Epigenetic sequences for esophageal adenocarcinoma
OwnerPeter Lairdinventor
Life of this patent
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Abstract
There is disclosed a diagnostic or prognostic assay for cancer, particularly gastrointestinal and esophageal adenocarcinoma. Specifically, the present invention provides a methylation pattern that can be assayed by standard methylation assays of CpG islands, including which genes are hypermethylated and which genes are unmethylated in gastrointestinal and esophageal adenocarcinomas, Barrett's esophagous, and normal squamous mucosa.
Claims24
A method for diagnosing cancer or cancer-related conditions from tissue samples, comprising:
- (a) obtaining a tissue sample from a test tissue or region to be diagnosed;
- (b) performing a methylation assay of the tissue sample, wherein the methylation assay determines the methylation state of genomic CpG sequences, wherein the genomic CpG sequences are located within at least one gene sequence selected from the group consisting of APC, ARF, CALCA, CDH1, CDKN2A, CDKN2B, ESR1, GSTP1, HIC1, MGMT, MLH1, MYOD1, RB1, TGFBR2, THBS1, TIMP3, CTNNB1, PTGS2, TYMS and MTHFR, and combinations thereof;
- and
- (c) making a diagnostic or prognostic prediction of the cancer based, at least in part, upon the methylation state of the genomic CpG sequences.
A kit useful for diagnosis or prognosis of cancer or cancer-related conditions, comprising a carrier means containing one or more containers comprising:
- (a) a container containing a probe or primer which hybridizes to any region of a sequence located within at least one gene sequence selected from the group consisting of APC, ARF, CALCA, CDH1, CDKN2A, CDKN2B, ESR1, GSTP1, HIC1, MGMT, MLH1, MYOD1, RB1, TGFBR2, THBS1, TIMP3, CTNNB1, PTGS2, TYMS and MTHFR;
- and
- (b) additional standard methylation assay reagents required to affect detection of methylated CpG-containing nucleic acid based, at least in part, on the probe or primer.
A kit useful for diagnosis or prognosis of cancer or cancer-related conditions, comprising a carrier means containing one or more containers comprising:
- (a) an array or micorarray comprising sequences of at least about 12 to 15 nucleotides of a sequence selected from the group consisting of SEQ ID NOs:1-60, 64, 65, and any sequence located within a CpG island sequence associated with SEQ ID NOs:1-54, 58-60, 64 and 65.
Dependencies are inferred from the claim text.