David Kirkpatrick

January 10, 2009

Search engines contribute to medicine

Believe it or not.

The release from yesterday:

Digital Communication Technology Helps Clear Path to Personalized Therapies

LA JOLLA, Calif., January 9, 2009 — Researchers at the Burnham Institute for Medical Research (Burnham) have shown that search algorithms used in digital communications can help scientists identify effective multi-drug combinations. The study, led by Giovanni Paternostro, M.D., Ph.D., was published in the December 26, 2008, issue of PLoS Computational Biology.

Using the stack sequential algorithm, which was developed for digital communications, the team of scientists searched for optimal drug combinations. This algorithm can integrate information from different sources, including biological measurements and model simulations. This differs from the classic systems biology approach by having search algorithms rather than explicit quantitative models as the central element. The variability of biological systems is the fundamental motivation for this strategy.

“Combination therapies have demonstrated efficacy in treating complex diseases such as cancer and hypertension, but it is difficult to identify safe and effective combination treatment regimens using only trial and error,” said Dr. Paternostro. “As personalized medicine moves from the present emphasis on diagnosis and prognosis to therapy, the problem of searching for optimal drug combinations uniquely suited to the genetic and molecular profile of each patient will need to be solved. This research is a first step in that direction.”

Current methodology for identifying effective combination therapies involves exhaustive testing. However, the exponential expansion of possibilities precludes exploring large combinations using this approach. For example, many chemotherapy regimens include six drugs from a pool of 100. A study that included all combinations (including partial combinations containing only some of these compounds) at three different doses would have to digest 8.9 x 1011 possibilities. The problem requires a new approach rather than more efficient screening technology.

In the study, a small subset of the possible drug combinations identified using the algorithms were tested in two biological model systems. One system studied improvement in the physiological decline associated with aging in Drosophila melanogaster (fruit flies) and the other system tested for selective killing of cancer cells. In both cases, effective drug combinations were identified by combining the algorithm with biological tests.

“Our work was greatly helped by collaborators with expertise in medicine, engineering and physics from Burnham, University of California, San Diego and Michigan State University,” said Dr Paternostro. “We especially benefited from suggestions from Dr. Andrew Viterbi, inventor of the Viterbi algorithm so widely used in digital communications, who pointed to parallels between this biological problem and signal decoding.” Dr. Andrew Viterbi cofounded Linkabit Corporation and Qualcomm Inc., with Dr. Irwin Jacobs. He is currently the president of the venture capital firm, The Viterbi Group.

This work was funded by the Ellison Medical Foundation, National Institutes of Health and the National Science Foundation.

About Burnham Institute for Medical Research
Burnham Institute for Medical Research is dedicated to revealing the fundamental molecular causes of disease and devising the innovative therapies of tomorrow. Burnham, with operations in California and Florida, is one of the fastest growing research institutes in the country. The Institute ranks among the top four institutions nationally for NIH grant funding and among the top 25 organizations worldwide for its research impact. Burnham utilizes a unique, collaborative approach to medical research and has established major research programs in cancer, neurodegeneration, diabetes, infectious and inflammatory and childhood diseases. The Institute is known for its world-class capabilities in stem cell research and drug discovery technologies. Burnham is a nonprofit, public benefit corporation. For more information, please visit http://www.burnham.org.

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3 Comments »

  1. […] reported results on a multi-centered ex US trial to the WSJ Health Blog, but details were scarce Search engines contribute to medicine – davidkirkpatrick.wordpress.com 01/10/2009 Believe it or not.The release from yesterday: Digital […]

    Pingback by Posts about Investors in Startups as of January 10, 2009 | The Lessnau Lounge — January 10, 2009 @ 2:00 pm

  2. This post has been linked for the HOT5 Daily 1/12/2009, at The Unreligious Right

    Comment by UNRR — January 12, 2009 @ 5:47 am

  3. Hi David,
    Heading of your blog has really impressed me and made me to read your entire blog. This is very much true that in today’s time internet and search engines are playing a big role in all type of industrial growth for all the domains of business. Pharmaceutical industry is also one of the industry which has discovered a different and fast way to reach people.
    Internet is really a easy and fast way to reach people.

    Comment by Prashant — January 14, 2009 @ 9:32 am


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