Methods of genetic analysis of mouse

• US 20050026164A1
• Filed: 11/20/2003
• Published: 02/03/2005
• Est. Priority Date: 11/20/2002
• Status: Active Grant

• Current Assignee: Affymetrix, Inc. (Thermo Fisher Scientific Incorporated)
• Original Assignee: Affymetrix, Inc. (Thermo Fisher Scientific Incorporated)
• Inventors: Zhou, Xue Mei
• Granted Patent: US 7,250,289 B2
• Time in Patent Office: Days
• US Class Current: 506/4
• CPC Class Codes: C12Q 1/6837 using probe arrays or probe chips C12Q1/6874 takes precedence
• CPC Class Codes: C12Q 1/6888 for detection or identification of organisms
• CPC Class Codes: C12Q 2525/185 incorporating bases where the precise position of the bases in the nucleic acid string is important
• CPC Class Codes: C12Q 2545/101 with an internal standard/control
• CPC Class Codes: C12Q 2600/158 Expression markers

Abstract

The invention provides nucleic acid sequences which are complementary, in one embodiment, to a wide variety of mouse genes. The invention provides the sequences in such a way as to make them available for a variety of analyses. In one embodiment the nucleic acid sequences provided are present as an array of probes that may be used to measure gene expression of at least 30,000 mouse genes. As such, the invention relates to diverse fields impacted by the nature of molecular interaction, including chemistry, biology, medicine, and medical diagnostics.

Claims

1. An array comprising a plurality of nucleic acid probes, wherein each probe in the plurality of nucleic acid probes comprises one of the sequences listed in SEQ ID Nos. 1-982,914 and wherein the plurality of nucleic acid probes of the array comprises each of the sequences listed in SEQ ID Nos. 1-982,914.

2. The array of claim 1 further comprising at least one probe that is the perfect complement of one of the sequences listed in SEQ ID Nos. 1-982,914.

3. The array of claim 1 further comprising at least one probe that is the mismatch probe corresponding to one of the sequences listed in SEQ ID Nos. 1-982,914, wherein the mismatch position is the central position.

4. The array of claim 1 wherein said plurality of nucleic acid probes is attached to a solid support.

5. The array of claim 1 wherein the array comprises a plurality of beads wherein the probes are attached to the beads and the probes on a bead consist essentially of one of the sequences listed in SEQ ID Nos. 1-982,914.

6. The array of claim 1 wherein the array consists of a single contiguous solid support.

7. A method of monitoring gene expression levels in a biological sample from a mouse comprising:

isolating nucleic acid derived from the sample;

labeling the nucleic acid;

hybridizing the labeled nucleic acid to the array of claim 1;

and,

detecting the hybridization pattern, wherein the intensity of signal resulting from hybridization to probes on the array is used to monitor gene expression levels.

8. The method of claim 7 wherein said monitoring gene expression levels comprises comparing gene expression levels of nucleic acids derived from two or more different samples and further comprises the step of:

comparing said hybridization patterns between said nucleic acids derived from said two or more different samples.

9. The method of claim 7 wherein the labeled nucleic acid hybridized to the array consists essentially of DNA.

10. The method of claim 7 wherein the labeled nucleic acid hybridized to the array consists essentially of RNA that is complementary to the target mRNA.

11. The method of claim 7 wherein the labeled nucleic acid hybridized to the array consists essentially of RNA that is in the sense orientation relative to the target mRNA.

12. The method of claim 7 wherein the labeled nucleic acid is hybridized to the array in a single reaction.

13. An array of probes comprising at least one probe to each of at least 30,000 different mouse transcripts.

14. The array of claim 13 wherein the array consists of a single contiguous solid support.

15. The array of claim 13 wherein the solid support is a chip.

16. The array of claim 13 wherein the solid support is a membrane.