AU2002256202A1 - Multi-parameter assays including analysis discs and methods relating thereto - Google Patents

Description

WO 03/087827 PCT/US02/11620 MULTI-PARAMETER ASSAYS INCLUDING ANALYSIS DISCS AND METHODS RELATING THERETO 5 CROSS-REFERENCE TO RELATED APPLICATIONS This application claims the benefit of priority from U.S. Provisional Application Serial No. 60/283,213 filed April 11, 2001, which is incorporated herein by reference in its entirety. 10 BACKGROUND OF THE INVENTION 1. Field of the Invention The present invention relates to an apparatus for performing assays in conjunction with an optical bio-disc. The invention further relates to methods for separating, immobilizing and/or detecting micro-particles or beads, cells, labels, or 15 tags using a density gradient and/or centrifugation to perform an assay 2. Discussion of Background Art and the Present Invention There is a significant need to make diagnostic assays and forensic assays of all types faster and more local to the end-user. Ideally, clinicians, patients, investigators, the military, other health care personnel, and consumers should be 20 able to test themselves for the presence of certain factors or indicators in their systems, and for the presence of certain biological material at a crime scene or on a battlefield. At present, there are a number of silicon-based chips with nucleic acids and/or proteins attached thereto, which are commercially available or under development, for performing biomedical, chemical, or biochemical assays. These 25 chips are not for use by the end-user, or for use by persons or entities lacking very specialized expertise and expensive equipment. It is an object of the present invention to obviate or mitigate at least one of these disadvantages by use of a relatively inexpensive assay system that can be used by the end user without specialized training. 30 Many biochemical techniques exploit the mutual interaction of antigens and antibodies, hybridization between complementary strands of DNA, or protein affinity. Some of these may include streptavidin and biotin, along with the use of labeled reagents. A variety of labels or tags have been employed for detection.

I

WO 03/087827 PCT/USO2/11620 Examples include enzymes, color-based, radioactive, phosphorescent, fluorescent and chemiluminescent reagents, microspheres, metal colloids, as well as fluorescent dyes such as fluorescein and rhodamine. Fluorescent anti-human IgG, for example, is routinely used as a labeled reagent. 5 A "sandwich" immunoassay is performed in one embodiment of the present invention wherein a- doubled layer procedure is designed to detect a specific antibody or antigen. For example, to detect the presence of an antibody in a sample, a corresponding antigen is first immobilized onto solid substrate. The immobilized antigen is then exposed to the sample being tested. Some or all of 10 the antibodies present will bind to the immobilized antigen. Any excess or unbound antibody is washed away. A labeled reagent such as fluorescent anti-lgG is then added to the sample. The labeled reagent binds to the antibody and any excess reagent is washed away. The intensity of the fluorescence is then measured to provide an indication 15 of the quantity of antibody present in the sample. One of the problems with "sandwich" immunoassays is that a number of washing steps are involved. The washing steps are necessary to remove the excess antibodies and labeled reagents, which would otherwise have an adverse effect on the accuracy of the results. 20 A further problem is that a sample may only be analyzed for one target at a time. Therefore, to detect a number of different targets in a sample, separate sample containers are required. As a consequence, a large number of washing steps are necessary, making the procedure cumbersome and time-consuming. It is an object of the present invention to obviate or mitigate at least one of 25 the abovementioned disadvantages. It is a further object of the present invention to reduce or eliminate the number of washing steps that are presently required to conduct an immunoassay. The objectives mentioned above are achieved by providing a device for conducting a chemical, biochemical, or biomedical assay that is adapted to be 30 used in conjunction with a disc-based scanning device. One such device is described, for example, in U.S. Patent No. 5,892,577, entitled "Apparatus and Method for Carrying out Analysis of Samples", which is incorporated herein by reference in its entirety. 2 WO 03/087827 PCT/US02/11620 SUMMARY OF THE INVENTION The present invention relates to performing assays, and particularly to using beads of various densities on a disc. individually or in a complex. The invention includes methods for separating and detecting beads or micro-particles, 5 complexes of beads, tags, labels, or cells attached to the beads, discs for performing assays, and related detection systems. According to a first aspect of the present invention, there is provided a device for conducting an assay. This device includes a rotatable disc which defines at least one reaction chamber and at least one separation chamber. The 10 reaction chamber is coupled to the separation chamber or channel via a controllable barrier means. A density gradient forming medium is located in the separation chamber so that in use, a plurality of particles having different densities may be separated along the density gradient of the medium. In a second aspect of the present invention, there is provided another 15 device for conducting an assay. This particular device includes a rotatable disc which defines at least one separation chamber. The separation chamber or channel contains a density gradient forming medium and in use, a plurality of particles having different buoyant densities may be separated along the density gradient of the medium. 20 The rotatable disc is adapted to rotate about its central aperture which is adapted to releasably engage with a rotatable shaft. Preferably also, the disc defines a plurality of radially extending reaction chambers and separation chambers. A cover disc is used to complete the reaction chamber and is formed of a light transmitting material, for example, a clear plastic material. 25 The base of the rotatable disc may be a compact disc (CD), a recordable CD (CD-R), CD-RW, a digital versatile disc (DVD), DVD-R, DVD-RW, or other standard or specialized optical disc format including fluorescent and magneto optical discs. The separation chamber or channel is provided with a density gradient 30 forming medium. An example of a suitable medium is a gel provided by Pharmacia Biotech under the trademark Percoll. The density gradient may be pre formed in the gel, or generated by the application of a centripetal force. In one embodiment of the invention, the density gradient is formed and maintained by 3 WO 03/087827 PCT/US02/11620 rotating the disc about its central axis. Advantageously, the density gradient medium is transparent or transmissive to light. During use of the disc device, a plurality of micro-particles having different densities and/or size is introduced into the reaction chamber. Suitable micro 5 particles include density marker beads available from Pharmacia Biotech. Preferably, the beads are of pre-determined densities and size: The beads may also be color-coded or fluorescent for identification purposes. When the disc is rotated and the controllable barrier member is actuated, the beads or micro-particles can move from the reaction chamber under centripetal 10 force. When a micro-particle reaches a point along the separation chamber or channel where the density of the micro-particle equals that of the surrounding medium, it comes to rest. When this occurs, the micro-particle or bead is said to have reached its isopycnic point. The minimum density of the micro-particles is greater than the minimum 15 density of the density gradient medium. Accordingly, upon equilibration, no particles will be left in the reaction chamber. In one particular embodiment of the present invention, specific antigens and/or antibodies, may be immobilized onto the surface of the beads. For example, to analyze a sample for a selection of antibodies, a corresponding 20 selection of antigens may be immobilized onto beads of a particular density. As noted above, antibodies and antigens may be used for the detection of each other. An antibody will bind selectively to its corresponding antigen and the bound species may be identified by using a label or "tag". A labeled reagent of, for example, a fluorescent anti-lgG may be used. Fluorescent anti-lgG will bind to an 25 epitope on the target antibody. Accordingly, the resulting complex may be identified by the optical properties of the anti-lgG label. In another embodiment of the present invention, a reaction chamber is loaded with fluorescent anti-lgG and at least two groups of beads or micro particles, each group having different densities and antigens attached thereto. A 30 sample of, for example, blood or serum, is then introduced into the reaction chamber. Antibodies in the sample may complex with both the immobilized antigens and the fluorescent anti-lgG. 4 WO 03/087827 PCT/US02/11620 In yet another embodiment of the present invention, binding partners, including at least two micro-particles of different pre-determined densities, shapes, and/or sizes, are loaded into the reaction chamber. Each micro-particle or binding partner has attached thereto at least one antibody that has affinity to the antigen of 5 interest or target antigen. The antibody attached to each particular micro-particle has specific affinity to a different epitope on the target antigen. When a sample containing the target antigen is introduced to the reaction chamber, the sample them complexes with both immobilized antibodies on the different binding partners thus forming a binding partner micro-particle complex. As would be apparent to 10 one of skill in the art given the present disclosure, the bead complexing is not limited to two beads or binding partners but may be performed in a multi-particle or multi-parameter test format involving three or more micro-particles of different densities, shapes, and/or sizes. In still another embodiment of the present invention, the binding partners 15 may include at least one bead or micro-particle of known density and one cell wherein the bead would have attached thereto at least one antibody that binds to at least one epitope on a surface marker of the cell. So when the cell and the bead are mixed in the reaction chamber, a cell-bead complex is formed by the binding of the antigen on the bead to the cell surface marker. The complexing 20 reaction is not limited to a single cell or bead but multiple cells may bind to a single bead or multiple beads to a single cell. The bead may contain one or more types of anitibodies having affinity to surface markers on different cells. Cell surface markers may include cluster designation markers, cell surface proteins, cell surface glycoproteins, sugars, or any substance on a cell surface that can be 25 recognized or can bind to an antibody. In another embodiment of the present invention, multiplexing assays may be carried out using multiple binding partners including beads or micro-particles, cells, and tags in any combination to form complexes including at least two binding partners to create a multi-parameter test. The micro-particles and/or cells have 30 different physical properties as advantageously employed in the present invention. These properties may include, for example, a difference in density, size, mass, shape, color, and/or surface properties. 5 WO 03/087827 PCT/US02/11620 Complexing reactions, in the reaction chamber, may take place whilst the disc is rotating. Alternatively, the rotation may be commenced once the complexing reactions are completed. In either case, rotation serves to form and/or maintain a density gradient along the length of the separation chamber. The 5 complexing reactions may also be carried out outside the disc then loaded into the reaction chamber for analysis. Once a density gradient is established, the controllable barrier is removed. The centripetal force generated by the rotation causes the beads or micro-particles to move from the reaction chamber to the separation chamber. The target of 10 interest, being coupled to a bead or beads, is also transported from the reaction chamber to the separation chamber. The beads, bead complexes, or bead-cell complexes by virtue of having different densities, will come to rest at different positions along the length of the separation chamber. Details regarding one embodiment of the various components of the related optical bio-disc are 15 described below in conjunction with the drawing figures. As explained above, beads with the antibodies of interest bound thereto are tagged or labeled, or bound in a complex of two or more beads, or two or more bead-cell complexes. Thus, they may be located or detected by optical means as described below in further detail. 20 The unbound and/or unreacted materials in the reaction chamber are not drawn into the separation chamber or channel by the centripetal force. This is because the density of the unbound and/or unreacted materials is less than the minimum density of the density gradient medium. Accordingly, the materials of interest may be separated from the bulk of the reaction mixture without the need 25 for cumbersome washing steps. Once separated, the position of the various beads, bead complexes, or bead-cell complexes may be measured by using a disc-based scanning device. Applicant's U.S. Patent No. 5,892,577 describes a scanning device that may be used in conjunction with the present invention. 30 Whilst the disc is rotating, a beam of electromagnetic radiation may be scanned over the surface of the disc. The beam is transmitted through the light transmitting cover of the disc, and interacts with the material in the separation chamber. As indicated below, the disc may include multiple separation chambers 6 WO 03/087827 PCT/US02/11620 each supplied with the same or different samples. The interacted or "modulated" beam is detected and analyzed. The analysis provides information on the position of the beam, as well as information on the nature of the material under analysis. The labeled beads, complexed beads, or bead-cell complexes interact with the 5 incident beam in a characteristic manner to produce a characteristic modulated signal. Thus, by monitoring where such modulated signals occur, and comparing these signals to those of a calibrated control, the identity of specific targets present in a sample may be determined. By measuring the intensity of such signals, the quantity of the specific targets may also be deduced. 10 The device of the present invention may also be used to provide a control against which the results of any of the assays described above may be compared. According to a third aspect of the present invention, there is provided a method for conducting an assay. This method includes the steps of (1) providing a rotatable disc which defines at least one reaction chamber and at least one 15 separation chamber, the reaction chamber being coupled to the separation chamber or channel via controllable barrier means, and the separation chamber having a density gradient forming medium; (2) introducing a plurality of particles having different pre-determined densities, shapes, sizes, and/or color into the reaction chamber, the particles being adapted to receive specific reagents; (3) 20 introducing a sample under test into the reaction chamber; (4) rotating the disc to provide a centripetal force; (5) controlling the controllable barrier between the reaction and separation chambers, so that the plurality of particles can move from the reaction chamber to the separation chamber under the centripetal force to separate the particles according to density; and (6) analyzing the contents of the 25 separation chamber or channel by optical means. The method may further include the step of introducing a labeled reagent into the reaction chamber prior to rotating the disc. Alternatively, a labeled reagent may be mixed with the test sample, prior to introducing the mixture into the reaction chamber. 30 Other features and advantages of the different embodiments and aspects of the present invention will become apparent from the following detailed description and accompanying drawing figures. 7 WO 03/087827 PCT/US02/11620 BRIEF DESCRIPTION OF THE DRAWING FIGURES Further objects of the present invention together with additional features contributing thereto and advantages accruing therefrom will be apparent from the following description of preferred embodiments of the present invention which are 5 shown in the accompanying drawing figures with like reference numerals indicating like components throughout, wherein: Fig. 1 is a perspective view of a disc in accordance with one embodiment of the present invention; Fig. 2 is an exploded perspective view of the disc of Fig. 1; 10 Fig. 3 is an enlarged view of a reaction and separating compartment of the disc of Fig. 1; Fig. 3A presents a spiral implementation of the reaction and separating compartment of Fig. 3; Fig. 3B illustrates a serpentine configuration of the reaction and separating 15 compartment depicted in Fig. 3; Fig. 3C shows a sinusoidal form of the reaction and separating compartment illustrated in Fig. 3; Fig. 3D depicts an arcuate version of the reaction and separating compartment shown in Fig. 3; 20 Fig. 4 is a diagrammatic sectional view along points A-A' through the compartment of the disc of Fig. 1; Figs. 5 to 8 are schematic diagrams which illustrate the interactions occurring in embodiments of the present invention; and Figs. 9 to 12 are diagrammatic representations of the compartment of Fig. 3 25 illustrating an embodiment of the present invention in operation. DETAILED DESCRIPTION OF THE PREFERRED EMBODIMENTS Reference is first made to Figs. 1 and 2 of the drawing that depict a device in accordance with an embodiment of the present invention. The device is 30 adapted to be used in conjunction with an optical disc-based scanning device, such as that described in U.S. Patent No. 5,892,577, which is incorporated in its entirety herein. 8 WO 03/087827 PCT/US02/11620 As shown in Figs. 1 and 2, the device includes a disc 10 composed of a body 12 disposed between a cover 14 and a base 16. The body 12, cover 14, and base 16 are bonded together to form an integral disc such as that illustrated in Fig. 1. The base 16 may be a compact disc (CD), a recordable CD (CD-R), CD-RW, a 5 digital versatile disc (DVD), DVD-R, DVD-RW, or other standard or specialized optical disc format including fluorescent and magneto-optical discs. The cover 14 may be formed of a clear plastic material including, for example, polycarbonate. Alternatively, the disc may be assembled in a reverse manner wherein the cover 14 is a compact disc (CD), a recordable CD (CD-R), CD-RW, a digital versatile 10 disc (DVD), DVD-R, DVD-RW, or any equivalent optical disc format. In this embodiment, the base 16 is formed of a transparent material. The disc 10 is provided with a central hole 18, Fig. 1, that is adapted to releasably engage with, for example, a rotating shaft or spindle. The body 12 defines a plurality of radially extending compartments 20 as 15 illustrated in Figs. 2 and 3. Each compartment 20 includes a reaction chamber 22 and a separation chamber or channel 24, Fig. 3. Material may be introduced into the reaction chamber 22 via an aperture 28 in the cover 14 of the device 10. The separation chamber or channel 24 may be preloaded with a medium which forms a density gradient on application of a centripetal force. This type of material may 20 include, for example, a Percoll density medium. In one embodiment of the present invention, the reaction chamber 22 is located closest to the center of the disc as illustrated in Fig. 2. The reaction chamber 22 is connected to the separation chamber 24 via a controllable barrier 26, Fig. 3, and the separation chamber is pre-loaded with a density gradient 25 medium. According to an alternate embodiment of the separation chamber 24, the form thereof is spiral, Fig. 3A, rather than straight and radially directed. In this embodiment, a substantially longer chamber or channel is formed to thereby provide a finer gradation per unit length and thus increase in the resolution of the 30 assay. This embodiment thus provides a disc-based density chromatography system also referred to herein as a "flow-through" system. Alternate implementations of this embodiment also include the serpentine configuration illustrated in Fig. 3B, the sinusoidal form shown in Fig. 3C, and the arcuate shape 9 WO 03/087827 PCT/US02/11620 depicted in Fig. 3D. In the serpentine formation shown in Fig. 3B, each of the consecutive coils has an increasing diameter as illustrated. In this configuration, the individual coils may have a slight arc shape that conforms to the arc of the corresponding circumference at a respective point along a radius of the disc. In 5 the sinusoidal configuration illustrated in Fig. 3C, each of the consecutive coils has substantially the same diameter. In the arcuate-shaped separation channel 24 depicted in Fig. 3D, the length thereof may span the entire radius of the disc so that the channel 24 extends essentially form the center of the disc to the outer edge. Alternatively, the length of the arcuate-shaped separation channel 24 10 shown in Fig. 3D, may span across only about half the radius of the disc, for example. In this configuration, two consecutive annuli of separation channels may be provided on the disc. The "flow-through" system embodiment of the present invention is not limited to density gradient chromatography but may include any chromatography 15 system including, for example, size exclusion, reverse phase, ion exchange, and affinity chromatography. Alternatively, the "flow-through" system may be used in a disc based flow cytometry application. In another embodiment of the present invention, the compartment 20 orientation is reversed wherein the reaction chamber 22 is now located furthest 20 from the center of the disc. This reverse reaction chamber configuration may be implemented in any of the embodiments of the separation channels 24 illustrated in Figs. 3, 3A, 3B, 3C, and 3D. In these implementations, the reaction chamber 22 and the separation chamber 24 are in fluid communication with each other. The compartment 20 may be pre-loaded with a density medium or the medium may be 25 prepared and mixed with micro-particles and assay solution off-disc and applied into the compartment for analysis. In the present embodiment a centripetal force creates and maintains the density gradient due to the properties of the medium. Once the gradient is formed the beads will then move and settle at their isopycnic points within the medium based on their individual buoyant densities. This reverse 30 chamber system is herein referred to as the "buoyant density separation system". Reference is now made to Fig. 4 which depicts a cross-sectional view of the disc 10 along the compartment 20. The reaction chamber 22 is separated from the separation chamber 24 by the controllable barrier 26. The barrier 26 may be 10 WO 03/087827 PCT/US02/11620 formed from a frangible membrane that fractures once a centripetal force that exceeds a threshold value is applied. The reaction chamber 22 contains a plurality of beads 30 of different densities. In one embodiment of the invention, the reaction chamber 22 may also contain fluorescent anti-lgG. Aperture 28 allows 5 introduction of a test sample into the reaction chamber 22. The various antigen-antibody interactions that occur in the reaction chamber 22 will now be described with reference to Figs. 5, 6, 7, and 8. The drawings depict beads or micro-particles 30a, 30b, and 30c, which are each of a different color according to one embodiment thereof. The beads 30a, 30b, or 30c 10 are also of different densities, the bead 30a of Fig. 5 being the least dense, and the bead 30c of Fig. 7 being the most dense. With reference now to Figs. 5, 6, and 7, there is illustrated a sandwich type assay including at least one capture bead, one antigen or target agent, and one labeled tag bound in a complex by antigen-antibody interactions. Each capture 15 bead 30a, 30b, or 30c has attached thereto a specific antibody or capture probe 32a, 32b, or 32c. The antibodies 32a, 32b, and 32c are specifically selected based on their affinity for antigens or target agents 34a, 34b, or 34c which may be present in the sample. The antibodies 32a, 32b, and 32c are immobilized on to the surface of the beads 30a, 30b, and 30c, respectively. As can be seen from 20 Figs. 5 through 8, any antigen 34a, 34b, or 34c present in the sample will bind specifically to the antibodies 32a, 32b, or 32c immobilized on the beads 30a, 30b, or 30c. A sandwich-type complex 36a, 36b, or 36c is formed when the fluorescent anti-lgG 38 binds to the bound antigens 34a, 34b, or 34c. Referring specifically to Fig. 8 now, there is shown a binding partner bead 25 or micro-particle complex 36d, including at least one capture bead or capture micro-particle 30e, one target agent 34d, and one reporter bead or reporter micro particle 30d. The bead partner complex is formed by the specific binding of the target antigen or target agent 34d to capture probe 32e and reporter probe 32d that are bound to bead binding partners 30e and 30d, respectively. Probes 32d 30 and 32e each have affinity to different epitopes on target 34d and no affinity for each other. The resulting binding partner bead complex 36d formed in this sandwich assay has a density approximately equal to the average densities of the two beads 30d and 30e. Thus when the binding partner bead complex 36d is 11 WO 03/087827 PCT/US02/11620 introduced into the density gradient medium in the separation chamber 24 (Figs. 3, 3A, 3B, 3C, and 3D), the complex will come to rest at an isopycnic point between the uncomplexed beads 30d and 30e. Alternatively, one of the bead binding partners, may be a cell binding partner wherein the capture bead 30e or reporter 5 bead 30d has probes that have specific affinity to cell surface markers on the cell as discussed above and in conjunction with Fig. 12 below. Operation of the device 10 is now described with reference to Figs. 9, 10, 11, and 12. For the sake of clarity, the complexes 36a, 36b, and 36c have been omitted from the drawing figures. These complexes will now be referred to by their 10 respective bead numbers as shown in Figs. 5, 6, and 7. Referring first to Fig. 9, there is depicted a compartment 20 which is loaded and ready for use. In this embodiment, the reaction chamber 22 contains fluorescent anti-lgG and capture beads 30a, 30b, and 30c of different densities. The controllable barrier 26 prevents material in the reaction chamber 22 from 15 moving into the separation chamber 24. By way of example, and not limitation, a sample of blood serum is introduced into the reaction chamber 22. If antibodies or target agents 34a, 34b, or 34c are present in the sample, they will bind to the immobilized antigens or capture probes 32a, 32b, or 32c and the fluorescent anti-lgG 38 to form the 20 sandwich-type complexes 36a, 36b, or 36c depicted in Figs. 5, 6, and 7. The disc 10 is then rotated. A density gradient is formed in a density medium including Percoll medium. In this embodiment, the medium is at its densest closest to the center of the disc 10. Once the disc 10 is rotated above a threshold speed and the centripetal force exceeds a threshold value, the controllable barrier 26 fractures, 25 as shown in Fig. 10. The beads 30a, 30b, and 30c, in response to the centripetal force, move from the reaction chamber 22 to the separation chamber 24. The beads 30a, 30b, and 30c travel along the length of the separation chamber 24 and come to the rest at their isopycnic points. As defined above, a bead 30a, 30b, or 30c reaches its 30 isopycnic point when its density equals that of its surrounding medium. The precise location of a bead's isopycnic point is dependent upon its density. Accordingly, the bead 30a of Fig. 5 will come to rest furthest away from the center 12 WO 03/087827 PCT/USO2/11I620 of the disc. In contrast, the densest beads 30c of Fig. 7 come to rest closest to the center of the disc. Unreacted material (i.e. unreacted sample and unreacted fluorescent anti IgG), being less dense than the Percoll medium, remains within the reaction 5 chamber 22. As shown in Fig. 11, the capture beads 30a, 30b, and 30c are separated in a density gradient, including Percoll medium, into various bands. These bands fluoresce due to the presence of fluorescent anti-lgG 38. The position of beads 30a, 30b, and 30c may be measured by using a disc-based scanning device of the 10 type described, for example, in incorporated U.S. Patent No. 5,892,577 or any suitable fluorescent type optical disc reader or scanner. Similarly, Fig. 12 shows a sandwich-type assay using two binding partners including beads of different densities and/or sizes formed as described above and shown in Fig. 8. As discussed in conjunction with Fig. 8 and shown here in Fig. 15 12, the resulting binding partner bead complex has an isopycnic point between the isopycnic points of the individual component beads. When the disc is rotated, the beads migrate in the density gradient and come to rest at their respective isopycnic points. Thus complex 36d will come to rest between uncomplexed beads 30d and 30e. As mentioned above, bead complex formation is not limited 20 to binding partner bead complexes but may contain complexes with three or more different binding partners. The resulting complex will have an isopycnic point equal to the average of the isopycnic points of all the binding partners in the complex. The binding partners are also not limited to beads but may include beads, cells, and labels or tags in any combination. 25 Referring again to Fig. 11, whilst the disc 10 is rotating, a beam 40 of electromagnetic radiation from a source 46 may be scanned over the cover 14 of the disc 10. The beam 40 is transmitted through the cover 14 and interacts with material in the separation chamber 24. An interacted, return, or "modulated" beam 42 is detected by a detector 48 and can then be analyzed by a computer 50 or 30 other analyzer. The analysis can provide information on the position of incident beam 40 and/or information on the nature of the material under analysis. The disc can include other types of testing chambers and can have software readable by the system. Such software can instruct the computer in operation, e.g., to control 13 WO 03/087827 PCT/USO2/11620 the source 46 to direct light with specific characteristics, or to control a motor 52 that rotates the disc including disc speed, direction, and acceleration. In another embodiment, where the disc is assembled in a reverse manner, as discussed in conjunction with Fig. 1, the beam of electromagnetic radiation may be scanned 5 from the bottom side of the disc through the base 16 and over the cover 14. In yet another embodiment, the beam may be allowed to pass through the disc assembly and detected by a detector located on the opposite side from the beam source. Details regarding this embodiment are described in conjunction with U.S. Patent No. 5,892,577. 10 In a further alternate embodiment of the present invention, the incident beam is held stationary. According to a method of this alternate embodiment, there is provided the step of directing an incident beam of electromagnetic radiation on a fixed point within the separation chamber. This method also includes the step of detecting the micro-particles or the labeled tags while the 15 particles flow through the separation chamber to thereby determine sedimentation rate or elution time of the micro-particles through the medium. This advantageously also allows for the determination of the presence and amount of any target bound to the micro-particles. This method of separating and detecting micro-particles or cells by time is herein referred to as the "flow-through" system 20 which is similar to a density chromatography system. Fluorescent anti-lgG, the beads, the bead complexes, or bead-cell complexes interact with the incident beam in a characteristic manner to produce a characteristic modulated signal. Thus, by monitoring these characteristic modulated signals, the precise location and amount of the beads, bead 25 complexes, and bead-cell complexes may be determined. By comparing these results with the results of a control experiment, the identity and quantity of the antigens present in the sample under test may be deduced. In another embodiment, the device of the present invention may be used to analyze a sample for antibodies. Here, specific antigens may be immobilized onto 30 the beads. A sample containing target antibodies is mixed with the antigen-bound beads and labeled reagents such as fluorescent IgG. The IgG has an affinity for a portion of the antibody, such as the Fc portion. The signal from the bound IgG may then be used to detect the antibody of interest bound to the antigen on the 14 WO 03/087827 PCT/US02/11620 bead. Non-limiting examples of antigens which may be immobilized onto beads include viral antigens as from hepatitis (e.g., U.S. Patent No. 6,312,889), herpes (e.g., U.S. Patent No. 6,126,944), or HIV (e.g., U.S. Patent No. 5,834,267); bacterial antigens as from M. tuberculosis (e.g., U.S. Patent No. 6,245,331) or 5 Bacillus anthracis (e.g., U.S. Patent No. 5,677,274); parasitic antigens as from Plasmodium (e.g., U.S. Patent No. 6,120,770), M. leprae (e.g., U.S. Patent No. 4,906,742), or Leichmania (e.g., U.S. Patent No. 5,411,865); also disease marker antigens as for cancer (e.g., U.S. Patent Nos. 6,350,583 and 6,242,203). Several embodiments herein utilize the immunloglobulin IgG for capture 10 and/or detection purposes. Other immunloglobulins, such as IgM, IgA, IgE, may also be used for capture and/or detection purposes. Moreover, immunoglobulins that are used by the assays of the invention can be polyclonal antibodies or monoclonal antibodies or recombinant antibodies or fragments thereof. It should be noted that the systems and methods of the present invention 15 are not limited to antigen-antibody interaction. Any moieties that are capable of being binding partners may be used in this invention. By way of non-limiting example, one embodiment of the present invention uses a receptor protein that is bound to the beads, which when exposed to a sample will bind its respective ligand. The receptor-bound ligand attached to the beads may then be detected by 20 the use of a labeled reagent such as fluorescent IgG that is specific for the ligand. Alternatively, the presence of the ligand may also be detected through the formation of a binding partner bead complex by use of a second bead with another receptor protein with an affinity for a different portion of the same ligand. In another example, the assay can be based on enzyme/substrate interaction, such 25 that the enzyme or substrate is bound to the bead. Detection of either the enzyme or substrate can then be accomplished using an immunoglobulin of appropriate specificity for either molecule that is appropriately labeled. Alternatively, the detection of the enzyme that is bound to the bead may be carried out using an appropriate substrate that reacts with the enzyme to produce a detectable product 30 such as color or fluorescence. If the substrate is the target that is captured by the bead, then an appropriate enzyme may be introduced to the assay mix that interacts with the substrate to produce a detectable product. In yet another embodiment, antibodies can be excluded completely from the assay. Beads can 15 WO 03/087827 PCT/US02/11620 be coated with a lectin molecule that will specifically bind a particular carbohydrate moiety in a sample. Detection of the bound carbohydrate may then be accomplished with a labeled second lectin that also'binds the carbohydrate or a second bead with a lectin that also binds to the carbohydrate. 5 Also envisioned is the use of the assay for the detection of specific sequences of nucleic acids including DNA or RNA. By way of example, and not limitation, a sense or antisense strand can be immobilized on the beads and exposed to a sample. If the corresponding sense or antisense molecule is present in the sample, it will bind to the oligonucleotide probe that is bound to the beads 10 after an appropriate period of time under conditions that promote hydrogen bonding between the sense and antisense molecules. Detection may then be accomplished by exposing the complex to an appropriately labeled marker such as an antibody or a third nucleic acid molecule that will hybridize only to the nucleic acid molecule being screened for in the sample. Alternatively, the antibody or the 15 third nucleic acid molecule can be bound to another bead (a binding partner) of a different density and electromagnetic property. The resulting bead complex can then be detected by the incident beam as discussed above in connection with Figs. 8, 11, and 12. Various modifications or alterations may be made to the embodiments 20 described above without departing from the scope of the present invention. For example, the controllable barrier may be mechanically or electronically controlled. Alternatively, the barrier may take the form of a raised protrusion disposed between the separation chamber and reaction chamber. In this embodiment, material may only pass from the reaction chamber to the separation chamber once 25 the device rotates above a threshold speed. Below this threshold, the centripetal force is insufficient to draw material over the protrusion. The rotation that is employed can be clockwise or counterclockwise, or alternated in stages when it is desired to move or agitate the assay solution in a particular direction or manner. While the description above has been in terms of biological examples, a sample 30 could be tested for chemical purposes, such as testing water for particular impurity including toxic metals, organic toxins, or inorganic toxins. 16 WO 03/087827 PCT/US02/11620 CONCLUDING SUMMARY The methods and apparatus discussed herein may be readily adapted to, used in combination with, or implemented in conjunction with any of the methods, systems, and devices disclosed in, for example, the following commonly assigned 5 and co-pending applications or issued patents: U.S. Patent Application Serial No. 09/284,421 entitled "Apparatus and Methods for Conducting Assays" filed June 11, 1999; U.S. Patent Application Serial No. 09/394,137 entitled "Spatially Addressable, Cleavable Reflective Signal Elements, Assay Device and Method" filed September 10, 1999, now U.S. Patent No. 6,312,901; U.S. Patent Application 10 Serial No. 09/120,049 entitled "Optical Disk-based Assay Devices and Methods" filed July 21, 1998, now U.S. Patent No. 6,342,349; U.S. Patent Application Serial No. 09/064,636 entitled "Laboratory in a Disk" filed April 21, 1998, now U.S. Patent No. 6,030,581; U.S. Patent Application Serial No. 09/421,870 entitled "Trackable Optical Discs with Concurrently Readable Nonoperational Structures" filed October 15 26, 1999; U.S. Patent Application Serial No. 09/988,728 entitled "Methods and Apparatus for Detecting and Quantifying Lymphocytes with Optical Biodiscs" filed November, 20, 2001; U.S. Patent Application Serial No. 10/038,297 entitled "Dual Bead Assays Including Covalent Linkages For Improved Specificity And Related Optical Analysis Discs" filed January 4, 2002; U.S. Patent Application Serial No. 20 10/099,256 entitled "Dual Bead Assays Using Cleavable Spacers and/or Ligation to Improve Specificity and Sensitivity Including Related Methods and Apparatus" filed March 14, 2002; and U.S. Patent Application Serial No. 10/099,266 entitled "Use of Restriction Enzymes and Other Chemical Methods to Decrease Non Specific Binding in Dual Bead Assays and Related Bio-Discs, Methods, and 25 System Apparatus for Detecting Medical Targets" filed March 14, 2002, all of which are herein incorporated by reference in their entireties. All other patents, patent applications, and publications mentioned in this specification are also incorporated herein in their entireties by reference. While this invention has been described in detail with reference to certain 30 preferred embodiments and technical examples, it should be appreciated that the present invention is not limited to those precise embodiments or examples. Rather, in view of the present disclosure, which describes the current best mode for practicing the invention, many modifications and variations would present them 17 WO 03/087827 PCT/US02/11620 selves to those of skill in the art without departing from the scope and spirit of this invention. For example, as discussed above, separating and detecting micro particles or cells by time in a density chromatography format or a "flow-through" system is contemplated by the present invention. In this implementation of the 5 invention, the micro-particles or cells are denser than the density medium. Upon application of a centrifugal force, the micro-particles or cells move and are separated in the density medium according to their sedimentation rate. The micro particles or cells may then be detected as they move past a fixed detector. The different micro-particles or cells may also be tagged with different labels to aid in 10 the detection and identification of different species present in the sample. This aspect of the present invention may also be implemented in combination with the buoyant density system described above wherein some micro-particles or cells may not be dense enough to flow through the entire length of the separation chamber but may remain at their isopycnic points. These particles may then be 15 detected by moving the detector to different areas within the separation chamber as described above. The scope of the invention is, therefore, indicated by the following claims rather than by the foregoing description. All changes, modifications, and variations coming within the meaning and range of equivalency of the claims are to be considered within their scope. 20 18

Claims (117)

1. A disc system for conducting an assay on a sample, comprising; a rotatable disc with a chamber for receiving the sample; 5 a medium in the chamber for forming a density gradient; and a plurality of beads including at least two different groups of beads, each of the beads in each group having a common physical characteristic and having attached thereto at least one capture probe with affinity to a specific target. 10

2. The system according to claim 1 wherein said common physical characteristic of the beads of one group is different from the physical characteristic associated with the other groups.

3. The system according to claim 2 wherein said physical characteristic is 15 density such that when the disc is rotated, the beads from the different groups move radially within the density gradient to different radial locations within the chamber.

4. The system according to claim 2 wherein said physical characteristic is 20 bead size.

5. The system according to claim 2 wherein said physical characteristic is color. 25

6. The system according to claim 2 wherein said physical characteristic is a pre-determined fluorescent characteristic.

7. The system of claim 2 wherein the rotatable disc includes an upper cover disc, a base, and a body disposed between the cover and the base, the 30 body defining the chamber. 19 WO 03/087827 PCT/US02/11620

8. The system of claim 2 wherein the chamber has two sub-chambers with a controllable barrier therebetween, said controllable barrier being controlled by centripetal forces. 5

9. The system of claim 2 wherein the chamber has two sub-chambers with a controllable barrier therebetween, said controllable barrier being controlled by electrical or mechanical means.

10. The system of claim 2 wherein the capture probe is selected from the 10 group comprising antigens, antibodies, DNA, RNA, lectins, protein receptors, ligands, biotin, and streptavidin.

11. The system of claim 2 wherein the density gradient in the medium is formed by application of centripetal force when the disc is rotated. 15

12. The system of claim 2 further comprising a detection assembly including a radiation source and a detector for detecting radiation modulated by the sample. 20

13. The system of claim 12 wherein the radiation source includes a laser.

14. A method for conducting an assay, said method comprising the steps of: introducing at least one sample into a chamber of a disc, each chamber 25 containing a density gradient medium; introducing at least two different groups of beads, each of the beads in each group having a common physical characteristic and having attached thereto at least one capture probe with affinity to at least one target in the sample; allowing interaction between the sample and the beads to thereby promote 30 capture of any target present in the sample; adding a labeled tag into the reaction chamber, each of said labeled tags having affinity to any target present in the sample; 20 WO 03/087827 PCT/US02/11620 allowing the labeled tag to bind to the target that is bound to any of the beads; and rotating the disc to cause beads to move radially outwardly into the density gradient medium. 5

15. The method according to claim 14 wherein the beads of one group have a different physical characteristic as that of the other groups.

16. The method according to claim 15 wherein said physical characteristic 10 is density such that when the disc is rotated, the beads from the different groups move radially within the density gradient to different radial locations within the chamber.

17. The method according to claim 15 wherein said physical characteristic 15 is bead size.

18. The method according to claim 15 wherein said physical characteristic is color. 20

19. The method according to claim 15 wherein said physical characteristic is a pre-determined fluorescent characteristic.

20. The method according to claim 15 wherein the chamber includes a reaction chamber for receiving the sample and a separation chamber separated by 25 a barrier.

21. The method of claim 20 including means for controlling rotation of the disc to maintain a speed sufficient to cause the beads to move from the reaction chamber through the barrier into the separation chamber. 30

22. The method according to claim 15 wherein the labeled tag is a bead. 21 WO 03/087827 PCT/US02/11620

23. The method according to claim 15 wherein the labeled tag is selected from the group comprised of fluorescent labeled antibodies, oligonucleotides, lectins, protein receptors, biotin, and streptavidin. 5

24. The method of either claim 22 or 23 including the further step of optically analyzing the chamber for the presence of beads, tags, labels, and binding partner complexes.

25. The method of claim 24 wherein said optically analyzing step 10 includes directing a beam of radiation to the chamber and detecting a beam modulated by the sample.

26. A method for conducting an assay, said method comprising the steps of: 15 providing a rotatable disc which defines at least one reaction chamber and at least one separation chamber, said reaction chamber being coupled to said separation chamber by controllable barrier means, said separation chamber having a density gradient forming medium; introducing a plurality of micro-particles including at least two different 20 groups into said reaction chamber, each group of micro-particles having a common physical characteristic and being adapted to receive specific target agents; introducing at least one test sample into said reaction chamber; allowing any target agent present in the sample to bind to the micro 25 particles; rotating the disc to provide a centripetal force; controlling the controllable barrier means between said reaction and separation chambers, so that the plurality of micro-particles can move from the reaction chamber to the separation chamber and into the density gradient medium 30 under the centripetal force to separate the micro-particles according to their physical characteristic; and analyzing the contents of the separation chamber by optical means. 22 WO 03/087827 PCT/US02/11620

27. The method according to claim 26 wherein the micro-particles of one group have a different physical characteristic as compared to the other groups.

28. The method according to claim 27 wherein said physical characteristic 5 is density such that when the disc is rotated, the micro-particles from the different groups move radially within the density gradient to different radial locations within the chamber.

29. The method according to claim 27 wherein said physical characteristic 10 is micro-particle size.

30. The method according to claim 27 wherein said physical characteristic is color. 15

31. The method according to claim 27 wherein said physical characteristic is a pre-determined fluorescent characteristic.

32. The method according to claim 27 wherein said physical characteristic is a pre-determined phosphorescent characteristic. 20

33. The method according to claim 27 wherein said physical characteristic is a pre-determined chemiluminescent characteristic.

34. The method according to claim 27 further comprising the step of 25 introducing a labeled reagent into the reaction chamber prior to rotating the disc.

35. The method according to claim 34 wherein said labeled reagent may be mixed with the test sample, prior to introducing the mixture into the reaction chamber. 30

36. A device for conducting an assay, said device comprising: 23 WO 03/087827 PCT/US02/11620 a rotatable disc which defines at least one reaction chamber and at least one separation chamber, said reaction chamber being coupled to said separation chamber by controllable barrier means; and a density gradient forming medium located in the separation chamber so 5 that in use, a plurality of particles having different densities may be separated along the density gradient of the medium.

37. The device according to claim 36 wherein the rotatable disc is adapted to rotate about its central aperture which is adapted to releasably engage with a 10 rotatable shaft.

38. The device according to claim 36 wherein the rotatable disc includes a plurality of radially extending reaction chambers and separation chambers. 15

39. The device according to claim 36 wherein the density gradient forming medium is a gel provided by Pharmacia Biotech under the trademark Percoll.

40. The device according to claim 39 wherein the density gradient may be pre-formed in the gel, or generated by the application of a centripetal force. 20

41. The device according to claim 40 wherein the density gradient is formed and maintained by rotating the disc about its central axis.

42. The device according to claim 36 wherein the density gradient medium 25 is transmissive to light.

43. A method for conducting a cellular assay, said method comprising the steps of: providing a rotatable disc which defines at least one reaction chamber and 30 at least one separation chamber, said reaction chamber being coupled to said separation chamber by controllable barrier means, and said separation chamber having a density gradient forming medium; 24 WO 03/087827 PCT/USO2/11I620 introducing at least two groups of beads into said reaction chamber, each of the beads in each group having a common physical characteristic and having attached thereto at least one capture probe with affinity to a specific cell surface marker; 5 introducing at least one sample of cells under test into said reaction chamber; allowing any cell surface marker on any target cell present in the sample to bind to a respective capture probe on the beads thereby forming a bead-cell binding partner complex; 10 rotating the disc to provide a centripetal force; controlling the controllable barrier means between said reaction and separation chambers, so that the plurality of beads and any bead-cell binding partner complex can move from the reaction chamber to the separation chamber and into the density gradient medium under the centripetal force to separate the 15 beads and the binding partner complexes; and analyzing the contents of the separation chamber by optical means for the presence, location, and amount of bead-cell binding complexes.

44. The method according to claim 43 wherein the beads of one group 20 have a different physical characteristic as the other groups.

45. The method according to claim 44 wherein said physical characteristic is density such that when the disc is rotated, the beads and bead-cell binding partner complexes from the different groups move radially within the density 25 gradient to different radial locations within the chamber according to density.

46. The method according to claim 44 wherein said physical characteristic is bead size. 30

47. The method according to claim 44 wherein said physical characteristic is color. 25 WO 03/087827 PCT/USO2/11620

48. The method according to claim 44 wherein said physical characteristic is a pre-determined fluorescent characteristic.

49. The method according to claim 44 wherein said physical characteristic 5 is a pre-determined phosphorescent characteristic.

50. The method according to claim 44 wherein said physical characteristic is a pre-determined chemiluminescent characteristic. 10

51. The method according to claim 44 wherein said target cell is a white blood cell.

52. The method according to claim 51 wherein said white blood cell is selected from the group consisting of lymphocytes, monocytes, basophils, 15 eosinophils, and neutrophils.

53. The method according to claim 52 wherein said lymphocyte is either a T-cell, B-cell, or natural killer cell. 20

54. The method according to claim 53 wherein said T-cell is either a helper cell or a suppressor cell.

55. The method according to any one of claims 44, 51, 52, 53, or 54 wherein said surface marker is a cluster designation marker. 25

56. The method according to claim 55 wherein said cluster designation marker is selected from the group comprising CD2, CD3, CD4, CD5, CD6, CD7, CD8, and CD14. 30

57. A method of making an analysis disc to test for the presence of at least one target agent in at least one sample, the method comprising the steps of: providing a base having a center and an outer edge; 26 WO 03/087827 PCT/US02/11620 encoding information on an information layer associated with the base, the encoded information being readable by a disc drive assembly to control rotation of the disc; providing a body defining a radially extending analysis chamber, said analysis 5 chamber including a reaction chamber and at least one separation chamber, said reaction chamber being coupled to said separation chamber by controllable barrier means; depositing a density gradient forming medium into said separation chamber; depositing a plurality of micro-particles into the reaction chamber including at 10 least two different groups of micro-particles, each of the micro-particles in each group having a common physical characteristic and having attached thereto a plurality of capture probes; and providing a cover disc including an aperture, said aperture being linked to the reaction chamber. 15

58. The method according to claim 57 wherein the micro-particles of one group have a different physical characteristic as compared to the other groups.

59. The method according to claim 58 wherein said physical characteristic 20 is density such that when the disc is rotated, the micro-particles from the different groups move radially within the density gradient to different radial locations within the chamber according to density.

60. The method according to claim 58 wherein said physical characteristic 25 is micro-particle size.

61. The method according to claim 58 wherein said physical characteristic is color. 30

62. The method according to claim 58 wherein said physical characteristic is micro-particle shape. 27 WO 03/087827 PCT/US02/11620

63. The method according to claim 58 wherein said physical characteristic is a pre-determined fluorescent characteristic.

64. The method according to claim 58 wherein said physical characteristic 5 is a pre-determined phosphorescent characteristic.

65. The method according to claim 58 wherein said physical characteristic is a pre-determined chemiluminescent characteristic. 10

66. A method of using the disc made according to any one of the claims 57, 58, 59, 60, 61,62, 63, 64, or 65, said method of using the disc including the steps of: adding at least one sample into the reaction chamber through said aperture; allowing any target present in the sample to bind to their respective capture 15 probes attached to the micro-particles of the different groups; adding a labeled tag into the reaction chamber, said labeled tag having affinity to the targets present in the solution; allowing the labeled tags to bind to any target that is bound to any of the micro-particles; and 20 rotating said analysis disc so that the plurality of micro-particles move from the reaction chamber through the controllable barrier to the separation chamber and into the density gradient medium under a centripetal force to separate the micro particles according to their physical characteristics. 25

67. The method according to claim 66 wherein the capture probe is selected from the group comprising antigens, antibodies, DNA, RNA, lectins, protein receptors, ligands, biotin, and streptavidin.

68. The method according to claim 66 wherein the target is selected from the 30 group comprising antigens, antibodies, DNA, RNA, lectins, protein receptors, ligands, biotin, and streptavidin.

69. The method according to claim 66 wherein the target is a cell. 28 WO 03/087827 PCT/US02/11620

70. The method according to claim 66 wherein the target is a cell surface marker. 5

71. The method according to claim 66 wherein the target is streptavidinated.

72. The method according to claim 66 wherein the target is biotinylated.

73. The method according to claim 66 wherein the labeled tag is a reporter 10 micro-particle having attached thereto a reporter probe that has affinity to a different portion of the target so when the target is present, a bead micro-particle partner complex forms from the binding of the capture probe and the reporter probe to the same target. 15

74. The method according to claim 73 wherein the reporter micro-particle is fluorescent.

75. The method according to any one of claims 72, 73, or 74 wherein said reporter micro-particle is streptavidinated. 20

76. The method according to any one of claims 72, 73, or 74 wherein said reporter micro-particle is biotinylated.

77. The method according to any one of the claims 66 to 76 further 25 comprising the steps of: detecting the presence of the target by scanning a beam of electromagnetic energy from a disc drive assembly over the separation chamber; and analyzing returned electromagnetic energy to determine the location and amount of capture micro-particles, reporter micro-particles, labeled tags, micro 30 particle to micro-particle complexes, and micro-particle-cell complexes.

78. A device for conducting an assay, the device comprising: 29 WO 03/087827 PCT/US02/11620 a rotatable disc including an upper cover disc, a base, and a body disposed between the cover and the base, the body defining an analysis chamber; each of said analysis chamber comprising at least one reaction chamber and at least one separation chamber, said reaction chamber being in fluid communication with said 5 separation chamber.

79. The device according to claim 78 including a density gradient forming medium located in the separation chamber so that in use, a plurality of particles having different densities may be separated along the density gradient of the 10 medium.

80. The device according to claim 79 wherein the rotatable disc is adapted to rotate about its central aperture which is adapted to releasably engage with a rotatable shaft. 15

81. The device according to claim 79 wherein the rotatable disc includes a plurality of radially extending reaction chambers and separation chambers.

82. The device according to claim 79 wherein the density gradient forming 20 medium is a gel provided by Pharmacia Biotech under the trademark Percoll.

83. The device according to claim 82 wherein the density gradient may be pre-formed in the gel, or generated by the application of a centripetal force. 25

84. The device according to claim 83 wherein the density gradient is formed and maintained by rotating the disc about its central axis.

85. The device according to claim 79 wherein the density gradient medium is transparent to light. 30

86. A method of making an analysis disc to test for the presence of at least one target agent in at least one sample, said method comprising the steps of: providing a base having a center and an outer edge; 30 WO 03/087827 PCT/US02/11620 encoding information on an information layer associated with the base, the encoded information being readable by a disc drive assembly to control rotation of the disc; providing a body defining a radially extending analysis chamber, said analysis 5 chamber including a reaction chamber and at least one separation chamber, said reaction chamber being in fluid communication with said separation chamber; depositing a density gradient forming medium into said separation chamber; depositing a plurality of micro-particles into the reaction chamber including at least two different groups of micro-particles, each of the micro-particles in each 10 group having a common physical characteristic and having attached thereto a plurality of capture probes; and providing a cover disc including an aperture that is linked to the reaction chamber. 15

87. The method according to claim 86 wherein the micro-particles of one group have a different physical characteristic as the other groups.

88. The method according to claim 87 wherein said physical characteristic is buoyant density such that when the disc is rotated, the micro-particles from the 20 different groups move radially within the density gradient to different radial locations within the chamber according to buoyant density.

89. The method according to claim 87 wherein said physical characteristic is micro-particle size. 25

90. The method according to claim 87 wherein said physical characteristic is color.

91. The method according to claim 87 wherein said physical characteristic 30 is shape.

92. The method according to claim 87 wherein said physical characteristic is a pre-determined fluorescent characteristic. 31 WO 03/087827 PCT/US02/11620

93. The method according to claim 87 wherein said physical characteristic is a pre-determined phosphorescent characteristic. 5

94. The method according to claim 87 wherein said physical characteristic is a pre-determined chemiluminescent characteristic.

95. A method of making an analysis disc to test for the presence of at least one target agent in at least one sample, said method comprising the steps of: 10 providing a base having a center and an outer edge; encoding information on an information layer associated with the base, the encoded information being readable by a disc drive assembly to control rotation of the disc; providing a body defining a radially extending analysis chamber, said analysis 15 chamber including a reaction chamber and at least one separation chamber, said reaction chamber being in fluid communication with said separation chamber; and providing a cover disc including an aperture that is linked to the reaction chamber. 20

96. A method of using the analysis disc made according to claim 95, said method of using comprising the steps of: preparing a plurality of micro-particles including at least two different groups of micro-particles, each of the micro-particles in each group having a common physical characteristic and having attached thereto a plurality of capture probes; 25 mixing the plurality of micro-particles, at least one test sample, and a density gradient forming medium to form an assay solution; allowing any target present in the test sample to form a complex with the micro-particles; depositing the assay solution into the analysis chamber; and 30 rotating the disc to provide a centrifugal force to generate a density gradient in the density forming medium. 32 WO 03/087827 PCT/USO2/11I620

97. The method according to claim 96 wherein the micro-particles of one group have a different physical characteristic as the other groups.

98. The method according to claim 97 wherein said physical characteristic 5 is buoyant density such that when the disc is rotated, the micro-particles from the different groups move radially within the density gradient to different radial locations within the chamber according to buoyant density.

99. The method according to claim 97 wherein said physical characteristic 10 is micro-particle size.

100. The method according to claim 97 wherein said physical characteristic is color. 15

101. The method according to claim 97 wherein said physical characteristic is shape.

102. The method according to claim 97 wherein said physical characteristic is a pre-determined fluorescent characteristic. 20

103. The method according to claim 97 wherein said physical characteristic is a pre-determined phosphorescent characteristic.

104. The method according to claim 97 wherein said physical characteristic 25 is a pre-determined chemiluminescent characteristic.

105. A method of using the analysis disc made according to claim 59, said method of using comprising the steps of: adding at least one test sample into the reaction chamber containing said 30 plurality of micro-particles; allowing any target present in the test sample to form a complex with the micro-particles; 33 WO 03/087827 PCT/US02/11620 adding a plurality of labeled tags into the reaction chamber including at least two groups, each of the tags in each group having a common label and having affinity to one target in the test sample; allowing any labeled tag to bind to its respective target bound to any of the 5 micro-particles; and rotating the disc to provide a centrifugal force to generate a density gradient in the density forming medium and move the micro-particles in the reaction chamber through the controllable barrier into the separation chamber to separate the micro particles according to sedimentation rate or elution time. 10

106. The method according to claim 105 further comprising the steps of: directing an incident beam of electromagnetic radiation on a fixed point within the separation chamber; and detecting the micro-particles or the labeled tags while the particles flow 15 through the separation chamber to determine sedimentation rate or elution time of the micro-particles through the medium and to determine the presence and amount of any target bound to the micro-particles.

107. The method according to claim 106 further comprising the step of 20 scanning the incident beam over the entire separation chamber to determine the presence of micro-particles and labeled tags that may remain at their isopycnic points.

108. A method of using the analysis disc made according to any one of the 25 claims 86, 87, 88, 89, 90, 91, 92, 93 or 94, said method of using comprising the steps of: adding at least one test sample into the reaction chamber containing said plurality of micro-particles; allowing any target present in the test sample to form a complex with the 30 micro-particles; adding a plurality of labeled tags into the reaction chamber including at least two groups, each of the tags in each group having a common label and having affinity to one target in the test sample; 34 WO 03/087827 PCT/US02/11620 allowing any labeled tag to bind to its respective target bound to any of the micro-particles; and rotating the disc to provide a centrifugal force to generate a density gradient in the density forming medium and move the micro-particles in the reaction chamber 5 into the separation chamber to separate the micro-particles according to sedimentation rate or elution time.

109. The method according to claim 108 further comprising the steps of: directing an incident beam of electromagnetic radiation on a fixed point within 10 the separation chamber; and detecting the micro-particles or the labeled tags while the particles flow through the separation chamber to determine sedimentation rate or elution time of the micro-particles through the medium and to determine the presence and amount of any target bound to the micro-particles. 15

110. The method according to claim 109 further comprising the step of scanning the incident beam over the entire separation chamber to determine the presence of micro-particles and labeled tags that may remain at their isopycnic points. 20

111. A method of using the analysis disc made according to claim 88, said method of using comprising steps of: depositing at least one test sample into the reaction chamber; allowing any target present in the test sample to form a complex with the 25 micro-particles in the reaction chamber; adding a plurality of labeled tags into the reaction chamber including at least two groups, each of the tags in each group having a common label and having affinity to one target in the test sample; allowing any labeled tag to bind to its respective target bound to any of the 30 micro-particles; and rotating the disc to provide a centrifugal force to generate a density gradient in the density forming medium and move the micro-particles in the reaction chamber 35 WO 03/087827 PCT/US02/11620 into the separation chamber to separate the micro-particles according to buoyant density.

112. The method according to claim 111 further comprising the step of 5 scanning the incident beam over the entire separation chamber to determine the presence of micro-particles that may remain at their isopycnic points.

113. The method according to any one of claims 105, 108, or 111 wherein said common label is a fluorescent label. 10

114. The method according to any of one claims 105, 108, or 111 wherein said common label is color.

115. The method according to any of one claims 105, 108, or 111 wherein 15 said labeled tag is a fluorescent bead.

116. The method according to any of one claims 105, 108, or 111 wherein said labeled tag is an infrared bead. 20

117. The method according to any one of claims 105, 108, or 111 wherein said labeled tag is a fluorescent labeled antibody. 36