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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: Marek Ostaszewski; Anna Niarakis; Alexander Mazein; Inna Kuperstein; +136 Authors

    "Article signat per més de 50 autors/es: Marek Ostaszewski, Anna Niarakis, Alexander Mazein, Inna Kuperstein, Robert Phair, Aurelio Orta-Resendiz, Vidisha Singh, Sara Sadat Aghamiri, Marcio Luis Acencio, Enrico Glaab, Andreas Ruepp, Gisela Fobo, Corinna Montrone, Barbara Brauner, Goar Frishman, Luis Cristóbal Monraz Gómez, Julia Somers, Matti Hoch, Shailendra Kumar Gupta, Julia Scheel, Hanna Borlinghaus, Tobias Czauderna, Falk Schreiber, Arnau Montagud, Miguel Ponce de Leon, Akira Funahashi, Yusuke Hiki, Noriko Hiroi, Takahiro G Yamada, Andreas Dräger, Alina Renz, Muhammad Naveez, Zsolt Bocskei, Francesco Messina, Daniela Börnigen, Liam Fergusson, Marta Conti, Marius Rameil, Vanessa Nakonecnij, Jakob Vanhoefer, Leonard Schmiester, Muying Wang,Emily E Ackerman, Jason E Shoemaker, Jeremy Zucker, Kristie Oxford, Jeremy Teuton, Ebru Kocakaya, Gökçe Yağmur Summak, Kristina Hanspers, Martina Kutmon, Susan Coort, Lars Eijssen, Friederike Ehrhart, Devasahayam Arokia Balaya,Denise Slenter, Marvin Martens, Nhung Pham, Robin Haw, Bijay Jassal, Lisa Matthews, Marija Orlic-Milacic, Andrea Senff Ribeiro, Karen Rothfels, Veronica Shamovsky, Ralf Stephan, Cristoffer Sevilla, Thawfeek Varusai, Jean-Marie Ravel, Rupsha Fraser, Vera Ortseifen, Silvia Marchesi, Piotr Gawron, Ewa Smula, Laurent Heirendt, Venkata Satagopam, Guanming Wu, Anders Riutta, Martin Golebiewski, Stuart Owen51,Carole Goble, Xiaoming Hu, Rupert W Overall, Dieter Maier, Angela Bauch, Benjamin M Gyori, John A Bachman, Carlos Vega, Valentin Grouès, Miguel Vazquez, Pablo Porras, Luana Licata, Marta Iannuccelli, Francesca Sacco57, Anastasia Nesterova, Anton Yuryev, Anita de Waard, Denes Turei, Augustin Luna, Ozgun Babur, Sylvain Soliman, Alberto Valdeolivas, Marina Esteban-Medina, Maria Peña-Chilet, Kinza Rian, Tomáš Helikar, Bhanwar Lal Puniya, Dezso Modos, Agatha Treveil, Marton Olbei, Bertrand De Meulder, Stephane Ballereau, Aurélien Dugourd, Aurélien Naldi, Vincent Noël, Laurence Calzone, Chris Sander, Emek Demir, Tamas Korcsmaros, Tom C Freeman, Franck Augé, Jacques S Beckmann, Jan Hasenauer, Olaf Wolkenhauer, Egon L Wilighagen, Alexander R Pico, Chris T Evelo, Marc E Gillespie, Lincoln D Stein, Henning Hermjakob, Peter D'Eustachio, Julio Saez-Rodriguez, Joaquin Dopazo, Alfonso Valencia, Hiroaki Kitano, Emmanuel Barillot, Charles Auffray, Rudi Balling, Reinhard Schneider " We would like to thank Andjela Tatarovic, architect, and Gina Crovetto, a researcher in the field of cancer, for their help with the design of the top-level view diagrams. We would like to acknowledge the Responsible and Reproducible Research (R3) team of the Luxembourg Centre for Systems Biomedicine for supporting the project and providing necessary communication and data sharing resources. The work presented in this paper was carried out using the ELIXIR Luxembourg tools and services. This study was supported by the Luxembourg National Research Fund (FNR) COVID-19 Fast-Track grant programme, grant COVID-19/2020-1/14715687/CovScreen (E. Glaab); European Commission, INFORE grant H2020-ICT-825070 (A. Montagud, M. Ponce de Leon, M. Vazques and A. Valencia); European Commission, PerMedCoE grant H2020-ICT-951773 (A. Montagud, M. Ponce de Leon, M. Vazques and A. Valencia) the Federal Ministry of Education and Research (BMBF, Germany) and the Baden-Württemberg Ministry of Science, the Excellence Strategy of the German Federal and State Governments (A. Renz); German Center for Infection Research (DZIF), grant no 8020708703 (A. Dräger); The Netherlands Organisation for Health Research and Development (ZonMw), grant no 10430012010015, (M. Kutmon, S. Coort, F. Ehrhart, N. Pham, E.L. Willighagen, C.T. Evelo); H2020 Marie Skłodowska-Curie Actions, grant number 765274 (J. Scheel); National Institutes of Health, USA (NIH), grant number U41 HG003751 (L.D. Stein). The development of Reactome is supported by grants from the US National Institutes of Health (U41 HG003751) and the European Molecular Biology Laboratory. We need to effectively combine the knowledge from surging literature with complex datasets to propose mechanistic models of SARS-CoV-2 infection, improving data interpretation and predicting key targets of intervention. Here, we describe a large-scale community effort to build an open access, interoperable and computable repository of COVID-19 molecular mechanisms. The COVID-19 Disease Map (C19DMap) is a graphical, interactive representation of disease-relevant molecular mechanisms linking many knowledge sources. Notably, it is a computational resource for graph-based analyses and disease modelling. To this end, we established a framework of tools, platforms and guidelines necessary for a multifaceted community of biocurators, domain experts, bioinformaticians and computational biologists. The diagrams of the C19DMap, curated from the literature, are integrated with relevant interaction and text mining databases. We demonstrate the application of network analysis and modelling approaches by concrete examples to highlight new testable hypotheses. This framework helps to find signatures of SARS-CoV-2 predisposition, treatment response or prioritisation of drug candidates. Such an approach may help deal with new waves of COVID-19 or similar pandemics in the long-term perspective. Peer Reviewed

    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/ Molecular Systems Bi...arrow_drop_down
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    Molecular Systems Biology
    Article . 2021 . Peer-reviewed
    License: CC BY
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    Apollo
    Other literature type . 2021
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    Molecular Systems Biology
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    Molecular Systems Biology
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    NARCIS
    Article . 2021
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    Apollo
    Article . 2021
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    Serveur académique lausannois
    Article . 2021
    License: CC BY
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    UPCommons. Portal del coneixement obert de la UPC
    Other literature type . Article . 2021 . Peer-reviewed
    License: CC BY
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    Apollo
    Other literature type . 2021
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    Apollo
    Other literature type . 2021
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    Apollo
    Article . 2021
    License: CC BY
    Data sources: Datacite
    Apollo
    Article . 2021
    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: Salloum, Elias; Challita, Georges; Alhussein, Akram; Khalil, Khaled;

    In this paper an analytical model based on finite element energy formulation that calculates free vibration frequencies of cantilevered-free laminated double lap bonded joints is established. 8-noded serendipity element with quadrature Gaussian formula was adopted. This model was validated using 3D finite element model through ANSYS Workbench. The results have shown good agreement for steel and composite while it was not the case for polymeric substrates. Moreover, an experimental procedure for analysing the vibrational response of adhesively composite double lap joints is presented in this paper. The Impulse Excitation Technique (IET) has been adopted in order to measure the resonant frequencies. Two types of substrates were examined: steel and orthotropic glass-polypropylene composite and the adhesive used is a resin/epoxy constituent. Three different substrates thicknesses and three different overlap lengths were examined. Then, the experimental results were compared with numerical simulations using 3D finite element model through ANSYS Workbench. The results have shown good agreement between both models. Finally, the analytical model was applied to compare the experimental results in the scope of a parametric study towards the influence that some geometrical and mechanical properties of the adherents have on the vibrational response of the structure.

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    Conference object . 2019
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    Conference object . 2019
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    Other literature type . Conference object . 2019
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      Conference object . 2019
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      Other literature type . Conference object . 2019
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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: Galdi, Chiara; Chiesa, Valeria; Busch, Christoph; Lobato Correia, Paulo; +2 Authors

    ) + optic. The plenoptic function is the 7-dimensional function representing the intensity of the light observed from every position and direction in 3-dimensional space. Thanks to the plenoptic function it is thus possible to define the direction of every ray in the light-field vector function. Imaging systems are rapidly evolving with the emergence of light-field-capturing devices. Consequently, existing image-processing techniques need to be revisited to match the richer information provided. This article explores the use of light fields for face analysis. This field of research is very recent but already includes several works reporting promising results. Such works deal with the main steps of face analysis and include but are not limited to: face recognition and facial landmark detection. This article aims to review the state of the art on light fields for face analysis, identifying future challenges and possible applications. comes from the Latin words plenus (&ldquo facial soft-biometrics classification face presentation attack detection plenoptic&rdquo The term &ldquo full&rdquo

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    Sensors
    Article . 2019
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    Article . 2019
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  • Authors: Guillard, Herve; Lakhlili, Jalal; Loseille, Adrien; Loyer, Alexis; +3 Authors

    The generation flux aligned mesh for tokamaks is a difficult task that is not easily automated and very often ask for manual intervention and specific expertise. This report presents the work done in the framework workpackage of the WP 5.1 of the EoCoE action to design and build a software for this task.

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    Authors: Norbert, Raphaël;

    L’industrie sidérurgique est l’un des secteurs les plus énergivores contribuant à la consommation mondiale d’énergie et de ressources ainsi qu’aux émissions de dioxyde de carbone. Des efforts ont été réalisés pour augmenter l’efficacité des procédés en interne mais le potentiel d’amélioration est de plus en plus limité. Ce travail de recherche porte donc sur la symbiose industrielle comme solution pour faire face aux enjeux environnementaux sur un territoire industriel et pour laquelle les usines sidérurgiques ont un rôle majeur à jouer. Une nouvelle méthodologie et un nouvel outil évaluant dans le temps les impacts économiques et environnementaux de scénarios de symbiose industrielle sur ces sites ont été développés. Basés sur la dynamique des systèmes, ils visent à favoriser l’emploi des symbioses industrielles dans ce contexte industriel en proposant une approche systématique pour évaluer leurs performances.La méthode développée est décrite après l’étude de ses fondements théoriques. Elle est ensuite appliquée à une usine sidérurgique intégrée typique. Un modèle dynamique est ainsi construit et validé sur une période de simulation de deux ans afin de simuler tout scénario de symbiose industrielle impliquant des flux d'énergie et de matières relatifs aux activités sidérurgiques. Un cas concret d'application de symbiose industrielle dans des conditions opérationnelles réelles est enfin proposé et simulé. Il montre la valeur ajoutée de ce travail de recherche qui vient en support des processus de prise de décisions en matière de symbiose industrielle dans le contexte de l’industrie sidérurgique Iron and steel industry is known as one of the most energy-intensive sectors which contribute to worldwide energy and resource consumptions as well as carbon dioxide emissions. Many efforts have been made to increase the efficiency of internal processes but the potential of improvement tends to be more and more limited. This research work is thus focused on industrial symbiosis as a mean to face these environmental stakes on a common industrial territory and for which iron and steel plants have a major role to play. A new methodology and a new tool aiming at evaluating over time economic and environmental impacts of industrial symbiosis scenarios on this kind of industrial sites have been therefore developed. Based on the system dynamics concepts, they further yearn to enhance the deployment of industrial symbioses in the context of iron and steel industry by providing a systematic approach for assessing their performances.The developed method is described after investigating its theoretical foundations. It is then applied to a typically integrated iron and steel plant. A dynamic model is thus built and validated over a two year simulation period enabling to run industrial symbiosis scenarios involving energy and material flows implied throughout iron and steel production activities. An application case of a concrete industrial symbiosis in real operational conditions is finally proposed and simulated. It allows showing the significant added value of this research work in the support of decisions-making processes towards industrial symbiosis in the framework of iron and steel industry

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    Authors: Marek Ostaszewski; Anna Niarakis; Alexander Mazein; Inna Kuperstein; +136 Authors

    "Article signat per més de 50 autors/es: Marek Ostaszewski, Anna Niarakis, Alexander Mazein, Inna Kuperstein, Robert Phair, Aurelio Orta-Resendiz, Vidisha Singh, Sara Sadat Aghamiri, Marcio Luis Acencio, Enrico Glaab, Andreas Ruepp, Gisela Fobo, Corinna Montrone, Barbara Brauner, Goar Frishman, Luis Cristóbal Monraz Gómez, Julia Somers, Matti Hoch, Shailendra Kumar Gupta, Julia Scheel, Hanna Borlinghaus, Tobias Czauderna, Falk Schreiber, Arnau Montagud, Miguel Ponce de Leon, Akira Funahashi, Yusuke Hiki, Noriko Hiroi, Takahiro G Yamada, Andreas Dräger, Alina Renz, Muhammad Naveez, Zsolt Bocskei, Francesco Messina, Daniela Börnigen, Liam Fergusson, Marta Conti, Marius Rameil, Vanessa Nakonecnij, Jakob Vanhoefer, Leonard Schmiester, Muying Wang,Emily E Ackerman, Jason E Shoemaker, Jeremy Zucker, Kristie Oxford, Jeremy Teuton, Ebru Kocakaya, Gökçe Yağmur Summak, Kristina Hanspers, Martina Kutmon, Susan Coort, Lars Eijssen, Friederike Ehrhart, Devasahayam Arokia Balaya,Denise Slenter, Marvin Martens, Nhung Pham, Robin Haw, Bijay Jassal, Lisa Matthews, Marija Orlic-Milacic, Andrea Senff Ribeiro, Karen Rothfels, Veronica Shamovsky, Ralf Stephan, Cristoffer Sevilla, Thawfeek Varusai, Jean-Marie Ravel, Rupsha Fraser, Vera Ortseifen, Silvia Marchesi, Piotr Gawron, Ewa Smula, Laurent Heirendt, Venkata Satagopam, Guanming Wu, Anders Riutta, Martin Golebiewski, Stuart Owen51,Carole Goble, Xiaoming Hu, Rupert W Overall, Dieter Maier, Angela Bauch, Benjamin M Gyori, John A Bachman, Carlos Vega, Valentin Grouès, Miguel Vazquez, Pablo Porras, Luana Licata, Marta Iannuccelli, Francesca Sacco57, Anastasia Nesterova, Anton Yuryev, Anita de Waard, Denes Turei, Augustin Luna, Ozgun Babur, Sylvain Soliman, Alberto Valdeolivas, Marina Esteban-Medina, Maria Peña-Chilet, Kinza Rian, Tomáš Helikar, Bhanwar Lal Puniya, Dezso Modos, Agatha Treveil, Marton Olbei, Bertrand De Meulder, Stephane Ballereau, Aurélien Dugourd, Aurélien Naldi, Vincent Noël, Laurence Calzone, Chris Sander, Emek Demir, Tamas Korcsmaros, Tom C Freeman, Franck Augé, Jacques S Beckmann, Jan Hasenauer, Olaf Wolkenhauer, Egon L Wilighagen, Alexander R Pico, Chris T Evelo, Marc E Gillespie, Lincoln D Stein, Henning Hermjakob, Peter D'Eustachio, Julio Saez-Rodriguez, Joaquin Dopazo, Alfonso Valencia, Hiroaki Kitano, Emmanuel Barillot, Charles Auffray, Rudi Balling, Reinhard Schneider " We would like to thank Andjela Tatarovic, architect, and Gina Crovetto, a researcher in the field of cancer, for their help with the design of the top-level view diagrams. We would like to acknowledge the Responsible and Reproducible Research (R3) team of the Luxembourg Centre for Systems Biomedicine for supporting the project and providing necessary communication and data sharing resources. The work presented in this paper was carried out using the ELIXIR Luxembourg tools and services. This study was supported by the Luxembourg National Research Fund (FNR) COVID-19 Fast-Track grant programme, grant COVID-19/2020-1/14715687/CovScreen (E. Glaab); European Commission, INFORE grant H2020-ICT-825070 (A. Montagud, M. Ponce de Leon, M. Vazques and A. Valencia); European Commission, PerMedCoE grant H2020-ICT-951773 (A. Montagud, M. Ponce de Leon, M. Vazques and A. Valencia) the Federal Ministry of Education and Research (BMBF, Germany) and the Baden-Württemberg Ministry of Science, the Excellence Strategy of the German Federal and State Governments (A. Renz); German Center for Infection Research (DZIF), grant no 8020708703 (A. Dräger); The Netherlands Organisation for Health Research and Development (ZonMw), grant no 10430012010015, (M. Kutmon, S. Coort, F. Ehrhart, N. Pham, E.L. Willighagen, C.T. Evelo); H2020 Marie Skłodowska-Curie Actions, grant number 765274 (J. Scheel); National Institutes of Health, USA (NIH), grant number U41 HG003751 (L.D. Stein). The development of Reactome is supported by grants from the US National Institutes of Health (U41 HG003751) and the European Molecular Biology Laboratory. We need to effectively combine the knowledge from surging literature with complex datasets to propose mechanistic models of SARS-CoV-2 infection, improving data interpretation and predicting key targets of intervention. Here, we describe a large-scale community effort to build an open access, interoperable and computable repository of COVID-19 molecular mechanisms. The COVID-19 Disease Map (C19DMap) is a graphical, interactive representation of disease-relevant molecular mechanisms linking many knowledge sources. Notably, it is a computational resource for graph-based analyses and disease modelling. To this end, we established a framework of tools, platforms and guidelines necessary for a multifaceted community of biocurators, domain experts, bioinformaticians and computational biologists. The diagrams of the C19DMap, curated from the literature, are integrated with relevant interaction and text mining databases. We demonstrate the application of network analysis and modelling approaches by concrete examples to highlight new testable hypotheses. This framework helps to find signatures of SARS-CoV-2 predisposition, treatment response or prioritisation of drug candidates. Such an approach may help deal with new waves of COVID-19 or similar pandemics in the long-term perspective. Peer Reviewed

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    Molecular Systems Biology
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    Molecular Systems Biology
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    Serveur académique lausannois
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    Authors: Salloum, Elias; Challita, Georges; Alhussein, Akram; Khalil, Khaled;

    In this paper an analytical model based on finite element energy formulation that calculates free vibration frequencies of cantilevered-free laminated double lap bonded joints is established. 8-noded serendipity element with quadrature Gaussian formula was adopted. This model was validated using 3D finite element model through ANSYS Workbench. The results have shown good agreement for steel and composite while it was not the case for polymeric substrates. Moreover, an experimental procedure for analysing the vibrational response of adhesively composite double lap joints is presented in this paper. The Impulse Excitation Technique (IET) has been adopted in order to measure the resonant frequencies. Two types of substrates were examined: steel and orthotropic glass-polypropylene composite and the adhesive used is a resin/epoxy constituent. Three different substrates thicknesses and three different overlap lengths were examined. Then, the experimental results were compared with numerical simulations using 3D finite element model through ANSYS Workbench. The results have shown good agreement between both models. Finally, the analytical model was applied to compare the experimental results in the scope of a parametric study towards the influence that some geometrical and mechanical properties of the adherents have on the vibrational response of the structure.

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    Authors: Galdi, Chiara; Chiesa, Valeria; Busch, Christoph; Lobato Correia, Paulo; +2 Authors

    ) + optic. The plenoptic function is the 7-dimensional function representing the intensity of the light observed from every position and direction in 3-dimensional space. Thanks to the plenoptic function it is thus possible to define the direction of every ray in the light-field vector function. Imaging systems are rapidly evolving with the emergence of light-field-capturing devices. Consequently, existing image-processing techniques need to be revisited to match the richer information provided. This article explores the use of light fields for face analysis. This field of research is very recent but already includes several works reporting promising results. Such works deal with the main steps of face analysis and include but are not limited to: face recognition and facial landmark detection. This article aims to review the state of the art on light fields for face analysis, identifying future challenges and possible applications. comes from the Latin words plenus (&ldquo facial soft-biometrics classification face presentation attack detection plenoptic&rdquo The term &ldquo full&rdquo

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    Article . 2019
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    Article . 2019
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  • Authors: Guillard, Herve; Lakhlili, Jalal; Loseille, Adrien; Loyer, Alexis; +3 Authors

    The generation flux aligned mesh for tokamaks is a difficult task that is not easily automated and very often ask for manual intervention and specific expertise. This report presents the work done in the framework workpackage of the WP 5.1 of the EoCoE action to design and build a software for this task.

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    Authors: Norbert, Raphaël;

    L’industrie sidérurgique est l’un des secteurs les plus énergivores contribuant à la consommation mondiale d’énergie et de ressources ainsi qu’aux émissions de dioxyde de carbone. Des efforts ont été réalisés pour augmenter l’efficacité des procédés en interne mais le potentiel d’amélioration est de plus en plus limité. Ce travail de recherche porte donc sur la symbiose industrielle comme solution pour faire face aux enjeux environnementaux sur un territoire industriel et pour laquelle les usines sidérurgiques ont un rôle majeur à jouer. Une nouvelle méthodologie et un nouvel outil évaluant dans le temps les impacts économiques et environnementaux de scénarios de symbiose industrielle sur ces sites ont été développés. Basés sur la dynamique des systèmes, ils visent à favoriser l’emploi des symbioses industrielles dans ce contexte industriel en proposant une approche systématique pour évaluer leurs performances.La méthode développée est décrite après l’étude de ses fondements théoriques. Elle est ensuite appliquée à une usine sidérurgique intégrée typique. Un modèle dynamique est ainsi construit et validé sur une période de simulation de deux ans afin de simuler tout scénario de symbiose industrielle impliquant des flux d'énergie et de matières relatifs aux activités sidérurgiques. Un cas concret d'application de symbiose industrielle dans des conditions opérationnelles réelles est enfin proposé et simulé. Il montre la valeur ajoutée de ce travail de recherche qui vient en support des processus de prise de décisions en matière de symbiose industrielle dans le contexte de l’industrie sidérurgique Iron and steel industry is known as one of the most energy-intensive sectors which contribute to worldwide energy and resource consumptions as well as carbon dioxide emissions. Many efforts have been made to increase the efficiency of internal processes but the potential of improvement tends to be more and more limited. This research work is thus focused on industrial symbiosis as a mean to face these environmental stakes on a common industrial territory and for which iron and steel plants have a major role to play. A new methodology and a new tool aiming at evaluating over time economic and environmental impacts of industrial symbiosis scenarios on this kind of industrial sites have been therefore developed. Based on the system dynamics concepts, they further yearn to enhance the deployment of industrial symbioses in the context of iron and steel industry by providing a systematic approach for assessing their performances.The developed method is described after investigating its theoretical foundations. It is then applied to a typically integrated iron and steel plant. A dynamic model is thus built and validated over a two year simulation period enabling to run industrial symbiosis scenarios involving energy and material flows implied throughout iron and steel production activities. An application case of a concrete industrial symbiosis in real operational conditions is finally proposed and simulated. It allows showing the significant added value of this research work in the support of decisions-making processes towards industrial symbiosis in the framework of iron and steel industry

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