<!DOCTYPE article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Archiving and Interchange DTD v1.1 20151215//EN" "JATS-archivearticle1.dtd"> <article xmlns:ali="http://www.niso.org/schemas/ali/1.0/" xmlns:xlink="http://www.w3.org/1999/xlink" article-type="research-article" dtd-version="1.1"><front><journal-meta><journal-id journal-id-type="nlm-ta">elife</journal-id><journal-id journal-id-type="publisher-id">eLife</journal-id><journal-title-group><journal-title>eLife</journal-title></journal-title-group><issn pub-type="epub" publication-format="electronic">2050-084X</issn><publisher><publisher-name>eLife Sciences Publications, Ltd</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="publisher-id">57067</article-id><article-id pub-id-type="doi">10.7554/eLife.57067</article-id><article-categories><subj-group subj-group-type="display-channel"><subject>Feature Article</subject></subj-group><subj-group subj-group-type="sub-display-channel"><subject>Meta-Research</subject></subj-group></article-categories><title-group><article-title>Evaluating the impact of open access policies on research institutions</article-title></title-group><contrib-group><contrib contrib-type="author" corresp="yes" id="author-179737"><name><surname>Huang</surname><given-names>Chun-Kai (Karl)</given-names></name><contrib-id authenticated="true" contrib-id-type="orcid">https://orcid.org/0000-0002-9656-5932</contrib-id><email>karl.huang@curtin.edu.au</email><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con1"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Chun-Kai (Karl) Huang</bold> is in the Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, Curtin University, Perth, Australia</p></bio></contrib><contrib contrib-type="author" id="author-139006"><name><surname>Neylon</surname><given-names>Cameron</given-names></name><contrib-id authenticated="true" contrib-id-type="orcid">https://orcid.org/0000-0002-0068-716X</contrib-id><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="aff" rid="aff2">2</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con2"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Cameron Neylon</bold> is in the Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, and Curtin Institute for Computation, Curtin University, Perth, Australia</p></bio></contrib><contrib contrib-type="author" id="author-181589"><name><surname>Hosking</surname><given-names>Richard</given-names></name><xref ref-type="aff" rid="aff2">2</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con3"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Richard Hosking</bold> is in the Curtin Institute for Computation, Curtin University, Perth, Australia</p></bio></contrib><contrib contrib-type="author" id="author-181590"><name><surname>Montgomery</surname><given-names>Lucy</given-names></name><contrib-id authenticated="true" contrib-id-type="orcid">https://orcid.org/0000-0001-6551-8140</contrib-id><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="aff" rid="aff2">2</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con4"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Lucy Montgomery</bold> is in the Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, and Curtin Institute for Computation, Curtin University, Perth, Australia</p></bio></contrib><contrib contrib-type="author" id="author-181591"><name><surname>Wilson</surname><given-names>Katie S</given-names></name><contrib-id authenticated="true" contrib-id-type="orcid">https://orcid.org/0000-0001-8705-1027</contrib-id><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con5"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Katie S Wilson</bold> is in the Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, Curtin University, Perth, Australia</p></bio></contrib><contrib contrib-type="author" id="author-181592"><name><surname>Ozaygen</surname><given-names>Alkim</given-names></name><contrib-id authenticated="true" contrib-id-type="orcid">https://orcid.org/0000-0001-6813-8362</contrib-id><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con6"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Alkim Ozaygen</bold> is in the Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, Curtin University, Perth, Australia</p></bio></contrib><contrib contrib-type="author" id="author-181593"><name><surname>Brookes-Kenworthy</surname><given-names>Chloe</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="other" rid="fund1"/><xref ref-type="fn" rid="con7"/><xref ref-type="fn" rid="conf1"/><bio><p><bold>Chloe Brookes-Kenworthy</bold> is in the Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, Curtin University, Perth, Australia</p></bio></contrib><aff id="aff1"><label>1</label><institution>Centre for Culture and Technology, School of Media, Creative Arts and Social Inquiry, Curtin University</institution><addr-line><named-content content-type="city">Perth</named-content></addr-line><country>Australia</country></aff><aff id="aff2"><label>2</label><institution>Curtin Institute for Computation, Curtin University</institution><addr-line><named-content content-type="city">Perth</named-content></addr-line><country>Australia</country></aff></contrib-group><contrib-group content-type="section"><contrib contrib-type="editor"><name><surname>Deathridge</surname><given-names>Julia</given-names></name><role>Reviewing Editor</role><aff><institution>eLife</institution><country>United Kingdom</country></aff></contrib><contrib contrib-type="senior_editor"><name><surname>Rodgers</surname><given-names>Peter</given-names></name><role>Senior Editor</role><aff><institution>eLife</institution><country>United Kingdom</country></aff></contrib></contrib-group><pub-date date-type="publication" publication-format="electronic"><day>14</day><month>09</month><year>2020</year></pub-date><pub-date pub-type="collection"><year>2020</year></pub-date><volume>9</volume><elocation-id>e57067</elocation-id><history><date date-type="received" iso-8601-date="2020-03-20"><day>20</day><month>03</month><year>2020</year></date><date date-type="accepted" iso-8601-date="2020-09-11"><day>11</day><month>09</month><year>2020</year></date></history><permissions><copyright-statement>© 2020, Huang et al</copyright-statement><copyright-year>2020</copyright-year><copyright-holder>Huang et al</copyright-holder><ali:free_to_read/><license xlink:href="http://creativecommons.org/licenses/by/4.0/"><ali:license_ref>http://creativecommons.org/licenses/by/4.0/</ali:license_ref><license-p>This article is distributed under the terms of the <ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License</ext-link>, which permits unrestricted use and redistribution provided that the original author and source are credited.</license-p></license></permissions><self-uri content-type="pdf" xlink:href="elife-57067-v2.pdf"/><abstract><p>The proportion of research outputs published in open access journals or made available on other freely-accessible platforms has increased over the past two decades, driven largely by funder mandates, institutional policies, grass-roots advocacy, and changing attitudes in the research community. However, the relative effectiveness of these different interventions has remained largely unexplored. Here we present a robust, transparent and updateable method for analysing how these interventions affect the open access performance of individual institutes. We studied 1,207 institutions from across the world, and found that, in 2017, the top-performing universities published around 80–90% of their research open access. The analysis also showed that publisher-mediated (gold) open access was popular in Latin American and African universities, whereas the growth of open access in Europe and North America has mostly been driven by repositories.</p></abstract><kwd-group kwd-group-type="author-keywords"><kwd>open access</kwd><kwd>meta-research</kwd><kwd>research policy</kwd><kwd>universities</kwd><kwd>scholarly publishing</kwd><kwd>repositories</kwd></kwd-group><kwd-group kwd-group-type="research-organism"><title>Research organism</title><kwd>None</kwd></kwd-group><funding-group><award-group id="fund1"><funding-source><institution-wrap><institution-id institution-id-type="FundRef">http://dx.doi.org/10.13039/501100001797</institution-id><institution>Curtin University of Technology</institution></institution-wrap></funding-source><principal-award-recipient><name><surname>Huang</surname><given-names>Chun-Kai</given-names></name><name><surname>Neylon</surname><given-names>Cameron</given-names></name><name><surname>Hosking</surname><given-names>Richard</given-names></name><name><surname>Montgomery</surname><given-names>Lucy</given-names></name><name><surname>Wilson</surname><given-names>Katie S</given-names></name><name><surname>Ozaygen</surname><given-names>Alkim</given-names></name><name><surname>Brookes-Kenworthy</surname><given-names>Chloe</given-names></name></principal-award-recipient></award-group><funding-statement>The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.</funding-statement></funding-group><custom-meta-group><custom-meta specific-use="meta-only"><meta-name>Author impact statement</meta-name><meta-value>A longitudinal study of open access levels at 1,207 research institutions worldwide reveals high performing institutions in Latin America, Africa and Asia.</meta-value></custom-meta><custom-meta specific-use="meta-only"><meta-name>Template</meta-name><meta-value>5</meta-value></custom-meta></custom-meta-group></article-meta></front><body><sec id="s1" sec-type="intro"><title>Introduction</title><p>While there is substantial disagreement on the best route to achieve open access, the idea that research outputs should be freely available is broadly shared. Over the past decade, there has been a large increase in the volume of publications available open access (<xref ref-type="bibr" rid="bib19">Piwowar et al., 2018</xref>), and this looks set to continue: indeed, a recent projection estimates that by 2025, 44% of all journal articles will be available as open access (OA) and that 70% of article views will be to OA articles (<xref ref-type="bibr" rid="bib20">Piwowar et al., 2019</xref>).</p><p>This massive increase has largely been driven by policy initiatives. Medical research funders in the UK, such as the Wellcome Trust and Medical Research Council, and the National Institutes of Health in the US have led a wide range of funder policy interventions. Universities such as Harvard University, University of Liège, University of Southampton and others developed local polices and infrastructures that became more widely adopted. In 2018, a <ext-link ext-link-type="uri" xlink:href="https://www.coalition-s.org/">coalition of funders</ext-link> set out an initiative called Plan S that requires all scholarly publications funded by public grants to be made immediately open access. This is the most ambitious, and therefore the most controversial, policy initiative to date with questions raised about the approach (<xref ref-type="bibr" rid="bib21">Rabesandratana, 2019</xref>; <xref ref-type="bibr" rid="bib7">Haug, 2019</xref>; <xref ref-type="bibr" rid="bib3">Barbour and Nicholls, 2019</xref>), implementation details (<xref ref-type="bibr" rid="bib15">McNutt, 2019</xref>; <xref ref-type="bibr" rid="bib6">Gómez-Fernández, 2019</xref>; <xref ref-type="bibr" rid="bib4">Brainard, 2019</xref>; <xref ref-type="bibr" rid="bib2">Agustini and Berk, 2019</xref>), and unintended side effects for existing programs outside North America and North-western Europe (<xref ref-type="bibr" rid="bib5">Debat and Babini, 2019</xref>; <xref ref-type="bibr" rid="bib1">Aguado-López and Becerril-García, 2019</xref>).</p><p>A recent report showed a link between the monitoring of policy and its effectiveness, demonstrating that research outputs supported by funders that implemented monitoring and compliance checks for their policies were more likely to be published open access (<xref ref-type="bibr" rid="bib13">Larivière and Sugimoto, 2018</xref>). By comparison, open access for works funded by Canadian funders, which did not monitor compliance, were shown to lag substantially even when disciplinary effects were taken into account.</p><p>There is a need for critical and inclusive evaluation of open access performance that can address regional and political differences. For example, the <ext-link ext-link-type="uri" xlink:href="https://en.wikipedia.org/wiki/SciELO">SciELO</ext-link> project has successfully implemented an electronic publishing model for journals resulting in a surge of publisher-mediated open access (<xref ref-type="bibr" rid="bib18">Packer, 2009</xref>; <xref ref-type="bibr" rid="bib27">Wang et al., 2018</xref>). Recent work showed that, for biomedical research, there was a greater level of open access for articles published from countries with a lower GDP, particularly for those in sub-Saharan Africa (<xref ref-type="bibr" rid="bib12">Iyandemye and Thomas, 2019</xref>). This provides evidence of national or regional effects on publication cultures that lead to open access. Meanwhile, another study showed that, for the field of Global Health, lower-ranked institutions are more likely to publish in closed outlets (<xref ref-type="bibr" rid="bib24">Siler et al., 2018</xref>). They suggest this is due to the cost of article processing charges showing the importance of considering institutional context when examining open access performance.</p><p>Despite the scale and success (at least in some areas) of policy interventions, there is limited comparative and quantitative research about which policy interventions have been the most successful. In part this is due to a historical lack of high-quality data on open access, the heterogeneous nature of the global scholarly publishing endeavour, and the consequent lack of any baseline against which to make comparisons.</p><sec id="s1-1"><title>Aim of Study</title><p>We have argued (<xref ref-type="bibr" rid="bib17">Montgomery et al., 2018</xref>) that the key to understanding and guiding the cultural changes that underpin a transition to openness is analysis at the level of research institutions. While funders, national governments, and research communities create the environments in which researchers operate, it is within their professional spaces that choices around communication, and their links to career progression and job security are strongest. Analysis of how external policy leads to change at the level of universities is critical. However, providing accurate and reliable data on open access at the university level is a challenge.</p><p>The most comprehensive work on open access at the university level currently available is that included in the CWTS Leiden Ranking (<xref ref-type="bibr" rid="bib22">Robinson-Garcia et al., 2019</xref>; <xref ref-type="bibr" rid="bib23">Robinson-Garcia et al., 2020</xref>). This utilises an internal Web of Science database and data from <ext-link ext-link-type="uri" xlink:href="https://unpaywall.org/">Unpaywall</ext-link> to provide estimates of open access over a range of timeframes. These data have highlighted the broad effects of funder policies (notably the performance of UK universities in response to national policies) while also providing standout examples from regions that are less expected (for instance Bilkent University in Turkey).</p><p>A concern in any university evaluation is the existing disciplinary bias in large bibliographic sources used to support rankings. For example, the coverages of Web of Science and Scopus were shown to be biased toward the sciences and the English language (<xref ref-type="bibr" rid="bib16">Mongeon and Paul-Hus, 2016</xref>). If we are to make valid comparisons of universities across countries, regions and funders to examine the effectiveness of open access policy implementation there is a critical need for evaluation frameworks that provide fair, inclusive and relevant measurement of open access performance.</p><p>Alongside coverage of data sources are issues of scope (which institutions, what set of objects), metrics (numbers or proportions) and data completeness. Our pragmatic assessment is that any evaluation framework should be tied to explicit policy goals and be shaped to deliver that. Following from our work on open knowledge institutions (<xref ref-type="bibr" rid="bib17">Montgomery et al., 2018</xref>) our goals in conducting an evaluation exercise and developing the framework are as follows: (i) Maximise the amount of research content that is accessible to the widest range of users, focusing on existing formal research content for which metadata quality is sufficiently high to enable analysis; (ii) Develop an evaluation framework that drives an elevation of open access and open science issues to a strategic issue for all research-intensive universities; (iii) Develop a framework that is sensitive to and can support universities taking a range of approaches and routes towards delivering on these goals.</p><p>In terms of a pragmatic approach to delivering these goals we intend to:</p><list list-type="order"><list-item><p>Focus on research-intensive institutions, using existing rankings as a sample set.</p></list-item><list-item><p>Seek to maximise the set of objects which we can collect and track while connecting them to institutions (i.e., increase recall but not at the expense of precision).</p></list-item><list-item><p>Focus on proportions of open access as a performance indicator rather than absolute numbers.</p></list-item><list-item><p>Publicly report on the details of performance for high performing institutions (and provide strategic data on request to others).</p></list-item><list-item><p>Report on the diversity of paths being taken to deliver overall access by a diverse group of universities.</p></list-item><list-item><p>Develop methodology that is capable of identifying which policy interventions have made a difference to outcome measures and any ‘signature’ of those effects.</p></list-item></list><p>With the above in mind, this study proposes a set of requirements for evaluating open access performance at the institutional level, and presents a large-scale analysis of universities by drawing and integrating data from multiple data sources. This work differs from the CWTS Leiden Rankings by extending the coverage of research outputs beyond the Web of Science. The data workflow we have developed is also transparent, reproducible, and updateable, which makes robust and longitudinal analysis more easily attainable. We emphasise that a simple numerical ranking of universities cannot be justified given there is minimal significant difference across them. Instead, we highlight how the resulting comprehensive overview of the open access landscape and the underlying trends over time can provide deep insights on effects of policy interventions.</p></sec></sec><sec id="s2" sec-type="methods"><title>Methods</title><p>To map the rate and degree of progress to open access, we developed a reproducible workflow capable of quantifying a wide range of open access characteristics at the institutional level. The overall workflow is summarised diagrammatically in <xref ref-type="fig" rid="fig1">Figure 1</xref>. This includes mapping open access definitions and the Unpaywall information we used to construct them. Briefly, we gather output metadata from searches in <ext-link ext-link-type="uri" xlink:href="https://www.microsoft.com/en-us/research/project/academic/">Microsoft Academic</ext-link> (<xref ref-type="bibr" rid="bib25">Sinha et al., 2015</xref>; <xref ref-type="bibr" rid="bib28">Wang et al., 2019</xref>), Web of Science and Scopus, for each university. From this full set we gather the corresponding Crossref DOIs from the metadata of each output focusing on this set. Unpaywall is consulted to determine open access status. Detailed discussions of the data sources, precise data snapshots used, and technical details of the data infrastructure can be found in <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>. The code used in the workflow is available via Zenodo at the following <ext-link ext-link-type="uri" xlink:href="https://doi.org/10.5281/zenodo.3693221">link</ext-link>.</p><fig id="fig1" position="float"><label>Figure 1.</label><caption><title>Analysis workflow.</title><p>Diagrammatic summary of how data is collected and mapped against open access definitions using information from Unpaywall metadata.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig1.jpg"/></fig><p>We have decided to focus mainly on total open access, publisher-mediated open access (i.e., gold), and repository-mediated open access (i.e., green) due to the ease of comprehension, data quality, and ability to show potential effects of selected policies (<xref ref-type="table" rid="table1">Table 1</xref>). Levels of hybrid open access and green in home repository for selected universities (ones for which we have more confidence in the data) are also included to further support the analysis of policy effects.</p><table-wrap id="table1" position="float"><label>Table 1.</label><caption><title>Definitions of open access.</title><p>Summary of different types of open access (OA) used in scholarly publishing. These definitions are not always mutually exclusive. For example, an article can be both Gold OA and Green OA. However, articles that are Green Only do not have any common element with articles classified as Gold OA by definition. This study focuses on the following categories: Total OA, Gold, Hybrid, Green and Green in Home Repo. Further discussions on open access definitions can be found in <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>.</p></caption><table frame="hsides" rules="groups"><thead><tr><th valign="top">OA type</th><th valign="top">Description</th></tr></thead><tbody><tr><td valign="top">Total OA</td><td valign="top">A research output that is free to read online, either via the publisher website or in an OA repository.</td></tr><tr><td valign="top">Gold</td><td valign="top">A research output that is either published in a journal listed by the Directory of Open Access Journals (DOAJ), or (if journal not in DOAJ) is free to read via publisher with any license.</td></tr><tr><td valign="top">Hybrid</td><td valign="top">A research output that is published in a journal not listed by DOAJ, but is free to read from publisher with any license.</td></tr><tr><td valign="top">Bronze</td><td valign="top">A research output that is free to read online via publisher without a license.</td></tr><tr><td valign="top">Green</td><td valign="top">A research output that is free to read online via an OA repository.</td></tr><tr><td valign="top">Green Only</td><td valign="top">A research output that is free to read online via an OA repository, but is not available for free via the publisher.</td></tr><tr><td valign="top">Green in Home Repo</td><td valign="top">A research output that is free to read online via the matched affiliation’s institutional repository.</td></tr></tbody></table></table-wrap><p>As we have noted previously (<xref ref-type="bibr" rid="bib8">Huang et al., 2020a</xref>), there is a sensitivity associated to the choices in bibliographic data sources when they are used to create a ranking. For this analysis we therefore chose to combine all three datasets: Microsoft Academic, Web of Science and Scopus. In the companion white paper (<xref ref-type="bibr" rid="bib9">Huang et al., 2020b</xref>) we provide a comprehensive sensitivity analysis on the use of these different datasets, the use of different versions of Unpaywall, and the relations between confidence levels and sample size.</p><p>Briefly, it is our view that to provide a robust assessment of open access performance the following set of essential requirements must be met:</p><list list-type="order"><list-item><p>The set of outputs included in each category and a traceable description of how they were collected must be transparently described. Provided here by a description of the data sources and the procedures used to collect DOIs for each institution (<xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>). In this article, institutions define the categories of outputs but they could also be categorised by individuals, disciplines, or countries etc.</p></list-item><list-item><p>A clearly defined, open and auditable data source on open access status. Provided here by a defined and identified Unpaywall snapshot (<xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>).</p></list-item><list-item><p>A clearly defined and implementable description of how open access status data is interpreted in the form of the SQL query used to establish open access status categories for each DOI (<xref ref-type="fig" rid="fig1">Figure 1</xref> and <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>). We decided to include the checkmark 'is_oa = TRUE’ in the description of Bronze open access as this makes a slight difference to the numbers obtained from Unpaywall.</p></list-item><list-item><p>Provision of derived data and analysis in auditable form. Provided here the derived data as open data (<xref ref-type="bibr" rid="bib10">Huang et al., 2020c</xref>), code for the analysis of derived data as Jupyter notebooks (<xref ref-type="bibr" rid="bib11">Huang et al., 2020d</xref>), and upstream data analysis in the form of SQL queries used (<xref ref-type="bibr" rid="bib10">Huang et al., 2020c</xref>).</p></list-item></list><p>We have limited our data sharing in two ways. Firstly, we do not provide the full list of DOIs obtained from each source, due to Terms of Service restrictions. Secondly, we have not identified institutions individually except for those that fall within the top 100 globally for total open access, publisher-mediated open access, or repository-mediated open access. Both derived datasets of the de-anonymised top 100 and the full dataset containing all institutions in anonymised form are made available (<xref ref-type="bibr" rid="bib10">Huang et al., 2020c</xref>).</p></sec><sec id="s3" sec-type="results"><title>Results</title><sec id="s3-1"><title>Global universities in terms of total open access, gold open access and green open access</title><p>In <xref ref-type="fig" rid="fig2">Figure 2</xref>, we present the open access performance of universities in different regions for the categories of total open access, publisher-mediated open access (‘gold’) and repository-mediated open access (‘green’) for publications assigned to the year 2017 (see <xref ref-type="fig" rid="fig2s1">Figure 2—figure supplement 1</xref> for equivalent plots for 2016 and 2018). We have chosen to focus on 2017 as this is the most recent year for which we have the most confidence on the completeness of data, taking into consideration the data collection process and issues surrounding embargoes. However, we do observe consistent general patterns across results for all three years. The top 100 institutions in each of the open access categories (for 2017) are also provided in <xref ref-type="fig" rid="fig2s2">Figure 2—figure supplement 2</xref>. This is, to our knowledge, the first set of university rankings that provides a confidence interval on the quantitative variable being ranked and compensates for the multiple comparisons effect (see <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref> for details). Across this top 100, the statistical difference between universities at the 95% confidence shows that a simple numerical ranking cannot be justified.</p><fig-group><fig id="fig2" position="float"><label>Figure 2.</label><caption><title>Open access performance of different geographical regions.</title><p>Percentages of institutional Total OA, Gold OA and Green OA (left to right) grouped by regions for 2017. Parallel figures for 2016 and 2018 are provided in <xref ref-type="fig" rid="fig2s1">Figure 2—figure supplement 1</xref>.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig2.jpg"/></fig><fig id="fig2s1" position="float" specific-use="child-fig"><label>Figure 2—figure supplement 1.</label><caption><title>Open access performance of different regions in 2016 and 2018.</title><p>Percentages of institutional Total OA, Gold OA and Green OA (left to right) grouped by regions for 2016 and 2018, respectively.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig2-figsupp1.jpg"/></fig><fig id="fig2s2" position="float" specific-use="child-fig"><label>Figure 2—figure supplement 2.</label><caption><title>Top 100 universities in terms of performance in total open access, publisher-mediated open access (gold OA) and repository-mediated open access (green OA) for 2017.</title><p>The black lines represent the OA% as calculated from the data. The colour bars are 95% confidence intervals calculated with Šidák correction to compensate for the multiple comparisons effect. The colours represent the regions as per <xref ref-type="fig" rid="fig2">Figure 2</xref>. Evidently, universities topping this list achieve around 80–90% OA.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig2-figsupp2.jpg"/></fig><fig id="fig2s3" position="float" specific-use="child-fig"><label>Figure 2—figure supplement 3.</label><caption><title>Percentage of institutional Total OA, Gold OA and Green OA (left to right) grouped by country for 2017.</title><p>The colours represent the regions as in <xref ref-type="fig" rid="fig2">Figure 2</xref>. The overlaid boxplots exclude outliers as determined using the standard interquartile methods (i.e. values more than 1.5 interquartile range away from the first or third quartile are deemed outliers). Countries are ordered by their median Total OA% (left panel). This figure includes small universities (those with significantly fewer research outputs) which are left out of the main article.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig2-figsupp3.jpg"/></fig></fig-group><p>The high performance of a number of Latin American and African universities, together with a number of Indonesian universities, particularly with respect to gold open access, is striking. For Latin America this is sensitive to our use of Microsoft Academic as a data source, showing the importance of an inclusive approach. The outcomes for Indonesian universities are also consistent with the latest report on country-level analysis (<xref ref-type="bibr" rid="bib26">Van Noorden, 2019</xref>). These suggest that the narrative of Europe and the USA driving a publishing-dominated approach to open access misses a substantial part of the full global picture.</p><p>The highest performers in terms of open access via repositories are dominated by UK universities. This is not surprising given the power of the open access mandate associated with the Research Excellence Framework to drive university behaviour. It is perhaps interesting that few US universities appear in this group (with CalTech and MIT the exceptions). This suggests that while the National Institutes of Health mandate has been very effective at driving open access to the biomedical literature, limited inroads have been made into other disciplines in the US context, despite the White House memorandum. As was seen in the Leiden Ranking, Bilkent University from Turkey also emerges as a standout performer.</p></sec><sec id="s3-2"><title>The global picture and its evolution</title><p>The levels of total open access, publisher-mediated open access and repository-mediated open access for 1,207 universities for publications in 2017 was also grouped by country (<xref ref-type="fig" rid="fig2s3">Figure 2—figure supplement 3</xref>). Amongst countries with a large number of universities in the dataset, the UK is a clear leader with Indonesia, Brazil, Columbia, the Netherlands, and Switzerland showing a strong performance.</p><p>To examine the global picture for the 1,207 universities in our dataset and to interrogate different paths to open access, we plot the overall level of repository-mediated (‘green’) and publisher-mediated (‘gold’) open access for each university over time coloured by region as previously (<xref ref-type="fig" rid="fig3">Figure 3</xref>).</p><fig-group><fig id="fig3" position="float"><label>Figure 3.</label><caption><title>Comparing the level of gold and repository-mediated open access of individual universities.</title><p>Publisher-mediated open access (gold OA) vs repository-mediated open access (green OA) by institution for 2017. Each point plotted is a university, with size indicating the number of outputs analysed and colour showing the region. Articles can be open access through both publisher and repository routes so x and y values do not sum to give total open access. Animated version with figures for each year between 2007 to 2018 can be seen in <xref ref-type="video" rid="fig3video1">Figure 3—animation 1</xref>.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig3.jpg"/></fig><media id="fig3video1" mime-subtype="gif" mimetype="video" xlink:href="elife-57067-fig1-v2.gif"><label>Figure 3—animation 1.</label><caption><title>Comparing the level of gold and repository-mediated open access of individual universities from 2007 to 2018.</title><p>Animated figure showing how the degree of publisher-mediated open access (gold OA) vs repository-mediated open access (green OA) changed from 2007 to 2018. Each point represents a university, with size indicating the number of outputs analysed and colour showing the region.</p></caption></media></fig-group><p>Overall universities in Oceania (Australia and New Zealand) and North America (Canada and the US) lag behind comparators in Europe (on repository-mediated open access) and Latin America (on publisher-mediated open access). Asian universities are highly diverse: there are some high performers in the top 100 institutions, particularly for publisher-mediated open access, but many also lag behind (<xref ref-type="fig" rid="fig2s2">Figure 2—figure supplement 2</xref>). Africa is also highly diverse but with a skew towards high performance, with an emphasis on publisher-mediated open access (i.e. gold open access). This may reflect our sampling which is skewed towards institutions with the largest (formally recorded) publishing volumes, many of which receive significant portions of their funding from international donors with strong open access requirements. Latin American institutions show high levels of publisher-mediated open access throughout the period illustrated. This is due to substantial infrastructure investments in systems like SciELO starting in the 1990s.</p></sec><sec id="s3-3"><title>Investigating the possible effects of policy interventions</title><p>If our goal is to provide data on the effectiveness of interventions then our analysis should be capable of identifying potential effects of policy change. In 2012, the UK Research Councils, following the Finch Report, provided additional funding to individual universities to support open access publishing. The amount of additional funding relates to existing research council funding. In <xref ref-type="fig" rid="fig4">Figure 4A</xref>, we show the annual change in publisher-mediated open access for three UK universities with the largest additional funding, and three with significantly less additional funding (<xref ref-type="bibr" rid="bib14">Lawson, 2018</xref>). In either 2012 or 2013, a slight increase in publisher-mediated open access across all the universities could be detected. As the additional funding tails off in 2015, the rate of growth falls back. Similarly, there was an increase in the proportion of hybrid open access publications, which largely require article processing charges, and an increase in proportion of hybrid open access within all publisher-mediated open access around the same period (<xref ref-type="fig" rid="fig4s1">Figure 4—figure supplement 1A and B</xref>).</p><fig-group><fig id="fig4" position="float"><label>Figure 4.</label><caption><title>Monitoring the effect of policy interventions for selected groups of universities.</title><p>(<bold>A</bold>) The annual change in percentage (rolling current year percentage minus the previous year percentage) of gold OA for six UK universities. The top three universities are those with the largest additional funding compared to the bottom three universities which received less additional funding. (<bold>B</bold>) The annual percentage of green OA through the home institutional repositories of four UK universities compared to high performing universities from elsewhere. (<bold>C</bold>) The annual percentages of hybrid OA at five universities in the Netherlands. (<bold>D</bold>) Three pairs of UK and US universities, selected based on having a similar size and level of green OA. The annual percentages of total green OA are depicted for each university. Additional figures are provided in <xref ref-type="fig" rid="fig4s1">Figure 4—figure supplement 1</xref>.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig4.jpg"/></fig><fig id="fig4s1" position="float" specific-use="child-fig"><label>Figure 4—figure supplement 1.</label><caption><title>Monitoring changes in the percentage of OA publications for selected groups of universities from the UK and the Netherlands.</title><p>(<bold>A</bold>) The annual percentages of Hybrid OA publications for six UK universities. The top three are those that received the largest additional funding to support open access publishing compared to the bottom three that received less additional funding. (<bold>B</bold>) For the same set of UK universities, this panel shows the proportion of Hybrid OA publications within Total Gold OA publications. (<bold>C</bold>) The annual percentages of Total Gold OA for five Dutch universities, showing steady increase in Total Gold OA. (<bold>D</bold>) The annual percentages of Hybrid OA for the same five Dutch universities, showing a sharp increase in Hybrid OA around 2014 and 2015.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig4-figsupp1.jpg"/></fig></fig-group><p><xref ref-type="fig" rid="fig4">Figure 4B</xref> shows the growth of content in UK university repositories from 2000 to 2017 compared to two universities from other regions. In 2015, to be included in the UK Research Excellence Framework, universities had to deposit their research outputs in a repository. This policy shift was profound because it relates to an assessment exercise and funding which covers all disciplinary areas, and all universities. The dominance of UK universities in the top 100 for both overall open access and repository-mediated open access, as well as the commitment to achieve 100% open access coverage being made by such a large number of universities, is potentially driven in large part by that intervention.</p><p>Next, we investigated how the take up of hybrid open access publishing options in the Netherlands were influenced by deals with Springer in 2015, and Wiley in 2016 (<xref ref-type="fig" rid="fig4">Figure 4C</xref>). These deals essentially allow authors from Dutch universities to publish their work open access in a list of hybrid journals at no cost. We found that across the Netherlands levels of publishing in hybrid open access journals show a sharp turn of increase from 2014 onwards with a less pronounced effect (more smooth increases) for publishing in pure (i.e., gold) open access (compare <xref ref-type="fig" rid="fig4s1">Figure 4—figure supplement 1C and D</xref>).</p><p>Finally, in <xref ref-type="fig" rid="fig4">Figure 4D</xref> we show the possible effect of subtle differences in policy relating to acceptable embargo periods. UK research and funding council polices have been aggressive in reducing embargo lengths, mandating six months for STEM subjects and twelve months for humanities and social science (HSS) subjects. The potential effect of embargoes can be seen in the data for repository-mediated open access as a dip in the most recent years of publication. Using Unpaywall data from late 2019, we see a dip in repository-mediated open access performance for UK universities in 2018 but a limited effect on 2017. By comparison with three of the highest performing US universities, comparable in size and overall ranking (see <xref ref-type="fig" rid="fig2s2">Figure 2—figure supplement 2</xref>) we see an extended dip in performance, indicative of an acceptance of longer embargoes.</p></sec><sec id="s3-4"><title>Different institutional paths towards open access</title><p>In <xref ref-type="fig" rid="fig3">Figures 3</xref> and <xref ref-type="fig" rid="fig4">4</xref> we see evidence of different paths towards open access, depending on the context and resources. The idea of mapping these paths is shown explicitly for a subset of universities in <xref ref-type="fig" rid="fig5">Figure 5</xref>. This shows the paths taken by a selection of Latin American institutions and two sets of UK universities over time. For the UK universities shown, three received substantial funding from the UK research councils for open access publishing, whereas the other three received less additional funding and followed an alternate route, emphasising repository-mediated open access.</p><fig-group><fig id="fig5" position="float"><label>Figure 5.</label><caption><title>Comparing different paths to open access (gold OA versus green OA) for a selected set of universities from 2007 to 2017.</title><p>This figure compares the different open access routes taken by three groups of universities: three UK universities (University College London, University of Cambridge and University of Glasgow) that received substantial funding for open access publishing (combined gold and green OA increases), three UK universities (Loughborough University, University of St Andrews and Plymouth University) that received less funding (more green OA focused), and three Latin American universities (more gold OA focused). The dots represent the % of total gold OA publications and % of total green OA publications for the specified universities for each year from 2007 to 2017, where the arrow indicates the direction of time.</p></caption><graphic mime-subtype="jpeg" mimetype="image" xlink:href="published_version_elife.xml.media/fig5.jpg"/></fig><media id="fig5video1" mime-subtype="gif" mimetype="video" xlink:href="elife-57067-fig2-v2.gif"><label>Figure 5—animation 1.</label><caption><title>An animation comparing different paths to open access (gold OA versus green OA) for a selected set of universities from 2007 to 2017.</title><p>This video presents the annual open access levels for each of a selected set of universities. It shows the different open access routes taken by three groups of universities: three UK universities (University College London, University of Cambridge and University of Glasgow) that received substantial funding for open access publishing (combined gold and green OA increases), three UK universities (Loughborough University, University of St Andrews and Plymouth University) that received less funding (more green OA focused), and three Latin American universities (more gold OA focused). The dots represent the % of total gold OA publications and % of total green OA publications for the specified universities for each year from 2007 to 2017, where the arrow indicates the direction of time.</p></caption></media></fig-group><p>In contrast, the Latin American institutions already have high levels of publisher-mediated open access at our earliest time point, as discussed earlier. However, our data suggests a fall in overall open access amongst Latin American universities from 2012 onwards, which we ascribe to an increased pressure to publish in ‘international’ journals that are often subscription based, and for which Latin American scholars are reluctant or unable to pay hybrid article processing charges.</p></sec></sec><sec id="s4" sec-type="discussion"><title>Discussion</title><p>Our results have significant implications for the details of policy interventions. Firstly, we have demonstrated the ability to detect signals of policy interventions in the behaviour of institutions. We see potential effects and results arising from the efforts of national funders and policy makers, particularly in the UK. The combined policy change and funding provided by the UK Research Councils in 2012 is associated with an increase in the level of publisher-mediated open access, and the level of increase appears to be associated with the level of funding provided. Similarly, the requirement for outputs to be deposited in a repository for eligibility for the 2021 Research Excellence Framework is associated with substantial increase in repository-mediated open access around 2015.</p><p>These findings may also have implications for deciding on the effectiveness of directly funding open access publishing. It is perhaps surprising to some readers that the overall levels of publisher-mediated open access in the UK are not higher. Specific funders, most notably the Wellcome Trust, have achieved very high levels of open access for articles from research they support through the provision of funding for open access publication. In addition, the UK Research Councils invested significant resources in supporting gold open access. However, these have not translated to high levels of publisher-mediated open access across the full diversity of outputs of UK institutions. The majority gains over the past five years have come from repository-mediated open access.</p><p>In the animated version of <xref ref-type="fig" rid="fig3">Figure 3</xref> (<xref ref-type="video" rid="fig3video1">Figure 3—animation 1</xref>), there is a clear signal of saturation with respect to publisher-mediated open access (gold open access) for European and North American universities. With few exceptions, institutions do not achieve levels of gold open access greater than 40% and this level is stable from 2014 to 2018. Similarly, in <xref ref-type="fig" rid="fig4">Figure 4</xref> we see evidence of shifts in response to stimuli (funding and policy interventions) which then stabilise. Even those UK universities with very high levels of repository-mediated open access (green) see a slowing down of the rise in levels a few years after the Research Excellence Framework policy intervention.</p><p>These signals suggest that achieving 100% open access may be very difficult, and possibly expensive to achieve. There will always be areas and cases where open access is challenging. Current challenges include disciplinary areas such as the humanities where suitable business models and venues are still developing, as well as types of content, particularly books, where there is greater overlap between scholarly and general publishing. Both of these could be addressed rapidly through direct funding, but this may not be the most efficient approach. Achieving ‘100% open access’ may therefore require a tighter definition of exactly which outputs are in scope. For those areas where we see signals of saturation much lower than 100% these are likely signals of the complexity of the system, and of large categories of outputs where open access is harder to achieve, or the motivation of institutions (including authors, libraries, and other support staff) to achieve it is lower.</p><p>In comparison to results presented by <xref ref-type="bibr" rid="bib22">Robinson-Garcia et al., 2019</xref>, <xref ref-type="bibr" rid="bib23">Robinson-Garcia et al., 2020</xref>, our analysis shows significantly improved performance of Latin American universities. This is driven by our inclusion of data sources beyond Web of Science, which has resulted in increased publisher-mediated open access for Latin America (<xref ref-type="bibr" rid="bib9">Huang et al., 2020b</xref>). Similarly, our results also depict more clear observations of some high performing African and Asian universities. These produce a slightly different view in contrast to the one where UK universities dominate the top-ranking positions for open access.</p><p>For Latin America, this result indicates how effective infrastructures such as SciELO can be at supporting the uptake of open access practices. In the case of Africa, there may be effects of funder requirements (with funders such as the Bill and Melinda Gates Foundation and Wellcome Trust that have strong open access requirements playing a significant role) as well as disciplinary spread. In both cases we are likely to have a limited view of the full diversity of research outputs due to their poor capture in information systems from the North Atlantic.</p><p>The continued leadership of Latin American institutions on publisher-mediated open access levels is the continuation of a trend set more than a decade ago through the provision of publishing infrastructures. Taken alongside the clear response in the Netherlands for hybrid open access in response to publish and read agreements, this suggests that increasing levels of open access publishing through article processing charges is potentially expensive compared to the costs of providing infrastructure.</p><p>Another interesting natural experiment is how the strength of funder actions is associated with overall change in levels of open access. In the Netherlands and the UK in particular, but also in the US, where funder policies have moved from encouragement, to mandates, to monitoring with sanctions for non-compliance, there are substantial shifts in overall levels of open access. By contrast, in countries where policy remains effectively at the level of a recommendation, such as Australia, levels of open access lag significantly. Recent increases in reporting requirements by Australian funders might therefore be expected to lead to a detectable signal over the next 12–24 months.</p><p>The value of analysis at the level of universities is that we gain a picture of open access performance across a diverse research ecosystem. We see differences across countries and regions, and differences between universities within countries. Overall, we see that there are multiple different paths towards improving access, and that different paths may be more or less appropriate in different contexts. Most importantly, while further research is needed to unpick the details of the differences in open access provision, we hope this work provides a framework that enables this longitudinal analysis to be taken forward and used wherever it is needed.</p></sec><sec id="s5"><title>Limitations and further work</title><p>Our analysis process includes automated approaches for collecting the outputs related to specific universities, and the analysis of those outputs. Currently the addition of new universities, and the updating of large data sources is partly manual (<xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>), but we also expect to automate this in the near future. As a result, our analysis has limitations in its capacity to provide comparable estimates of open access status across all universities, but does provide a reproducible and transparent view of overall global performance.</p><p>There are challenges to be addressed with respect to small universities and research organisations, and we have taken a necessarily subjective view of which institutions to include (see <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>). Our approach systematically leaves out universities with very small numbers of outputs (i.e., less than 100 outputs), and universities with very extreme open access proportions as these are the universities for which we have less statistical confidence in the results. This is also in-line with our intended focus on research-intensive universities. These small institutions are of significant interest but will require a different analysis approach. We include a country-level summary result for the full set of institutions (including small institutions left out from the main article) in our data set in <xref ref-type="fig" rid="fig2s3">Figure 2—figure supplement 3</xref>. We recognise that the inclusion of universities beyond our initial selection can also potentially change the results.</p><p>We have used multiple sources of bibliographic information with the goal of gaining a more inclusive view of research outputs. Despite this, there are still limitations in the coverage of these data sources, and a likely bias towards science, technology, engineering and maths (STEM) disciplines. In addition, the focus of Unpaywall on analysis of outputs with Crossref DOIs means that we are missing outputs for disciplines (humanities) and output types (books) where the use of DOIs is lower. While we have performed additional sensitivity analysis on the use of different data sources (<xref ref-type="bibr" rid="bib9">Huang et al., 2020b</xref>), further work is required to understand the relationships between disciplinary biases in data sources and the influence of external policies (such as those of the National Institutes of Health and the Wellcome Trust) on repositories. In addition, due to the nature of this work and to limitations on the use of Web of Science and Scopus APIs, we have collected data from these two sources over a period of time. Although we expect such changes to be small, those effects are not clearly represented in our data. For other data sources we are able to precisely define the data dump used for our analysis, supporting reproducibility as well as modified analyses. We also recognise that our longitudinal analysis is done post hoc from a fixed time point (i.e., looking back). Our results for a given year of publication will not be the same as the levels of open access that would have been observed <italic>in</italic> that year, due to embargoes and moving paywalls.</p><p>In this article, we have drawn comparisons between publisher-mediated open access and repository-mediated open access to identify different institutional paths to open access. The overall trends are retained if we separate out outputs that are only available through repositories (i.e., not free to access via publishers) and compare these to publisher-mediated open access instead. However, we recognise that at the individual university level, this can be dependent on institutional policy and whether the corresponding data can be properly captured by current systems that determines open access status.</p><p>There is significant opportunity for improving the data sources on sets of outputs and how they can be grouped (e.g. by people, discipline, organisation, country, etc.). Improvements to institutional identifier systems such as the Research Organisation Registry, increased completeness of metadata records, particularly that provided by publishers via Crossref on affiliation, ORCIDs and funders, and enhancing the coverage of open access status data (for instance by incorporating data from CORE and BASE), will all enhance coverage. There are also opportunities to expand the coverage by incorporating a wider range of bibliographic data sources.</p><p>We have sought to make our methodology and approach as reproducible and reusable as is practicable. The main challenges lie in the level of accessibility to the closed data sources (i.e., Web of Science and Scopus) and more generally with data sources that are not available in the form of identifiable snapshots (see <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>). In addition, semi-automated processing and manual searches are required to link institutional identifiers across multiple data sources (as discussed in detail in <xref ref-type="supplementary-material" rid="supp1">Supplementary file 1</xref>). For the rest of the framework, we have provided transparent descriptions and source code that allow reprocessing, as described in the next section. Further work is required to provide a complete and deployable framework for replication but we are making progress in this area (see <ext-link ext-link-type="uri" xlink:href="https://github.com/The-Academic-Observatory/observatory-platform">https://github.com/The-Academic-Observatory/observatory-platform</ext-link> for an example).</p></sec></body><back><ack id="ack"><title>Acknowledgements</title><p>This work was funded by the Research Office of Curtin University through a strategic grant, the Curtin University Faculty of Humanities, and the School of Media, Creative Arts and Social Inquiry. The authors would like to thank the editors and reviewers for their valuable feedback that have helped to improve this article.</p></ack><sec id="s6" sec-type="additional-information"><title>Additional information</title><fn-group content-type="competing-interest"><title>Competing interests</title><fn fn-type="COI-statement" id="conf1"><p>No competing interests declared</p></fn></fn-group><fn-group content-type="author-contribution"><title>Author contributions</title><fn fn-type="con" id="con1"><p>Conceptualization, Resources, Data curation, Software, Formal analysis, Validation, Investigation, Visualization, Methodology, Writing - original draft, Writing - review and editing</p></fn><fn fn-type="con" id="con2"><p>Conceptualization, Resources, Data curation, Software, Formal analysis, Funding acquisition, Validation, Investigation, Visualization, Methodology, Writing - original draft, Project administration, Writing - review and editing</p></fn><fn fn-type="con" id="con3"><p>Resources, Data curation, Software, Writing - review and editing</p></fn><fn fn-type="con" id="con4"><p>Conceptualization, Funding acquisition, Validation, Project administration, Writing - review and editing</p></fn><fn fn-type="con" id="con5"><p>Validation, Writing - review and editing</p></fn><fn fn-type="con" id="con6"><p>Validation, Writing - review and editing</p></fn><fn fn-type="con" id="con7"><p>Validation, Writing - review and editing</p></fn></fn-group></sec><sec id="s7" sec-type="supplementary-material"><title>Additional files</title><supplementary-material id="supp1"><label>Supplementary file 1.</label><caption><title>Further detail on the methodology and data sources used to evaluate the open access performance of individual institutions.</title></caption><media mime-subtype="docx" mimetype="application" xlink:href="elife-57067-supp1-v2.docx"/></supplementary-material><supplementary-material id="transrepform"><label>Transparent reporting form</label><media mime-subtype="docx" mimetype="application" xlink:href="elife-57067-transrepform-v2.docx"/></supplementary-material></sec><sec id="s8" sec-type="data-availability"><title>Data availability</title><p>Our technical infrastructure is constructed based on the aim to make openly available both the data and analysis code as much as possible. The derived datasets for analysis, visualisation codes, and the SQL queries used to generate the derived datasets are all made available online as described in Supplementary file 1. Raw data is not provided to preserve the anonymity of institutions and respect the terms of service of data providers.</p><p>The following datasets were generated:</p><p><element-citation id="dataset1" publication-type="data" specific-use="isSupplementedBy"><person-group person-group-type="author"><name><surname>Huang</surname><given-names>C-K</given-names></name><name><surname>Neylon</surname><given-names>C</given-names></name><name><surname>Hosking</surname><given-names>R</given-names></name><name><surname>Montgomery</surname><given-names>L</given-names></name><name><surname>Wilson</surname><given-names>K</given-names></name><name><surname>Ozaygen</surname><given-names>A</given-names></name><name><surname>Brookes-Kenworthy</surname><given-names>C</given-names></name></person-group><year iso-8601-date="2020">2020</year><data-title>Data and Intermediate Queries for: Evaluating institutional open access performance: Methodology, challenges and assessment</data-title><source>Zenodo</source><pub-id assigning-authority="Zenodo" pub-id-type="doi">10.5281/zenodo.3693221</pub-id></element-citation></p><p><element-citation id="dataset2" publication-type="data" specific-use="isSupplementedBy"><person-group person-group-type="author"><name><surname>Huang</surname><given-names>C-K</given-names></name><name><surname>Neylon</surname><given-names>C</given-names></name><name><surname>Hosking</surname><given-names>R</given-names></name><name><surname>Montgomery</surname><given-names>L</given-names></name><name><surname>Wilson</surname><given-names>K</given-names></name><name><surname>Ozaygen</surname><given-names>A</given-names></name><name><surname>Brookes-Kenworthy</surname><given-names>C</given-names></name></person-group><year iso-8601-date="2020">2020</year><data-title>Jupyter Notebooks for the article: Evaluating institutional open access performance: Methodology, challenges and assessment</data-title><source>Zenodo</source><pub-id assigning-authority="Zenodo" pub-id-type="doi">10.5281/zenodo.3716063</pub-id></element-citation></p></sec><ref-list><title>References</title><ref id="bib1"><element-citation publication-type="web"><person-group person-group-type="author"><name><surname>Aguado-López</surname> <given-names>E</given-names></name><name><surname>Becerril-García</surname> <given-names>A</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Latin America’s longstanding open access ecosystem could be undermined by proposals from the Global North [LSE Latin America and Caribbean]</article-title><ext-link ext-link-type="uri" xlink:href="https://blogs.lse.ac.uk/latamcaribbean/2019/11/06/latin-americas-longstanding-open-access-ecosystem-could-be-undermined-by-proposals-from-the-global-north/">https://blogs.lse.ac.uk/latamcaribbean/2019/11/06/latin-americas-longstanding-open-access-ecosystem-could-be-undermined-by-proposals-from-the-global-north/</ext-link><date-in-citation iso-8601-date="2019-11-06">November 6, 2019</date-in-citation></element-citation></ref><ref id="bib2"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Agustini</surname> <given-names>B</given-names></name><name><surname>Berk</surname> <given-names>M</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>The open access mandate: be careful what you wish for</article-title><source>Australian & New Zealand Journal of Psychiatry</source><volume>53</volume><fpage>1044</fpage><lpage>1046</lpage><pub-id pub-id-type="doi">10.1177/0004867419864436</pub-id><pub-id pub-id-type="pmid">31328528</pub-id></element-citation></ref><ref id="bib3"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Barbour</surname> <given-names>G</given-names></name><name><surname>Nicholls</surname> <given-names>S</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Open access: should one model ever fit all?</article-title><source>Australian Quarterly</source><volume>90</volume><fpage>3</fpage><lpage>9</lpage></element-citation></ref><ref id="bib4"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Brainard</surname> <given-names>J</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Scientific societies worry about threat from plan S</article-title><source>Science</source><volume>363</volume><fpage>332</fpage><lpage>333</lpage><pub-id pub-id-type="doi">10.1126/science.363.6425.332</pub-id></element-citation></ref><ref id="bib5"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Debat</surname> <given-names>H</given-names></name><name><surname>Babini</surname> <given-names>D</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Plan S in Latin America: a precautionary note</article-title><source>PeerJ</source><volume>7</volume><elocation-id>e27834</elocation-id><pub-id pub-id-type="doi">10.7287/peerj.preprints.27834v1</pub-id></element-citation></ref><ref id="bib6"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Gómez-Fernández</surname> <given-names>JC</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Plan S for publishing science in an open access way: not everyone is likely to be happy</article-title><source>Biophysical Reviews</source><volume>11</volume><fpage>841</fpage><lpage>842</lpage><pub-id pub-id-type="doi">10.1007/s12551-019-00604-4</pub-id></element-citation></ref><ref id="bib7"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Haug</surname> <given-names>CJ</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>No free lunch - What price Plan S for scientific publishing?</article-title><source>New England Journal of Medicine</source><volume>380</volume><fpage>1181</fpage><lpage>1185</lpage><pub-id pub-id-type="doi">10.1056/NEJMms1900864</pub-id><pub-id pub-id-type="pmid">30699055</pub-id></element-citation></ref><ref id="bib8"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Huang</surname> <given-names>CK</given-names></name><name><surname>Neylon</surname> <given-names>C</given-names></name><name><surname>Brookes-Kenworthy</surname> <given-names>C</given-names></name><name><surname>Hosking</surname> <given-names>R</given-names></name><name><surname>Montgomery</surname> <given-names>L</given-names></name><name><surname>Wilson</surname> <given-names>K</given-names></name><name><surname>Ozaygen</surname> <given-names>A</given-names></name></person-group><year iso-8601-date="2020">2020a</year><article-title>Comparison of bibliographic data sources: implications for the robustness of university rankings</article-title><source>Quantitative Science Studies</source><volume>13</volume><fpage>1</fpage><lpage>34</lpage><pub-id pub-id-type="doi">10.1162/qss_a_00031</pub-id></element-citation></ref><ref id="bib9"><element-citation publication-type="software"><person-group person-group-type="author"><name><surname>Huang</surname> <given-names>C-K</given-names></name><name><surname>Neylon</surname> <given-names>C</given-names></name><name><surname>Hosking</surname> <given-names>R</given-names></name><name><surname>Montgomery</surname> <given-names>L</given-names></name><name><surname>Wilson</surname> <given-names>K</given-names></name><name><surname>Ozaygen</surname> <given-names>A</given-names></name><name><surname>Brookes-Kenworthy</surname> <given-names>C</given-names></name></person-group><year iso-8601-date="2020">2020b</year><data-title>Evaluating institutional open access performance: sensitivity analysis</data-title><source>Zenodo</source><version designator="3">3</version><ext-link ext-link-type="uri" xlink:href="https://doi.org/10.5281/zenodo.3696857">https://doi.org/10.5281/zenodo.3696857</ext-link></element-citation></ref><ref id="bib10"><element-citation publication-type="software"><person-group person-group-type="author"><name><surname>Huang</surname> <given-names>C-K</given-names></name><name><surname>Neylon</surname> <given-names>C</given-names></name><name><surname>Hosking</surname> <given-names>R</given-names></name><name><surname>Brookes-Kenworthy</surname> <given-names>C</given-names></name><name><surname>Wilson</surname> <given-names>K</given-names></name><name><surname>Montgomery</surname> <given-names>L</given-names></name></person-group><year iso-8601-date="2020">2020c</year><data-title>Data and intermediate queries for: evaluating institutional open access performance: methodology, challenges and assessment</data-title><source>Zenodo</source><version designator="4.0">4.0</version><ext-link ext-link-type="uri" xlink:href="https://doi.org/10.5281/zenodo.3693221">https://doi.org/10.5281/zenodo.3693221</ext-link></element-citation></ref><ref id="bib11"><element-citation publication-type="software"><person-group person-group-type="author"><name><surname>Huang</surname> <given-names>C-K</given-names></name><name><surname>Neylon</surname> <given-names>C</given-names></name><name><surname>Hosking</surname> <given-names>R</given-names></name><name><surname>Brookes-Kenworthy</surname> <given-names>C</given-names></name><name><surname>Montgomery</surname> <given-names>L</given-names></name><name><surname>Wilson</surname> <given-names>K</given-names></name><name><surname>Ozaygen</surname> <given-names>A</given-names></name></person-group><year iso-8601-date="2020">2020d</year><data-title>Jupyter notebooks for the article: evaluating institutional open access performance: methodology, challenges and assessment</data-title><source>Zenodo</source><version designator="4.0">4.0</version><ext-link ext-link-type="uri" xlink:href="https://doi.org/10.5281/zenodo.3716063">https://doi.org/10.5281/zenodo.3716063</ext-link></element-citation></ref><ref id="bib12"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Iyandemye</surname> <given-names>J</given-names></name><name><surname>Thomas</surname> <given-names>MP</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Low income countries have the highest percentages of open access publication: a systematic computational analysis of the biomedical literature</article-title><source>PLOS ONE</source><volume>14</volume><elocation-id>e0220229</elocation-id><pub-id pub-id-type="doi">10.1371/journal.pone.0220229</pub-id><pub-id pub-id-type="pmid">31356618</pub-id></element-citation></ref><ref id="bib13"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Larivière</surname> <given-names>V</given-names></name><name><surname>Sugimoto</surname> <given-names>CR</given-names></name></person-group><year iso-8601-date="2018">2018</year><article-title>Do authors comply when funders enforce open access to research?</article-title><source>Nature</source><volume>562</volume><fpage>483</fpage><lpage>486</lpage><pub-id pub-id-type="doi">10.1038/d41586-018-07101-w</pub-id><pub-id pub-id-type="pmid">30356205</pub-id></element-citation></ref><ref id="bib14"><element-citation publication-type="web"><person-group person-group-type="author"><name><surname>Lawson</surname> <given-names>S</given-names></name></person-group><year iso-8601-date="2018">2018</year><article-title>RCUK open access block grant allocation 2013-18</article-title><source>Figshare</source><ext-link ext-link-type="uri" xlink:href="https://figshare.com/articles/RCUK_open_access_block_grant_allocation_201317/4047315">https://figshare.com/articles/RCUK_open_access_block_grant_allocation_201317/4047315</ext-link><date-in-citation iso-8601-date="2020-03-01">March 1, 2020</date-in-citation></element-citation></ref><ref id="bib15"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>McNutt</surname> <given-names>M</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Opinion: "Plan S" falls short for society publishers-and for the researchers they serve</article-title><source>PNAS</source><volume>116</volume><fpage>2400</fpage><lpage>2403</lpage><pub-id pub-id-type="doi">10.1073/pnas.1900359116</pub-id><pub-id pub-id-type="pmid">30683728</pub-id></element-citation></ref><ref id="bib16"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Mongeon</surname> <given-names>P</given-names></name><name><surname>Paul-Hus</surname> <given-names>A</given-names></name></person-group><year iso-8601-date="2016">2016</year><article-title>The journal coverage of Web of Science and Scopus: a comparative analysis</article-title><source>Scientometrics</source><volume>106</volume><fpage>213</fpage><lpage>228</lpage><pub-id pub-id-type="doi">10.1007/s11192-015-1765-5</pub-id></element-citation></ref><ref id="bib17"><element-citation publication-type="book"><person-group person-group-type="author"><name><surname>Montgomery</surname> <given-names>L</given-names></name><name><surname>Hartley</surname> <given-names>J</given-names></name><name><surname>Neylon</surname> <given-names>C</given-names></name><name><surname>Gillies</surname> <given-names>M</given-names></name><name><surname>Gray</surname> <given-names>E</given-names></name><name><surname>Herrmann-Pillath</surname> <given-names>C</given-names></name><name><surname>Huang</surname> <given-names>C-K</given-names></name><name><surname>Leach</surname> <given-names>J</given-names></name><name><surname>Potts</surname> <given-names>J</given-names></name><name><surname>Ren</surname> <given-names>X</given-names></name><name><surname>Skinner</surname> <given-names>K</given-names></name><name><surname>Sugimoto</surname> <given-names>CR</given-names></name><name><surname>Wilson</surname> <given-names>K</given-names></name></person-group><year iso-8601-date="2018">2018</year><source>Open Knowledge Institutions</source><publisher-name>Reinventing Universities. MIT Press Work in Progress</publisher-name></element-citation></ref><ref id="bib18"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Packer</surname> <given-names>AL</given-names></name></person-group><year iso-8601-date="2009">2009</year><article-title>The SciELO open access: a gold way from the south</article-title><source>Canadian Journal of Higher Education</source><volume>39</volume><fpage>111</fpage><lpage>126</lpage></element-citation></ref><ref id="bib19"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Piwowar</surname> <given-names>H</given-names></name><name><surname>Priem</surname> <given-names>J</given-names></name><name><surname>Larivière</surname> <given-names>V</given-names></name><name><surname>Alperin</surname> <given-names>JP</given-names></name><name><surname>Matthias</surname> <given-names>L</given-names></name><name><surname>Norlander</surname> <given-names>B</given-names></name><name><surname>Farley</surname> <given-names>A</given-names></name><name><surname>West</surname> <given-names>J</given-names></name><name><surname>Haustein</surname> <given-names>S</given-names></name></person-group><year iso-8601-date="2018">2018</year><article-title>The state of OA: a large-scale analysis of the prevalence and impact of open access articles</article-title><source>PeerJ</source><volume>6</volume><elocation-id>e4375</elocation-id><pub-id pub-id-type="doi">10.7717/peerj.4375</pub-id><pub-id pub-id-type="pmid">29456894</pub-id></element-citation></ref><ref id="bib20"><element-citation publication-type="preprint"><person-group person-group-type="author"><name><surname>Piwowar</surname> <given-names>H</given-names></name><name><surname>Priem</surname> <given-names>J</given-names></name><name><surname>Orr</surname> <given-names>R</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>The future of OA: a large-scale analysis projecting open access publication and readership</article-title><source>bioRxiv</source><pub-id pub-id-type="doi">10.1101/795310</pub-id></element-citation></ref><ref id="bib21"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Rabesandratana</surname> <given-names>T</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>The world debates open-access mandates</article-title><source>Science</source><volume>363</volume><fpage>11</fpage><lpage>12</lpage><pub-id pub-id-type="doi">10.1126/science.363.6422.11</pub-id><pub-id pub-id-type="pmid">30606822</pub-id></element-citation></ref><ref id="bib22"><element-citation publication-type="preprint"><person-group person-group-type="author"><name><surname>Robinson-Garcia</surname> <given-names>N</given-names></name><name><surname>Costas</surname> <given-names>R</given-names></name><name><surname>van Leeuwen</surname> <given-names>TN</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Indicators of open access for universities</article-title><source>arXiv</source><ext-link ext-link-type="uri" xlink:href="https://arxiv.org/abs/1906.03840">https://arxiv.org/abs/1906.03840</ext-link></element-citation></ref><ref id="bib23"><element-citation publication-type="preprint"><person-group person-group-type="author"><name><surname>Robinson-Garcia</surname> <given-names>N</given-names></name><name><surname>Costas</surname> <given-names>R</given-names></name><name><surname>van Leeuwen</surname> <given-names>TN</given-names></name></person-group><year iso-8601-date="2020">2020</year><article-title>State of open access penetration in universities worldwide</article-title><source>arXiv</source><ext-link ext-link-type="uri" xlink:href="https://arxiv.org/abs/2003.12273">https://arxiv.org/abs/2003.12273</ext-link></element-citation></ref><ref id="bib24"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Siler</surname> <given-names>K</given-names></name><name><surname>Haustein</surname> <given-names>S</given-names></name><name><surname>Smith</surname> <given-names>E</given-names></name><name><surname>Larivière</surname> <given-names>V</given-names></name><name><surname>Alperin</surname> <given-names>JP</given-names></name></person-group><year iso-8601-date="2018">2018</year><article-title>Authorial and institutional stratification in open access publishing: the case of global health research</article-title><source>PeerJ</source><volume>6</volume><elocation-id>e4269</elocation-id><pub-id pub-id-type="doi">10.7717/peerj.4269</pub-id><pub-id pub-id-type="pmid">29479492</pub-id></element-citation></ref><ref id="bib25"><element-citation publication-type="confproc"><person-group person-group-type="author"><name><surname>Sinha</surname> <given-names>A</given-names></name><name><surname>Shen</surname> <given-names>Z</given-names></name><name><surname>Song</surname> <given-names>Y</given-names></name><name><surname>Ma</surname> <given-names>H</given-names></name><name><surname>Eide</surname> <given-names>D</given-names></name><name><surname>Hsu</surname> <given-names>B-J</given-names></name><name><surname>Wang</surname> <given-names>K</given-names></name></person-group><year iso-8601-date="2015">2015</year><article-title>An overview of microsoft academic service (MAS) and applications</article-title><conf-name>Proceedings of the 24th International Conference on World Wide Web (WWW’ 15 Companion). ACM</conf-name><fpage>243</fpage><lpage>246</lpage></element-citation></ref><ref id="bib26"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Van Noorden</surname> <given-names>R</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>Indonesia tops open access publishing charts</article-title><source>Nature</source><volume>1</volume><elocation-id>5</elocation-id><pub-id pub-id-type="doi">10.1038/d41586-019-01536-5</pub-id></element-citation></ref><ref id="bib27"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Wang</surname> <given-names>X</given-names></name><name><surname>Cui</surname> <given-names>Y</given-names></name><name><surname>Xu</surname> <given-names>S</given-names></name><name><surname>Hu</surname> <given-names>Z</given-names></name></person-group><year iso-8601-date="2018">2018</year><article-title>The state and evolution of gold open access: a country and discipline level analysis</article-title><source>Aslib Journal of Information Management</source><volume>70</volume><fpage>573</fpage><lpage>584</lpage><pub-id pub-id-type="doi">10.1108/AJIM-02-2018-0023</pub-id></element-citation></ref><ref id="bib28"><element-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Wang</surname> <given-names>K</given-names></name><name><surname>Shen</surname> <given-names>Z</given-names></name><name><surname>Huang</surname> <given-names>C</given-names></name><name><surname>Wu</surname> <given-names>C-H</given-names></name><name><surname>Eide</surname> <given-names>D</given-names></name><name><surname>Dong</surname> <given-names>Y</given-names></name><name><surname>Qian</surname> <given-names>J</given-names></name><name><surname>Kanakia</surname> <given-names>A</given-names></name><name><surname>Chen</surname> <given-names>A</given-names></name><name><surname>Rogahn</surname> <given-names>R</given-names></name></person-group><year iso-8601-date="2019">2019</year><article-title>A review of Microsoft Academic Services for science of science studies</article-title><source>Frontiers in Big Data</source><volume>2</volume><elocation-id>45</elocation-id><pub-id pub-id-type="doi">10.3389/fdata.2019.00045</pub-id></element-citation></ref></ref-list></back><sub-article article-type="decision-letter" id="sa1"><front-stub><article-id pub-id-type="doi">10.7554/eLife.57067.sa1</article-id><title-group><article-title>Decision letter</article-title></title-group><contrib-group><contrib contrib-type="editor"><name><surname>Deathridge</surname><given-names>Julia</given-names></name><role>Reviewing Editor</role><aff><institution>eLife</institution><country>United Kingdom</country></aff></contrib></contrib-group><contrib-group><contrib contrib-type="reviewer"><name><surname>Kramer</surname><given-names>Bianca</given-names> </name><role>Reviewer</role><aff><institution>Utrecht University Library</institution><country>Netherlands</country></aff></contrib></contrib-group></front-stub><body><boxed-text><p>In the interests of transparency, eLife publishes the most substantive revision requests and the accompanying author responses.</p></boxed-text><p>Thank you for submitting your article "Evaluating institutional open access performance: Methodology, challenges and assessment" for consideration by <italic>eLife</italic>. Your article has been reviewed by 2 peer reviewers, and the evaluation has been overseen by two members of the <italic>eLife</italic> Features Team. The following individuals involved in review of your submission have agreed to reveal their identity: Bianca Kramer (Reviewer #1).</p><p>The reviewers have discussed the reviews with one another and the Reviewing Editor has drafted this decision to help you prepare a revised submission.</p><p>Summary:</p><p>This work provides a re-usable framework for tracking the open access performance of institutions and identifies instances where funding and policy interventions have changed the level of open access happening at the institutional, country or regional level.</p><p>Major comments to address:</p><p>1) As Figure 2 will be difficult to see and interpret in the web and PDF versions of the article, please can you replace this figure with Supplementary Figure 6. This will also be more in line with the examples given in the paper highlighting potential uses of the framework to analyse policy effects which are based on either comparing institutional results at country or region level for the full dataset (Figure 3), or on comparing specific institutions based on a common or differing policy context (Figure 4,5). Furthermore, including the ranking of top 100 institutions in terms of the proportion of different types of OA as a main result could invite undue focus on comparing individual institutions in a competitive way, which seems not in line with the aims of the work.</p><p>2) The paper introduces several analytical categories that it states should be used as the 'minimum reporting standard'. However, why these categories should be the 'minimum reporting standard' requires a much stronger justification. For example, the authors have included data sources with restricted access (Scopus, WoS) along with the Microsoft Academic Graph, to increase recall. Additionally, there is no mention as to why research disciplines as a possible determinant of OA publication are not included as a "minimum reporting standard". It is also unclear who the minimum reporting standard is for - Universities? Ranking producers? Researchers?</p><p>Overall, this is a pretty good paper with good data and methods, but I do not think that it is a good proposal of a "minimum reporting standard" and suggest this claim is dropped from the paper. The sentence "this study proposes a minimum reporting standard for institutional open access evaluation" should be removed from Section 1.1 and other places where this is mentioned in the paper.</p><p>3) The following points should be added to the Discussion or Limitations section:</p><p>- the effects and limitations of comparing only 'all green OA' (and not 'green only')</p><p>to 'gold OA', as 'all green' reflects both the extent to which gold OA papers are also included in repositories, as the extent to which otherwise closed papers are made available in repositories, and this may differ for different universities, depending on institutional policies.</p><p>- the limitation of longitudinal analysis done from a fixed point in time (i.e. looking back), as for earlier years, the effect of embargoes (in proportion of green OA) and moving walls (for bronze OA) will influence the results - i.e. results of the previous year are not just a reflection of proportion of OA in that year.</p><p>- the effect of disciplinary differences, regarding a) the extent to which the research outputs included (present in WoS/Scopus/MA, with DOI) can be expected to represent the total research output of an institution, depending on b) the extent to which observed levels of green OA are influenced by external policies such as those of NIH and Wellcome for biomedical research, resulting in green OA through PubMedCentral and EuropePMC, rather than through home repositories.</p><p>- the potential of extension of the approach to universities beyond the initial selection (which favours research-intensive universities), and expected differences in results.</p><p>4) It is stated in Section 1.1 that the authors intend to favour recall over precision. From looking at the details provided in the supplementary methods, it seems that what the authors mean here is that by using a variety of data sources they aimed to increase recall (but not at the expense of precision). If this is the case, please can the authors revise this sentence. If this is not a mistake, a justification as to why it makes more sense to focus on more data rather than better data needs to be included, especially when the next point on the list focuses on size-independent indicators, for which precision is more important than recall.</p><p>5) To give the table displaying the different OA categories more context, please can you add a caption similar to the information given in the Supplementary Methodology. This should include, which OA types are reported in this paper (Total OA, Gold, Hyrbid, Green, and Green in Homo Repo) and an explanation as to why you chose to include these categories in the main analysis and not the other types (Hybrid, Bronze, Gold DOAJ and Green only).</p><p>6) I think that shifts in trends that coincide with policy changes should be included in whatever body of evidence used to determine whether policies have been effective. That said, I think that the empirical setup simply doesn't allow to make any "effect" claims, and I would advise the authors to use the term sparingly and to speak perhaps of "possible effect" or something like that. For example, I am not convinced by the interpretation of Figure 4A: the trends could very well be a somewhat random fluctuation in the 2%-6% range, and I think it is a bit exaggerated to claim that this figure shows any kind of clear effects.</p><p>7) In the accompanying sensitivity analysis, some interesting patterns are detected (higher levels of total OA and gold OA, but lower levels of green OA for Latin America when Microsoft Academic (MA) is included, and lower levels of total OA and green OA for the UK when MA is included (cf. WoS and/or Scopus only). It would be good to provide some context/explanations for these observed effects, either in the white paper or in the main paper itself.</p><p>8) Consider adding a paragraph on the possibilities and limitations of re-using this methodology, particularly in regards to the closed data sources (with ramifications for what data can be shared). It may also be worth including more detail on the semi-automatic steps of the methodology so that people would be able to reproduce them if they have access to the data sources. In a broader context, there might be an opportunity to discuss the potential of making the framework more widely available to interested parties to create an open infrastructure that can assess open access levels at various aggregation levels.</p><p>Data/Stats to be included:</p><p>1) Include an explanation of how the confidence intervals used are derived (esp. since they are an important addition of this analysis compared to previous analyses of OA levels).</p><p>2) Either provide anonymized or de-anonymized data for all universities in the sample, not just for a subset.</p><p>3) Please can you make the examples of code in the supplementary methodology available to download.</p></body></sub-article><sub-article article-type="reply" id="sa2"><front-stub><article-id pub-id-type="doi">10.7554/eLife.57067.sa2</article-id><title-group><article-title>Author response</article-title></title-group></front-stub><body><disp-quote content-type="editor-comment"><p>Major comments to address:</p><p>1) As Figure 2 will be difficult to see and interpret in the web and PDF versions of the article, please can you replace this figure with Supplementary Figure 6. This will also be more in line with the examples given in the paper highlighting potential uses of the framework to analyse policy effects which are based on either comparing institutional results at country or region level for the full dataset (Figure 3), or on comparing specific institutions based on a common or differing policy context (Figure 4,5). Furthermore, including the ranking of top 100 institutions in terms of the proportion of different types of OA as a main result could invite undue focus on comparing individual institutions in a competitive way, which seems not in line with the aims of the work.</p></disp-quote><p>As suggested in the review report, the Figure showing the top 100 is now relocated to Figure 2 – figure supplement 2. Figure 2 is replaced with the figure showing groupings by regions for 2017, with figures for 2016 and 2018 included in Figure 2 – figure supplement 1.</p><disp-quote content-type="editor-comment"><p>2) The paper introduces several analytical categories that it states should be used as the 'minimum reporting standard'. However, why these categories should be the 'minimum reporting standard' requires a much stronger justification. For example, the authors have included data sources with restricted access (Scopus, WoS) along with the Microsoft Academic Graph, to increase recall. Additionally, there is no mention as to why research disciplines as a possible determinant of OA publication are not included as a "minimum reporting standard". It is also unclear who the minimum reporting standard is for - Universities? Ranking producers? Researchers?</p><p>Overall, this is a pretty good paper with good data and methods, but I do not think that it is a good proposal of a "minimum reporting standard" and suggest this claim is dropped from the paper. The sentence "this study proposes a minimum reporting standard for institutional open access evaluation" should be removed from Section 1.1 and other places where this is mentioned in the paper.</p></disp-quote><p>We have now removed the phrase “minimum reporting standard”. We have also updated the discussion to include ways to which our methodology can be adapted to perform analysis for other categories, such as disciplines, individuals, countries, etc, instead of institutions.</p><disp-quote content-type="editor-comment"><p>3) The following points should be added to the Discussion or Limitations section:</p><p>i) the effects and limitations of comparing only 'all green OA' (and not 'green only')to 'gold OA', as 'all green' reflects both the extent to which gold OA papers are also included in repositories, as the extent to which otherwise closed papers are made available in repositories, and this may differ for different universities, depending on institutional policies.</p></disp-quote><p>We have included an extra paragraph in the Limitations section to discuss this issue. The main message is that the general trends are not affected, but we recognise that at the individual university level this can be dependent on institutional policy and data quality.</p><disp-quote content-type="editor-comment"><p>ii) the limitation of longitudinal analysis done from a fixed point in time (i.e. looking back), as for earlier years, the effect of embargoes (in proportion of green OA) and moving walls (for bronze OA) will influence the results - i.e. results of the previous year are not just a reflection of proportion of OA in that year.</p></disp-quote><p>This is now included in the Limitations section.</p><disp-quote content-type="editor-comment"><p>iii) The effect of disciplinary differences, regarding a) the extent to which the research outputs included (present in WoS/Scopus/MA, with DOI) can be expected to represent the total research output of an institution, depending on b) the extent to which observed levels of green OA are influenced by external policies such as those of NIH and Wellcome for biomedical research, resulting in green OA through PubMedCentral and EuropePMC, rather than through home repositories.</p></disp-quote><p>Additional discussion on this matter is now included in the Limitations section.</p><disp-quote content-type="editor-comment"><p>iv) The potential of extension of the approach to universities beyond the initial selection (which favours research-intensive universities), and expected differences in results.</p></disp-quote><p>This is now mentioned in the Limitations section.</p><disp-quote content-type="editor-comment"><p>4) It is stated in Section 1.1 that the authors intend to favour recall over precision. From looking at the details provided in the supplementary methods, it seems that what the authors mean here is that by using a variety of data sources they aimed to increase recall (but not at the expense of precision). If this is the case, please can the authors revise this sentence. If this is not a mistake, a justification as to why it makes more sense to focus on more data rather than better data needs to be included, especially when the next point on the list focuses on size-independent indicators, for which precision is more important than recall.</p></disp-quote><p>This has been corrected to say “increase recall but not at the expense of precision”.</p><disp-quote content-type="editor-comment"><p>5) To give the table displaying the different OA categories more context, please can you add a caption similar to the information given in the Supplementary Methodology. This should include, which OA types are reported in this paper (Total OA, Gold, Hyrbid, Green, and Green in Homo Repo) and an explanation as to why you chose to include these categories in the main analysis and not the other types (Hybrid, Bronze, Gold DOAJ and Green only).</p></disp-quote><p>This is now included under the Methods section, below the table of OA definitions.</p><disp-quote content-type="editor-comment"><p>6) I think that shifts in trends that coincide with policy changes should be included in whatever body of evidence used to determine whether policies have been effective. That said, I think that the empirical setup simply doesn't allow to make any "effect" claims, and I would advise the authors to use the term sparingly and to speak perhaps of "possible effect" or something like that. For example, I am not convinced by the interpretation of Figure 4A: the trends could very well be a somewhat random fluctuation in the 2%-6% range, and I think it is a bit exaggerated to claim that this figure shows any kind of clear effects.</p></disp-quote><p>We have now rephrased the wording used in response to this comment.</p><disp-quote content-type="editor-comment"><p>7) In the accompanying sensitivity analysis, some interesting patterns are detected (higher levels of total OA and gold OA, but lower levels of green OA for Latin America when Microsoft Academic (MA) is included, and lower levels of total OA and green OA for the UK when MA is included (cf. WoS and/or Scopus only). It would be good to provide some context/explanations for these observed effects, either in the white paper or in the main paper itself.</p></disp-quote><p>Additional discussions have been added to the white paper on sensitivity analysis.</p><disp-quote content-type="editor-comment"><p>8) Consider adding a paragraph on the possibilities and limitations of re-using this methodology, particularly in regards to the closed data sources (with ramifications for what data can be shared). It may also be worth including more detail on the semi-automatic steps of the methodology so that people would be able to reproduce them if they have access to the data sources. In a broader context, there might be an opportunity to discuss the potential of making the framework more widely available to interested parties to create an open infrastructure that can assess open access levels at various aggregation levels.</p></disp-quote><p>A short description is now included at the end of the “Limitations” section to discuss limitations of reuse and further work in this direction.</p><disp-quote content-type="editor-comment"><p>Data/stats to be included:</p><p>1) Include an explanation of how the confidence intervals used are derived (esp. since they are an important addition of this analysis compared to previous analyses of OA levels).</p></disp-quote><p>Additional explanations are included in Supplementary file 1, under the section “Description of data workflow and selection criteria”.</p><disp-quote content-type="editor-comment"><p>2) Either provide anonymized or de-anonymized data for all universities in the sample, not just for a subset.</p></disp-quote><p>We would like to keep universities anonymised except for the top 100, which highlight important messages about universities not traditionally ranked the highest leading the way for OA. As such we have included two different sets of the processed data. The first includes all universities in anonymised form, and the second with only the top 100 universities included in de-anonymised form. This is made clearer at the end of the “Methods” section.</p><disp-quote content-type="editor-comment"><p>3) Please can you make the examples of code in the supplementary methodology available to download.</p></disp-quote><p>These are available via Zenodo, with the link provided in the article and Supplementary file 1.</p></body></sub-article></article>