Association rule mining and visualization for disease related gene

• US 20030187592A1
• Filed: 12/04/2002
• Published: 10/02/2003
• Est. Priority Date: 03/26/2002
• Status: Abandoned Application

• Current Assignee: Hitachi, Ltd.
• Original Assignee: Hitachi, Ltd.
• Inventors: Nishikawa, Tetsuo, Ohta, Yoshihiro, Ihara, Shigeo
• Application Number:
  US10/309,141
• Publication Number:
  US 20030187592A1
• Time in Patent Office: Days
• US Class Current: 702/20
• CPC Class Codes: G16B 25/00 ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
• CPC Class Codes: G16B 40/00 ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
• CPC Class Codes: G16B 45/00 ICT specially adapted for bioinformatics-related data visualisation, e.g. displaying of maps or networks
• CPC Class Codes: G16B 50/00 ICT programming tools or database systems specially adapted for bioinformatics
• CPC Class Codes: G16B 50/10 Ontologies; Annotations

Abstract

Features relating to gene expression levels are extracted and visualized in an effective manner. Data about the gene expression levels is utilized for medical diagnosis. Information about whether or not the expression levels of each of positive samples are within a predetermined range is displayed comparatively with information about whether or not the expression levels of each of negative samples are within a predetermined range.

Claims

1. A display system for displaying information about expression levels of genes in samples, wherein information about expression levels of each of a plurality of samples belonging to a first group is displayed comparatively with information about the expression levels of each of a plurality of samples belonging to a second group that has a different property from that of the first group.

2. The display system according to claim 1, wherein items of information about the expression levels of a plurality of genes are displayed in a comparative manner.

3. The display system according to claim 1, wherein the information about the expression levels indicates whether or not the expression levels are within a predetermined range.

4. The display system according to claim 3, wherein the first group has a specific property, while the second group does not have that specific property.

5. The display system according to claim 1, wherein items of information about the expression levels of the multiple samples belonging to the first group are displayed adjacent to one another, and items of information about the expression levels of the multiple samples belonging to the second group are displayed adjacent to one another.

6. A display system for displaying information about the expression levels of genes in samples, wherein two histograms are displayed, wherein the first histogram is prepared based on the expression levels of each of the samples belonging to a first group, and the second histogram is prepared based on the expression levels of each of the samples belonging to a second group with a different property from that of the first group, each histogram having one axis showing the expression levels and the other axis showing the number of samples.

7. The display system according to claim 6, wherein the first and second histograms are displayed in a superposed manner on a single graph sharing the same axes.

8. The display system according to claim 7, wherein the first and second histograms are displayed in different ways.

9. The display system according to claim 6, wherein the axis indicating the expression levels is divided into a plurality of expression level sections.

10. The display system according to claim 6, wherein the first group has a specific property while the second group does not have the specific property.

11. A medical diagnostic support system comprising:

a storage unit for storing a set of combinations of expression level ranges of a plurality of genes characterizing the presence of a specific property, and a set of combinations of expression level ranges of a plurality of genes characterizing the absence of the specific property;

a computation unit for computing the probability of a tested sample having the specific property by comparing the expression level ranges of a plurality of genes of the tested sample with combinations of expression level ranges of the plurality of genes stored in the storage unit; and

a display unit for displaying the results of computation in the computation unit.

12. The medical diagnosis support system according to claim 11, wherein the specific property relates to the fact that a specific treatment method is effective.

13. The medical diagnosis support system according to claim 11, wherein the specific property relates to the fact that the sample is afflicted with a specific disease.

14. The medical diagnosis support system according to claim 11, wherein the specific property relates to the fact that the sample is prone to a specific disease.

15. The medical diagnosis support system according to claim 11, wherein the result of computation in the computation unit is displayed on the display unit in numerical terms.

16. The medical diagnosis support system according to claim 11, wherein the result of computation in the computation unit is displayed on the display unit in percentage terms on a graph.

17. The medical diagnosis support system according to claim 11, wherein the storage unit for storing a set of combinations of expression level ranges of a plurality of genes characterizing the presence of a specific property, and a set of combinations of expression level ranges of a plurality of genes characterizing the absence of the specific property is provided for each of a plurality of different properties.

18. The medical diagnostic support system according to claim 17, wherein the computing unit calculates the probability of the tested sample having a first property by comparing the expression level ranges of a plurality of genes in the tested sample with combinations of expression level ranges of a plurality of genes stored in a first storage unit, and calculates the probability of the tested sample having a second property by comparing the expression level ranges of a plurality of genes in the tested sample with combinations of expression level ranges of a plurality of genes stored in a second storage unit.

19. The medical diagnostic support system according to claim 18, wherein the display unit displays the probability of the tested sample having the first property and the probability of it having the second property.

20. The medical diagnostic support system according to claim 18, wherein the display unit displays the probability of the tested sample having the first property and the probability of it having the second property in percentage terms on a graph.