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9 Research products

  • DARIAH EU
  • 2019-2023
  • Open Access
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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: E. A. Huerta; Ben Blaiszik; L. Catherine Brinson; Kristofer E. Bouchard; +20 Authors

    A foundational set of findable, accessible, interoperable, and reusable (FAIR) principles were proposed in 2016 as prerequisites for proper data management and stewardship, with the goal of enabling the reusability of scholarly data. The principles were also meant to apply to other digital assets, at a high level, and over time, the FAIR guiding principles have been re-interpreted or extended to include the software, tools, algorithms, and workflows that produce data. FAIR principles are now being adapted in the context of AI models and datasets. Here, we present the perspectives, vision, and experiences of researchers from different countries, disciplines, and backgrounds who are leading the definition and adoption of FAIR principles in their communities of practice, and discuss outcomes that may result from pursuing and incentivizing FAIR AI research. The material for this report builds on the FAIR for AI Workshop held at Argonne National Laboratory on June 7, 2022. 10 pages, comments welcome!; v2: 12 pages, accepted to Scientific Data

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    Scientific Data
    Article . 2023 . Peer-reviewed
    License: CC BY
    Data sources: Sygma; Crossref
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    Scientific Data
    Article . 2022
    https://doi.org/10.48550/arxiv...
    Article . 2022
    License: arXiv Non-Exclusive Distribution
    Data sources: Datacite; Sygma
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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/ Scientific Dataarrow_drop_down
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      Scientific Data
      Article . 2023 . Peer-reviewed
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      Article . 2022
      https://doi.org/10.48550/arxiv...
      Article . 2022
      License: arXiv Non-Exclusive Distribution
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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: Irina, Balaur; Danielle, Welter; David, Nickerson; Rahuman, Sheriff; +5 Authors

    The poster introducing our preliminary work on FAIRification of biosimulations. The poster was preented at the ICSB 2022 (Berlin), where a follow-up flash talk was also given.

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    Conference object . 2023
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    Presentation . 2023
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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: Börner, Ingo; Fischer, Frank; Giovannini, Luca; Lu, Christopher; +4 Authors

    The process of onboarding new texts onto already established platforms, such as the Drama Corpora (DraCor) ecosystem, poses several challenges in terms of data curation and homogenization. We present here for discussion the prototypes of some pipelines, workflows, and tools embedding plays from diverse sources and formats into the DraCor environment. As a showcase of our approach, we also report on the building process of two new corpora (the English-language EPDraCor and the Ukrainian UDraCor), whose different sources require a flexible and tailored approach. Ein Beitrag zur 9. Tagung des Verbands "Digital Humanities im deutschsprachigen Raum" - DHd 2023 Open Humanities Open Culture.

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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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    Article . 2023
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    Other literature type . 2023
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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: Josh Moore; Daniela Basurto-Lozada; Sébastien Besson; John Bogovic; +65 Authors

    A growing community is constructing a next-generation file format (NGFF) for bioimaging to overcome problems of scalability and heterogeneity. Organized by the Open Microscopy Environment (OME), individuals and institutes across diverse modalities facing these problems have designed a format specification process (OME-NGFF) to address these needs. This paper brings together a wide range of those community members to describe the cloud-optimized format itself-OME-Zarr-along with tools and data resources available today to increase FAIR access and remove barriers in the scientific process. The current momentum offers an opportunity to unify a key component of the bioimaging domain-the file format that underlies so many personal, institutional, and global data management and analysis tasks. Histochemistry and Cell Biology, 160 (3) ISSN:0948-6143 ISSN:1432-119X

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    Histochemistry and Cell Biology
    Article . 2023 . Peer-reviewed
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    Europe PubMed Central
    Other literature type . 2023
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    Research Collection
    Article . 2023
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      Histochemistry and Cell Biology
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    Authors: Callingham, J. R.; Shimwell, T. W.; Vedantham, H. K.; Bassa, C. G.; +43 Authors

    The LOFAR data in this manuscript were processed by the LOFAR Two-Metre Sky Survey (LoTSS) team. This team made use of the LOFAR direction-independent calibration pipeline (https://github.com/lofar-astron/prefactor), which was deployed by the LOFAR e-infragroup on the Dutch National Grid infrastructure with support of the SURF Co-operative through grants e-infra 160022 e-infra 160152 (Mechev et al. 2017). The LoTSS direction dependent calibration and imaging pipeline (http://github.com/mhardcastle/ddf-pipeline/) was run on compute clusters at Leiden Observatory and the University of Hertfordshire, which are supported by a European Research Council (ERC) Advanced Grant [NEWCLUSTERS-321271] and the UK Science and Technology Funding Council (STFC) [ST/P000096/1]. The Jülich LOFAR Long Term Archive and the German LOFAR network are both coordinated and operated by the Jülich Supercomputing Centre (JSC), and computing resources on the supercomputer JUWELS at JSC were provided by the Gauss Centre for Supercomputing e.V. (grant CHTB00) through the John von Neumann Institute for Computing (NIC). J.R.C. thanks the Nederlandse Organisatie voor Wetenschappelijk Onderzoek (NWO) for support via the Talent Programme Veni grant. H.K. and S.B. acknowledge funding from the NWO for the project e-MAPS (project number Vi.Vidi.203.093) under the NWO talent scheme VIDI. T.W.H.Y. acknowledges funding from EOSC Future (Grant Agreement no. 101017536) projects funded by the European Union’s Horizon 2020 research and innovation programme. P.N.B. is grateful for support from the UK STFC via grant ST/V000594/1. M.J.H. acknowledges support from the UK STFC [ST/V000624/1]. M.H. acknowledges funding from the ERC under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 772663). R.J.v.W. and R.T. acknowledge support from the ERC Starting Grant ClusterWeb 804208. G.J.W. gratefully acknowledges the support of an Emeritus Fellowship from The Leverhulme Trust. D.J.B. acknowledges funding from the German Science Foundation DFG, via the Collaborative Research Center SFB1491 “Cosmic Interacting Matters – From Source to Signal”. A. Bonafede, A. Botteon, D.N.H., and C.J.R. acknowledge support from ERC Stg DRA-NOEL n. 714245 and MIUR FARE grant “SMS”. A.D. acknowledges support by the BMBF Verbundforschung under the grant 05A20STA. K.L.E. is a Jan-sky Fellow of the National Radio Astronomy Observatory. M. Haj and K.C.H. acknowledge the MSHE for granting funds for the Polish contribution to the International LOFAR Telescope (MSHE decision no. DIR/WK/2016/2017/05-1) and for maintenance of the LOFAR PL-612 Baldy (MSHE decision no. 59/E-383/SPUB/SP/2019.1), and LOFAR PL-611 Lazy (MSHE decision no. 46/E-338/SPUB/SP/2019). M.K. acknowledges support from the German Science Foundation DFG, via the Research Unit FOR 5195 “Relativistic Jets in Active Galaxies”. M.K.B. acknowledges support from the National Science Centre, Poland under grant no. 2017/26/E/ST9/00216. B.M. acknowledges support from the UK STFC under grants ST/R00109X/1, ST/R000794/1, and ST/T000295/1. L.K.M. is grateful for support from the UKRI Future Leaders Fellowship (grant MR/T042842/1). D.G.N. acknowledges funding from Conicyt through Fondecyt Postdoctorado (project code 3220195). M.P.T. acknowledges financial support from the Spanish Ministerio de Ciencia e Innovación (MCIN), the Agencia Estatal de Investigación (AEI) through the “Center of Excellence Severo Ochoa” award to the Instituto de Astrofísica de Andalucía (SEV-2017-0709) and through grant PID2020-117404GB-C21 funded by MCIN/AEI/10.13039/501100011033. T.P.R. acknowledges support from the ERC Grant No. 743029 (EASY). A.R. acknowledges funding from the NWO Aspasia grant (number: 015.016.033). M.V. acknowledges financial support from the Inter-University Institute for Data Intensive Astronomy (IDIA), a partnership of the University of Cape Town, the University of Pretoria, the University of the Western Cape and the South African Radio Astronomy Observatory, and from the South African Department of Science and Innovation’s National Research Foundation under the ISARP RADIOSKY2020 Joint Research Scheme (DSI-NRF Grant Number 113121) and the CSUR HIPPO Project (DSI-NRF Grant Number 121291). This research has made use of the SIMBAD database, operated at CDS, Strasbourg, France, and NASA’s Astrophysics Data System. This work has also made use of TOPCAT (Taylor 2005); the IPYTHON package (Pérez & Granger 2007); SciPy (Jones et al. 2001); MATPLOTLIB, a PYTHON library for publication quality graphics (Hunter 2007); ASTROPY, a community-developed core PYTHON package for astronomy (Astropy Collaboration 2013); and NUMPY (Van Der Walt et al. 2011). We present the detection of 68 sources from the most sensitive radio survey in circular polarisation conducted to date. We used the second data release of the 144 MHz LOFAR Two-metre Sky Survey to produce circularly polarised maps with a median noise of 140 µJy beam−1 and resolution of 20″ for ≈27% of the northern sky (5634 deg2). The leakage of total intensity into circular polarisation is measured to be ≈0.06%, and our survey is complete at flux densities ≥1 mJy. A detection is considered reliable when the circularly polarised fraction exceeds 1%. We find the population of circularly polarised sources is composed of four distinct classes: stellar systems, pulsars, active galactic nuclei, and sources unidentified in the literature. The stellar systems can be further separated into chromospherically active stars, M dwarfs, and brown dwarfs. Based on the circularly polarised fraction and lack of an optical counterpart, we show it is possible to infer whether the unidentified sources are likely unknown pulsars or brown dwarfs. By the completion of this survey of the northern sky, we expect to detect 300±100 circularly polarised sources. © The Authors 2023. Full list of authors: Callingham, J. R.; Shimwell, T. W.; Vedantham, H. K.; Bassa, C. G.; O'Sullivan, S. P.; Yiu, T. W. H.; Bloot, S.; Best, P. N.; Hardcastle, M. J.; Haverkorn, M.; Kavanagh, R. D.; Lamy, L.; Pope, B. J. S.; Rottgering, H. J. A.; Schwarz, D. J.; Tasse, C.; van Weeren, R. J.; White, G. J.; Zarka, P.; Bomans, D. J.; Bonafede, A.; Bonato, M.; Botteon, A.; Bruggen, M.; Chyzy, K. T.; Drabent, A.; Emig, K. L.; Gloudemans, A. J.; Guerkan, G.; Hajduk, M.; Hoang, D. N.; Hoeft, M.; Iacobelli, M.; Kadler, M.; Kunert-Bajraszewska, M.; Mingo, B.; Morabito, L. K.; Nair, D. G.; Perez-Torres, M.; Ray, T. P.; Riseley, C. J.; Rowlinson, A.; Shulevski, A.; Sweijen, F.; Timmerman, R.; Vaccari, M.; Zheng, J.-- This is an Open Access article, published by EDP Sciences, under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. With funding from the Spanish government through the "Severo Ochoa Centre of Excellence" accreditation (CEX2021-001131-S). Peer reviewed

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    Authors: Boveia, Antonio; Doglioni, Caterina; Gao, Boyu; Greaves, Josh; +18 Authors

    Comparisons of the coverage of current and proposed dark matter searches can help us to understand the context in which a discovery of particle dark matter would be made. In some scenarios, a discovery could be reinforced by information from multiple, complementary types of experiments; in others, only one experiment would see a signal, giving only a partial, more ambiguous picture; in still others, no experiment would be sensitive and new approaches would be needed. In this whitepaper, we present an update to a similar study performed for the European Strategy Briefing Book performed within the dark matter at the Energy Frontier (EF10) Snowmass Topical Group We take as a starting point a set of projections for future collider facilities and a method of graphical comparisons routinely performed for LHC DM searches using simplified models recommended by the LHC Dark Matter Working Group and also used for the BSM and dark matter chapters of the European Strategy Briefing Book. These comparisons can also serve as launching point for cross-frontier discussions about dark matter complementarity. Comment: Submitted to the Proceedings of the US Community Study on the Future of Particle Physics (Snowmass 2021)

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    Authors: Foka, Anna; Demiroglu, Osman Cenk; Barker, Elton; Mostofian, Nasrin; +4 Authors

    Abstract This progress article focuses on an overview of the potential and challenges of using contemporary Geographic Information System (GIS) applications for the visual rendering and analysis of textual spatial data. The case study is an ancient traveling narrative, Pausanias’s Description of Greece (Periegesis Hellados) which was written in the second century CE. First, we describe the process of converting the volumes to spatial data using a customized version of the open-source digital semantic annotation platform Recogito. Then the focus shifts to the implementation of collected and organized spatial data to a number of GIS applications: namely Google Maps, DARIAH Geo-Browser, Gephi, Palladio and ArcGIS. Through empirical experimentation with spatial data and their implementation in different platforms, our paper charts the ways in which contemporary GIS applications may be implemented to cast new light on ancient understandings of identity, space, and place.

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    Authors: Barbot, Laure; Broeder, Daan; Durco, Matej; Jääskeläinen, Taina; +5 Authors
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    https://doi.org/10.21428/7a458...
    Other literature type . Conference object . 2021 . Peer-reviewed
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      https://doi.org/10.21428/7a458...
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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: Daga, Enrico; Asprino, Luigi; Damiano, Rossana; Diaz Agudo, Belen; +9 Authors

    Digital archives of memory institutions are typically concerned with the cataloguing of artefacts of artistic, historical, and cultural value. Recently, new forms of citizen participation in cultural heritage have emerged, producing a wealth of material spanning from visitors’ experiential feedback on exhibitions and cultural artefacts, to digitally mediated interactions like the ones happening on social media platforms. Citizen curation is proposed in the context of the European project SPICE - Social Participation, Cohesion, and Inclusion through Cultural Engagement - as a methodology for producing, collecting, interpreting, and archiving people’s responses to cultural objects, with the aim of favouring the emergence of multiple, sometimes conflicting viewpoints, and motivating users and memory institutions to reflect upon them. We argue that citizen curation urges to rethink the nature of computational infrastructures supporting data management of memory institutions, bringing novel challenges that include issues of distribution, authoritativeness, interdependence, privacy, and rights management. To approach these issues, we survey relevant literature towards a distributed, Linked Data infrastructure, with a focus on identifying the roles and requirements involved in such an infrastructure. We show how existing research can contribute significantly in facing the challenges raised by citizen curation, and discuss challenges and opportunities from the socio-technical standpoint.

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    Article . 2021
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9 Research products
  • 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: E. A. Huerta; Ben Blaiszik; L. Catherine Brinson; Kristofer E. Bouchard; +20 Authors

    A foundational set of findable, accessible, interoperable, and reusable (FAIR) principles were proposed in 2016 as prerequisites for proper data management and stewardship, with the goal of enabling the reusability of scholarly data. The principles were also meant to apply to other digital assets, at a high level, and over time, the FAIR guiding principles have been re-interpreted or extended to include the software, tools, algorithms, and workflows that produce data. FAIR principles are now being adapted in the context of AI models and datasets. Here, we present the perspectives, vision, and experiences of researchers from different countries, disciplines, and backgrounds who are leading the definition and adoption of FAIR principles in their communities of practice, and discuss outcomes that may result from pursuing and incentivizing FAIR AI research. The material for this report builds on the FAIR for AI Workshop held at Argonne National Laboratory on June 7, 2022. 10 pages, comments welcome!; v2: 12 pages, accepted to Scientific Data

    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/ Scientific Dataarrow_drop_down
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    Scientific Data
    Article . 2023 . Peer-reviewed
    License: CC BY
    Data sources: Sygma; Crossref
    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/
    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/
    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/
    Scientific Data
    Article . 2022
    https://doi.org/10.48550/arxiv...
    Article . 2022
    License: arXiv Non-Exclusive Distribution
    Data sources: Datacite; Sygma
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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/ Scientific Dataarrow_drop_down
      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/
      Scientific Data
      Article . 2023 . Peer-reviewed
      License: CC BY
      Data sources: Sygma; Crossref
      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/
      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/
      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/
      Scientific Data
      Article . 2022
      https://doi.org/10.48550/arxiv...
      Article . 2022
      License: arXiv Non-Exclusive Distribution
      Data sources: Datacite; Sygma
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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: Irina, Balaur; Danielle, Welter; David, Nickerson; Rahuman, Sheriff; +5 Authors

    The poster introducing our preliminary work on FAIRification of biosimulations. The poster was preented at the ICSB 2022 (Berlin), where a follow-up flash talk was also given.

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    Conference object . 2023
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    Data sources: Datacite
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    Other literature type . 2023
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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/
    ZENODO
    Presentation . 2023
    License: CC BY
    Data sources: Datacite
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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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