Genomic Advances of the 2000s Will Demand an Informatics Revolution in the 2010s

1/14/10

We have witnessed some of most striking technological and scientific innovations in humankind during the first decade of the new millennium. While such claims perhaps seem cliché in an age where the media constantly report on new findings that really do not warrant our full attention, several discoveries and innovations in the recent history of genomics were truly groundbreaking and will have long-lasting implications.

The expanding applications of genomic technology that will help us better understand causes and treatments of common human diseases, global warming, and hunger will become clear in the coming decades. The innovations most impressive to me in the past decade were those that have begun to shake many of the foundations upon which the life sciences and biomedical research have been built. Here are what I consider four of those more impressive discoveries:

1) The discovery that environmental stress can induce heritable DNA-based changes.

2) The maturation of highly parallel sequencing and genotyping technologies that have revolutionized our ability to associate changes in DNA with disease.

3) The discovery of whole new classes of RNA that do not carry out instructions from genes, yet are still critical to cellular and higher order biological processes.

4) The development of third-generation DNA sequencing that will lead to greater insights about underlying biology.

As our ability to capture data from entire genomes increases exponentially, this is creating a huge software and computing challenge. Life sciences and biomedical researchers will need novel solutions (a yet to come fifth innovation):

5) The translation of the deluge of data coming from the new discoveries and technologies into actionable results that can impact human wellbeing.

This will be a big trend to watch in the coming decade, but more on that later. First, I want to explain a little about why I’m singling out these four particular discoveries and technologies as groundbreaking:

1. Environmental stresses can induce heritable DNA-based changes.

In 2005 Michael Skinner, a professor at Washington State University, published a paper in Science demonstrating that in response to exposure to an endocrine disruptor (a common environmental toxin), DNA can be chemically modified in certain locations and that these modifications can affect the ability of the biological machinery within the cells in every bodily organ to read the modified DNA. Reading DNA is a necessary first step for cells to manufacture the proteins … Next Page »

Eric Schadt is the director of the Mt. Sinai Institute for Genomics and Multi-Scale Biology in New York, and the chief scientific officer for Pacific Biosciences, a company developing new gene sequencing technologies. Follow @

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  • Joe

    gee…just ALOT bias on the third generation sequencing section.

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  • Ken Rubenstein

    It would have been nice to mention Oxford Nanopore re 3rd-gen sequencing in addition to the company that Dr. Schadt currently works for.

  • http://www.xconomy.com/author/ltimmerman/ Luke Timmerman

    Ken–funny you should mention Oxford Nanopore. I met their CEO and CSO last week at the JP Morgan Healthcare Conference and I have my eye on them. Stay tuned to Xconomy San Diego for that story, because of their relationship with Illumina–Luke

  • Eric Schadt

    I’ve often said in talks that our brains appear to be wired for story telling, and I suppose I am no different from others in that regard, and I think that while I did generally comment on third gen sequencing as one of the most significant innovations, I ended up speaking more strongly to what I knew best.

    Of course I think the entire area is very exciting, with just amazing advances happening in this space; it is going to be a wild ride the next 5 years!

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