Detecting neoplasm

Patent metadata

Field	Value
Publication number	US-9632093-B2
Application number	US-201615197105-A
Country	US
Kind code	B2
Filing date	Jun 29, 2016
Priority date	Feb 15, 2008
Publication date	Apr 25, 2017
Grant date	Apr 25, 2017

Abstract

This document relates to methods and materials for detecting premalignant and malignant neoplasms. For example, methods and materials for determining whether or not a stool sample from a mammal contains nucleic acid markers or polypeptide markers of a neoplasm are provided.

First claim

What is claimed is:

1. A method for characterizing a biological sample comprising:
(a) obtaining a biological sample from a human individual;
(b) measuring a K-ras mutation score within the obtained biological sample through exposing a portion of the biological sample to one or more K-ras specific primers and determining the K-ras mutation score by performing a digital melt curve analysis or quantitative allele-specific PCR, wherein the K-ras specific primers comprise a nucleic acid sequence selected from the group consisting of SEQ ID NOs: 2, 3, 4, 5, 6, 7 and 8;
(c) measuring a methylation level of a CpG site for BMP3 in a portion of the obtained biological sample through
treating genomic DNA in the biological sample with bisulfite;
amplifying the bisulfite-treated genomic DNA using primers specific for BMP3, and determining the methylation level of the CpG site by methylation-specific PCR, quantitative methylation-specific PCR, methylation-sensitive DNA restriction enzyme analysis, quantitative bisulfite pyrosequencing, or bisulfite genomic sequencing PCR;

(d) comparing the K-ras mutation score and the BMP3 methylation level to a corresponding set of control samples without colorectal cancer; and
(e) determining that the individual has colorectal cancer when 1) the measured K-ras mutation score is higher than in the control sample, and 2) the measured BMP3 methylation level is higher than in the control sample.

2. The method of claim 1 , wherein the biological sample is a stool sample, a tissue sample, a blood sample, or a urine sample.

Assignees

• Mayo Foundation

Inventors

• Taylor William R
• Harrington Jonathan J
• Quint Patrick S
• Zou Hongzhi
• Bergen Iii Harold S
• Smith David I
• Ahlquist David A

Classifications

• G01N2333/928

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• C12Q1/6886 Primary

  for cancer (immunoassay for cancer G01N33/575) · CPC title

• G01N2560/00

  Chemical aspects of mass spectrometric analysis of biological material · CPC title

• C12Y304/2107

  Pancreatic endopeptidase E (3.4.21.70) · CPC title

• C12Q2600/158

  Expression markers · CPC title