Journal news for February

News related to scientific journal publishing since 4 February.

Elsevier withdraws support for the Research Works Act

Since I covered this infamous draft US law and the associated boycott of Elsevier by academics (here and in news here) the flood of blog posts on the topic has continued, and I won’t attempt to summarise them here. But the pressure seems to have had an effect: on 27 February Elsevier announced that it is no longer supporting the act, although they ‘continue to oppose government mandates in this area’.

Meanwhile, a new act has been proposed, the Federal Research Public Access Act (FRPAA), which would mandate that all research funded by every federal funder with a budget over $100 million should be made open access 6 months after publication.

Industry group ‘threatens’ journals to delay publications

The Lancet has reported (pdf) that the Mining Awareness Resource Group (MARG) has written to several scientific journals advises journals not to  publish papers from a US government study of diesel exhaust and lung cancer until a court case and congressional directives are ‘resolved’. The editor of Occupational and Environmental Medicine, Dana Loomis, is quoted as saying ‘It is vague and threatening. This has a chilling effect on scientific communications—a matter of grave concern.’

New open access journal

The open access journal Biology Open has been launched by the Company of Biologists. The journal aims to provide the research community with ‘an opportunity to publish valid and well-conducted experimental work that is otherwise robbed of timeliness and impact by the delays inherent in submission to established journals with more restrictive selection criteria. ‘

Twitter and paper citations

An arXiv preprint has found a correlation between mentions of a paper on Twitter and its later citations.

Criteria for the UK Research Excellence Framework 2014 announced

The Higher Education Funding Council for England (HEFCE) has announced the criteria and working methods that the panels for the assessment of research using the Research Excellence Framework (REF 2014) will use. REF will use citations as part of assessment but not impact factors or other bibliometrics (see page 25 of the full report for the statement regarding citations in the biology and medicine panel). Researchers at English universities will no doubt be scrutinizing the guidelines carefully.

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I’m sorry there hasn’t been a weekly Journal News recently, as I had hoped, and that this update is rather brief. I hope that the usefulness of these news updates depends more on their content than their regularity. If you want (much) more frequent updates from the world of journals and scientific publication, do follow me on Twitter!

Journal news 28 January to 3 February

Your journal-related news for the week.

F1000Research

Faculty of 1000 (F1000), the well established post-publication peer review service, has announced a new service that will publish original research papers. According to the initial announcement, this will differ from traditional journals in that all papers will be published immediately, before peer review (as long as they pass a ‘sanity check’), and peer review will happen openly after that. Publication of datasets will also be encouraged. Fees are still under discussion. Retraction Watch discussed the proposal and received many comments, including from two members of F1000 staff, Rebecca Lawrence and Sarah Greene, who thanked commenters for helping them to develop the idea further. This looks like an experiment worth watching – if it takes off it could herald a big change in publication of peer-reviewed papers. (Via @F1000Research.)

Arsenic Life (or not) in arXiv

Microbiologist Rosie Redfield has been trying to replicate the experiments presented by Felisa Wolfe-Simon et al. in late 2010 about a bacterium (called GFAJ-1) that could apparently grow using arsenic instead of phosphorus. Redfield has now submitted a manuscript to Science and at the same time uploaded it to the preprint server arXiv. She has found that there is no arsenate in the DNA of arsenate-grown GFAJ-1 cells. She is inviting comments on the manuscript on her blog, as an experiment in open peer review. (Via @RosieRedfield.)

More on the boycott of Elsevier

See my post earlier this week for the background on this. The list of researchers who have pledged not to support Elsevier journals has now reached over 3800. An article by Josh Fischman in The Chronicle of Higher Education on Tuesday included responses from Elsevier (Alicia Wise and Tom Reller). Kent Anderson of the Scholarly Kitchen criticised the boycott, saying that other publishers have prices as high as Elsevier, bundling of journal subscriptions is useful rather than being wrong, and other publishers also support the Research Works Act. Elsevier also put their case in this blog post by Chrysanne Lowe. Meanwhile, Michael Eisen, one of the founders of the Public Library of Science, gives some historical context in his blog. (Various sources.)

Launch of Cell Reports

In an announcement that got rather lost in the furore about the boycott, Cell Press (part of Elsevier) launched a new open access journal, Cell Reports. According to its information for authors (pdf), it publishes ‘thought-provoking, cutting-edge research, with a focus on a shorter single-point story… in addition to a longer article format’ and also ‘significant technical advances’ and ‘major informational data sets’. Authors can choose between two Creative Commons licences for their papers: Attribution (CC BY) and Attribution-Noncommercial-No Derivative Works (CC BY-NC). Are there now any major scientific publishers left that don’t have any open access journals? Possibly not. (Via @WiseAlic.)

Gyrations in Life

A controversial paper was published this week in the little known open access journal Life, apparently after peer review, that claims to explain just about everything using a simple geometric figure, the gyre. It has been taken to pieces by John Timmer in Ars Technica and PZ Myers in Pharyngula. Following these and other criticisms, the editor has now responded, saying that peer review was thorough, and Retraction Watch has discussed the response. (Via @tdechant and @leonidkruglyak.)

Mind your Editorial Board

Evolutionary biologist Jonathan Eisen pointed out something not quite right about the biography of an editorial board member on a journal called Molecular Biology, published by OMICS Publishing Group. The expert in ‘oximological microbiology, non-linear submorphological endosaccharomorphosis, applied endoplutomomics’ turned out to be a fictional creation of the German satirical magazine Titanic. How the journal administrators could take him seriously when his biography says that he ‘has successfully completed his Administrative responsibilities as vice president of the universe for scientific publication ethics and spamology’, we may never know. His name is still on the editorial board page as I write. It may be relevant that OMICS has been described as a ‘predatory open access publisher‘. (Via @phylogenomics.)

The Research Works Act, open access and publisher boycotts

The open access movement has been around for decades, gradually building up, but this month there seems to have been an acceleration in the pace of change. I will try in this post to summarise the current situation as I see it.

The initial driver of this recent change was theResearch Works Act (RWA), a draft law proposed in the US that would prohibit federal bodies from mandating that taxpayer-funded research be made freely accessible online (as the NIH currently does). The two Representatives who are sponsoring the RWA, Darrell Issa and Carolyn Maloney, have received considerable amounts of money from the publisher Elsevier, which publishes many journals and is against open access (as reported on Michael Eisen’s blog).

The second important event was the decision of Cambridge mathematics professor and Fields Medal winner Timothy Gowers to publish a blog post on 21 January entitled ‘Elsevier — my part in its downfall‘ (after the late Spike Milligan’s book ‘Adolf Hitler: My Part in his Downfall‘. (Gowers was the initiator of the Polymath Project, an experiment in open collaboration online between thousands of mathematicians, which Michael Nielsen lauded highly in his TED talk on open science.) Gowers summarised the criticisms of Elsevier:

  1. Their very high prices
  2. Their practice of ‘bundling’ journals into collections that libraries have to subscribe to together
  3. Their ‘ruthless’ negotiation tactics with libraries
  4. Their support of the RWA, and of the related acts SOPA and PIPA (both now postponed).

He was already quietly avoiding publishing in Elsevier journals and avoiding reviewing for them. But he decided that this quiet approach wasn’t enough: he called for coordinated action by academics. He comments that ‘Elsevier is not the only publisher to behave in an objectionable way. However, it seems to be the worst’.

This led mathematician Tyler Neylon to set up ‘The cost of knowledge‘, a page where researchers could publicly declare that they ‘will not support any Elsevier journal unless they radically change how they operate’. As of writing, this has over 2300 signatures.

In the past week the usual trickle of blog posts about open access and Elsevier has turned into a flood. I’ll pick out a few here:

Elsevier and their allies have responded:

But The Lancet, which is published by Elsevier, has said it ‘strongly opposes‘ the RWA, saying: ‘This short and hastily put together legislation is not in the interests of either science or the public’.

and others have criticised these responses (e.g. Mike Eisen, Drug Monkey).

The coverage is now reaching the mainstream:

It will be interesting to see what Elsevier says in a statement that was expected today, according to the Chronicle of Higher Education.

*  *  *  *

So, where do I stand? I am a freelance editor, working directly or indirectly for scientists and for publishers, on both open access and closed access journals. I worked for two years for Elsevier and then five years for BioMed Central, one of the leading open access publishers, and part of my job at BMC was to advocate for open access. I’m not a great fan of Elsevier, partly for the reasons that others give as described above, and partly because I think they (like many other publishers) are too keen on cutting costs and not keen enough on ensuring quality in their publications.

All this means that I am sympathetic to the open access movement but am not an active advocate of it. I’m not currently in a position to refuse to work for closed access publishers, nor would that have much effect on their policies. When helping scientists choose where to submit their papers, I try to dispassionately present the arguments for different types of journals and encourage them to investigate open-access options, but the decision is up to them.

What I’d like to do is think through what effect a boycott would have on each affected journal. The first people to suffer will be the editors who handle manuscripts. Usually they have to ask several people before they get two reviewers to agree to look at a paper – with the boycott, they will get more noes before they get enough yeses.  If the editors are in-house staff, will this filter up to their managers, and to their managers’ managers, up to the top of the company? Maybe, but only if the proportion of people saying no to reviewing for the journal is big enough. And in the mean time the editors, who have no say in the policies of their company, will be having a hard time.

One way the boycott could perhaps be more effective would be if it focused on a few journals in well-defined, small fields where there is a limited pool of potential reviewers. In a small field, it might be possible for a sizeable proportion of researchers to refuse to review for a particular journal, so this would have a bigger effect.

I would hope that those refusing make their reasons clear (as in this example letter) so that in-house staff aren’t left wondering what is going on. The boycotters will also need to make it clear to the staff that it is their employers they have a problem with, not the editors and editorial assistants themselves. Extreme politeness and chocolate might go down well!

I hope everyone will also remember that there are many researchers who need to publish to keep their jobs or get funding and tenure. Not everyone has a free choice of where to submit their paper. Those who do not join the boycott should not be assumed to be enemies of it.

So if you are boycotting any particular publisher, spare a thought for both the in-house staff who have to put up with it and for the researchers who can’t join in.

Journal news for 20-27 January

A brief summary of recent news related to journals and scientific publishing.

Datasets International

The open access publisher Hindawi has launced Datasets International, which “aims at helping researchers in all academic disciplines archive, document, and distribute the datasets produced in their research to the entire academic community.” For a processing charge of $300 authors can upload an apparently unlimited amount of data under a Creative Commons CC0 licence (and associated dataset papers under an Attribution licence), according to comments on Scott Edmunds’ Gigablog. The new journals currently associated with this initiative are Dataset Papers in: Cell Biology, Optics, Atmospheric Sciences and Materials Science, though no doubt more will follow. (Heard via @ScottEdmunds.)

Peerage of Science

A company run by three Finnish scientists this week has a new take on improving peer review. Peerage of Science is a community of scientists (‘Peers’), formed initially by invitation, who review each other’s papers anonymously before submission to journals. Reviews are themselves subjected to review, which means that reviewers receive recognition and ratings for their work. The reviews can even be published in a special journal, Proceedings of the Peerage of Science. Journals can offer to publish manuscripts at any point, for a fee – this is how the company aims to make a profit. (Heard via chemistryworldblog, via @adametkin.)

Peer review by curated social media

Science writer Carl Zimmer (@carlzimmer) reported last week in the New York Times on a recent (open access) study in Proc Natl Acad Sci USA about the generation of multicellular yeast by artificial selection in the lab. He has now posted a follow-up article in his Discovery blog, in which he presents the conversation that followed on Twitter about this paper (using Storify) and invites the author to respond, which the author does. The comments on the latter post continue the conversation, and the author continues to respond. It’s an interesting example of the author of a controversial paper engaging constructively in post-publication peer review. (Heard via @DavidDobbs.)

Research Objects

Tom Scott (@derivadow, who works for Nature Publishing Group) has published a detailed blog post outlining a proposal for a new kind of scientific publication: the Research Object. This would be a collection of material, linked by a Uniform Resource Identifier (URI), including an article, raw data, protocols, links to news about the research published elsewhere, links to the authors and their institutions, and more. He credits the Force11 (‘Future of Research Communications and e-Scholarship’) community for the idea, which is developed in greater detail here (pdf). These elements may or may not be open access, although the sophisticated searches Scott envisages will be difficult if they are not. (Heard via @SpringerPlus.)

Analysis of F1000 Journal Rankings

Phil Davis of The Scholarly Kitchen has done an analysis of the journal ranking system announced by Faculty of 1000 (F1000) in October. The analysis includes nearly 800 journals that were given a provisional F1000 Journal Factor (called FFj by F1000) for 2010. Plotting the FFj of each journal against the number of articles from it that were evaluated by F1000 shows that the two numbers are closely related; in fact, the number of articles evaluated explains over 91% of the variation in FFj. Journals from which only a few articles were evaluated suffer not only from this bias, but also from a bias against interdisciplinary and physical science journals that publish little biology. It seems to me that these biases could easily be addressed by taking into account (a) the number of articles evaluated from each journal and (b) the proportion of biology articles published in it when calculating the FFj. F1000 would be wise to study this useful analysis when reviewing their ranking system, as they plan to do regularly, according to the original announcement. (Heard via @ScholarlyKitchn.)

Journal News

A brief summary of recent news related to journals and scientific publishing.

Journal of Errology

A new venture came to my notice this week that aims to provide “an experimental online research repository that enables sharing and discussions on those unpublished futile hypothesis, errors, iterations, negative results, false starts and other original stumbles that are part of a larger successful research in biological sciences.” It is not clear whether the Journal of Errology will succeed, but it is an interesting development that might fill a gap that journals are currently neglecting.

Figshare

Another place to send your miscellaneous data is figshare, which relaunched this week. This “allows researchers to publish all of their research outputs in seconds in an easily citable, sharable and discoverable manner”. They are encouraging researchers to upload negative data, supplementary material that is too large for journal limits, and miscellaneous figures that aren’t likely to get written up as a paper.

The Research Works Act

You’ll probably have heard about the Research Works Act (RWA) being proposed in the US, which would prohibit the NIH or other federal bodies from mandating (as the NIH currently does) that taxpayer-funded research should be freely accessible online.  A summary for UK readers by Mike Taylor (@SauropodMike) is here. The act is supported by the American Publishers Association, and Twitter has been full of scientists lobbying journal publishers to come out against it. So far, the AAAS (publisher of Science) and Nature Publishing Group have been among the journal publishers opposing the RWA.

An open peer review experiment

AJ Cann (@AJCann) is inviting comments on a research paper (entitled “An efficient and effective system for interactive student feedback using Google+ to enhance an institutional virtual learning environment”) on his blog, as a form of open peer review. He’s received several reviews so far, as well as comments on the process.

A journal using WordPress

Andrés Guadamuz, the technical editor of SCRIPTed, the open access journal of Law and Technology, has written a blog post “Confessions of an open access editor” that mentions that the journal is now one of the few hosted by WordPress. Given the recent launch of Annotum, the WordPress add-on for authoring scholarly publications, it looks like WordPress is going to become more important as a platform in the future.

A survey on attitudes to open access

The International Journal of Clinical Practice (IJCP), published by Wiley, has launched a survey on what authors think about the idea of the journal going completely open access (rather than having it as an option as at present). They will be asking all submitting authors for the next six months and are also inviting others to write a Letter to the Editor with their thoughts. They seem to be genuinely interested in authors’ views and not pushing either for or against open access.

The ‘academic dollar’ altmetric

A post by Sabine Hossenfelder on the BackReaction blog (which I heard about via @ScholarlyKitchn) discusses a 2010 paper entitled “An Auction Market for Journal Articles” that suggests an ‘academic dollar’ “that would be traded among editors, authors, and reviewers and create incentives for each involved party to improve the quality of articles”. They are scathing about this proposal, describing it as an example of “Verschlimmbesserung”, defined by Urban Dictionary as “an attempted improvement that makes things worse than they already were”. Altmetrics may be on the rise, but it looks like this one won’t be taking off.

http://backreaction.blogspot.com/2012/01/academic-dollar.html

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