Skip to content

The public’s discussion on open access to scientific research

I have been paying attention to the ongoing discussion on open access to scientific research in the news media and have collected a number of interesting articles.  Here I will keep a record of a few interesting ones

2012-11-08 From the Guardian: “Open Access: ‘we no longer need expensive publishing networks‘”

2012-06-19 From the New Scientist: “Set science free from publishers’ paywalls

2012-04-17 From the Harvard Faculty Advisory Council Memorandum on Journal Pricing: “Major Periodical Subscriptions Cannot Be Sustained

I once wrote about the difficulty in getting access to the research papers here and I had to ask my friends from my home country to download that for me. The expensive journal subscription is obviously one reason that caused the problem. Obviously publishing in high-quality, open access journals with publisher like PLOS and BMC can be a good solution. However for many practical reasons, i.e. to survive and be recognized, scientists often do not act what they advocate is good. Let’s hope the field can wise up and treasure what is actually important to us.

One of the many causes of the financial crisis in universities these days

A colleague at Purdue puts it in perspective in a Bloomberg News article:  College Costs Rise With $250,000-a-Year Bureaucrats

“Why is it that we can’t find any money for more faculty, but there seems to be an almost unlimited budget for administrators?” asks J. Paul Robinson, a Purdue University professor of biomedical engineering and chairman of the school’s faculty senate. Photographer: Daniel Acker/Bloomberg

A guy tested positive on a pregnancy test.. it turns out that he had cancer

This is an interesting story that I came across last week. It started with a guy playing with his ex-girlfriend’s pregnancy test… and the result was positive! He told his friend about it and he made a rage comic and posted it on reddit.

Several users pointed out that he should check with his oncologist, and he did. As it turns out, he had a rare form of testicular cancer that would produce human chorionic gonadotropin, a hormone that is being detected in the pregnancy test. This (un)fortunate incident helped his early detection of the cancer and saved his life.

They announced the update through another rage comic again.

Boing boing has an elaborate discussion of the science behind this.

Sense of fairness in animals

Just come across this interesting video the other day..

 

which is an except from this TED talk : Frans de Waal: Moral behavior in animals


2012-10-28 new articles we read this week

Science special section – Forces in Development

  1. Purnell BA. Forces in development. Forceful thinking. Introduction. Science. 2012 Oct 12;338(6104):209. doi: 10.1126/science.338.6104.209. PubMed PMID: 23066070.
  2. Kicheva A, Cohen M, Briscoe J. Developmental pattern formation: insights from physics and biology. Science. 2012 Oct 12;338(6104):210-2. doi: 10.1126/science.1225182. Review. PubMed PMID: 23066071.
  3. Furusawa C, Kaneko K. A dynamical-systems view of stem cell biology. Science.  2012 Oct 12;338(6104):215-7. doi: 10.1126/science.1224311. Review. PubMed PMID: 23066073.
  4. Newman SA. Physico-genetic determinants in the evolution of development. Science. 2012 Oct 12;338(6104):217-9. doi: 10.1126/science.1222003. PubMed PMID: 23066074.
  5. Behrndt M, Salbreux G, Campinho P, Hauschild R, Oswald F, Roensch J, Grill SW, Heisenberg CP. Forces driving epithelial spreading in zebrafish gastrulation. Science. 2012 Oct 12;338(6104):257-60. doi: 10.1126/science.1224143. PubMed PMID: 23066079.

Visual sciences

  1. Hardie RC, Franze K. Photomechanical responses in Drosophila photoreceptors. Science. 2012 Oct 12;338(6104):260-3. doi: 10.1126/science.1222376. PubMed PMID: 23066080.

Neural behaviour

  1. Fernandes AM, Fero K, Arrenberg AB, Bergeron SA, Driever W, Burgess HA. Deep Brain Photoreceptors Control Light-Seeking Behavior in Zebrafish Larvae. Curr Biol. 2012 Sep 18. pii: S0960-9822(12)00944-X. doi: 10.1016/j.cub.2012.08.016. [Epub ahead of print] PubMed PMID: 23000151.

Retinal development

  1. Xiang M. Intrinsic control of mammalian retinogenesis. Cell Mol Life Sci. 2012 Oct 12. [Epub ahead of print] PubMed PMID: 23064704.

Eye diseases

  1. Sahly I, Dufour E, Schietroma C, Michel V, Bahloul A, Perfettini I, Pepermans E, Estivalet A, Carette D, Aghaie A, Ebermann I, Lelli A, Iribarne M, Hardelin JP, Weil D, Sahel JA, El-Amraoui A, Petit C. Localization of Usher 1 proteins to the photoreceptor calyceal processes, which are absent from mice. J Cell Biol. 2012 Oct 15;199(2):381-99. doi: 10.1083/jcb.201202012. Epub 2012 Oct 8. PubMed PMID: 23045546; PubMed Central PMCID: PMC3471240.

Medicine

  1. Krogsbøll LT, Jørgensen KJ, Grønhøj Larsen C, Gøtzsche PC. General health checks in adults for reducing morbidity and mortality from disease. Cochrane Database Syst Rev. 2012 Oct 17;10:CD009009. doi: 10.1002/14651858.CD009009.pub2. PubMed PMID: 23076952.

The Nobel Prize in Chemistry 2012

was awarded jointly to Robert J. Lefkowitz and Brian K. Kobilka

for studies of G-protein-coupled receptors

The Nobel Prize in Physiology or Medicine 2012

was awarded jointly to Sir John Gurdon and Shinya Yamnaka

for the discovery that mature cells can be reprogrammed to become pluripotent

They also won the Lasker Award in 2009.

 

Why is it dark at night?

This is not related to biology but is a question that is in my mind for a while….
 



The Lasker Awards 2012

Albert Lasker Basic Medical Research Award goes to

Michael Sheetz, James Spudich and Ronald Vale

For discoveries concerning the cell’s protein-folding machinery, exemplified by cage-like structures that convert newly made proteins into their biologically active forms.

Lasker~DeBakey Clinical Medical Research Award goes to

Roy Calne and Thomas E. Starzl

For the development of liver transplantation, which has restored normal life to thousands of patients with end-stage liver disease.

I highly recommend reading their essays published in Nature Medicine.

Michael Sheetz, James Spudich, Ronald Vale, Roy Calne, Thomas E. Starzl

2012 Ig Nobel prize!

From the Ig Nobel prize website:

PSYCHOLOGY PRIZE: Anita Eerland and Rolf Zwaan [THE NETHERLANDS] and Tulio Guadalupe [PERU, RUSSIA, and THE NETHERLANDS] for their study “Leaning to the Left Makes the Eiffel Tower Seem Smaller”

REFERENCE: “Leaning to the Left Makes the Eiffel Tower Seem Smaller: Posture-Modulated Estimation,” Anita Eerland, Tulio M. Guadalupe and Rolf A. Zwaan, Psychological Science, vol. 22 no. 12, December 2011, pp. 1511-14.

ATTENDING THE CEREMONY: Tulio Guadalupe. [NOTE: Two days after the ceremony, Anita Eerland and Rolf Zwaan will marry each other, in the Netherlands.]

 

PEACE PRIZE: The SKN Company [RUSSIA], for converting old Russian ammunition into new diamonds.

ATTENDING THE CEREMONY: Igor Petrov

 

ACOUSTICS PRIZE: Kazutaka Kurihara and Koji Tsukada [JAPAN] for creating the SpeechJammer — a machine that disrupts a person’s speech, by making them hear their own spoken words at a very slight delay.

REFERENCE: “SpeechJammer: A System Utilizing Artificial Speech Disturbance with Delayed Auditory Feedback“, Kazutaka Kurihara, Koji Tsukada, arxiv.org/abs/1202.6106. February 28, 2012.

ATTENDING THE CEREMONY: Kazutaka Kurihara and Koji Tsukada

 

NEUROSCIENCE PRIZE: Craig Bennett, Abigail Baird, Michael Miller, and George Wolford [USA], for demonstrating that brain researchers, by using complicated instruments and simple statistics, can see meaningful brain activity anywhere — even in a dead salmon.

REFERENCE: “Neural correlates of interspecies perspective taking in the post-mortem Atlantic Salmon: An argument for multiple comparisons correction,” Craig M. Bennett, Abigail A. Baird, Michael B. Miller, and George L. Wolford, 2009.
REFERENCE: “Neural Correlates of Interspecies Perspective Taking in the Post-Mortem Atlantic Salmon: An Argument For Multiple Comparisons Correction,” Craig M. Bennett, Abigail A. Baird, Michael B. Miller, and George L. Wolford, Journal of Serendipitous and Unexpected Results, vol. 1, no. 1, 2010, pp. 1-5.

ATTENDING THE CEREMONY: Craig Bennett, Abigail Baird, Michael Miller, and George Wolford

 

CHEMISTRY PRIZE: Johan Pettersson [SWEDEN and RWANDA]. for solving the puzzle of why, in certain houses in the town of Anderslöv, Sweden, people’s hair turned green.

ATTENDING THE THE CEREMONY: Johan Pettersson

 

LITERATURE PRIZE: The US Government General Accountability Office, for issuing a report about reports about reports that recommends the preparation of a report about the report about reports about reports.

REFERENCE: “Actions Needed to Evaluate the Impact of Efforts to Estimate Costs of Reports and Studies,” US Government General Accountability Office report GAO-12-480R, May 10, 2012.

 

PHYSICS PRIZE: Joseph Keller [USA], and Raymond Goldstein [USA and UK], Patrick Warren, and Robin Ball [UK], for calculating the balance of forces that shape and move the hair in a human ponytail.

REFERENCE: “Shape of a Ponytail and the Statistical Physics of Hair Fiber Bundles.” Raymond E. Goldstein, Patrick B. Warren, and Robin C. Ball, Physical Review Letters, vol. 198, no. 7, 2012.
REFERENCE: “Ponytail Motion,” Joseph B. Keller, SIAM [Society for Industrial and Applied Mathematics] Journal of Applied Mathematics, vol. 70, no. 7, 2010, pp. 2667–72.

ATTENDING THE CEREMONY: Joseph Keller, Raymond Goldstein, Patrick Warren, Robin Ball

 

FLUID DYNAMICS PRIZE: Rouslan Krechetnikov [USA, RUSSIA, CANADA] and Hans Mayer [USA] for studying the dynamics of liquid-sloshing, to learn what happens when a person walks while carrying a cup of coffee.

REFERENCE: “Walking With Coffee: Why Does It Spill?” Hans C. Mayer and Rouslan Krechetnikov, Physical Review E, vol. 85, 2012.

ATTENDING THE CEREMONY: Rouslan Krechetnikov

 

ANATOMY PRIZE: Frans de Waal [The Netherlands and USA] and Jennifer Pokorny [USA] for discovering that chimpanzees can identify other chimpanzees individually from seeing photographs of their rear ends.

REFERENCE: “Faces and Behinds: Chimpanzee Sex Perception” Frans B.M. de Waal and Jennifer J. Pokorny, Advanced Science Letters, vol. 1, 99–103, 2008.

ATTENDING THE CEREMONY: Frans de Waal and Jennifer Pokorny

 

MEDICINE PRIZE: Emmanuel Ben-Soussan and Michel Antonietti [FRANCE] for advising doctors who perform colonoscopies how to minimize the chance that their patients will explode.

REFERENCE: “Colonic Gas Explosion During Therapeutic Colonoscopy with Electrocautery,” Spiros D Ladas, George Karamanolis, Emmanuel Ben-Soussan, World Journal of Gastroenterology, vol. 13, no. 40, October 2007, pp. 5295–8.
REFERENCE: “Argon Plasma Coagulation in the Treatment of Hemorrhagic Radiation Proctitis is Efficient But Requires a Perfect Colonic Cleansing to Be Safe,” E. Ben-Soussan, M. Antonietti, G. Savoye, S. Herve, P. Ducrotté, and E. Lerebours, European Journal of Gastroenterology & Hepatology, vol. 16, no. 12, December 2004, pp 1315-8.

ATTENDING THE THE CEREMONY: Emmanuel Ben-Soussan