Update to PLoS Article-Level Metrics Data

As you may be aware, as part of our ongoing article-level metrics program, we provide a downloadable Excel file for the entire dataset (3 Mb zipped, but 35 Mb when unzipped). The first such file was created when we launched the usage data (in September 2009) and we have just updated it with the latest data (with data correct up to January 31st 2010). Going forwards, we plan to update this spreadsheet every other month, starting in April.

The main changes with this latest version (other than containing a more recent dataset) are:

  • The addition of the ‘missing’ usage data for all our articles.
    • We now have a complete usage dataset for all articles, going back to day of publication (previously some articles missed the usage data for their early years)
  • The addition of data from researchblogging.org. Researchblogging.org are a blog aggregating service and we now include their data as part of the article-level metrics data set (as described in an earlier post)
  • An update to the various  journal level summary tables

Some people have already started analysing our data and we encourage anyone who is interested to take this dataset and do their own analysis. Also be aware that the ‘live’ data for each article can be accessed by clicking on the link: “Download raw Metrics data as XML” which can be found at the bottom of each article’s Metrics tab.

Weekly PLoS ONE News and Blog Round-Up

In this week’s PLoS ONE media digest: amyloid plaques in Alzheimer’s may be beneficital, beer makes people attractive to malarial mosquitoes, declining death rates from cancer, a new fossil crocodile, and more.

The Alzheimer’s Disease-Associated Amyloid β-Protein Is an Antimicrobial Peptide by Soscia et al, was covered by New York Times Health Feed, Business Week, Suite101, Scientist Live, Alzheimer’s Reading Room and Neurophilosophy.

Beer Consumption Increases Human Attractiveness to Malaria Mosquitoes by Lefèvre et al, was covered by DNA India, Birmingham Science News Examiner, Smithsonian.com, Discoblog, Scientificblogging.com and Not Exactly Rocket Science.

Declining Death Rates Reflect Progress against Cancer by Jemal, Ward and Thun was reported in Xinhuanet, U.S. News & World Report, Ovarian Cancer National Alliance, Ars Technica and Fight Aging.

A New Horned Crocodile from the Plio-Pleistocene Hominid Sites at Olduvai Gorge, Tanzania by Brochu, Njau, Blumenschine and Densmore was covered by Discovery News and Newswise.

Open space loss and land inequality in United States’ cities, 1990–2000 by McDonald, Forman and Karieva was written up in the Conservation magazine, Global Change and Conservation Maven

Network Analytical Tool for Monitoring Global Food Safety Highlights China by Nepusz, Petróczi and Naughton, was covered by Food Safety News, bjhc & im and Flesh & Stone.

A Demonstration of the Transition from Ready-to-Hand to Unready-to-Hand by Dotov, Nie and Chemero, a rare scientific article that cites philosopher Martin Heidegger, was covered by Wired Science and Softpedia.

Winter Active Bumblebees (Bombus terrestris) Achieve High Foraging Rates in Urban Britain by Stelzer, Chittka, Carlton and Ings was described in PlanetEarth and DNA India.

Is it easy to be urban? Convergent success in urban habitats among lineages of a widespread native ant by Menke, Booth, Dunn, Schal, Vargo and Silverman was covered by Science News

Using Imputation to Provide Location Information for Nongeocoded Addresses by Curriero, Kulldorff, Boscoe and Klassen was described at HealthCanal.

Gut Microbiota in Human Adults with Type 2 Diabetes Differs from Non-Diabetic Adults by Larsen et al. was covered by FoodConsumer.org, PRLog and Health Freedom Alliance

pH-Dependent Metal Ion Toxicity Influences the Antibacterial Activity of Two Natural Mineral Mixtures by Cunningham, Jennifer, Summers and Haydel was covered by R&D Magazine and Green Agenda.

Female Scent Signals Enhance the Resistance of Male Mice to Influenza by Litvinova et al, was explained by Ed Yong of Not Exactly Rocket Science.

Female Field Crickets Incur Increased Parasitism Risk When Near Preferred Song by Martin and Wagner was explained by Phased.

Some of our older articles received additional coverage recently:

Could Work Be a Source of Behavioural Disorders? A Study in Horses by Hausberger et al, was presented in TheHorse.com

Altruism in Forest Chimpanzees: The Case of Adoption by Boesch et al was discussed at Big Think.

Athlete Atypicity on the Edge of Human Achievement: Performances Stagnate after the Last Peak, in 1988 by Berthelot et al was discussed in Finding Dulcinea.

Neural substrates of spontaneous musical performance: an FMRI study of jazz improvisation by Limb and Braun was discussed on The Posit Science Blog.

Persistent Cell Motion in the Absence of External Signals: A Search Strategy for Eukaryotic Cells by Li et al was described by BenjaminTseng

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Science Commons presentation on PLoS ONE and Article-Level Metrics

On Feb 20th, Microsoft hosted a “Science Commons Symposium” at their HQ in Redmond, WA. It was a great line up of speakers, and I was honored to be among them with an invitation to talk about PLoS ONE and our article-level metrics program.

Several people blogged about the meeting, and Brian Glanz provided an excellent running commentary for the entire day.

Courtesy of Microsoft Research, the full video coverage of all the talks are now online as follows: Session 1 (Microsoft Research; Cameron Neylon; Jean-Claude Bradley); Session 2 (Antony Williams; Peter Murray-Rust); Session 3 (Heather Joseph; Stephen Friend); and Session 4 (starring myself, in a warm up role for the keynote by John Wilbanks).You will need to install Silverlight to view the videos.

This was an excellent meeting, for which Microsoft and Science Commons deserve a lot of praise – I recommend the video coverage for anyone who couldnt be there.

New user functionality – referenced PDFs via Pubget

The new year is in full swing and we are continuing to add functionality to the articles that we publish. This time we’re adding links, via Pubget, to the PDFs of citing articles (as recorded by Cross Ref).

Pubget is a search engine for life-sciences PDFs. If Pubget have found a PDF which is freely available then you will now be able to access it via our site with just one click. Their database contains 3 million free PDFs, plus tens of millions of subscription only PDFs (naturally we wish that everything was freely available but sadly that is still not the case).

Now, when you look at citations to any article as recorded by CrossRef (which are accessed via the ‘CrossRef’ link in the ‘Cited in’ section of any article’s Metrics tab), a PDF icon will appear if it is freely available via Pubget. Clicking on the icon will take you directly to the PDF. We’ve created a 3 minute screen shot video (with audio commentary) to explain how this works.

As you would expect, we’re just linking to the free PDFs on Pubget. For those citations without a freely available PDF you have two options. The CrossRef link will take you to the publishers site (as it always did). Or, if you work for any of the 170 institutions in Pubget’s network (for example, MIT, and UCSF), you can use the citation to get to the subscription PDFs right away on Pubget.com. If you want to add your institution to the Pubget network, just tell your library – Pubget is free.

On launching this new functionality, Pete Binfield, Publisher of PLoS ONE and the Community Journals said:

“Any service, like Pubget, that makes it easier for authors to quickly find the information they need is a welcome addition to our articles. We like how Pubget helps to break down content walls in science, letting users get instantly to the article-level detail that they seek.”

Dr Ramy Arnaout, Pubget founder said:

“We’ve been long term fans of PLoS because they share our passion for advancing science and information access. We’re excited to take this first step in working together to make science that much faster for everyone who reads articles as part of their research.”

We hope that this new functionality makes it a little bit easier to reach the information that you need.

Weekly PLoS ONE News and Blog Round-Up

In this week’s PLoS ONE media digest: waist-to-hip ratio drives men crazy, Patron Saint relics not what they are said to be, magnets in birds’ beaks, marine protection areas protect corals, man-eating extinct crocodyle, smart but no so insightful crows, antioxidants in swallows.

The title of this post is really a mis-nomer – this should be a bi-weekly round-up as I was at AAAS meeting last week and did not have the time and opportunity to post a round-up last Monday. So today, you will get a double dose:

Article Optimal Waist-to-Hip Ratios in Women Activate Neural Reward Centers in Men by Steven M. Platek and Devendra Singh was irresistible to the media. It was covered widely, including by Herald Sun, Times of India, Telegraph, New York Daily News, The Sun (warning: NSFW, it’s Page 3!), Atlanta Journal Constitution, FOXNews, TheMedGuru, CalorieLab Calorie Counter News, Sideways News, Metro, PhysOrg.com, TopNews, Softpedia, Asylum and ZME Science.

The article Analysis of the Putative Remains of a European Patron Saint–St. Birgitta unveiled that these relics are not what they are thought to be – genetic analysis revealed the remains of what were supposed to be a mother and a daughter to actually be uneraleted to each other. This finding was reported by Register, Gene Expression, Monsters and Critics, A Very Remote Period Indeed, ScienceBlog and, interestingly, by the article’s Academic Editor Bjoern Brembs who describes the incredible thoroughness of the peer-review of this article.

Avian Magnetoreception: Elaborate Iron Mineral Containing Dendrites in the Upper Beak Seem to Be a Common Feature of Birds, an article from the Fleissner lab, attracted a very international coverage, including in Informationsdienst Wissenschaft, Mail.Ru, Ornithomedia, Proplanta and A DC Birding Blog.

A Global Analysis of the Effectiveness of Marine Protected Areas in Preventing Coral Loss by Selig and Bruno shows that establishment of protected areas of the ocean does have some positive effects on the health of coral reefs and that this effect gets greater as the area remains preserved longer. This study was reported in Anthozoa, EcoTone, Newswise, BusinessWeek, Die Welt, Hawaii 24/7 and NPR Science Friday podcast.

The discovery of A New Horned Crocodile from the Plio-Pleistocene Hominid Sites at Olduvai Gorge, Tanzania by Brochu, Njau, Blumenschine and Densmore was covered by Laelaps, National Geographic, New Scientist, FOXNews
OneIndia and Softpedia.

An Investigation into the Cognition Behind Spontaneous String Pulling in New Caledonian Crows by Taylor et al, puts into question the notion that corvid birds demonstrate ‘insight’. The study was reported by A DC Birding Blog
Ars Technica and Wired News.

Human Ovarian Reserve from Conception to the Menopause by W. Hamish B. Wallace and Thomas W. Kelsey experienced a ressurection in the media when Washington Post decided to report on it. True/Slant, Tapped and Washington City Paper followed.

The paper Positive Carotenoid Balance Correlates with Greater Reproductive Performance in a Wild Bird by Safran et al. was covered by CU Boulder News & Events, Daily Camera, IndyPosted, ScienceBlog, Arizona State University News, Laboratory Equipment and Summit Daily News.

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Blog Pick of the Month – February 2010

February is a short month, but that did not deter bloggers. There were 26 excellent blog posts covering PLoS ONE articles aggregated on ResearchBlogging.org in the past month. So, it is time today to reveal the Pick Of The Month. Drumroll, please…..

This month’s winner is Princess Ojiaku from the Science with Moxie blog, for her post Musical Emotions: Chills Edition that explained the article The rewarding aspects of music listening are related to degree of emotional arousal by Valorie N. Salimpoor, Mitchel Benovoy, Gregory Longo, Jeremy R. Cooperstock and Robert J. Zatorre, all from Montreal. From the Abstract:

Background

Listening to music is amongst the most rewarding experiences for humans. Music has no functional resemblance to other rewarding stimuli, and has no demonstrated biological value, yet individuals continue listening to music for pleasure. It has been suggested that the pleasurable aspects of music listening are related to a change in emotional arousal, although this link has not been directly investigated. In this study, using methods of high temporal sensitivity we investigated whether there is a systematic relationship between dynamic increases in pleasure states and physiological indicators of emotional arousal, including changes in heart rate, respiration, electrodermal activity, body temperature, and blood volume pulse.

Methodology

Twenty-six participants listened to self-selected intensely pleasurable music and “neutral” music that was individually selected for them based on low pleasure ratings they provided on other participants’ music. The “chills” phenomenon was used to index intensely pleasurable responses to music. During music listening, continuous real-time recordings of subjective pleasure states and simultaneous recordings of sympathetic nervous system activity, an objective measure of emotional arousal, were obtained.

Principal Findings

Results revealed a strong positive correlation between ratings of pleasure and emotional arousal. Importantly, a dissociation was revealed as individuals who did not experience pleasure also showed no significant increases in emotional arousal.

Conclusions/Significance

These results have broader implications by demonstrating that strongly felt emotions could be rewarding in themselves in the absence of a physically tangible reward or a specific functional goal.

In her blog post, Princess Ojiaku wrote:

When we get chills or feel intense pleasure when listening to music we enjoy, there is an actual range of bodily responses that go along with that! This seems like common sense, but this is important scientifically because having an actual, quantitative measure of the changes our bodies go through when experiencing good music opens doors to scientists thinking about other questions like, “why is music so unique that it causes actual emotional and physical arousal?”

Usually emotional responses have a definite function, such as joy from eating good food serves to keep us alive, or bonding with friends keeps us happy and connected to our fellow humans. Feeling these emotions helps us by making sure we keep doing the things that are good for our survival and well-being. But music is one of the only things that makes us happy without having a clear beneficial function to our survival as human beings. I think that makes it pretty special and interesting, and that makes me content to consume and play it.

Congratulations to Princess and the authors of the article. I have contacted them and wonderful T-shirts from the PLoS Store will be on their way to them shortly.

Runners-up in this month’s contest were Brian Switek for his coverage of the horned man-eating crocodile fossil and Grrrlscientist for her blog post on the discovery of speed-gene in racehorses.

Previous winners:

March 2009: Ed Yong
April 2009: Eric Michael Johnson
May 2009: Christie Wilcox
June 2009: Iddo Friedberg
July 2009: Toaster Sunshine and Hermitage
August 2009: Bjoern Brembs
September 2009: Alun Salt
October 2009: Andrew Farke
November 2009: John Beetham
December 2009: SciCurious
January 2010Anne-Marie Hodge

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Announcing PLoS EzReprint – new and improved!

We’ve had a reprint service for a while but to use it, folks had to add all the article information to the order themselves which made it time consuming and difficult to use. Now, we’re proud to introduce EzReprint, the next generation of print on demand, designed for people who want to generate 25 or more high quality reprints of most of our articles.

You can find the link to this service in the top right of almost every PLoS article.

It is near the option to print it using your desktop printer (which is, of course, still your best bet if you need some copies for any purpose, available to you at no charge thanks to open access). To do this, simply download the PDF and send it to your printer.

In the new system, all the article information is pre-filled on the order landing page, and so all you have to do is make a few simple choices and you are nearly done. If you want a quick guided tour, simply watch this three minute video. This new service is available on most but not all articles, if you do not see the EzReprint logo you will be directed to the original system.

There are a number of different payment options to suit the needs of our largely academic audience. You can enter a purchase order to create an invoice, wire your payment or pay by credit card. Your reprints are dispatched straight to your door and proof of delivery comes as standard on every order.

Although anyone is free to make their own copies of any PLoS article using their desktop printer, we do appreciate that many people want a ‘professional quality’ reprint (high grade paper, high resolution prints, saddle stitching, and the option of custom covers) and for those people we offer what we believe is a fair pricing model for this service. Specifically, we offer a non-commercial rate for those people who want to order low quantities (25-500) – we make a small margin on this to help support our cause. And we also have a commercial rate for organizations who want higher quantities – this price is competitive with other publishers.

Our printing vendor for this service is Odyssey Press – an industry leader in digital medical and scientific reprints who have developed the new EzReprint ordering feature and have worked with us to implement it. EzReprint appears on nearly all PLoS articles. You can find out more about PLoS print on demand here.

Feel free to try EzReprint the next time you need professionally produced copies of PLoS articles, you’ll be glad that you did.

New PLoS ONE Collection – The DREAM3 systems biology challenges

Today, PLoS ONE is pleased to publish a Collection of articles representing the output of the best performing methods and strategies of the DREAM 3 challenges (Dialogue for Reverse Engineering Assessments and Methods).

These challenges were posed to systems biology experts during the months of June to September 2008 and discussed at the third DREAM conference, held in late 2008 in Cambridge, MA.The Collection as a whole summarizes the lessons learned by the community and provides a much-needed context for interpreting claims of efficacy of algorithms described in the scientific literature.

DREAM was established to address the question of whether mathematical models can be used to help scientists go beyond experimental insight to better understand biological systems.  Every year, DREAM organize a challenge in which scientists from around the world are invited to use donated experimental data to produce quantitative models and make blind predictions of previously unseen benchmark experiments known to the DREAM organizers. These predictions are matched to the benchmarks, allowing for a rigorous evaluation of the usefulness of the models. This community effort aims to catalyze discussion about the design, application, and assessment of systems biology models. DREAM is sponsored by Columbia University Center for Multiscale Analysis Genomic and Cellular Networks (MAGNet) and the IBM Computational Biology Center.

Systems biology has embraced computational modeling in response to the quantitative nature and increasing scale of contemporary data sets; however, the volume of data being generated is accelerating as molecular profiling technology evolves. We hope that this Collection goes some way to explaining the role that Computational algorithms could play in the interpretation of systems biology data and an assessment of their limitations.

Obstetrics Research in PLoS ONE

Credit: Flickr user Aldo Risolvo

CC-licensed Photo by Flickr user Adlo Risolovo

Recently we’ve been analyzing the topic coverage of PLoS ONE and as part of our deliberations we’ve pulled together content in different subject areas starting with Obstetrics.  Some of the most heavily downloaded Obstetrics research (as measured by our Article-Level Metrics) to appear in PLoS ONE, is listed below. Research in this area also spans the subject categories of: Immunology, Urology, Public Health and Epidemiology, Infectious Diseases, Genetics and Genomics, NutritionPhysiology, and Pharmacology so be sure to check out those related categories as well.

Microbial Prevalence, Diversity and Abundance in Amniotic Fluid During Preterm Labor: A Molecular and Culture-Based Investigation by DiGiulio DB et al. (Editor: Nicholas M. Fisk, University of Queensland Centre for Clinical Research, Australia.)

Missing Girls in India: Infanticide, Feticide and Made-to-Order Pregnancies? Insights from Hospital-Based Sex-Ratio-at-Birth over the Last Century by Sahni M et al. (Editor: Jacqueline Ho, JARING, Malaysia)

Gene Expression Profiling of Human Decidual Macrophages: Evidence for Immunosuppressive Phenotype by Gustafsson C et al. (Editor: Derya Unutmaz, New York University School of Medicine, United States of America)

Serum MicroRNAs Are Promising Novel Biomarkers by Gilad S et al. (Editor: Simon Williams, Texas Tech University Health Sciences Center, United States of America)

High Uptake of Exclusive Breastfeeding and Reduced Early Post-Natal HIV Transmission by Kuhn L et al. (Editor: Koen Peeters Grietens, Partners for Applied Social Sciences (PASS), Belgium)

Oxytocin in the Circadian Timing of Birth by Roizen J et al. (Editor: Alison Douglas, University of Edinburgh, United Kingdom)

Maternal TLR4 and NOD2 Gene Variants, Pro-Inflammatory Phenotype and Susceptibility to Early-Onset Preeclampsia and HELLP Syndrome by van Rijn BB et al. (Editor: Henry Harpending, University of Utah, United States of America)

Maternal Obesity Induced by Diet in Rats Permanently Influences Central Processes Regulating Food Intake in Offspring by Kirk SL. (Editor: Paul A. Bartell, Pennsylvania State University, United States of America)

Reproductive Intentions and Outcomes among Women on Antiretroviral Therapy in Rural Uganda: A Prospective Cohort Study by Homsy J. (Editor: Patricia Kissinger, Tulane University, United States of America)

Effect of Antihypertensive Therapy with Alpha Methyldopa on Levels of Angiogenic Factors in Pregnancies with Hypertensive Disorders by Khalil A et al. (Editor: Pisake Lumbiganon, Khon Kaen University, Thailand)

The Costs, Benefits, and Cost-Effectiveness of Interventions to Reduce Maternal Morbidity and Mortality in Mexico by Hu D et al. (Editor: Daniel Hoffman, State University of New Jersey, United States of America)

Multidimensional Proteomics Analysis of Amniotic Fluid to Provide Insight into the Mechanisms of Idiopathic Preterm Birth by Buhimschi IA. (Editor: Pisake Lumbiganon, Khon Kaen University, Thailand)

Feel free to share these research articles with colleagues and let them know that we welcome more submissions in this area!

Worth a Thousand Words

Did dinosaurs have feathers? More and more fossils are being uncovered suggesting that this is indeed the case. But some fossils are suspected to be hoaxes and others are difficult to study. Not being made of bone, feathers do not preserve well. While there are imprints of feathers around the fossilized skeletons, the feathers are difficult to see. And most notably, it is difficult to see if the feathers are actually attached to the skeletons….that is, under the visible light.

In this week’s article The Extent of the Preserved Feathers on the Four-Winged Dinosaur Microraptor gui under Ultraviolet Light, David W. E. Hone, Helmut Tischlinger, Xing Xu and Fucheng Zhang used ultraviolet light on a beautifully preserved fossil of Microraptor gui. Under UV light, not just that many more feathers could be seen, but it also became obvious that the feathers are themselves attached to the bones, thus negating alternative hypotheses of either accidental co-fossilization of feathers with the dinosaur, or the feathers being a hoax.

And now, thanks to improvements of UV-light photography, you can see this for yourself in a series of images in this article, including this one – Figure 3:

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Weekly PLoS ONE News and Blog Round-Up

In this week’s PLoS ONE media digest: feathered dinosaurs, living next to highways is bad for your blood vessels, removing badgers does not remove cattle tuberculosis, and bats can drink and fly.

The Extent of the Preserved Feathers on the Four-Winged Dinosaur Microraptor gui under Ultraviolet Light by David Hone, Helmut Tischlinger, Xing Xu and Fucheng Zhang was published yesterday and is already garnering great press. David Hone, the lead author of the article, has written a blog post on Archosaur Musings blog about the findings. So did Andrew Farke, the academic editor who handled this manuscript, on The Open Source Paleontologist. You can read the interview with David Hone on Dinochick Blogs, and additional coverage on Smithsonian’s Dinosaur Tracking and Dracovenator.

Ambient Air Pollution and the Progression of Atherosclerosis in Adults by Künzli and colleagues is the first study to demonstrate an association with air polution and the development of atherosclerosis in humans. The study was broadly covered in the media, including in Los Angeles Times, Orange County Register, CBS
ABC, CNET News and Times of India.

Study by Jenkins, Woodroffe and Donnelly, The Duration of the Effects of Repeated Widespread Badger Culling on Cattle Tuberculosis Following the Cessation of Culling shows that eradication of badgers has only a temporary effect on the spread of tuberulosis in cows in the British Isles. The study was covered by BBC, The Guardian, TreeHugger, Science Insider, FarmersWeekly and Scotsman, among others.

The article Drinking and Flying: Does Alcohol Consumption Affect the Flight and Echolocation Performance of Phyllostomid Bats? by Orbach et al, which shows that ingestion of ethanol from fermenting fruit does not affect the flying capability and precision in bats, recieved some additional coverage this week, including at Microecos, Calgary Herald, Denim and Tweed and National Geographic.

Some other articles covered in the past week:

Is It Easy to Be Urban? Convergent Success in Urban Habitats among Lineages of a Widespread Native Ant was covered at Phased.

Metformin Induces a Dietary Restriction–Like State and the Oxidative Stress Response to Extend C. elegans Healthspan via AMPK, LKB1, and SKN-1 was written up on Ouroboros

When the Sun Prickles Your Nose: An EEG Study Identifying Neural Bases of Photic Sneezing was covered by Dormivigilia.

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Weekly PLoS ONE News and Blog Round-Up

In this week’s PLoS ONE media digest: malaria vaccine boosts immunity in kids, invasion of Thoreau’s Woods, bees with keen sense of smell and more.

Article Safety and Immunogenicity of an AMA1 Malaria Vaccine in Malian Children: Results of a Phase 1 Randomized Controlled Trial by Mahamadou A. Thera and collaborators reports on a clinical trial of a novel malaria vaccine showing that it was safe, well-tolerated and effective in small children. The study was reported, among others, by BusinessWeek, Reuters, UPI and AFP

Article by Charles G. Willis and colleagues, Favorable Climate Change Response Explains Non-Native Species’ Success in Thoreau’s Woods, explores the idea that species that adapt to climate change by changing, for example, their seasonal timing of flowering, increase in numbers over time. They analyzed a dataset of species’ populations that was started by Henry David Thoreau 150 years ago in Concord, Massaschusets, and tracked the changes in seasonal responses and in population abundance over time. In this analysis, it turned out that the invasive species are particularly flexible and more readily adapt to climate change, thus threatening the native species. The article was covered, among others, by Boston Globe, Discovery News, Harvard Gazette, The Voltage Gate, Conservation Magazine and Scientific Blogging.

In the article, Honeybees Learn Odour Mixtures via a Selection of Key Odorants, Judith Reinhard and colleagues show that honeybees are capable of recognizing, remebering and responding to complex mixtures of odorants by identifying the key components in each mixture. The study was covered by ABC Online, UQ News and ScienceAlert.

Some other (and older) articles covered during the past week:

A Sequence Polymorphism in MSTN Predicts Sprinting Ability and Racing Stamina in Thoroughbred Horses was covered by Living the Scientific Life.and ScienceNOW.

Mapping Change in Large Networks was recently covered by Alex Holcombe and
Culturing Science

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New spring range now available in the PLoS Store

When we launched the PLoS store back in November 2009, we promised to continually update it with new designs and merchandise.  We’ve been true to our word.  For the last couple of months, we’ve been creating our Spring range, so now you, your home, office or lab and the kids in your life can look cool and support the PLoS cause.

Over the years, folks have continually asked us for a Future PLoS Author kids range – you are never too young (or old) to get behind Open Access.  As you can see from the adjacent photo of Pete and his daughter, we road tested these designs and products on our own kids. When we were told by the eloquent three year old of one of our team that she couldn’t read the words on the tees because they were too fancy, we changed them so that they were readable.

For those of you who prefer a more classic look, there are new embroidered tees, hats and hoodies. We think these look particularly nice on a classic polo or baseball cap, but you can decide for yourself how and where (they are smart enough for the boardroom or golf course) you want to wear them.

Since everyone loves dinosaurs and PLoS ONE in particular publishes a large amount of Paleontology research, we couldn’t resist developing a range around this theme. We have dino tees, mugs and mousepads, just take your pick.

While we were in all out creative overdrive, we also came up with new mug designs and a few posters to brighten your home or lab walls, so check them out.

Visit the PLoS store today to find these featured products and many more. Through your purchase, you can support our non-profit mission. Happy shopping!

Worth a Thousand Words

Raw data, statistical analysis, standard forms of graphing the result… sometimes observing these obscures what is really interesting about the information at hand. A clever or novel ways of visualizing data may, on the other hand, uncover phenomena that just jump at us from the image: “Wow! This is interesting!”

In other cases, while statistical analysis itself discovers the hidden phenomena, what it really needs is a powerful image to drive the point home. One such recent PLoS ONE study exemplifies this well. The article Mapping Change in Large Networks by Martin Rosvall and Carl T. Bergstrom from the Department of Biology at the University of Washington, Seattle, analyzes thousands of citations of scientific articles and uses novel mathematical methods to discover nodes and networks in the citation data. What really jumps out from the images is how different scientific disciplines experience phase-changes: two disciplines fuse into one, or one discipline gives rise to a daughter sub-discipline which later becomes an independent discipline:

Most noteworthy result from the study is the demonstration that neuroscience only became an independent discipline within the last decade or so:

As the authors say in the Abstract:

Change is a fundamental ingredient of interaction patterns in biology, technology, the economy, and science itself: Interactions within and between organisms change; transportation patterns by air, land, and sea all change; the global financial flow changes; and the frontiers of scientific research change. Networks and clustering methods have become important tools to comprehend instances of these large-scale structures, but without methods to distinguish between real trends and noisy data, these approaches are not useful for studying how networks change. Only if we can assign significance to the partitioning of single networks can we distinguish meaningful structural changes from random fluctuations. Here we show that bootstrap resampling accompanied by significance clustering provides a solution to this problem. To connect changing structures with the changing function of networks, we highlight and summarize the significant structural changes with alluvial diagrams and realize de Solla Price’s vision of mapping change in science: studying the citation pattern between about 7000 scientific journals over the past decade, we find that neuroscience has transformed from an interdisciplinary specialty to a mature and stand-alone discipline.

And the nifty visualization makes their point very clear.

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Weekly PLoS ONE News and Blog Round-Up

In this week’s PLoS ONE media digest: mapping change in large networks, speed gene in racehorses, Yasuni National Park in Ecuador, smelling cancer in urine, and much more.

Martin Rosvall of Umeå University in Sweden and Carl Bergstrom of the University of Washington devised a new mathematical technique using citations of publications as data to map changes in scientific disciplines, discovering, for example, that neuroscience only came into its own as an independent discipline over the last decade or so. They describe (with wonderful visualisations) their work in the article Mapping Change in Large Networks which was covered, among others, by io9, The Scientist blog and RedOrbit.

Thoroughbred racehorses, all tracing their pedigrees back to only three stallions and 20+ mares a few centuries ago, are highly inbred animals. Yet, some horses become stars on the racetrack, while others tend to finish last. Some individuals win sprints while others do best at longer distances. Now, a group from the University College Dublin identified variants of the MSTN gene encoding myostatin that correlate with preferred racing distances for individual racehorses. It is not a surprise that their article A Sequence Polymorphism in MSTN Predicts Sprinting Ability and Racing Stamina in Thoroughbred Horses was covered by a large number of horse and racing magazines, as well as by BusinessWeek and Irish Times.

Ecuador’s Yasuní National Park is a hotspot of biodiversity. Yet, it also lies on top of large oil reserves. A large multinational group conducted the first comprehensive synthesis of biodiversity data in the Park and discovered that this area is a species richness center for amphibian, bird, mammal, and plant distributions. Their article Global Conservation Significance of Ecuador’s Yasuní National Park was covered by the New York Times’s Dot Earth blog, , Endless Forms, Great Beyond and Mongabay.com among others.

Having lung cancer affects the chemical composition of urine. In the article Urinary Volatile Compounds as Biomarkers for Lung Cancer: A Proof of Principle Study Using Odor Signatures in Mouse Models of Lung Cancer, a multinational group of researchers discovered that laboratory mice can detect, using the sense of smell, these chemical changes. Thus, a bioassay using mice may be a novel diagnostic test for detection of lung cancer. This study was covered in numerous media outlets, including BusinessWeek and Times of India.

The article Drinking and Flying: Does Alcohol Consumption Affect the Flight and Echolocation Performance of Phyllostomid Bats? which demonstrates surprising resistance to the effects of alcohol consumption in bats was covered by the blog Dormivigilia. The study Favorable Climate Change Response Explains Non-Native Species’ Success in Thoreau’s Woods was blogged by the Voltage Gate.

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