Potential Predatory and Legitimate Biomedical Journals: Can You Tell the Difference? a Cross-Sectional Comparison
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Stephen P. Lock on "Journalology"
INSTITUTE FOn SCIENTl FICl NF0F4MAT10N8 3501 MARKET ST PHILADELPHIA PA 19104 Stephen P. Lock on “Journalology” Number 3 January 15, 1990 I don’t remember exactly how long I have Lock: Editor and Scholar known Stephen P. Lock. Our first encounter was probably at a meeting of the Council of Biology Editors (CBE) some 20 years Stephen P. Lock was born in 1929 and re- ago. It is somewhat unsettling to realize that ceived his education at Queen’s College, so much time has gone by. Equally disquiet- Cambridge University, UK, and the Medical ing is the notion that Steve will soon retire College of St. Bartholomew’s Hospital. as editor of the venerable British Medical Trained as a hematologist, he served on the Journal (BMJ). But in the near future Steve staffs of various London teaching hospitals, will indeed step down, having helped train including St. Bartholomew’s and the Hos- his successor, due to be appointed in the fall pital for Sick Children, before being ap- of 1990. pointed assistant editor of BMJ in 1964. It seems odd to refer to Lock as an elder After serving as senior assistant editor and statesman of biomedical editing-however deputy editor, Lock became editor in 1975. accurate that description might be. The word I am amused that Steve opened his talk that comes to mind when I think of Steve with the traditional, mythical reminder about is youth. This youthfidness is reflected in the estimates of the number of extant jour- his writing and in his approach to problems. nals. -
A Catalogue of Reporting Guidelines for Health Research REVIEW
DOI: 10.1111/j.1365-2362.2009.02234.x REVIEW A catalogue of reporting guidelines for health research I. Simera*, D. Moher†, J. Hoey‡, K. F. Schulz§ and D. G. Altman* *University of Oxford, Oxford, UK, †Ottawa Health Research Institute, Ottawa, ON, Canada, ‡University of Toronto, Toronto, ON, Canada, §UNC School of Medicine, Chapel Hill, NC, USA ABSTRACT Growing evidence demonstrates widespread deficiencies in the reporting of health research studies. The EQUATOR Network is an international initiative that aims to enhance the reliability and value of the published health research literature. EQUATOR provides resources, education and training to facilitate good research reporting and assists in the development, dissemination and implementation of robust reporting guidelines. This paper presents a collection of tools and guidelines available on the EQUATOR website (http://www.equator- network.org) that have been developed to increase the accuracy and transparency of health research reporting. Keywords EQUATOR Network, reporting guidelines, research reporting. Eur J Clin Invest 2010; 40 (1): 35–53 Many scientific articles are written merely to get something reporting of harms [7]; presenting data and graphs in confusing published, neglecting the clinician who would like the medical and misleading ways [8]; and omissions from or misinterpreta- literature to guide their practice [1]. tion of results in abstracts [9]. These deficiencies seriously distort scientific reality [10] and Introduction prevent clinicians from applying effective interventions in patients’ care [5]. Boxes 1 and 2 show just two of the numerous The main purpose of investing money into health research is to examples of problems identified in the research literature. -
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. -
Bioinformatics
Bioinformatics Bioinformatics is the combination of biology and information technology. The discipline encompasses any computational tools and methods used to manage, analyze and manipulate large sets of biological data. Essentially, bioinformatics has three components: The creation of databases allowing the storage and management of large biological data sets. The development of algorithms and statistics to determine relationships among members of large data sets. The use of these tools for the analysis and interpretation of various types of biological data, including DNA, RNA and protein sequences, protein structures, gene expression profiles, and biochemical pathways. The term bioinformatics first came into use in the 1990s and was originally synonymous with the management and analysis of DNA, RNA and protein sequence data. Computational tools for sequence analysis had been available since the 1960s, but this was a minority interest until advances in sequencing technology led to a rapid expansion in the number of stored sequences in databases such as GenBank. Now, the term has expanded to incorporate many other types of biological data, for example protein structures, gene expression profiles and protein interactions. Each of these areas requires its own set of databases, algorithms and statistical methods. Bioinformatics is largely, although not exclusively, a computer-based discipline. Computers are important in bioinformatics for two reasons: First, many bioinformatics problems require the same task to be repeated millions of times. For example, comparing a new sequence to every other sequence stored in a database or comparing a group of sequences systematically to determine evolutionary relationships. In such cases, the ability of computers to process information and test alternative solutions rapidly is indispensable. -
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. -
Assessing the Utility of an Institutional Publications Officer: a Pilot Assessment
Assessing the utility of an institutional publications officer: a pilot assessment Kelly D. Cobey1,2,3, James Galipeau1, Larissa Shamseer1,2 and David Moher1,2 1 Centre for Journalology, Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada 2 School of Epidemiology, Public Health, and Preventative Medicine, University of Ottawa, Ottawa, Canada 3 School of Natural Sciences, Department of Psychology, University of Stirling, Stirling, United Kingdom ABSTRACT Background. The scholarly publication landscape is changing rapidly. We investigated whether the introduction of an institutional publications officer might help facilitate better knowledge of publication topics and related resources, and effectively support researchers to publish. Methods. In September 2015, a purpose-built survey about researchers' knowledge and perceptions of publication practices was administered at five Ottawa area research institutions. Subsequently, we publicly announced a newly hired publications officer (KDC) who then began conducting outreach at two of the institutions. Specifically, the publications officer gave presentations, held one-to-one consultations, developed electronic newsletter content, and generated and maintained a webpage of resources. In March 2016, we re-surveyed our participants regarding their knowledge and perceptions of publishing. Mean scores to the perception questions, and the percent of correct responses to the knowledge questions, pre and post survey, were computed for each item. The difference between these means or calculated percentages was then examined across the survey measures. Results. 82 participants completed both surveys. Of this group, 29 indicated that they had exposure to the publications officer, while the remaining 53 indicated they did not. Interaction with the publications officer led to improvements in half of the knowledge items (7/14 variables). -
Core Competencies for Scientific Editors Of
Moher et al. BMC Medicine (2017) 15:167 DOI 10.1186/s12916-017-0927-0 CORRESPONDENCE Open Access Core competencies for scientific editors of biomedical journals: consensus statement David Moher1,2* , James Galipeau3, Sabina Alam4, Virginia Barbour5, Kidist Bartolomeos6, Patricia Baskin7,8, Sally Bell-Syer9,10, Kelly D. Cobey1,2,11, Leighton Chan12, Jocalyn Clark13, Jonathan Deeks14, Annette Flanagin15, Paul Garner16, Anne-Marie Glenny17, Trish Groves18, Kurinchi Gurusamy19, Farrokh Habibzadeh20,21,22, Stefanie Jewell-Thomas23, Diane Kelsall24, José Florencio Lapeña Jr22,25,26,27, Harriet MacLehose28, Ana Marusic29,30, Joanne E. McKenzie31, Jay Shah32,33,34, Larissa Shamseer1,2, Sharon Straus35, Peter Tugwell2,36,37, Elizabeth Wager38,39, Margaret Winker22 and Getu Zhaori40 Abstract Background: Scientific editors are responsible for deciding which articles to publish in their journals. However, we have not found documentation of their required knowledge, skills, and characteristics, or the existence of any formal core competencies for this role. Methods: We describe the development of a minimum set of core competencies for scientific editors of biomedical journals. Results: The 14 key core competencies are divided into three major areas, and each competency has a list of associated elements or descriptions of more specific knowledge, skills, and characteristics that contribute to its fulfillment. Conclusions: We believe that these core competencies are a baseline of the knowledge, skills, and characteristics needed to perform competently the duties of a scientific editor at a biomedical journal. Keywords: Core competencies, Scientific editor, Biomedical journal, Delphi, Expert consensus, Editor role Introduction and in guidance for members of editor organizations Scientific editors (editors are responsible for the content [3–8]. -
SUBMISSION from SPRINGER NATURE Making Plan S Successful
PLAN S IMPLEMENTATION GUIDANCE: SUBMISSION FROM SPRINGER NATURE Springer Nature welcomes the opportunity to provide feedback to the cOAlition S Implementation Guidance and contribute to the discussion on how the transition to Open Access (OA) can be accelerated. Our submission below focuses mainly on the second question posed in the consultation: Are there other mechanisms or requirements funders should consider to foster full and immediate Open Access of research outputs? Making Plan S successful: a commitment to open access Springer Nature is dedicated to accelerating the adoption of Open Access (OA) publishing and Open Research techniques. As the world’s largest OA publisher we are a committed partner for cOAlition S funders in achieving this goal which is also the primary focus of Plan S. Our recommendations below are therefore presented with the aim of achieving this goal. As a first mover, we know the (multiple) challenges that need to be overcome: funding flows that need to change, a lack of cooperation in funder policies, a lack of global coordination, the need for a cultural change in researcher assessment and metrics in research, academic disciplines that lack OA resources, geographic differences in levels of research output making global “Publish and Read” deals difficult and, critically, an author community that does not yet view publishing OA as a priority. While this uncertainty remains, we need the benefits of OA to be better described and promoted as well as support for the ways that enable us and other publishers to cope with the rapidly increasing demand. We therefore propose cOAlition S adopt the following six recommendations which we believe are necessary to deliver Plan S’s primary goal of accelerating the take-up of OA globally while minimising costs to funders and other stakeholders: 1. -
Authorship, Publication, and Peer Review Mark Hooper* , Virginia Barbour, Anne Walsh, Stephanie Bradbury and Jane Jacobs
Hooper et al. Research Integrity and Peer Review (2018) 3:2 Research Integrity and https://doi.org/10.1186/s41073-018-0046-2 Peer Review COMMENTARY Open Access Designing integrated research integrity training: authorship, publication, and peer review Mark Hooper* , Virginia Barbour, Anne Walsh, Stephanie Bradbury and Jane Jacobs Abstract This paper describes the experience of an academic institution, the Queensland University of Technology (QUT), developing training courses about research integrity practices in authorship, publication, and Journal Peer Review. The importance of providing research integrity training in these areas is now widely accepted; however, it remains an open question how best to conduct this training. For this reason, it is vital for institutions, journals, and peak bodies to share learnings. We describe how we have collaborated across our institution to develop training that supports QUT’s principles and which is in line with insights from contemporary research on best practices in learning design, universal design, and faculty involvement. We also discuss how we have refined these courses iteratively over time, and consider potential mechanisms for evaluating the effectiveness of the courses more formally. Background and allows institutions and researchers to demonstrate The idea that institutions ought to provide researchers their commitment to comprehensive research integrity with formal training in research integrity is now gener- training and to satisfy the requirements of certain fund- ally accepted. How best to conduct research integrity ing bodies. training, however, is a contested issue [1–5]. However, it is not clear that the “standalone” training One option is to provide research integrity training by method is sufficient to teach research integrity effectively way of “standalone” courses or units, covering a broad or to promote an institutional culture that truly values range of responsible research practices. -
Cancer Informatics (A)
Cancer Open Access: Full open access to this and thousands of other papers at Informatics http://www.la-press.com. Computational Advances in Cancer Informatics (A) §§Xiaoqian Jiang §§Bairong Shen Assistant Professor of Biomedical Informatics, University Professor of Systems Biology, Soochow University, of California San Diego, La Jolla, CA, USA. Suzhou, Jiangsu, China. §§Rui Chen §§Rong Xu Research Assistant Professor of Computer Science, Hong Assistant Professor, Division of Medical Informatics, Case Kong Baptist University, Kowloon Tong, China. Western Reserve University, Cleveland, OH, USA. §§Samuel Cheng §§Song Yi Associate Professor of Electrical and Computing Research Fellow of Genetics, Harvard Medical School, Engineering, University of Oklahoma, Norman, OK, USA. Boston, MA, USA. §§Xia Jiang Assistant Professor of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA, USA. Supplement Aims and Scope C a n c e r I n f o r m a t i c s r e p r e s e nt s a h y b r i d d i s c i p l i n e e n c o m p a s s i n g §§ Gene Set Enrichment Analysis the fields of oncology, computer science, bioinformatics, sta- §§ Hybrid Computing tistics, computational biology, genomics, proteomics, metabo- §§ Efficient Cloud Storage and Retrieval lomics, pharmacology, and quantitative epidemiology. The §§ Matching of Expression Patterns common bond or challenge that unifies the various disciplines §§ Multi-Modal Analysis is the need to bring order to the massive amounts of data gen- §§ Splice Variations and Chip Seq System Algorithms erated by researchers and clinicians attempting to find the §§ Rapid High-Throughput Analysis underlying causes and effective means of treating cancer. -
WHO/Plos Collection ‘‘No Health Without Research’’: a Call for Papers
Editorial WHO/PLoS Collection ‘‘No Health Without Research’’: A Call for Papers Tikki Pang1*, Robert F. Terry1, The PLoS Medicine Editors2* 1 World Health Organization, Department of Research Policy and Cooperation, Geneva, Switzerland, 2 PLoS Medicine It seems astonishing that in the 21st research systems [5]. We would then 7. Exercises to evaluate the impact of century decisions on health care can still aim to publish a WHO/PLoS Collection research investments; be made without a solid grounding in culminating in 2012 to coincide with the 8. Experiences with external foreign aid research evidence. This is true even in release of the WHR. Thus, we welcome for research. clinical research, whether for simple or examples of research and/or case studies complex interventions [1], where system- in the following areas. Ideally, studies or reports should not be atic reviews time and time again conclude merely descriptions of activities but should that the evidence base is inadequate [2]. It 1. Experience with setting and imple- include evaluation of the impact of initia- is even more true in the areas of health menting health research priorities; tives after their implementation. Special policy and health systems, where quality 2. Experience with building, strengthen- consideration will also be given to system- research is hampered further by a lack of ing, and retaining research capacity, at atic and well-performed multi-country shared definitions, a lack of consensus on both the individual and institutional comparative studies on the topics men- guiding principles, poor capacity (especial- levels; tioned above, including systematic reviews, ly in low-resource regions), and methodo- 3. -
Download Issue
SCIENCE DITOR E A Publication of the Council of Science Editors In this issue • Perspectives on Open Access • More 2012 Annual Meeting Reports • 2013 Annual Meeting Program and Short Course Previews JANUARY – MARCH 2013 • VOLUME 36 • NUMBER 1 VIEWPOINT SCIENCE 2 Perspectives on Open Access. PATRICIA K BASKIN EDITOR ARTICLES 3 Open Access Demystified: Flavors, Colors, and Practices in Today’s Scholarly Publishing Marketplace. MORNA CONWAY JANUARY – MARCH 2013 5 Open Acess: Scholarly Publishers Can Take the Lead. DAVID CROTTY VOLUME 36 • NUMBER 1 8 Embracing Open Access. JOYCE-RACHEL JOHN 9 PLOS and the Surge in Global Momentum for Open Access. KRISTEN RATAN Science Editor (ISSN 1535-5365) is published quar- terly by the Council of Science Editors Inc, 10200 11 An Open-Access Future: Challenges and Opportunities for the Humanities and Social W 44th Street, Suite 304, Wheat Ridge, CO Sciences. WILL SCHWEITZER and CHARLES B CHOE 80033, and serves as a forum for the exchange of 13 The American Physical Society’s Experiences in Open-Access Publishing. ideas among professionals concerned with publish- DANIEL T KULP ing in the sciences. We encourage contributions of articles on peer-review research, editorial processes, 14 Evolving Access: Genetics Society of America Journals GENETICS and G3: ethics, and other items of special interest to our Genes|Genomes|Genetics. TRACEY DEPELLEGRIN readers. For more details about submission, see our 16 One Society’s Perspective on Open-Access Publishing. HEATHER GOODELL Information for Contributors page at www.council- 17 PeerJ Heralds in a New Era of Innovation and Affordability in Academic Publishing. scienceeditors.org/i4a/pages/index.cfm?pageID=3369.