Good week for biology in the Bush Administration

It has been a really really good week for biology in the Bush Administration. First, the 2006 National Medals of Science were announced. I know this is administered by NSF but I am sure the Bush administration had some role in the selection but it still is happening during the Bush administration (see comment by Mayra Montrose from the National Medal of Science correcting my erroneous ways). Eight people were recognized (see the MSNBC CosmicLog of Alan Boyle for more information) and six of them do biology-related research:

  • Hyman Bass – University of Michigan. A mathematician.
  • Marvin H. Caruthers – University of Colorado, Boulder. A biochemist.
  • Rita R. Colwell – University of Maryland (College Park, MD). A microbiologist. One of my favorites.
  • Peter B. Dervan – California Institute of Technology. They list him as a chemist but he is really a biochemist with a biology focus, in my opinion.
  • Nina V. Fedoroff – Pennsylvania State University. A plant geneticist.
  • Daniel Kleppner – Massachusetts Institute of Technology. A physicist.
  • Robert S. Langer – Massachusetts Institute of Technology. Also listed as a chemist but does mostly biochemistry.
  • Lubert Stryer – Stanford University. A hard core biochemist.

There will be a presentation at the White House apparently broadcast live:

<!–details will soon be posted on www.nsf.gov/nsb/awards/nms/medal.htm.–>

President Bush will present 2006 and 2005 Laureates with National Medals of Science and Technology during a White House awards ceremony on Friday, July 27, 2007. The ceremony will be broadcast via satellite feed for journalists.It will also be available as a live webcast at www.whitehouse.gov.

And then, even better, Condoleezza Rice announced her new science advisor is Nina Federoff, one of the National Medal Recipients and a plant geneticist (see above). So – the Bush administration has been justifiably criticized for much of the way it treats science, especially biology (can we say evolution anyone). But there are nevertheless pockets of good news. And hey – its better than nothing.

National Academy of Sciences Elects New Members

Congratulations to all those elected to the National Academy of Sciences. I am attaching the press release from NAS below. Good to see a Davisite on there – Stephen Kowalczykowski, one of the undisputed kings of the study of the mechanisms of homologous recombination.

FOR IMMEDIATE RELEASE

72 New Members Chosen By Academy

WASHINGTON — The National Academy of Sciences today announced the election of 72 new members and 18 foreign associates from 12 countries in recognition of their distinguished and continuing achievements in original research.

The election was held this morning during the business session of the 144th annual meeting of the Academy. Those elected today bring the total number of active members to 2,025. Foreign associates are nonvoting members of the Academy, with citizenship outside the United States. Today’s election brings the total number of foreign associates to 387.

The National Academy of Sciences is a private organization of scientists and engineers dedicated to the furtherance of science and its use for the general welfare. It was established in 1863 by a congressional act of incorporation signed by Abraham Lincoln that calls on the Academy to act as an official adviser to the federal government, upon request, in any matter of science or technology.

Additional information about the Academy and its members is available online at http://www.nasonline.org.

Newly elected members and their affiliations at the time of election are:

ACUÑA, Mario H.; senior astrophysicist and project scientist, International Solar Terrestrial Physics Program, NASA Goddard Space Flight Center, Greenbelt, Md.

AGARD, David A.; investigator, Howard Hughes Medical Institute, and professor, department of biochemistry and biophysics, University of California, San Francisco

AMBROS, Victor R.; professor of genetics, Dartmouth Medical School, Hanover, N.H.

ANDERSON, David J.; investigator, Howard Hughes Medical Institute, and Roger W. Sperry Professor of Biology, California Institute of Technology, Pasadena

ATWATER, Brian F.; geologist, western earthquake hazards team, U.S. Geological Survey, and affiliate professor, department of earth and space sciences, University of Washington, Seattle

AWSCHALOM, David D.; professor of physics and of electrical and computer engineering, department of physics, University of California, Santa Barbara

BAKER, Tania A.; investigator, Howard Hughes Medical Institute, and E.C. Whitehead Professor Biology, Massachusetts Institute of Technology, Cambridge

BAWENDI, Moungi G.; professor of chemistry and Keck Professor of Energy, Massachusetts Institute of Technology, Cambridge

BELL, C. Gordon; senior researcher, Microsoft Bay Area Research Center, San Francisco

BELLUGI, Ursula; professor and director, Laboratory of Cognitive Neuroscience, Salk Institute for Biological Studies, La Jolla, Calif.

BLOCK, Steven M.; professor of applied physical and biological sciences, Stanford University, Stanford, Calif.

BRENNER, Michael B.; Theodore Bevier Bayles Professor of Medicine, Harvard Medical School, Boston

BRYANT, Robert L.; J.M. Kreps Professor, department of mathematics, Duke University, Durham, N.C.

CANFIELD, Donald E.; professor of ecology, Institute of Biology, and director, Nordic Center for Earth Evolution, University of Southern Denmark, Odense

CARROLL, Sean B.; investigator, Howard Hughes Medical Institute, and professor of molecular biology and genetics, University of Wisconsin, Madison

CLARK, Noel; professor, department of physics, University of Colorado, Boulder

COOK, Karen S.; Ray Lyman Wilbur Professor of Sociology, department of sociology, Stanford University, Stanford, Calif.

DANGL, Jeffrey L.; associate director, Carolina Center for Genome Sciences, and John N. Couch Distinguished Professor, University of North Carolina, Chapel Hill

DIXON, Richard A.; plant biology division director, The Samuel Roberts Noble Foundation, Ardmore, Okla.

DOONER, Hugo K.; professor, Waksman Institute, Rutgers, The State University of New Jersey, Piscataway

DRAINE, Bruce T.; professor, department of astrophysical sciences, Princeton University, Princeton, N.J.

DRUKER, Brian J.; investigator, Howard Hughes Medical Institute, and JELD-WEN Chair of Leukemia Research, Oregon Health & Science University, Portland

DURRETT, Richard; professor, Cornell University, Ithaca, N.Y.

EDGAR, Robert S.; professor emeritus, University of California, Santa Cruz

EMANUEL, Kerry A.; Breene M. Kerr Professor, program in atmospheres, oceans, and climate, department of earth, atmospheric, and planetary sciences, Massachusetts Institute of Technology, Cambridge

EMR, Scott D.; investigator, Howard Hughes Medical Institute, and director, Institute of Cell and Molecular Biology, Cornell University, Ithaca, N.Y.

ESTELLE, Mark; Carlos O. Miller Professor of Developmental Biology, department of biology, Indiana University, Bloomington

ESTES, Mary K.; professor and Cullen Foundation Endowed Chair, department of molecular virology and microbiology, Baylor College of Medicine, Houston

FALKOWSKI, Paul G.; professor, Institute of Marine and Coastal Sciences and department of geological sciences, Rutgers, The State University of New Jersey, New Brunswick

FAYER, Michael D.; David Mulvane Ehrsam and Edward Curtis Franklin Professor of Chemistry, department of chemistry, Stanford University, Stanford, Calif.

FLEMING, Graham; Melvin Calvin Distinguished Professor of Chemistry, University of California, Berkeley

FRAKER, Pamela J.; professor of food science and human nutrition and distinguished professor of biochemistry, Michigan State University, East Lansing

GABRIELSE, Gerald; Leverett Professor of Physics, Harvard University, Cambridge, Mass.

GINSBURG, David; investigator, Howard Hughes Medical Institute, and James V. Neel Distinguished University Professor, University of Michigan Medical School, Ann Arbor

GOLDMAN, Allen M.; Institute of Technology Professor of Physics, and head, School of Physics and Astronomy, University of Minnesota, Minneapolis

GOTTLIEB, David; Ford Foundation Professor, Brown University, Providence, R.I.

GRONENBORN, Angela M.; professor of pharmacology, and director, Structural Biology Program, University of Pittsburgh, Pittsburgh

HILDEBRAND, John G.; Regents Professor and professor of neurobiology, biochemistry and molecular biophysics, entomology, and molecular and cellular biology, and director, Arizona Research Laboratories Division of Neurobiology, University of Arizona, Tucson

HOBBS, Helen H.; investigator, Howard Hughes Medical Institute, and director, McDermott Center for Human Growth and Development, University of Texas Southwestern Medical Center, Dallas

HOUSE, James S.; Angus Campbell Collegiate Professor of Sociology and Survey Research, Institute for Social Research, University of Michigan, Ann Arbor

JOHNSON, William L.; Ruben and Donna Mettler Professor of Materials Science, Engineering, and Applied Science, California Institute of Technology, Pasadena

JOHNSON-LAIRD, Philip N.; Stuart Professor of Psychology, department of psychology, Princeton University, Princeton, N.J.

KIESSLING, Laura L.; professor of chemistry and biochemistry, University of Wisconsin, Madison

KOWALCZYKOWSKI, Stephen C.; distinguished professor of microbiology and of molecular and cellular biology, and director, Center for Genetics and Development, University of California, Davis

LAITIN, David; James T. Watkins IV and Elise V. Watkins Professor of Political Science, department of political science, Stanford University, Stanford, Calif.

LIBCHABER, Albert J.; professor of physics, The Rockefeller University, New York City

LOVEJOY, Claude Owen; university professor, Kent State University, Kent, Ohio

MARDER, Eve E.; professor of neuroscience, department of biology, Brandeis University, Waltham, Mass.

McMULLEN, Curtis T.; professor, Harvard University, Cambridge, Mass.

MICALI, Silvio; professor, Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge

MILLER, Christopher; investigator, Howard Hughes Medical Institute, and professor, Brandeis University, Waltham, Mass.

MOERNER, William E.; Harry S. Mosher Professor, Stanford University, Stanford, Calif.

MORGAN, M. Granger; university professor and head, department of engineering and public policy, Carnegie Mellon University, Pittsburgh

OLSON, Peter L.; professor of geophysical fluid dynamics, Johns Hopkins University, Baltimore

PACALA, Stephen W.; Frederick D. Petrie Professor, department of ecology and evolutionary biology, Princeton University, Princeton, N.J.

PLOG, Stephen; Commonwealth Professor, department of anthropology, University of Virginia, Charlottesville

PLOTT, Charles R.; Edward S. Harkness Professor of Economics and Political Science, division of humanities and social sciences, California Institute of Technology, Pasadena

RICHMOND, Timothy J.; professor, Institute of Molecular Biology and Biophysics, Swiss Federal Institute of Technology, Zurich, Switzerland

SCHILLER, Peter H.; professor, Massachusetts Institute of Technology, Cambridge

SCHRAMM, Vern L.; professor and chair, department of biochemistry, Albert Einstein College of Medicine of Yeshiva University, Bronx, N.Y.

SEIDMAN, Jonathan G.; Henrietta B. and Frederick H. Bugher Professor of Cardiovascular Genetics, Harvard Medical School, Boston

SHULMAN, Gerald I.; investigator, Howard Hughes Medical Institute, and professor of medicine and cellular and molecular physiology, Yale University School of Medicine, New Haven, Conn.

SPENCER, Charles S.; curator of anthropology, and chair, division of anthropology, American Museum of Natural History, New York City

SPERGEL, David N.; professor, department of astrophysical sciences, Princeton University, Princeton, N.J.

SREENIVASAN, Katepalli R.; Martin Professor of Engineering and distinguished university professor, University of Maryland, College Park

STARK, Harold M.; professor of mathematics, University of California, San Diego

TABIN, Clifford J.; professor, department of genetics, Harvard Medical School, Boston

WELLEMS, Thomas E.; chief, laboratory of malaria and vector research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Md.

WILL, Clifford M.; James S. McDonnell Professor of Physics, Washington University, St. Louis

WISE, Mark B.; John A. McCone Professor of High Energy Physics, California Institute of Technology, Pasadena

YOKOYAMA, Wayne M.; investigator, Howard Hughes Medical Institute, and Sam and Audrey Lowe Levin Professor of Medicine and of Pathology, Washington University School of Medicine, St. Louis

YOUNG, Michael W.; vice president of academic affairs and Richard and Jeanne Fisher Professor, The Rockefeller University, New York City


Newly elected foreign associates, their affiliations at the time of election, and their country of citizenship are:

ASKONAS, Brigitte A.; visiting professor, Imperial College of Science, Technology, and Medicine, London (United Kingdom)

CIECHANOVER, Aaron J.; distinguished professor, faculty of medicine, Technion, Haifa (Israel)

DELIGNE, Pierre; professor, Institute for Advanced Study, Princeton, N.J. (Belgium)

GRANT, Peter R.; professor, Princeton University, Princeton, N.J. (United Kingdom)

IIJIMA, Sumio; professor, department of materials science and engineering, Meijo University, Nagoya (Japan)

ITO, Masao; director, RIKEN Brain Science Institute, Saitama (Japan)

IZQUIERDO, Ivan A.; professor of medicine and head, Memory Center, Institute of Biomedical Research, Pontifical Catholic University of Rio Grande, Porto Alegre (Brazil)

KINGMAN, John; director, Isaac Newton Institute for Mathematical Sciences, University of Cambridge, Cambridge, England (United Kingdom)

LI, Aizhen; Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences, Shanghai (People’s Republic of China)

LORDKIPANIZDE, David O.; director, Georgian National Museum, Georgian National Academy of Sciences, Tblisi (Georgia)

MARASAS, Walter F.O.; director, Programme on Mycotoxins and Experimental Carcinogenesis Unit, Medical Research Council, Tygerberg (South Africa)

PINGALI, Prabhu L.; director, division of agricultural and development economics, United Nations Food and Agricultural Organization, Rome (India)

SALAS, Margarita; research professor, Severo Ochoa Center for Molecular Biology, Autonomous

University of Madrid, Madrid (Spain)

SEEBACH, Dieter; professor of chemistry emeritus, laboratory of organic chemistry, Swiss Federal Institute of Technology, Zurich, Switzerland (Germany)

TAKEICHI, Masatoshi; director, Center for Developmental Biology, RIKEN, Kobe (Japan)

WHITE, Simon D.M.; director, Max Planck Institute for Astrophysics, Garching, Germany (United Kingdom)

WOODMAN, Ronald F.; executive president, Geophysical Institute of Peru, Mayorazgo (Peru)

ZHANG, Qifa; professor and director, National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan (People’s Republic of China)

An innoculated mind

Here’s a somewhat self serving recommendation for people to check out the blog of Karl Mogel. He is a Davisite (who used to write for the U. C. Davis student paper) who has a radio show on Science and he has lots of interesting stuff in his blog about evolution. So check it out. Oh, and he put his interview of me online … haven’t listened yet but it can be found here.

Badges – do scientists need any stinking badges?

Thanks to garry Myers at TIGR for pointing this one out.

I just got done browsing through the ScienceScouts Site. This comes from the Science Creative Quarteryly which I have never heard of before and seems to be some sort of blog. If anyone knows more about it let me know.

Anyway, the ScienceScouts site has “badges” like Boy Scout Badges, but for scientists.

Examples include:




“The “inordinately fond of invertebrate” badge.
In which the recipient professes an arguably unhealthy affinity for things of this category. (http://scq.ubc.ca/sciencescouts/index.html#30)”



and

The “I blog about science” badge.
In which the recipient maintains a blog where at least a quarter of the material is about science. Suffice to say, this does not include scientology.

(http://scq.ubc.ca/sciencescouts/index.html#6)

which of course, I am awarding to myself.

Garry suggests that I get them to add an “I support PLOS” badge, which I am going to do … People should check it out and award badges to unsuspecting individuals

Harold Varmus goes truly Open

Harold Varmus, one of the CoFounders of the Public Library of Science, has been featured on a NIH Profiles site. Through this site they are making a collection of his papers freely available. In addition, to co-founding PLOS, Varmus won one of those Nobel Prize thingies and was head of a little place called NIH.

Not that much is featured on the front pages. But if you go to the search page here you can search for all sorts of interesting stuff.

Some interesting ones I found:

I will post more when I have a chance but if anyone else sees interesting ones out there please post them too.

Open Access Education?

Thanks to Jacques Ravel for pointing this out. U. C. Berkeley has begun posting many of its science classes as Podcasts which are avilable for download at a special Apple Itunes Site. Also posted are some lectures such as one by George Smoot who just won one of those Nobel Prize thingies. It seems Stanford is doing a similar thing although it does not seem as extensive.

Note sure what other Universities are doing this (I know some classes are podcasting but not clear how many Universities are doing it as extensively as Berkeley).

If anyone else knows of other such efforts please let me know (also see this list of free academic podcasts).

What can you do to prevent the execution of health care workers in Libya?

From PLoS Medicine Blog:

There can be no greater nightmare for a medical worker than to be accused of harming their patients. Even worse, if the allegations are untrue. Yet this is exactly what has happened to six health workers who have been sentenced to death for spreading HIV among Libyan children. Today we publish urgently an essay from Council on Foreign Relations Senior Fellow and Pulitzer Prize winning author Laurie Garrett, that warns of the terrible dangers not just to these workers but to health workers worldwide, and their patients in the poorest parts of the world if the executions go ahead. The essay is part of an increasing chorus of condemnation in scientific journals including Science and Nature . AAAS has a website which gives information on how anyone can add their voice to this campaign.

See also
Tangled Wing
Nature Blog

Has your scientific research been wasted?

I had a good Thanksgiving weekend this year – spending time with family and friends. But as I go back to work this week I have now gotten somewhat depressed over something I did Sunday night. I decided to remove myself from the UC Davis internet proxy to see how many of my past papers that I have published I can obtain without the UC subscriptions. So I went to pubmed, and typed in my name (Eisen JA) and got most of my papers, which are listed at the bottom of this blog (some do not come up due to publication off the pubmed grid or due to co-authors screwing up my initials). (NOTE  – LISTING DELETED 4/09 BECAUSE THE FORMATTING IS ALL MESSED UP)

And then I went to see how many of my papers were freely available and how many were not. What I was most interested in was – what is the deal with papers I wrote before becoming an Open Access convert? For many it is easy to figure out if they are freely available – Pubmed has a link saying “Free in PMC” which refers to Pubmed Central. For others, it was a little trickier.

The results were both good and bad and a summary is below. A few things struck me. First, a lot of my life’s work is not readily available without paying other for it. In the day and age of the internet, this means that these papers will simply be read less and less as time goes by. And that makes me very sad. If I had chosen to publish those papers in other journals, anyone in the world could get them at any time. Thankfully I did publish many papers in journals like PNAS, and ASM journals, and NAR – journals that have now decided to release them to Pubmed Central. And also thankfully (but less so) I published some papers in journals that have at least made them freely available on their web sites.

Most surprisingly to me is that a reasonable number of my papers in Nature are freely available on the Nature web site as part of their Genomics Gateway program. Nature deserves serious kudos for doing this and they stand out compared to Elsevier journals (which do not seem to ever do this) and even Science. This is disappointing as Science is published by a scientific society but apparently does not seem to care much about access to publications. Nature, a commercial publisher, is in my opinion doing more for scientific openness than Science. Now, Nature has a long way to go, but I am SO glad I listened to their editors like Chris Gunter and Tanguy Chouard who made a big deal about the Genome papers being free. I did not think it was that big a deal, but in retrospect they were ahead of me in thinking about availability. Plus Nature clearly makes more of an effort to provide free online material than they have to – and certainly make more available than Science.

So in the end – I am sad about my partially wasted past. But I am pleasantly surprised that at least some papers I thought would be more restricted are actually free (although only on the Publishers site for now – Hopefully these journals will submit them to PMC at some point). I guess – you win some and you lose some and some are somewhere in between.

******************
Summary of openness — other scientists should do this exercise

In Pubmed Central and Open Access

Available free on publisher’s sites (notideal but better than nothing)

Must buy paper

Not available anywhere

UC Davis Research Blog

Well, U. C. Davis (where I work) shows that it is both hip and dedicated to Science research with a new “Research Blog” put out by its University Communications office. It is called Egghead and its goal is:

Egghead is a blog about research by, with or related to UC Davis. Comments on posts are welcome, as are tips and suggestions for posts. General feedback may be sent to Andy Fell. This blog is created and maintained by UC Davis University Communications, and mostly edited by Andy Fell.

I am not sure how many other Universities have an officially sanctioned blog from the press office, but I could not find any.

My favorite post at Egghead so far is the one about a website called Adopt a Microbe. There is
absolutely no Davis connection to this site yet the wrote a tiny blurb about it anyway. I hope they continue to do things like this – it can get tedious if the blog is all about promoting Davis research only. It will certainly get read more if there is a diversity of stuff there.

It is good to see that Biology is the top subject there … not that there is anything wrong with other fields but one of the reasons I wanted to move to U. C. Davis was because of the amazing diversity of biology-related research going on on campus.

Now if they could only get a weekly podcast going …

If anyone out there knows of other Universities with interesting Blogs from the press office, let me know.

Evolution and Politics

Scientists are acting up again. The New York Times reports that

75 science professors at Case Western Reserve University in Cleveland have signed a letter endorsing a candidate for the Ohio Board of Education.

This is great news if you ask me. Scientists seemed to be emboldened to play more of a role in politics. I think this is due to some of the recent pushes from anti-science coalitions, like the supporters of “intelligent design” as a scientific theory (which it is clearly not).

We desperately need more of this type of thing – with scientists speaking up. I do not want scientists to choose sides in truly political debates. And I hope scientists will avoid being too arrogant – such as when some suggest science can solve all the worlds woes. But when sound science is being ignored or belittled by politicians, scientists should speak up. The evolution debate is but one example. There are many more issues where sound science is being misused or ignored (e.g., global warming).

So – I recommend all scientists consider doing something to get involved. Lend your support to the folks in Ohio (e.g., Lawrence Krauss organized the group to write the letter). Or join an organization like SEFORA a new science based political action group. But just don’t sit on the side and say “scientists should not get involved.” If all scientists keep doing that, we are in deep trouble.