Improving Access to Scientific Literature with Knowledge Graphs

The transfer of knowledge has not changed fundamentally for many hundreds of years: It is usually document-based - formerly printed on paper as a classic essay and nowadays as PDF. With around 2.5 million new research contributions every year, researchers drown in a flood of pseudo-digitized PDF publications. As a result research is seriously weakened. In this article, we argue for representing scholarly contributions in a structured and semantic way as a knowledge graph. The advantage is that information represented in a knowledge graph is readable by machines and humans. As an example, we give an overview on the Open Research Knowledge Graph (ORKG), a service implementing this approach. For creating the knowledge graph representation, we rely on a mixture of manual (crowd/expert sourcing) and (semi-)automated techniques. Only with such a combination of human and machine intelligence, we can achieve the required quality of the representation to allow for novel exploration and assistance services for researchers. As a result, a scholarly knowledge graph such as the ORKG can be used to give a condensed overview on the state-of-the-art addressing a particular research quest, for example as a tabular comparison of contributions according to various characteristics of the approaches. Further possible intuitive access interfaces to such scholarly knowledge graphs include domain-specific (chart) visualizations or answering of natural language questions.Der Verbreitung wissenschaftlicher Erkenntnisse hat sich seit vielen hundert Jahren nicht grundlegend verändert: Er erfolgt in der Regel dokumentenbasiert - früher als klassischer Aufsatz auf Papier gedruckt und heute online als PDF. Mit rund 2,5 Millionen neuen Forschungsbeiträgen pro Jahr ertrinken Forscher in einer Flut von pseudo-digitalisierten PDF-Publikationen. Als Folge davon wird die Forschung stark geschwächt. In diesem Artikel plädieren wir dafür, wissenschaftliche Beiträge in strukturierter und semantischer Form als Wissensgraph zu repräsentieren. Der Vorteil ist, dass die in einem Wissensgraph dargestellten Informationen für Maschinen und Menschen lesbar sind. Als Beispiel geben wir einen Überblick über den Open Research Knowledge Graph (ORKG), einen Dienst, der diesen Ansatz umsetzt. Für die Erstellung des Wissensgraph setzen wir eine Mischung aus manuellen (crowd/expert sourcing) und (halb-)automatisierten Techniken ein. Nur mit einer solchen Kombination aus menschlicher und maschineller Intelligenz können wir die erforderliche Qualität der Darstellung erreichen, um neuartige Explorations- und Unterstützungsdienste für Forscher zu ermöglichen. Im Ergebnis kann ein Wissensgraph wie der ORKG verwendet werden, um einen komprimierten Überblick über den Stand der Technik in Bezug auf eine bestimmte Forschungsaufgabe zu geben, z.B. als tabellarischer Vergleich der Beiträge nach verschiedenen Merkmalen der Ansätze. Weitere mögliche intuitive Nutzungsschnittstellen zu solchen wissenschaftlichen Wissensgraphen sind domänenspezifische Visualisierungen oder die Beantwortung natürlichsprachlicher Fragen mittels Question Answering.Peer Reviewe

Participation in the global knowledge commons : challenges and opportunities for research dissemination in developing countries

Due to improving Internet connectivity and a growing number of international initiatives, knowledge workers in developing countries are now getting access to scholarly and scientific publications and electronic resources at a level that is unmatched historically. This is highly significant, particularly in areas of medicine, agricultural and environmental sciences, and development literature that are much needed if developing countries are to meet the Millennium Development Goals. At the same time, the Open Access movement and the growing number of Open Archive Initiative (OAI) compliant institutional repositories promise to provide even greater access to resources and scientific publications that were previously inaccessible. These low cost technology and interoperability standards are also providing great opportunities for libraries and publishers in developing countries to disseminate local research and knowledge and to bridge the South-North knowledge gap. This article reviews these recent trends, discusses their significance for information access in developing countries, and provides recommendations for knowledge workers on how to actively participate in and contribute to the global knowledge commons

Using open access literature to guide full-text query formulation

*Background*
Much scientific knowledge is contained in the details of the full-text biomedical literature. Most research in automated retrieval presupposes that the target literature can be downloaded and preprocessed prior to query. Unfortunately, this is not a practical or maintainable option for most users due to licensing restrictions, website terms of use, and sheer volume. Scientific article full-text is increasingly queriable through portals such as PubMed Central, Highwire Press, Scirus, and Google Scholar. However, because these portals only support very basic Boolean queries and full text is so expressive, formulating an effective query is a difficult task for users. We propose improving the formulation of full-text queries by using the open access literature as a proxy for the literature to be searched. We evaluated the feasibility of this approach by building a high-precision query for identifying studies that perform gene expression microarray experiments.

*Methodology and Results*
We built decision rules from unigram and bigram features of the open access literature. Minor syntax modifications were needed to translate the decision rules into the query languages of PubMed Central, Highwire Press, and Google Scholar. We mapped all retrieval results to PubMed identifiers and considered our query results as the union of retrieved articles across all portals. Compared to our reference standard, the derived full-text query found 56% (95% confidence interval, 52% to 61%) of intended studies, and 90% (86% to 93%) of studies identified by the full-text search met the reference standard criteria. Due to this relatively high precision, the derived query was better suited to the intended application than alternative baseline MeSH queries.

*Significance*
Using open access literature to develop queries for full-text portals is an open, flexible, and effective method for retrieval of biomedical literature articles based on article full-text. We hope our approach will raise awareness of the constraints and opportunities in mainstream full-text information retrieval and provide a useful tool for today’s researchers.
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Using open access literature to guide full-text query formulation

*Background* 
Much scientific knowledge is contained in the details of the full-text biomedical literature. Most research in automated retrieval presupposes that the target literature can be downloaded and preprocessed prior to query. Unfortunately, this is not a practical or maintainable option for most users due to licensing restrictions, website terms of use, and sheer volume. Scientific article full-text is increasingly queriable through portals such as PubMed Central, Highwire Press, Scirus, and Google Scholar. However, because these portals only support very basic Boolean queries and full text is so expressive, formulating an effective query is a difficult task for users. We propose improving the formulation of full-text queries by using the open access literature as a proxy for the literature to be searched. We evaluated the feasibility of this approach by building a high-precision query for identifying studies that perform gene expression microarray experiments.
 
*Methodology and Results* 
We built decision rules from unigram and bigram features of the open access literature. Minor syntax modifications were needed to translate the decision rules into the query languages of PubMed Central, Highwire Press, and Google Scholar. We mapped all retrieval results to PubMed identifiers and considered our query results as the union of retrieved articles across all portals. Compared to our reference standard, the derived full-text query found 56% (95% confidence interval, 52% to 61%) of intended studies, and 90% (86% to 93%) of studies identified by the full-text search met the reference standard criteria. Due to this relatively high precision, the derived query was better suited to the intended application than alternative baseline MeSH queries.
 
*Significance* 
Using open access literature to develop queries for full-text portals is an open, flexible, and effective method for retrieval of biomedical literature articles based on article full-text. We hope our approach will raise awareness of the constraints and opportunities in mainstream full-text information retrieval and provide a useful tool for today’s researchers.
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Commentary on A Tale of Two States

While both California and Texas have experienced declines in teen birth rates over the past three decades, declines in California have been larger, particularly among Hispanic teens. Differences in state policies may have shaped this disparity, as suggested by Tortolero and her colleagues in their article “A Tale of Two States: What We Learn from California and Texas”. Fundamental differences exist between Texas and California in their approaches to sex education, access to family planning services for teens, and public-private partnerships. However, methodological challenges are present when drawing state comparisons, including the limitations of available public health data and the difficulty of disaggregating state characteristics from state policies. Based on their comparison of state data and policies, Tortolero and her colleagues issue sensible recommendations for reducing the teen birth rate in Texas. History suggests that state policies are most effective when political commitment is linked to scientifically effective approaches. Based on our understanding of the scientific literature, the most effective strategies for reducing rates of teen childbearing in Texas would be providing comprehensive school sexuality education and improving teen access to contraceptive services

Teaching Information Literacy Skills to Sophomore-Level Biology Majors

Many undergraduate students lack a sound understanding of information literacy. The skills that comprise information literacy are particularly important when combined with scientific writing for biology majors as they are the foundation skills necessary to complete upper-division biology course assignments, better train students for research projects, and prepare students for graduate and professional education. To help undergraduate biology students develop and practice information literacy and scientific writing skills, a series of three one-hour hands-on library sessions, discussions, and homework assignments were developed for Biological Literature, a one-credit, one-hour-per-week, required sophomore-level course. The embedded course librarian developed a learning exercise that reviewed how to conduct database and web searches, the difference between primary and secondary sources, source credibility, and how to access articles through the university’s databases. Students used the skills gained in the library training sessions for later writing assignments including a formal lab report and annotated bibliography. By focusing on improving information literacy skills as well as providing practice in scientific writing, Biological Literature students are better able to meet the rigors of upper-division biology courses and communicate research findings in a more professional manner

Citizen science for conservation: towards a cleaner, greener China

Citizen science (CS) is the practice where amateurs without formal scientific training collect data to contribute to the scientific observations available to scientists and decision makers (Bonney, et al., 2009). Citizen science is increasingly utilized for environmental protection and conservation as well as related purposes such as education, access to nature, access to justice, inclusion, civics and equality or other ‘social goods’ (Mor Barak, 2020; Makuch & Aczel, 2020). Several eco-citizen science projects are developing in China (Chen, et al., 2020; Hsu, Yeo & Weinfurter, 2020), though little research has evaluated their effectiveness in facilitating environmental protection or advancing social goods. This paper aims to identify the role and potential benefits of environmental citizen science in China to promote environmental and social objectives within the context of what has been called “authoritarian environmentalism” (Beeson, 2018). Through semi-structured interviews and a review of the (limited) available literature, we identify three key areas in which citizen science could potentially benefit environmental protection and promote social good in China: (1) fostering education to inform society and encourage environmental advocacy; (2) facilitating effective environmental governance through monitoring and litigation; and (3) improving data collection for biodiversity and conservation research

Potential of teledentistry in the delivery of oral health services in developing countries

In developing countries, access to qualified medical personnel especially oral health care specialists by inhabitants of rural and remote areas remain a challenge due to the fact that these personnel are mostly located in urban communities. Teledentistry is an approach that will eliminate the problem of distance between qualified oral health care personnel and potential patients in rural and remote communities. The objective of this review is to investigate the history of teledentistry and its practical application in overcoming the rural-urban oral health care problems.A scoping search of literature using keywords associated with telemedicine and teledentistry and its application was undertaken via PubMed and  Scientific electronic Library Online (SciELO). Literature published in English in the last 10 years (2008 – 2018) were selected. The review summarises the available literature related to origin and method of delivering teledentistry and its use in dental practice and education. It shows that  teledentistry has the ability to improve access to and delivery of oral health care at a relatively lower cost as well as supplementing traditional  teaching methods in dental education. However, despite the promising nature of teledentistry in improving oral health care provision, it is  associated with some attending problems and challenges. Keywords: Telemedicine, Teledentistry, Rural, Remote, Developing countrie

Crossing the digital divide: the contribution of information technology to the professional performance of malaria researchers in Africa

Background: The US National Library of Medicine supports the Multilateral Initiative on Malaria (MIM) through the design, implementation, and operation of the Multilateral Initiative on Malaria Communications Network (MIMCom.) MIMCom makes possible enhanced access to the Internet and to medical literature. Objectives: The main objectives of the present study were to examine the use of MIMCom supported information technology (IT) by scientists, students, and administrative personnel to facilitate communication, retrieve information, obtain documents, write proposals, and prepare papers for publication; and to determine the contribution of this intervention to their professional performance. Methods: The authors analyzed the contribution of enhanced Internet connectivity and access to electronic information resources to the performance of malaria research staff and their institutes through a cross-sectional questionnaire survey of 181 respondents at 14 health research centers in Africa. Separate reviews of bandwidth usage, requests for document delivery, and publications in peer reviewed journals support the data of the survey. Results: The MIMCom network makes a positive contribution to the performance of malaria researchers and support staff at the sites reviewed by improving e-mail exchange, access to published literature, and research proposal development and submission. Implications of these findings are discussed. Conclusion: By providing full access to the Internet and the resources of the WorldWide Web, MIMCom has been shown to be invaluable to malaria researchers and their institutes in Africa. This access has increased visibility of scientists in their respective institutions and provided opportunities for stronger engagement with the international scientific community. African Health Sciences Vol. 5 (3) 2005: pp. 246-25

Quantifying the influence of Open Access on innovation and patents

Background: Open Access aims at improving the discovery, access and re-use of research not only within the scientific community, but also within broader society, for instance to promote innovation in industry. Yet, the extent to which openly available scientific work impacts technological inventions remains largely unknown. Methods: We combine publicly available data sources about patents and scholarly publications to explore the extent to which Open Access scientific literature is cited in patents. Results: Investigating over 22 million patent families indexed in Google Patents between 2010 and 2020, we found that around one third referenced non-patent literature. However, the number of references per patent family can vary considerably across technological sectors and inventor countries. Based on a sample of 215,962 scientific non-patent references published between 2008 and 2020, we determined the Open Access status using Unpaywall, Europe PubMed Central and arXiv. The proportion of Open Access citations grew over the years, with nearly half of cited articles being openly available. Discussion: In line with research on both technology-science linkage and Open Access, we found considerable country- and subject- specific variations. In particular, patents representing inventions from the US and the UK cited Open Access work disproportionately more often, although it is challenging to link these observations to specific science policies and incentives. We recommend that follow-up research and monitoring exercise take advantage of a growing evidence base associated with patent citations and Open Access evidence