john hawks weblog

paleoanthropology, genetics and evolution

Barack Obama

  • NIH genetic test registry

    Sat, 2010-03-20 12:53 -- John Hawks

    The National Institutes of Health directorate this week announced the creation of a new database for tracking and providing public information about commercial gene tests:

    The National Institutes of Health announced today that it is creating a public database that researchers, consumers, health care providers, and others can search for information submitted voluntarily by genetic test providers. The Genetic Testing Registry (GTR) aims to enhance access to information about the availability, validity, and usefulness of genetic tests.

    Currently, more than 1,600 genetic tests are available to patients and consumers, but there is no single public resource that provides detailed information about them. GTR is intended to fill that gap.

    It is hard to tell much from the press release, but I think it foreshadows two significant aspects of the registry. First, the NIH seems to be entering the realm of quality control:

    GTR genetic test data will be integrated with information in other NIH/NCBI genetic, scientific, and medical databases to facilitate the research process. This integration will allow scientists to make, more easily and effectively, the kinds of connections that ultimately lead to discoveries and scientific advances.

    This would enable NIH to provide an independent summary of whether test markers correspond to clinical studies. Second, the registry seems to be encouraging active engagement of companies in the process:

    During the development process, NIH will engage with stakeholders — such as genetic test developers, test kit manufacturers, health care providers, patients, and researchers — for their insights on the best way to collect and display test information. In addition, other federal agencies, including the Food and Drug Administration and the Centers for Medicare and Medicaid Services, will be consulted.

    I'm not sure what this means for the possible regulation of tests in the future. The engagement of the FDA at this point may presage greater involvement of the agency in genomic testing. The involvement of Medicare in the database seems more important, as the federal government will likely become the largest purchaser of genetic testing in the near future.

    In relation to the Medicare/Medicaid involvment, I discussed candidate Obama's record on gene testing in 2008 ("Good only for entertainment value... and, of course, the government"). At that time, the main concern was standardization of records:

    Providing diagnostic value for SNP screens or genome sequences will take a massive effort at standardizing information about joint gene-phenotype associations. Direct-to-consumer gene testing companies presently differentiate themselves based on the different information they provide to their customers. That approach works as long as there is little of value in the results -- the companies today are succeeding or failing on the basis of the communities of customers they are building, with the stories of customers providing the best advertisements. That's the nutrition supplement market.

    But that approach will start to fail if genetic tests start to allow serious risk mitigation in health maintenance. If two companies provide divergent information to customers, in a way that impacts the customers' interactions with their physicians, I expect that the outcome will be some massive lawsuits and further federal regulation. If the government becomes the health care purchaser -- and with Medicare it already is the largest -- we can expect to see early federal intervention in this market, focused upon standardizing genetic information provided to physicians.

    The creation of an NIH registry may reflect growing surveillance of the different interpretive results from these tests, with an eye toward future government purchasing protocols.

    The new registry announcement is discussed in more detail by Dan Vorhaus at Genomics Law Report: "Evaluating the NIH’s New Genetic Testing Registry. " He gives some background relating to the 2008 report “U.S. System of Oversight of Genetic Testing” (PDF), commissioned by the Secretary’s Advisory Committee on Genetics, Health, and Society (SACGHS) during the Bush Administration. As Vorhaus points out:

    Although the SACGHS report acknowledged that “short-term voluntary approaches” to test registration might be appropriate, it also clearly indicated that the fundamental objective was the creation of a permanent and mandatory test registry.

    This important distinction has not been lost on others. In a press release celebrating the GTR, the advocacy group Genetic Alliance (whose founder, Sharon Terry, has been one of the most outspoken advocates for a mandatory registry, including making the case several months ago in this very space) applauded the NIH’s announcement while simultaneously looking forward “to the registry becoming mandatory so that we are all apprised of the quality and availability of genetic testing across the nation.” (links in original)

    Probably the most important element is the involvement (for now, at the level of consultation) of Medicare. Companies that want a piece of that market will be more or less compelled to join the registry:

    Depending on the degree to which purchasers of genetic tests come to rely on the GTR, inclusion in the GTR may well become a de facto requirement for any commercial genetic test provider, even if it is not converted into a legal requirement.

    In the place of "purchasers" read "Medicare". And of course insurance companies have similar incentives to require tests that participate in the registry.

    (via Collective Imagination blog, and Genetic Future)

  • University of California administration rejects science, accepts tribal creationism

    Wed, 2009-03-18 19:01 -- John Hawks

    Rex Dalton reports in Nature on a strange story of repatriation from the University of California, San Diego. It looks like Kennewick 2.0, except this time it's the University administration that has created the problem:

    Officials at the University of California are moving to give two of the oldest-known skeletons in North America to a local Native American tribe, against the recommendation of university scientists who say the bones should be retained for study.

    Dalton's article points out that the remains are more than 10,000 years old, and therefore cannot be associated with any recent or extant tribe. Under the Native American Graves Protection and Repatriation Act (NAGPRA), recent remains with cultural affiliations to extant tribes must be returned upon request, but such ancient remains should not be. That was precisely the issue in the Kennewick case.

    Dalton had reported on this case in October, at which time the local decision-making process had led to a rejection of the request for repatriation. But that decision was threatened by action from above -- the system president Yudof and UCSD chancellor Fox. From that October article:

    Currently, decisions about cultural affiliation are made by a panel of scientists — typically including a Native American — at each campus. Campus actions are then reviewed by a nine-person University of California panel, which includes two Native Americans, before a final decision is reached. But in September, the office of Mark Yudof, the president of the University of California, initiated discussions about possibly eliminating the system-wide committee.

    I haven't yet found another news story reporting on the events. Instead, I found a number of stories about this other piece of Kumeyaay news:

    The on campus sports and entertainment venue at San Diego State University will be renamed Viejas Arena, under a new agreement between the university and the Viejas Band of Kumeyaay Indians, the two announced today.

    The naming rights agreement will officially go into effect July 1, 2009 and will pay SDSU approximately $6 million over 10 years.

    SDSU is not a UC campus. So if you're mystified about why the UC system president and UCSD chancellor would be so solicitous about the reburial of two 10,000-year-old skeletons, wonder no further.

    Dalton's current article brings us up to speed on the reburial request:

    [L]ast month, University of California president Mark Yudof and UCSD chancellor Marye Anne Fox began seeking a rare federal approval to give the skeletons to the local Kumeyaay tribe, which has asked for them. And some anthropologists say the decision is based on politics, not science.

    "This is scandalous," says Robert Bettinger, an anthropologist at the University of California, Davis, who is on the panel that oversees how archaeological remains are handled at all ten University of California campuses. The panel was not consulted on this transfer proposal.

    So let me get this straight. The University of California has an expert panel to consult on matters of exactly this kind, matters in which University facilities and collections may intersect with federal agencies or laws regarding archaeological remains. The reason for these experts being that federal laws are complicated, and their application depends on the age and provenience of artifacts, things that only experts tend to know.

    And the president and chancellor just decided, "What the heck? Who needs experts? Time to rebury these bones!" And besides that, "Maybe this panel of experts isn't such a good idea. They are getting in the way too much. Let's dump the whole idea of experts!" And maybe, "I wonder which stadiums we could rename?"

    It is worse than scandalous. It's a recognition by the chancellor of UCSD and the president of the University of California that creationism is true. These creationist beliefs are dressed up as multiculturalism, but they are creationist nonetheless.

    Because if they accepted evolution, they would recognize the transitions among historic and prehistoric cultures in California and the immigration and emigration of peoples during the last 10,000 years. Across that distant time span, no cultural affiliation is plausible, and genetic relationships are necessarily diffuse --- the individuals represented by these remains might have no living descendants, or descendants living throughout North and South America. A direct and unique lineal connection between these ancient people and the living people in the same area is creationism, not science. Because if you're a creationist, you can feel free to reject the radiocarbon dates, the cultural affiliation, and all other scientific evidence.

    Of course, the president and chancellor in this case aren't really Native American creationists. They're something worse: unprincipled quislings intent on selling out science for a quick buck.

    Friend of the blog Margaret Schoeninger gets her digs in:

    "This goes against the policies of President Barack Obama for science-based decisions, not belief-based ones," says anthropologist Margaret Schoeninger, who chairs the UCSD committee that reviews such specimens.

    It's a good line. But sadly I think the idea that the Obama administration is going to be better in this regard than the Clinton administration (which took Kennewick) is a forlorn hope. Consider this October Washington Post story on Obama's fundraising:

    From the start, Obama's campaign has designed a fundraising effort that tries to maximize contributions from both small and large donors. That effort expanded in late summer, when Obama prepared to accept his party's nomination and the DNC set up separate committees that would enable top donors to give as much as $65,500 to support his bid.

    The best-known of those committees, the Obama Victory Fund, has catered to party regulars who attended one of dozens of gala events around the country, including VIP gatherings for those able to donate $28,500. The Committee for Change has quietly accepted millions more, in checks ranging from $5,000 to $66,900, from celebrities, corporate titans, Native American tribes and several of Obama's most ardent bundlers.

    They include entertainment mogul David Geffen, Baltimore Orioles owner Peter Angelos, actress Annette Bening, the California-based Sycuan Band of the Kumeyaay Nation and members of Chicago's Crown family.

    The single largest corporate contributor to Obama's campaign? The University of California. Somehow I don't think the president and chancellor are going to have much trouble with their request at the Interior Department.

    If the scientists aren't ready for Kennewick II, these bones will almost certainly be reburied.

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Neandertals

For years, I've worked on their bones. Now I'm working on their genes. Read more about the science studying these ancient people.

Denisova

From a finger bone of an ancient human came the record of a completely unexpected population. My lab is working on the science of the Denisova genome.

Acceleration

The advent of agriculture caused natural selection to speed up greatly in humans. We're uncovering some of the ways that populations have rapidly changed during the last 10,000 years.

Malapa

Just outside Johannesburg, the Malapa site is producing some of the most exciting finds in human evolution. This site is the headquarters of the Malapa Soft Tissue Project.