Latest Article Alert from Journal of Occupational Medicine and Toxicology

The latest articles from Journal of Occupational Medicine and Toxicology, published between 15-Sep-2012 and 29-Sep-2012

For articles which have only just been published, you will see a ‘provisional PDF’ corresponding to the accepted manuscript.
A fully formatted PDF and full text (HTML) version will be made available soon.

Research
Bronchial asthma and COPD due to irritants in the workplace –


Latest Article Alert from Particle and Fibre Toxicology

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Latest Article Alert from Environmental Health

The latest articles from Environmental Health, published between 15-Sep-2012 and 29-Sep-2012

For articles which have only just been published, you will see a ‘provisional PDF’ corresponding to the accepted manuscript.
A fully formatted PDF and full text (HTML) version will be made available soon.

Methodology
Studying the effectiveness of activated carbon R95 respirators in reducing the


Latest Article Alert from BMC Infectious Diseases

The latest articles from BMC Infectious Diseases, published between 30-Aug-2012 and 29-Sep-2012

For articles which have only just been published, you will see a ‘provisional PDF’ corresponding to the accepted manuscript.
A fully formatted PDF and full text (HTML) version will be made available soon.

Debate
Prevention of pneumococcal diseases in the post-seven valent vaccine era: A European


Latest Article Alert from BMC Medical Research Methodology

The latest articles from BMC Medical Research Methodology, published between 30-Aug-2012 and 29-Sep-2012

For articles which have only just been published, you will see a ‘provisional PDF’ corresponding to the accepted manuscript.
A fully formatted PDF and full text (HTML) version will be made available soon.

Debate
Scanning for satisfaction or digging for dismay? Comparing findings from a


Open Access discussion at Imperial Colledge London, 27th September

“On 27th September 2012 the Imperial College SciCommForum held a follow up discussion on open access to publicly funded research in response to the Finch Report and RCUK Policy.  

We were joined by Mark Thorley (NERC, RCUK) and Professor Stephen Curry (Imperial College) and Richard Van Noorden (Nature News) chaired the discussion. We had representatives from HEFCE, Wellcome Trust, RLUK, MRC, NIMR, Imperial College Library – and more – in the audience, and the discussion continued on Twitter under the hashtag #icoa. 

With thanks to Professor Stephen Webster (Imperial College) for funding. 

Twitter: @SciCommForum”

The audio of the discussion was uploaded yesterday and can be found here on figshare:- http://figshare.com/articles/Open_Access:_Going_for_Gold_/96158

Peter Suber: "The UK can do better…"


Mark Thorley wrote: “Stevan, …As an advocate of Open Access I would like to think that you appreciate the fact that the UK is leading the world here…”

Mark, no, the UK is no longer leading the world with its new Finch/RCUK/BIS OA policy.

It’s time to heed OA advocates that have been at this far longer than you, and fix the RCUK Policy:

Peter Suber: “The UK can do better. In fact, the RCUK can do better. Its 2006 policy was better than the new policy. It only needed to be enforced.”

The RCUK Policy is fixable. Indeed it can be made much better than the old RCUK policy. And the UK can once again take the worldwide lead in OA Policy:

I. Drop the 9 words that make the RCUK Policy say the opposite of what it means.

II. Adopt an effective compliance-verification mechanism for Green OA self-archiving:

(IIa) Deposit must be in the fundee’s institutional repository.
      (This makes each UK institution responsible for monitoring and verifying timely compliance.)
(IIb) All articles must be deposited immediately upon acceptance for publication.
      (Publisher embargoes apply only to the date on which the deposit is made OA.)
(IIc) Repository deposit must be designated the sole mechanism for submitting publications for UK research assessment (REF).
      (Articles’ deposit URL required in all requests for RCUK funding or renewal.)

It is still widely hoped that RCUK will act in a flexible, constructive way rather than a rigid, dogmatic one, in the face of the growing expression of the concerns of the research community and its OA advocates, in the UK and worldwide, about the ambiguity and the potential for perverse effects of the new RCUK OA Policy.

Stevan Harnad

BOAI-10 RECOMMENDATIONS

— 1.1. Every institution of higher education should have a policy assuring that peer-reviewed versions of all future scholarly articles by faculty members are deposited in the institution?s designated repository…

— Deposits should be made as early as possible, ideally at the time of acceptance, and no later than the date of formal publication.

— University policies should respect faculty freedom to submit new work to the journals of their choice. [emphasis added]

— University policies should encourage but not require publication in OA journals [emphasis added] …

— 1.3. Every research funding agency, public or private, should have a policy assuring that peer-reviewed versions of all future scholarly articles reporting funded research are deposited in a suitable repository and made OA as soon as practicable.

— Deposits should be made as early as possible, ideally at the time of acceptance, and no later than the date of formal publication…

Four More Questions For Mark Thorley About RCUK Open Access Policy

Mark Thorley has posted “RCUK Open Access Policy ? When to go Green and When to go Gold” on the RCUK site.

Here are four further questions about the policy:

1. Policy Wording. As repeatedly pointed out and acknowledged at the Imperial College Forum, the wording of the present RCUK policy is confusing and leads to the widespread misunderstanding that fundees may not choose (free) Green (6-12) unless the journal does not offer (paid) Gold (CC-BY). If the intended meaning is that funded may freely choose Green or Gold, isn’t the right place to say that — and to prevent this confusion and misunderstanding — in the wording of the policy itself? rather than just in accompanying guidance to the interpretation of the wording of the policy?

2. Perverse Effects. Is RCUK not concerned that only allowing fundees to publish in journals that offer either (paid) CC-BY Gold or (free) 6-12 Green (or both) will simply induce subscription journals (60% of which currently allow immediate, unembargoed Green) to now offer hybrid (paid) CC-BY Gold while increasing their Green option to 13+ to make sure that UK authors must pay for Gold?

3. Benefits of 6% CC-BY. The UK produces 6% of worldwide research output. What benefit is it to UK industry, or to UK wealth creation, or to UK research, for the UK to pay (hybrid) subscription publishers worldwide 6% extra, over and above what they are already being paid for subscriptions, in order to make (only) the UK’s own 6% of worldwide research output CC-BY Gold? Is it worth the extra UK research money, diverted from research? or the loss (to both the UK and the rest of the world) of Green OA from the rest of the world (94%), because RCUK gives subscription publishers worldwide the irresistible incentive to offer a hybrid Gold option and increase their Green embargo lengths (while the rest of the world, unlike the UK, cannot afford — or does not wish — to subsidize hybrid publishers over and above what they are already paying them in subscriptions)?

4. Green Compliance Mechanisms. There seem to be plans in the making for verifying compliance with RCUK’s paid Gold option. What are RCUK’s plans for verifying compliance with the Green OA option? A requirement to deposit is not even mentioned in the current RCUK Policy’s wording: just a requirement to choose an RCUK-compliant journal.

A selection of influential PLOS ONE papers on tropical medicine and malaria

For the XVIII International Congress for Tropical Medicine and Malaria Conference in Rio de Janeiro, PLOS ONE is highlighting eight recent articles.  Since January 2011, PLOS ONE has published almost 700 articles in the areas of tropical neglected diseases, tropical medicine, and malaria.  We’re sharing with you some of the papers that have received the most attention.  The authors on these papers come from across the globe, representing Brazil, Colombia, Ethiopia, France, the Netherlands, Papua New Guinea, Spain, Sri Lanka, Switzerland, the United Kingdom, and the United States.

One paper in particular has stood out.  Researchers found a novel therapy that could revolutionize the treatment of viral infections from the common cold to Ebola.  The therapy eliminates cells that contain viral RNA while leaving uninfected cells unharmed.  In the study, the therapy was effective against 15 different viruses, including dengue flavivirus, rhinoviruses, and H1N1 influenza virus.

An article published last month reported that malaria incidence in Sri Lanka has declined by 99.9% since 1999, despite ongoing conflict in the country.  The success of the malaria program could be explained in part by effective prevention measures, early detection, and maintaining the program in conflict zones.  In less than a month, the paper has received over 1,000 views.

Bacteria on people’s skin can affect how attractive they seem to malaria-transmitting mosquitoes.  Research published last December found that malaria mosquitoes preferred people whose skin had an increased number of bacteria but fewer overall types.  The article received significant press coverage and has been viewed almost 10,000 times.

Although a vaccine that blocks malaria transmission is theoretically possible, several obstacles have prevented its development, including producing Plasmodium parasite antigens in a cost-effective manner.  A paper published in May 2012 showed algae can make Plasmodium proteins that can elicit an antibody response.  This approach could bring down overall costs of a vaccine.  Since publication this paper has been viewed over 3,500 times.

A different approach to combatting malaria is to increase the mosquito’s defenses against the parasite.  A paper published in January 2011 showed that it is possible to insert an anti-malarial gene into a specific location in the Anopheles gambiae genome.  This technique decreased infections of Plasmodium yoelii nigeriensis and could be effective against other Plasmodium parasites.  Since publication this paper has received over 2,000 views.

The results from a World Health Organization-led effort to estimate the global incidence of leishmaniasis, a parasitic disease spread by sandflies, published in May 2012.  To obtain an accurate estimate of the disease burden, the authors collected data from 98 countries and 3 territories.  The authors stressed the importance of this in-depth assessment in helping policy makers and aid organizations determine funding priorities for this underreported disease.  The paper has been viewed over 5,000 times.

One strategy parasites use to evade the host’s immune system, initiate infection, and even manipulate host behavior is to imitate the host’s proteins.  A study published in March 2011 presented a method for scanning entire parasite genomes to identify proteins that are mimicking host proteins.  The paper received over 4,000 views and was featured on the This Week in Parasitism podcast.

Finally, a new method for diagnosing infection by Schistosoma mansoni, the parasite that causes schistosomiasis, was published in June 2012.  This method, which is based on detecting the parasite’s DNA, provides greater sensitivity than the most routinely used diagnostic approach, requires only a urine sample, and has a relatively low cost.

If you are at the ICTMM, we hope that you have had a chance to stop by the PLOS booth, pick up one of the PLOS ONE postcards, and meet staff from PLOS Pathogens and PLOS Neglected Tropical Diseases.

Acknowledgment:  Thank you to Martin Fenner for helping us use the PLOS Article Level Metrics to identify influential PLOS ONE papers in the areas of tropical neglected diseases, tropical medicine, and malaria.

Rick Rylance (CEO, AHRC) on RCUK on Green (and Embargoes)

Rick Rylance (CEO, AHRC) in Independent onRCUK policy:

“because we recognise that? the? pay-to-publish “gold” model of Open Access.. is not always available, we’ve retained a mixed model for the time being. This means that if there is not a to pay-to-publish option, researchers can opt for the “green” model of open access where the paper would be available via a repository after an embargo period? [emphasis added]

Why “for the time being”?

Why (cost-free) Green only if (paid) Gold unavailable?

Why is Green described as embargoed when over 60% of journals (including the top journals in most fields) already endorse immediate, unembargoed Green (and “Almost OA” is available for the remaining 40%)?

Is RCUK trying to encourage publishers to increase their Green OA embargoes?

Stevan Harnad