Chemical array with test dependent signal reading or processing

• US 7,353,116 B2
• Filed: 07/31/2003
• Issued: 04/01/2008
• Est. Priority Date: 07/31/2003
• Status: Expired due to Fees

• Current Assignee: Agilent Technologies, Inc.
• Original Assignee: Agilent Technologies, Inc.
• Inventors: Amores, Douglas A., Webb, Peter G.
• Primary Examiner(s): Zeman; Mary K.
• Application Number:
  US10/633,611
• Publication Number:
  US 20050026155A1
• Time in Patent Office: 1,706 Days
• Field of Search: 702/19, 435/6, 382/128
• US Class Current: 702/19
• CPC Class Codes: B01J 2219/00547 Bar codes
• CPC Class Codes: G06Q 30/04 Billing or invoicing
• CPC Class Codes: G16B 25/00 ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
• CPC Class Codes: G16H 10/20 for electronic clinical trials or questionnaires
• CPC Class Codes: Y10S 707/99943 Generating database or data structure, e.g. via user interface

Abstract

A method in which an array identifier for a chemical array with probes at multiple feature locations is retrieved from a memory or read. The array identifier, a request for a test which requires an instruction on reading or processing the signal data read from the array, and payment information, are all forwarded to a remote location. A method is also provided which includes retrieving an instruction on reading or processing signal data read from a chemical array. This is retrieved from a memory using a test request and which memory carries one or more instructions for the array each retrievable with a different test request. Apparatus and computer program products are further provided.

Claims

1. A method comprising:

providing a test request for reading or processing signal data from a sub-array of probes on a chemical array, wherein the test request references a type of test to be performed;

retrieving an instruction, corresponding to the test request provided, from a plurality of instructions stored in a memory, wherein different instructions for reading or processing signal data from the chemical array, corresponding to different test requests are stored in the memory, each instruction retrievable with a different test request, based on the test request provided and wherein at least two of said instructions instruct processing or reading a sub-array pattern, different from the other, from the same chemical array, and wherein any sub-array pattern, whether comprising a continuous set of features or a non-continuous set of features is instructable;

reading or processing the signal data, for the sub-array instructed by the retrieved instruction; and

outputting results from said reading or processing for use by a user.

2. A method according to claim 1, additionally comprising repeating the providing, retrieving, and reading or processing one or more times with respect to the chemical array, each time with a different test request, and wherein the retrieving comprises retrieving different instructions in at least one repetition, and reading or processing signal data from a different sub-array in at least one of the repetitions.

3. A method according to claim 1 wherein at least one of said instructions comprises an instruction for processing signal data from the sub-array of the chemical array identified by a sub-array pattern provided by the instruction.

4. A method according to claim 3 wherein at least one of said instructions comprises an indication that only signal data from feature locations in the sub-array need be read or processed.

5. A method according to claim 3 wherein the sub-array pattern is received from a memory which carries multiple sub-array patterns for the chemical array, each said sub-array pattern being retrievable with a different test request.

6. A method according to claim 5 wherein said processing the signal data comprises processing only signal data from features within the received sub-array pattern, as applied to the chemical array.

7. A method according to claim 5, further comprising transmitting results from acquired signal data from only those array feature locations within the received sub-array pattern, wherein those array feature locations are identified by applying the received sub-array pattern to the chemical array.

8. A method according to claim 7 wherein the results do not provide any indication of which feature locations of the chemical array are bound to a sample component.

9. The method of claim 1, further comprising providing an array identifier, said array identifier identifying the chemical array, and wherein said retrieving an instruction is performed based on said test request and said array identifier.

10. The method of claim 1, further comprising providing account information in addition to said providing a test request.

11. The method of claim 10, further comprising charging an account according to said account information provided, for a test requested by said test request having been provided.

12. The method of claim 1, further comprising transmitting results of said processing to a user at a remote location.

13. The method of claim 1, wherein the at least one instruction comprises an indication that only signal data from feature locations in the sub-array need be read or processed.

14. The method of claim 10, additionally comprising providing to a requestor of the test a price for the test requested.

15. The method of claim 1, wherein at least one instruction comprises an instruction on processing read signal data.

16. The method of claim 1, wherein at least one instruction comprises a data processing instruction or a parameter for a method which performs array signal data interpretation.

17. The method of claim 1, wherein said signal data is obtained from labeled target molecules bound to one or more probes on the chemical array.

18. The method of claim 1, further comprising providing a unique array identifier for the chemical array with said test request, wherein said different instructions for reading or processing signal data from the chemical array are each linked with a different test request and are all linked to the unique array identifier.

19. The method of claim 1, wherein said reading or processing are carried out at a first location, said test request is transmitted to a second location remote from said first location, and the instruction is retrieved at said second location and transmitted to said first location.

20. The method of claim 1, wherein signal data from the chemical array and said test request are transmitted from a first location to a second location remote from said first location, and wherein said reading or processing the signal data comprises processing the signal data at said second location.

21. The method of claim 11, wherein said reading or processing are carried out at a first location, and said test request and account information are transmitted to a second location remote from said first location.

22. The method of claim 11, wherein signal data from the chemical array and said test request and account information are transmitted from a first location to a second location remote from said first location, and wherein said reading or processing the signal data comprises processing the signal data at said second location.

23. The method of claim 1, wherein said test request is transmitted form a first location to a second location remote from said first location, said method further comprising transmitting a quoted price for the test requested, from said second location to said first location.

24. The method of claim 1, wherein said outputting comprises presenting said read or processed data on a display for viewing by a human user.

25. The method of claim 1, wherein said test request is selected from the group of test requests consisting of:

tests for expression levels of one or more genes or a class of genes;

tests for gene polymorphisms, tests for copy numbers of one or more genes or a class of genes;

tests for the presence of a pathogen; and

tests for a disease condition of an organism from which a sample exposed to the chemical array was derived;

testing a sample to ascertain whether it contains one or more predefined components, either quantitatively or qualitatively.

26. The method of claim 1, wherein a sample has been exposed to the chemical array prior to said reading or processing the signal data, and wherein said result indicates whether a sample that was exposed to the chemical array likely does or does not exhibit a particular condition selected from the group consisting of:

a disease, presence of a pathogen and a particular genetic deficiency.

27. A method comprising:

providing a test request for reading signal data from a sub-array of probes on a chemical array, wherein the test request references a type of test to be performed;

retrieving an instruction, corresponding to the test request provided, from a plurality of instructions stored in a memory, wherein different instructions for reading signal data from the chemical array, corresponding to different test requests are stored in the memory, each instruction retrievable with a different test request, based on the test request provided and wherein at least two of said instructions instruct processing or reading a sub-array pattern, different from the other, from the same chemical array;

reading the signal data, for the sub-array instructed by the retrieved instruction; and

outputting results from said reading for use by a user.

28. A method comprising:

providing a test request for reading or processing a sub-array of probes on a chemical array, wherein the test request references a type of test to be performed;

retrieving an instruction, corresponding to the test request provided, from a plurality of instructions stored in a memory, wherein different instructions for reading or processing signal data from the chemical array, corresponding to different test requests are stored in the memory, each instruction retrievable with a different test request, based on the test request provided and wherein at least two of said instructions instruct processing or reading a sub-array pattern, different from the other, from the same chemical array;

reading signal data, for the sub-array instructed by the retrieved instruction or exposing the sub-array to a sample; and

outputting results from said reading for use by a user or providing the exposed array.