Post List

  • March 6, 2010
  • 08:22 PM

Availability decay of Bioinformatics web resources : Yes widgets can change it

by Abhishek Tiwari in Fisheye Perspective

Quality and availability of bioinformatics resources is always a matter of great debate. HTTP 404 not found is quite frequent phenomenon for bioinformatics researchers looking to use some published web accessible database or analysis tool. A 4-year follow-up survey on the lack of persistence of bioinformatics resources was published in year 2008 by Jonathan D. [...]... Read more »

Bourne, P., Beran, B., Bi, C., Bluhm, W., Dunbrack, R., Prlić, A., Quinn, G., Rose, P., Shah, R., Tao, W.... (2010) Will Widgets and Semantic Tagging Change Computational Biology?. PLoS Computational Biology, 6(2). DOI: 10.1371/journal.pcbi.1000673  

Wren, J., & Bateman, A. (2008) Databases, data tombs and dust in the wind. Bioinformatics, 24(19), 2127-2128. DOI: 10.1093/bioinformatics/btn464  

  • March 6, 2010
  • 05:33 PM

From Conducting Polimers to First Organic Superconductors

by Olexandr Isayev in

This week, I returned from the historic 50th Sanibel Symposium. Over 350 chemists and physicists gathered together to celebrate half-centennial success of quantum and computational chemistry. One lecture that caught my attention was a plenary talk “Conducting Polymers: a saga of more than 50 years” by professor Jean-Marie Andre. Professor Andre emphasized a role [...]... Read more »

Su, W., Schrieffer, J., & Heeger, A. (1980) Soliton excitations in polyacetylene. Physical Review B, 22(4), 2099-2111. DOI: 10.1103/PhysRevB.22.2099  

Mitsuhashi, R., Suzuki, Y., Yamanari, Y., Mitamura, H., Kambe, T., Ikeda, N., Okamoto, H., Fujiwara, A., Yamaji, M., Kawasaki, N.... (2010) Superconductivity in alkali-metal-doped picene. Nature, 464(7285), 76-79. DOI: 10.1038/nature08859  

  • March 6, 2010
  • 04:51 PM

Ooze like an amoeba, float like a bird - wish we could still do that when stressed!

by Student @ Fresno State in Darwin's Bulldogs

Here's another fun weird science story from NPR, about a creature that might be in the dirt in your own backyard:

20100305 Me 03 by Npr
Download now or listen on posterous
Naegleria-NPR.mp3 (1426 KB)

Courtesy of Lillian Fritz-Laylan
Naegleria gruberi grows a pair of flagella when under stress. But unlike a sperm tail, it puts these appendages out front, and swims by breast stroke. The organism is stained to emphasize its anatomy.

If you prefer to read the story rather th........ Read more »

Fritz-Laylin, L., Prochnik, S., Ginger, M., Dacks, J., Carpenter, M., Field, M., Kuo, A., Paredez, A., Chapman, J., & Pham, J. (2010) The Genome of Naegleria gruberi Illuminates Early Eukaryotic Versatility. Cell, 140(5), 631-642. DOI: 10.1016/j.cell.2010.01.032  

  • March 6, 2010
  • 04:34 PM

Preparedness: Bioterrorism

by C. Julian in The Swarm

Last post I briefly typed about Ebola virus as a potential bioweapon. With the ongoing advances in genetics research and technologies, biological weapons does not looks anymore as a promising movie plot (The zombie nation!) or the higher level weapon in a video game. Even so, manufacturing an effective weapon using germs (viruses, bacteria, fungi or other) would require advanced knowledge and ... Read more »

  • March 6, 2010
  • 03:04 PM

Fossilisation and Vegetation Patterns: Another Study of Decay and its Implications

by Isabelle Winder in Going Ape

Following on from my recent post about the decay of chordate animals, I have encountered a related paper, this time from Quaternary Research and focusing on the preservation of plants in middens (rubbish dumps) constructed by woodrats. This paper, written by Nowak et al. (2000), explores the question of how well these middens represent the vegetation surrounding them, by developing a method which calculates the probability that species that are missing from the midden are actually not present in........ Read more »

  • March 6, 2010
  • 02:45 PM

Happiness opposed to despair/ennui; sadness to anger/irritability

by sandygautam in The Mouse Trap

Image via Wikipedia

We normally view happiness and sadness to be opposites on a single continuum, but I propose that it is time to change the textbooks and view happiness as opposed to ennui/despair and sadness as opposed to anger/irritability when it comes to basic opponent affects.
But before we go down that path first a detour.
I More >Rating: 0.0/10 (0 votes cast)

Related posts:Am happy, will be selfish; Am sad, will be fair. Oh Really?!? Image via Wikipedia Many a times, rese........ Read more »

  • March 6, 2010
  • 02:02 PM

A River Runs Higher

by Journal Watch Online in Journal Watch Online

Trees and shrubs don’t diminish streamflow after all

... Read more »

Wilcox, B.P., & Y. Huang. (2010) Woody plant encroachment paradox: Rivers rebound as degraded grasslands convert to woodlands. Geophysical Research Letters. info:/10.1029/2009GL041929

  • March 6, 2010
  • 02:00 PM

Neury Thursday (Weekend Edition): Neuronal Origin of Handedness

by Allison in Dormivigilia

In this week's Journal of Neuroscience, European researchers have recognized that though humans are innately endowed with handedness, owing to a greater, hemispheric-specific distribution of cortical matter within the premotor cortex, this unequal cortical distribution can be modified post-birth through deliberate practice, producing either ambidexterity or anti-handedness (if of course, practice is maintained).... Read more »

Stefan Klo¨ppel, Jean-Francois Mangin, Anna Vongerichten, Richard S. J. Frackowiak,and Hartwig R. Siebner. (2010) Nuture versus Nature: Long-Term Impact of Forced Right-Handedness on Structure of Pericentral Cortexand Basal Ganglia. Journal of Neuroscience, 30(9), 3271-3275. info:/10.1523/JNEUROSCI.4394-09.2010

  • March 6, 2010
  • 01:24 PM

Black men in women’s work do not get to ride the glass escalator

by Christina Pikas in Christina's LIS Rant

This post reviews a fairly recent article that examines the experiences of black men in nursing and asks whether they experience the "glass escalator" effect or if the work is racialized as well as gendered.

As requested by some fellow Sciblings, I recently blogged about an older article* that coined the term glass escalator. In my post I was uncertain about how the findings from the study were viewed by experts familiar with that body of work. In the comments, Kris D, who identifies........ Read more »

  • March 6, 2010
  • 12:00 PM

Succès hollywoodiens et transformée de Fourier

by Dr. Goulu in Pourquoi Comment Combien

James E. Cutting, professeur de psychologie à Cornell a mesuré la durée des plans de 150 films tournés entre 1935 et 2005. Première chose étonnante : ces films d'une durée moyenne de 126 minutes contiennent de 231 plans pour "Seven Year Itch" (1950) à 3099 pour "King Kong" (2005) , et en moyenne 1132 plans d'une durée toujours aussi moyenne de 6.68 secondes seulement... Read more »

Cutting JE, DeLong JE, & Nothelfer CE. (2010) Attention and the evolution of Hollywood film. Psychological science, 21(3), 432-9. PMID: 20424081  

  • March 6, 2010
  • 09:39 AM

Institute of Physics S&TC evidence submission – what’s actually wrong with it?

by Andy Russell in Our Clouded Hills

There’s clearly some interest in the IoP evidence submission and my original letter to the IoP didn’t really go into my objections in great detail. I thought I should go through the evidence submission in one place instead of explaining my views in response to blog comments.
Overall, I’m not objecting to the statement because [...]... Read more »

Anonymous members of the Institute of Physics Science Board. (2010) The disclosure of climate data from the Climatic Research Unit at the University of East Anglia. House of Commons Science and Technology Committee Memorandum. info:/

  • March 6, 2010
  • 06:36 AM

Masculine Deficiency, Liquid Courage, and Partner Violence

by Ultimo167 in Strong Silent Types

Research by Peralta et al. (2010) into the possible reasons why some men drink to excess, and then become violent toward their partners and others. The essential role played by masculine ideals is explored. ... Read more »

  • March 6, 2010
  • 03:22 AM

Blowing molybdenum sulfide bubbles

by Lars Fischer in EuCheMS 2010 Blog

There has been a veritable hype around fullerenes and carbon nanotubes in recent years, so this modification of carbon has extensively researched. What’s a little less known, is that there are other, very similar structures, made of inorganic building blocks, usually transition metal chalcogenides. There is, however, a difference: In most of the inorganic fullerens [...]... Read more »

  • March 6, 2010
  • 03:14 AM

Obscure Litostomatean to ease protist cravings - Troglodytella

by Psi Wavefunction in Skeptic Wonder

I heard you guys miss protists. Lemme put one up to help cope with the prolongued absense. Hmmm, something quick...ah, can't go wrong with obscure Litostomatea!Intestinal ciliate Troglodytella abrassarti from siamangs, a type of gibbon, apparently. Scalebars: 20um (O'Donoghue et al. 1993 Int J Parasitol)Eight contractile vacuoles? Wow. This thing is huge and complicated. They're awesome! I mean, take look at its close relative Troglocorys -- Litostomatean morphology is perfect for inspiring huge........ Read more »

  • March 6, 2010
  • 02:54 AM

Pot causes psychosis? Not so fast…

by Michael Slezak in Good, Bad, and Bogus

“Teen Pot Use Linked To Psychoses“, “Teen pot smokers at high risk of mental illness“,”Study finds cannabis use is ‘crazy-making’” are the headlines being produced about some new research that finds a link between cannabis use and psychosis

But are the headlines justified? Well, headlines like this are rarely justified. A more interesting question worth asking [...]... Read more »

  • March 6, 2010
  • 01:22 AM

Booming world population doesn’t mean growth everywhere

by Dave in The Daily Monthly

Population changes don’t affect all nations equally at once. While population in some countries is increasing rapidly, in others it’s slowing or even declining. Take a look at the case of Japan and Nigeria:









Population (Millions)





Lifetime births per woman





Annual births (Millions)





Annual deaths (Millions)





Populat........ Read more »

Kent, M.M., & Haub, C. (2005) Global Demographic Divide. Population Bulletin, 60(4), 3-24. info:/

  • March 5, 2010
  • 09:44 PM

functional MRI and the many varieties of reliability

by Tal Yarkoni in citation needed

Craig Bennett and Mike Miller have a new paper on the reliability of fMRI. It’s a nice review that I think most people who work with fMRI will want to read. Bennett and Miller discuss a number of issues related to reliability, including why we should care about the reliability of fMRI, what factors influence [...]... Read more »

Bennett, C. M., & Miller, M. B. (2010) How reliable are the results from functional magnetic resonance imaging?. Annals of the New York Academy of Sciences. info:/

  • March 5, 2010
  • 08:18 PM

Shrinky Dinks Thermoplastics: Toying With Cutting Edge Research

by Robert Deyes in Promega Connections

There it sat- a wedge-shaped gift under the Christmas tree, distinct from all the regular oblongs and cubes that had been carefully wrapped by my wife for both the children.  As Christmas drew nearer, there was clearly a buzz over what the contents of the mysterious wedge container might be.  The outer label which simply [...]... Read more »

Grimes A, Breslauer DN, Long M, Pegan J, Lee LP, & Khine M. (2008) Shrinky-Dink microfluidics: rapid generation of deep and rounded patterns. Lab on a chip, 8(1), 170-2. PMID: 18094775  

  • March 5, 2010
  • 07:03 PM

Differential Maternal Investment in Blue Tits

by Dr. Carin Bondar in Dr. Carin Bondar - Biologist With a Twist

Carin’s Paper pick o’ the week, March 5, 2010

D’Alba, L., Shawkey, M., Korsten, P., Vedder, O., Kingma, S., Komdeur, J., & Beissinger, S. (2010). Differential deposition of antimicrobial proteins in blue tit (Cyanistes caeruleus) clutches by laying order and male attractiveness Behavioral Ecology and Sociobiology DOI: 10.1007/s00265-010-0919-y
For many animals (humans included) there is little more [...]... Read more »

  • March 5, 2010
  • 06:00 PM

Culture and the human genome: a synthesis of genetics and the human sciences

by Wintz in A Replicated Typo

Humans are immersed in culture from birth. It is so fundamental to our experience, and what it means to be human itself, yet we often overlook the consideration that “cultural practices might have transformed the selection pressures acting on humans” (Laland, Odling-Smee & Myles, 2010, pg. 137).

For those of you with some sort of investment in human evolution, it’ll be quite clear that gaps between culture and biology are being broached by a variety of researchers. Anthropol........ Read more »

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