Researchers at Lund University in Sweden have developed a computational model which is effective in detecting and identifying genetic mutations in breast tumours. The study, the largest of its kind in the world, includes results from over 3 200 patients with breast cancer.
The researchers used RNA sequencing, a sensitive, precise tool which has very gradually started to be applied clinically, although not yet for breast cancer. The study, published in the scientific journal EMBO Molecular Medicine, used breast tumours for analysis from the unique Swedish SCAN-B project. Since it was initiated over 10 years ago, across a wide geography of Sweden SCAN-B has enrolled over 15 000 patients with breast cancer thus far, and around 100 additional patients are included every month.
“We hope that SCAN-B RNA sequencing will be in clinical use as early as next year, mainly to help in the identification of which breast tumours are high-risk and which are low-risk. The aim is for the patient to know, already a week after surgery to remove the tumour, which personalised treatment is best suited to the individual”, says Lao Saal, one of the researchers who led the study.
When the Lund team analysed the genetic mutations in the breast tumours of the patients in the study, they found that almost 87 per cent had at least one mutation for which potential drugs already exist.
“When we followed the patterns of mutations in the tumours and related them to patient outcomes, we observed that 34 per cent of them had a mutation in a specific gene, PIK3CA, and that in general these patients had a good prognosis. In 3 per cent of the patients we found mutations in another gene, ERBB2, which was associated with a worse prognosis”, says Lao Saal.
“The results of the study add another dimension to how RNA sequencing can be used as a potential future ‘clinical tool’, as we showed that breast cancer RNA sequencing not only gives a readout of the patterns of genes being highly or lowly expressed, but also works to detect and identify gene mutations in breast cancer tumours. We are therefore convinced that the technique would be helpful in improving prognosis and treatment for patients.”
In the same study, doctoral student and first author Christian Brueffer also developed a web database and interactive software through which other researchers can access the results for their own studies.
“Of course we want scientific progress to happen as quickly as possible, which is why we have made the database accessible to other researchers as well”, says Lao Saal.
The SCAN‐B MutationExplorer
The SCAN‐B MutationExplorer web‐based application for interactive exploration of mutations, and their association with clinicopathological subgroups and overall survival.
We make this dataset available for analysis and download via the open source web application SCAN‐B MutationExplorer, accessible at http://oncogenomics.bmc.lu.se/MutationExplorer.
Source – Lund University