RAF gene fusions

• US 9,567,644 B2
• Filed: 01/05/2015
• Issued: 02/14/2017
• Est. Priority Date: 11/19/2010
• Status: Active Grant

• Current Assignee: Board of Regents of the University of Michigan (University of Michigan)
• Original Assignee: Board of Regents of the University of Michigan (University of Michigan)
• Inventors: Chinnaiyan, Arul, Palanisamy, Nallasivam, Kalyana-Sundaram, Shanker
• Primary Examiner(s): Brown, Mindy G
• Application Number:
  US14/589,543
• Publication Number:
  US 20150191795A1
• Time in Patent Office: 771 Days
• Field of Search: None
• US Class Current: 1/1
• CPC Class Codes: C12N 9/12 transferring phosphorus containing groups, e.g. kinases (2.7)
• CPC Class Codes: C12Q 1/6886 for cancer immunoassay for cancer G01N33/574
• CPC Class Codes: C12Q 2600/156 Polymorphic or mutational markers
• CPC Class Codes: C12Q 2600/158 Expression markers
• CPC Class Codes: C12Y 207/11001 Non-specific serine/threonine protein kinase (2.7.11.1), i.e. casein kinase or checkpoint kinase
• CPC Class Codes: G01N 2333/912 transferring phosphorus containing groups, e.g. kinases (2.7)
• CPC Class Codes: G01N 2333/91205 Phosphotransferases in general
• CPC Class Codes: G01N 33/5748 involving oncogenic proteins

Abstract

The present disclosure relates to compositions and methods for cancer diagnosis, research and therapy, including but not limited to, cancer markers. In particular, the present disclosure relates to RAF gene fusions as diagnostic markers and clinical targets for cancer.

Claims

1. A composition comprising an oligonucleotide probe that hybridizes to a junction of a chimeric genomic DNA or a chimeric mRNA, wherein a 5′

portion of the chimeric genomic DNA or the chimeric mRNA is from an SLC45A3gene and a 3′

portion of the chimeric genomic DNA or the chimeric mRNA is from a RAF family member gene.

2. The composition of claim 1 wherein the RAF family member gene is BRAF.

3. The composition of claim 1 wherein the 3′

portion of the chimeric genomic DNA or the chimeric mRNA comprises a wild-type sequence of the RAF family member gene.

4. The composition of claim 1 further comprising a chimeric genomic DNA or a chimeric mRNA, wherein a 5′

portion of the chimeric genomic DNA or the chimeric mRNA is from an SLC45A3 gene and a 3′

portion of the chimeric genomic DNA or the chimeric mRNA is from a RAF family member gene.

5. The composition of claim 1 wherein the 3′

portion of the chimeric genomic DNA or the chimeric mRNA comprises exon 8 of BRAF.

6. The composition of claim 1 wherein the chimeric genomic DNA or the chimeric mRNA comprises exon 1 of SLC45A3 fused to exon 8 of BRAF.

7. The composition of claim 1 wherein the oligonucleotide probe is labeled.

8. The composition of claim 4 wherein the oligonucleotide probe is hybridized to said chimeric genomic DNA or said chimeric mRNA.