COMPOSITE ARRAYS UTILIZING MICROSPHERES WITH A HYBRIDIZATION CHAMBER

• US 20090298716A1
• Filed: 04/06/2009
• Published: 12/03/2009
• Est. Priority Date: 12/28/1998
• Status: Abandoned Application

• Current Assignee: Illumina Incorporated
• Original Assignee: Illumina Incorporated
• Inventors: Auger, Steven R., Baker, Shawn Christopher, Kain, Robert C., Chee, Mark S., Stuelpnagel, John R., Casas, Laura S., Wang, Gan G.
• Application Number:
  US12/419,218
• Publication Number:
  US 20090298716A1
• Time in Patent Office: Days
• US Class Current: 506/30
• CPC Class Codes: B01J 19/0046 Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays synthesis methods per se C40B50/00
• CPC Class Codes: B01J 2219/00315 Microtiter plates
• CPC Class Codes: B01J 2219/00317 Microwell devices, i.e. having large numbers of wells
• CPC Class Codes: B01J 2219/00382 Stamping
• CPC Class Codes: B01J 2219/005 Beads
• CPC Class Codes: B01J 2219/00511 Walls of reactor vessels
• CPC Class Codes: B01J 2219/00524 in the shape of fiber bundles
• CPC Class Codes: B01J 2219/00585 Parallel processes
• CPC Class Codes: B01J 2219/00596 Solid-phase processes
• CPC Class Codes: B01J 2219/00605 the compounds being directly bound or immobilised to solid supports
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00621 by physical means, e.g. trenches, raised areas
• CPC Class Codes: B01J 2219/00626 Covalent
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00648 by the use of solid beads
• CPC Class Codes: B01J 2219/00659 Two-dimensional arrays
• CPC Class Codes: B01J 2219/00704 integrated with the reactor apparatus
• CPC Class Codes: B01J 2219/0072 Organic compounds
• CPC Class Codes: B01J 2219/00722 Nucleotides
• CPC Class Codes: C40B 40/06 Libraries containing nucleotides or polynucleotides, or derivatives thereof
• CPC Class Codes: G01N 33/54393 : Improving reaction conditions or stability, e.g. by coating or irradiation of surface, by reduction of non-specific binding, by promotion of specific binding

Abstract

The invention relates to sensor compositions comprising a composite array of individual arrays, to allow for simultaneous processing of a number of samples. The invention further provides methods of making and using the composite arrays. The invention further provides a hybridization chamber for use with a composite array.

Claims

1-50. -50. (canceled)

51. A process of forming a plurality of random arrays of encoded particles on a substrate, wherein each of the arrays are formed by random placement of encoded particles, wherein differently encoded particles have a different label, comprising:

(i) placing and confining a group of differently encoded particles into one or more sites on a substrate having a plurality of sites, so as to form a first confined group of particles occupying particular sites;

(ii) recording the positions of the encoded particles within said confined group;

(iii) placing and confining an additional group of differently encoded particles into unoccupied sites on the substrate so as to form an additional group of confined particles occupying particular sites;

(iv) recording the positions of particles within said additional confined group; and

repeating steps (iii) to (iv) several times so as to form a plurality of a random encoded arrays of particles.

52. The substrate of claim 51 wherein the substrate comprises silicon or doped silicon.

53. The substrate of claim 51 wherein differently encoded particles have different biological reagents bound thereto.

54. The process of claim 51 wherein the arrangement of the encoded particles in the sites is random.

55. The process of claim 51 further comprising the step of affixing the particles onto the substrate.

56. A method of forming a composite array of randomly distributed, identifiable microspheres on a substrate having a plurality of assay locations, comprising:

(a) randomly distributing a population of microspheres, including subpopulations of microspheres carrying different chemical functionalities, to discrete sites within a first assay location;

(b) determining the location of said subpopulations of microspheres within said first assay location;

(c) randomly distributing a different population of microspheres, including subpopulations of microspheres carrying different chemical functionalities, to discrete sites within a second assay location;

(d) determining the location of said subpopulations of microspheres within said second assay location; and

(e) repeating steps (c) to (d) as many times as necessary so as to form a composite array.

57. The substrate of claim 56 wherein the substrate comprises silicon or doped silicon.

58. The substrate of claim 56 wherein differently encoded particles have different biological reagents bound thereto.

59. The process of claim 56 wherein the arrangement of the encoded particles in the sites is random.

60. The process of claim 56 further comprising the step of affixing the particles onto the substrate.

61. A method of forming a composite array of randomly distributed, identifiable microspheres on a substrate having a plurality of assay locations, comprising:

(a) providing a library of microspheres comprising a plurality of sublibraries, wherein each sublibrary further comprises a plurality of subpopulations of uniquely identifiable microspheres;

(b) randomly distributing a first sublibrary, including subpopulations of uniquely identifiable microspheres, to discrete sites within a first assay location;

(c) determining the location of said subpopulations of microspheres within said first assay location;

(d) randomly distributing a second sublibrary of microspheres, including subpopulations of uniquely identifiable microspheres, to discrete sites within a second assay location;

(e) determining the location of said subpopulations of microspheres within said second assay location;

(f) repeating steps (d) to (e) with different sublibraries and assay locations multiple times so as to form a composite array.

62. The substrate of claim 61 wherein the substrate comprises silicon or doped silicon.

63. The substrate of claim 61 wherein differently encoded particles have different biological reagents bound thereto.

64. The process of claim 61 wherein the arrangement of the encoded particles in the sites is random.

65. The process of claim 61 further comprising the step of affixing the particles onto the substrate.