Archive for the 'Scholarly Journals' Category

"When Data Sharing Gets Close to 100%: What Human Paleogenetics Can Teach the Open Science Movement"

Posted in Data Curation, Open Data, and Research Data Management, Open Science, Publishing, Scholarly Journals on April 1st, 2015

Paolo Anagnostou et al. have published "When Data Sharing Gets Close to 100%: What Human Paleogenetics Can Teach the Open Science Movement" in .

Here's an excerpt:

This study analyzes data sharing regarding mitochondrial, Y chromosomal and autosomal polymorphisms in a total of 162 papers on ancient human DNA published between 1988 and 2013. The estimated sharing rate was not far from totality (97.6% ± 2.1%) and substantially higher than observed in other fields of genetic research (evolutionary, medical and forensic genetics). Both a questionnaire-based survey and the examination of Journals' editorial policies suggest that this high sharing rate cannot be simply explained by the need to comply with stakeholders requests. Most data were made available through body text, but the use of primary databases increased in coincidence with the introduction of complete mitochondrial and next-generation sequencing methods. Our study highlights three important aspects. First, our results imply that researchers' awareness of the importance of openness and transparency for scientific progress may complement stakeholders' policies in achieving very high sharing rates. Second, widespread data sharing does not necessarily coincide with a prevalent use of practices which maximize data findability, accessibility, useability and preservation. A detailed look at the different ways in which data are released can be very useful to detect failures to adopt the best sharing modalities and understand how to correct them. Third and finally, the case of human paleogenetics tells us that a widespread awareness of the importance of Open Science may be important to build reliable scientific practices even in the presence of complex experimental challenges.

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    "ADS: The Next Generation Search Platform"

    Posted in Digital Repositories, EPrints, Open Access, Scholarly Journals on March 16th, 2015

    Alberto Accomazzi et al. have self-archived "ADS: The Next Generation Search Platform."

    Here's an excerpt:

    Starting in 2011, the ADS started to systematically collect, parse and index full-text documents for all the major publications in Physics and Astronomy as well as many smaller Astronomy journals and arXiv e-prints, for a total of over 3.5 million papers. Our citation coverage has doubled since 2010 and now consists of over 70 million citations. We are normalizing the affiliation information in our records and, in collaboration with the CfA library and NASA, we have started collecting and linking funding sources with papers in our system. . . . We have rolled out and are now enhancing a new high-performance search engine capable of performing full-text as well as metadata searches using an intuitive query language which supports fielded, unfielded and functional searches. We are currently able to index acknowledgments, affiliations, citations, funding sources, and to the extent that these metadata are available to us they are now searchable under our new platform. The ADS private library system is being enhanced to support reading groups, collaborative editing of lists of papers, tagging, and a variety of privacy settings when managing one's paper collection.

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      "Beyond Beall’s List: Better Understanding Predatory Publishers"

      Posted in Open Access, Publishing, Scholarly Journals on March 10th, 2015

      Monica Berger and Jill Cirasella have published "Beyond Beall's List: Better Understanding Predatory Publishers" in College & Research Libraries News.

      Here's an excerpt:

      Although predatory publishers predate OA, their recent explosion was expedited by the emergence and success of fee-charging OA journals. No matter how strong our urge to support and defend OA, librarians cannot deny the profusion of predators in the OA arena; John Bohannon's recent "sting" made abundantly clear (despite methodological flaws) that there are many bad actors. Rather, we should seek to understand their methods, track their evolution, and communicate their characteristics to our patrons.

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        "The OA Interviews: Alison Mudditt, Director, University of California Press"

        Posted in Open Access, Publishing, Scholarly Books, Scholarly Journals, University Presses on March 9th, 2015

        Richard Poynder has published "The OA Interviews: Alison Mudditt, Director, University of California Press" in Open and Shut? in which Mudditt discusses the UC Press' Collabra and Luminos open access programs.

        Here's an excerpt:

        Collabra's model speaks to publishers, libraries, funders, and researchers who are seeking more cost transparency and greater recognition of the critical role that the academic and scientific community plays in journal publishing. In our model, the people who do the fundamental work of peer-review are recognized for this and are able to decide where to place that value.

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          You Didn’t Think It Was Over, Did You? New Motion in GSU Copyright Case

          Posted in Copyright, Digital Copyright Wars, Publishing, Research Libraries, Scholarly Journals on March 9th, 2015

          According to "Publishers' Move Could Mean 'Whole New Trial' in GSU Copyright Case," the plaintiffs have filed a motion to "reopen the trial record, and have asked that new evidence be used to determine whether some of the university's online e-reserve course readings are infringing copyright."

          The article also mentions a recent e-print by Brandon Butler, "Transformative Teaching and Educational Fair Use after Georgia State."

          Here's an excerpt from the e-print:

          The latest installment in the history of educational fair use, the 11th Circuit's opinion in the Georgia State e-reserves case, may be the last judicial word on the subject for years to come, and I argue that its import is primarily in its rejection of outdated guidelines and case law, rather than any affirmative vision of fair use (which the court studiously avoids). Because of the unique factual context of the case, it stops short of bridging the gap between educational fair use and modern transformative use jurisprudence. With help from recent scholarship on broad patterns in fair use caselaw, I pick up where the GSU court left off, describing a variety of common educational uses that are categorizable as transformative, and therefore entitled to broad deference under contemporary fair use doctrine. In the process, I show a way forward for vindicating fair use rights, and first amendment rights, by applying the transformative use concept at lower levels of abstraction to help practice communities make sense of the doctrine.

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            "Research Data Explored II: the Anatomy and Reception of figshare"

            Posted in Data Curation, Open Data, and Research Data Management, Publishing, Scholarly Journals on March 6th, 2015

            Peter Kraker et al. have self-archived "Research Data Explored II: the Anatomy and Reception of figshare."

            Here's an excerpt:

            In this paper, we present an analysis of figshare, one of the largest multidisciplinary repositories for research materials to date. We analysed the structure of items archived in figshare, their usage, and their reception in two altmetrics sources (PlumX and ImpactStory). We found that figshare acts as a platform for newly published research materials, and as an archive for PLOS. Depending on the function, we found different bibliometric characteristics. Items archived from PLOS tend to be coming from the natural sciences and are often unviewed and non-downloaded. Self-archived items, however, come from a variety of disciplines and exhibit some patterns of higher usage. In the altmetrics analysis, we found that Twitter was the social media service where research data gained most attention; generally, research data published in 2014 were most popular across social media services. PlumX detects considerably more items in social media and also finds higher altmetric scores than ImpactStory.

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              "Flipping, not Flopping: Converting Subscription Journals to Open Access"

              Posted in Open Access, Publishing, Scholarly Journals on March 5th, 2015

              Alice Meadows has published "Flipping, not Flopping: Converting Subscription Journals to Open Access" in The Scholarly Kitchen .

              Here's an excerpt:

              The question of whether—and, if so, when and how—to 'flip' a traditional, subscription-based journal to open access (OA) is one that comes up time and again in meetings with our society partners. It's also something that funders sometimes like to suggest as a quick route to a more open world—"Why not just convert all your journals to OA?" they ask.

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                "The Educational Value of Truly Interactive Science Publishing"

                Posted in Data Curation, Open Data, and Research Data Management, Publishing, Scholarly Journals on March 2nd, 2015

                Michael J. Ackerman has published "The Educational Value of Truly Interactive Science Publishing" in The Journal of Electronic Publishing.

                Here's an excerpt:

                Interactive Scientific Publishing (ISP) has been developed by the Optical Society of America with support from the National Library of Medicine at NIH. It allows authors to electronically publish papers which are linked to the referenced 2D and 3D original image datasets. These image datasets can then be viewed and analyzed interactively by the reader. ISP provides the software for authors to assemble and link their source data to their publication. But more important is that it provides readers with image viewing and analysis tools. The goal of ISP is to improve learning and understanding of the presented information. This paper describes ISP and its effect on learning and understanding. ISP was shown to have enough educational value that readers were willing to invest in the required set-up and learning phases. The social aspects of data sharing and the enlarged review process may be the hardest obstacles to overcome.

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