Progress Update 2012–2013
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Reading Peer Review
EVE This Element describes for the first time the database of peer review reports at PLOS ONE, the largest scientific journal in ET AL. the world, to which the authors had unique access. Specifically, Reading Peer Review this Element presents the background contexts and histories of peer review, the data-handling sensitivities of this type PLOS ONE and Institutional of research, the typical properties of reports in the journal Change in Academia to which the authors had access, a taxonomy of the reports, and their sentiment arcs. This unique work thereby yields a compelling and unprecedented set of insights into the evolving state of peer review in the twenty-first century, at a crucial political moment for the transformation of science. It also, though, presents a study in radicalism and the ways in which Reading Peer Review Peer Reading PLOS’s vision for science can be said to have effected change in the ultra-conservative contemporary university. This title is also available as Open Access on Cambridge Core. Cambridge Elements in Publishing and Book Culture Series Editor: Samantha Rayner University College London Associate Editor: Leah Tether University of Bristol Publishing and Book Culture Academic Publishing Martin Paul Eve, Cameron Neylon, Daniel ISSN 2514-8524 (online) ISSN 2514-8516 (print) Paul O’Donnell, Samuel Moore, Robert Gadie, Downloaded from https://www.cambridge.org/core. IP address: 170.106.33.14, on 25 Sep 2021 at 19:03:04, subject to the Cambridge CoreVictoria terms of use, available Odeniyi at https://www.cambridge.org/core/terms and Shahina Parvin. https://doi.org/10.1017/9781108783521 Downloaded from https://www.cambridge.org/core. -
Progress Update July 2011
PUBLIC LIBRARY of SCIENCE PUBLIC LIBRARY of SCIENCE www.plos.org 3URJUHVV8SGDWH 2010 Progress Update July 2011 www.plos.org Welcome to the 2010 PLoS Progress Update, aimed at keeping our authors, reviewers, editors, and supporters fully apprised of developments at PLoS over our most recent Highlights year. You can sign up to read future updates here. If you would like 1. Message from a fuller historical picture of how far we’ve come, you can read the the Founders 2009 Progress Update and the first full Progress Report. 2. Publishing Initiatives 3. Influential 1. Message from the Founders Research 4. A Growing It’s been another exciting year for PLoS, focused on establishing more open, Organization efficient, and effective ways to accelerate progress in science and medicine 5. The Evolving and leading a transformation in research communication. Open Access Landscape PLoS reached a truly significant milestone in 2010 when, seven years 6. The First PLoS after entering the publishing business, our annual operating revenues Forum exceeded expenses for the first time. Although we are delighted that PLoS and others have now shown that Open Access (OA) is a viable and 7. Customer Service sustainable business model, we have a long way to go before universal 8. Financial Summary access is achieved for all. 9. 2011 and Beyond The significant progress that we’ve made toward this goal could not have 10. Major Support been achieved without the leadership of our co-founder Harold Varmus, in 2010 who announced during the year that he was stepping aside as Chairman 11. -
Open Access Advocacy: Think Globally, Act Locally
Collaborative Librarianship Volume 2 Issue 3 Article 7 2010 Open Access Advocacy: Think Globally, Act Locally Bette Rathe University of Northern Colorado, [email protected] Jayati Chaudhuri University of Northern Colorado, [email protected] Wendy Highby University of Northern Colorado, [email protected] Follow this and additional works at: https://digitalcommons.du.edu/collaborativelibrarianship Part of the Information Literacy Commons Recommended Citation Rathe, Bette; Chaudhuri, Jayati; and Highby, Wendy (2010) "Open Access Advocacy: Think Globally, Act Locally," Collaborative Librarianship: Vol. 2 : Iss. 3 , Article 7. Available at: https://digitalcommons.du.edu/collaborativelibrarianship/vol2/iss3/7 This From the Field is brought to you for free and open access by Digital Commons @ DU. It has been accepted for inclusion in Collaborative Librarianship by an authorized editor of Digital Commons @ DU. For more information, please contact [email protected],[email protected]. Rathe, Chaudhuri & Highby: Open Access Advocacy Open Access Advocacy: Think Globally, Act Locally Bette Rathe, University of Northern Colorado ([email protected]) Jayati Chaudhuri, University of Northern Colorado ([email protected]) Wendy Highby, University of Northern Colorado ([email protected]) Abstract While the open access movement is a global movement, University of Northern Colorado libra- rians acted locally and collaboratively to make changes to their scholarly communication system. Authors of this article describe how global advocacy affected their local, institutional open access activities that resulted in a library faculty open access resolution at University of Northern Colo- rado Libraries. This article is based on the “Advocating for Open Access on Your Campus” pres- entation at the Colorado Academic Library Consortium Summit on May 21, 2010. -
When Is Open Access Not Open Access?
Editorial When Is Open Access Not Open Access? Catriona J. MacCallum ince 2003, when PLoS Biology Box 1. The Bethesda Statement on Open-Access Publishing was launched, there has been This is taken from http:⁄⁄www.earlham.edu/~peters/fos/bethesda.htm. a spectacular growth in “open- S 1 access” journals. The Directory of An Open Access Publication is one that meets the following two conditions: Open Access Journals (http:⁄⁄www. 1. The author(s) and copyright holder(s) grant(s) to all users a free, irrevocable, doaj.org/), hosted by Lund University worldwide, perpetual right of access to, and a license to copy, use, distribute, transmit Libraries, lists 2,816 open-access and display the work publicly and to make and distribute derivative works, in any digital journals as this article goes to press medium for any responsible purpose, subject to proper attribution of authorship2, as (and probably more by the time you well as the right to make small numbers of printed copies for their personal use. read this). Authors also have various 2. A complete version of the work and all supplemental materials, including a copy of “open-access” options within existing the permission as stated above, in a suitable standard electronic format is deposited subscription journals offered by immediately upon initial publication in at least one online repository that is supported traditional publishers (e.g., Blackwell, by an academic institution, scholarly society, government agency, or other well- Springer, Oxford University Press, and established organization that seeks to enable open access, unrestricted distribution, many others). In return for a fee to interoperability, and long-term archiving (for the biomedical sciences, PubMed Central the publisher, an author’s individual is such a repository). -
Educating Ourselves and Our Patrons About Retracted Articles
Joanna Thielen 183 When Scholarly Publishing Goes Awry: Educating 18.1. Ourselves and Our Patrons portal about Retracted Articles Joanna Thielen publication, for abstract: Retracted articles, articles that violate professional ethics, are an unsettling, yet integral, part of the scholarly publishing process seldom discussed in the academy. Unfortunately, article retractions continue to rise across all disciplines. Although academic librarians consistently provide instruction on scholarly publishing, little has been writtenaccepted about their role in educating patrons about retracted article. This article provides an overview of the article retraction process. Search strategies for locating retracted articles in several scholarlyand databases are discussed. Suggestions on how to incorporate article retractions into information literacy instruction are provided, including connections to the Association of College and Research Libraries Framework for Information Literacy for Higher Education. edited, copy Introduction n the academy, there is a heightened awareness of the fallibility of scholarly research and publishing. This awareness is exemplified by the “reproducibility crisis”: re- searchersreviewed, have become increasingly cognizant that many published research stud- Iies cannot be successfully duplicated.1 For example, only a reported 10 to 25 percent of cancerpeer biology studies can be reproduced.2 (Being unable to reproduce published resultsis does not necessarily indicate that the authors committed malfeasance or that the article’s results are incorrect. Rather, it only indicates that another researcher was unable to replicate the published work.) The lack of reproducibility of scholarly research has led mss. to calls for more transparency in research and publication practices. While the scholarly publishing process, including peer review, is intended to set rigorous standards and This expectations for publications, it is not infallible. -
Amending Published Articles: Time to Rethink Retractions and Corrections?[Version 1; Peer Review: 2 Approved with Reservations]
F1000Research 2017, 6:1960 Last updated: 20 SEP 2021 OPINION ARTICLE Amending published articles: time to rethink retractions and corrections? [version 1; peer review: 2 approved with reservations] Virginia Barbour 1, Theodora Bloom 2, Jennifer Lin 3, Elizabeth Moylan 4 1QUT, Kelvin Grove, Brisbane, Queensland, 4059, Australia 2BMJ, BMA House, Tavistock Square, London, WC1H 9JR, UK 3Crossref, North American Office , 50 Salem Street, Lynnfield, MA 01940, USA 4BMC (part of Springer Nature), 236 Grays Inn Road, London, WC1X 8HB, UK v1 First published: 06 Nov 2017, 6:1960 Open Peer Review https://doi.org/10.12688/f1000research.13060.1 Latest published: 06 Nov 2017, 6:1960 https://doi.org/10.12688/f1000research.13060.1 Reviewer Status Invited Reviewers Abstract Academic publishing is evolving and our current system of correcting 1 2 research post-publication is failing, both ideologically and practically. It does not encourage researchers to engage in necessary post- version 1 publication changes in a consistent way. Worse yet, post-publication 06 Nov 2017 report report ‘updates’ can be misconstrued as punishments or admissions of misconduct. 1. Lex M. Bouter , VU University Medical We propose a different model that publishers of research can apply to Centre, Amsterdam, The Netherlands the content they publish, ensuring that any post-publication Vrije Universiteit, Amsterdam, The amendments are seamless, transparent and propagated to all the Netherlands countless places online where descriptions of research appear. At the center of our proposal is use of the neutral term “amendment” to 2. C.K. Gunsalus , University of Illinois at describe all forms of post-publication change to an article. -
Joe Mcarthur - @Mcarthur Joe Assistant Director, Right to Research Coalition Co-Founder and Co-Lead of the Open Access Button
Barriers and Impact Joe McArthur - @Mcarthur_Joe Assistant Director, Right to Research Coalition Co-founder and Co-Lead of the Open Access Button openaccessbutton.org @OA_Button These slides, videos and more: bit.ly/OI9OAB openaccessbutton.org @OA_Button openaccessbutton.org @OA_Button Launched in Summer 2009. Built around the Student Statement on the Right to Research: access to research is a student right International alliance of 77 graduate & undergraduate student organizations, representing nearly 7 million students We Educate + Advocate for Open Access openaccessbutton.org @OA_Button Todays talk Barriers and impact for: •the Open Access Button; •Open Access. openaccessbutton.org @OA_Button openaccessbutton.org @OA_Button openaccessbutton.org @OA_Button openaccessbutton.org @OA_Button How the Button Works openaccessbutton.org @OA_Button Desktop App Mobile App openaccessbutton.org @OA_Button openaccessbutton.org @OA_Button Mobile Login openaccessbutton.org @OA_Button Mobile Follow the instructions openaccessbutton.org @OA_Button Mobile Menu openaccessbutton.org @OA_Button Mobile Do some research .. browser openaccessbutton.org @OA_Button Mobile Hit paywall openaccessbutton.org @OA_Button Mobile FAQ bit openaccessbutton.org @OA_Button Web Hit paywall openaccessbutton.org @OA_Button The Firefox Web App openaccessbutton.org @OA_Button Web openaccessbutton.org @OA_Button Web Same image, circled button image openaccessbutton.org @OA_Button Web openaccessbutton.org @OA_Button Web Click wishlist. openaccessbutton.org @OA_Button Web Story -
Scientific Production in the PLOS Journals Sibele Fausto*, Rogério Mugnaini**
Beyond traditional metrics at the University of São Paulo: scientific production in the PLOS journals Sibele Fausto*, Rogério Mugnaini** *[email protected], **[email protected] Escola de Comunicações e Artes, University of São Paulo, Av. Prof. Lúcio M. Rodrigues, 443, São Paulo, SP, CEP 05608-020 (Brazil) INTRODUCTION In the evolution of the Open Access Movement, there have been pioneering initiatives to provide free and open access to published scientific content, such as the creation of the BioMed Central (BMC) and the Public Library of Science (PLOS) in early 2000. These set out a new funding model for journals where the liability for publishing costs is transferred from the readers to the authors. The PLOS was also innovative since it led to the creation of Article-Level Metrics - ALM (Fenner & Lin, 2013) and expanded by issuing a series of new titles - PLOS Biology in 2003; PLOS Medicine in 2004, PLOS Computational Biology, PLOS Genetics and PLOS Pathogens in 2005, PLOS ONE in 2006 and more recently PLOS Currents. As a result, today the set of PLOS journals is widely recognized and prestigious. Recently (on June 18, 2013), PLOS introduced a new search engine - PLOS-ALM Reports (http://almreports.plos.org/) (Allen, 2013) which allows more detailed investigations to be carried out in all the PLOS journals showing consolidated alternative measures of visibility and impact earned by published articles. Since the University of São Paulo is considered to be "Brazil's leading academic institution in research and graduate education" (Schwartzman, 2006), this study is an attempt to find evidence of the USP performance that goes beyond traditional metrics, by using the alternative indicators provided by PLOS-ALM and making a comparison with other articles in the PLOS journals that come from Brazil. -
Download Full White Paper
Open Access White Paper University of Oregon SENATE SUB-COMMITTEE ON OPEN ACCESS I. Executive Summary II. Introduction a. Definition and History of the Open Access Movement b. History of Open Access at the University of Oregon c. The Senate Subcommittee on Open Access at the University of Oregon III. Overview of Current Open Access Trends and Practices a. Open Access Formats b. Advantages and Challenges of the Open Access Approach IV. OA in the Process of Research & Dissemination of Scholarly Works at UO a. A Summary of Current Circumstances b. Moving Towards Transformative Agreements c. Open Access Publishing at UO V. Advancing Open Access at the University of Oregon and Beyond a. Barriers to Moving Forward with OA b. Suggestions for Local Action at UO 1 Executive Summary The state of global scholarly communications has evolved rapidly over the last two decades, as libraries, funders and some publishers have sought to hasten the spread of more open practices for the dissemination of results in scholarly research worldwide. These practices have become collectively known as Open Access (OA), defined as "the free, immediate, online availability of research articles combined with the rights to use these articles fully in the digital environment." The aim of this report — the Open Access White Paper by the Senate Subcommittee on Open Access at the University of Oregon — is to review the factors that have precipitated these recent changes and to explain their relevance for members of the University of Oregon community. Open Access History and Trends Recently, the OA movement has gained momentum as academic institutions around the globe have begun negotiating and signing creative, new agreements with for-profit commercial publishers, and as innovations to the business models for disseminating scholarly research have become more widely adopted. -
It Is NOT Junk a Blog About Genomes, DNA, Evolution, Open Science, Baseball and Other Important Things
it is NOT junk a blog about genomes, DNA, evolution, open science, baseball and other important things The Past, Present and Future of Scholarly Publishing By MIC H A EL EISEN | Published: MA RC H 2 8 , 2 0 1 3 Search To search, type and hit enter I gave a talk last night at the Commonwealth Club in San Francisco about science publishing and PLoS. There will be an audio link soon, but, for the first time in my life, Michael Eisen I actually gave the talk (largely) from prepared remarks, so I thought I’d post it here. I'm a biologist at UC An audio recording of the talk with Q&A is available here. Berkeley and an Investigator of the —— Howard Hughes Medical Institute. I work primarily On January 6, 2011, 24 year old hacker and activist Aaron Swartz was arrested by on flies, and my research encompases police at the Massachusetts Institute of Technology for downloading several million evolution, development, genetics, articles from an online archive of research journals called JSTOR. genomics, chemical ecology and behavior. I am a strong proponent of After Swartz committed suicide earlier this year in the face of legal troubles arising open science, and a co-founder of the from this incident, questions were raised about why MIT, whose access to JSTOR he Public Library of Science. And most exploited, chose to pursue charges, and what motivated the US Department of Justice importantly, I am a Red Sox fan. (More to demand jail time for his transgression. about me here). -
Regional Reinfection by Dengue: a Network Approach Using Data from Mexico
bioRxiv preprint doi: https://doi.org/10.1101/475137; this version posted November 23, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Regional reinfection by Dengue: a network approach using data from Mexico Mayra N´u~nez-L´opeza;∗, Luis Alarc´on-Ramosb, and Jorge X. Velasco-Hern´andezc aDepartamento de Matem´aticas Aplicadas, ITAM R´ıoHondo 1, CDMX 01080, M´exico bDepartamento de Matem´aticas Aplicadas y Sistemas, UAM-Cuajimalpa, Av.Vasco de Quiroga 4871, CDMX 05300, M´exico and cInstituto de Matem´aticas, UNAM-Juriquilla, Boulevard Juriquilla No. 3001, Quer´etaro, 76230, M´exico Most of the recent epidemic outbreaks in the world have a strong immigration component as a trigger rather than the dynamics implied by the basic reproduction number. In this work we present and discuss an approach to the problem of pathogen reinfections in a given area that associates people mobility and transmission of dengue, using a Markov-chain Susceptible-Infected-Susceptible (SIS) metapopulation model over a network. Our model postulates a parameter that we have named the effective inoculum size which represents a local measure of the population size of infected hosts that arrive at a given location as a function of population size, current incidence at neighboring locations and the connectivity of the patches. This parameter can be interpreted as an indicator of outbreak risk of any location. -
Open Access, Open Education and Open Data
IFMSA Policy Proposal OpenAccess, OpenEducation and OpenData Proposed by Team of Officials Presented to the IFMSA General Assembly August Meeting 2017 in Arusha, Tanzania Policy Commission • Eleanor Parkhill, Medsin-UK, [email protected] • Kim van Daalen, IFMSA-The-Netherlands, ifmsa-the- [email protected] • Alexander Lachapelle, Liaison Officer for Medical Education issues, IFMSA, [email protected] Policy Statement Introduction Scholarly material is essential for research and education. Committing to making high value scientific knowledge accessible to researchers, scientists, entrepreneurs, and policy makers worldwide is a major step towards better health outcomes for all. Yet, cost barriers or use restrictions often prevent health professionals worldwide - and scientists from all areas - from engaging or consulting the very materials that report scientific discovery. Over the past decade, Open Access, Open Education & Open data have become central to advancing the interests of researchers, scholars, students, businesses and the public. Yet, while consulting academic journals, students face limited access to published research output, data and papers because of very high fees. The high cost of academic journals restricts the use of knowledge. A vast amount of research is funded from public sources – yet taxpayers are locked out by the cost of access. IFMSA Position The International Federation of Medical Students’ Associations (IFMSA) firmly believes in the importance of openness across all published research outputs (including among others, all online research output, peer-review and non-peer-reviewed academic journal articles, conference papers, theses, book chapters, monographs). Thereby IFMSA believes in the ability of openness to improve the educational experience, democratize access to research and education, advance research and education, and improve the visibility and impact of scholarship.