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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Daems, Joke; Chambers, Sally; Verbruggen, Christophe; Zere, Tecle;

    International audience; The digital text platform is part of the Flemish contribution to DARIAH Belgium (DARIAH = Digital Research Infrastructure for the Arts and Humanities). The goal is to create a platform for the collaborative management and discovery of digitised textual collections that allows digital humanities researchers to prepare their corpora (consisting of, for example, digitised newspapers and books) for textual analysis. The platform will enable researchers to browse and search the digitised collections compiled, cleaned, enriched and managed by the researchers themselves. Once the relevant research sub-corpus has been compiled, data export tools, using standardised open formats (such as XML, JSON, .csv, .txt, etc.) will enable researchers to export sub-corpus for analysis with existing digital text analysis tools such as MALLET, (http://mallet.cs.umass.edu/topics.php) for topic modelling, VOYANT (http://voyant-tools.org) for data visualisation or AntConC (http://www.laurenceanthony.net/software/antconc/) for concordance and textual analysis.The platform has been conceived as part of a larger and modular virtual research environment service infrastructure (http://www.ghentcdh.ugent.be/projects/dariah-vl_vre.si). In a previous phase, possible frameworks and content management systems were tested, notably Islandora (a digital asset management system based on Fedora Commons and Drupal), but also Mediawiki and Omeka.One of the main challenges of the envisaged new platform is the possibility to integrate a wider variety of possible textual data streams (including a scan workflow). In addition, user-friendliness, scalability, adherence to standards and facilitating the interoperability of data are key issues to be addressed. The platform will build on the existing IIIF format, the International Image Interoperability Framework. This format is used by some of the most important libraries and cultural heritage institutions in the world, therefore providing access to enormous collections of digital objects. As the name suggests, IIIF is mainly focused on displaying and annotating images. However, we fully endorse the IIIF-community’s vision to develop an overarching interoperability framework for other data types, including all kinds of textual data. Benefits of the format include the interoperability, the ease of sharing images and annotations without the need to exchange files, and its support for multilingual data. In the months leading up to the conference, we will evaluate the existing IIIFpowered digital libraries and research projects and how they deal with practices of co-creation, data cleaning and enrichment of (structural) metadata. OCR improvement will become vital, as digital textual analysis can only be performed well on high-quality textual data. A related challenge will be combining the various input formats and converting them to different output formats required for analysis. In our poster, we will present a summary of our experiences with and technical assessment of our previous Islandora installation, in addition to our survey of the existing corpus management solutions. As a way of conclusion, we will introduce the envisioned new version of the platform.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Ghent University Aca...arrow_drop_down
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    Hyper Article en Ligne
    Other literature type . 2017
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  • Authors: Gius, Evelyn;

    International audience; CLARIN and DARIAH sustainability from the point of view of the DHd (Association Digital Humanities in the German speaking area)

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Illmayer, Klaus;

    SSH Open Marketplace (https://marketplace.sshopencloud.eu) acts as a place to get information on tools, services, training materials, publications, datasets, and workflows from the Social Sciences and Humanities domain. Users can propose to add new items or to extend the information about existing items. SSH Open Marketplace data model operates with dynamic fields that can be connected to vocabularies. The presentation gives information about the technical background of the integration of vocabularies and shares experiences with this approach. On the “SSH vocabs commons” project the used vocabularies of the SSH Open Marketplace are represented. Ideas on how to further develop the “SSH vocabs commons” project are discussed from the perspective of the SSH Open Marketplace.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Giraldo, Olga; Dessi, Danilo; Dietze, Stefan; Rebholz-Schuhmann, Dietrich; +1 Authors

    Research data is on its way to be recognized as a first-class citizen in research; however, and despite its importance for science, software still has a long way to go. Recent initiatives are paving the way, including FAIR for Research Software and Software Management Plans. A step further towards machine-actionability is adding a structured metadata layer. Here we discuss some metadata elements useful to represent software and integrate it into management plans, and how it could be of benefit for NFDI. These slides were presented at CoRDI Conference 2023 and the corresponding paper is available at https://doi.org/10.52825/cordi.v1i.279. The machine-actional SMP project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 101017536 and is part of the Research Data Alliance and European Open Science Cloud Future call 2022. NFDI4DataScience consortium is funded by the Deutsche Forschungsgemeinschaft DFG, project no.460234259.

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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Błaszczyńska, Marta; Melinščak Zlodi, Iva; Morka, Agata; Proudman, Vanessa; +1 Authors

    Given the dynamic rate of change in the OA books business models landscape, the OPERAS Open Access Business Models Special Interest Group launched a survey in 2021 to 1) improve our understanding of the scholarly publishing landscape and of the challenges that publishers face in the context of publishing OA monographs; and 2) to identify main trends (including opportunities and challenges) and the knowledge of collaborative funding and infrastructure models in OA publishing in Social Science and the Humanities. This white paper updates and expands an earlier version published in 2021, which presented the preliminary analysis of the findings. Despite a small sample of presses meaning that no strong trends ought to be discussed, several insights were drawn and should be considered important directions for the future. Key findings in the report have been grouped into three main areas: collaboration, funding, and support. The report found that, although not opposed to the idea, a majority of presses do not engage in collaboration, specifically collaborative models for shared infrastructure, mainly due to the lack of knowledge and information, or perceived lack of need. This indicates that, for OA books, we are still at the early stage of the adoption curve for collaborative shared infrastructure. In terms of funding, most publishers perceive themselves to be somewhat sustainable. For institutional publishers, parent organisations are crucial as providers of financial or non-monetary support of OA. In addition, most publishers stress the need to have more resources and rely on more than one funding source, including grants and subsidies. The report found that awareness-raising and targeted support and training could be used to engage the presses but further incentivisation may be required to encourage publishers to collaborate more widely. We believe that the insights from this white paper may be interesting to a number of projects, such as DIAMAS, OPERAS-PLUS, and Palomera and have presented areas for further research and more specific actionable points for these projects.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODO; Croatian Sci...arrow_drop_down
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Berg, Hannes; Wirtz Martin, Maria A.; Altincekic, Nadide; Alshamleh, Islam; +20 Authors

    SARS-CoV-2 (SCoV2) and its variants of concern pose serious challenges to the public health. The variants increased challenges to vaccines, thus necessitating for development of new intervention strategies including anti-virals. Within the international Covid19-NMR consortium, we have identified binders targeting the RNA genome of SCoV2. We established protocols for the production and NMR characterization of more than 80 % of all SCoV2 proteins. Here, we performed an NMR screening using a fragment library for binding to 25 SCoV2 proteins and identified hits also against previously unexplored SCoV2 proteins. Computational mapping was used to predict binding sites and identify functional moieties (chemotypes) of the ligands occupying these pockets. Striking consensus was observed between NMR-detected binding sites of the main protease and the computational procedure. Our investigation provides novel structural and chemical space for structure-based drug design against the SCoV2 proteome. Angewandte Chemie. International Edition, 61 (46) ISSN:0570-0833 ISSN:1433-7851 ISSN:1521-3773

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    Article . 2022
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    Authors: Francis P. Crawley; ChallacePahlevan-Ibrekic;

    AI models, and Machine Learning (ML) in particular, are excellent tools that can be used by a learning healthcare system to immediately impact healthcare delivery and patient outcomes. To achieve high impact, researchers must be able to effectively communicate to ethics professionals the essential components of the specific system, so that IRBs (and IACUCS when such algorithms are used in animal research) can accurately calculate the risk/benefit profile of the model, and thus document their criteria for approval. However, this task is daunting at best, and often what is offered by way of system description is beyond the scope of most IRB members' expertise. There is some guidance from federal agencies, but additional discussion is necessary to identify true risk and possible benefit of such models so that the field can assess appropriate review pathways for AI and ML-centered research. Through in-depth discussion and case study review, this presentation will offer tools to identify AI/ML models used in research and their risks and benefits, and present practical strategies for regulatory review so that such research is implemented with the highest of ethical standards and the precision of good science. Case studies will be discussed to allow attendees to use materials later for training IRB members. Learning Objectives: Discuss various AI models and technologies that employ them Examine strategies to use when reviewing protocols with AI and ML components Identify risks and concerns regarding privacy and confidentiality Gain an understanding of US, EU and other international AI ethics standards that apply to IRB review The views presented here are those of the speakers. They do not necessarily reflect those of any organisation. Francis gratefully acknowledges the work Ukraine Clinical Research Support Initiative (UCRSI), of the International Science Council’s CODATA International Data Policy Committee (IDPC), and the EOSC-Future / RDA Artificial Intelligence & Data Visitation Working Group (AIDV-WG). Francis’ EOSC Future / RDA Ambassador for Ethics & Law and the EOSC-Future projects are co-funded by the European Union’s Horizon Programme call INFRAEOSC-03-2020 - Project ID 101017536. CODATA is funded by the International Science Council (ISC) and Horizon Europe as well as by other funding organisations. The Research Data Alliance (RDA) is funded by Horizon Europe as well as by other funding organisations (see here). Francis is grateful for the support provided by CODATA and the EOSC-Future and the RDA communities, structures, and secretariats.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Ernst, Elisabeth;

    The OPERAS-PLUS Data Management Plan (DMP) provides information regarding the collection, management, and processing of data collected and/or produced during the project phase (1 September 2022-31 August 2025) and outlines measures to make this data FAIR (findable, accessible, interoperable, reusable).

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Grimes, Lorraine; Lanigan, Clare; Singhvi, Preetam;

    This presentation describes how the Archiving Reproductive Health project at the Digital Repository of Ireland can be used as a FAIR data resource for humanities researchers. It summarises the project progress to date and explain how ARH's digital collections can be used by researchers to build databases or data tools, can be searched using standardised vocabularies, and its outputs shared as openly licensed publications. It was created by Clare Lanigan, Preetam Singhvi and Dr Lorraine Grimes of the ARH project and delivered by Clare Lanigan at the DARIAH Annual Event 2023 (https://annualevent.dariah.eu/) in Budapest on 8 June 2023. Funded by Wellcome Trust (UK) Research Resources Award

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    Authors: Birger Jerlehag;

    Discusses thew relations and dependencies between CoreTrustCertification and FAIR data objects principles.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Daems, Joke; Chambers, Sally; Verbruggen, Christophe; Zere, Tecle;

    International audience; The digital text platform is part of the Flemish contribution to DARIAH Belgium (DARIAH = Digital Research Infrastructure for the Arts and Humanities). The goal is to create a platform for the collaborative management and discovery of digitised textual collections that allows digital humanities researchers to prepare their corpora (consisting of, for example, digitised newspapers and books) for textual analysis. The platform will enable researchers to browse and search the digitised collections compiled, cleaned, enriched and managed by the researchers themselves. Once the relevant research sub-corpus has been compiled, data export tools, using standardised open formats (such as XML, JSON, .csv, .txt, etc.) will enable researchers to export sub-corpus for analysis with existing digital text analysis tools such as MALLET, (http://mallet.cs.umass.edu/topics.php) for topic modelling, VOYANT (http://voyant-tools.org) for data visualisation or AntConC (http://www.laurenceanthony.net/software/antconc/) for concordance and textual analysis.The platform has been conceived as part of a larger and modular virtual research environment service infrastructure (http://www.ghentcdh.ugent.be/projects/dariah-vl_vre.si). In a previous phase, possible frameworks and content management systems were tested, notably Islandora (a digital asset management system based on Fedora Commons and Drupal), but also Mediawiki and Omeka.One of the main challenges of the envisaged new platform is the possibility to integrate a wider variety of possible textual data streams (including a scan workflow). In addition, user-friendliness, scalability, adherence to standards and facilitating the interoperability of data are key issues to be addressed. The platform will build on the existing IIIF format, the International Image Interoperability Framework. This format is used by some of the most important libraries and cultural heritage institutions in the world, therefore providing access to enormous collections of digital objects. As the name suggests, IIIF is mainly focused on displaying and annotating images. However, we fully endorse the IIIF-community’s vision to develop an overarching interoperability framework for other data types, including all kinds of textual data. Benefits of the format include the interoperability, the ease of sharing images and annotations without the need to exchange files, and its support for multilingual data. In the months leading up to the conference, we will evaluate the existing IIIFpowered digital libraries and research projects and how they deal with practices of co-creation, data cleaning and enrichment of (structural) metadata. OCR improvement will become vital, as digital textual analysis can only be performed well on high-quality textual data. A related challenge will be combining the various input formats and converting them to different output formats required for analysis. In our poster, we will present a summary of our experiences with and technical assessment of our previous Islandora installation, in addition to our survey of the existing corpus management solutions. As a way of conclusion, we will introduce the envisioned new version of the platform.

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    Hyper Article en Ligne
    Other literature type . 2017
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  • Authors: Gius, Evelyn;

    International audience; CLARIN and DARIAH sustainability from the point of view of the DHd (Association Digital Humanities in the German speaking area)

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Illmayer, Klaus;

    SSH Open Marketplace (https://marketplace.sshopencloud.eu) acts as a place to get information on tools, services, training materials, publications, datasets, and workflows from the Social Sciences and Humanities domain. Users can propose to add new items or to extend the information about existing items. SSH Open Marketplace data model operates with dynamic fields that can be connected to vocabularies. The presentation gives information about the technical background of the integration of vocabularies and shares experiences with this approach. On the “SSH vocabs commons” project the used vocabularies of the SSH Open Marketplace are represented. Ideas on how to further develop the “SSH vocabs commons” project are discussed from the perspective of the SSH Open Marketplace.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Giraldo, Olga; Dessi, Danilo; Dietze, Stefan; Rebholz-Schuhmann, Dietrich; +1 Authors

    Research data is on its way to be recognized as a first-class citizen in research; however, and despite its importance for science, software still has a long way to go. Recent initiatives are paving the way, including FAIR for Research Software and Software Management Plans. A step further towards machine-actionability is adding a structured metadata layer. Here we discuss some metadata elements useful to represent software and integrate it into management plans, and how it could be of benefit for NFDI. These slides were presented at CoRDI Conference 2023 and the corresponding paper is available at https://doi.org/10.52825/cordi.v1i.279. The machine-actional SMP project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 101017536 and is part of the Research Data Alliance and European Open Science Cloud Future call 2022. NFDI4DataScience consortium is funded by the Deutsche Forschungsgemeinschaft DFG, project no.460234259.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Błaszczyńska, Marta; Melinščak Zlodi, Iva; Morka, Agata; Proudman, Vanessa; +1 Authors

    Given the dynamic rate of change in the OA books business models landscape, the OPERAS Open Access Business Models Special Interest Group launched a survey in 2021 to 1) improve our understanding of the scholarly publishing landscape and of the challenges that publishers face in the context of publishing OA monographs; and 2) to identify main trends (including opportunities and challenges) and the knowledge of collaborative funding and infrastructure models in OA publishing in Social Science and the Humanities. This white paper updates and expands an earlier version published in 2021, which presented the preliminary analysis of the findings. Despite a small sample of presses meaning that no strong trends ought to be discussed, several insights were drawn and should be considered important directions for the future. Key findings in the report have been grouped into three main areas: collaboration, funding, and support. The report found that, although not opposed to the idea, a majority of presses do not engage in collaboration, specifically collaborative models for shared infrastructure, mainly due to the lack of knowledge and information, or perceived lack of need. This indicates that, for OA books, we are still at the early stage of the adoption curve for collaborative shared infrastructure. In terms of funding, most publishers perceive themselves to be somewhat sustainable. For institutional publishers, parent organisations are crucial as providers of financial or non-monetary support of OA. In addition, most publishers stress the need to have more resources and rely on more than one funding source, including grants and subsidies. The report found that awareness-raising and targeted support and training could be used to engage the presses but further incentivisation may be required to encourage publishers to collaborate more widely. We believe that the insights from this white paper may be interesting to a number of projects, such as DIAMAS, OPERAS-PLUS, and Palomera and have presented areas for further research and more specific actionable points for these projects.

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