System, method, and computer software product for instrument control and data acquisition, analysis, management and storage

• US 20040220897A1
• Filed: 01/26/2004
• Published: 11/04/2004
• Est. Priority Date: 07/19/2001
• Status: Abandoned Application

• Current Assignee: Affymetrix, Inc. (Thermo Fisher Scientific Incorporated)
• Original Assignee: Affymetrix, Inc. (Thermo Fisher Scientific Incorporated)
• Inventors: Bernhart, Derek H., Nijor, Rajindar S., Kaushikkar, Shantanu
• Application Number:
  US10/764,663
• Publication Number:
  US 20040220897A1
• Time in Patent Office: Days
• US Class Current: 707/1
• CPC Class Codes: B01J 2219/007 Simulation or vitual synthesis
• CPC Class Codes: G01N 2035/00158 Elements containing microarrays, i.e. "biochip"
• CPC Class Codes: G01N 2035/00881 network configurations
• CPC Class Codes: G01N 27/44717 Arrangements for investigating the separated zones, e.g. localising zones
• CPC Class Codes: G01N 27/44721 by optical means
• CPC Class Codes: G01N 35/00584 Control arrangements for automatic analysers
• CPC Class Codes: G01N 35/00871 Communications between instruments or with remote terminals
• CPC Class Codes: G16B 20/00 ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
• CPC Class Codes: G16B 20/20 Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
• CPC Class Codes: G16B 20/40 Population genetics; Linkage disequilibrium
• CPC Class Codes: G16B 25/00 ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
• CPC Class Codes: G16B 25/20 Polymerase chain reaction [PCR]; Primer or probe design; Probe optimisation
• CPC Class Codes: G16B 45/00 ICT specially adapted for bioinformatics-related data visualisation, e.g. displaying of maps or networks

Abstract

A system is described for providing an interface enabled to transfer data between databases that comprises a database that stores data and is associated with a computer workstation, where the data includes data associated with biological probe arrays; a second database that stores the data that is associated with a server; and an interface that transfers the data between the databases based, at least in part, upon a user selection.

Claims

1. A system for providing an interface enabled to transfer data between a plurality of databases, comprising:

a first database constructed and arranged to store a set of one or more data, wherein the first database is associated with a workstation, and the set of one or more data includes data associated with biological probe arrays;

a second database constructed and arranged to store the set of one or more data, wherein the second database is associated with a server; and

an interface constructed and arranged to transfer the set of one or more data between the first database and the second database based, at least in part, upon a user selection.

2. The system of claim 1, wherein:

the set of one or more data includes a data file.

3. The system of claim 2, wherein:

the data file is a .cel file, a .dat file, a .tif file, a .chp file, or a .spt file.

4. The system of claim 2, wherein:

the data file is a lab data file.

5. The system of claim 1, wherein:

the set of one or more data includes a data object.

6. The system of claim 1, wherein:

the first database and second database includes a data model.

7. The system of claim 6, wherein:

the data model is constructed and arranged to store and provide access to the set of one or more data.

8. The system of claim 7, wherein:

the data model includes a relational data model.

9. The system of claim 8, wherein:

the data model includes an AADM data model.

10. The system of claim 1, wherein:

the interface includes a middleware application.

11. The system of claim 10, wherein:

the middleware application is executed on the workstation.

12. The system of claim 10, wherein:

the middleware application is executed on the server.

13. The system of claim 10, wherein:

the middleware application provides access to the set of one or more data.

14. The system of claim 1, wherein:

the interface includes a graphical user interface.

15. The system of claim 14, wherein:

the graphical user interface displays the set of one or more data based, at least in part, upon a user selection.

16. The system of claim 14, wherein:

the graphical user interface displays a graphical illustration of space usage based, at least in part, upon a user selection.

17. The system of claim 14, wherein:

the graphical user interface enables the user selection of the set of one or more data to transfer.

18. A method for providing a middleware application enabled to transfer data between a plurality of databases, comprising the steps of:

providing a first database associated with a workstation;

providing a second database associated with a server; and

providing a middleware application, wherein the middleware application performs the step of;

transferring a set of one or more data between the first database and the second database based, at least in part, upon a user selection; and

wherein the set of one or more data includes data associated with biological probe arrays.

19. The method of claim 18, wherein:

the middleware application is executed on the workstation.

20. The method of claim 18, wherein:

the middleware application is executed on the server.

21. The method of claim 18, wherein:

the middleware application further performs the step of;

providing access to the set of one or more data.

22. The method of claim 18, wherein:

the access is provided by a graphical user interface, wherein the graphical user interface displays the set of one or more data based, at least in part, upon a user selection.

23. A system for providing access security, comprising:

a workstation constructed and arranged to execute a user request for access to a server, wherein the user request includes a user identity;

a database constructed and arranged to provide a set of access information;

a service application constructed and arranged to receive the user request and perform the steps of;

querying the database based, at least in part, upon the user identity;

receiving the set of access information based, at least in part, upon the user identity; and

providing access privileges to the server based, at least in part, upon the set of access information.

24. The system of claim 23, wherein:

the service application is associated with the server.

25. The system of claim 23, wherein:

the set of access information includes access to specific files.

26. The system of claim 23, wherein:

the access privileges include updating the access permission associated with the file.

27. The system of claim 23, wherein:

the service application further performs the step of;

revoking the access privileges based, at least in part, upon user disconnection.

28. A system for providing an interface enabled to transfer data between a plurality of databases, comprising:

a first database stored and executed an a workstation;

a second database stored and executed on a server; and

wherein the workstation is constructed and arranged to store and execute the interface in system memory, and the interface is constructed and arranged to perform the step of;

transferring a set of one or more data between the first database and the second database based, at least in part, upon a user selection; and

wherein the set of one or more data includes data associated with biological probe arrays.

29. The system of claim 28, wherein:

the interface includes a middleware application.

30. The system of claim 28, wherein:

the interface includes a graphical user interface.

31. The system of claim 28, wherein:

the step of transferring further comprises producing a copy of each of the set of one or more data.

32. The system of claim 31, wherein:

the copy includes a .CAB file format.

33. The system of claim 28, wherein:

the set of one or more data is transferred over a network.

34. The system of claim 33, wherein:

the network includes the internet.

35. A computer program product for enabling transfer of a set of one or more data between a plurality of databases, wherein the computer program product comprises:

an interface constructed and arranged to transfer the set of one or more data between a first database and a second database based, at least in part, upon a user selection; and

wherein the set of one or more data includes data associated with biological probe arrays.

36. The computer program product of claim 35, wherein:

the interface includes a graphical user interface enabled to receive the user selection.

37. The computer program product of claim 35, wherein:

the first database is stored and executed on a workstation and the second database is stored and executed on a server.

38. The computer program product of claim 35, wherein:

the first database is stored and executed on a first workstation and the second database is stored and executed on a second workstation.

39. A method for providing access security, comprising the steps of:

executing a user request for access to a server;

receiving the user request, wherein the user request includes a user identity;

querying a set of access information based, at least in part, upon the user identity; and

providing access privileges to the server based, at least in part, upon the set of access information.

40. A system for providing access security, comprising:

a workstation constructed and arranged to execute a user request for access to a server;

a security manager constructed and arranged to receive the user request, wherein the user request includes a user identity;

an access determiner constructed and arranged to query a set of access information based, at least in part, upon the user identity; and

an access provider constructed and arranged to provide access privileges to the server based, at least in part, upon the set of access information.