SYSTEMS AND METHODS FOR REMOTE COMPUTER-BASED ANALYSIS OF USER-PROVIDED CHEMOGENOMIC DATA

• US 20070198653A1
• Filed: 12/21/2006
• Published: 08/23/2007
• Est. Priority Date: 12/30/2005
• Status: Abandoned Application

• Current Assignee: US Department of Health and Human Services (Government of the United States of America)
• Original Assignee: US Department of Health and Human Services (Government of the United States of America)
• Inventors: Jarnagin, Kurt, Natsoulis, Georges, Brennan, Richard, Tolley, Alexander, Ganter Seghezzi, Brigitte
• Application Number:
  US11/614,823
• Publication Number:
  US 20070198653A1
• Time in Patent Office: Days
• US Class Current: 709/217
• CPC Class Codes: G16B 25/00 ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
• CPC Class Codes: G16B 25/10 Gene or protein expression profiling; Expression-ratio estimation or normalisation
• CPC Class Codes: G16B 50/00 ICT programming tools or database systems specially adapted for bioinformatics
• CPC Class Codes: G16B 50/30 Data warehousing; Computing architectures

Abstract

The invention provides systems and methods for remote computer-based analysis of user provided chemogenomic data. The invention includes computer-based systems and software that allow a remote user to access a centralized comprehensive chemogenomic database and use the correlative tools of that database to assess the user'"'"'s data. The tools allow the user to generate a summary report of the chemogenomic/toxicogenomic analysis results obtained using the chemogenomic database.

Claims

1. A method for analysis of client data on a remote chemogenomic database, said method comprising:

a) providing a remote computer connected to a distributed network comprising a client computer, wherein said remote computer comprises a chemogenomic database and analysis software;

b) transmitting executable code from said remote computer to said client computer, wherein said executable code comprises instructions for;

i) accepting input of client data and an access key; and

ii) transmitting said client data and access key to said remote computer;

c) receiving transmission of said client data and access key from said client computer;

d) analyzing said client data using said database;

e) generating a data analysis report on said remote computer; and

f) transmitting the data analysis report from said remote computer to said client computer.

2. The method of claim 1, wherein said method further comprises deleting the client data and the data analysis report from the remote computer after the report is transmitted to the client computer.

3. The method of claim 1, wherein the method further comprises deleting the executable code on the client computer after the access key and client data is transmitted to the remote computer.

4. The method of claim 1, wherein said executable code further comprises instructions for validating the quality of said client data.

5. The method of claim 4, wherein said validating of client data comprises calculating a Pearson'"'"'s correlation coefficient.

6. The method of claim 1, wherein said executable code further comprises instructions for removing extraneous data from said client data.

7. The method of claim 1, wherein said executable code comprises instructions for generating a graphical user interface capable of accepting client data input on said client computer.

8. The method of claim 1, wherein said method further comprises providing a gene expression assay device in packaged combination with an access key.

9. The method of claim 1, wherein said client data comprises gene expression data from a gene expression assay device.

10. The method of claim 9, wherein the gene expression assay device is a DNA microarray or a PCR reagent kit.

11. The method of claim 1, wherein the access key identifies an individual gene expression assay device.

12. The method of claim 1, wherein the data analysis report comprises results of drug signature probability matching analysis.

13. The method of claim 1, wherein the data analysis report comprises results of pathway response pattern matching analysis.

14. A software product encoded in a computer-readable medium wherein said software product comprises instructions for:

a) transmitting executable code from said remote computer to said client computer, wherein said executable code comprises instructions for;

i) accepting input of client data and an access key; and

ii) transmitting said client data and access key to said remote computer;

b) receiving transmission of said client data and access key from said client computer;

c) analyzing said client data using said database;

d) generating a data analysis report on said remote computer; and

e) transmitting the data analysis report from said remote computer to said client computer.

15. The software product of claim 14, wherein said product further comprises instructions for deleting the client data and the data analysis report from the remote computer after the report is transmitted to the client computer.

16. The software product of claim 14, wherein said product further comprises instructions for deleting the executable code on the client computer after the access key and client data is transmitted to the remote computer.

17. The software product of claim 14, wherein said transmitted executable code further comprises instructions for validating of the quality of said client data.

18. The software product of claim 14, wherein said validating of client chemogenomic data comprises calculating a Pearson'"'"'s correlation coefficient.

19. The software product of claim 14, wherein said transmitted executable code further comprises instructions for removing extraneous data from said client data.

20. A kit comprising a gene expression assay device in packaged combination with an access key, wherein said access key allows analysis of data from said gene expression assay device on a remote chemogenomic database.

21. The kit of claim 20, wherein the gene expression assay device is a DNA microarray or a PCR reagent kit.