Evaluating neuropshychiatric diseases using a specimen-linked database

• US 20030032069A1
• Filed: 06/28/2002
• Published: 02/13/2003
• Est. Priority Date: 06/29/2001
• Status: Abandoned Application

• Current Assignee: Clinomics Laboratories Incorporated
• Original Assignee: Clinomics Laboratories Incorporated
• Inventors: Muraca, Patrick J.
• Application Number:
  US10/184,671
• Publication Number:
  US 20030032069A1
• Time in Patent Office: Days
• US Class Current: 435/7.21
• 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
• CPC Class Codes: G16B 50/20 Heterogeneous data integration

Abstract

The invention relates to a method and system for identifying and evaluating the responses of a patient to a neuropsychiatric disorder. Preferably, both physiological and behavioral responses are linked to molecular profiling data, i.e., data relating to the expression of a plurality of genes in tissues from the patient with these diseases. In one aspect, the invention provides a tissue information system comprising a specimen-linked database and an information management system for accessing, organizing, and displaying tissue information obtained from tissue microarrays comprising samples from patients with neuropsychiatric disorders.

Claims

1. An information system comprising:

a specimen-linked database comprising a plurality of information about a tissue microarray wherein the tissue microarray is identified by an identifier, the tissue microarray comprising a plurality of samples from at least one patient with a neuropsychiatric disorder;

at least one user device connectable to a network wherein the user device displays an interface wherein the plurality of information can be inputted into the interface; and

an information management system for searching the specimen-linked database and determining relationships between the plurality of information.

2. The information system of claim 1 further comprising a plurality of tissue microarrays.

3. The information system of claim 1 wherein the tissue microarray comprises a plurality of sublocations, wherein each sublocation being identified by a set of coordinates.

4. The information system of claim 3 wherein after the identifier is entered into the interface, the interface of the at least one user device displays a plurality of selectable coordinates wherein each set of coordinates corresponds to a set of coordinates for a single sublocation, wherein selection of the set of coordinates for a single sublocation causes the information management system to display a plurality of information about a sample located at the sublocation identified by the set of coordinates.

5. The information system of claim 4 wherein each set of coordinates is associated with a link for linking a user to the specimen-linked database.

6. The information system of claim 5 wherein the interface displays a plurality of information categories, wherein each information category is associated with a link to a portion of the specimen-linked database comprising information relating to the information category.

7. The information system of claim 3 wherein the interface of the user device displays a representation of the tissue microarray.

8. The information system of claim 7 wherein the representation of the tissue microarray comprises a plurality of images of samples at a plurality of sublocations on the tissue micro array.

9. The information system of claim 8 wherein each image is associated with a link for linking to the specimen-linked database.

10. The information system of claim 3 wherein the interface displays at least one field for inputting a set of coordinates of a sublocation of the tissue microarray.

11. The information system of claim 3 wherein the interface displays a plurality of information categories relating to a plurality of information available about a sample at a single sublocation.

12. The information system of claim 1 further comprising a plurality of records relating to an at least one physiological response of a plurality of patients having a neuropsychiatric disorder.

13. The information system of claim 12 wherein the plurality of records comprises a plurality of gene expression data.

14. The information system of claim 13 wherein the plurality of gene expression data comprises a plurality of data relating to an expression of a plurality of pathway biomolecules.

15. The information system of claim 14 wherein the plurality of pathway biomolecules comprise a plurality of biomolecules in a neurotransmitter receptor signalling pathway.

16. The information system of claim 15 wherein at least one of the plurality of biomolecules in the neurotransmitter receptor signaling pathway is selected from the group consisting of an adrenoreceptor, a dopamine receptor, an opioid receptor, cannabinoid receptor, a muscarinic receptor, a NMDA receptor, a mGlu receptor, a GABA receptor, a serotonin receptor, and combinations thereof.

17. The information system of claim 14 wherein the plurality of pathway biomolecules comprises a neurotransmitter, a neurotransmitter receptor, gene products involved in neurotransmitter synthesis, a neurotranmitter transporter, a G protein, and a kinase.

18. The information system of claim 12 wherein the neuropsychiatric disorder is classified using a DSM-IV criteria.

19. The information system of claim 12 wherein the plurality of records are indexed according to a DSM-IV classification of a plurality of information from a plurality of patients.

20. The information system of claim 1 wherein the specimen-linked database comprises a plurality of information relating to at least one non-living patient.

21. The information system of claim 1 wherein the specimen-linked database comprises a plurality of information relating to at least one living patient.

22. The information system of claim 1 wherein a plurality of tissues or a plurality of cells from the plurality of patients are arrayed on the tissue microarrray.

23. The information system of claim 1 wherein the information system further comprises a plurality of records relating to a plurality of behavioral responses of a plurality of patients having a plurality of neuropsychiatric disorders.

24. The information system of claim 23 wherein the plurality of behavioral responses comprises a plurality of responses to at least one questionnaire.

25. The information system of claim 23 wherein the plurality of behavioral responses are obtained from a plurality of records of psychological evaluations of a plurality of patients.

26. The information system of claim 1 wherein the plurality of information comprises a plurality of information relating to an exposure of at least one patient to at least one drug.

27. An information system comprising:

a tissue microarray having a plurality of samples wherein the plurality of samples are from at least one patient with a neuropsychiatric disorder;

a specimen-linked database comprising information about the tissue microarray wherein the tissue microarray is identified by an identifier;

at least one user device connectable to a network, for displaying an interface wherein a plurality if information can be inputted into the interface; and

an information management system for searching the specimen-linked database and determining relationships between the plurality of information.

28. The information system of claim 27 wherein the information management system displays the plurality of information on the interface of the user device.

29. The information system of claim 27 wherein the information system is stored within at least one server and the information management system is accessible remotely through the network.

30. The information system of claim 27 wherein the information management system is accessible through a readible medium.

31. The information system of claim 27 wherein the information management system is capable of understanding a set of natural query terms.

32. The information system of claim 27 wherein the information management system is capable of understanding Boolean operators and truncation symbols.

33. The information system of claim 27 wherein the information management system generates a plurality of search data from a plurality of terms inputted into the interface of the user device and transfers the plurality of search data to an at least one search engine to initiate a search.

34. The information system of claim 27 wherein the information management system generates a plurality of search data through a selection of options which are displayed on the interface.

35. The information system of claim 27 wherein the information management system is capable of mapping a plurality of data points obtained from the specimen-linked database.

36. The information system of claim 27 wherein the information management system is capable of classifying a plurality of tissue information by a type or an attribute.

37. The information system of claim 27 wherein the information management system is capable of assigning a relationship identification number to each of a plurality of the attributes and storing the relationship identification numbers in the specimen-linked database where the attributes are indexed by the relationship identification number and provided with a descriptor.

38. The information system of claim 27 wherein the information management system comprises a statistical program to identify a plurality of attributes as representing a particular relationship.

39. The information system of claim 27 wherein the information management system is capable of analyzing a particular relationship between a plurality of data in the specimen-linked database using any of the methods in the group consisting of regression, decision trees, neural networks, and fuzzy logic.

40. The information system of claim 27 wherein the information management system further comprises an expert system.

41. The information system of claim 40 wherein the expert system further comprises a transaction manager wherein the transaction manager directs and outputs requests between an at least one server of the information system and an at least one interface of an at least one user device of the information system.

42. The information system of claim 27 wherein the specimen-linked database comprises a plurality of information relating to at least one treatment.

43. The information system of claim 27 wherein the specimen-linked database further comprises a physiological response database wherein the physiological response database includes a plurality of information relating to an at least one physiological response of the patient with the neuropsychiatric disorder.

44. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to the expression of at least one α

₂ adrenoreceptors.

45. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one β

-adrenoreceptor pathway molecule.

46. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to an expression of at least one dopamine receptor pathway molecule.

47. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to an opioid receptor pathway molecule.

48. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one cannabinoid pathway molecule.

49. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one muscarinic receptor pathway molecule.

50. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one AMPA receptor pathway molecule.

51. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one metabotrobic glutamate receptor pathway molecule.

52. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one serotonin receptor pathway molecule.

53. The information system of claim 43 wherein the physiological response database comprises a plurality of information relating to at least one nicotinic receptor pathway molecule.

54. A method for obtaining information relating to physiological responses of a patient suspected of having a neuropsychiatric disorder comprising:

creating a tissue microarray wherein the tissue microarray includes a plurality of sublocations and a plurality of samples wherein each sublocation includes a sample;

identifying the tissue microarray with an identifier and identifying each sublocation with a set of coordinates;

treating each of the plurality of samples with a molecular probe;

entering a plurality of information relating to each sample into a specimen-linked database; and

correlating the identifier of the tissue microarray and the coordinates of the sublocation with the plurality of information using an information management system.

55. The method of claim 54 further comprising a plurality of tissure microarrays.

56. The method of claim 55 wherein at least one tissue microarray is a control tissue microarray.

57. The method of claim 54 wherein the information management system is capable of searching the specimen-linked database and determining a plurality of relationships between a plurality of information.

58. The method of claim 54 wherein the plurality of information relates to an expression of at least one neurotransmittor receptor pathway biomolecule.

59. The method of claim 54 wherein the plurality of information relates to a pluraltiy of behavioral responses of at least one patient.

60. The method of claim 54 wherein the plurality of information relates to an expression of an at least one neurally expressed gene in at least one sample on the tissue microarray.

61. The method of claim 54 wherein the plurality of information relates to the expression of at least one EST sequence in a sample on the tissue microarray.

62. The method of claim 54 wherein the molecular probe is selected from the group consisting of a nucleic acid, an aptamer, an antibody, or combinations thereof.

63. The method of claim 54 wherein the information management system identifies a plurality of relationships between an at least one expression of a biomolecule and an at least one neuropsychiatric disease.

64. The method according to claim 63 wherein the plurality of relationships identified is used to provide a diagnosis.

65. A method for obtaining information about a sample in a tissue microarray comprising:

creating the tissue microarray comprising a plurality of samples wherein at least one of the samples being from a patient with a neuropsychiatric disorder;

treating each of the plurality of samples with a molecular probe;

entering a plurality of information relating to each sample into a specimen-linked database;

correlating the identifier of the tissue microarray and the coordinates of a sublocation with the plurality of information using an information management system; and

searching the specimen-linked database with the information management system and displaying a plurality of search results on an interface of a user device.

66. The method of claim 65 further comprising comparing a first plurality of information, wherein the first plurality of information has been incorporated into the specimen-linked database, with a second plurality of information, wherein the second plurality of information has not been incorporated into the specimen-linked database.

67. The method of claim 66 wherein the information management system is capable of determining a plurality of relationships between the first plurality of information and the second plurality of information.

68. The method of claim 67 further comprising displaying the plurality of relationships on the interface of the user device.

69. The method of claim 65 wherein the user device is coupled to a molecular profiling system.

70. The method of claim 65 wherein the specimen-linked database includes a data model wherein the data model organizes a plurality of information.

71. The method of claim 65 wherein the information management system is stored within an at least one server and the information management system is accessible remotely through a network.

72. The method of claim 65 wherein the information management system is capable of understanding a set of natural language query terms.

73. The method of claim 65 wherein the information management system is capable of understanding Boolean operators and truncation symbols.

74. The method of claim 65 wherein the information management system generates a plurality of search data through a selection of options which are displayed on the interface.

75. The method of claim 65 wherein the information management system is capable of mapping a plurality of data points obtained from the specimen-linked database.