Matrices with memories

• US 6,340,588 B1
• Filed: 09/22/1998
• Issued: 01/22/2002
• Est. Priority Date: 04/25/1995
• Status: Expired due to Fees

• Current Assignee: Irori Technologies Incorporated
• Original Assignee: Discovery Partners International, Inc. (Infinity Pharmaceuticals, Inc.)
• Inventors: Potash, Hanan, Nova, Michael P.
• Primary Examiner(s): Zitomer, Stephanie W.
• Application Number:
  US09/051,022
• Time in Patent Office: 1,218 Days
• Field of Search: 435/287.1, 435/287.2, 435/288.1, 435/288.3, 435/288.4, 435/288.7, 536/23.1, 536/24.3, 536/25.3, 365/151, 365/153, 530/350, 530/300, 530/334
• US Class Current: 506/16
• 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 2219/00283 Reactor vessels with top opening
• CPC Class Codes: B01J 2219/00295 the reactor vessels having pervious side walls
• CPC Class Codes: B01J 2219/00299 Generally cylindrical reactor vessels
• CPC Class Codes: B01J 2219/00308 interchangeably mounted in racks or blocks
• CPC Class Codes: B01J 2219/00333 Closures attached to the reactor vessels
• CPC Class Codes: B01J 2219/00344 Caps
• CPC Class Codes: B01J 2219/00461 Beads and reaction vessel together
• CPC Class Codes: B01J 2219/00463 Directed sorting
• CPC Class Codes: B01J 2219/005 Beads
• CPC Class Codes: B01J 2219/00502 Particles of irregular geometry
• CPC Class Codes: B01J 2219/0054 Means for coding or tagging the apparatus or the reagents
• CPC Class Codes: B01J 2219/00542 Alphanumeric characters
• CPC Class Codes: B01J 2219/00547 Bar codes
• CPC Class Codes: B01J 2219/00549 2-dimensional
• CPC Class Codes: B01J 2219/00551 3-dimensional
• CPC Class Codes: B01J 2219/00554 Physical means
• CPC Class Codes: B01J 2219/0056 Raised or sunken areas
• CPC Class Codes: B01J 2219/00563 Magnetic means
• CPC Class Codes: B01J 2219/00567 Transponder chips
• CPC Class Codes: B01J 2219/00569 : EEPROM memory devices
• CPC Class Codes: B01J 2219/00585 : Parallel processes
• CPC Class Codes: B01J 2219/0059 : Sequential processes
• CPC Class Codes: B01J 2219/00592 : Split-and-pool, mix-and-divide processes
• CPC Class Codes: B01J 2219/00596 : Solid-phase processes
• CPC Class Codes: B01J 2219/00689 : using computers
• CPC Class Codes: B01J 2219/00695 : Synthesis control routines, e.g. using computer programs
• CPC Class Codes: B01J 2219/0072 : Organic compounds
• CPC Class Codes: B01J 2219/00722 : Nucleotides
• CPC Class Codes: B01J 2219/00725 : Peptides
• CPC Class Codes: B01L 2300/0609 : Holders integrated in container to position an object
• CPC Class Codes: B01L 3/5027 : by integrated microfluidic structures, i.e. dimensions of channels and chambers are such that surface tension forces are important, e.g. lab-on-a-chip B01L3/5023 takes precedence; micromixers B01F33/30; microreactors for synthesis B01J19/0093; microcapillary devices in general B81B1/00
• CPC Class Codes: B01L 3/502761 : specially adapted for handling suspended solids or molecules independently from the bulk fluid flow, e.g. for trapping or sorting beads, for physically stretching molecules investigating characteristics of particles G01N15/00
• CPC Class Codes: B01L 3/50825 : Closing or opening means, corks, bungs closures for containers B65D; means for removing stoppers B67B7/02
• CPC Class Codes: B82Y 10/00 : Nanotechnology for information processing, storage or transmission, e.g. quantum computing or single electron logic
• CPC Class Codes: C07H 21/00 : Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
• CPC Class Codes: C07K 1/00 : General methods for the preparation of peptides , i.e. processes for the organic chemical preparation of peptides or proteins of any length
• CPC Class Codes: C07K 1/04 : on carriers C07K1/003, C07K1/006 take precedence
• CPC Class Codes: C07K 1/047 : Simultaneous synthesis of different peptide species; Peptide libraries
• CPC Class Codes: C40B 40/06 : Libraries containing nucleotides or polynucleotides, or derivatives thereof
• CPC Class Codes: C40B 40/10 : Libraries containing peptides or polypeptides, or derivatives thereof
• CPC Class Codes: C40B 60/14 : for creating libraries
• CPC Class Codes: C40B 70/00 : Tags or labels specially adapted for combinatorial chemistry or libraries, e.g. fluorescent tags or bar codes
• CPC Class Codes: G01N 15/149 : specially adapted for sorting particles, e.g. by their size or optical properties
• CPC Class Codes: G01N 2035/00782 : reprogrammmable code
• CPC Class Codes: G01N 2333/9121 : with an alcohol group as acceptor (2.7.1), e.g. general tyrosine, serine or threonine kinases
• CPC Class Codes: G01N 2500/00 : Screening for compounds of potential therapeutic value
• CPC Class Codes: G01N 35/00732 : Identification of carriers, materials or components in automatic analysers
• CPC Class Codes: G01N 35/00871 : Communications between instruments or with remote terminals
• CPC Class Codes: G11C 13/0014 : comprising cells based on organic memory material
• CPC Class Codes: G11C 13/0019 : comprising bio-molecules
• CPC Class Codes: G11C 13/025 : using fullerenes, e.g. C60, or nanotubes, e.g. carbon or silicon nanotubes

Abstract

Combinations, called matrices with memories, of matrix materials that are encoded with an optically readable code are provided. The matrix materials are those that are used in as supports in solid phase chemical and biochemical syntheses, immunoassays and hybridization reactions. The matrix materials may additionally include fluophors or other luminescent moieties to produce luminescing matrices with memories. The memories include electronic and optical storage media and also include optical memories, such as bar codes and other machine-readable codes. By virtue of this combination, molecules and biological particles, such as phage and viral particles and cells, that are in proximity or in physical contact with the matrix combination can be labeled by programming the memory with identifying information and can be identified by retrieving the stored information. Combinations of matrix materials, memories, and linked molecules and biological materials are also provided. The combinations have a multiplicity of applications, including combinatorial chemistry, isolation and purification of target macromolecules, capture and detection of macromolecules for analytical purposes, selective removal of contaminants, enzymatic catalysis, cell sorting, sensors and drug delivery, chemical modification and other uses. Methods for tagging molecules, biological particles and matrix support materials, immunoassays, receptor binding assays, scintillation proximity assays, non-radioactive proximity assays, and other methods are also provided. Sensors containing a memory in combination with a matrix are also provided.

Claims

1. A library of molecules or biological particles comprising:

a plurality of unique molecules or biological particles, wherein each molecule or biological particle is linked to and synthesized on one of a plurality of discrete solid supports, wherein each solid support comprises a combination of;

a matrix comprising a material treated for linking molecules or biological particles and an information surface for imprinting or engraving; and

an optically-readable symbol imprinted or engraved on the information surface, the symbol comprising optically-encoded data including a unique identifier and an orientation indicator for determining orientation of the matrix with respect to an optical reader;

wherein the unique identifier corresponds to the molecule or biological particle that is linked to and synthesized on the material for linking so that each molecule or biological particle of the library is uniquely labeled.

2. The library of claim 1, wherein the matrix comprises a porous non-collapsible vessel formed from an inert material and the material for linking comprises a plurality of particles disposed within the vessel.

3. The library of claim 2, wherein the particles are derivatized for linking the molecules or biological particles.

4. The library of claim 2, wherein the vessel comprises a frame formed from an inert material which supports an inert mesh and a cap inserted into the frame.

5. The library of claim 4, wherein an exterior surface of the cap comprises the information surface.

6. The library of claim 2, wherein the vessel has a volume of about 30 mm³ or less.

7. The library of claim 1, wherein the information surface is formed from a material that is different from the material for linking.

8. The library of claim 1, wherein the information surface is formed from a material selected from the group consisting of polypropylene, glass, polytetrafluoroethylene, polyethylene, polystyrene, polyester, ceramic or composites thereof.

9. The library of claim 1, wherein the material for linking is a radiation-grafted polymer that is derivatized for linking the molecules or biological particles.

10. The library of claim 1, wherein the optically-readable symbol is a two-dimensional bar code.

11. The library of claim 1, wherein the optically-readable symbol comprises a plurality of holes or pits formed in the information surface.

12. The library of claim 1, wherein the molecules or biological particles are selected from the group consisting of monomers, nucleotides, amino acids, small molecules, antigens, antibodies, ligands, proteins, nucleic acids, phage and viral particles, and cells.

13. The library of claim 1 that is a combinatorial library.

14. A library of molecules or biological particles comprising:

a plurality of unique molecules or biological particles, wherein each molecule or biological particle is linked to and synthesized on one of a plurality of discrete solid support devices, each solid support device comprising the combination of;

a vessel comprising a frame formed from an inert material and an inert mesh supported by the frame, the mesh adapted to permit reagents to pass therethrough;

wherein the vessel has an information surface;

a plurality of particles contained within the vessel, wherein the particles are treated for linking molecules or biological particles; and

an optically-readable symbol imprinted or engraved on the information surface, the symbol comprising optically-encoded data including a unique identifier and an orientation indicator for determining orientation of the symbol with respect to an optical reader;

wherein the unique identifier corresponds to the molecule or biological particle that is linked to and synthesized on the particles contained within the vessel so that each molecule or biological particle of the library is uniquely labeled.

15. The library of claim 14, wherein the frame is adapted for receiving a cap for sealing the vessel.

16. The library of claim 15, wherein an outer surface of the cap comprises the information surface.

17. The library of claim 14, wherein the vessel has a volume of about 30 mm³ or less.

18. The library of claim 14, wherein the optically-readable symbol is a two-dimensional bar code.

19. The library of claim 14, wherein the molecules or biological particles are selected from the group consisting of monomers, nucleotides, amino acids, small molecules, antigens, antibodies, ligands, proteins, nucleic acids, phage and viral particles, and cells.

20. The library of claim 14 that is a combinatorial library.