Whole-genome sequencing can identify cancer-linked mutations

Scientists have found that whole-genome sequencing can be used to identify patients' risk for hereditary cancer.
In a first of its kind study, researchers at University of Texas Southwestern Medical Center used whole-genome sequencing to evaluate a series of 258 cancer patients' genomes to improve the ability to diagnose cancer-predisposing mutations.
"Whole-genome sequencing is a new genetic tool that can determine more of a person's DNA sequence than ever before," said Dr Theodora Ross, Professor of Internal Medicine and Director of UT Southwestern's Cancer Genetics Programme.
"Our results show that nearly 90 per cent of clinically identified mutations were confidently detected and additional cancer gene mutations were discovered, which together with the decreasing costs associated with whole-genome sequencing means that this method will improve patient care, as well as lead to discovery of new cancer genes," Ross said.

About 5 to 10 per cent of all cancers are caused by known inherited gene mutations. These mutations are passed down from generation to generation.
Mutations in the BRCA1 and BRCA2 genes are the most common cause of hereditary breast cancer. BRCA gene mutations are best known for their breast cancer risk, but they also cause increased risk for ovarian, prostate, pancreatic, and other cancers.

In addition, there are many different genes, including ATM, CDH1, CHEK2, PALB2, PTEN, and TP53, that are associated with an increased risk for breast cancer, and researchers are continually discovering additional genes that may affect cancer predisposition.

In the study, researchers developed new methods to analyse the large amount of data generated by whole-genome sequencing.
Ross' team devised a method to compare the group of patients with BRCA1 or BRCA2 mutations to a group of patients without BRCA mutations.
All expected BRCA1 and BRCA2 mutations were detected in the BRCA group, with at least 88.6 per cent of mutations confidently detected. In contrast, different cancer gene mutations were found in the cohort without BRCA mutations.
"The results demonstrate that whole-genome sequencing can detect new cancer gene mutations in non-BRCA 'mystery' patients, demonstrating the added value whole-genome sequencing brings to the future cancer clinic," Ross said.

"Mystery patients are those who have a strong family history for cancer but after standard genetic testing, no genetic diagnoses are made.
"In our study, sequencing allowed us to discover novel candidate cancer gene mutations in mystery patients," said Ross.
The study is published in the journal EBioMedicine.