F1000 research specialist_presentation (personalised by Graham Steel)

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  • The key features will be explained in more detail in the rest of the presentation.
  • The key features will be explained in more detail in the rest of the presentation.
  • The first part of this talk describes how F1000Research handles peer review.
  • F1000Research is making it possible to get a paper online within days, by using post-publication peer review.
  • Referee reports on all papers are visible to anyone reading the article, and include the referee name. Author responses and any additional comments are visible as well.
  • Authors can update their paper in response to reviewer comments, and upload a new version. This paper has three versions: The first version went online in January 2013, and the most recent version went online in April.
  • A referee can give a paper one of three possible marks: Approved: on quick reading seems like properly done research. Approved with Reservations: similar to ‘major revisions’. Not Approved: if the science is unacceptably poor. These marks are linked to a version. When a new version is uploaded, reviewers can re-evaluate the new version. (If they don’t review the newly uploaded version, their previous score carries over. So the example on the right has ended up with a tick mark from two reviewers, but only one of the referees specifically changed their score for version 3.)
  • Requirements for indexing Indexed articles appear in PubMed and other databases. FAQ that may come up at this point: What happens if a paper does not pass peer review? A: it stays up. You can cite it, the authors can update it. The comments of the reviewers are visible. If an article receives two negative referee reports, it will disappear from search results on the site, but in this case, the authors can also submit revised versions.
  • Besides post-publication peer review, F1000Research takes other approaches to make publishing as transparent as possible. One of these is the requirement that all papers include all data.
  • [Note for Specialist: feel free to add your own personal reasons or anecdotes here!]
  • One of the problems of data not being included in research papers is that it makes it very difficult to reproduce others’ work. This study analyzed papers in Nature Genetics, and found that unavailability of data was to blame for unreplicable microarray experiments.
  • To prevent problems such as the one highlighted in the previous slide, F1000Research requires all data to be included with the paper. An exception will be made if sharing data would breach patient confidentiality, or other such restrictions.
  • Data are fully integrated into the articles. This article includes an analysis of more than 300 protein sequences.
  • ...and the results are all embedded in the text of the article. F1000Research works with FigShare to host and display such datasets.
  • Finally, F1000Research accepts a wide variety of article formats.
  • F1000 research specialist_presentation (personalised by Graham Steel)

    1. 1. INTRODUCTION TO F1000RESEARCH Graham Steel Open Science Enthusiast F1000 Specialist
    2. 2. OVERVIEW • What is F1000Research? • Transparent post-publication peer review • Data sharing and publication • Article types • General information • Other services from F1000
    3. 3. WHAT IS F1000RESEARCH?
    4. 4. WHAT IS F1000RESEARCH? F1000Research is an original open access journal for life scientists, offering immediate publication, transparent peer review (post-publication) and full data deposition and sharing. All scientifically sound articles are accepted, including single findings, case reports, protocols, replications, null/negative results and more traditional articles. F1000Research has a prestigious international Advisory Panel of more than 200 of the most eminent names in biology and medicine, and over 1,100 expert Editorial Board members.
    5. 5. KEY FEATURES OF F1000RESEARCH •Publication within a week •Post-publication peer review •Transparent peer review •All data included •Accepts non-traditional article types
    6. 6. WHAT OUR AUTHORS ARE SAYING
    7. 7. TRANSPARENT POST-PUBLICATION PEER REVIEW
    8. 8. THE PUBLICATION PROCESS Most journals publish papers after they pass peer review. The peer review process can take months – sometimes years. After rejection, start over again with another journal. This delays publication.
    9. 9. PUBLICATION DELAY IS A PROBLEM • Can be scooped during review process • No recent published work to show for funding applications • Lab members leave during revision process, and paper may never be published if the project is abandoned. • Slows down research progress • Frustrating...
    10. 10. THE PUBLICATION PROCESS •F1000Research articles are published online after an in-house pre-refereeing check, on average, within 6 working days. •Peer review and revisions are carried out publicly. •Articles with sufficient positive referee reports are indexed in PubMed.
    11. 11. REFEREE REPORTS ARE PUBLIC All referee names are visible. All referee names are visible. Referee reports and other comments are visible to anyone. Referee reports and other comments are visible to anyone.
    12. 12. VERSIONS Different versions of the article are tracked Different versions of the article are tracked
    13. 13. REFEREE SCORES • Approved • Approved with reservations • Not approved
    14. 14. INDEXED PAPERS Articles with sufficient positive evaluations are indexed in PubMed, Scopus, and Embase. or Minimal requirements for indexing
    15. 15. CITING F1000RESEARCH PAPERS • Citations to F1000Research papers point to a particular version. Example citation: Spence J, Titov N, Johnston L et al. (2013) Internet-delivered eye movement desensitization and reprocessing (iEMDR): an open trial [v2; ref status: indexed, http://f1000r.es/zr] F1000Research 2013, 2:79 (doi: 10.12688/f1000research.2-79.v2) • If a paper has been updated since it was cited, and readers land on an outdated version of an article, a pop-up message on the article page makes readers aware that there is a newer version:
    16. 16. DATA SHARING AND PUBLICATION
    17. 17. WHY SHARE YOUR DATA? • Reproduction/validation of research • Testing additional hypotheses • Teaching • Integration with other data sets • Increase efficiency, drive new knowledge discovery • Funder requirement • Academic credit
    18. 18. REPRODUCIBLE RESEARCH “[W]e evaluated the replication of data analyses in 18 articles on microarray-based gene expression profiling published in Nature Genetics in 2005–2006...We reproduced two analyses in principle and six partially or with some discrepancies; ten could not be reproduced. The main reason for failure to reproduce was data unavailability.” Ioannidis, J. P. A. et al. Repeatability of published microarray gene expression analyses. Nature Genetics 41, 149–55 (2009)
    19. 19. F1000RESEARCH REQUIRES ALL DATA TO BE INCLUDED “Reports of findings of new research are always accompanied by the complete dataset on which they are based, provided in a form enabling confirmation or reuse of the data by other researchers.” -from http://f1000research.com
    20. 20. FULL DATA INTEGRATION WITH RESEARCH PAPERS
    21. 21. FULL DATA INTEGRATION WITH RESEARCH PAPERS
    22. 22. ARTICLE TYPES
    23. 23. ARTICLE TYPES ACCEPTED BY F1000RESEARCH • Research Articles • Original findings in biology and medicine • Null/negative findings and replication/refutation findings are also encouraged. • Data Articles • A dataset (or set of datasets) together with the associated methods/protocol • Case Reports • Method Articles • Articles from a Poster • Short Research Articles • Correspondence • Commentaries / Opinion • Reviews / Systematic Reviews
    24. 24. GENERAL INFORMATION
    25. 25. ARTICLE PROCESSING CHARGES Article type Detailed article type APC Case Report Case report US $250 Short Article single-result articles / data articles / articles based on posters / correspondence / commentaries US $500 All other articles includes research articles / methods articles / protocols / opinions / reviews incl. systematic reviews US $1000 Regular Discounts • 50% discount on APCs for referees (within 12 months after refereeing) • 10% discount for subscribers (personal or via institute) to F1000Prime • HINARI/AGORA waivers for low-income countries
    26. 26. F1000RESEARCH BLOG http://blog.f1000research.com • News from the journal • Discussions about open access, open science, and peer review • Interviews
    27. 27. FOLLOW F1000RESEARCH @F1000Research https://www.facebook.com/F1000Research https://plus.google.com/b/115154573397695146614/115154573397695146614 http://www.linkedin.com/groups?gid=4267793
    28. 28. F1000 SPECIALISTS F1000 Specialists are official, local representatives for F1000 at their universities, hospitals and institutions. To find out more and to apply visit http://f1000.com/specialists
    29. 29. OTHER SERVICES FROM F1000
    30. 30. F1000POSTERS F1000Posters (http://f1000.com/posters) is a unique open access repository for posters and slide presentations in biology and medicine. This permanent, structured environment keeps researchers’ work visible long after a meeting has ended and maximizes the return on the time, effort and money invested in creating each presentation. •Free to access and free to deposit •Visibility for your research beyond scientific meetings •Enables peers to provide feedback on early work •Poster publication supported by many leading journals and publishers including Nature, PNAS, Elsevier, BMJ, Lancet, PLOS, BioMed Central, SAGE and others. See: http://f1000.com/posters/journalresponses
    31. 31. F1000PRIME F1000Prime (http://f1000.com/prime) is an in-depth directory of top articles in biology and medicine, as recommended by a Faculty of over 5,000 expert scientists and clinical researchers, assisted by 5,000 associates. • Covers over 40 disciplines and more than 3,500 journals. • Articles are rated and expert commentaries explain their importance. • Over 140,000 recommendations (as of June 2013) • On average, 1,500 new recommendations are contributed by the Faculty each month. • Subscription service (via institute or personal subscription)
    32. 32. F1000TRIALS F1000Trials (http://f1000.com/f1000trials/) identifies all the clinical trials and systematic reviews published in over 200 general medical and specialist journals. Faculty Members evaluate all trials within days of publication, rating and recommending studies of particular significance. •Complete listing of randomized controlled trials, early phase studies, systematic reviews and meta-analyses •Faculty Members review and provide commentary on trial articles •Most important studies assigned an F1000Prime star rating •Threaded publication trail links all studies about a particular trial using its unique trial identifier •Launching 2013
    33. 33. QUESTIONS? Graham Steel http://f1000.com/specialists steelgraham7 [at] gmail dot com Twitter @McDawg

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