Chemical array fabrication and use

• US 6,879,915 B2
• Filed: 01/31/2001
• Issued: 04/12/2005
• Est. Priority Date: 01/31/2001
• Status: Expired due to Term

• Current Assignee: Agilent Technologies, Inc.
• Original Assignee: Agilent Technologies, Inc.
• Inventors: Cattell, Herbert F.
• Primary Examiner(s): Allen, Marianne P.
• Application Number:
  US09/775,387
• Publication Number:
  US 20020102559A1
• Time in Patent Office: 1,532 Days
• Field of Search: 435/6, 702/19, 702/20, 422/68.1
• US Class Current: 702/20
• 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 2219/00527 Sheets
• CPC Class Codes: B01J 2219/00529 DNA chips
• CPC Class Codes: B01J 2219/0054 Means for coding or tagging the apparatus or the reagents
• CPC Class Codes: B01J 2219/00565 Electromagnetic means
• 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 2219/0061 The surface being organic
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00641 the porous medium being continuous, e.g. porous oxide substrates
• CPC Class Codes: B01J 2219/00659 Two-dimensional arrays
• 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 2219/00702 Processes involving means for analysing and characterising the products
• 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: G16B 25/00 ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
• CPC Class Codes: G16B 25/30 Microarray design
• CPC Class Codes: G16B 50/00 ICT programming tools or database systems specially adapted for bioinformatics

Abstract

A method of using an addressable array of biopolymers on a substrate includes receiving the addressable array and an associated machine readable identifier carried on an array substrate or array housing. The array is exposed to a sample and read, and the identifier machine read as an identifier signal. Biological function data for one or more of the biopolymers is retrieved from a memory based on the identifier signal. Other methods in which first and updated sets of feature characteristic data may readily be provided to array users, and methods of generating arrays are also provided, as are apparatus and computer program products which can execute a method for generating or using arrays.

Claims

1. A method of using an addressable array of biopolymers on a substrate, comprising:

(a) receiving an array of addressable biopolymer regions and an associated machine readable identifier carried on an array substrate or array housing;

(b) exposing the array to a sample;

(c) reading the array;

(d) machine reading the identifier as an identifier signal; and

(e) retrieving updated biological function data for one or more of the biopolymers from a memory based on the identifier signal, wherein the retrieved biological function data comprises information on the function of a target of the array, or its complement, or the gene from which either originated;

wherein the retrieval of the biological function data includes;

communicating the identifier signal to a processor which retrieves data on the identity of the biopolymers based on the read identifier, and communicating the identity data on the biopolymers to a processor which retrieves the biological function data for one or more of the biopolymers from a memory based on the retrieved identity data.

2. A method according to claim 1 wherein the biopolymers are polynucleotides.

3. A method according to claim 2 wherein the biopolymers are DNA.

4. A method according to claim 1 wherein the memory from which biological function data is retrieved is a portable storage medium received from a remote location.

5. A method according to claim 4 wherein the machine readable identifier is read while the array is in a same apparatus which reads the array.

6. A method according to claim 1 wherein the processor which retrieves the biological function data and the memory from which the biological function data is retrieved, are remote from the location at which the array and identifier are read, and wherein the read identifier or identity data is communicated to the remote processor.

7. A method according to claim 1 wherein the retrieved biological function data comprises information on the gene from which a target or its complement originated.

8. A method according to claim 7 wherein the biopolymers are polynucleotides.

9. A method according to claim 1 wherein the retrieved biological function data comprises information on the gene from which a target of the array, or its complement, originated.

10. A method of using an addressable array of biopolymers on a substrate, comprising:

(a) receiving an array of addressable biopolymer regions and an associated machine readable identifier carried on an array substrate or array housing;

(b) exposing the array to a sample;

(c) reading the array;

(d) machine reading the identifier as an identifier signal; and

(c) communicating with a remote station and retrieving therefrom updated biological function data for one or more of the biopolymers based on the identifier signal, wherein the retrieved biological function data comprises information on the function of a target of the array, or its complement, or the gene from which either originated,

wherein the retrieval of the biological function data includes;

communicating the identifier signal to a processor which retrieves data on the identity of the biopolymers based on the read identifier; and

communicating the identity data on the biopolymers to a processor which retrieves the biological function data for one or more of the biopolymers from a memory based on the retrieved identity data.

11. A method according to claim 10 wherein the biological function data is retrieved by communicating to the remote station the identifier signal, or communicating to the remote station, biopolymer identity obtained using the identifier signal, and receiving the biological function data in response.

12. A method according to claim 11 additionally comprising:

obtaining a communication address of the remote station using the identifier signal;

wherein the communication address is used to establish communication with the remote station.

13. A method according to claim 11 additionally comprising retrieving the biopolymer identity data from a memory carrying multiple identifiers in association with the biopolymer identity data, using the identifier signal, and wherein the biopolymer identity data is communicated to the remote station to retrieve the biological function data in response.

14. A method according to claim 10 wherein the biopolymers are polynucleotides.