Following up on the papers from the Alber lab I wrote about a few weeks ago, John Higgins pointed out this paper (Panteleev et al. 2010. Task-oriented modular decomposition of biological networks: trigger mechanism in blood coagulation. Biophys. J. 98 1751-1761), which also aims to use modeling to probe the mechanisms of clot formation. There’s [...]... Read more »
Panteleev MA, Balandina AN, Lipets EN, Ovanesov MV, & Ataullakhanov FI. (2010) Task-oriented modular decomposition of biological networks: trigger mechanism in blood coagulation. Biophysical journal, 98(9), 1751-61. PMID: 20441738
At the moment I am focussing more on the interviews I am conducting for my research, so I am not reading as much anymore. I therefore try to select articles which are both useful for my research and my blog.
Today I read an article with the fuzzy title "Supply chain risk in turbulent environments — A conceptual model for managing supply chain network risk" by Peter Trkman and Kevin McCormack.
The authors present a framework for the identification and prediction of supply risk.
Conceptua........ Read more »
Trkman, P., & McCormack, K. (2009) Supply chain risk in turbulent environments—A conceptual model for managing supply chain network risk. International Journal of Production Economics, 119(2), 247-258. DOI: 10.1016/j.ijpe.2009.03.002
Visibilities and Invisibilities in urban development: Small business communities and the London Olympics 2012 From Urban Studies The coming of the London 2012 Olympic Games has been presented as a unique opportunity for the regeneration of east London. This article considers the potential repercussions of regeneration. It warns that the process of clearance of the [...]... Read more »
Raco, M., & Tunney, E. (2010) Visibilities and Invisibilities in Urban Development: Small Business Communities and the London Olympics 2012. Urban Studies, 47(10), 2069-2091. DOI: 10.1177/0042098009357351
As promised yesterday, here’s a summary of Dag Terje Endresen’s recent paper, by the author himself. Focused Identification of Germplasm (FIGS, Mackay and Street, 2004) is a new method to select plant genetic resources for the improvement of food crops. A recent paper in Crop Science (Endresen, 2010) describes how climate data (derived from the [...]... Read more »
Endresen, D. (2010) Predictive Association between Trait Data and Ecogeographic Data for Nordic Barley Landraces. Crop Science, 50(6), 2418. DOI: 10.2135/cropsci2010.03.0174
This year, the nobel prize for economics was awarded to/shared by Peter A. Diamond of MIT, Dale T. Mortensen of Northwestern University, and Christopher A. Pissarides of the London School of Economics. These three economists were honored for their work relating to government policies and employment and economic growth during recessions. Among some of the many contributions in these areas are the finding that greater unemployment benefits can lead to longer periods of u........ Read more »
Pluchino, A., Rapisarda, A., & Garofalo, C. (2010) The Peter principle revisited: A computational study. Physica A: Statistical Mechanics and its Applications, 389(3), 467-472. DOI: 10.1016/j.physa.2009.09.045
Like most people, I like to think that my choices are a result of clear, rational thought. However, our decision processes are far more heuristic than we admit. Two new articles on choice bear this out:Mantonakis and colleagues studied how the order of items presented to us affects our preferences and choices. In their experiment, several wines were presented to participants to taste and rate. Although participants were told that all wines were from the same varietal (e.g. pinot grigio), in real........ Read more »
Mantonakis, A., Rodero, P., Lesschaeve, I., & Hastie, R. (2009) Order in Choice: Effects of Serial Position on Preferences. Psychological Science, 20(11), 1309-1312. DOI: 10.1111/j.1467-9280.2009.02453.x
Krajbich I, Armel C, & Rangel A. (2010) Visual fixations and the computation and comparison of value in simple choice. Nature neuroscience, 13(10), 1292-8. PMID: 20835253
Ocean acidification is evil.
Ocean species expect great upheaval.
Horrific for survival, expect no survival
Second worst for calcification, what an abomination!
Dire but better for growing with all signs of slowing.
Photosynthesis and reproduction fair the best, but unpleasant like all the rest.
If you’re a calcifying organism, kiss you sweet hardened ass goodbye.
Because it’s marked with a giant bull’s eye.
Badness . . . → Read More: Ocean acidification is evil: a not-so-great poem........ Read more »
Kristy J. Kroeker, Rebecca L. Kordas, Ryan N. Crim, & Gerald G. Singh. (2010) Meta-analysis reveals negative yet variable effects of ocean acidification on marine organisms. Ecology Letters, 1419-1434. info:/10.1111/j.1461-0248.2010.01518.x
145 million years ago, in the Cretaceous, the air was warm and the seas were high and rum flowed freely. On land, mammals were oppressed under dinosaur Republican rule. Massive reptiles and ammonites, long since extinct, dominated the oceans. Under the reign of these giants, the lizardfishes were mere fledglings. Today, the 256 known lizardfishes represent an amazing . . . → Read More: Of eyes and sex in lizardfishes... Read more »
Davis, M., & Fielitz, C. (2010) Estimating divergence times of lizardfishes and their allies (Euteleostei: Aulopiformes) and the timing of deep-sea adaptations. Molecular Phylogenetics and Evolution. DOI: 10.1016/j.ympev.2010.09.003
A real life Indiana Jones style adventure story (with less whips) about a priceless archaeological discovery deep in the Guatemalan Jungle.... Read more »
Our results suggest that, for typical connection strengths between communities, spatial heterogeneity has only a weak effect on outbreak size distributions, and on the risk of emergence per introduction. For example, if R0=1.4 or larger, any village connected to a large city by just ten commuters a day is, effectively, just a part of the [...]... Read more »
Kubiak, R., Arinaminpathy, N., & McLean, A. (2010) Insights into the Evolution and Emergence of a Novel Infectious Disease. PLoS Computational Biology, 6(9). DOI: 10.1371/journal.pcbi.1000947
An empirical analysis of supply chain risk management in the German automotive industry shows that the group using reactive supply chain risk management seems to do better in terms of disruptions resilience or the reduction of the bullwhip effect, whereas the group pursuing preventive supply chain risk management seems to do better as to flexibility or safety stocks. [ ... ]... Read more »
Thun, J., & Hoenig, D. (2009) An empirical analysis of supply chain risk management in the German automotive industry. International Journal of Production Economics. DOI: 10.1016/j.ijpe.2009.10.010
by Christie Wilcox email@example.com in Food Matters
This is a repost, leading up to another post in the Evolution series. Watching Speciation Occur is the second in my Evolution series which started with The Curious Case of Dogs
We saw that the littlest differences can lead to dramatic variations when we looked at the wide variety in dogs. But despite their differences, all breeds of dogs are still the same species as each other and their ancestor. How do species split? What causes speciation? And what evidence do we have that speciation has eve........ Read more »
Soltis, D., & Soltis, P. (1989) Allopolyploid Speciation in Tragopogon: Insights from Chloroplast DNA. American Journal of Botany, 76(8), 1119. DOI: 10.2307/2444824
McPheron, B., Smith, D., & Berlocher, S. (1988) Genetic differences between host races of Rhagoletis pomonella. Nature, 336(6194), 64-66. DOI: 10.1038/336064a0
Uy, J., Moyle, R., Filardi, C., & Cheviron, Z. (2009) Difference in Plumage Color Used in Species Recognition between Incipient Species Is Linked to a Single Amino Acid Substitution in the Melanocortin‐1 Receptor. The American Naturalist, 174(2), 244-254. DOI: 10.1086/600084
Phillip A Morin1, Frederick I Archer, Andrew D Foote, Julie Vilstrup, Eric E Allen, Paul Wade, John Durban, Kim Parsons, Robert Pitman, Lewyn Li.... (2010) Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species . Genome Research. info:/
My son turned 6 this weekend, and one of the games we played at his party was the classic Simon Says. I love that game! It never ceases to amaze me how easily the kids are fooled. Even at 5 going on 6, they seem to instinctively obey verbal instructions.
It reminded me of a study just published in Psychological Science by Vikram Jaswal, at the University of Virginia, and colleagues. They've been looking at the power of adult verbal testimony to lead children to disbelieve their own eyes.
For e........ Read more »
Jaswal VK, Croft AC, Setia AR, & Cole CA. (2010) Young children have a specific, highly robust bias to trust testimony. Psychological science : a journal of the American Psychological Society / APS, 21(10), 1541-7. PMID: 20855905
It’s certainly no secret that Homo sapiens are in the business of altering natural landscapes. For the most part, where there are large densities of humans there have been drastic and irreversable changes to natural ecosystem function. In many cases such changes are associated with a decreased biological fitness of all organisms that were there [...]... Read more »
Moller, A. (2010) The fitness benefit of association with humans: elevated success of birds breeding indoors. Behavioral Ecology, 21(5), 913-918. DOI: 10.1093/beheco/arq079
Well, maybe that’s a misnomer for today’s post, but it does strike to the very heart of some of the more heated debates that I see when I browse the interweb. With all the conflicting research reports into all the various interventions for chronic pain (well, for anything really), how does a clinician decide when … Read more... Read more »
Ostelo, R., Croft, P., van der Weijden, T., & van Tulder, M. (2010) Challenges in using evidence to inform your clinical practice in low back pain. Best Practice , 24(2), 281-289. DOI: 10.1016/j.berh.2009.12.006
There are under 200 California condors alive in the wild. There are under 600 wild Ethiopian wolves. There are around 3500 wild tigers and under 5500 African wild dogs outside of zoos. It has been ingrained in all of us … Continue reading →... Read more »
Brashares, J., Werner, J., & Sinclair, A. (2010) Social ‘meltdown’ in the demise of an island endemic: Allee effects and the Vancouver Island marmot. Journal of Animal Ecology, 79(5), 965-973. DOI: 10.1111/j.1365-2656.2010.01711.x
While we know that food webs are structured in nature, information about how their structure is influenced by environmental conditions is scarce. Given that network structure is associated with more applied properties, such as resilience (Dunne et al. 2002a; Dunne et al. 2002b) and vulnerability to extinction (Memmott et al. 2004), an important research goal is to characterize how environmental changes can affect these properties. In an article published today in Biology Letters, we show how res........ Read more »
Timothée Poisot, Gildas Lepennetier, Esteban Martinez, Johan Ramsayer, & Michael E Hochberg. (2010) Resource availability affects the structure of a natural bacteria–bacteriophage community. Biology Letters. info:/
The biological pump, a way of moving nutrients and carbon down the water column, in the ocean is fairly straight-forward. Phytoplankton–tiny, photosynthesizing critters bobbing around in the surface ocean–are eaten by larger organisms, like zooplankton and fish. When the zooplankton … Continue reading →... Read more »
Roman J, & McCarthy JJ. (2010) The whale pump: marine mammals enhance primary productivity in a coastal basin. PloS one, 5(10). PMID: 20949007
My Google Reader accidentally picked up an intriguing abstract that examined a research study of resources that medical students use in solving diagnostic cases. The abstract was picked up because it contained the word “exercise” that is one of my PubMed filter queries. Although we often think that most diagnostic decision-making occurs from learned information stored in physician’s brains, information resources can be very helpful. What information resources are medical ........ Read more »
Graber ML, Tompkins D, & Holland JJ. (2009) Resources medical students use to derive a differential diagnosis. Medical teacher, 31(6), 522-7. PMID: 19811168
Bouwman MG, Teunissen QG, Wijburg FA, & Linthorst GE. (2010) 'Doctor Google' ending the diagnostic odyssey in lysosomal storage disorders: parents using internet search engines as an efficient diagnostic strategy in rare diseases. Archives of disease in childhood, 95(8), 642-4. PMID: 20418338
We often hear that there are only two genetically engineered traits on the market – Roundup Ready and Bt. And, for the most part, that’s correct. There are a few other commercialized traits, such as virus resistant papaya and squash, but why aren’t there more? We see all sorts of papers about awesome genetically engineered traits, from nemotode resistance to nutritional enhancement to really specialized traits like nicotine free tobacco and allergen free Continue reading...... Read more »
Miller JK, & Bradford KJ. (2010) The regulatory bottleneck for biotech specialty crops. Nature biotechnology, 28(10), 1012-4. PMID: 20944582
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