader device of the invention.
[0066] FIG. 16 is a schematic diagram of a transverse spectroscopic
detection chamber.
[0067] FIGS. 17A through 17E are schematic diagrams of the
different structural and functional layers of a disk of the
invention configured for DNA sequencing.
[0068] FIG. 17F is a schematic diagram of basic zones and design
formats for analytic disks.
[0069] FIG. 17G is a schematic diagram of a disk configured as a
home test diagnostic disk.
[0070] FIG. 17H is a schematic diagram of a disk configured as a
simplified immunocapacitance assay.
[0071] FIG. 17I is a schematic diagram of a disk configured as a
gas and particle disk.
[0072] FIG. 17J is a schematic diagram of a hybrid disk comprising
separately-assembled chips.
[0073] FIG. 17K is a schematic diagram of a sample authorizing
disk.
[0074] FIG. 17L is a schematic diagram of a disk configured for
pathological applications.
[0075] FIG. 17M is a schematic diagram of a disk with removable
assay layers.
[0076] FIG. 17N is a schematic diagram of a disk for assaying
aerosols.
[0077] FIG. 17O is a schematic diagram of a disk for flow
cytometry.
[0078] FIG. 17P is a schematic diagram of a disk for microscopy
applications.
[0079] FIG. 17Q is a schematic diagram of a disk for immunoassay
applications.
[0080] FIG. 17R is a schematic diagram of a thin-layer
chromatography disk.
[0081] FIG. 18 is a schematic diagram of a disk configured for
hematocrit determination.
[0082] FIG. 19 is a schematic diagram of a disk configured for
SPLITT fractionation of blood components.
[0083] FIG. 20 is a schematic diagram of a disk configured as a DNA
meltometer.
[0084] FIG. 21 is a schematic diagram of a disk configured for DNA
amplification.
[0085] FIG. 22 is a schematic diagram of a disk configured for
automated restriction enzyme digestion of DNA.
[0086] FIG. 23 is a schematic diagram of a portion of a disk
microsystem configured for DNA synthesis.
[0087] FIG. 23B is a schematic diagram of a disk configured for a
multiplicity of DNA oligonucleotide syntheses.
[0088] FIG. 24 is a schematic diagram of a disk configured for DNA
sequencing.
[0089] FIG. 25 is a schematic diagram of a disk configured for iron
assay.
[0090] FIG. 26 is a schematic diagram of a disk configured for
solid phase reaction.
[0091] FIG. 27 is a schematic diagram of a disk configured for
sample extraction.
[0092] FIG. 28 is a schematic diagram of a disk configured for
capillary electrophoresis.
[0093] FIG. 28 is a schematic diagram of a disk configured for gel
electrophoresis.
[0094] FIG. 29 is a schematic diagram of a transverse optical path
in a microplatform.
[0095] FIG. 30 is a block diagram of process flow in controlling
informatics of the invention.
[0096] FIG. 31 is a more detailed schematic diagram of controlling
informatics of the invention.
[0097] FIG. 32 is a more detailed schematic diagram of controlling
informatics of the invention.
DETAILED DESCRIPTION OF PREFERRED EMBODIMENTS
[0098] This invention provides a microplatform and a
micromanipulation device for performing microanalytical and
microsynthetic assays of biological, chemical, environmental and
industrial samples. For the purposes of this invention, the term
"sample" will be understood to encompass any chemical or
particulate species of interest, either isolated or detected as a
constituent of a more complex mixture, or synthesized from
precursor species. The invention provides a combination of a
microplatform that is a rotatable, analytic/synthetic microvolume
assay platform (collectively referred to herein as a "disk") and a
micromanipulation device for manipulating the platform to achieve
fluid movement on the platform arising from centripetal force on
the platform as result of rotation. The platform of the invention
is preferably and advantageously a circular disk; however, any
platform capable of being rotated to impart centripetal for a fluid
on the platform is intended to fall within the scope of the
invention.
[0099] The microplatforms of the invention (preferably and
hereinafter collectively referred to as "disks"; for the purposes
of this invention, the terms "microplatform", "Microsystems
platform" and "disk" are considered to be interchangeable), are
provided to comprise one or a multiplicity of microsynthetic or
microanalytic systems. Such microsynthetic or microanalytic systems
in turn comprise combinations of related components as described in
further detail herein that are operably interconnected to allow
fluid flow between components upon rotation of the disk. These
components can be fabricated as described below either integral to
the disk or as modules attached to, placed upon, in contact with or
embedded in the disk. The invention also comprises a
micromanipulation device for manipulating the disks of the
invention, wherein the disk is rotated within the device to provide
centripetal force to effect fluid flow on the disk. Accordingly,
the device provides means for rotating the disk at a controlled
rotational velocity, for stopping and starting disk rotation, and
advantageously for changing the direction of rotation of the disk.
Both electromechanical means and control means, as further
described herein, are provided as components of the devices of the
invention. User interface means (such as a keypad and a display)
are also provided.
[0100] The invention provides methods and apparatus for the
manipulation of samples consisting of fluids, cells and/or
particles (generically termed "sample" herein) containing an
analyte of interest. The platforms of the invention consist of
systems comprising sample input ports, microchannels for fluid
flow, reagent reservoirs, mixing chambers, reaction chambers,
optical reading chambers, valves for controlling fluid flow between
components, temperature control elements, separation channels,
electrophoresis channels and electrodes, air outlet ports, sample
outlet ports, product outlet ports, mixing means including
magnetic, acoustic and mechanical mixers, an on-board power supply
such as a battery or electromagnetic generator, liquid and dry
reagents, and other components as described herein or known to the
skilled artisan. The movement of the sample is facilitated by the
judicious incorporation of air holes or air displacement channels
that allow air to be displaced but prevent fluid and/or particle
loss upon acceleration. Preferably, the disk incorporates
microfabricated mechanical, optical, and fluidic control components
on platforms made from,for example, plastic, silica, quartz, metal
or ceramic. For the purposes of this invention, the term
"microfabricated" refers to processes that allow production of
these structures on the sub-millimeter scale. These processes
include but are not restricted to photolithography, etching,
stamping and other means that are familiar to those skilled in the
art.
[0101] Fluid (including reagents, samples and other liquid
components) movement is controlled by centripetal acceleration due
to rotation of the platform, and by the selective activation of
valves controlling the connections between the components of the
Microsystems of the platform. The magnitude of centripetal
acceleration required for fluid to flow at a rate and under a
pressure appropriate for a particular microsystem is determined by
factors including but not limited to the effective radius of the
platform, the position angle of the structures on the platform with
respect to the direction of rotation and the speed of rotation of
the platform.
[0102] Chemical and biochemical reactions are performed in a
reaction chamber by the selective opening of microvalves
controlling access to contiguous reagent reservoirs. Microvalves as
described in more detail below include mechanical, electrical and
thermal valve mechanisms, as well as capillary microvalves wherein
fluid flow is controlled by the relationship between capillary
forces and centripetal forces acting on the fluid. The contents of
the reagent reservoirs, that are connected a reaction chamber
through microchannels controlled by such microvalves, are delivered
to the reaction chamber by the coincident rotation of the
microplatform and opening of the appropriate microvalves. The
amount of reagent delivered to a reaction chamber is controlled by
the speed of rotation and the time during which the valve to the
reagent reservoirs is open. Products of the reaction performed in
the reaction chamber are similarly removed from the reaction
chamber to an analytical array, a second reaction chamber or a
product outlet port by the controlled opening of microvalves in the
reaction chamber.
[0103] Analytical arrays constituting components of the
microplatforms of the invention include detection systems for
detecting, monitoring, quantitating or analyzing reaction course,
products or side-products. Detection systems useful in the
fabrication and use of the microplatforms of the invention include,
but are not limited to, fluorescent, chemiluminescent,
colorimetric, electrochemical and radioactivity detecting means.
Optionally, the detection system can be integral to the platform,
comprise a component of the device manipulating the platform, or
both.
[0104] Thus, the microplatform and micromanipulation device
provided by the invention produce analytic or synthetic data to be
processed. Data processing is accomplished either by a processor
and memory module on the disk, by the device microprocessor and
memory, or by an out board computer connected to the
micromanipulation device. Removable media for data retrieval and
storage is provided either by the disk itself or by the device,
using computer diskette, tape, or optical media. Alternatively and
advantageously, data is written on the microplatform using
CD-read/write technologies and conventional optical data storage
systems In such embodiments, data is written to the microplatform
on the underside of the platform, opposite to the "wet" chemistry
side holding the various microsystem components disclosed
herein.
[0105] The physical parameters of the microplatforms of the
invention are widely variable. When provided as a disk, the disk
radius ranges from 1-25 cm, and disk thickness ranges from 0.1 mm
to 10 cm, more preferably 0.1 to 100 mm. Preferred embodiments that
are most advantageous for manufacturing and operation of the disks
of the invention have dimensions within one or more of four
pre-existing formats: (1) 3-inch compact disk (CD), having a radius
of about 3.8 cm and thickness of about 1 mm: (2) 5-inch CD, having
a radius of about 6 cm and a thickness of 1 mm; (3) 8-inch CDV
(commercially termed a "Laservision" disk), having a radius of 10
cm and a thickness of 2 mm; and (4) 12-inch CDV disk, having a
radius of 15 cm and a thickness of 2 mm.
[0106] Microchannel and reservoir sizes are optimally determined by
specific applications and by the amount of reagent and reagent
delivery rates required for each particular embodiment of the
microanalytic and micro synthetic methods of the invention. For
microanalytical applications, for example, disk dimensions of a
5-in CD (6 cm.times.1 mm) are preferred, allowing reagent
reservoirs to contain up to 0.5 mL (close to the actual displaced
by the disk). Microchannel sizes can range from 0.1 m to a value
close to the lmm thickness of the disk. Microchannel and reservoir
shapes can be trapezoid, circular or other geometric shapes as
required. Microchannels preferably are embedded in a microsystem
platform having a thickness of about 0.1 to 100 mm, wherein the
cross-sectional dimension of the the microchannels across the
thickness dimention of the platform is less than 500 .mu.m and from
1 to 90 percent of said cross-sectional dimension of the platform.
Reagent reservoirs, reaction chambers, detections chambers and
sample inelt and outlet ports preferably are embedded in a
microsystem platform having a thickness of about 0.1 to 100 mm,
wherein the cross-sectional dimension of the the microchannels
across the thickness dimention of the platform is from 1 to 75
percent of said cross-sectional dimension of the platform.
[0107] Input and output (entry and exit) ports are components of
the microplatforms of the invention that are used for the
introduction of removal of a variety of fluid components. Entry
ports are provided to allow samples and reagents to be placed on or
injected onto the disk; these types of ports are generally located
towards the center of the disk. Exit ports are provided to allow
air to escape, advantageously into an on-disk "muffler" or "baffle"
system, to enable uninhibited fluid movement on the disk. Also
included in air handling systems on the disk are air displacement
channels, whereby the movement of fluids displaces air through
channels that connect to the fluid-containing microchannels
retrograde to the direction of movement of the fluid, thereby
providing a positive pressure to further motivate movement of the
fluid. Exit ports are also provided to allow products to be removed
from the disk. Port shape and design vary according specific
applications. For example, sample input ports are designed, inter
alia, to allow capillary action to efficiently draw the sample into
the disk. In addition, ports can be configured to enable automated
sample/reagent loading or product removal. Entry and exit ports are
most advantageously provided in arrays, whereby multiple samples
are applied to the disk using a specifically-designed
administration tool. Similar tools are useful designed to effect
product removal from the microplatform. Representative arrangements
of sample ports, air vents, reagent reservoirs, reaction chambers
and microvalves are shown in FIGS. 1A through 1C.
[0108] Operative and optimal placement of the various disk
components and elements depend on the dynamics of fluid movement in
relation to centripetal forces. Centripetal force is a function of
platform radius, disk rotation speed and fluid density. Certain
functional parameters relevant to the platform Microsystems of this
invention are understood in terms of the following equations. These
should represent limits of system performance, because they assume
both viscous and non-viscous (turbulent) losses for fully-developed
fluid flow.
[0109] The driving force for fluid motion or creating fluid
pressures is the force on matter which results from centripetal
acceleration. A device may rotate at an angular rate of f in
revolutions/sec and angular frequency
.omega.2.pi.f (1)
[0110] The centripetal acceleration (or acceleration oriented along
the radius at a radial distance R from the center of the
uniformly-rotating disk) is
a.sub.c=.omega..sup.2R. (2)
[0111] A mass m in such uniform circular motion is subject to a
centripetal force
F.sub.c=ma.sub.c=m.omega..sup.2R (3)
[0112] which is directed inward along the radius to the center of
rotation. If the mass is held fixed at this radius, the device
causing rotation supplies this force; this is the origin of the
static pressure in liquid columns discussed below. If the mass is
placed on top of a trap-door above a radially-oriented tube, and
the trap-door opened, the inertia of the mass will cause it to
accelerate down the tube; this is the basis for driving fluids
radially outward on a rotating disk.
[0113] Rotation may create a static pressure in a non-flowing
fluid. Assume a column of liquid extending from an inner radius
R.sub.0. The tube may be along the radius or inclined at an angle
to the radius. Let the pressure at position R.sub.0 be defined as
P.sub.0, which is for example atmospheric pressure. The excess
pressure due to rotation of the liquid at Position R such that
R.sub.0<R is found by integrating the centripetal force per unit
area for liquid of density p from position R.sub.0 to R:
P-P.sub.0.intg..rho..alpha..sub.c=.rho..omega..sup.2/2.times.(R.sup.2-R.su-
b.0.sup.2) (4)
[0114] If the tube is filled, extending from the center, then this
pressure is
P-P.sub.0=(2.834.times.10.sup.-4)pf.sup.2R.sup.2 (5)
[0115] in pounds per square inch (psi) where R=radial position in
cm, .rho.=density in gm/cm.sup.3, and f=frequency in
revolutions/sec. Thus, the pressure (or the amount of centripetal
force on a fluid) varies directly with the density of the fluid,
and as the square of the radial position from the center of
rotation as well as the square of the frequency of rotation.
[0116] To determine the velocity of liquid in motion in channels on
a rotating disk, the equation of motion for the fluid must be
solved. An element of fluid of radius a and length dR filling the
circular channel has a mass dm subject to acceleration:
dm=.pi..rho..alpha..sup.2dR (6)
[0117] The equation of motion for this fluid element is
force=(mass).times.(acceleration). The forces are centripetal
forces, capillary forces due to differences in interfacial energies
between the fluid and vapor and fluid and solid surfaces, and
dissipative forces due to the viscosity of the liquid and
nonuniformity of flow. Capillary forces are ignored; it is
understood that centripetal force and/or external pressure may need
to be applied to force liquid into channels which are not wetted.
As an over-estimate of these dissipative forces, both the force for
fully-developed laminar flow of a Newtonian fluid (F.sub.L) and
that due to non-uniform flow (F.sub.D) are included:
F=ma
F.sub.c+F.sub.L+F.sub.D=dma.sub.R (7)
F.sub.c+F.sub.L+F.sub.D=(p.pi.a.sup.2dR)a.sub.R
[0118] where a.sub.R is the acceleration of the fluid mass element
along the radius and
F.sub.x=(.pi.a.sup.2dR)a.sub.R
F.sub.L=-(8.mu..pi.a.sup.2dR)u (8)
F.sub.D=-(2.mu..pi.a.sup.2dR)u.sup.2
[0119] where .mu. is the viscosity and u is the radial velocity of
the fluid. These last two expressions are standard-mechanics
expressions for fully-developed and completely undeveloped laminar
flow, such as at channel entrances/exits or at the ends of a
flowing droplet. Also note that for tubes or channels inclined at
an angle .theta. with respect to the radius F.sub.C would be
replaced by (F.sub.C).times.cos .theta.. The final equation
becomes
(.rho..pi.a.sup.2dR).omega..sup.2R-(8.mu..pi.dR)u-(2.rho..pi.a.sup.2u.sup.-
2dR)=(.rho..pi.a.sup.2dR)(du/dt) (9)
[0120] where the radial acceleration of the fluid is defined by
a.sub.R-(du/dt). This is a differential equation for the fluid flow
velocity.
[0121] This equation is solved for specific examples. Consider a
droplet of fluid of length L moving in a radial channel of greater
length than the droplet.
[0122] Because the fluid in the droplet all moves at the same
velocity, dR may be replaced by L and R by the average position of
the droplet, <R>=(R+L/2). Dividing out common factors:
(.omega..sup.2(R+L/2)/2)-(8.mu./.rho.a.sup.2)u-2(u.sup.2/L)=(du/dt)tm
(10)
[0123] This equation must be solved numerically. An approximation
may be made which has been justified through comparison with
numerical solutions. It consists of this: the negative terms on the
left-hand-side almost entirely cancel the positive term. Then the
right-hand-side can be set to 0 and a solution can be made to the
resultant equation for the "terminal velocity" at position R,
u.sub.0
(.omega..sup.2(R+L/2)/2)-(8.mu./.rho.a.sup.2)u.sub.0-2(u.sub.o.sup.2/L)=0
(11)
[0124] This is a quadratic equation which has the solution
u.sub.0=-(B+{square root}{square root over ( )}B.sup.2+4AC)/2A
(12)
with
A=L/2
B=8.mu./.rho.a.sup.2 (13)
C=(.omega..sup.2(R+L/2)/2)
[0125] In conventional units these become A=2/L,
B=320.mu./.rho.D.sup.2 and C=(19.74)f.sup.2(2R+L) with
u.sub.0=fluid velocity in cm/sec; L=droplet length in cm;
.mu.=viscosity in poise; .rho.=fluid density in gm/cm.sup.3;
D=2a=tube diameter in cm; and R=radial position of the fluid
droplet in cm. As described, this expression gives the approximate
velocity of a droplet of fluid in a tubular channel, the volume of
the droplet resulting in droplet length being shorter than the
channel length. This estimate assumes both viscous and non-viscous
losses. The velocity of a fluid droplet will increase with
increasing density and droplet volume (length), and decrease with
increased viscosity. The velocity will increase with increased
channel diameter, rotational velocity, and radial position.
[0126] Fluid flow velocity in a filled channel connecting a full
chamber at position R.sub.0 and receiving reservoir at position
R.sub.1 is calculated by defining L in equation (11) and subsequent
equations as the channel length, L=R.sub.1-R.sub.0. Then equation
(13) with the definitions following equation (13) are used to
calculate the flow velocity in the filled chamber as a function of
radius.
[0127] The rate of fluid-flow is the product of velocity and
channel area:
Q=u.sub.0.pi.a.sup.2=u.sub.0.pi.D.sup.2/4 (14)
[0128] where Q=flow in mL/sec; u.sub.0=velocity in cm/sec
(calculated from equations 12 and 13); and D=tube diameter in
cm.
[0129] The time required to transfer a volume V from a reservoir to
a receptacle through a tube or channel of length L depends on
whether V is such that the tube is filled (length of a "droplet" of
volume V in the tube would be longer than the tube itself) or
unfilled by volume V. In the former case, this time is
approximately the volume V of the fluid divided by the rate of flow
Q; in the latter case it is approximately this calculated time
multiplied by the ratio of the tube length to the resultant droplet
length:
Dt=V/Q, if L.ltoreq.(4V/.pi.D.sup.2) (15)
Dt=(V/Q).times.(4.pi.D.sup.2L/4V), if L>(4V/.pi.D.sup.2)
[0130] wherein Dt is the same time in seconds for fluid of volume V
in mL flowing at rate Q in mL/sec to flow from a filled reservoir
to a receptacle through a tube of length L and diameter D in cm.
The rate of flow Q is calculated from eq. (14) and by extension
equations (12) and (13) and the definitions of the parameters
following equation (13). The time Dt increases with increasing
volume transferred and decreases with increasing flow-rate.
[0131] Fluid characteristics such as pressure and velocity are
related to physical parameters of the disk, such as disk radius and
speed of rotation, as described above. These relationships are
illustrated in FIGS. 2-5, derived from the above equations for
water at room temperature, with p=1 gm/cm.sup.3 and .mu.=0.001
poise. These figures delineate the most relevant parameters of
fluid movement on a rotating disk.
[0132] FIG. 2A illustrates the relationship between static pressure
in a fluid-filled tube 30 cm in length as a function of radial
distance (R) and rotation rate (f), calculated from Equation 5. The
arrangement of the tube on a rotating disk is shown in FIG. 2B. It
can be seen that pressures of between 0 and 10,000 psi can be
generated in the tube at rotational speeds of 0 to 10,000 rpm.
Pressures of this magnitude are conventionally used, for example,
to drive high pressure liquid chromatography (HPLC).
[0133] FIG. 3A shows the radial velocity of droplets having volume
of 1, 10 and 100 .mu.L droplets moving in an empty, 30 cm long tube
with a diameter of 1 mm, calculated from Equations 12 and 13. The
rube is aligned to extend along the radius of the disk from the
center, and the disk is rotated at speeds of 100, 1,000 or 10,000
rpm. The arrangement of the tube on a rotating disk is shown in
FIG. 3B. These velocities may be used to calculate the transfer
time for fluid droplets. For example, a 1 .mu.L droplet flows at
approximately 20 cm/sec when at a position 2 cm from the center of
a disk rotating at 1,000 rpm. Hence, the time to flow through a 1
cm tube can be calculated to be about 0.05 seconds. (For tubes
oriented non-radially at an angle of 45.degree. to the direction of
rotation, the velocity drops by a factor of 30%.)
[0134] FIG. 4A illustrates flow rates in a 5 cm fluid-filled tube
of different diameters. The tubes are each placed on a rotating
disk and connects two radially oriented reservoirs, shown in FIG.
4B. According to Equation 14, flow rates are a function of radial
position of the tube (which vary in this example from 2-30 cm), the
tube diameter (10 .mu.m, 100 .mu.m, or 1,000 .mu.m), and rotation
frequency (100, 1,000 or 10,000 rpm). (As above, for tubes with a
non-radial orientation of 45.degree., the velocity drops by a
factor of 30%). Droplet velocities shown in FIG. 3A were calculated
by Equation 3 and flow rates determined using Equation 4.
[0135] In FIGS. 5A, 5B and 5C, the time required to transfer 1, 10,
and 100 .mu.L droplets, respectively, through a 5 cm tube is shown.
The tube connects two radially oriented reservoirs as illustrated
in FIG. 5D. Transfer times are a function of radial position of the
tube (o-30 cm), tube diameter (10 .mu.m, 100 .mu.m, or 1,000
.mu.m), and rotation frequency (100, 1,000 or 10,000 rpm). The
curves shown in FIGS. 5A, 5B and 5C were calculated using Equation
15.
[0136] Taken together, these formulate and graphs describe the
interrelationship of disk radii and rotation speeds, channel
lengths and diameters, and fluid properties such as viscosity and
density in determining fluid velocities and flow rates on the disk.
The assumptions behind these derivations include viscous losses due
to Poiseuille (non-turbulent) flow, with the addition of losses due
to non-uniform flow of droplets and at tube inlet and outlet ports.
These formulae and graphs provide lower limits for velocities and
flow rates. Fluid velocities can range from less than 1 cm/sec to
more than 1,000 cm/sec, and fluid flow rates from less than 1
pL/sec to tens of mL/sec for rotation rates ranging from 1 to
30,000 rpm. By combining channel diameters and positions on the
disk, it is possible to carry out fluid transfer over a wide range
of time scales, from milliseconds to hours and tens of hours for
various processes.
[0137] Disk Coatings and Composition
[0138] Microplatforms such as disks and the components comprising
such platforms are advantageously provided having a variety of
composition and surface coatings appropriate for a particular
application among the wide range of applications disclosed herein.
Disk composition will be a function of structural requirements,
manufacturing processes, and reagent compatibility/chemical
resistance properties. Specifically, disks are provided that are
made from inorganic crystalline or amorphous materials, e.g.
silicon, silica, quartz, metals, or from organic materials such as
plastics, for example, poly(methyl methacrylate) (PMMA),
acetonitrile-butadienestyrene (ABS), polycarbonate, polyethylene,
polystyrene, polyolefins, polypropylene and metallocene. These may
be used with unmodified or modified surfaces as described
below.
[0139] One important structural consideration in the fabrication of
the microsystems disks of the invention is mechanical failure due
to stress during use. Failure mechanisms for disks rotated at high
velocities include fracture, which can arise as the result of
tensile loading, or due to cracking and crazing, as described on
Hertzberg (1989, Deformation and Fracture Mechanics of Engineering
Materials, 3.sup.rd edition, Wiley & Sons: New York). These
failures occur when the stress (defined as the load per unit area)
due to rotation of the disk exceeds a critical value characteristic
of the material used to make the disk. The "load" at any point in
the disk is the force of tension due to rotation; i.e., at a given
radius on the disk, the overall load is the centripetal force
necessary to keep the material at larger radii moving circularly;
the load/area or stress is then this force divided by the total
area of the disk (2.pi.r.times.the thickness of the disk). The
critical value of stress at which a material will fail is termed
the yield stress, and it depends on the cohesive energy binding the
material together and the presence of defects in the material (such
as crystalline defects in silicon or plastic substrate material). A
defect-free material can be torn apart, whereas small defects will
propagate through cracking or "crazing" (i.e., plastic deformation
and failure of a formerly glassy plastic). For example, the yield
strength of commercial silicon permits a 30 cm disk to be spun at
10,000 rpm without mechanical failure when the diameter of internal
channels and chambers is less than approximately 80% of the total
thickness of the disk. In disks made of plastics, stresses on the
disk are reduced in general due to the lower density of the plastic
(which reduces the load/unit area). However, the yield strengths
are also smaller by about two orders of magnitude than in silicon
(as described in greater detail in Luis & Yannis, 1992,
Computational Modeling of polymers, (Bureitz, ed.), Marcel Dekker:
New York). One solution to this problem is provided either by
spinning a plastic 30 cm disk at a slower speed (such as 1,000
rpm), or increasing the size of the disk radius (such as using a 4
cm plastic disk for applications requiring 10,000 rpm rotation
speeds). Thus, material choice specific for a particular
application is sufficient to accommodate disk composition-related
constraints on disk functional properties and characteristics.
[0140] Disk material in contact with fluids must also be resistant
to degradation by reagent solutions (such as acetonitrile,
polyacrylamide, high- or low-pH buffers) under rotational stress,
upon heating and cooling, and in response to illumination with
high-intensity ultraviolet or visible light (occurring, inter alia,
with the use of certain detection means as described below). In
addition, the surfaces presented to reagents and reaction mixtures
(such as microchannels, reservoirs and reaction chambers) must have
desirable surface properties appropriate for each application.
Silicon, silica, and quartz are especially robust materials as
substrates for microplatform fabrication. Silicon and its oxides
(essentially silica) are chemically attacked only by some peroxides
(such as a mixture of hydrogen peroxide plus sulfuric acid),
hydroxides (such as KOH), hydrofluoric acid (HF), either alone or
in combination with alkali-based nitrates, and various
perfluorinated solvents (like SF.sub.6) see Iler, 1979, The
Chemistry of Silica, Wiley & Sons: New York; Properties of
Silicon, Xth ed., INSPEC:, London, 1988). Silicon-based substrates
are chemically inert to aliphatic and aromatic hydrocarbons (such
as tetrahydrofuran, toluene, and the like), and are substantially
inert when exposed to water and neutral aqueous solutions.
[0141] A wide variety of polymer-based (plastics) substrates are
suitable for fabricating Microsystems platforms of the invention.
The most chemically-resistant polymer, poly(tetrafluoroethylene;
PTFE), is not melt-processible but may be easily machined. PTFE is
virtually chemically inert and can be used in most applications
utilizing strong acids, bases, alkalis, halogenated solvents, or
other strong chemical reagents. Other fluoropolymers (such as FEP,
PFA) are more easily processed than PTFE and retain most of PTFE's
chemical resistance. More easily-processed materials may be chosen
for selective resistance: for example, although polyimides are
highly resistant to alcohols, alkalis, aliphatic hydrocarbons, and
bases (e.g., NaOH), their resistance to partially-halogenated
solvents (e.g. dichlorobenzene) is poor. Poly (vinyl chloride) is
strongly resistant to oxidizing acids and aliphatic hydrocarbons,
while its resistance to aromatic compounds is poor. In addition,
many materials that are not highly-resistant to concentrated
applications of certain chemicals provide sufficient resistance to
dilute solutions or provide sufficient resistance for single-use
devices (e.g., polyamides and polyimides may be used with dilute
solutions of certain acids such as acetic acid and hydrochloric
acid). Most polymeric materials are resistant to water.
[0142] Specific chemical/polymer combinations include: formamide,
lutidine, and acetonitrile with non-aromatic, non-polar polymers
(polypropylene, polyethylene); dichloromethane with polycarbonates
and aromatic polymers (polystyrene); ethanolamine and dimethyl
sulfoxide with aliphatic and non-aromatic polymers (poly(methyl
methacrylates), polyimides, polyamides). Fluoropolymers are
resistant to all of the above chemical agents. Other solvents and
reagents of interest, including pyridine, tetrazole, trichloracetic
acid, iodine, acetic anhydride, N-methylpyrrolidine,
N,N-diethylpropylethylamine and piperidine, are suitable for use
with fluoropolymers and some solvent resistant polymers, such as
PVC (Encyclopedia of Polymer Science and Technology, 2.sup.nd ed.,
v. 3, pp 421-430, X ed., John Wiley & Sons, New York, 1989). A
small set of such materials provides sufficient flexibility for
virtually any application.
[0143] The surface properties of these materials may be modified
for specific applications. For example, appropriate
surface-modification can either encourage or suppress cell and/or
protein absorption. Surface modification can be achieved by
silanization, ion implantation and chemical treatment with
inert-gas plasmas (i.e., gases through which electrical currents
are passed to create ionization). A strong correlation has been
established between water contact angle and cell adsorption, with
hydrophilic surfaces showing significantly less cell adsorption
than hydrophobic surfaces (see Ikada, 1994, Biomaterials 15: 725).
Silicon, silica, and quartz present and inherently high-energy,
hydrophilic surface. Alteration of surface properties is attained
through hydroxylation (achieved by NaOH treatment at high
temperatures) or silanization. Silanes and siloxanes are
particularly appropriate for increasing the hydrophilicity of an
otherwise hydrophobic surface. These compounds consist of one or
several reactive head-groups which bond (chemically or through
hydrogen-bonding) to a substrate, for example, a core region of
alkane (--CH.sub.2O--). These compounds also provide a route for
more sophisticated alteration of surface properties (such as
derivation with functional groups to obtain the surface properties
of interest). A wide variety of such functionalities can be
introduced at a surface, including vinyl, phenyl, methylene and
methoxy groups, as well as surfaces providing mixed
functionalities. These functional groups not only change gross
properties like liquid contact angle, but provide sites for
preferential adsorption of molecules, either per se or as a result
of further conjugation of specific binding moieties such as
peptides, antibodies or the like. Silation is most often
accomplished through immersion in aqueous solution at
slightly-elevated temperatures. The chemical resistance of silane
and siloxane coatings is determined by the nature of bonding within
the chemisorbed molecule (Arkles, 1977, Chemtech 7: 125). It should
be noted that such properties as hydrophobicity are maintained for
significant periods when organosilanes are in contact with quite
corrosive acids, implying that single-use or limited-use
applications in these environments are possible.
[0144] Plastic-based disk can also be readily treated to achieve
the required surface properties. Inert-gas or reactive-gas plasmas
are commonly used to alter surface energies through the formation
of surface complexes, for example, hydroxyl-rich surfaces for
increased hydrophilicity, or perfluorinated surfaces for increased
hydrophobicity. Surface graft polymerization is a technique used to
graft polymers or oligomers with the desired surface properties to
a substrate polymer chosen for its bulk processability and
manufacturing properties, such as a plastic. Commercial methods for
initiating graft polymerization include gamma radiation, laser
radiation, thermal or mechanical processing, photochemical
processes, plasma, and wet chemical processes (further discussed in
Encyclopedia of Polymer Science and Technology, 2.sup.nd ed.,
(Supplement), Wiley & Sons: New York, 1989, pp 675-689).
Chemical modification of polymer surfaces (and appropriate
polymers) includes oxidations (polyethylenes), reductions
(fluoropolymers), sulfonations, dehydrohalogenations
(dehydrofluorination of poly (vinylidene fluoride), and hydrolyses.
While the chemical nature of the surface is altered through
chemical modification, mechanical properties, durability and
chemical resistance are primarily a function of the substrate
plastic. For example, surface grafting of poly(ethylene glycol)
(PEG) onto polyethylene yields a surface that is both hydrophilic
(unlike polyethylene) and resistant to water (PEG is itself soluble
in water, while polyethylene is not). Finally, silation of organic
polymer surfaces can also be performed, providing a wide variety of
surface energy/chemistry combinations.
[0145] Embodiments comprising thin film disks are provided,
comprising "layers" of Microsystems disks stacked on a solid
support, are useful for sequential assay with conservation of the
disk and efficient and inexpensive use of the
microsystem-comprising disks as consumables. An illustration of
such disks are shown in FIG. 17L. Such disks are capable of being
uniquely identified, for example, by imprinting a barcode directly
on the disk.
[0146] Particular examples of disks fabricated for a variety of
applications is provided below in the Examples.
[0147] Disk-Related Devices and Elements
[0148] Microsystems platforms (microplatforms) of the invention are
provided with a multiplicity of on-board components, either
fabricated directly onto the disk, or placed on the disk as
prefabricated modules. In addition to be integral components of the
disk, certain devices and elements can be located external to the
disk, optimally positioned on a device of the invention, or placed
in contact with the disk.
[0149] 1. Temperature Control Elements
[0150] Temperature control elements, particularly heating elements,
include heat lamps, direct laser heaters, Peltier heat pumps,
resistive heaters, ultrasonication heaters and microwave excitation
heaters. Cooling elements include Peltier devices and heat sinks,
radiative heat fins and other components to facilitate radiative
heat loss. Thermal devices can be applied to the disk as a whole or
in specific areas on the disk. The thermal elements can be
fabricated directly onto the disk, or can be fabricated
independently and integrated onto the disk. Thermal elements can
also be positioned external to the disk. The temperature of any
particular area on the disk is monitored by resistive temperature
devices (RTD), thermistors, liquid crystal birefringence sensors
infrared interrogation using IR-specific detectors. Temperature at
any particular region of the disk can be regulated by feedback
control systems. A micro-scale thermo-control system can be
fabricated directly on the disk, fabricated on a microchip and
integrated into the disk or controlled through a system positioned
external to the disk.
[0151] 2. Filters
[0152] Filters, sieving structures and other means for selectively
retaining or facilitating passage of particulate matter, including
cells, cell aggregates, protein aggregates, or other particulate
matter comprising fluids applied to a microanalytical or
microsynthetic disk of the invention. Such filtering means include
microsieving structures that are fabricated directly into a fluid
handling structure on the disk (e.g., U.S. Pat. No. 5,304,487;
International Application, Publication No. WO93/22053; Wilding et
al., 1994, Automat. Analyt. Tech. 40: 43-47) or fabricated
separately and assembled into the fluid handling structures. The
sieving structures are provided with a range of size exclusion
orifices and are optionally arranged sequentially so as to
fractionate a sample based upon the sizes of the constituent parts
of the sample.
[0153] Other types of filters include materials that selectively
remove sample constituents based on electrostatic forces between
the filter material and the sample constituents. The electrostatic
composition of the sieving materials may be inherent to the
material or bestowed upon it by virtue of a charge delivered to the
material through an electronic circuit. The materials captured by
the filter material can be irreversibly bound or can be selectively
eluted for further processing by adjusting the composition and
ionic strength of buffers or, in the case of an electronically
regulated material, by modulating the electronic state of the
material.
[0154] In yet other embodiments of the filters of the microsystem
platforms of this invention, specific components of a sample can be
retained in a section, microchannel or reservoir of a disk of the
invention by interaction with specific proteins, peptides,
antibodies or fragments thereof derivatized to be retained within
the surface of a component of the disk. Materials captured by such
specific binding can be eluted from the surface of the disk and
transferred to a collection reservoir by treatment with
appropriately-chosen ionic strength buffers, using conventional
methods developed for immunological or chromatographic
techniques.
[0155] The invention also provides compartments defined by sections
of a microchannel or by a chamber or reservoir wherein the inlet
and outlet ports of the chamber are delimited by a filtering
apparatus. In certain embodiments, the chamber thus defined
contains a reagent such as a bead and particularly a bead coated
with a compound such as an antibody having an affinity for a
contaminant, unused reagent, reaction side-product or other
compound unwanted in a final product. In the use of disks
comprising such a filter-limited chamber, a fluid containing a
mixture of wanted and unwanted compounds is moved through the
filter chamber by centripetal force of the rotating disk. The
unwanted compounds are thus bound by the affinity material, and the
desired compounds flushed free of the chamber by fluid flow
motivated by centripetal force. Alternatively, the desired compound
may be retained in such a filter-limited chamber, and the unwanted
compounds flushed away. In these embodiments, egress from the
chamber, for example by the opening of a valve, is provided.
[0156] 3. Mixers
[0157] A variety of mixing elements are advantageously included in
embodiments of the Microsystems disks of the invention that require
mixing of components in a reaction chamber upon addition from a
reagent reservoir. Static mixers can be incorporated into fluid
handling structures of the disk by applying a textured surface to
the microchannels or chambers composing the mixer. Two or more
channels can be joined at a position on the disk and their
components mixed together by hydrodynamic activity imparted upon
them by the textured surface of the mixing channel or chamber and
the action of centripetal force imparted by the rotating disk.
Mixing can also be accomplished by rapidly changing the direction
of rotation and by physically agitating the disk by systems
external to the disk.
[0158] In other embodiments, flex plate-wave (FPW) devices (see
White, 1991, U.S. Pat. No. 5,006,749, ibid.) can be used to effect
mixing of fluids on a disk of the invention. FPW devices utilize
aluminum and piezoelectric zinc oxide transducers placed at either
end of a very thin membrane. The transducers launch and detect
acoustic plate waves that are propagated along the membrane. The
stiffness and mass per unit area of the membrane determine the
velocity of plate wave. When connected with an amplifier, the waves
form a delay-line oscillation that is proportional to the acoustic
wave velocity. Structures based on the FPW phenomena have been used
to sense pressure, acceleration, organic chemical vapors, the
adsorption of proteins, the density and viscosity of liquids as
well as to mix liquids together. FPW devices can be integrated onto
the disk or can be positioned in proximity to the disk to effect
mixing of fluid components in particular reaction chambers on the
disk.
[0159] 4. Valving Mechanisms
[0160] Control of fluid movement and transfer on the disk typically
includes the use of valving mechanisms (microvalves) to permit or
prevent fluid movement between components. Examples of such
microvalves include a piezo activator comprising a glass plate
sandwiched between two silicon wafers, as described by Nakagawa et
al. (1990, Proc. IEEE Workshop of Micro Electro Mechanical Systems,
Napa Valley, Calif. pp. 89); a schematic diagram of such a valve is
shown in FIG. 6. In this embodiment, a lower wafer and glass plate
can have one or two inlets and one outlet channel etched in them.
An upper wafer can have a circular center platform and a concentric
platform surrounding it. The base of piezoelectric stack can be
placed onto the center platform and its top connected to the
concentric platform by means of circular bridge. The center of a
SiO.sub.2/SiN.sub.4 arch-like structure is connected to the piezo
element. Valve seats are made of nickel or other sealing substance.
In a three-way embodiment, fluid moves from the center inlet port
to the outlet with no applied voltage. With a voltage applied the
piezo element presses down on the arch center causing the ends to
lift, blocking the center inlet and allowing fluid to flow from the
peripheral inlet. In other, two-way embodiments, fluid flows with
no applied voltage and is restrained upon the application of
voltage. In another embodiment of a two-way valve, fluid is
restrained in the absence of an applied voltage and is allowed to
flow upon application of a voltage. In any of these embodiments the
piezo stack can be perpendicular to the plane of rotation, oblique
to the plane of rotation, or held within the plane of rotation.
[0161] In another embodiment, fluid control is effected using a
pneumatically-actuated microvalve wherein a fluid channel is etched
in one layer of material that has a raised valve seat at the point
of control (a schematic diagram of this type of valve is shown in
FIG. 7). Into another layer, a corresponding hole is drilled,
preferably by a laser to achieve a hole with a sufficiently small
diameter, thereby providing pneumatic access. Onto that second
structure a layer of silicone rubber or other flexible material is
spun-deposited. These structures are then bonded together. Fluid
movement is interrupted by the application of air pressure which
presses the flexible membrane down onto the raised valve seat. This
type of valve has been described by Veider et al. (1995,
Eurosensors IX, pp. 284-286, Stockholm, Sweden, June 25-29).
Measurements made by Veider et al. have shown that a similar valve
closes completely with the application of 30 KPa of pressure over
the fluid inlet pressure. This value corresponds to 207 psig, and
can be adjusted by changing the diameter of the pneumatic orifice
and the thickness of the membrane layer. Pneumatic pressure is
applied to the disk to activate such valves as shown schematically
in FIG. 8.
[0162] Pneumatic actuation can also be embodied by a micromachined
gas valve that utilizes a bimetallic actuator mechanism, as shown
in FIG. 9. The valve consists of a diaphragm actuator that mates to
the valve body. The actuator can contain integral resistive
elements that heat upon application of a voltage, causing a
deflection in the diaphragm. This deflection causes a central
structure in the actuator to impinge upon the valve opening, thus
regulating the flow of fluid through the opening. These valves
allow proportional control based on voltage input, typically 0-15 V
DC. These types of valve are commercially available (Redwood
Microsystems, Menlo Park, CA; ICSensors, Milpitas, Calif.).
[0163] Embodiments of pneumatically actuated membrane valves can
include integration of both components on a single disk or can
comprise two disks aligned so that the pneumatic outlets of one
disk align with the second disk to impinge upon the pneumatic
actuation orific of the other disk. In either embodiment a source
of pneumatic pressure can be delivered to the disk via concentric
rings of material such a Teflon.RTM.. In this embodiment, a
standing core and a revolving element are contiguous to the disk.
Pneumatic pressure is delivered through the interior of the
standing core and directed by channels to the outer edge of the
standing core. Suitably placed channels are machined into the
revolving element and impinge upon the channels in the standing
core and direct the pneumatic pressure to the gas valves.
[0164] Another valve embodiment is apressure-balanced microvalve,
shown in FIG. 10. This type of valve is constructed of three layers
of material, comprising two layers of silicon separated by a thin
layer of electrically-insulating oxide (i.e., silicon dioxide). A
glass layer is bonded onto the top of the valve and advantageously
contains inlet and outlet ports. A center plunger fashioned in the
middle silicon layer is deflected into a gap contained on the lower
silicon layer by application of a voltage between the silicon
layers. Alternatively, the plunger is deflected by providing a
pneumatic pressure drop into a gap in the lower layer. Irreversible
jamming of micromachined parts may be prevented by the application
of a thin layer of Cr/Pt to the glass structure. As an
electrostatically driven device, this type of valve has many
advantages, including that it may be wired directly in the
fabrication of the disk. In this embodiment the actuator is a
finely tuned device that requires minimal input energy in order to
open the valve even at relatively high pressures. These types of
valves have been disclosed by Huff et al. (1994, 7.sup.th
International Conference on Solid-State Sensors and Actuators, pp.
98-101).
[0165] Another type of single-use valve, termed a polymeric
relaxation valve, compatible with the disk and fluidic devices in
general, is disclosed herein and shown in FIG. 11. This valve is
based on the relaxation of non-equilibrium polymeric structures.
This phenomenon is observed when polymers are stretched at
temperatures below their glass transition temperature (T.sub.g),
resulting in a non-equilibrium structure. Upon heating above the
T.sub.g, the polymer chains relax and contraction is observed as
the structure equilibrates. A common example of this phenomenon is
contraction of polyolefin (used in heat shrink tubing or wrap), the
polyolefin structure of which is stable at room temperature. Upon
heating to 135.degree. C., however, the structure contracts.
Examples of PR valve polymers include but are not limited to
polyolefins, polystyrenes, polyurethanes, poly(vinyl chloride) and
certain fluoropolymers.
[0166] One way to manufacture a PR valve is to place a polymer
sheet or laminate over a channel requiring the valve (as shown in
FIG. 11). A cylindrical valve is then cold-stamped in such a way as
to block the microchannel. The valve is actuated by the application
of localized heat, for example, by a laser or by contact with a
resistive heating element. The valve then contracts and fluid flow
is enabled.
[0167] A further type of microvalve useful in the disks of the
invention is a single use valve, illustrated herein by a capillary
microvalve (disclosed in U.S. Provisional Application Ser. No.
______, filed Aug. ___, 1996 and incorporated by reference herein).
This type of microvalve is based on the use of rotationally-induced
fluid pressure to overcome capillary forces. Fluids which
completely or partially wet the material of the microchannels (or
reservoirs, reaction chambers, detection chambers, etc.) which
contain them experience a resistance to flow when moving from a
microchannel of narrow cross-section to one of larger
cross-section, while those fluids which do not wet these materials
resist flowing from microchannels (or reservoirs, reaction
chambers, detection chambers, etc.) of large cross-section to those
with smaller cross-section. This capillary pressure varies
inversely with the sizes of the two microchannels (or reservoirs,
reaction chambers, detection chambers, etc., or combinations
thereof), the surface tension of the fluid, and the contact angle
of the fluid on the material of the microchannels (or reservoirs,
reaction chambers, detection chambers, etc.). Generally, the
details of the cross-sectional shape are not important, but the
dependence on cross-sectional dimension results in microchannels of
dimension less than 500 .mu.m exhibit significant capillary
pressure. By varying the intersection shapes, materials and
cross-sectional areas of the components of the Microsystems
platform of the invention, "valve" are fashioned that require the
application of a particular pressure on the fluid to induce fluid
flow. This pressure is applied in the disks of the invention by
rotation of the disk (which has been shown above to vary with the
square of the rotational frequency, with the radial position and
with the extent of the fluid in the radial direction). By varying
capillary valve cross-sectional dimensions as well as the position
and extent along the radial direction of the fluid handling
components of the microsystem platforms of the invention, capillary
valves are formed to release fluid flow in a rotation-dependent
manner, using rotation rates of from 100 rpm to several thousand
rpm. This arrangement allows complex, multistep fluid processes to
be carried out using a pre-determined, monotonic increase in
rotational rate.
[0168] Control of the microvalves of the disks provided by the
invention is achieved either using on-disk controller elements,
device-specific controllers, or a combination thereof.
[0169] 6. Control Systems
[0170] Integrated electronic processing systems (generally termed
"controllers" herein) that include microprocessors and I/O devices
can be fabricated directly onto the disk, can be fabricated
separately and assembled into or onto the disk, or can be placed
completely off the disk, most advantageously as a component of the
micromanipulation device. The controllers can be used to control
the rotation drive motor (both speed, duration and direction),
system temperature, optics, data acquisition, analysis and storage,
and to monitor the state of systems integral to the disk. Examples
of rotational controllers are those using rotation sensors adjacent
to the motor itself for determining rotation rate, and motor
controller chips (e.g., Motorola MC33035) for driving direction and
speed of such motors. Such sensors and chips are generally used in
a closed-loop configuration, using the sensor data to control
rotation of the disk to a rotational set-point. Similarly, the
rotational data from these sensors can be converted from a digital
train of pulses into an analog voltage using frequency-to-voltage
conversion chips (e.g., Texan Instruments Model LM2917). In this
case, the analog signal then provides feedback to control an analog
voltage set-point corresponding to the desired rotation rate.
Controllers may also use the data encoded in the disk's
data-carrying surface in a manner similar to that used in
commercially-available compact disk (CD) players. In these
embodiments, the digital data read by the laser is used to control
rotation rate through a phase-locked loop. The rotation rate
information inherent in the frequency of data bits read may be
converted to an analog voltage, as described above.
[0171] The controllers can also include communication components
that allow access to external databases and modems for remote data
transfer. Specifically, controllers can be integrated into optical
read systems in order to retrieve information contained on the
disk, and to write information generated by the analytic systems on
the disk to optical data storage sections integral to the disk. In
these embodiments it will be understood that both read and write
functions are performed on the surface of the disk opposite to the
surface comprising the Microsystems components disclosed
herein.
[0172] Information (i.e., both instructions and data, collectively
termed "informatics") pertaining to the control of any particular
microanalytic system on the disk can be stored on the disk itself
or externally, most advantageously by the microprocessor and/or
memory of the disk device of the invention, or in a computer
connected to the device. The information is used by the controller
to control the timing and open/closed state of microvalves on the
disk, to determine optimal disk rotational velocity, to control
heating and cooling elements on the disk, to monitor detection
systems, to integrate data generated by the disk and to implement
logic structures based on the data collected.
[0173] 7. Power Supply
[0174] The electrical requirements of systems contained on a disk
can be delivered to the disk through brushes that impinge upon
connections integral to the disk. Alternatively, an electrical
connection can be made through the contact point between the
microplatform and the rotational spindle or hub connecting the disk
to the rotational motivating means. A battery can be integrated
into the disk to provide an on-board electrical supply. Batteries
can also be used to power the device used to manipulate the disk.
Batteries used with the invention can be rechargeable such as a
cadmium or lithium ion cell, or conventional lead-acid or alkaline
cell.
[0175] Power delivered to the disk can be AC or DC. While
electrical requirements are determined by the particular assay
system embodied on the disk, voltage can range from microvolts
through megavolts, more preferably millivolts through kilovolts.
Current can range from microamps to amperes. Electrical supply can
be for component operation or can be used to control and direct
ondisk electronics.
[0176] Alternatively, inductive current can be generated on the
disk by virtue of its rotation, wherein current is provided by an
induction loop or by electrical brushes. Such current can be used
to power devices on the disk.
[0177] 8. Detectors and Sensors
[0178] Detection systems for use on the microsystem platforms of
the invention include spectroscopic, electrochemical, physical,
light scattering, radioactive, and mass spectroscopic detectors.
Spectroscopic methods using these detectors encompass electronic
spectroscopy (ultraviolet and visible light absorbance,
luminescence, and refractive index), vibrational spectroscopy (IR
and Raman), and x-ray spectroscopies (x-ray fluorescence and
conventional x-ray analysis using micromachined field emitters,
such as those developed by the NASA Jet Propulsion Lab, Pasadena,
Calif.).
[0179] General classes of detection and representative examples of
each for use with the microsystem platforms of the invention are
described below. The classes are based on sensor type (light-based
and electrochemical). In addition, the detection implementation
systems utilizing the detectors of the invention can be external to
the platform, adjacent to it or integral to the disk platform.
[0180] a. Spectroscopic Methods:
[0181] 1. Fluorescence
[0182] Fluorescence detector systems developed for macroscopic uses
are known in the prior art and are adapted for use with the
microsystem platforms of this invention. FIG. 12A and 12B
illustrate two representative fluorescence configurations. In FIG.
12A, an excitation source such as a laser is focused on an
optically-transparent section of the disk. Light from any
analytically-useful portion of the electromagnetic spectrum can be
coupled with a disk material that is specifically transparent to
light of a particular wavelength, permitting spectral properties of
the light to be determined by the product or reagent occupying the
reservoir interrogated by illumination with light. Alternatively,
the selection of light at a particular wavelength can be paired
with a material having geometries and refractive index properties
resulting in total internal reflection of the illuminating light.
This enables either detection of material on the surface of the
disk through evanescent light propagation, or multiple reflections
through the sample itself, which increases the path length
considerably.
[0183] Configurations appropriate for evanescent wave systems are
shown in FIG. 12A (see Glass et al., 1987, Appl. Optics 26:
2181-2187). Fluorescence is coupled back into a waveguide on the
disk, thereby increasing the efficiency of detection. In these
embodiments, the optical component preceding the detector can
include a dispersive element to permit spectral resolution.
Fluorescence excitation can also be increased through multiple
reflections from surfaces in the device whenever noise does not
scale with path length in the same way as with signal.
[0184] Another type of fluorescence detection configuration is
shown in FIG. 12B. Light of both the fluorescence excitation
wavelength and the emitted light wavelength are guided through one
face of the device. An angle of 90 degrees is used to separate the
excitation and collection optical trains. It is also possible to
use other angles, including 0 degrees, whereby the excitation and
emitted light travels colinearly. As long as the source light can
be distinguished from the fluorescence signal, any optical geometry
can be used. Optical windows suitable for spectroscopic measurement
and transparent to the wavelengths used are included at appropriate
positions (i.e., in "read" reservoir embodiments of detecting
chambers) on the disk. The use of this type of fluorescence in
macroscopic systems has been disclosed by Haab et al. (1995, Anal.
Chem. 67: 3253-3260).
[0185] 2. Absorbance Detection
[0186] Absorbance measurements can be used to detect any analyte
that changes the intensity of transmitted light by specifically
absorbing energy (direct absorbance) or by changing the absorbance
of another component in the system (indirect absorbance). Optical
path geometry is designed to ensure that the absorbance detector is
focused on a light path receiving the maximum amount of transmitted
light from the illuminated sample. Both the light source and the
detector can be positioned external to the disk, adjacent to the
disk and moved in synchrony with it, or integral to the disk
itself. The sample chamber on the disk can constitute a cuvette
that is illuminated and transmitted light detected in a single pass
or in multiple passes, particularly when used with a stroboscopic
light signal that illuminates the detection chamber t a frequency
equal to the frequency of rotation or multiples thereof.
Alternatively, the sample chamber can be a planar waveguide,
wherein the analyte interacts on the face of the waveguide and
light absorbance is the result of attenuated total internal
reflection (i e., the analyte reduces the intensity source light if
the analyte is sequestered at the surface of the sample chamber,
using, for example, specific binding to a compound embedded or
attached to the chamber surface; see Dessy, 1989, Anal. Chem. 61:
2191).
[0187] Indirect absorbance can be used with the same optical
design. For indirect absorbance measurements, the analyte does not
absorb the source light; instead, a drop in absorbance of a
secondary material is measured as the analyte displaces it in the
sample chamber. Increased transmittance therefore corresponds to
analyte concentration.
[0188] 3. Vibrational Spectroscopy
[0189] Vibration spectroscopic detection means are also provided to
generate data from a detecting chamber or "read" section of a
microplatform of the invention. Infrared (IF) optical design is
analogous to the design parameters disclosed above with regard to
absorbance spectroscopy in the UV and visible range of the
electromagnetic spectrum, with the components optimized instead for
infrared frequencies. For such optimization, all materials in the
optical path must transmit IR light. Configuration of the optical
components to provide Raman light scattering information are
similar to those disclosed in FIGS. 12A and 12B above for
fluorescent measurements. However, due to the illumination time
needed to generate sufficient signal, the rotation rate of the disk
must be slowed, or in some instances, stopped. Depending on the
use, static IR or Raman scattering analysis is most advantageously
performed off-line in a separate IR or Raman instrument adapted for
analysis of the disks of the invention.
[0190] 4. Light Scattering
[0191] Turbidity can also be measured on the disk. Optics are
configured as with absorbance measurements. In this analysis, the
intensity of the transmitted light is related to the concentration
of the light-scattered particles in a sample. An example of an
application of this type of detection method is a particle
agglutination assay. Larger particles sediment in a rotating disk
more rapidly than smaller particles, and the turbidity of a
solution in the sample chamber before and after spinning the disk
can be related to the size of the particles in the chamber. If
small particles are induced to aggregate only in the presence of an
analyte, then turbidity measurements can be used to specifically
detect the presence of an analyte in the sample chamber. For
example, small particles can be coated with an antibody to an
analyte, resulting in aggregation of the particles in the presence
of the analyte as antibody from more than one particle bind to the
analyte. When the disk is spun after this interaction occurs,
sample chambers containing analyte will be less turbid that sample
chambers not containing analyte. This system can be calibrated with
standard amounts of analyte to provide a gauge of analyte
concentration related to the turbidity of the sample under a set of
standardized conditions.
[0192] Other types of light scattering detection methods are
provided for use with the Microsystems platforms and devices of the
invention. Monochromatic light from a light source, advantageously
a laser light source, is directed across the cross-sectional area
of a flow channel on the disk. Light scattered by particles in a
sample, such as cells, is collected at several angles over the
illuminated portion of the channel (see Rosenzweig et al., 1994,
Anal. Chem. 66: 1771-1776). Data reduction is optimally programmed
directly into the device based on standards such as
appropriately-sized beads to relate the signal into interpretable
results. Using a calibrated set of such beads, fine discrimination
between particles of different sizes can be obtained. Another
application for this system is flow cytometry, cell counting, cell
sorting and cellular biological analysis and testing, including
chemotherapeutic sensitivity and toxicology.
[0193] b. Electrochemical Detection Methods
[0194] Electrochemical detection requires contact between the
sensor element and the sample, or between sensor elements and a
material such as a gas in equilibrium with the sample. In the case
of direct contact between sample and detector, the electrode system
is built directly onto the disk, attached to the disk before
rotation or moved into contact with the disk after it has stopped
rotating. Detectors constructed using a gas vapor to encode
information about the sample can be made with the detector external
to the disk provided the gas vapor is configured to contact both
the sample chamber and the detector. Electrochemical detectors
interfaced with the disk include potentiometric, voltammetric and
amperimetric devices, and can include any electrochemical
transducer compatible with the materials used to construct the
microsystem disk.
[0195] 1. Electric Potential Measurement
[0196] One type of electrochemical detection means useful with the
Microsystems platforms of the invention is an electrical potential
measurement system. Such a system provides a means for
characterizing interfacial properties of solutions passed over
differently activated flow channels in the instrument. In view of
the temperature-controlled nature of the microplatforms of the
invention, streaming potentials can also be measured on this device
(see Reijenga et al., 1983, J Chromatogr. 260: 241). To produce
streaming potentials, the voltage potential difference between two
platinum leads in contact with a solution at the inner and outer
portions of the disk is measured in comparison with a reference
electrode. As fluid flows under controlled centripetal motion
through the channel, a streaming potential develops in response to
fluid interactions with the disk surfaces in a moving field.
[0197] Alternatively, a platinum electrode is used to generate
electroluminescent ions (see Blackburn et al., 37: 1534-9).
Chemiluminescence is then detected using one of the optical
detectors described above, depending on the wavelength of the
chemiluminescent signal. Voltametric components are also useful in
microsynthetic platforms of the invention to produce reactive
intermediates or products.
[0198] 2. Electrochemical Sensors
[0199] Electrochemical sensors are also advantageously incorporated
into the disk. In one embodiment, an electrochemical detector is
provided that uses a redox cycling reaction (see Aoki et al., Rev.
Polarogr. 36: 67). This embodiment utilizes an interdigitated
microarray electrode within a micromachined chamber containing a
species of interest. The potential of one electrode is set at the
oxidized potential of the species of interest and the potential of
the other electrode is set at the reduction potential of the
species of interest. This is accomplished using a dual channel
potentiostat, allowing the oxidized and reduced (i.e., redox)
chemical state of the sample to be determined, or the chamber may
be preset for a particular species. A volume of fluid containing a
substance of interest is directed to the chamber. The
electrochemically reversible species is then oxidized and reduced
by cyclically energizing the electrodes. In this embodiment a
molecule is detected by an apparent increase in the redox current.
Since non-reversible species do not contribute signal after the
first cycle, their overall contribution to the final signal is
suppressed. Data analysis software is used to suppress signal due
to non-reversible species.
[0200] In another embodiment, a multichannel electrochemical
detector is provided comprising up to 16 lines of an electrode
fabricated in a chamber by photolithography with dimensions
resulting in each line being 1000 .mu.m wide with 50 .mu.m between
lines. (see Aoki et al., 1992, Anal. Chem. 62: 2206). In this
embodiment, a volume of fluid containing a substance of interest is
directed to the chamber. Within the chamber each electrode is set a
different potential so that 16 separate channels of electrochemical
measurement may be made. Additionally, each electrode potential can
be swept stepwise by a function generator. This protocol yields
information pertaining to redox potential as well as redox current
of the substances. This type of analysis also allows identification
of molecules via voltammogram.
[0201] c. Physical Methods
[0202] Physical detection methods are also provided for use with
the disks of the invention. For example, the disk can be used as a
viscometer. Microchannels containing fluid to be tested
advantageously contain a bead inserted on the disk. The motion of
the bead through the fluid is analyzed and converted into viscosity
data based on standards developed and stored in microprocessor
memory. (see Linliu et al., 1994, Rev.Sci. Instrum. 65:
3824-28).
[0203] Another embodiment is a capacitive pressure sensor (see
Esashi et al., 1992, Proc. Micro Electro Mechanical Systems 11:
43). In this embodiment, silicon and glass substrates are
anodically bonded with hermetically sealed reference cavities.
Pressure may be detected by the capacitance change between the
silicon diaphragm and an aluminum electrode formed on the glass. A
capacitance-to-frequency converter output of a CMOS circuit can be
integrated on the silicon substrate or contained in controlling
electronics off the disk.
[0204] By judicious placement of pressure sensors, the pressure due
to centrifugation can be determined at any position on the disk. In
conjunction with the microchannel diameter information and the
pattern of orientation of the channels on the disk, pressure data
can be used to determine flow rates at a particular rotational
speed. This information can then be used by the microprocessor to
adjust disk rotational speed to control fluid movement on the
disk.
[0205] Surface acoustic wave (SAW) devices are also provided as
components of the Microsystems platforms of the invention. These
devices can be placed above the disk to detect head-space gases, or
incorporated in the fluid channel on the instrument. When placed in
the fluid system, the SAW is used to detect density changes in the
solution, indicative of changing buffer, reagent or reactant
composition (see Ballantine et al., 1989, Anal. Chem. 61:
1989).
[0206] Volatile gases on the disk or trapped in the head-space
surrounding the disk can be monitored in several ways. For example,
a Clark electrode positioned in contact with either the solution of
the gases above the disk may be used to detect oxygen content.
(Collison et al., 1990, Anal. Chem. 62: 1990).
[0207] d. Radioactive Detection Components
[0208] Microsystems platforms of the invention also can incorporate
radioactivity detectors. Radioactive decay of an analyte or
synthetic product on a disk of the invention can be detected using
a CCD chip or similar single channel photodiode detector capable of
integrating signal over time. Alternatively, radioactivity can be
determined directly by placing a solid state detector in contact
with a radioactive analyte. (see Lamture et al., 1994, Nucleic
Acids Res. 22: 2121-2125).
[0209] Modular Structures
[0210] Analytic systems provided as components of the platforms of
the invention typically consist of combinations of controllers,
detectors, buffer and reagent reservoirs, chambers, microchannels,
microvalves, heaters, filters, mixers, sensors, and other
components. Components that constitute an analytic system on the
disk can be composed of one or more of the following: complete
integral systems fabricated entirely on the disk; complete integral
systems fabricated as a component and assembled into or onto the
disk; a subset of components fabricated directly onto the disk and
interfaced with a subset of components that are fabricated as a
component and assembled into or onto the disk; components that
interface with the disk externally through a synchronously spinning
disk; and components that interface with the spinning disk from a
position that remains stationary in relation to the disk (e.g., the
rotational spindle).
[0211] Methods and Uses
[0212] Because of its flexibility, the invention offers a myriad of
possible applications and embodiments. Certain features will be
common to most embodiments, however. These features include sample
collection; sample application to disk, incorporating tests of
adequacy at the time of sample application; a variety of specific
assays performed on the disk; data collection, processing and
analysis; data transmission and storage, either to memory, to a
section of the disk, or to a remote station using communications
software; data output to the user (including printing and screen
display); and sample disk disposal (including, if necessary, disk
sterilization).
[0213] Sample or analyte is collected using means appropriate for
the particular sample. Blood, for example, is collected in vacuum
tubes in a hospital or laboratory setting, and using a lancet for
home or consumer use. Urine can be collected into a sterile
container and applied to the disk using conventional
liquid-transfer technology. Saliva is preferably applied to the
disk diluted with a small volume of a solution of distilled water,
mild detergent and sugar flavoring. This solution can be provided
as a mouthwash/gargle for detecting antigens, biological secretions
and microorganisms. Alternatively, a small sack made of a fishnet
polymer material containing the detergent formulation and a
chewable resin can be chewed by a user to promote salivation, and
then removed from the mouth and saliva recovered and applied
conventionally. Amniotic fluid and cerebrospinal fluid are, of
necessity, collected using accepted medical techniques by qualified
personnel.
[0214] Environmental and industrial samples are collected from
ground water or factory effluent into containers produced to avoid
leaching contaminants in the sample. Soil samples are collected and
mixed with a solvent designed to dissolve the analyte of interest.
Industrial applications, such as pyrogen screening, are
accomplished using specially-designed sample ports.
[0215] Sample or analyte is loaded onto the disk by the user.
Sample is optimally loaded onto the disk at a position proximal to
the center of rotation, thereby permitting the greatest amount of
centripetal force to be applied to the sample, and providing the
most extensive path across the surface of the disk, to maximize the
number, length or arrangement of fluid-handling components
available to interact with the sample. Multiple samples can be
applied to the disk using a multiple loading device as shown in
FIGS. 13A through 13C. In this embodiment of a multiple loading
device, a multiplicity of pipette barrels are equally spaced and
arranged radially. The pipettes are spaced to provide that the tips
of the pipettes fit into access ports on the surface of the disk.
The tips can be simple pins that hold a characteristic volume of
sample by virtue of a combination of surface properties and fluid
characteristics. Alternatively, the tips can be conventional hollow
tubes, such as capillary or plastic conical tips, and the fluid
manipulated manually in response to positive or negative pressure,
as with a manual or automatic pipetting device. The loader can be
operated manually or by robotic systems. The barrels can also be
arrayed in a flexible arrangement, permitting the tips to address a
linear array in one configuration and a radial array in another. In
each embodiment, the loader comprises an alignment device to ensure
reproducible placement of the loading tips on the disks of the
invention.
[0216] Loaders are designed specifically for the substances being
investigated. Examples include medical uses (where the samples
include blood, body fluids including amniotic fluid, cerebrospinal,
pleural, pericardial, peritoneal, seminal and synovial fluid, in
addition to blood, sweat, saliva, urine and tears, and tissue
samples, and excreta), and environmental and industrial substances
(including atmospheric gases, water and aqueous solutions,
industrial chemicals, and soils). Loading devices are also
advantageously compatible with standard blood-handling equipment,
such a vacuum tubes fitted with septa, and access sample therein by
piercing the septa. Loading devices are also compatible with seat
collection devices and means, such as lancets, for obtaining a
small blood sample. A disk may also have integral lancets and
rubber seals in order to sample blood directly.
[0217] Dynamic as well as static loading of the disk is envisioned
as being within the scope of the invention (see Burtis et al.,
1974, Clin. Chem. 20: 932-941).
[0218] As the invention comprises the combination of a Microsystems
platform as described above and a micromanipulation device for
manipulating this platform to impart centripetal force on fluids on
the platform to effect movement, arrangement of components can be
chosen to be positioned on the disk, on the device, or both.
Mechanical, electronic, optico-electronic, magnetic, magneto-optic,
and other devices may be contained within the disk or on disk
surface. Some on-disk devices have been described above in detail;
additionally, the disk may contain electronic circuitry, including
microprocessors for coordination of disk functions, and devices for
communication with the disk manipulation device or other devices.
The disk optimally comprises detectors and sensors, or components
of these devices and energy sources for various detection schemes
(such as electric power supplies for electrochemical systems,
electromagnetic radiation sources for spectroscopic systems), or
materials, such as optically-transparent materials, that facilitate
operation of and data generation using such detectors and sensors;
actuators, including mechanical, electrical, and electromagnetic
devices for controlling fluid movement on the disk, including
valves, channels, and other fluid compartments; communications and
data handling devices, mediating communications between the disk
and the player/reader device, using electromagnetic (laser,
infra-red, radiofrequency, microwave), electrical, or other means;
circuitry designed for controlling procedures and processes on the
disk, including systems diagnostics, assays protocols and analysis
of assay data, These are provided in the form of ASICs or ROM which
are programmed only at the point-of-manufacture; FPGA's EPROM,
flash memory (UV-erasable EPROM), or programmable IC arrays, or
similar arrays programmable by the user through the platform
manipulation device or other device. Also included in the
components of the invention are CPU and microprocessor units and
associated RAM operating with an assembler language or high-level
language programmable through disk communications, and components
for mediating communication with other devices, including
facsimile/modem communications with remote display or data analysis
systems.
[0219] Off-disk devices comprise the microplatform
micromanipulating device itself and other devices which can access
information, write information, or initiate processes on the disk.
FIG. 15 illustrates the categories of devices and sub-devices which
are part of the micromanipulation device , and indicates how there
components interact. "Interaction" is used herein to mean the
exchange of "data" between the disk and device, or among the
components of the device itself . The relationship between these
components is here described, followed by detailed examples of the
components.
[0220] These include the mechanical drive and circuitry for
rotation monitoring and control, overall system control, data
read/write devices, external detectors and actuators for use with
the disk, dedicated data and assay processors for processing
encoded data and assay data, a central processor unit, a user
interface, and means for communicating to the disk, the user, and
other devices. Mechanical drive and associated circuits include
devices to control and monitor precisely the rotation rate and
angular position of the disk, and devices to select and mount
multiple-disks from a cassette, turntable, or other multiple-disk
storage unit. System control units provide overall device control,
either pre-programmed or accessible to the user-interface. Disk
data read/write devices are provided for reading encoded
information from a disk or other medium. Optimally, write-to-disk
capabilities are included, permitting a section of the disk to
contain analytical data generated from assays performed on the
disk. This option is not advantageous in uses of the disk where the
disks are contaminated with biological or other hazards, absent
means (such as sterilization) for neutralizing the hazard. The
device can also include external actuators comprising optical
magneto-optic, magnetic and electrical components to actuate
microvalves and initiate processes on the disk, as well as external
detectors and sensors or components of detectors and sensors that
operate in concert with other components on the disk, including
analytic and diagnostic devices. Cerain of these aspects of the
disk micromanipulating device are illustrated in FIGS. 14A through
14F.
[0221] Disk data processors are also advantageously incorporated
into the devices of the invention which enable processing and
manipulation of encoded disk data. These components include
software used by the micromanipulator CPU, programmable circuits
(such as FPGAs, PLAs) and dedicated chipsets (such as ASICs). Also
provided are assay processors for processing data arising from
events and assays performed on the disk and detected by external
detectors or communicated from on-disk components. The device also
advantageously comprises a central processing unit or computer
which will allow processing of disk data and assay results
data-analysis (through preprogramming); additionally, conventional
computer capabilities (word-processing, graphics production, etc.)
can be provided.
[0222] A user interface, including keypads, light-pens, monitors,
indicators, flat-panel displays, interface through communications
options to host-devices or peripheral devices, and printers,
plotters, and graphics devices are provided as components of the
microplatform micromanipulating devices of the invention.
Communication and telecommunications are provided through standard
hard-wired interfaces (such as RS-232, IEE-488M SCSI bus),
infra-red and optical communications, short-or long-range
telecommunications ("cellular" telecommunications radio-frequency),
and internal or external modem for manual or automated telephone
communications.
[0223] Disk information comprises both software written to the disk
to facilitate operation of the microsystem assays constructed
thereupon, and assay data generated during use of the microsystem
by the user. Disk information includes material written to the disk
(as optically encoded data) and information inherent to the disk
(e.g., the current status of a valve, which can be accessed through
magnetic pickup or through the reflective properties of the coating
material at the valve-position) Data written to the disk may
include but is not limited to the audio/video/test and machine
format information (e.g., binary, binhex, assembler language). This
data includes system control data used for initiation of control
programs to spin the disk, or perform assays, information on disk
configuration, disk identity, uses, analysis protocols and
programming, protocols descriptions, diagnostic programs and test
results, point-of-use information, analysis results data, and
background information. Acquired data information can be stored as
analog or digital and can be raw data, processed data or a
combination of both.
[0224] System control data include synchronization data to enable
the micromanipulation device to function at the correct angular
velocity/velocities and accelerations and data relating to physical
parameters of disk. Disk configuration and compatibility data
include data regarding the type of disk (configuration of on-disk
devices, valves, and reagent, reaction and detection chambers) used
to determine the applicability of desired testing protocols; this
data provides a functional identity of the type of disk and
capabilities of the disk. It can be also form part of an
interactive feedback system for checking microsystem platform
components prior to initiation of an assay on the disk. Disk
identify and serial numbers are provided encoded on each disk to
enable exact identification of a disk by fabrication date, disk
type and uses, which data are encoded by the manufacturer, and user
information, which is written to the disk by the user. Also
included in disk data is a history of procedures performed with the
disk by the user. Also included in the disk data is a history of
procedures performed with the disk, typically written for both
machine recognition (i.e., how many and which assays remain unused
or ready for use), as well as information written by the user.
[0225] FIGS. 30-32 display the action of software encoded on the
disk used for controlling the device driving the disk. FIG. 30
displays the process flow. The control program, encoded as data on
the disk, is read through conventional means, for example, by the
laser of an optical storage medium (such as a compact disc or
"Laservision" disc) and decoded in the conventional way for loading
into the random access memory (RAM) of the micromanipulation
device. This program is then executed. In some applications,
execution of the program to completion will be automatic and
without active interaction with the user. In other applications the
user will be presented with a variety of options (typically, as a
menu) for running the program. As an example, user choices, such as
whether to run an exhaustive or limited set of diagnostics, test
procedures, analyses, or other disk functions, or to determine the
extent of detail and the method of reporting test results are
provided through the user interfaces.
[0226] FIGS. 31 and 32 show one specific set of programmed steps
for performing assays using the capillary microvalves disclosed
above; other arrangements of steps within the program will be
apparent to one of ordinary skill and readily integrated, for
example, for sending signals to activate microvalves and other
actuators. The program disclosed here consists of blocks in which
different rotation rates are set for varying amounts of time,
allowing for capillary valving, mixing, and incubation; mixing
program blocks, which (for example) put the spindle motor through
an oscillatory acceleration and deceleration, are possible but not
shown. These program blocks consist of outputting commands to
various electronic devices (motor, detectors, etc.) and reading
data from devices, yielding a measure of device and process status.
Provisions are shown in the program for halting the program if the
status is "bad" (such as motor cannot reach appropriate speed, door
to device cannot close, no power detected in light source for
spectroscopic measurements.). This condition can lead to a program
halt (as shown) or send the program back to the user for further
instructions via the interface.
[0227] The program shown here additionally incorporates data
acquisition, data analysis, and data output blocks. The particular
acquisition process here involves using an encoded signal on the
disk-for example, an optical signal associated with a detection
chamber passing the detector-to gate acquisition of data. In this
way, data is acquired for a specific time when detection chambers
are in proximity to the detector. It is also possible to
continuously take data and use features in that data-for example,
the shape of the signal as a function of time, which might look
like a square wave for an array of windows on an otherwise opaque
disk-to determine what parts of the data are useful for analysis.
Data analysis could include non-linear least-squares fitting,
linear regression of data as function of time, or end-point
analysis (data at an end-point time for a reaction), as well as
other methods. Data output may be in the form of "yes/no" answers
to the user interface, numeric data, and storage to internal or
external storage media.
[0228] All component parts of this program need not be contained on
the disk. For example, the program can be resident in the computer
and designed to read the disk itself to obtain the rotation
velocity profiles necessary for using the disk. All other aspects
of the program-such as when and how to read and analyze data-can be
part of a dedicated program or read from other media.
[0229] Analysis/test protocol data are descriptions of tests and
analyses which can be performed with a disk. These data can be a
simple as a title given the disk, or can contain a detailed
description of disk use, data analysis and handling, including test
protocols and data analysis protocols. Analysis/test protocol
programming is provided that can be used as systems-specified
subroutines in more general software schemes, or can be fed into
programmable logic so that the device can perform the desired
analyses. Analysis/protocol descriptions are provided, as audio,
video, text or other descriptions of analytic processes performed
on disk, including background information, conditions for valid
use, precautions, and other aspects.
[0230] Encryption and verification data/programming is provided to
ensure the security of the programming and data generated in the
analyses performed by the disk. Encryption/de-encryption routines
are used to restricted access to data contained on the disk. Such
routines also used in medical diagnostic applications.
[0231] System self-diagnostics are also provided. System
diagnostics include diagnostic test results on detector function,
status of reagent chambers, valves, heating elements, and other
components, stored in disk-memory or written to the disk by a
separate device used at the time of diagnostics.
[0232] Point-of-use information is encoded on the disk at its
point-of-use (sample loading, e.g.) in the form of video, audio, or
text images, including, for example location, time and personnel.
Also included in point of use information is test result data,
recorded by the disk itself or by a disk player/reader at the time
these procedures were performed.
[0233] Certain data are inherent to the disk and are accessible
through the micromanipulation device. These include sample adequacy
test data, which records the presence or absence of samples or
reagents at appropriate reservoirs and other fluid handling regions
of the disk, and can be accessed through external detectors and
sensors. Valve status is also recorded, including the record of the
change in valve status during a procedure performed in the disk.
Valve status is determined, for example, by using magnetic pickups
in the device applied to magnetic valve mechanisms; status can also
be visible through optical windows on the disk. The presence of
radioactive, chemical or biological contaminants on the external
surface of the disk can be recorded upon detection by sensors
comprising the device, optimally resulting in a warning message
delivered to a user interface such as a display or print-out.
[0234] Disk data and information are stored using a variety of
media, including both the recording medium of the disk material
(i.e., reflective properties of an optically-read disk, most
preferably a read/write CD-ROM) and by the device itself using
electronic components. Information is encoded using conventional or
modified technologies used for computer information storage. Video,
audio, and text information is digitized using methods developed by
the digital video, audio, and computer industries. Analog signals
arising from test procedures, such as a signal observed in a
photodiode detector or photomultiplier tube, are converted through
analog-to-digital conversion regimes or may be supplied in raw or
amplified form through external jacks for processing off-disk or
off-device. Various embodiments of the disk manipulation device of
the invention include the capacity to both read and write data to
the disk or to use read-only data from any of these media types.
Encryption and authentication codes can be used for security
purposes. Disk data storage media include optical media, utilizing
reflecting/non-reflecting flats and pits on a surface, using
technology adapted from audio CD, CD-ROM, and "Laserdisc"
technology, and barcodes. Magnetooptic and magnetic media are also
within the scope of this aspect of the invention, using
conventional computer magnetic storage media. Electronic data
storage means are also provided, using the status of internal
arrays of electronic components (FPGAs, PLAs, EPROM, ROM, ASICs, IC
networks) for information handling. Chemical recording means,
including simple chromatographic staining of a detector section or
chamber of the device, is also disclosed to provide a simple visual
record of a test result. This simple chemical recording means
provides an avenue to at-home diagnostic without the need for an
expensive device more sophisticated in capabilities than required
to determine an assay amenable to simply the presence or absence of
chemical markers.
[0235] Software and Communications
[0236] Software providing the information and instruction set for
microsystem performance, quality control, data acquisition,
handling and processing, and communications is included within the
scope of this invention. For the purposes of this invention, such
software is referred to as "machine language instructions." Control
and analysis software is advantageously provided in high-level
languages such as C/C++, Visual Basic, FORTRAN or Pascal. Drivers
are provided for interface boards (either internal to the device or
to a host computer interfaced with the device) which translates
instructions on the host computer's bus into micromanipulator
commands. Additionally, drivers for experiment-control software
such as LabView may be created, again using conventional,
industry-standard interface protocols. These applications are most
preferably capable of being run on a number of popular computer
platforms, including UNIX/Linux, X-windows, Macintosh, SGI,
etc.
[0237] Control and analysis can also be performed using dedicated
chipsets and circuitry, ROM, and EPROM. For example, test validity
can be insured (at least in part) through the use of ROM-based test
procedures, in which all programming is performed at the
point-of-manufacture without possibility of end-user corruption.
Separate application software can also be developed so that data
from a disk-player can be analyzed on non-controller platforms,
using available applications (such as Excel, Clarisworks,
SigmaPlot, Oracle, Sybase, etc.).
[0238] Because some applications of the disk technology disclosed
herein involve important questions related to human health, disk
diagnostic software must be able to analyze diagnostics of the
disk, its contents (samples, reagents, devices), the player, and
analysis software to ensure result validity. Types of information
used by this diagnostic software include sample adequacy and flow,
verification of disk format and software/test procedure
compatibility, on-and off-disk software tests, quality control
monitoring of disk manufacture (for example, channel placement and
alignment), viability, positioning and functionality of on-disk and
off-disk sensors and detectors, diagnostics of player
communications and microprocessor, microprocessor/CPU, power
stability, etc.
[0239] Diagnostics of mechanical and electronic components are
performed in ways familiar to those proficient in the art. Software
self-diagnostics are achieved using checklist/verification of
software routines and subroutines to detect incompatibility with
system hardware (from either the micromanipulation device or the
disk) or with other components of system software.
[0240] Sample-related disk diagnostics include assays of flow,
sample adequacy, and reagent adequacy, type and quality for the
assay to be performed. Device-related disk diagnostics include
checks of detector/sensor function, electronic components
self-test, valve control, and thermal control tests. Software
diagnostics provide self-testing of software components encoded in
the disk or in the device, corruption safeguards, read-only and
read-write tests. Disk format is also checked using disk
diagnostics, ensuring that the disk format and assay type are
properly read and are in agreement with the protocol held in the
device memory.
[0241] On-disk software includes read-only software, available as
ROM, specifically CD-ROM, for diagnostics, assay control and data
analysis. Read -only software is designed for specific procedures
and processes which cannot be altered and insure proper usage of
the disk and fail-safe against corruption by the user. Software may
also be embodied within the encoding medium (optical, magnetic,
etc.) or an alternate medium (such as barcodes). Re-programmable
software (such as FPGAs, PLAs, EPROMs, or IC arrays) can be
reprogrammed by the disk micromanipulation device or devices
designed for this purpose. Similar types of software are
alternatively provided on-device. In either case, a user-interface
through keyboard, touchpad and/or display components of the device
is provided.
[0242] Applications software is provided in read-only or
re-programmable software formats. Included in this component of the
fluidics micromanipulation apparatus of the invention is software
that can be read from standard computer data storage medium.
Examples include medical or analytic diagnostic programs reliant on
integrated data-bases which are contained within disk or device
memory, or that can be accessed from networked workstations, or
access on-line services, such as a newsletter and news services,
and software for the production and analysis of images, including
pattern recognition, statistical analysis software, etc.
[0243] Integration of control and applications software can be made
through the use of either a unique operating system developed for
the disk and micromanipulator of the invention, or by adaptation of
existing OS. Optimally, the OS uses authoring software to combine
text, graphics, video and audio into an easy to use, "point and
click" system. Such as OS could also provide an object-oriented
environment or facsimile thereof (e.g., LabView-based systems) for
customizing programming by sophisticated users, as well as
providing for the development of additional software by the disk
reader/player manufacturer or independent software developers.
[0244] The OS can also be chosen to allow design of disks and
disk-based assays. Mechanical design, including simulation of
rotational dynamics and stability and fluid flow simulation are
advantageously encompassed in a disk design software package.
[0245] Communications aspects of the invention include hardware and
software embodiments relating to data input and output from a user
or to remote control and analysis sites. Hard-wired communications
features include high-speed data-, video- or image-transmission and
communication through local busses (e.g., a VGA bus for video
signals) and conventional hard-wired interfaces (e.g., RS-232,
IEEE-488, SCSI bus), Ethernet connections, Appletalk, and various
local area networks (LANs). Telecommunications devices include
cellular transceivers for short-range communications,
radio-frequency and micro-wave transceivers for long-range
communications, and internal or external modem for manual or
automated telephone communications. Video in/out ports, analog
out-lines for data transmission, input jacks for input of analog
signals from other instruments, and optical and infra-red
communications ports are also provided for communications with
peripheral instruments.
[0246] Configurations of the Fluidics Micromanipulation Apparatus
for Certain Applications
[0247] The micromanipulation device includes various combinations
of hardware and software as described above. FIG. 15 is an
illustration of the general combination of communication, device,
detection, and control instrumentation in a device. Certain
applications may not have certain features, for example, portable
units may not have graphical user interfaces. The micromanipulation
device can be a "stand-alone" device, or a peripheral instrument to
a larger assemblage of devices including, for example, computers,
printers, and image-processing equipment, or a host for peripheral
elements such as control pads, data entry/read -out units (such as
Newton-type devices or equivalent), or an integrated system. The
device in all embodiments comprises hardware to rotate the disk at
both steady and variable rates and systems for monitoring rotation
rate. The device can also include devices to initiate sample and
disk diagnostics, perform "external" tests and detection as
described herein, initiate sample and disk diagnostics, perform
"external" tests and detection as described herein, initiate
analyses on-disk through specific actuators such as valves, read
disk-inherent information and information encoded in the disk or
other data/information storage media information, and in some
applications write information to the disk.
[0248] Additional elements in the device, including system control,
data processors, array of assay processors, external detectors,
external actuators, assay out and data out lines, communications,
and software, are device-and/or application-specific.
[0249] For example, in a "point-of-use" portable or home-use
application, sample loading is followed by initiation of the
player's program. System control can be provided by front-panel
controls and indicators which can access a variety of programs
stored in the disk or the device. These "hard-wired" programs
utilize controller circuitry to read or read/write operations from
or to disk or memory, and/or perform tests using external devices.
The device can be designed for performance of a single procedure,
or can be pre-programmed to perform a set of procedures or multiple
embodiments of the same procedure using a single disk. Device
actuation is optimally obtained with the pressing of a single
button. These processor(s) and data processors(s) of this type of
device comprise circuitry and chipware designed to process analysis
data (assay processor) and encoded data (data processor).
Information from these processors can be available for output to
the user on a front-panel or video display and can also be used
internally to ensure correct operating conditions for the assay.
This internal information processing can include the results of
systems diagnostic tests to insure disk identity and test type
compatibility; the presence of reagent and sample as determined
through light absorption through a detector port scanning reagent
and sample reservoirs; the presence of contamination detected
before testing begins, and the results of self-diagnostics on
external detectors and actuators. These results are used by the
system controller to determine whether the requested test can be
performed.
[0250] After loading and activation, analysis results can be stored
internally in electronic memory or encoded upon the disk. The
results of these analyses and procedures are then routed to the
front-panel display (flat-panel LCD, etc.) using appropriate video
drivers. Processed assay data can also be routed to one of many
standard digital I/O systems including RS-232, RS-232C, IEEE-488,
and other systems familiar from digital I/O and interface.
Similarly, encoded disk data can be routed to the audio/visual
display. Raw analog signals can also be switched to one or more
external jacks for off-device storage or processing.
[0251] An embodiment of the least technically sophisticated device
is a portable unit no larger than a portable audio CD player
consisting of disk-drive, controllers and selectors for
programmable or pre-programmed angular acceleration/deceleration
profiles for a limited number of procedures. Such a device is
advantageous for on-site toxic-chemical/contamination testing.
Analyte to be tested is introduced to the disk, which is inserted
into the player and the appropriate program chosen. -Analysis
results are stored on the disk, to be later read-out by a larger
player/reader unit, and/or displayed immediately to the user.
Results can also be stored as the inherent state of an indicator
(positive/negative status of litmus paper in different cuvettes,
for example), with no other data collection or analysis performed
by the device. This data would be accessed by a larger
player/reader or by other means outside the field-work environment.
Information about the location, time, and other conditions of
sample collection are entered through the user interface.
[0252] Another embodiment is a stand-alone device with active
communications capabilities and greater functionality. An exemplary
application for such a device is as a home blood-assay unit. This
device is used by an individual placing a drop of blood on the
disk, inserting the disk, and initiating the assay, preferably
simply by pressing a single button. One or more analytical
procedures are then performed. Assay data is transferred to
software which performs the requisite analysis, either on-disk or
within the device. The device can also be permanently or
temporarily attached to the home-telephone line and automatically
transmit either raw or reduced data to a computer at the central
location is used to analyze the data transmitted, compare the data
with accepted standards and/or previous data from the same patient,
make a permanent record as part of a patient's device a
confirmation of receipt of the data, perhaps the data analysis, and
advice or suggested/recommended course of action (such as
contacting the physician).
[0253] A desk-top peripheral/host application station constitutes a
device as described above with the ability to accept instructions
from and respond to a host computer over one of many possible
data-protocols. The system is capable of acting as host or can
transmit data to peripherals or other networked devices and
workstations. Remote accessing of pre-programmed functions,
function reprogramming, and real-time control capabilities are also
provided.
[0254] Yet another embodiment of this application is a centralized
or bedside player/reader device with associated software located as
a nurses' station in a hospital. As tests are performed on disks,
the information is relayed to a physician by telephone, facsimile
or pager via short-range transceiver. Patient identity can be
entered at the time of sample collection by the use of bar codes
and light pens attached to the device, providing the advantage of
positive patient/sample identification.
[0255] The device can also be provided having the
above-capabilities and functionality's and in addition having an
interface with an integrated computer having high-resolution
graphics, imageprocessing and other features. The computer provides
control of the device for performing the functions described above
for the peripheral system, while physical integration greatly
increases data-transmission rates. Additionally, the integrated
system is provided with extensive analysis software and background
data-bases and information. Disk-storage cassettes of carousals are
also an advantageous feature of such system. An integrated system
of this type is useful in a large, analytical laboratory
setting.
[0256] A self-contained system is useful for applications in
isolated environments. Examples include devices used in remote or
hostile setting, such as air, water and soil testing devices used
in the Arctic for environmental purposes, or for use on the
battlefield for toxic chemical detection.
[0257] The microsystem platforms provided by the invention are also
useful for preparing samples for other analytical instruments, such
as mass-spectrometers, gas chromatographs, high pressure liquid
chromatographs, liquid chromatographs, capillary electrophoresis,
inductively-coupled plasma spectroscopy, and X-ray absorption
fine-structure. In some application, the final product is removed
from the disk to be analyzed.
[0258] Samples can be pre-concentrated and purified on the device
by incorporating aqueous twophase separation systems. This can be
done, for example, by mixing two phases which separate from each
other based on thermodynamic differences like polyethylene glycol
(PEG) and dextrans; biopolymers are usefully separated using this
method. Alternatively, environmental tests such as calorimetric
analysis can be enhanced by incorporating cloud-point separations
to concentrate and enhance optical signals. In addition, small
scale counter-current chromatography can be performed on the device
(see, Foucault, 1991, Anal. Chem. 63: PAGE). Centripetal force on
the disk can be used to force different density fluids to flow
against each other, resulting in separation of components along a
density gradient to develop the chromatogram.
[0259] Applications and Uses
[0260] The microsystem platforms and micromanipulating devices that
make up the fluidics micromanipulation apparatus of the invention
have a wide variety of microsynthetic and microanalytic
applications, due to the flexibility of the design, wherein fluids
are motivated on the platform by centripetal force that arises when
the platform is rotated. What follows is a short, representative
sample of the types of applications encompasses within the scope of
the instant invention that is neither exhaustive or intended to be
limiting of all of the embodiments of this invention.
[0261] The invention is advantageously used for microanalysis in
research, especially biological research applications. Such
microanalyses include immunoassay, in vitro amplification routines,
including polymerase chain reaction, ligase chain reaction and
magnetic chain reaction. Molecular and microbiological assays,
including restriction enzyme digestion of DNA and DNA fragment size
separation/fractionation can also be accomplished using the
microsystem disks of the invention. Microsynthetic manipulations,
such as DNA fragment ligation, replacement synthesis, radiolabeling
and fluorescent or antigenic labeling can also be performed using
the disks of the invention. Nucleic acid sequencing, using a
variety of synthetic protocols using enzymatic replacement
synthesis of DNA, can be performed, and resolution and analysis of
the resulting nested set of single-stranded DNA fragments can be
separated on the disk, identified and arranged into a sequence
using resident software modified from such software currently
available for macroscopic, automated DNA sequencing machines. Other
applications include pH measurement, filtration and
utralfiltration, chromatography, including affinity chromatography
and reverse-phase chromatography, electrophoresis, microbiological
applications including microculture and identification of
pathogens, flow cytometry, immunoassay and other heretofore
conventional laboratory procedures performed at a macroscopic
scale.
[0262] An illustrative example is immunoassay. While there exist a
multiplicity of experimental methodologies for detecting
antigen/antibody interactions that are in research and clinical use
at the present time, the most robust immunoassay protocols involve
"sandwich"-type assays. In such assays, an immobilized antibody is
presented to a sample to be tested for the antigenic analyte
specific for the immobilized antibody. A second antibody, specific
for a different epitope of the same antigen is subsequently bound,
making a "sandwich" of the antigen between the two bound
antibodies. In such assays, the second antibody is linked to a
detectable moiety, such as a radiolabel or fluorescent label, or a
enzymatic or catalytic flnctionality. For example, horseradish
peroxidase or alkaline phosphatase are used to produce a color
change in a substrate, the intensity of which is related to the
amount of the second antibody bound in the sandwich.
[0263] An example of a disk adapted for performing such an
immunoassay is shown in FIG. 17Q. In this embodiment, the secondary
antibody is linked to alkaline phosphate (AP). The presence and
amount of AP activity is determined by monitoring the conversion of
one of the following exemplary substrates by the enzyme
calorimetrically: B-naphthyl phosphate converts to an insoluble azo
dye in the presence of a diazonium salt; 5-bromo-4-chloro-3-indolyl
phosphate is converted to 5,5'-dibromo-4-,4'-dichloro indigo in the
presence of cupric sulfate; or 4-methylumbelliferyl phosphate is
converted to 4-methylumbelliferone, which emits light at 450
nm.
[0264] In one exemplary embodiment, the reaction chamber comprises
an antibody specific for an antigen, where the antibody is
immobilized by adsorption of the antibody to the reaction chamber.
Contiguous with the reaction chamber is advantageously placed a
reagent reservoir containing a second antibody, this antibody being
liked to an enzyme such as alkaline phosphate. Sample, which may
contain an antigen of interest that is specifically recognized by
the above antibodies, is loaded at an inlet port. The disk is spun
to first introduce the sample into the reaction chamber containing
immobilized antibody, followed by introduction of the second
antibody into the reaction chamber after a time sufficient to
saturate the immobilized antibody with antigen to the extent the
antigen is present in the sample. Alternatively, the sample may be
contacted with the second antibody, allowed to interact, then
introduced into the reaction chamber. Incubation of the sample with
antibody is performed without spinning for about 1 minute. After
each incubation, washing buffer from a buffer reservoir is spun
into the reaction chamber in order to remove unbound antibody. For
alkaline phosphatase assays, solutions of 2 mg/mL o-dianisidine in
water, 1 mg/mL B-naphthyl phosphate in 50 mM boric acid/50 mM KCl
(pH 9.2) buffer and 100 mM magnesium chloride are delivered to the
reaction chamber in the appropriate amounts. The extent of
enzyme-linked, secondary antibody binding is evaluated by detection
of a purple precipitate using a photodiode or CCD camera.
[0265] A disk configured for immunoassay applications is shown in
FIG. 17R for illustration.
[0266] In an alternative embodiment of the immunological assays of
the invention, the invention provides a means for identifying and
quantitating the presence and number of particular cells or cell
types in fluids, most preferably biological fluids such as blood,
urine, amniotic fluid, semen and milk. In these embodiments of the
invention, the Microsystems platform comprises a chamber or solid
surface on the disk that is prepared to selectively bind the
particular cell or cell type. After attachment of the cells to the
surface, non-specific binding cells and other components are
removed by fluid flow (washing) or centrifugal force (comprising
the inertial flow of fluid in response to the centripetal
acceleration of the disk). The cells of interest that remain
attached to the microplatform surface or chamber are the detected
and quantified using means including but not limited to
microscopic, spectroscopic, fluorescent, chemiluminescent, or
light-scattering means. The invention also provides such cells
attached to a specific surface for toxicity monitoring, such as
metabolic monitoring to determine the efficacy of bioactive drugs
or other treatments. Ordered arrays of such surface are provided in
certain embodiments to facilitate a complete determination of the
purity and sterility of certain biological samples, and for cell
cytometric and cytometry applications.
[0267] The surface or chamber of the disk for specific binding of
the particular cells or cell types of interest is prepared to
provide specific binding sites therefor. Typically, an antibody,
preferably a monoclonal antibody, is attached to the surface or
chamber, wherein the antibody is specific for a cell surface
antigen expressed on the cell or cell type of interest.
Alteratively, a ligand specific for a cell surface receptor
expressed on the particular cell or cell type of interest is used
to provide a specific attachment site. Arrays of specifically
prepared surfaces or chambers are provided on certain embodiments
of the disk. Surfaces and chamber are provided, for example, by
contacting the surface with a solution of an appropriate antibody.
In the practice of these preparation methods, contact of the
surface with the antibody is followed by contacting the surface
with a non-specific blocking protein, such as bovine serum albumin.
Antibodies and blocking proteins can be contacted with the surface
or chamber using a piezoelectrically driven point head (such as are
used in ink-jet printing applications) can be advantageously used
for this purpose. Alternatively, screen printing, or spraying the
antibody solution on the chamber or surface using an airbrush can
be employed. These methods are preferred in preparing surfaces and
chambers in the 0.1-10 mm scale. In additional alternatives,
microlithographic and microstamping techniques can be used to
prepare the surface or chamber.
[0268] In the practice of the invention, a biological or other
fluid sample containing the particular cell or cell type of
interest is applied to the prepared surface or chamber and allowed
in contact with the prepared surface or chamber for a time
sufficient to allow specific binding of the cells or cell types to
the surface. As contact with the surface may be inhibited by cell
settling properties in the volume of the fluid, chambers and
surfaces having minimized height transversely through the
microsystem platform are preferred.
[0269] Non-specific cell binding is minimized or eliminated from
the chamber or surface by washing the surface or chamber with a
fluid amount sufficient to remove such non-specific binding.
Washing is accomplished by simple bulk flow of fluid over the
surface or chamber, or by centrifugation.
[0270] After washing, cells that remain attached to the surface or
chamber are detected and counted. In a preferred embodiment,
detection and counting is achieved using fluorescence microscopy.
In the practice of the invention, specific dyes can be used to
provide a fluorescence signal for any live cells remaining of the
disk. The dye can be added directly to the surface or chamber, for
example using a membrane-permeant dye, such as acetoxy-methyl ester
dyes. Alternatively, specific antibodies can be linked to such
dyes. Dyes can be added to the biological fluid comprising the
cells prior to introduction onto the microsystem platform, or such
dyes can be contacted with the cells in situ on the disk. The
presence of the cells is detected using a fluorescence detector
comprising a light source, a source filter, a dichroic filter or
mirror, an emission filter, and a detector such as a
photomultiplier tube.
[0271] In another example, thin-layer chromatography is
accomplished on a microplatform disk comprising 100 pm square
cross-section channels radiating outward from the center of the
disk. Each channel is filled with separation substrate, which
typically contains a binder material (0.1-10%) such as starch,
gypsum, polyacrylic acid salts and the like, to provide mechanical
strength and stability. (The use of such compounds in conventional
TLC applications is discussed in Poole et al., 1994 Anal. Chem. 66:
27A). Sorbents are also included in the materials comprising the
separation -channels, including for example cellulose, polyamide,
polyethylene powders, aluminum oxide, diatomeceous earth, magnesium
silicate, and silica gels. Such substrates can be modified for
example with silanizing molecules, such as dimethyl-, ethyl-octa-
and 3-aminoprophy-silanes. Preferentially the separation substrate
contains sorbent-impregnated fiber glass or PFTE matrices.
[0272] Sample is loaded via a port located proximal to the center
of rotation of the disk. Upon spinning the disk, a mobile phase is
allowed to flow outward through the separation substrate, carrying
sample components to the periphery of the disk at characteristic
rates. The mobile phase can be chosen from a multiplicity of
appropriate solvent systems. including hexane, methanol and
dichloromethane. Choice of a particular solvent depends on the
nature of the disk material, the separation substrate and the
components of the sample to be separated. Similarly, the choice of
visualization reagents used to detect separated sample components
are specific for the substances separated. For example, ninhydrin
is used to detect amino acids; alimony chloride is used plus
potassium permanganate for hydrocarbons; sulfuric acid plus
anisaldehyde for carbohydrates; and bromine for olefins. Imagine of
separation channels after separation is achieved using a CCD
camera. A disk configured for him layer chromatography applications
is shown in FIG. 17R for illustration.
[0273] Medical applications using the Microsystems of the invention
are abundant and robust. Various embodiments of the invention
provide for at-home, bedside, hospital and portable devices for
rapid analysis of blood components, blood gases, drug
concentrations, metabolities and infectious agents. In at-home
monitoring embodiments, the invention provides a simple,
easy-to-use consumer friendly device requiring a patient to add a
blood droplet, urine sample or saliva sample to a specific
application region on the disk, insert the disk in the device and
start the device by pushing a button. In a hospital setting, both
bedside and clinical laboratory embodiments are provided, wherein
the bedside embodiment is advantageously linked electronically to a
central processing unit located, for example, at a nurses station,
and the clinical laboratory embodiment comprises a medical
reference library for rapid, automated diagnostics of patient
sample. The medical applications of the instant invention include
blood testing (such as monitoring platelet counts in patients being
treated with chemotherapeutic drugs); immunoassay for metabolites,
drugs, and other biological and other chemical species; vaccine
efficacy monitoring; myeloma or lupus erythematosus monitoring;
determination of blood glucose and/or ketone body levels in
patients with diabetes; automated cholesterol testing: automated
blood drug concentration determination; toxicology; monitoring of
electrolytes of** other medically-relevant blood component at a
patient's bedside; sepsis/endotoxin monitoring; allergy testing;
and thrombus monitoring.
[0274] The invention also provides analytical instruments for
environmental testing, industrial applications and regulation
compliance. Portable, preferably hand-held embodiments, as well as
more extensive embodiments, installed as part of an industrial
quality control regime, are provided. Applications for these
embodiments of the invention include analyte testing, particularly
testing for industrial effluents and waste material, to be used for
regulatory compliance; and quality control of industrial, most
advantageously of human consumable items, particularly
pharmaceuticals and specifically endotoxin determinations.
Application for testing, mixing and evaluating perfumes and other
complex mixtures are also within the scope of the invention.
[0275] The invention also provides chemical reaction and synthesis
modeling, wherein a reaction scheme or industrial production regime
can be tested and evaluated in miniaturized simulations. The
invention provides for cost-effective prototyping of potential
research, medical and industrial chemical reaction schemes, which
can be scaled to macroscopic levels after analysis and optimization
using the Microsystems platforms of this invention.
[0276] A variety of other applications are provided, including
microsynthetic methods and forensic applications.
[0277] The following Examples are intended to further illustrate
certain preferred embodiments of the invention and are not limiting
in nature.
EXAMPLE 1
Fabrication of Microplatform Disks for Chemical Analysis,
Synthesis, and Applications
[0278] Microplatform disks of the invention are fabricated from
thermoplastics such as teflon, polyethylene, polypropylene,
methylmethacrylates and polycarbonates, among others, due to their
ease of molding, stamping and milling. Alternatively, the disks can
be made of silica, glass, quartz or inert metal. A fluid handling
system is built by sequential application of one or more of these
materials laid down in stepwise fashion onto the thermoplastic
substrate. FIGS. 17A through 17E are a schematic representation of
a disk adapted for performing DNA sequencing. Disks of the
invention are fabricated with an injection molded, optically-clear
base* layer having optical pits in the manner of a conventional
compact disk (CD). The disk is a round, polycarbonate disk 120 mm
in diameter and 100 pm thick. The optical pits provide means for
encoding instrument control programming, user interface
information, graphics and sound specific to the application and
driver configuration. The driver configuration depends on whether
the micromanipulation device is a handheld, benchtop or floor
model, and also on the details of external communication and other
specifics of the hardware configuration. This layer is then
overlaid with a reflective surface, with appropriate windows for
external detectors, specifically optical detectors, being left
clear on the disk. Other layers of polycarbonate of varying
thickness are laid down on the disk in the form of channels,
reservoirs, reaction chambers and other structures, including
provisions on the disk for valves and other control elements. These
layers can be pre-fabricated and cut with the appropriate
geometries for a given application and assembled on the disk.
Layers comprising materials other than polycarbonate can also be
incorporated into the disk. The composition of the layers on the
disk depend in large part on the specific application and the
requirements of chemical compatibility with the reagents to be used
with the disk. Electrical layers can be incorporated in disks
requiring electric circuits, such as electrophoresis applications
and electrically-controlled valves. Control devices, such as
valves, integrated circuits, laser diodes, photodiodes and
resistive networks that can form selective heating areas or
flexible logic structures can be incorporated into appropriately
wired recesses, either by direct fabrication of modular
installation onto the disk. Reagents that can be stored dry can be
introduced into appropriate open chambers by spraying into
reservoirs using means similar to inkjet printing heads, and then
dried on the disk. A top layer comprising access ports and air
vents, ports or shafts is then applied. Liquid reagents are then
injected into the appropriate reservoirs, followed by application
of a protective cover layer comprising a thin plastic film.
[0279] A variety of other disk configurations are disclosed in
FIGS. 17F through 17P, adapted for particular applications as
described in the FIG. 1egends.
EXAMPLE 2
Blood Composition Determination
[0280] Blood composition can be determined via hematocrit analysis
using an analytic microplatform disk prepared as described in
Example 1 held within a device comprising a microchannel layer with
a number of microchannels as shown in FIG. 18. The microchannel
layer is 100 pm thick and treated with heparin to prevent
coagulation during the assay. The blood sample to be analyzed is
drawn by capillary action into a channel arranged perpendicular to
the direction of rotation, as shown in FIG. 18; a number of such
channels may be arranged radially on the disk. When all samples to
be tested have been drawn into the channels, the disk is spun at a
speed of 8000 to 10,000 rpm to effect sedimentation of erythrocytes
within the channel. Once centrifugation has been performed for an
appropriate time (3 to 5 minutes), the hematocrit of each sample is
determined simultaneously by stroboscopic interrogation of each of
the channels using a conventional CD laser system in the device
described above. When the laser passes the boundary of
erythrocytes, the change in light scattering pattern detected by
the photodiode detector is converted into a hematocrit value based
on a standardized set of light scatter/hematocrit information
stored in the internal processor and memory of the device.
Alternatively, the raw information is relayed via a infrared port
or hard-wired interface to a microprocessor for analysis. Such a
central microprocessor is on site or in the alternative at a
centralized location, such as a nursing station in a hospital or in
a medical center connected to the hematocrit determining device by
telephone or other dedicated connection. Hematocrit can be
determined by untrained individuals (including patients) by the
simple application of a blood droplet produced by lancet onto the
disk, followed by the simple application of the device and
automated hematocrit analysis and data processing on site or
transmission to a central location of trained medical personnel.
This embodiment of the invention provides for chronic monitoring of
patients having hematopoietic proliferative disease (such as
leukemia, lymphoma, myeloma, and anemias).
[0281] In addition, blood gas can be determined using the above
device in combination with a disk having integrated electrodes
embedded within the hematocrit channel, or having a separate
channel devoted to blood gas determination on the hematocrit disk.
Blood oxygenation (PO.sub.2) is determined by a Clark-type
electrode consisting of a thin Cr--Au cathode and an Ag--AgCl wire
anode. The amount of carbon dioxide in the blood is determined by a
Severing-type electrode using an ISFET (a type of field effect
transistor) as a pH monitor. Blood pH is determined with the use of
a Sl.sub.3N.sub.4 gate ISFET with a reference electrode consisting
of a liquid junction and an Ag--AgCl wire electrode. Further
examples of such analytical methods for determining blood gases,
electrolyte concentration and other information advantageously
performed using the hematocrit disk or alternate variations of this
disk are described as modifications of the macroscopic-scale
methods of Shoji & Esashi (1992, Sensors and Actuators B 8:
205).
[0282] Blood analysis are also performed using split-flow thin cell
(SPLITT) fractionation as described by Bor Fuh et al. (1995,
Biotechnol. Prog. 11: 14-20). A schematic representation of a disk
configured for SPLITT analysis is shown in FIG. 19. This process
can produce enriched fractions of proteins and lipoproteins,
platelets, erythrocytes, lymphocytes, monocytes, and neutrophils. A
non-contiguous circular channel is etched into the disk
incorporating a thin wall at either end (FIG. 19), the inlet stream
splitter. Sample and carrier streams are introduced at opposite
sides of one end, and the chamber is spun in that direction. Within
the spinning chamber two distinct splitting planes are set up based
on hydrodynamic forces, the inlet splitting stream (ISP) and the
outlet splitting stream (OSP). The ISP is adjustable by regulating
the ratio of the sample to the carrier streams. Depending on the
method of sample input two distinct separation modes are possible,
the equilibrium and transport modes.
[0283] In the equilibrium mode separation is based on the
equilibrium of the components in relation to the applied
centrifugal field. Separation is optimized by adjusting the outlet
flow ratio. The enriched fraction can then be collected from either
side of the outlet stream splitter. In the transport mode the
components are introduced as a thin lamina above the ISP. Based on
the difference in sedimentation coefficients components with a
higher transport rate are selectively directed to the opposite
sides of the outlet valves at the orifices. Variable flow valves
are described elsewhere in this document. In another embodiment
each SPLITT chamber may be dedicated to the separation type
required of it, ISP or OSP, and the flow regulated by fixed
flow-restriction orifices.
[0284] In order to fully fractionate blood into the
above-identified fractions, five separations, each yielding two
fractions, are performed. One embodiment of the Microsystems disk
of the invention used for this type of fractionation is shown in
FIG. 19. Five concentric SPLITT cells are illustrated in this
Figure, labeled C1, (close to the center of rotation) through C5
(toward the periphery). A blood sample is introduced into C1 and
subjected to a transport mode separation by rotating the disk at
the appropriate speed. Platelets and proteins (fraction 1) are
fractionated toward the center of rotation and blood cells
(fraction 2) move toward the periphery. Fraction 1 is routed to the
inlet of C2 while fraction 2 is routed to C3 by the opening and
closing of appropriately-positioned valves on the disk. The
fractions are then subjected to transport and equilibrium mode
separations respectively. Using these techniques, Fraction 1
results in platelets toward the center of rotation and proteins
toward the periphery. Fraction 1 results in platelets toward the
center of rotation and proteins toward the periphery. Fraction 2
yields fractions 3 and 4, consisting of lymphocytes and monocytes
toward the center of rotation and erythrocytes and neutrophils
toward the center of rotation and monocytes toward the periphery.
Fraction 4 yields neutrophils toward the center of rotation and
erythrocytes toward the periphery. Thus, fractionation of blood
into five isolated components is achieved.
[0285] The activity of enzymes in the protein fraction can be
determining using immobilized enzymes (Heineman, 1993, App.
Biochem. Biotech. 41: 87-97). For example, blood-specific enzymes
(such as glucose oxidase, alkaline phosphatase, and lactate
oxidase) can be immobilized in poly (vinyl alcohol (PVAL). Lactate
oxidase is immobilized on platinized graphite electrodes by
sandwiching a thin layer of enzyme between two layers of PVAL. The
sensor responds to lactate by the electrochemical oxidation of
hydrogen peroxide generated by the enzyme-catalyzed oxidation of
lactate that diffuses into the network. The current produced is
proportional to the concentration of peroxide, which in turn is
proportional to the concentration of lactate. This sensor has been
shown to be sensitive to lactate concentrations ranging form 1.7-26
uM.
[0286] Upon separation, each fraction is interrogated by detection
systems to determine the relative components of the fractions.
Alternatively, each fraction can be removed from the disk through
an outlet port for further study off-device. For example, each
fraction can be subjected to simple counting by passing the cells
in a thin steam past two electrodes comprising a resistance
monitor. As a cell passes through the electrodes a corresponding
rise in resistance is monitored and counted. These data are then
integrated relative to a standard set of particles distributed
according to size to determine the relative number of each cell
type in the original sample.
[0287] The fractions can be subjected to fluorescent antibody
staining specific to each cell type. The cells are held in place by
micromachined filters integral to the channels (U.S. Pat. No.
5,304,487), stained and washed on the disk. The resulting labeled
cells can then be quantified as a function of the degree of
fluorescent staining associated with the cells.
EXAMPLE 3
DNA Sizing and Mutation Detection
[0288] DNA sizing and detection of specific mutations in DNA at a
particular site are carried out using double stranded melting
analysis with a disk prepared according to Example 1 and
illustrated in FIG. 20. A DNA meltometer (as described in co-owned
and co-pending U.S. Ser. No. 08/218,030, filed Mar. 24, 1994 and
incorporated herein by reference in its entirety) is advantageously
incorporated into the structure of the disk Example 1. The DNA
meltometer technique takes advantage of the fact that the
denaturing point of a DNA duplex is dependent upon the length, the
base composition, and the degree of complimentary of the two
strands in the duplex. A denaturing point may be determined in
relation to some physical state of the molecule (such as
temperature or the concentration of a denaturing chemical such as
urea or formamide, and a set of standard conditions employed, the
information derived from which can be stored in the microprocessor
and/or memory of the device. In order to size any particular DNA
duplex, one strand is immobilized on the disk by attaching it to a
streptavidin coated bead. The bead is retained by a filter machined
in to the channel (see U.S. Pat. No. 5,304.487). Alternatively, the
bead can be a paramagnetic bead retained in the channel by
application of a magnetic filed using a permanent magnet
incorporated into the disk of positioned in proximity to the
channel. An electromagnet can be used. The electromagnet can be
incorporated directly into the disk and actuated by application of
0.8volt DC at 500 mA. The other strand is labeled, typically using
a fluorescent dye or a radioactive isotope. Alternatively, the
distinct optical properties of the DNA molecule itself (i.e.,
hyperchromicity) are detected using unlabeled DNA molecules by
monitoring absorbence at 260 nm. Although this aspect of the method
requires a more sophisticated device to generate and detect
ultraviolet light, user preparation of the DNA is minimized and the
cost of DNA preparation per sample greatly reduced. In the practice
of the method of the invention, the immobilized, labeled duplex is
placed on the disk and subjected to a flow stream of a buffered
solution contained on the disk. During the development of the flow
stream, the DNA is further subjected to a controlled denaturing
gradient produced in the flow stream by the gradual addition of
denaturant to the DNA. With an effective radius of 3.5" and a
rotational speed of 600 rpm, a flow rate of 10 uL/min can be
generated in a channel 100 um in diameter. Four buffer reservoirs
each containing 300 uL can be incorporated into each quadrant of
the disk (800 um deep extending from a position at a radius of 25
mm to 50 mm). At lOuL/min, this will allow a melting ramp of 30
min. Each duplex dissociates at a characteristic concentration of
denaturant in the gradient, and can be identified in comparison
with standards the denaturant profile information of which is
stored in the microprocessor and/or memory of the device.
Denaturation is detected by interrogation downstream of the melting
chamber, using the appropriate detecting means (photooptical means
for ultraviolet absorption or fluorescence detection, or
radioisotope detectors (Geiger-Mueller counters) for DNA stands
labeled with radioisotopes).
[0289] Exemplary of the uses the disks and devices of this aspect
of the invention is the detection, identification and size
determination of DNA fragments produced by polymerase chain
reaction or magnetic chain reaction (the latter disclosed in U.S.
Ser. No. 08/375,226, filed Jan. 19, 1995, which is a file wrapper
continuation of U.S. Ser. No. 08/074,345, filed Jun, 9, 1993 and
Ser. No. 08/353,573, filed Dec. 8, 1994, each incorporated by
reference in its entirety). Amplification is carried out using one
primer labeled with a detectable label such as a fluorescent dye or
radioisotope, and the other primer is covalently attached to a
molecule that permits immobilization of the primer (e.g., biotin).
After amplification (either off-disk or on the disk as described in
more detail in Example 4 below), the labeled, biotinylated duplex
DNA product fragment is attached to a solid support coated with
streptavidin, for example, by movement of the amplification
reaction mixture into a channel or compartment on the disk wherein
the walls are coated with streptavidin, or by movement of the
amplification mixture into a compartment on the disk containing a
binding matrix such as Dynal M-280 Dynabeads (polystyrene coated
paramagnetic particles of 2.8 um in diameter). Standardized size
markers are included in the post-amplification compartment in order
to provide a reference set of DNA fragments for comparison with the
amplification product fragments. In this analysis, a number of
different duplex DNA molecules from either a multiplex
amplification reaction or a number of separate amplification
reactions may be sized simultaneously, each fragment or set of
fragments being distinguished from others by use of reaction- or
fragment-specific detectable labels, or differences in some other
physical property of the fragments. For amplifications performed
off-disk, beads attached to the fragment are loaded into a channel
on the disk capable of retaining the beads (such as size exclusion,
"optical tweezers" or by magnetic attraction). In the latter
embodiment, the magnetic retention means (permanent magnets or
electromagnets) are either integral to the disk, held on second
disk spinning synchronously with the first, or placed on the device
so as to immobilize the DNA fragments in the appropriate
compartment.
[0290] DNA size analysis is also performed essentially as described
above, whereby the retained particles are subjected to a thermal
denaturing gradient. For a thermal gradient used to denature the
bound DNA fragments, a Peltier heat pump, direct laser heating or a
resistive element is used to increase the temperature of the
binding compartment through the denaturation range by the gradual
addition of thermal energy. As above, a flow rate of 10 .mu.L/min
can be generated in a channel 100 .mu.m in diameter, allowing a
melting ramp of 30 min. The compartment is also subjected to a flow
stream as described above to elute the denatured, labeled stands
from the binding/melting chamber. Downstream from the
binding/melting chamber are appropriate means for detecting DNA
fragment denaturation, such as laser excitation at the resonant
frequency of the dye label and photodiode detection. The strength
and corresponding temperature of the raw absorbance or other signal
is integrated by the microprocessor and the size of each DNA
fragment determined by comparison to internal DNA size marker
controls and DNA melting profiles and characteristics stored in the
microprocessor and/or memory of the device.
[0291] DNA mutations are also detected by meltometer analysis. DNA
fragments to be tested (including amplification-derived fragments
and restrictions enzyme digestion or cloned fragments) are prepared
and hybridized with a bound standard (typically wildtype) copy of
the gene or gene fragment of interest. Hybridization is performed
either on-device or using conventional DNA hybridization methods
(as described in Hames & Higgins, Nucleic Acid Hybridization: A
Practical Approach, Rickwood & Hames, eds., IRL Press: Oxford,
1985). Elution of the hybridized fragments is dependent on the
degree of complimentary between the two species of DNA strands
(i.e., wildtype and mutant). Hybridization analysis is performed
using wildtype DNA that is prepared wherein one strand is
covalently attached to a molecule that permits its immobilization.
The non-covalently attached stand is then eluted by washing at a
temperature much greater than the T.sub.m of the duplex (typically,
the DNA is heated to >90.degree. C., or to lower temperatures in
the presence of denaturants such as formamide). Elution is
monitored to determine the concentration of bound single-stranded
product available for further hybridization; typically, the amount
of DNA eluted is monitored, for example by ultraviolet light
absorbance, and the bound DNA considered to be completely single
stranded when no more DNA can be eluted. The wildtype DNA is
prepared whereby only one of the strand making up the duplex is
covalently attached to the immobilizing molecule, in order to
require detectable labeling of only one (the complementary one)
strand of the mutant DNA to be tested. Alternatively, either strand
may be covalently attached, requiring both mutant strands to be
detectably labeled. An advantage of double-labeling the mutant
fragment even when only one wildtype strand is covalently attached
to the immobilizing molecule, is that denaturation and elution of
the non-complementary strand can be monitored during hybridization,
and non-specific binding/hybridization of the mutant to wildtype
DNA strands can be detected.
[0292] After hybridization is accomplished, the degree of
complementarity of the strands is determined by a modification of
the thermal or chemical denaturing protocols described above.
Analysis of the resulting pattern of duplex melting is performed by
comparison to a pattern of mismatched DNA duplex melting prepared
either simultaneously or prior to experimental analysis and stored
in the device microprocessor and/or memory using standard or
expected single base or multiple mismatches. Such comparison form
the basis for a determination of the rapid screening of individuals
for a variety of characterized disease-associated genetic
polymorphisms.
[0293] DNA mutations are also detected by meltometer analysis. In
this embodiment, test DNA is immobilized on the disk and subjected
to hybridization/denaturation analysis with a battery of
precharacterized test probes. Using this method, DNA fragments are
preferably prepared using in vitro amplification techniques, so
that one strand is immobilizable due to covalent attachment of the
binding molecule to one of the primers. Using this method, the DNA
fragment to be tested is sequentially hybridized with and eluted by
denaturation from a series of well-characterized DNA probes being
detectably labeled. Alternatively (depending on the nature of the
DNA mismatch expected for each probe), hybridization and
denaturation are multiplexed, using probes detectably labeled with
different detectable labels so that each probe can be identified.
This method is useful for genetic screening as described above.
EXAMPLE 4
DNA Amplification and Analysis
[0294] Fragments of DNA are amplified in vitro by polymerase chain
reaction (PCR) or magnetic chain reaction and analyzed by capillary
electrophoresis. Reagent mixing, primer annealing, extension and
denaturation in an amplification cycle resulting amplification of a
500 bp target fragment and its subsequent analysis are carried out
using a device and disk as described in Example 1 above. A
schematic diagram of the structure of the disk is shown in FIG.
21.
[0295] The disk comprises at least three sample input ports A, B
and C. Port A permits injection of 30 attomoles (about 100 pg)
linear bacteriophage lambda DNA. Port B and C allow input of 5
.mu.L of a 20 .mu.M solution of primer 1 and 2 respectively, having
the sequence:
[0296] Primer 1: 5'-GATGAGTTCGTGTCCGTACAACTGG-3' (SEQ ID No.: 1)
and
[0297] Primer 2: 5'-GGTTATCGAAATCAGCCACAGCGCC-3' (SEQ ID No.:
2).
[0298] The disk also comprises three reagent reservoirs D, E and F
in the Figure and containing 54 .mu.L of distilled water; 10 .mu.L
of a solution of 100 mM Tris-HCI (pH 8.3), 500 mM KCl, 15 mM
MgCl.sub.2, 0.1% gelatin and 1.25 .mu.M of each dNTP; and 1 .mu.L
of Taq DNA polymerase at a concentration of 5 Units/.mu.L,
respectively.
[0299] In addition, the disk comprises a reaction chamber G that is
configured to facilitate mixing of these reagents using a
flexural-plate-wave component (as described in U.S. Pat. No.
5,006,749). Also included in the configuration of reaction chamber
G are cooling and heating means via a Peltier component. These
components can be integral to the disk or can be positioned in the
device so as to provide heating and cooling specific for the
reaction chamber. Disks are also provided that comprise a
multiplicity of sets of the reaction components A through G.
[0300] Amplification is initiated by introducing sample DNA and
primer into each set of ports A, B and C. When all samples and
primers have been introduced into the ports, the disk is spun at a
speed of 1 to 30,000 rpm to effect mixing of the reagents into
reaction chambers G. Simultaneously, valves controlling reservoirs
D, E and F are opened and the contents of these reservoirs are also
forced into reaction chamber G. Mixing of sample DNAs, primers and
reagents is facilitated by activation of the flexural-plate-wave
component. DNA amplification takes place in the reaction chamber
using the following thermocycling program. The reaction mixture is
initially heated to 95.degree. C. for 3 minutes. The amplification
cycle thereafter comprises the steps of: step 1, incubation at
95.degree. C. for 1 minute; step 2, cooling the chamber to
37.degree. C. for 1 minute; and step 3, heating the chamber to
72.degree. C. for 3 minutes. This amplification cycle is repeated
for a total of 20 cycles, and the reaction completed by incubation
at 72.degree. C. for 5 minutes.
[0301] Amplified DNA fragments are analyzed by transfer to
capillary electrophoresis unit H by spinning the disk at a speed of
1 to 30,000 rpm and opening a valve on reaction chamber G leading
to capillary electrophoresis unit H, thereby effecting transfer of
an amount of the reaction mixture to the electrophoresis unit. The
amount of the reaction mixture, typically 10 .mu.L, is determined
by a combination of the length of time the valve on reaction
chamber G is open and the speed at which the disk is rotated.
Capillary electrophoresis is accomplished as described below in
Example 11, and fractionated DNA species detected using optical or
other means as described above in Example 2. This method provides a
unified amplification and analysis device advantageously used for
performing PCR and other amplification reactions in a sample under
conditions of limited sample.
EXAMPLE 5
DNA Restriction and Digestion and Analysis
[0302] Restriction enzyme digestion and restriction fragment
analysis is performed using a disk and device as described above in
Example 1. A double-stranded DNA fragment is digested with a
restriction endonuclease and subsequently analyzed by capillary
electrophoresis. Reagent mixing, DNA digestion and restriction
fragment analysis are carried out on the disk. A schematic diagram
of the structure of the disk is shown in FIG. 22.
[0303] The disk comprises a sample input port A; three reagent
reservoirs B, C and D; a reaction chamber E configured for mixing
the reagents as described above in Example 5, and a capillary
electrophoresis unit F. The reagent reservoirs contain: 1-2 .mu.L
of a restriction enzyme, e.g. HindIII, at a concentration of 20
Units/.mu.L in reservoir B; 4 .mu.L of a solution of 100 mM
Tris-HCl (pH 7.9), 100 mM MgCl.sub.2 and 10 mM dithiothreitol in
reservoir C; and 30 .mu.L of distilled water in reservoir D. Disks
are also provided that comprise a multiplicity of sets of the
reaction components A through E.
[0304] Restriction enzyme digestion of the DNA is initiated by
placing 4-5.mu.L of a solution (typically, 10 mM Tris-HCl, 1 mM
EDTA, pH 8) containing 4.mu.g bacteriophage lambda DNA in sample
input port A. The DNA sample and the reagents in reservoirs B, C
and D are transferred to reaction chamber E by spinning the disk at
a rotational speed of 1 to 30,000 rpm and opening valves
controlling reservoirs B, C and D. The reaction is incubated at
37.degree. C. for 1 h in reaction chamber E after mixing, the
reaction chamber being heated by provision of a Peltier heating
element either on the disk or positioned in the device so at to
specifically heat the reaction chamber. After digestion, an amount
of the digested DNA is transferred to electrophoresis unit F by
spinning the disk at a speed of 1 to 30,000 rpm and opening a valve
on reaction chamber E leading to capillary electrophoresis unit F,
thereby effecting transfer of an amount of the reaction mixture to
the electrophoresis unit. The amount of the reaction mixture,
typically 10 .mu.L, is determined by a combination of the length of
time the valve on reaction chamber E is open and the speed at which
the disk is rotated. Capillary electrophoresis is accomplished as
described below in Example 11, and fractionated DNA species
detected using optical or other means as described above in Example
2.
EXAMPLE 6
DNA Synthesis
[0305] Oligonucleotide DNA synthesis is performed using a disk and
device as described above in Example 1. Synthesis is achieved by
the stepwise transport of controlled pore glass (CPG) through a
series of reaction chambers containing reagents necessary for
phosphoramidite DNA synthesis. Reagents and CPG are delivered
sequentially to reaction chambers by single-use valves connecting
the reaction chambers to each other and to reagent reservoirs. Each
disk has a number of synthesis reaction chambers to produce
oligonucleotides having a length similar to the length of
oligonucleotides produced by commercially-available DNA synthesis
instruments (i.e., 100-150 bases). A schematic diagram of the
structure of the disk is shown in FIG. 23A.
[0306] A CPG bearing a first base of a sequence (thereby defining
the 3' extent of the oligonucleotide) is loaded either by the user
or by automated means into a sample input port A. The CPG is then
transferred into a reaction chamber containing trichloroacetic acid
(TCA) in acetonitrile (CH.sub.3CN) by spinning the disk at a
rotational speed of 1 to 30,000 rpm. Detritylation of the
nucleotide is performed at room temperature for a defined time
interval, typically 1 minute. The reagent is then decanted from the
first reaction chamber by opening a valve with a bore too small to
allow passage of the CPG but sufficient to drain the TCA-containing
mixture into a decantation chamber. As the deprotection of the base
by detritylation is known to produce a colored product (orange),
the intensity of which is a measure of the extent of the reaction,
optical means for determining the absorbance of this effluent are
advantageously provided to be recorded on the device
microprocessor/memory. After decanting the reaction mixture, the
CPG are spun into a rinse chamber containing CH.sub.3CN, the
chamber optionally comprising a mixing means as described above.
After rinsing, the CH.sub.3CN is decanted into a effluent reservoir
controlled by a size-selective valve as above, and the CPG spun
into a second reaction chamber. Mixed with the CPG in the second
reaction chamber is a solution containing one of four
phosphoramidite bases (G, A, T, or C) corresponding to the next
position in the oligonucleotide chain. The reaction mixture in the
second reaction chamber is mixed and allowed to react for a defined
time interval, typically three minutes. The reaction mixture is
then decanted as above and the CPG spun into a rinse chamber
containing CH.sub.3CN and a mixing means. After rinsing, the
CH.sub.3CN is decanted to an effluent reservoir and the CPG is spun
into a third reaction chamber containing an oxidizing mixture of
iodine, water, pyridine and tetrahydrofuran, where the reaction
mixture is incubated for a defined time interval, typically 1
minute. The reaction mixture is decanted to an effluent reservoir
and the CPG spun into a rinse chamber containing CH.sub.3CN. After
rinsing, the CH.sub.3CN is decanted to an effluent reservoir and
the CPG spun into a fourth reaction chamber along with a
two-component "capping" reagent. The capping reaction is performed
for a defined time interval, typically 1 minute. After the reaction
is complete, the reaction mixture is decanted to an effluent
reservoir as above and the CPG spun into a rinse chamber containing
CH.sub.3CN. The CH.sub.3CN is then decanted to an effluent
reservoir and the CPG is spun into a fifth chamber containing TCA,
comprising the beginning of another cycle. The cycle is repeated by
transit of the CPG through interconnected series of the four
reaction chamber until the preprogrammed sequence is completely
synthesized. The CPG is then spun into a reaction chamber
containing concentrated ammonium hydroxide and heated at 60.degree.
C. for a defined time interval, typically 6 hours, during which
time the DNA molecule is deprotected and cleaved from the CPG
support. The finished oligonucleotide is removed by the user or by
automated means.
[0307] The disk provides a series of reaction chambers linked to
each other and comprising four reaction and rinsing chambers per
nucleotide to be added to the oligonucleotide chain. The disks can
be loaded to produce a particular oligonucleotide, or each reaction
chamber 2 can be in contact with reagent reservoirs containing each
of the four nucleotide bases and linked to the reaction chamber by
an individually-controllable valve. In this embodiment, activation
of the appropriate valve at each step in the cycle is controlled by
a signal from the device. Disks comprising a multiplicity of these
synthetic arrays. Permitting simultaneous synthesis of a plurality
of oligonucleotides, are also provided. A schematic diagram of a
disk configured for multiple oligonucleotide synthesis is shown in
FIG. 23B.
[0308] DNA synthesis can also be performed upon preloaded CPG
contained in reaction chambers toward the periphery of the disk and
reagents delivered by the use of multiuse two-way valves, as
schematically diagramed in FIG. 23A. In these disks, reaction
chambers capable of containing 100 nL, spaced 150 .mu.n on-center
(measured from the center of one sphere to the center of the next
sphere) in a disk of a 120 mm diameter, as many as 1250 reaction
chambers can be manufactured. Reagent reservoirs containing
sufficient volumes to supply the reagent chambers on the disk are
prefilled with the four phophoramidites, CH.sub.3CN, TCA, oxidizer
and capping reagents. Trityl-bearing CPG or linkers bound directly
to the reaction chambers are similarly preloaded onto the disk.
Microliter volumes of reagents are sufficient for each reaction.
TCA is spun into each first reaction chamber and allowed to react
for a defined length of time, typically one minute, then spun to a
effluent (waste) chamber on the periphery of the disk. The
CH.sub.3CN rinse is spun into each reaction chamber and then to
waste. By selective valve actuation, the A, C, G, or T
phosphoramidite is spun to the reaction chambers requiring that
base and reacted for a defined time interval, typically three
minutes, and the spun to waste. A CH.sub.3CN rinse is spun to each
reaction chamber and after, to the waste chamber. The oxidizer
mixture is spun into each reaction chamber, reacted for a defined
time interval, typically one minute, then to waste. Another
CH.sub.3CN rinse is spun to each reaction chamber and then to
waste. The two-component capping reagent is spun to each reaction
chamber and reacted for a defined time interval, typically one
minute, then to waste. For each cycle, the final CH.sub.3CN rinse
is then spun to each reaction chamber and then to the waste
chamber. The cycle is repeated for a preprogrammed number of cycles
until each oligonucleotide is completely synthesized. Concentrated
ammonium hydroxide is then spun to each of the reaction chambers
and reacted for a defined length of time, typically 6 hours, and
reacted at 60.degree. C. to deprotect and cleave the completed DNA
from its support. The DNA can then be removed by manual or
automated means. Conversely, the linkage of the oligonucleotide to
the CPG support is chosen to be resistant to the action of ammonium
hydroxide, so that the deprotected oligonucleotide remains in the
reaction chambers bound to CPG.
[0309] Peptide synthesis disks are also provided, whereby the
arrangement of reagent reservoirs and reaction chambers as
described above is adapted for the synthetic reactions comprising a
peptide synthesis regime.
EXAMPLE 7
Enzymatic DNA Sequencing
[0310] The nucleotide sequence of a DNA fragment is determined by
the Sanger enzymatic sequencing method using a disk prepared as
described in Example 1 above (see FIG. 24). Template DNA (200 pg in
250 mL) and 100 femtomoles of an appropriate primer are pipetted
manually or by an automated process into a sample input port. The
DNA is then transferred into a mixing chamber containing terminator
solution (i.e., a solution comprising a dideoxy form of nucleotides
G, A, T or C) by spinning the disk at a rotational speed of 1 to
30,000 rpm. Terminator solution typically comprises 100 nL of a
solution containing 5 picomoles of each deoxynucleotide, 0.5
picomoles of one dideoxynucleotide covalently linked to a
fluorescent label, 90 mM Tris-HCl-(pH 7.5), 45 mM MgCl.sub.2 and
110 mM NaCl. The contents of the mixing chamber are transferred
into a reaction chamber containing 0.1 units of T7 DNA polymerase
(or, alternatively, 0.1 Units of Taq polymerase) and 20 nL 0.1M
dithiothreitol (DTT) by spinning the disk at a rotational speed of
1 to 30,000 rpm, yielding a reaction mixture in the reaction
chamber having a final concentration of buffer components that is
26 mM Tris-HCl (pH 7.5), 13 mM MgCl 2, 32 mM NaCl, and 6 mM DTT.
The reaction chamber is heated to 37.degree. C. (or, alternatively,
to 65.degree. C. for Taq polymerase) by a resistive heating element
integral to the disk, or alternatively, positioned within the
device to specifically heat the reaction chamber, and incubated for
a defined length of time, typically 1 minute. The reaction products
are spun into an equal volume of 90% formamide/EDTA, heated to
90.degree. C. for 1 minute and spun to a capillary electrophoresis
unit on the disk. The set of dideoxynucleotide-terminated DNA
fragments comprising the reaction mixture is then separated by
capillary electrophoresis and the sequence of fragments determined
by laser-induced fluorescence detection as described above. Disks
comprising a multiplicity of these synthetic arrays, permitting
simultaneous synthesis of a plurality of
dideoxynucleotide-terminated oligonucleotides, are also provided.
The deducted nucleotide sequence is determined from the pattern of
fluorescence signals detected and the sequence is determined from
the pattern of fluorescence signals detected and the sequence
derived by the device microprocessor from these data.
EXAMPLE 8
Liquid phase synthesis and analysis
[0311] A variety of colorimetric chemical analyses are performed
using a disk as described in Example 1. For example, a disk is
provided (see FIG. 25) for performing a solution assay to determine
iron concentration in a test solution (such as an industrial
effluent) using a standard colorimetric test. The device is
fabricated with reagent reservoir containing 40 uL 12N HC 1, 100 L
10% hydroxylamine hydrochloride, 100 uL 10% sodium citrate buffer
(pH 4), and 50 uL 0.02%, 1,10phenanthroline. The reagent reservoirs
are arranged as shown in FIG. 25 so that these reagents are added
to a reaction chamber sequentially by opening valves controlling
flow from each reagent reservoir. Reagent transfer to the reaction
chamber is achieved by spinning the disk of Example 1 at a
rotational speed of 1 to 30,000 rpm, whereby the centripetal force
motivates each reagent solution from its reservoir to the reaction
chamber. As shown in FIG. 25, sample is introduced through the
sample port (A) and centripetally delivered to the reaction
chamber. The valve to the reagent reservoir containing HC1 (B) is
opened and acid is added to the sample. The sample is incubated 10
minutes to dissolve all iron oxide present. Hydroxylamine
hydrochloride (reservoir D) and citrate (reservoir E) are next
added to the reaction mixture. The reaction mixture is incubated 20
minutes to ensure complete reduction of iron III to iron II. Next,
1,10-phenanthroline is transferred from reservoir F to complex the
iron II and from a colored product. The solution is incubated 30
minutes at 30.degree. C. to complete color development. Photometric
measurement at 520 nm is done after the incubation process in a
"read" cell (G) connected to the reaction chamber through valve
G.
EXAMPLE 9
Solid Phase (Surface/Colloid) Synthesis/Analysis
[0312] Oligonucleotides, single-stranded DNA or duplex DNA is
covalently linked to a reactive particle (such as a bead or
magnetic particle or a chromatographic substrate) using a disk
prepared as described in Example 1 and shown in FIG. 26. In the
illustrate embodiment, a 25 uL aliquot of carboxy-activated
magnetic particles (BioMag 4125, PerSeptive Diagnostics,
Framingham, Mass.) is added to the disk through a sample
introduction port. The particles are exchanged from the initial
solution into 50 uL 0.1 M imidazole (pH 6) by decanting the
original solution through a valve to an effluent or waste
reservoir, whereby the valve is configured to prevent loss of the
magnetic particles from the reaction chamber. The imidazole
solution is then added to the particle reaction chamber from an
imidazole reservoir on the disk, transfer of imidazole being
controlled by a valve. The motive force for both decanting the
original magnetic particle solution and transferring imidazole from
the imidazole reservoir to the particle reaction chamber is
provided by spinning the disk at a rotational speed of 1 to 30,000
rpm. Specifically with reference to FIG. 26, as the disk spins the
dense magnetic particles are pelleted in a funnel at the end of the
reaction chamber and deposited to waste. A valve controlling an
imidazole reagent chamber containing 50 uL of 0.1M imidazole is
then opened above the particles but below the decanting level and
used to transfer the particles through a valve in the reaction
chamber and into the next decanting reservoir. This decanting
process can be repeated many times to affect a change in the liquid
phase to the desired composition. Typically, three exchanges are
sufficient. Alternatively, appropriate configuration of the reagent
and reaction chambers allows the magnetic particles to be exchanged
within a single reaction chamber by controlled addition and removal
of imidazole from clusters of reagent reservoirs, or alternatively,
a single reagent reservoir large enough to contain sufficient
imidazole for the entire cycle of exchange.
[0313] After the exchange cycle is complete, the magnetic particles
are transferred to a next reaction chamber containing 250 ug dry
1-ethyl-3(3-dimenthylaminopropyl) carbodiimide (EDAC). A reagent
reservoir containing 170 OD (170 ng) 5'-aminated DNA
oligonucleotide in 50 uL of 0.1 M imidazole solution chamber prior
to addition of the particles in order to dissolve the EDAC. The
particles are then added through a valve in about 100 uL 0.1 M
imidazole. Upon addition of the magnetic particles to the reaction
chamber, the device is stopped and incubated 6 hours at 40.degree.
C. Heating can be effected by a heat source (such as Peltier
heating device) embedded in the disk itself, or positioned in the
instrument in a configuration permitting specific heating of the
reaction chamber. In the latter alternative, the disk may be
stopped at a predetermined position relative to the device to
ensure specificity of heating of the reaction chamber.
[0314] After incubation, the particles are washed and exchanged
into 100 uL portions of water by decanting as described above as
the disk is spun. Three exchanges are typically performed to purify
the particles. Product is advantageously collected in the extremity
of the disk where it can easily be accessed for subsequent use.
Disks comprising a multiplicity of these synthetic arrays,
permitting simultaneous synthesis of a plurality of particle-linked
oligonucleotides, are also provided.
EXAMPLE 10
Micro-Extraction System
[0315] A disk as described in Example 1 (see FIG. 27) for
performing micro-extraction of a solute from a solution or of a
component of a mixture as an alternative to HPLC or other
conventional biochemical separation methodology. Specifically, a
channel on the disk is coated with a compound (such as octanol) by
standard procedures to provide a surface having an affinity for a
component of a mixture, typically a complex chemical or biochemical
mixture. With a silicon disk, for example, the surface of the
channel is activated by filling the chamber with aqueous
epoxysilane at 95.degree. C. for 1 hour. The disk is washed about
five times with distilled water to remove unreacted silane, and
aminooctane is added in an solvent and incubated at 95.degree. C.
for 1 hour followed by solvent rinse to remove unreacted
octane.
[0316] Sample mixture containing the component to be eluted is
added to an injection port and moved through the coated separation
channel by rotating the disk at 1 to 30,000 rpm. Reagent reservoirs
are opened at the entrance of the channel and used to elute the
sample retained on the coated channel to a collection reservoir.
The isolated sample component is then collected at an outlet
port.
EXAMPLE 11
Free Zone Capillary Electrophoresis
[0317] Free zone capillary electrophoresis is performed on a disk
fabricated as described in Example 1 above, and schematically
represented in FIG. 28. Specifically, a 5 .mu.m.times.75
.mu.m.times.25 mm capilliary (it will be recognized that all
dimensions are approximate within limits of precision in
fabricating components such as capillaries in the disk), is
lithographically etched onto a glass disk. Electrical connections
are made using standard methods by plating platinum onto the
non-etched surface of the glass before sealing the top to the
device. The separation channel is intersected by a 15 mm sample
introduction channel, positioned 3 mm away from a buffer reservoir.
The interesting channel has a sample inlet port at one end and
electrical connections at either end to control sample application
to the capillary.
[0318] In the practice of capillary electrophoresis on the disk,
the separation channel is filled from the buffer reservoir by
rotation of the disk at a speed of 1 to 30,000 rpm. Once the
channel is filled, rotation is stopped until pressure needs to be
applied to the channel again. Sample is introduced by applying a
voltage between the intersecting analyte inlet and analyte outlet
channels on the chip (see FIG. 28) A 50 V potential drop is applied
between the sample inlet and outlet ports while the separation
channel ports float. The sample, comprising a solution of 5 mM
EDTA, lmM Tris-HCl (pH 8) with 1 mM Mg.sup.2+ and 1 mM Ca.sup.2
(typically prepared from the chloride salt). The running buffer
consists of 10 mM Tris-HCl (pH 8), 5 mM EDTA. Separation toward the
cathode is then performed by floating the electric potential at the
sample reservoir and applying 250 V along the separation channel.
Separation is monitored at a position 2 cm from the inlet port by
monitoring, e.g. UV absorbance at 254 nm using a UV light source
(mercury lamp) and a photodiode detector, positioned on the device
to interest the capillary channel.
EXAMPLE 12
DNA Electrophoresis
[0319] Gel electrophoresis is performed on a disk prepared as
described in Example 1 above. For this application, a gel media is
prepared in the separation channel; however, such gel media must be
protected from sheer forces that develop with rotation of the disk
during transfer of sample or buffer to the electrophoresis channel.
Thus, the gel-filled capillary is advantageously arrayed
concentrically on the disk, as shown schematically in FIG. 29. As a
result, the gel will only experience shear forces from
centripetal-induced pressure during rotation if a fluid reservoir
is in contact with the capillary during rotation of the disk. At
rest, the planar geometry of the disk prevents hydrodynamic
pressure on the capillary. This is an advantage over standard
capillary electrophoresis systems, where hydrodynamic pressure is
not so easily controlled because the buffer volumes are reservoir
heights need to be carefully adjusted before each run to avoid
hydrodynamic flow. This is also an advantage of capillary
electrophoresis performed on the disks of the invention over
electrophoresis performed on microchips, where buffer reservoirs
are positioned above the plane of the separation channel and are
thereby susceptible to hydrodynamic pressure-driven fluid flow.
[0320] Gel electrophoresis is performed on the disks of the
invention to separate DNA fragments, including duplex PCR
fragments, oligonucleotides and single-stranded,
dideoxynucleotide-terminated enzymatic DNA sequencing components,
the system is configured as shown in FIG. 29. The disk is prepared
comprising a polyacrylamide gel concentrically arrayed in a
microetched separation channel in the disk. The polyacrylamide gel
is prepared from an unpolymerized solution of 7M urea, 45 mM
Tris-borate buffer (pH 8.3), 1 mM EDTA, 9% acrylamide, 0.1% TEMED
and 10% ammonium persulfate. The disk can be prepared in the
separation channel by mixing the components (wherein it will be
recognized that unpolymerized polymerized polyacrylamide is
susceptible to light-catalyzed polymerization upon storage)
particularly by introducing TEMED and ammonium persulfate to the
mixture. Sufficient gel mixture is added to the separation channel
by opening a valve from a mixing chamber to the separation channel
and rotating the disk at 1 to 30,000 rpm. The disk is stopped upon
filing of the separation channel to permit gel polymerization.
Shortly before polymerization is complete, the exit channel is
flushed to eliminate bubbles and unpolymerized monomer by flushing
the channel with buffer from a large buffer reservoir at the outlet
side of the channel, controlled by a valve. A similar process is
conducted on the inlet side of the gel.
[0321] To introduce a DNA sample, a valve is opened from an inlet
port holding a solution of DNA fragments, or alternatively, the
sample is pipetted directly onto the disk. The sample is applied to
the separation channel by spinning the disk at 1 to 30,000 rpm,
forcing sample and buffer into the buffer filled channel above the
gel. Upon introduction of the sample to the separation channel and
the sample inlet channel. Sample concentrates at the gel/buffer
interface before entering the separation matrix, analogous to
sample concentration during conventional slab gel electrophoresis.
Electrophoresis is performed at 250 V/cm to effect a separation of
DNA fragments, the cathode (positive electrode) being positioned at
the outlet end of the channel distal to the sample inlet channel. A
laser induced fluorescence detector is positioned at the outlet of
the gel filled capillary chamber to detect the labeled DNA
fragments, as described above in Example 2.
EXAMPLE 13
Spectrophotometer Pathlength Extension
[0322] Spectrophotometric measurements in a rotating structure of
the invention can be limited by the relatively small pathlengths
provided by spectrophotometric illumination across the transverse
dimension of the disk. The intensity of absorbance of a solution is
dependent on the depth of the absorbing layer, as well as the
concentration of the absorbing molecules (as described in the
Lambert-Beer law).
[0323] Although a measurement cell in a rotating microsystem
platform of the invention presents a short transverse pathlength,
the lateral pathlength through the disk can be extensive (i.e.,
centimeters versus millimeters). Spectral measurements can be
enhanced by introducing light through the detection chamber in the
lateral dimension.
[0324] One arrangement providing transverse illumination in the
lateral dimension is shown in FIG. 16. Light is beamed in a
perpendicular direction towards the disk. A mirror is positioned at
a 45.degree. angle to the direction of the illuminating beam,
whereby the light is directed laterally through the detection
chamber. Light passes through the detection cell and is redirected
by another 45.degree. mirror onto a photosensitive detector, such
as a photodiode or photomultiplier tube. These mirrors can be
inserted onto the disk, integrally molded into the disk or
metallicized in the plastic or other substrate comprising the
disk.
EXAMPLE 14
Cell Counting, Identification and Monitoring
[0325] Methods for identifying particular cells or cell types in a
biological sample are provided. For example, a microplatform of the
invention is prepared by having a surface adsorbly coated with
monoclonal antibody specific to E. coli., the remaining sites being
blocked with BSA. A milk sample is introduced onto the disk and
placed into contact with a reaction chamber comprising the surface
coated with the antibody. The milk is incubated in this chamber for
30 min. The microsystem platform is then rotated to remove unwanted
materials. An amount of a buffer appropriate for washing the
microsystem chamber is then added to the surface or chamber through
a microchannel from a reservoir containing washing buffer, said
buffer being released by centrifugal force and opening of a
microvalve. In a useful embodiment, the washing buffer comprises an
E. coli-specific monoclonal antibody crosslinked to an enzyme (such
peroxidase). Thus incubation is allowed to proceed for 5 min. The
disk is again spun with the opening of th appropriate microvalves
to remove the washing solution from the chamber and to add a
solution containing an enzymatic substrate (tetramethylbenzidine
and hydrogen peroxide, maintained heretofore in a reagent reservoir
connected to the reaction chamber by a microvalve-controlled
microchannel. The amount of E. coli bound in the reaction chamber
is quantititated with regard to the amount of detected enzymatic
activity, which is determined spectrophotometrically by the
appearance of a light-absorbing product or the disappearance of a
light-absorbing substrate.
[0326] It should be understood that the foregoing disclosure
emphasizes certain specific embodiments of the invention and that
all modifications or alternatives equivalent thereto are within the
spirit and scope of the invention.
* * * * *