METHODS AND COMPOSITIONS FOR ASSESSMENT OF PULMONARY FUNCTION AND DISORDERS

• US 20100285973A1
• Filed: 05/30/2007
• Published: 11/11/2010
• Est. Priority Date: 05/30/2006
• Status: Abandoned Application

• Current Assignee: Synergenz BioScience, Inc.
• Original Assignee: Synergenz Bioscience Limited of Sea Meadow House
• Inventors: Young, Robert Peter
• Application Number:
  US12/302,741
• Publication Number:
  US 20100285973A1
• Time in Patent Office: Days
• US Class Current: 506/7
• CPC Class Codes: C12Q 1/6883 for diseases caused by alterations of genetic material
• CPC Class Codes: C12Q 2600/156 Polymorphic or mutational markers
• CPC Class Codes: C12Q 2600/158 Expression markers
• CPC Class Codes: C12Q 2600/16 Primer sets for multiplex assays
• CPC Class Codes: G01N 2800/122 Chronic or obstructive airway disorders, e.g. asthma COPD
• CPC Class Codes: G01N 33/6803 General methods of protein analysis not limited to specific proteins or families of proteins

Abstract

The present invention provides methods for the assessment risk of developing asthma in smokers and non-smokers using analysis of genetic polymorphisms. The present invention also relates to the use of genetic polymorphisms in assessing a subject'"'"'s risk of developing asthma. Nucleotide probes and primers, kits, and microarrays suitable for such assessment are also provided.

Claims

1. A method of determining a subject'"'"'s risk of developing asthma comprising analysing a sample from said subject for the presence or absence of at least one polymorphism selected from the group consisting of:

+489 G/A in the gene encoding Tissue Necrosis Factor α

(TNF α

);

Tyr 113 His T/C (Exon3) in the gene encoding Microsomal epoxide hydrolase (MEH); and

one or more polymorphisms which are in linkage disequilibrium with +489 G/A in the gene encoding TNF α

or Tyr 113 His T/C (Exon3) in the gene encoding MEH;

wherein the presence or absence of said at least one polymorphism is indicative of the subject'"'"'s risk of developing asthma.

2. The method according to claim 1, wherein the method comprises analysing said sample for the presence or absence of one or more further polymorphisms selected from the group consisting of:

Ile 105 Val A/G in the gene encoding Glutathione S Transferase P (GSTP1);

Arg 197 Gln A/G in the gene encoding N-acetyltransferase 2 (NAT2);

−

159 C/T in the gene encoding CD14;

+2151 G/C in the gene encoding ADAM 33;

−

403 C/T in the gene encoding RANTES;

E469K A/G in the gene encoding Intra-cellular adhesion molecule (ICAM1); and

one or more polymorphisms which are in linkage disequilibrium with Ile 105 Val A/G in the gene encoding GSTP1, Arg 197 Gln A/G in the gene encoding NAT2, −

159 C/T in the gene encoding CD14, +2151 G/C in the gene encoding ADAM 33, −

403 C/T in the gene encoding RANTES, or E469K A/G in the gene encoding ICAM1.

3. The method according to claim 2, wherein the presence of one or more of polymorphisms selected from the group consisting of:

the Ile 105 Val A/G AA genotype in the gene encoding GSTP1;

the +489 G/A GG genotype in the gene encoding TNF α

;

the −

159 C/T CC genotype in the gene encoding CD14;

the +2151 G/C CC or CG genotype in the gene encoding ADAM 33; and

the −

403 C/T TT genotype in the gene encoding RANTES;

is indicative of a reduced risk of developing asthma.

4. The method according to claim 2, wherein the presence of one or more of polymorphisms selected from the group consisting of:

the Arg 197 Gln A/G AA genotype in the gene encoding NAT2;

the +489 G/A AA or AG genotype in the gene encoding TNF α

;

the +2151 G/C GG genotype in the gene encoding ADAM 33;

the Tyr 113 His T/C (Exon3) CC genotype in the gene encoding MEH; and

the E469K A/G AA genotype in the gene encoding ICAM1;

is indicative of an increased risk of developing asthma.

13. The method according to claim 1, wherein said method comprises further analyzing one or more epidemiological risk factors.

5. A method of assessing a subject'"'"'s risk of developing asthma said method comprising the steps:

(i) determining the presence or absence of at least one protective polymorphism associated with a reduced risk of developing asthma; and

(ii) in the absence of at least one protective polymorphism, determining the presence or absence of at least one susceptibility polymorphism associated with an increased risk of developing asthma;

wherein the presence of at least one protective polymorphism is indicative of a reduced risk of developing asthma, and wherein the absence of at least one protective polymorphism in combination with the presence of at least one susceptibility polymorphism is indicative of an increased risk of developing asthma.

6. The method according to claim 5, wherein said at least one protective polymorphism is the +489 G/A GG genotype in the gene encoding TNF α

.

7. The method according to claim 5, wherein said at least one protective polymorphism is selected from the group consisting of:

the Ile 105 Val A/G AA genotype in the gene encoding GSTP1;

the −

159 C/T CC genotype in the gene encoding CD14;

the +2151 G/C CC or CG genotype in the gene encoding ADAM 33; and

the −

403 C/T TT genotype in the gene encoding RANTES.

8. The method according to claim 5, wherein said at least one susceptibility polymorphism is a genotype selected from the group consisting of:

the +489 G/A AA or AG genotype in the gene encoding TNF α

; and

the Tyr 113 His T/C (Exon3) CC genotype in the gene encoding MEH.

9. The method according to claim 5, wherein said at least one susceptibility polymorphism is a genotype selected from the group consisting of:

the Arg 197 Gln A/G AA genotype in the gene encoding NAT2;

the +2151 G/C GG genotype in the gene encoding ADAM 33; and

the E469K A/G AA genotype in the gene encoding ICAM1.

10. The method according to claim 5, wherein the presence of two or more protective polymorphisms irrespective of the presence of one or more susceptibility polymorphisms is indicative of reduced risk of developing asthma.

11. The method according to claim 5, wherein the presence of two or more susceptibility polymorphisms is indicative of an increased risk of developing asthma.

12. A method of determining a subject'"'"'s risk of developing asthma, comprising analysing a sample from said subject for the presence of two or more polymorphisms selected from the group consisting of:

+489 G/A in the gene encoding Tissue Necrosis Factor α

(TNF α

);

Tyr 113 His T/C (Exon3) in the gene encoding Microsomal epoxide hydrolase (MEH);

Ile 105 Val A/G in the gene encoding Glutathione S Transferase P (GSTP1);

Arg 197 Gln A/G in the gene encoding N-acetyltransferase 2 (NAT2);

−

159 C/T in the gene encoding CD14;

+2151 G/C in the gene encoding ADAM 33;

−

403 C/T in the gene encoding RANTES;

E469K A/G in the gene encoding Intra-cellular adhesion molecule (ICAM1); and

one or more polymorphisms which are in linkage disequilibrium with +489 G/A in the gene encoding TNF α

, Tyr 113 His T/C (Exon3) in the gene encoding MEH, Ile 105 Val A/G in the gene encoding GSTP1, Arg 197 Gln A/G in the gene encoding NAT2, −

159 C/T in the gene encoding CD14, +2151 G/C in the gene encoding ADAM 33, −

403 C/T in the gene encoding RANTES, or E469K A/G in the gene encoding ICAM1.

14. A method of determining a subject'"'"'s risk of developing asthma, said method comprising the steps:

(i) providing the result of one or more genetic tests of a sample from said subject; and

(ii) analysing the result for the presence or absence of one or more polymorphisms selected from the group consisting of;

+489 G/A in the gene encoding Tissue Necrosis Factor α

(TNF α

);

Tyr 113 His T/C (Exon3) in the gene encoding Microsomal epoxide hydrolase (MEH); and

one or more polymorphisms which are in linkage disequilibrium with +489 G/A in the gene encoding TNF α

or Tyr 113 His T/C (Exon3) in the gene encoding MEH;

wherein a result indicating the presence or absence of one or more of said polymorphisms is indicative of the subject'"'"'s risk of developing asthma.

15. The method according to claim 14, wherein a result indicating the presence of the +489 G/A GG genotype in the gene encoding TNF α

is indicative of a reduced risk of developing asthma.

16. The method according to claim 14, wherein a result indicating the presence of one or more of the polymorphisms selected from the group consisting of:

the +489 G/A AA or AG genotype in the gene encoding TNF α

; and

the Tyr 113 His T/C (Exon3) CC genotype in the gene encoding MEH;

is indicative of an increased risk of developing asthma.

17-41. -41. (canceled)