Entity-Fishing for Digital Humanities and Scholarly Publishing

Tuesday, 04 September 2018, 9:30-17:00

Niedersächsische Staats- und Universitätsbibliothek Göttingen

Vortragsraum, SUB historical Building

Papendieck 14

37073 Göttingen

https://goo.gl/maps/yWCuqdhtXNy

In the course of the project, different workshops are being organized in order to present and discuss the implementation of services and tools for digital monographs on Open Access publishing platforms. After the workshop at the University of Turin about the role of identifiers in research evaluation, now we want to discuss the possible application of entity recognition to digital publishing.

Entity-fishing is a service that enables the automatic extraction of concepts via Wikidata, so that persons, locations, organizations etc. can be uniquely identified and disambiguated. The HIRMEOS partners have tested various applications of this service on their digital platforms and for a quick overview you can have a look at our factsheet.

The workshop is organized into two main parts. During the morning session, the entity-fishing service and its meaning for scholarly work will be presented. In the afternoon, after a short presentation of the last experimental implementations on our platforms, we will focus on practical issues related to other possible use scenarios of the HIRMEOS entity-fishing service. To this end, we plan a roundtable in which three proposals for new usages of this service on digital platforms will be discussed in detail, paying particular attention to technical aspects. In this way, it should be possible to find concrete solutions for the specific difficulties in implementing a certain use scenario and, more generally, to define guidelines for future applications of this service by publishers who are not directly involved in the HIRMEOS project.

This is the workshop agenda:

HIRMEOS WORKSHOP

Entity-Fishing for Digital Humanities and Scholarly Publishing

Göttingen, Papendieck 14, SUB historical building, Vortragsraum, 4th September 2018

9:30–9:45 Introduction (Margo Bargheer, SUB)

9:45–10:00 The HIRMEOS Project (Andrea Bertino, SUB)

10:00–10:40 Entity-fishing: from text to concepts and beyond (Luca Foppiano and Laurent Romary, INRIA-DARIAH-EU)

10:40–11:00 Coffee break

11:00–11:45 Entity-fishing: Demo and Questions (Luca Foppiano and Laurent Romary, INRIA-DARIAH-EU)

11:50–12:30 Retrieving entities from publications in linguistics: Glottolog and Concepticon (Sebastian Nordhoff, LangSciPress)

12:30–13:40 Lunch

13:40–14:00 Entity-fishing service on the HIRMEOS platforms (Andrea Bertino, SUB)

14:00–14:15 Usage scenario I: Entity-fishing at ScholarLed (Javier Arias, Open Book Publishers)

14:15–14:30 Usage scenario II: Entity-fishing at Septentrio Academic Publishing (Aysa Ekanger, University Library of Tromsø)

14:30–14:45 Usage scenario III: Entity-fishing service for the Edition Open Access (Klaus Thoden, Max Planck Institute for the History of Science)

14:45–15:15 Coffee break

15:15–16:30 Roundtable on new usage scenarios. (Moderator: Stefanie Mühlhausen, SUB)

16:30–17:00 Conclusion. Overview and guidelines for service implementation (Margo Bargheer, SUB)

As space is limited, please register prior to the workshop: https://goo.gl/forms/3EAqo0w00r74bTL63

Please feel free to distribute this invitation to everyone who might be interested.

We are looking forward to seeing you soon,

The HIRMEOS consortium

Dear readers,

Welcome to the fifth edition of the HIRMEOS newsletter. The HIRMEOS
newsletter keeps you updated about developments in the project High
Integration of Research Monographs in the European Open Science
infrastructure (HIRMEOS).

In this issue:
* Our new animation video
* The fact sheet of the entity-fishing service
* Recording and presentations of the HIRMEOS webinar on entity-fishing for
digital platforms
* The report on the workshop “Research evaluation and identification services”
at the University of Turin
* The new strategic partnership between PKP and EKT
* Upcoming talks and presentations on HIRMEOS and OPERAS

→ CLICK HERE TO READ THE  NEWSLETTER

PKP, founded 1998 by John Willinsky, is a multi-university initiative developing free open source software and conducting research to improve the quality and reach of scholarly publishing. EKT, an important National e-Infrastructure and a network for science, culture, research and innovation, has been a major adopter and advocate for PKP’s Open Journal Systems (OJS) and Open Monograph Press (OMP) both in Greece and throughout Europe. Within the framework of the HIRMEOS project, EKT has contributed in particular to the implementation of persistent identifiers on the Open Access publishing platforms of EKT- ePublishing, Göttingen University Press, Oapen, Openedition Books, and Ubiquity Press .

This new partnership opens up exciting perspectives for Open Access scholarly publishing and underlines the importance of research infrastructures capable of coordinating the activities of different kinds of stakeholders.  To find out more about the challenges related to the development of such infrastructures, you can participate in the conference organized by EKT as member of the OPERAS-D consortium: Open Scholarly Communication in Europe. Addressing the Coordination Challenge. Here the program of the OPERAS conference which takes place  from 31 May to 1 June 2018 in Athens.

The platforms involved in the project have completed the integration of entity-fishing (NERD – Named Entities Recognition and Disambiguation) services. Several applications have been successfully tested on the platforms and over the coming months they will be further developed. Below are a few brief notes on the work done. To find out more participate in the webinar ENHANCING PUBLISHING PLATFORMS: ENTITIES EXTRACTION FOR OPEN ACCESS MONOGRAPHS, Monday, 05.03.2018, 14:00 – 15:00 (CET) (Click here to register).

OpenEdition

OpenEdition has integrated Entity-fishing (NERD) system into Core (the central application for managing their publications). The data extracted from their monographs (few dozens documents) were stored in a database and indexed in Solr. The process can be described in 5 steps:

• the documents are processed, using their HTML representation to segment paragraphs and sentences;
• entities classified with Named Entity Class as PERSON and LOCATION with frequency above two, are then collected in a special storage;
• all other entities are further processed using NERD_KID service in order to predict their Named Entity Class on the base their Wikidata disambiguated entry;
• all entities from each books are then aggregated together, only ones of type LOCATION and PERSON are indexed.

Göttingen University Press

Göttingen State and University Library has integrated Entity-fishing (NERD) service into the publishing workflow of Göttingen University Press (GUP) in order to enable the semi-automatic indexing of its monographs.

Titles, abstract and metadata of the monographs published in GUP are processed by entity-fishing (NERD) and entities classified into the Named Entities Types of PERSON, LOCATION and PERIOD are collected and shown on the GUP homepage of the book, allowing the users to quickly find the monographs in which these entities appear.

Entity-fishing (NERD) service has been integrated in the workflow used to add new books in the library, in particular when processing the metadata of the monographs, the GUP editors have at their disposal now an on-the-fly call to Entity-fishing (NERD) that autocomplete the form.

On the book or collection page, the entities are then displayed in word clouds, so that the users can immediately recognize which topics are most frequently addressed in this collection. By clicking on the different facets the user comes directly to the titles where each entity occurs.

EKT / National Documentation Center

EKT / National Documentation Center is using Open Monograph Press | Public Knowledge Project software as its e-Publishing infrastructure. Open Monograph Press (OMP) is an open source software platform for managing the editorial workflow required to see monographs, edited volumes and, scholarly editions through internal and external review, editing, cataloguing, production, and publication.

EKT has improved OMP with Entity-fishing support by integrating the service API to the OMP monographs’ landing page in order to annotate the abstract with the NERD entities:

• Colorize abstract of the monograph based on the recognized entities and their types and provide extra information of each entity from Knowledge Base,
• Index all recognized entities and a facet browsing support or even a tag cloud browsing for simplify search and discovery of OMP content.

Ubiquity Press

Ubiquity Press has developed an internal service (called Archiver) which receives notifications from the existing company platform when a new article has been published (using a pub-sub architecture), and POSTs its content (after formatting it as a JSON as per NERD service specifications) to the entity-fishing (NERD) API in order to retrieve all the entities and store them locally.

This internal service exposes an API to the existing UP journal frontend, where the entities are shown to the reader as clickable links referring to the Wikipedia entry for the entity; the links live in a contextual section for each article, and are easily accessible while reading the content.

OAPEN

The Entity-fishing (NERD) API will be integrated in the workflow when processing new publications entered by OAPEN. The integration will be used also on already existing English and German titles in the OAPEN Library. The result will be a publicly available data source containing all named entities from over 2000 titles.

Attributing DOI to books, which are normally identified through the traditional ISBN system, allow crosslinking to and from other publications and data through crosslinking services such as Crossref.

Currently, bibliographical references to the books and within the books published online don’t have links, and require the readers to check in a search engine if the reference can be accessed online and where.

Furthermore, ISBNs identify books but not book chapters. DOI can be attributed to book chapters, and at an even lower level of granularity (figures, tables). The granularity achieved by precise citation increases both efficiency (through saving users’ time) and impact (through vastly improved discoverability and exploitation of content).

Enabling crosslinking on books, HIRMEOS project facilitates users navigating between documents and between documents and data.

DOI, ORCID, Fundref.

• DOI (Digital Object Identifier) technology provides a unique digital identifier and an actionable, interoperable, persistent link for any object. DOI technology is actionable – through use of identifier syntax and network resolution mechanism (Handle System®). It is persistent – through combination of supporting improved handle infrastructure (registry database, proxy support, etc.) and social infrastructure (obligations by Registration Agencies). It is interoperable – through use of a data model providing semantic interoperability and grouping mechanisms. DOI has a governance structure: IDF, a US « not for profit » organization and is standardized as: ISO 26324, Information and Documentation — Digital Object Identifier System (2012)
• ORCID (Open Researcher and Contributor ID) is a nonproprietary alphanumeric code to uniquely identify scientific and other academic authors. This addresses the problem that a particular author’s contributions to the scientific literature or publications in the humanities can be hard to recognize as most personal names are not unique, they can change (such as with marriage), have cultural differences in name order, contain inconsistent use of first-name abbreviations and employ different writing systems. It provides a persistent identity for humans, similar to that created for content-related entities on digital networks by digital object identifiers (DOIs).The ORCID organization offers an open and independent registry intended to be the de facto standard for contributor identification in research and academic publishing.
• Fundref. Funding data provides a standard way to report funding sources for published scholarly research. Publishers deposit funding information from articles and other content using a standard taxonomy of funder names. This funding data is then made publicly available through Crossref’s search interfaces and APIs for funders and other interested parties to analyze. The Open Funder Registry provides a taxonomy of standardized funder names.

Implementations done

Here you can find a short presentation of the implementations of the services on the publishing platforms EKT e-Publishing, Göttingen University Press, OAPEN and OpenEdition.

EKT e-Publishing

EKT has developed a feature that provides each monograph’s view page with a link to the author’s ORCID account. One of the main improvements of the ebooks platform has been the DOI Deposit of the monographs DOIs by using the Crossref’s API.

EKT has also improved Open Monograph Press software in order to add funding information metadata to the submitted monographs. The tool that is being used allows the creator of the submission to choose a funding source from a list and add the grant number.

The monograph’s view page presents now the display of the monograph’s DOI.

Göttingen University Press

Göttingen University Press (GUP) has been improved to include support for editorial staff by automatically finding and saving the ORCID of the authors of a book.

ORCID based service

• Browsing by and searching for creators will be based on IDs and not on names.
• On the book page, the feature “more publications from this/these author(s)/editor(s)” can be offered.
• In special lists of persons the ORCID ID will be presented explicitly next to the name and linked to the public ORCID data of the person.
•  Optionally: Public ORCID data can be fetched, and they can be offered on the book page under “About these author(s)”

Alongside the names of all identified authors, information icons linked to the authors’ profiles are displayed. The icons of links to different profiles are distinguished by different colors.

For existing publications, new DOIs have been generated and registered via shell script. For new publications, the GUP publishing system automatically creates a DOI at submission time. Now GUP collects sponsorship information about publications. Funders are identified through the DOI of the publications based on the FundRef registry of Crossref. The information collected is then saved in a dedicated field in the local database. Funder resources are reported on the book page and the funders are linked to their publication lists in Crossref FundRef search.

OAPEN

The platform of the OAPEN Library was not updated, as it already supports both ORCIDs and DOIs. However, a large percentage of the books and chapters available in the OAPEN Library did not contain a DOI. For this reason, OAPEN has registered over 1,500 books and chapters. At this moment, over 2,100 titles can be accessed by their DOI.

Since July 2017, as the result of HIRMEOS Work Package 2, OpenEdition Books platform allows authors to associate publications with their ORCID ID. It promotes a growing standard in the task of researchers’ names disambiguation and improves the visibility of OpenEdition Books publications.

In order to incorporate the ORCID IDs collection workflow as recommended by the best practices OpenEdition has subscribed an ORCID Membership. The membership allows OpenEdition to have a write access to the ORCID API so it can add / delete / update works on identified authors’ records. The ORCID IDs associated to publications are displayed on OpenEdition Books publications pages, as recommended by ORCID graphics integration chart.

OpenEdition

OpenEdition Books will also collect Funding information, via Crossref’s Funding registry service. Funders are identified by their name and ID, and a grant number can be associated to a funder.