IBM is using the powers of its Watson supercomputer service to help solve the mysteries of brain cancer by examining individual genetic mutations.
"When you do whole gene sequencing, you get a very complete picture of the mutations in a specific patient. It is critical to be able to translate that information into something an oncologist can understand and take actions around," said Raminderpal Singh, IBM Research business development executive for genomic medicine.
In a research study, IBM Watson will help New York Genome Center doctors by searching for their patients' mutations that may be referenced in genomic databases and in medical literature. It then can present any findings of interest to the patient's physician.
The patients being studied have glioblastoma, an aggressively malignant brain cancer that kills more than 13,000 people in the U.S. each year.
An oncologist usually plans the best treatment plan for a specific patient by consulting medical literature, Singh said. This prototype will aid in that process, by providing links to medical papers of interest. "Watson is a knowledge-based learning system, so we can do that in an automated fashion," Singh said.
Doctors will upload the gene sequence to the system, which runs on the IBM cloud. Watson will then scan mutation databases and medical literature for those types of mutations, connecting and highlighting any possibly relevant findings.
The software to do this analysis actually predates Watson. IBM Research's Computational Biology Center has been developing the software over the past decade. "Now is the time to turn the system on in an automated fashion and apply real patient information," Singh said.
This is not the first time that IBM has focused Watson on brain cancer research. In 2012, the company started a partnership with Memorial Sloan-Kettering Cancer Center in New York to develop a computer-based assistant for oncologists.
Though that work is still underway, IBM declined to discuss how it is progressing. However, insurance company WellPoint released commercial software related to work from that project, called Interactive Care Reviewer, which could be used by its doctors to aid in diagnosis.
IBM Research developed Watson to compete with human contestants on the "Jeopardy!" game show, using natural language processing and analytics, as well as many sources of structured and unstructured data.
The company may still have some challenges remaining in adapting Watson to larger jobs, however.
In particular, the search technique of entity disambiguation and matching (EDM), which connects different descriptions of a single entity, may need some refinement.
EDM remains a "bottleneck" for question-and-answer medical software such as Watson's, according to a presentation given by Chris Welty, one of the original IBM developers behind Watson, at National Science Foundation's Ontology Summit 2014, held in Arlington, Virginia.
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