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PubMed Central

December 28, 2022

PubMed Central (PMC) is a free digital repository that archives open access full-text scholarly articles that have been published in biomedical and life sciences journals. As one of the major research databases developed by the National Center for Biotechnology Information (NCBI), PubMed Central is more than a document repository. Submissions to PMC are indexed and formatted for enhanced metadata, medical ontology, and unique identifiers which enrich the XML structured data for each article.[1] Content within PMC can be linked to other NCBI databases and accessed via Entrez search and retrieval systems, further enhancing the public's ability to discover, read and build upon its biomedical knowledge.[2]

PubMed Central
ProducerUnited States National Library of Medicine (United States)
History2000 to present
Access
CostFree
Coverage
DisciplinesMedicine
Record depthIndex, abstract & full-text
Format coverageJournal articles
Links
Websitewww.ncbi.nlm.nih.gov/pmc/
Title list(s)www.ncbi.nlm.nih.gov/pmc/journals/

PubMed Central is distinct from PubMed.[3] PubMed Central is a free digital archive of full articles, accessible to anyone from anywhere via a web browser (with varying provisions for reuse). Conversely, although PubMed is a searchable database of biomedical citations and abstracts, the full-text article resides elsewhere (in print or online, free or behind a subscriber paywall).

As of December 2018, the PMC archive contained over 5.2 million articles,[4] with contributions coming from publishers or authors depositing their manuscripts into the repository per the NIH Public Access Policy. Earlier data shows that from January 2013 to January 2014 author-initiated deposits exceeded 103,000 papers during a 12-month period.[5] PMC identifies about 4,000 journals which participate in some capacity to deposit their published content into the PMC repository.[6] Some publishers delay the release of their articles on PubMed Central for a set time after publication, referred to as an "embargo period", ranging from a few months to a few years depending on the journal. (Embargoes of six to twelve months are the most common.) PubMed Central is a key example of "systematic external distribution by a third party",[7] which is still prohibited by the contributor agreements of many publishers.

Adoption

See also: NIH Public Access Policy

Launched in February 2000, the repository has grown rapidly as the NIH Public Access Policy is designed to make all research funded by the National Institutes of Health (NIH) freely accessible to anyone, and, in addition, many publishers are working cooperatively with the NIH to provide free access to their works. In late 2007, the Consolidated Appropriations Act of 2008 (H.R. 2764) was signed into law and included a provision requiring the NIH to modify its policies and require inclusion into PubMed Central complete electronic copies of their peer-reviewed research and findings from NIH-funded research. These articles are required to be included within 12 months of publication. This is the first time the US government has required an agency to provide open access to research and is an evolution from the 2005 policy, in which the NIH asked researchers to voluntarily add their research to PubMed Central.[8]

A UK version of the PubMed Central system, UK PubMed Central (UKPMC), has been developed by the Wellcome Trust and the British Library as part of a nine-strong group of UK research funders. This system went live in January 2007. On 1 November 2012, it became Europe PubMed Central. The Canadian member of the PubMed Central International network, PubMed Central Canada, was launched in October 2009.

The National Library of Medicine "NLM Journal Publishing Tag Set" journal article markup language is freely available.[9] The Association of Learned and Professional Society Publishers comments that "it is likely to become the standard for preparing scholarly content for both books and journals".[10] A related DTD is available for books.[11] The Library of Congress and the British Library have announced support for the NLM DTD.[12] It has also been popular with journal service providers.[13]

With the release of public access plans for many agencies beyond NIH, PMC is in the process of becoming the repository for a wider variety of articles.[14] This includes NASA content, with the interface branded as "PubSpace".[15][16]

Technology

Articles are sent to PubMed Central by publishers in XML or SGML, using a variety of article DTDs. Older and larger publishers may have their own established in-house DTDs, but many publishers use the NLM Journal Publishing DTD (see above).

Received articles are converted via XSLT to the very similar NLM Archiving and Interchange DTD. This process may reveal errors that are reported back to the publisher for correction. Graphics are also converted to standard formats and sizes. The original and converted forms are archived. The converted form is moved into a relational database, along with associated files for graphics, multimedia, or other associated data. Many publishers also provide PDF of their articles, and these are made available without change.[17]

Bibliographic citations are parsed and automatically linked to the relevant abstracts in PubMed, articles in PubMed Central, and resources on publishers' Web sites. PubMed links also lead to PubMed Central. Unresolvable references, such as to journals or particular articles not yet available at one of these sources, are tracked in the database and automatically come "live" when the resources become available.

An in-house indexing system provides search capability, and is aware of biological and medical terminology, such as generic vs. proprietary drug names, and alternate names for organisms, diseases and anatomical parts.

When a user accesses a journal issue, a table of contents is automatically generated by retrieving all articles, letters, editorials, etc. for that issue. When an actual item such as an article is reached, PubMed Central converts the NLM markup to HTML for delivery, and provides links to related data objects. This is feasible because the variety of incoming data has first been converted to standard DTDs and graphic formats.

In a separate submission stream, NIH-funded authors may deposit articles into PubMed Central using the NIH Manuscript Submission (NIHMS). Articles thus submitted typically go through XML markup in order to be converted to NLM DTD.

Reception

Reactions to PubMed Central among the scholarly publishing community range between a genuine enthusiasm by some,[18] to cautious concern by others.[19]

While PMC is a welcome partner to open access publishers in its ability to augment the discovery and dissemination of biomedical knowledge, that same truth causes others to worry about traffic being diverted from the published version of record, the economic consequences of less readership, as well as the effect on maintaining a community of scholars within learned societies.[20][21] A 2013 analysis found strong evidence that public repositories of published articles were responsible for "drawing significant numbers of readers away from journal websites" and that "the effect of PMC is growing over time".[22]

Libraries, universities, open access supporters, consumer health advocacy groups, and patient rights organizations have applauded PubMed Central, and hope to see similar public access repositories developed by other federal funding agencies so to freely share any research publications that were the result of taxpayer support.[23]

The Antelman study of open access publishing found that in philosophy, political science, electrical and electronic engineering and mathematics, open access papers had a greater research impact.[24] A randomised trial found an increase in content downloads of open access papers, with no citation advantage over subscription access one year after publication.[25]

The NIH policy and open access repository work has inspired a 2013 presidential directive which has sparked action in other federal agencies as well.

In March 2020, PubMed Central accelerated its deposit procedures for the full text of publications on coronavirus. The NLM did so upon request from the White House Office of Science and Technology Policy and international scientists to improve access for scientists, healthcare providers, data mining innovators, AI healthcare researchers, and the general public.[26]

PMCID

The PMCID (PubMed Central identifier), also known as the PMC reference number, is a bibliographic identifier for the PubMed Central open access database, much like the PMID is the bibliographic identifier for the PubMed database. The two identifiers are distinct however. It consists of "PMC" followed by a string of seven numbers. The format is:[27]

  • PMCID: PMC1852221

Authors applying for NIH awards must include the PMCID in their application.

See also

References

  1. ^ Beck J (2010). "Report from the Field: PubMed Central, an XML-based Archive of Life Sciences Journal Articles". Proceedings of the International Symposium on XML for the Long Haul: Issues in the Long-term Preservation of XML. 6. doi:10.4242/BalisageVol6.Beck01. ISBN 978-1-935958-02-4.
  2. ^ Maloney C, Sequeira E, Kelly C, Orris R, Beck J (5 December 2013). PubMed Central. National Center for Biotechnology Information (US).
  3. ^ "MEDLINE, PubMed, and PMC (PubMed Central): How are they different?". www.nlm.nih.gov. 9 September 2019.
  4. ^ "Openness by Default", Inside Higher Ed, 16 January 2017.
  5. ^ "NIHMS Statistics". nihms.nih.gov.
  6. ^ "Home - PMC - NCBI". www.ncbi.nlm.nih.gov.
  7. ^ Ouerfelli N. "Author rights: what's it all about" (PDF).
  8. ^ . Science Codex. 2007. Archived from the original on 4 March 2016. Retrieved 6 November 2013.
  9. ^ "Journal Publishing Tag Set". National Center for Biotechnology Information. Retrieved 6 November 2013.
  10. ^ French D (4 August 2006). "ALPSP Technology Update: A Standard XML Document Format: The case for the adoption of NLM DTD". ALPSP. Retrieved 6 November 2013.
  11. ^ "NCBI Book Tag Set". dtd.nlm.nih.gov.
  12. ^ "News from the Library of Congress". Library of Congress. 19 April 2006. Retrieved 6 November 2013.
  13. ^ . 19 February 2013. Archived from the original on 2013-02-19.
  14. ^ . cendi.gov. Archived from the original on 2020-10-18. Retrieved 2016-08-19.
  15. ^ Kovo Y (22 July 2016). . nasa.gov. Archived from the original on 19 August 2016.
  16. ^ "NASA in PMC". preview.ncbi.nlm.nih.gov.
  17. ^ NLM Journal Archiving and Interchange Tag Suite, National Center for Biotechnical Information, National Library of Medicine
  18. ^ . Archived from the original on 2016-05-07. Retrieved 2014-02-07.
  19. ^ "ACS Submission to the Office of Science and Technology Policy Request for Information on Public Access to Peer-Reviewed Scholarly Publications Resulting from Federally Funded Research" (PDF). Office of Science and Technology Policy. Retrieved 2014-02-07 – via National Archives.
  20. ^ Davis PM (October 2012). "The effect of public deposit of scientific articles on readership". The Physiologist. 55 (5): 161, 163–5. PMID 23155924.
  21. ^ Davis PM (July 2013). "Public accessibility of biomedical articles from PubMed Central reduces journal readership--retrospective cohort analysis". FASEB Journal. 27 (7): 2536–41. doi:10.1096/fj.13-229922. PMC 3688741. PMID 23554455.
  22. ^ Davis PM (July 2013). "Public accessibility of biomedical articles from PubMed Central reduces journal readership--retrospective cohort analysis". FASEB Journal. 27 (7): 2536–41. doi:10.1096/fj.13-229922. PMC 3688741. PMID 23554455.
  23. ^ "Autism Speaks Announces New Policy to Give Families Easy, Free Access to Key Research Findings - Press Release - Autism Speaks". www.autismspeaks.org. 25 July 2012.
  24. ^ Antelman, Kristin (2004). "Do Open-Access Articles Have a Greater Research Impact?". College & Research Libraries. 65 (5): 372–382. doi:10.5860/crl.65.5.372., summarized by Stemper J, Williams K (2006). "Scholarly communication: Turning crisis into opportunity". College & Research Libraries News. 67 (11): 692–696. doi:10.5860/crln.67.11.7720.
  25. ^ Davis PM, Lewenstein BV, Simon DH, Booth JG, Connolly MJ (July 2008). "Open access publishing, article downloads, and citations: randomised controlled trial". BMJ. 337: a568. doi:10.1136/bmj.a568. PMC 2492576. PMID 18669565.
  26. ^ "The National Library of Medicine expands access to coronavirus literature through PubMed Central". National Institutes of Health (NIH). 2020-03-25. Retrieved 2020-03-31. To support this initiative, NLM is adapting its standard procedures for depositing articles into PMC to provide greater flexibility that will ensure coronavirus research is readily available.
  27. ^ "Include PMCID in Citations | publicaccess.nih.gov". publicaccess.nih.gov. Retrieved 2017-07-01.

External links

 
Wikidata has the property:
  •   PMCID (P932) (see uses)
  • Official website


[[Category:Open-ac cess archives]]

December 28, 2022
pubmed, central, free, digital, repository, that, archives, open, access, full, text, scholarly, articles, that, have, been, published, biomedical, life, sciences, journals, major, research, databases, developed, national, center, biotechnology, information, n. PubMed Central PMC is a free digital repository that archives open access full text scholarly articles that have been published in biomedical and life sciences journals As one of the major research databases developed by the National Center for Biotechnology Information NCBI PubMed Central is more than a document repository Submissions to PMC are indexed and formatted for enhanced metadata medical ontology and unique identifiers which enrich the XML structured data for each article 1 Content within PMC can be linked to other NCBI databases and accessed via Entrez search and retrieval systems further enhancing the public s ability to discover read and build upon its biomedical knowledge 2 PubMed CentralProducerUnited States National Library of Medicine United States History2000 to presentAccessCostFreeCoverageDisciplinesMedicineRecord depthIndex abstract amp full textFormat coverageJournal articlesLinksWebsitewww wbr ncbi wbr nlm wbr nih wbr gov wbr pmc wbr Title list s www wbr ncbi wbr nlm wbr nih wbr gov wbr pmc wbr journals wbr PubMed Central is distinct from PubMed 3 PubMed Central is a free digital archive of full articles accessible to anyone from anywhere via a web browser with varying provisions for reuse Conversely although PubMed is a searchable database of biomedical citations and abstracts the full text article resides elsewhere in print or online free or behind a subscriber paywall As of December 2018 update the PMC archive contained over 5 2 million articles 4 with contributions coming from publishers or authors depositing their manuscripts into the repository per the NIH Public Access Policy Earlier data shows that from January 2013 to January 2014 author initiated deposits exceeded 103 000 papers during a 12 month period 5 PMC identifies about 4 000 journals which participate in some capacity to deposit their published content into the PMC repository 6 Some publishers delay the release of their articles on PubMed Central for a set time after publication referred to as an embargo period ranging from a few months to a few years depending on the journal Embargoes of six to twelve months are the most common PubMed Central is a key example of systematic external distribution by a third party 7 which is still prohibited by the contributor agreements of many publishers Contents 1 Adoption 2 Technology 3 Reception 4 PMCID 5 See also 6 References 7 External linksAdoption EditSee also NIH Public Access Policy Launched in February 2000 the repository has grown rapidly as the NIH Public Access Policy is designed to make all research funded by the National Institutes of Health NIH freely accessible to anyone and in addition many publishers are working cooperatively with the NIH to provide free access to their works In late 2007 the Consolidated Appropriations Act of 2008 H R 2764 was signed into law and included a provision requiring the NIH to modify its policies and require inclusion into PubMed Central complete electronic copies of their peer reviewed research and findings from NIH funded research These articles are required to be included within 12 months of publication This is the first time the US government has required an agency to provide open access to research and is an evolution from the 2005 policy in which the NIH asked researchers to voluntarily add their research to PubMed Central 8 A UK version of the PubMed Central system UK PubMed Central UKPMC has been developed by the Wellcome Trust and the British Library as part of a nine strong group of UK research funders This system went live in January 2007 On 1 November 2012 it became Europe PubMed Central The Canadian member of the PubMed Central International network PubMed Central Canada was launched in October 2009 The National Library of Medicine NLM Journal Publishing Tag Set journal article markup language is freely available 9 The Association of Learned and Professional Society Publishers comments that it is likely to become the standard for preparing scholarly content for both books and journals 10 A related DTD is available for books 11 The Library of Congress and the British Library have announced support for the NLM DTD 12 It has also been popular with journal service providers 13 With the release of public access plans for many agencies beyond NIH PMC is in the process of becoming the repository for a wider variety of articles 14 This includes NASA content with the interface branded as PubSpace 15 16 Technology EditArticles are sent to PubMed Central by publishers in XML or SGML using a variety of article DTDs Older and larger publishers may have their own established in house DTDs but many publishers use the NLM Journal Publishing DTD see above Received articles are converted via XSLT to the very similar NLM Archiving and Interchange DTD This process may reveal errors that are reported back to the publisher for correction Graphics are also converted to standard formats and sizes The original and converted forms are archived The converted form is moved into a relational database along with associated files for graphics multimedia or other associated data Many publishers also provide PDF of their articles and these are made available without change 17 Bibliographic citations are parsed and automatically linked to the relevant abstracts in PubMed articles in PubMed Central and resources on publishers Web sites PubMed links also lead to PubMed Central Unresolvable references such as to journals or particular articles not yet available at one of these sources are tracked in the database and automatically come live when the resources become available An in house indexing system provides search capability and is aware of biological and medical terminology such as generic vs proprietary drug names and alternate names for organisms diseases and anatomical parts When a user accesses a journal issue a table of contents is automatically generated by retrieving all articles letters editorials etc for that issue When an actual item such as an article is reached PubMed Central converts the NLM markup to HTML for delivery and provides links to related data objects This is feasible because the variety of incoming data has first been converted to standard DTDs and graphic formats In a separate submission stream NIH funded authors may deposit articles into PubMed Central using the NIH Manuscript Submission NIHMS Articles thus submitted typically go through XML markup in order to be converted to NLM DTD Reception EditReactions to PubMed Central among the scholarly publishing community range between a genuine enthusiasm by some 18 to cautious concern by others 19 While PMC is a welcome partner to open access publishers in its ability to augment the discovery and dissemination of biomedical knowledge that same truth causes others to worry about traffic being diverted from the published version of record the economic consequences of less readership as well as the effect on maintaining a community of scholars within learned societies 20 21 A 2013 analysis found strong evidence that public repositories of published articles were responsible for drawing significant numbers of readers away from journal websites and that the effect of PMC is growing over time 22 Libraries universities open access supporters consumer health advocacy groups and patient rights organizations have applauded PubMed Central and hope to see similar public access repositories developed by other federal funding agencies so to freely share any research publications that were the result of taxpayer support 23 The Antelman study of open access publishing found that in philosophy political science electrical and electronic engineering and mathematics open access papers had a greater research impact 24 A randomised trial found an increase in content downloads of open access papers with no citation advantage over subscription access one year after publication 25 The NIH policy and open access repository work has inspired a 2013 presidential directive which has sparked action in other federal agencies as well In March 2020 PubMed Central accelerated its deposit procedures for the full text of publications on coronavirus The NLM did so upon request from the White House Office of Science and Technology Policy and international scientists to improve access for scientists healthcare providers data mining innovators AI healthcare researchers and the general public 26 PMCID EditThe PMCID PubMed Central identifier also known as the PMC reference number is a bibliographic identifier for the PubMed Central open access database much like the PMID is the bibliographic identifier for the PubMed database The two identifiers are distinct however It consists of PMC followed by a string of seven numbers The format is 27 PMCID PMC1852221Authors applying for NIH awards must include the PMCID in their application See also EditEurope PubMed Central JATS technology MEDLINE an international literature database of life sciences and biomedical information PMID PubMed Identifier PubMed Central Canada Redalyc similar project focused on Latin America SciELO similar service References Edit Beck J 2010 Report from the Field PubMed Central an XML based Archive of Life Sciences Journal Articles Proceedings of the International Symposium on XML for the Long Haul Issues in the Long term Preservation of XML 6 doi 10 4242 BalisageVol6 Beck01 ISBN 978 1 935958 02 4 Maloney C Sequeira E Kelly C Orris R Beck J 5 December 2013 PubMed Central National Center for Biotechnology Information US MEDLINE PubMed and PMC PubMed Central How are they different www nlm nih gov 9 September 2019 Openness by Default Inside Higher Ed 16 January 2017 NIHMS Statistics nihms nih gov Home PMC NCBI www ncbi nlm nih gov Ouerfelli N Author rights what s it all about PDF Public access to NIH research made law Science Codex 2007 Archived from the original on 4 March 2016 Retrieved 6 November 2013 Journal Publishing Tag Set National Center for Biotechnology Information Retrieved 6 November 2013 French D 4 August 2006 ALPSP Technology Update A Standard XML Document Format The case for the adoption of NLM DTD ALPSP Retrieved 6 November 2013 NCBI Book Tag Set dtd nlm nih gov News from the Library of Congress Library of Congress 19 April 2006 Retrieved 6 November 2013 Inera Inc NLM DTD Resources 19 February 2013 Archived from the original on 2013 02 19 Public Access Plans of U S Federal Agencies cendi gov Archived from the original on 2020 10 18 Retrieved 2016 08 19 Kovo Y 22 July 2016 Public Access to Results of NASA Funded Research nasa gov Archived from the original on 19 August 2016 NASA in PMC preview ncbi nlm nih gov NLM Journal Archiving and Interchange Tag Suite National Center for Biotechnical Information National Library of Medicine PLOS Applauds Congress for Action on Open Access Archived from the original on 2016 05 07 Retrieved 2014 02 07 ACS Submission to the Office of Science and Technology Policy Request for Information on Public Access to Peer Reviewed Scholarly Publications Resulting from Federally Funded Research PDF Office of Science and Technology Policy Retrieved 2014 02 07 via National Archives Davis PM October 2012 The effect of public deposit of scientific articles on readership The Physiologist 55 5 161 163 5 PMID 23155924 Davis PM July 2013 Public accessibility of biomedical articles from PubMed Central reduces journal readership retrospective cohort analysis FASEB Journal 27 7 2536 41 doi 10 1096 fj 13 229922 PMC 3688741 PMID 23554455 Davis PM July 2013 Public accessibility of biomedical articles from PubMed Central reduces journal readership retrospective cohort analysis FASEB Journal 27 7 2536 41 doi 10 1096 fj 13 229922 PMC 3688741 PMID 23554455 Autism Speaks Announces New Policy to Give Families Easy Free Access to Key Research Findings Press Release Autism Speaks www autismspeaks org 25 July 2012 Antelman Kristin 2004 Do Open Access Articles Have a Greater Research Impact College amp Research Libraries 65 5 372 382 doi 10 5860 crl 65 5 372 summarized by Stemper J Williams K 2006 Scholarly communication Turning crisis into opportunity College amp Research Libraries News 67 11 692 696 doi 10 5860 crln 67 11 7720 Davis PM Lewenstein BV Simon DH Booth JG Connolly MJ July 2008 Open access publishing article downloads and citations randomised controlled trial BMJ 337 a568 doi 10 1136 bmj a568 PMC 2492576 PMID 18669565 The National Library of Medicine expands access to coronavirus literature through PubMed Central National Institutes of Health NIH 2020 03 25 Retrieved 2020 03 31 To support this initiative NLM is adapting its standard procedures for depositing articles into PMC to provide greater flexibility that will ensure coronavirus research is readily available Include PMCID in Citations publicaccess nih gov publicaccess nih gov Retrieved 2017 07 01 External links Edit Wikidata has the property PMCID P932 see uses Official website Category Open ac cess archives Retrieved from https en wikipedia org w index php title PubMed Central amp oldid 1110876977 PMCID, wikipedia, wiki, book, books, library,

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