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Preprints & Scholarly Infrastructure


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Crossref's newest member of the content family is preprints. At Crossref, preprints have custom support to make sure that, links to these publications persist over time, they are connected to the full history of the shared research results and the citation record is clear and up-to-date. But that's not the whole story, and we have three guest speakers lined up to share their thoughts and expertise on the role of preprints in research; Martyn Rittman from Preprints, operated by MDPI, Richard Sever from bioRxiv and Jessica Polka from ASAPbio.

Published in: Technology
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Preprints & Scholarly Infrastructure

  1. 1. Preprints & scholarly infrastructure Webinar, 30 Jan 2017 Rachael Lammey Member & Community Outreach @CrossrefOrg
  2. 2. Today’s agenda! • Introduction • Jessica Polka, ASAPbio • Martyn Rittman, Preprints, operated by MDPI • Richard Sever, bioRxiv • Q&A
  3. 3. Preprints in! • Crossref membership • Content registration with custom metadata • Notification of links between preprints and publications • ORCiD Auto-update • Identification of funders
  4. 4. Preprints out! • As with all supported content types, we make the metadata available for machine and human access, across multiple interfaces (e.g. REST API, OAI-PMH, Crossref Metadata Search). • API: • • preprints201608.0191.v1/transform/application/ vnd.crossref.unixsd+xml
  5. 5. A preprint is a manuscript posted online before journal-organized peer review
  6. 6. Preprints & journals are compa<ble Berg et al Science 2016
  7. 7. arXiv: 100,000 manuscripts per year Preprint servers have existed for 25 years In Biology
  8. 8. 0 100 200 300 400 500 600 700 800 900 1000 Jan-03 Jul-03 Jan-04 Jul-04 Jan-05 Jul-05 Jan-06 Jul-06 Jan-07 Jul-07 Jan-08 Jul-08 Jan-09 Jul-09 Jan-10 Jul-10 Jan-11 Jul-11 Jan-12 Jul-12 Jan-13 Jul-13 Jan-14 Jul-14 Jan-15 Jul-15 Jan-16 Jul-16 figshare (filtered by PrePubMed) (arLcles/reviews in bio/life/med) Nature Precedings (manuscripts, from search results) The Winnower Version 1 | Preprints are taking off in biology
  9. 9. •  Immediately openly accessible •  Public disclosure of recent, “invisible” work for PhD thesis, fellowship, jobs •  Get more feedback on your work •  Control when work is made public (Lmestamp, DOI) •  Advance the pace of science Major benefits of preprints
  10. 10. Pos<ng preprints is a good experience 392 responses. Results at
  11. 11. Funders including preprints in grants Jan 10, 2017 Jan 3, 2017 Dec 12, 2016 Sept 29,2016 NIH RFI Dec 2016 Long-term postdoc fellowships 2016
  12. 12. “In the interests of acceleraLng scienLfic discovery, the Biohub will establish a publicaLon policy for open and rapid disseminaLon of research results: all InvesLgators will be required to post manuscripts on Arxiv on the date of submission to peer-reviewed journals.” hcps:// Twicer: #ASAPbio @jessicapolka 14
  13. 13. Twicer: #ASAPbio @jessicapolka 15 A project of the NIH common fund
  14. 14. Journals innova<ng with preprints October 4, 2016 Twicer: #ASAPbio @jessicapolka 16
  15. 15. Twicer: #ASAPbio @jessicapolka 17 Linking preprints to journals “Now, to document and help readers trace the complete publication record, authors are invited to voluntarily provide a footnote for their BJ article referencing their preprint in bioRxiv or arXiv, including the DOI number and the date the initial manuscript was deposited.”
  16. 16. AcceleraLng Science and PublicaLon in biology •  Convening stakeholders! •  Sharing information: FAQ & tracking policies! •  Raising awareness! •  Proposing additional preprint infrastructure! Twicer: #ASAPbio
  17. 17. Martyn Rittman, Ph.D.
  18. 18. Background is run by MDPI, an open access publisher We want to support rapid dissemination of knowledge Preprints is run on a not-for-profit basis 20
  19. 19. What is a preprint? A preprint is any article that hasn’t yet been peer-reviewed and published in an academic journal. In most cases, you can think of it as a draft or working paper. A preprint can be updated and improved at any time. 21 “ ”
  20. 20. •  Over 900 Preprints online •  12 subject categories •  95 advisory board members 22
  21. 21. •  DOI assigned for every preprint. •  Sign up for update alerts. •  Comment on and rate every article. •  Bookmark with CiteULike, BibSonomy, Mendeley, etc. •  See related articles. •  Altmetrics. 23
  22. 22. 24
  23. 23. How does it work? •  Submission by authors via or MDPI submission system. •  Internal check by Preprints editors. •  Refer borderline cases to the advisory board. •  Articles online within 24 hours. 25
  24. 24. How does it work? •  Basic criteria that we check: •  Title, abstract, keywords present •  Document structure •  Author affiliations and background •  Recent citations •  Controversial topics/junk papers •  Use of human/animal/plant subjects 26
  25. 25. Working with Crossref •  Straightforward implementation: same process as for journals. •  Easy to cite and link to published versions. •  Grace period for removal of preprints before DOI registration. •  New DOI for each preprint version. 27
  26. 26. Outlook •  Can preprints become standard in more disciplines? •  Get review/peer support into the publication process at an earlier stage. •  Speed up the reporting of research. •  Support grant/job applications, especially for ECRs. 28
  27. 27. 29 @preprints_org @
  28. 28. Richard Sever, PhD Assistant Director, Cold Spring Harbor Laboratory Press Twitter: @cshperspectives
  29. 29. Research at Cold Spring Harbor Lab •  600 scientific staff •  50 research groups •  Molecular biology and genetics •  Cancer •  Neuroscience •  Plant biology •  Genomics and bioinformatics •  Quantitative biology •  Ranked #1 worldwide in molecular biology & genetics
  30. 30. Science communication at Cold Spring Harbor Conferences •  Meetings •  The Banbury Center •  Cold Spring Harbor Asia, Suzhou, China Teaching •  Watson School of Biological Sciences •  Residential lab and lecture courses •  DNA Learning Center Books & Journals •  Cold Spring Harbor Laboratory Press
  31. 31. 2013: CSHL launched the preprint server for biology •  Non-profit service of CSHL •  Submission + access free •  Biological/medical sciences •  Complements arXiv
  32. 32. Preprint (n): an unpublished manuscript yet to be certified by peer review
  33. 33. Benefits •  Rapid transmission of results •  Pre-publication feedback/discussion •  Visibility, especially for early-career scientists •  Immediate availability to grant/hiring committees
  34. 34. Accelerating communication bioRxiv Data courtesy of Stephen Royle Received-published Received-accepted Accepted-published
  35. 35. bioRxiv features •  Posted manuscript date-stamped + given a DOI (citable) •  Indexed in Google Scholar & next-generation literature-discovery tools •  Choice of article type (New, Confirmatory, or Contradictory Results) •  Revised version can be posted at any time •  Choice of license (CC BY, CC BY-NC, CC BY-ND, CC BY-NC-ND, all rights reserved) •  Article metrics •  Commenting •  Links to published versions
  36. 36. Progress •  ~8000 submissions (~90% approved) •  ~30% revised (many more than once) •  ~30,000 authors •  >60% of papers subsequently published •  >400 journals have published papers preprinted on bioRxiv
  37. 37. Progress •  Behavior change: more biologists posting/reading preprints •  Policy change: more journals allowing preprint posting •  Rule change: funding bodies allow citing of preprints in grants
  38. 38. Posts
  39. 39. bioRxiv by subject
  40. 40. arXiv by subject
  41. 41. Impact •  Citations •  Comments •  Blogs •  Email •  Social media ? (11%) (>>100K)
  42. 42. Formal publication Journal integration Submission Peer review Yur journal here B2JJ2B Preprint posted BioPhysical J Development eLife EMBO J EMBO Mol Med EMBO reports G3 Genetics Genome Res J Cell Biol J Gen Physiol Mol Biol Cell Mol Sys Biol Plant J PLOS PNAS & >40 more Editorial prospecting
  43. 43. Conference integration
  44. 44. Community integration
  45. 45. bioRxiv - an essential hub Journals Meetings Blogs Confirmatory results Contradictory results Discussion Reproducibility Certification Discovery Crossref GoogleMeta
  46. 46. Questions? Thank you!