Financing Models for Sustainable Data Reuse Infrastructure.

Marco Roos https://orcid.org/0000-0002-8691-772X https://www.wikidata.org/entity/Q57432321 https://orkg.org/resource/R135840

Rob W. W. Hooft Marco Roos Financing Models for Sustainable Data Reuse Infrastructure. 2025 24 Data Sci. J. https://doi.org/10.5334/dsj-2025-029 db/journals/datascience/datascience24.html#HooftR25 streams/journals/datascience

César Bernabé Isadora Valle Sousa Tiago Prince Sales Erik Schultes Niek van Ulzen Vítor E. Silva Souza Annika Jacobsen Luiz Olavo Bonino da Silva Santos Barend Mons Marco Roos GO-Plan: A goal-oriented method for FAIRification planning. 100-124 2025 45 Inf. Serv. Use 1-2 https://doi.org/10.1177/18758789251324008 db/journals/isu/isu45.html#BernabeSSSUSJSMR25 streams/journals/isu

Daphne Wijnbergen Rajaram Kaliyaperumal Kees Burger Luiz Olavo Bonino da Silva Santos Barend Mons Marco Roos Eleni Mina The FAIR data point populator: collaborative FAIRification and population of FAIR data points. 211 2025 March 25 BMC Medical Informatics Decis. Mak. 1 https://doi.org/10.1186/s12911-025-03022-7 db/journals/midm/midm25.html#WijnbergenKBSMRM25 streams/journals/midm

César Bernabé Rosa Zwart Pablo Perdomo-Quinteiro Annika Jacobsen Tiago Prince Sales Núria Queralt-Rosinach Katherine Wolstencroft Luiz Olavo Bonino da Silva Santos Barend Mons Marco Roos Restructuring Knowledge Graphs with Conceptual Models: Implications for Machine Learning Predictions in Drug Repurposing. 297-313 2025 CAiSE (2) https://doi.org/10.1007/978-3-031-94571-7_17 conf/caise/2025-2 db/conf/caise/caise2025-2.html#BernabeZPJSQWSMR25 streams/conf/caise

César Henrique Bernabé Lieze Thielemans Rajaram Kaliyaperumal Claudio Carta Shuxin Zhang Celia W. G. van Gelder Nirupama Benis Luiz Olavo Bonino da Silva Santos Ronald Cornet Bruna dos Santos Vieira Nawel Lalout Inês Henriques Alberto Cámara Ballesteros Kees Burger Martijn G. Kersloot Friederike Ehrhart Esther van Enckevort Chris T. A. Evelo Alasdair J. G. Gray Marc Hanauer Kristina M. Hettne Joep de Ligt Arnaldo Pereira Núria Queralt-Rosinach Erik Schultes Domenica Taruscio Andra Waagmeester Mark D. Wilkinson Egon L. Willighagen Mascha Jansen Barend Mons Marco Roos Annika Jacobsen Building Expertise on FAIR Through Evolving Bring Your Own Data (BYOD) Workshops: Describing the Data, Software, and Management-focused Approaches and Their Evolution. 429-456 2024 6 Data Intell. 2 https://doi.org/10.1162/dint_a_00236 https://www.wikidata.org/entity/Q131766477 db/journals/dint/dint6.html#BernabeTKCZGBSCVLHBBKEE24 streams/journals/dint

Rohitha Ravinder Dhwani Solanki Claudio Carta Bruna dos Santos Vieira Johannes Keller 0006 Marco Roos Leyla Jael Castro Designing a FAIRification game for Research Software. 169-170 2024 SWAT4HCLS https://ceur-ws.org/Vol-3890/paper-26.pdf conf/swat4ls/2024 db/conf/swat4ls/swat4hcls2024.html#RavinderSCV0RC24 Daphne Wijnbergen Georgios Malamas Marco Roos Eleni Mina FAIR for automatic federated omics analysis. 178-179 2024 SWAT4HCLS https://ceur-ws.org/Vol-3890/paper-30.pdf conf/swat4ls/2024 db/conf/swat4ls/swat4hcls2024.html#WijnbergenMRM24 Rick Overkleeft Sander van Boom Eric Prud'hommeaux Kees Burger Jip Fransen Teus H. Kappen Luiz Olavo Bonino da Silva Santos Rajaram Kaliyaperumal Marco Roos FAIR Software as a Service: Combining tools to implement FAIR for clinical data platforms. 208-209 2024 SWAT4HCLS https://ceur-ws.org/Vol-3890/paper-45.pdf conf/swat4ls/2024 db/conf/swat4ls/swat4hcls2024.html#OverkleeftBPBFK24 Marco Roos Annika Jacobsen Andrea Splendiani M. Scott Marshall Andra Waagmeester Leyla Jael García Castro Katherine Wolstencroft Kristina M. Hettne Rutger A. Vos 15th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, SWAT4HCLS 2024, Leiden, The Netherlands, February 20th to 26th, 2024. SWAT4HCLS CEUR-WS.org 2024 CEUR Workshop Proceedings https://ceur-ws.org/Vol-3890 https://nbn-resolving.org/urn:nbn:de:0074-3890-8 db/conf/swat4ls/swat4hcls2024.html

César Henrique Bernabé Núria Queralt-Rosinach Vítor E. Silva Souza Luiz Olavo Bonino da Silva Santos Barend Mons Annika Jacobsen Marco Roos The use of foundational ontologies in biomedical research. 21 2023 December 14 J. Biomed. Semant. 1 https://doi.org/10.1186/s13326-023-00300-z db/journals/biomedsem/biomedsem14.html#BernabeQSSMJR23

Philip van Damme Pablo Alarcón Moreno César Henrique Bernabé Alberto Cámara Ballesteros Clémence M. A. Le Cornec Bruna dos Santos Vieira K. Joeri van der Velde Shuxin Zhang Claudio Carta Ronald Cornet Peter A. C. 't Hoen Annika Jacobsen Morris A. Swertz Marco Roos Nirupama Benis A Resource for Guiding Data Stewards to Make European Rare Disease Patient Registries FAIR. 2023 January 22 Data Sci. J. https://doi.org/10.5334/dsj-2023-012 db/journals/datascience/datascience22.html#DammeMBBCVVZCCHJSRB23

César Henrique Bernabé Tiago Prince Sales Erik Schultes Niek van Ulzen Annika Jacobsen Luiz Olavo Bonino da Silva Santos Barend Mons Marco Roos A goal-oriented method for FAIRification planning. 2023 ER (Companion) https://ceur-ws.org/Vol-3618/forum_paper_7.pdf conf/er/2023c db/conf/er/erc2023.html#BernabeSSUJSMR23 César Henrique Bernabé Annika Jacobsen Luiz Olavo Bonino da Silva Santos Marco Roos A Method to Facilitate the Identification of FAIRification Objectives. 179 2023 ICBO https://ceur-ws.org/Vol-3603/Poster1.pdf conf/icbo/2023 db/conf/icbo/icbo2023.html#BernabeJSR23 Alberto Cámara Ballesteros Nirupama Benis César Henrique Bernabé Inés de Oliveira Coelho Clémence M. A. Le Cornec Aylin Demir Bruna dos Santos Vieira Jose Antonio Ramírez K. Joeri van der Velde Shuxin Zhang Ronald Cornet Annika Jacobsen Marco Roos Franz Schaefer Morris A. Swertz Mark D. Wilkinson Surveyed common data access policies preferences amongst European Reference Networks. 107-111 2023 SWAT4HCLS https://ceur-ws.org/Vol-3415/paper-14.pdf conf/swat4ls/2023 db/conf/swat4ls/swat4hcls2023.html#BallesterosBBCC23 Daphne Wijnbergen Rajaram Kaliyaperumal Marco Roos Eleni Mina The FAIR Data Point Populator: collaborative FAIRification and population of FAIR Data Points. 114-115 2023 SWAT4HCLS https://ceur-ws.org/Vol-3415/paper-16.pdf conf/swat4ls/2023 db/conf/swat4ls/swat4hcls2023.html#WijnbergenKRM23 Pablo Perdomo-Quinteiro Sergiu Siminiuc Paraskevi Sakellariou Marco Roos Pietro Spitali Núria Queralt-Rosinach FAIRification and semantic modelling for Duchenne and Becker Muscular Dystrophy rare diseases. 130-132 2023 SWAT4HCLS https://ceur-ws.org/Vol-3415/paper-24.pdf conf/swat4ls/2023 db/conf/swat4ls/swat4hcls2023.html#Perdomo-Quinteiro23 Karolis Cremers Marco Roos Katy Wolstencroft Eleni Mina Núria Queralt-Rosinach Structured review on Huntington's disease iron hypothesis. 147-148 2023 SWAT4HCLS https://ceur-ws.org/Vol-3415/paper-32.pdf conf/swat4ls/2023 db/conf/swat4ls/swat4hcls2023.html#CremersRWMQ23 Núria Queralt-Rosinach Paul N. Schofield Marco Roos Robert Hoehndorf Updating the CEMO ontology for future epidemiological challenges. 151-152 2023 SWAT4HCLS https://ceur-ws.org/Vol-3415/paper-34.pdf conf/swat4ls/2023 db/conf/swat4ls/swat4hcls2023.html#Queralt-Rosinach23

Rajaram Kaliyaperumal Mark D. Wilkinson Pablo Alarcón Moreno Nirupama Benis Ronald Cornet Bruna dos Santos Vieira Michel Dumontier César Henrique Bernabé Annika Jacobsen Clémence M. A. Le Cornec Mario Prieto Godoy Núria Queralt-Rosinach Leo J. Schultze Kool Morris A. Swertz Philip van Damme K. Joeri van der Velde Nawel Lalout Shuxin Zhang Marco Roos Semantic modelling of common data elements for rare disease registries, and a prototype workflow for their deployment over registry data. 9 2022 13 J. Biomed. Semant. 1 https://doi.org/10.1186/s13326-022-00264-6 https://www.wikidata.org/entity/Q112647569 db/journals/biomedsem/biomedsem13.html#KaliyaperumalWM22

Núria Queralt-Rosinach Rajaram Kaliyaperumal César Henrique Bernabé Qinqin Long Simone A. Joosten Henk Jan van der Wijk Erik Flikkenschild Kees Burger Annika Jacobsen Barend Mons Marco Roos Applying the FAIR principles to data in a hospital: challenges and opportunities in a pandemic. 12 2022 13 J. Biomed. Semant. 1 https://doi.org/10.1186/s13326-022-00263-7 https://www.wikidata.org/entity/Q112644097 db/journals/biomedsem/biomedsem13.html#Queralt-Rosinach22

Erik Schultes Marco Roos Luiz Olavo Bonino da Silva Santos Giancarlo Guizzardi Jildau Bouwman Thomas Hankemeier Arie Baak Barend Mons FAIR Digital Twins for Data-Intensive Research. 883341 2022 5 Frontiers Big Data https://doi.org/10.3389/fdata.2022.883341 https://www.wikidata.org/entity/Q112686879 db/journals/fdata/fdata5.html#SchultesRSGBHBM22

Rajaram Kaliyaperumal Gurnoor Singh Núria Queralt-Rosinach Jumamurat Bayjanov Peter Bram 't Hoen Marco Roos Phenopackets for the Semantic Web. 29-33 2022 SWAT4HCLS https://ceur-ws.org/Vol-3127/paper-4.pdf conf/swat4ls/2022 db/conf/swat4ls/swat4hcls2022.html#KaliyaperumalSQ22 César Henrique Bernabé Núria Queralt-Rosinach Vítor E. Silva Souza Luiz Olavo Bonino da Silva Santos Annika Jacobsen Barend Mons Marco Roos The Use of Foundational Ontologies in Bioinformatics. 34-43 2022 SWAT4HCLS https://ceur-ws.org/Vol-3127/paper-5.pdf conf/swat4ls/2022 db/conf/swat4ls/swat4hcls2022.html#BernabeQSSJMR22 Katy Wolstencroft Andrea Splendiani M. Scott Marshall Chris Baker Andra Waagmeester Marco Roos Rutger A. Vos Rianne Fijten Leyla Jael Castro 13th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, SWAT4HCLS 2022, Virtual Event, Leiden, The Netherlands, January 10th to 14th, 2022. SWAT4HCLS CEUR-WS.org CEUR Workshop Proceedings 2022 3127 https://ceur-ws.org/Vol-3127 https://nbn-resolving.org/urn:nbn:de:0074-3127-1 db/conf/swat4ls/swat4hcls2022.html

Martijn G. Kersloot Annika Jacobsen Karlijn H. J. Groenen Bruna dos Santos Vieira Rajaram Kaliyaperumal Ameen Abu-Hanna Ronald Cornet Peter A. C. 't Hoen Marco Roos Leo J. Schultze Kool Derk L. Arts De-novo FAIRification via an Electronic Data Capture system by automated transformation of filled electronic Case Report Forms into machine-readable data. 103897 2021 122 J. Biomed. Informatics https://doi.org/10.1016/j.jbi.2021.103897 https://www.wikidata.org/entity/Q112821652 db/journals/jbi/jbi122.html#KerslootJGVKACH21

Rajaram Kaliyaperumal Núria Queralt Rosinach Kees Burger Luiz Olavo Bonino da Silva Santos Marc Hanauer Marco Roos Enabling FAIR Discovery of Rare Disease Digital Resources. 144-146 2021 dHealth https://doi.org/10.3233/SHTI210101 conf/ehealth2/2021 db/conf/ehealth2/dhealth2021.html#KaliyaperumalRB21 Núria Queralt-Rosinach César Henrique Bernabé Qinqin Long Rajaram Kaliyaperumal Marco Roos LUMC Clinical Ontology for Biomedical Research. 84-88 2021 ICBO https://ceur-ws.org/Vol-3073/paper10.pdf conf/icbo/2021 db/conf/icbo/icbo2021.html#Queralt-Rosinach21 Núria Queralt-Rosinach Mark D. Wilkinson Rajaram Kaliyaperumal César Henrique Bernabé Qinqin Long Michel Dumontier Paul N. Schofield Marco Roos Reuse of Design Pattern Measurements for Health Data. 2021 JOWO https://ceur-ws.org/Vol-2969/paper14-DEMO.pdf conf/jowo/2021 db/conf/jowo/jowo2021.html#Queralt-Rosinach21

Annika Jacobsen Ricardo de Miranda Azevedo Nick S. Juty Dominique Batista Simon J. Coles Ronald Cornet Mélanie Courtot Mercè Crosas Michel Dumontier Chris T. A. Evelo Carole A. Goble Giancarlo Guizzardi Karsten Kryger Hansen Ali Hasnain Kristina M. Hettne Jaap Heringa Rob W. W. Hooft Melanie Imming Keith G. Jeffery Rajaram Kaliyaperumal Martijn G. Kersloot Christine R. Kirkpatrick Tobias Kuhn Ignasi Labastida Barbara Magagna Peter McQuilton Natalie Meyers Annalisa Montesanti Mirjam van Reisen Philippe Rocca-Serra Robert Pergl Susanna-Assunta Sansone Luiz Olavo Bonino da Silva Santos Juliane Schneider George O. Strawn Mark Thompson 0002 Andra Waagmeester Tobias Weigel Mark D. Wilkinson Egon L. Willighagen Peter Wittenburg Marco Roos Barend Mons Erik Schultes FAIR Principles: Interpretations and Implementation Considerations. 10-29 2020 2 Data Intell. 1-2 https://doi.org/10.1162/dint_r_00024 https://www.wikidata.org/entity/Q76394974 db/journals/dint/dint2.html#JacobsenAJBCCCC20

Annalisa Landi Mark Thompson 0002 Viviana Giannuzzi Fedele Bonifazi Ignasi Labastida Luiz Olavo Bonino da Silva Santos Marco Roos The "A" of FAIR - As Open as Possible, as Closed as Necessary. 47-55 2020 2 Data Intell. 1-2 https://doi.org/10.1162/dint_a_00027 https://www.wikidata.org/entity/Q83957141 db/journals/dint/dint2.html#LandiTGBLSR20

Annika Jacobsen Rajaram Kaliyaperumal Luiz Olavo Bonino da Silva Santos Barend Mons Erik Schultes Marco Roos Mark Thompson 0002 A Generic Workflow for the Data FAIRification Process. 56-65 2020 2 Data Intell. 1-2 https://doi.org/10.1162/dint_a_00028 https://www.wikidata.org/entity/Q83957144 db/journals/dint/dint2.html#JacobsenKSMSRT20

Mark Thompson 0002 Kees Burger Rajaram Kaliyaperumal Marco Roos Luiz Olavo Bonino da Silva Santos Making FAIR Easy with FAIR Tools: From Creolization to Convergence. 87-95 2020 2 Data Intell. 1-2 https://doi.org/10.1162/dint_a_00031 https://www.wikidata.org/entity/Q83957157 https://orkg.org/orkg/resource/R135836 db/journals/dint/dint2.html#ThompsonBKRS20

Núria Queralt Rosinach Rajaram Kaliyaperumal César Henrique Bernabé Qinqin Long Henk Jan van der Wijk Barend Mons Marco Roos FAIR Data Management to Access Patient Data. 1-10 2020 DaMaLOS https://doi.org/10.4126/FRL01-006423287 conf/damalos/2020 db/conf/damalos/damalos2020.html#Queralt-Rosinach20 Bruna dos Santos Vieira Karlijn H. J. Groenen Peter A. C. 't Hoen Annika Jacobsen Marco Roos Rajaram Kaliyaperumal Martijn G. Kersloot Ronald Cornet Leo J. Schultze Kool Applying the FAIR Data Principles to the Registry of Vascular Anomalies (VASCA). 115-116 2020 dHealth https://doi.org/10.3233/SHTI200085 https://www.wikidata.org/entity/Q96645210 conf/ehealth2/2020 db/conf/ehealth2/dhealth2020.html#VieiraGHJRKKCK20 Jannik Schaaf Dennis Kadioglu Jens Goebel Christian-Alexander Behrendt Marco Roos David van Enckevort Frank Ückert Fatlume Sadiku Thomas O. F. Wagner Holger Storf OSSE Goes FAIR - Implementation of the FAIR Data Principles for an Open-Source Registry for Rare Diseases. 209-213 2018 GMDS https://doi.org/10.3233/978-1-61499-896-9-209 conf/gmds/2018 db/conf/gmds/gmds2018.html#SchaafKGBREUSWS18 Annika Jacobsen Andra Waagmeester Rajaram Kaliyaperumal Gregory S. Stupp Lynn M. Schriml Mark Thompson 0002 Andrew I. Su Marco Roos Wikidata as an intuitive resource towards semantic data modeling in data FAIRification. 2018 SWAT4LS https://ceur-ws.org/Vol-2275/short1.pdf conf/swat4ls/2018 db/conf/swat4ls/swat4ls2018.html#JacobsenWKSS0SR18 Claudio Carta Marco Roos Annika Jacobsen Rajaram Kaliyaperumal Mark Thompson 0002 Mark D. Wilkinson Ronald Cornet Andra Waagmeester David van Enckevort Mascha Jansen Luana Licata Allegra Via Domenica Taruscio The FAIRification of Data and the Potential of FAIR Resources Demonstrated, in Practice, at the Rome Bring Your Own Data Workshop. 2017 SWAT4LS https://ceur-ws.org/Vol-2042/paper27.pdf conf/swat4ls/2017 db/conf/swat4ls/swat4ls2017.html#CartaRJKTWCWEJL17 Tareq B. Malas Roman Kudrin Sergei Starikov Dorien Peters Marco Roos Peter A. C. 't Hoen Kristina M. Hettne Semantic Knowledge Graph Network Features for Drug Repurposing. 2017 SWAT4LS https://ceur-ws.org/Vol-2042/paper12.pdf conf/swat4ls/2017 db/conf/swat4ls/swat4ls2017.html#MalasKSPRHH17 Mark Thompson 0002 Luiz Olavo Bonino da Silva Santos Kees Burger Rajaram Kaliyaperumal Erik A. Schultes Annika Jacobsen Claudio Carta Richard Finkers David van Enckevort Mascha Jansen Barend Mons Marco Roos Overview of a Suite of Tools and Training Material for Implementing FAIR Data Principles. 2017 SWAT4LS https://ceur-ws.org/Vol-2042/paper23.pdf conf/swat4ls/2017 db/conf/swat4ls/swat4ls2017.html#ThompsonSBKSJCF17 Mascha Jansen Claudio Carta Marco Roos Luiz Olavo Bonino da Silva Santos The Organisation of Bring Your Own Data (BYOD) Workshops to Make Life Science Data Linkable at the Source. 2016 SWAT4LS https://ceur-ws.org/Vol-1795/paper18.pdf conf/swat4ls/2016 db/conf/swat4ls/swat4ls2016.html#JansenCRS16 Marco Roos Mark D. Wilkinson Rajaram Kaliyaperumal Mark Thompson 0002 Claudio Carta Ronald Cornet Luiz Olavo Bonino da Silva Santos Registries of Domain-Relevant Semantic Reference Models Help Bootstrap Interoperability in Domains with Fragmented Data Resources. 2016 SWAT4LS https://ceur-ws.org/Vol-1795/paper16.pdf conf/swat4ls/2016 db/conf/swat4ls/swat4ls2016.html#RoosWKTCCS16

Eleni Mina Mark Thompson 0002 Rajaram Kaliyaperumal Jun Zhao 0003 Eelke van der Horst Zuotian Tatum Kristina M. Hettne Erik A. Schultes Barend Mons Marco Roos Nanopublications for exposing experimental data in the life-sciences: a Huntington's Disease case study. 5 2015 6 J. Biomed. Semant. https://doi.org/10.1186/2041-1480-6-5 https://www.wikidata.org/entity/Q28606409 db/journals/biomedsem/biomedsem6.html#MinaTK0HTHSMR15

Eleni Mina Mark Thompson 0002 Kristina M. Hettne Willeke M. C. van Roon-Mom Rajaram Kaliyaperumal Eelke van der Horst Katherine Wolstencroft Barend Mons Marco Roos Multidisciplinary Collaboration to Facilitate Hypotheses Generation in Huntington's Disease. 118-125 2015 e-Science https://doi.org/10.1109/eScience.2015.71 https://doi.ieeecomputersociety.org/10.1109/eScience.2015.71 https://www.wikidata.org/entity/Q56509327 conf/eScience/2015 db/conf/eScience/eScience2015.html#MinaTHRKHWMR15 Eelke van der Horst Rajaram Kaliyaperumal Zuotian Tatum Mark Thompson 0002 Erik A. Schultes Eleni Mina Ivo Fokkema Johan T. den Dunnen Marco Roos Jeroen F. J. Laros Barend Mons Kristina M. Hettne Peter A. C. 't Hoen Finding Novel Associations Across Domains Using Linked Data: a Case Study on Genetic Variants Disrupting Transcription Start Sites. 2-12 2015 SWAT4LS https://ceur-ws.org/Vol-1546/paper_20.pdf conf/swat4ls/2015 db/conf/swat4ls/swat4ls2015.html#DoeMHKTTSMFDRLM15

Kristina M. Hettne Harish Dharuri Jun Zhao 0003 Katherine Wolstencroft Khalid Belhajjame Stian Soiland-Reyes Eleni Mina Mark Thompson 0002 Don Cruickshank Lourdes Verdes-Montenegro Julián Garrido David De Roure Óscar Corcho Graham Klyne Reinout van Schouwen Peter A. C. 't Hoen Sean Bechhofer Carole A. Goble Marco Roos Structuring research methods and data with the research object model: genomics workflows as a case study. 41 2014 5 J. Biomed. Semant. https://doi.org/10.1186/2041-1480-5-41 https://www.wikidata.org/entity/Q28249096 db/journals/biomedsem/biomedsem5.html#HettneD0WBSMTCVGRCKSHBGR14

Zuotian Tatum Marco Roos Andrew P. Gibson Peter E. M. Taschner Mark Thompson 0002 Erik A. Schultes Jeroen F. J. Laros Preserving sequence annotations across reference sequences. S6 2014 5 J. Biomed. Semant. S-1 https://doi.org/10.1186/2041-1480-5-S1-S6 https://www.wikidata.org/entity/Q28655404 db/journals/biomedsem/biomedsem5S.html#TatumRGTTSL14

Tim Clark Marco Roos Recent applications of web semantics in eLifeScience. 1-2 2014 29 J. Web Semant. https://doi.org/10.1016/j.websem.2014.11.005 db/journals/ws/ws29.html#ClarkR14

Pedro Sernadela Eelke van der Horst Mark Thompson 0002 Pedro Lopes 0002 Marco Roos José Luís Oliveira A Nanopublishing Architecture for Biomedical Data. 277-284 2014 PACBB https://doi.org/10.1007/978-3-319-07581-5_33 https://www.wikidata.org/entity/Q59381770 conf/pacbb/2014 db/conf/pacbb/pacbb2014.html#SernadelaHTLRO14 Rajaram Kaliyaperumal Peter Bram 't Hoen Mark Thompson 0002 Eelke van der Horst Marco Roos Genome Annotation using Nanopublications: An Approach to Interoperability of Genetic Data. 2014 SWAT4LS https://ceur-ws.org/Vol-1320/paper_27.pdf conf/swat4ls/2014 db/conf/swat4ls/swat4ls2014.html#KaliyaperumalHTHR14 Marco Roos Alasdair J. G. Gray Andra Waagmeester Mark Thompson 0002 Rajaram Kaliyaperumal Eelke van der Horst Barend Mons Mark D. Wilkinson Bring Your Own Data Workshops: A Mechanism to Aid Data Owners to Comply with Linked Data Best Practices. 2014 SWAT4LS https://ceur-ws.org/Vol-1320/paper_36.pdf conf/swat4ls/2014 db/conf/swat4ls/swat4ls2014.html#RoosGWTKHMW14

Kristina M. Hettne Reinout van Schouwen Eleni Mina Eelke van der Horst Mark Thompson 0002 Rajaram Kaliyaperumal Barend Mons Erik M. van Mulligen Jan A. Kors Marco Roos Explain your data by Concept Profile Analysis Web Services. 173 2014 3 F1000Research https://doi.org/10.12688/f1000research.4830.1 https://www.wikidata.org/entity/Q56512364 db/journals/f1000research/f1000research3.html#HettneSMHTKMMKR14

Eelke van der Horst Marco Roos Kristina M. Hettne Workflows and Services for Concept Profile Generation. 2013 SWAT4LS https://ceur-ws.org/Vol-1114/Poster_van_der_Horst.pdf conf/swat4ls/2013 db/conf/swat4ls/swat4ls2013.html#HorstRH13 Eleni Mina Mark Thompson 0002 Rajaram Kaliyaperumal Jun Zhao 0003 Kristina M. Hettne Erik A. Schultes Marco Roos Nanopublications for Exposing Experimental Data in the Life-sciences: A Huntington's Disease Case Study. 2013 SWAT4LS https://ceur-ws.org/Vol-1114/Session2_Mina.pdf conf/swat4ls/2013 db/conf/swat4ls/swat4ls2013.html#MinaTKZHSR13

Kristina M. Hettne Harish Dharuri Jun Zhao 0003 Katherine Wolstencroft Khalid Belhajjame Stian Soiland-Reyes Eleni Mina Mark Thompson 0002 Don Cruickshank Lourdes Verdes-Montenegro Julián Garrido David De Roure Óscar Corcho Graham Klyne Reinout van Schouwen Peter A. C. 't Hoen Sean Bechhofer Carole A. Goble Marco Roos Structuring research methods and data with the Research Object model: genomics workflows as a case study. 2013 CoRR http://arxiv.org/abs/1311.2789 abs/1311.2789 db/journals/corr/corr1311.html#HettneDZWBSMTCVGRCKSHBGR13

Jun Zhao 0003 José Manuél Gómez-Pérez Khalid Belhajjame Graham Klyne Esteban García-Cuesta Aleix Garrido Kristina M. Hettne Marco Roos David De Roure Carole A. Goble Why workflows break - Understanding and combating decay in Taverna workflows. 1-9 2012 eScience https://doi.org/10.1109/eScience.2012.6404482 https://doi.ieeecomputersociety.org/10.1109/eScience.2012.6404482 https://www.wikidata.org/entity/Q56961083 conf/eScience/2012 db/conf/eScience/eScience2012.html#ZhaoGBKGGHRRG12 Khalid Belhajjame Óscar Corcho Daniel Garijo Jun Zhao 0003 Paolo Missier David R. Newman Raúl Palma Sean Bechhofer Esteban García-Cuesta José Manuél Gómez-Pérez Graham Klyne Kevin R. Page Marco Roos José Enrique Ruiz Stian Soiland-Reyes Lourdes Verdes-Montenegro David De Roure Carole A. Goble Workflow-Centric Research Objects: A First Class Citizen in the Scholarly Discourse. 1-12 2012 SePublica@ESWC https://ceur-ws.org/Vol-903/paper-01.pdf conf/esws/2012sepublica db/conf/esws/sepublica2012.html#BelhajjameCGZMN12 Konstantinos Karasavvas Katy Wolstencroft Eleni Mina Don Cruickshank Alan R. Williams David De Roure Carole A. Goble Marco Roos Opening new gateways to workflows for life scientists. 131-141 2012 HealthGrid https://doi.org/10.3233/978-1-61499-054-3-131 conf/healthgrid/2012 db/conf/healthgrid/healthgrid2012.html#KarasavvasWMCWR12 Jun Zhao 0003 Graham Klyne Piotr Holubowicz Raúl Palma Stian Soiland-Reyes Kristina M. Hettne José Enrique Ruiz Marco Roos Kevin R. Page José Manuél Gómez-Pérez David De Roure Carole A. Goble RO-Manager: A Tool for Creating and Manipulating Research Objects to Support Reproducibility and Reuse in Sciences. 2012 LISC@ISWC https://ceur-ws.org/Vol-951/paper9.pdf conf/semweb/2012lisc db/conf/semweb/lisc2012.html#0003KHPSHRRPGRG12 Andrew P. Gibson Jesse C. J. van Dam Erik A. Schultes Marco Roos Barend Mons Towards Computational Evaluation of Evidence for Scientific Assertions with Nanopublications. 2012 SWAT4LS https://ceur-ws.org/Vol-952/paper_26.pdf conf/swat4ls/2012 db/conf/swat4ls/swat4ls2012.html#GibsonDSRM12 Kristina M. Hettne Katherine Wolstencroft Khalid Belhajjame Carole A. Goble Eleni Mina Harish Dharuri David De Roure Lourdes Verdes-Montenegro Julián Garrido Marco Roos Best Practices for Workflow Design: How to Prevent Workflow Decay. 2012 SWAT4LS https://ceur-ws.org/Vol-952/paper_23.pdf conf/swat4ls/2012 db/conf/swat4ls/swat4ls2012.html#HettneWBGMDRVGR12

Mark Thompson 0002 Erik A. Schultes Marco Roos Barend Mons Data Publishing Using Nanopublications. 2012 1 Tiny Trans. Comput. Sci. http://tinytocs.org/vol1/papers/tinytocs-v1-thompson.pdf db/journals/tinytocs/tinytocs1.html#ThompsonSRM12

David De Roure Carole A. Goble Graham Klyne Marco Roos Kristina M. Hettne José Enrique Ruiz Raúl Palma José Manuél Gómez-Pérez Paolo Missier Khalid Belhajjame Towards the Preservation of Scientific Workflows. 2011 iPRES https://hdl.handle.net/11353/10.294253 conf/ipres/2011 db/conf/ipres/ipres2011.html#RoureGKRHRPGMB11 Kristina M. Hettne Stian Soiland-Reyes Graham Klyne Khalid Belhajjame Matthew Gamble Sean Bechhofer Marco Roos Óscar Corcho Workflow forever: semantic web semantic models and tools for preserving and digitally publishing computational experiments. 36-37 2011 SWAT4LS https://doi.org/10.1145/2166896.2166909 https://www.wikidata.org/entity/Q56570981 conf/swat4ls/2011 db/conf/swat4ls/swat4ls2011.html#HettneSKBGBRC11

Carole A. Goble Jiten Bhagat Sergejs Aleksejevs Don Cruickshank Danius T. Michaelides David R. Newman Mark Borkum Sean Bechhofer Marco Roos Peter Li David De Roure myExperiment: a repository and social network for the sharing of bioinformatics workflows. 677-682 2010 38 Nucleic Acids Res. Web-Server-Issue https://doi.org/10.1093/nar/gkq429 https://www.wikidata.org/entity/Q28283335 db/journals/nar/nar38.html#GobleBACMNBBRLR10

Jiten Bhagat Franck Tanoh Eric Nzuobontane Thomas Laurent 0002 Jerzy Orlowski Marco Roos Katy Wolstencroft Sergejs Aleksejevs Robert Stevens 0001 Steve Pettifer Rodrigo Lopez Carole A. Goble BioCatalogue: a universal catalogue of web services for the life sciences. 689-694 2010 38 Nucleic Acids Res. Web-Server-Issue https://doi.org/10.1093/nar/gkq394 https://www.wikidata.org/entity/Q27924933 db/journals/nar/nar38.html#BhagatTNLORWASPLG10

David De Roure Carole A. Goble Sergejs Aleksejevs Sean Bechhofer Jiten Bhagat Don Cruickshank Paul Fisher Nandkumar Kollara Danius T. Michaelides Paolo Missier David R. Newman Marcus Ramsden Marco Roos Katy Wolstencroft Ed Zaluska Jun Zhao 0003 The Evolution of myExperiment. 153-160 2010 eScience https://doi.org/10.1109/eScience.2010.59 https://doi.ieeecomputersociety.org/10.1109/eScience.2010.59 https://www.wikidata.org/entity/Q56966792 conf/eScience/2010 db/conf/eScience/eScience2010.html#RoureGABBCFKMMNRRWZZ10 Marco Roos Sean Bechhofer Jun Zhao 0003 Paolo Missier David R. Newman David De Roure M. Scott Marshall A Linked Data Approach to Sharing Workflows and Workflow Results. 340-354 2010 ISoLA (1) https://doi.org/10.1007/978-3-642-16558-0_29 https://www.wikidata.org/entity/Q58295554 conf/isola/2010-1 db/conf/isola/isola2010-1.html#RoosBZMNRM10 Adianto Wibisono Marco Roos M. Scott Marshall The AIDA Toolkit - a Tool for Users and Developers. 2010 SWAT4LS https://ceur-ws.org/Vol-698/demo1.pdf conf/swat4ls/2010 db/conf/swat4ls/swat4ls2010.html#WibisonoRM10 M. Scott Marshall Marco Roos Edgar Meij Sophia Katrenko Willem Robert van Hage Pieter W. Adriaans Semantic Disclosure in an e-Science Environment. 29-65 2010 Semantic e-Science https://doi.org/10.1007/978-1-4419-5908-9_2 series/anis/2010-11 db/series/anis/anis11.html#MarshallRMKHA10

Marco Roos M. Scott Marshall Andrew P. Gibson Martijn J. Schuemie Edgar Meij Sophia Katrenko Willem Robert van Hage Konstantinos Krommydas Pieter W. Adriaans Structuring and extracting knowledge for the support of hypothesis generation in molecular biology. 9 2009 10 BMC Bioinform. S-10 https://doi.org/10.1186/1471-2105-10-S10-S9 https://www.wikidata.org/entity/Q33508014 db/journals/bmcbi/bmcbi10S.html#RoosMGSMKHKA09

Ingo H. C. Wassink Paul E. van der Vet Elisabeth M. A. G. van Dijk Gerrit C. van der Veer Marco Roos New interactions with workflow systems. 29 2009 ECCE http://portal.acm.org/citation.cfm?id=1690549&CFID=71818747&CFTOKEN=91476852 conf/ecce/2009 db/conf/ecce/ecce2009.html#WassinkVDVR09 Ingo H. C. Wassink Paul E. van der Vet Katy Wolstencroft Pieter B. T. Neerincx Marco Roos Han Rauwerda Timo M. Breit Analysing Scientific Workflows: Why Workflows Not Only Connect Web Services. 314-321 2009 SERVICES I https://doi.org/10.1109/SERVICES-I.2009.48 https://doi.ieeecomputersociety.org/10.1109/SERVICES-I.2009.48 https://www.wikidata.org/entity/Q56983406 conf/services/2009-1 db/conf/services/services2009-1.html#WassinkVWNRRB09 Paolo Missier Khalid Belhajjame Jun Zhao 0003 Marco Roos Carole A. Goble Data Lineage Model for Taverna Workflows with Lightweight Annotation Requirements. 17-30 2008 IPAW https://doi.org/10.1007/978-3-540-89965-5_4 https://www.wikidata.org/entity/Q59635493 conf/ipaw/2008 db/conf/ipaw/ipaw2008.html#MissierBZRG08 Marco Roos M. Scott Marshall Andrew P. Gibson Pieter W. Adriaans Structuring Mined Knowledge for the Support of Hypothesis Generation in Molecular Biology. 2008 SWAT4LS https://ceur-ws.org/Vol-435/paper10.pdf conf/swat4ls/2008 db/conf/swat4ls/swat4ls2008.html#RoosMGA08

Lennart J. G. Post Marco Roos M. Scott Marshall Roel van Driel Timo M. Breit A semantic web approach applied to integrative bioinformatics experimentation: a biological use case with genomics data. 3080-3087 2007 23 Bioinform. 22 https://doi.org/10.1093/bioinformatics/btm461 https://www.wikidata.org/entity/Q31130016 db/journals/bioinformatics/bioinformatics23.html#PostRMDB07

Tessa E. Pronk Andy D. Pimentel Marco Roos Timo M. Breit Taking the example of computer systems engineering for the analysis of biological cell systems. 623-635 2007 90 Biosyst. 3 https://doi.org/10.1016/j.biosystems.2007.02.002 https://www.wikidata.org/entity/Q51039880 db/journals/biosystems/biosystems90.html#PronkPRB07

Vladimir Korkhov Dmitry Vasyunin Adianto Wibisono Adam Belloum Márcia A. Inda Marco Roos Timo M. Breit Louis O. Hertzberger VLAM-G: Interactive data driven workflow engine for Grid-enabled resources. 173-188 2007 15 Sci. Program. 3 https://doi.org/10.1155/2007/812036 http://content.iospress.com/articles/scientific-programming/spr00228 db/journals/sp/sp15.html#KorkhovVWBIRBH07

C. Maria Keet Marco Roos M. Scott Marshall A Survey of Requirements for Automated Reasoning Services for Bio-Ontolgies in OWL. 2007 OWLED https://ceur-ws.org/Vol-258/paper30.pdf conf/owled/2007 db/conf/owled/owled2007.html#KeetRM07 Márcia A. Inda Adam Belloum Marco Roos Dmitry Vasunin Cees T. A. M. de Laat Louis O. Hertzberger Timo M. Breit Interactive Workflows in a Virtual Laboratory for e-Bioscience: The SigWin-Detector Tool for Gene Expression Analysis. 19 2006 conf/eScience/2006 e-Science https://doi.org/10.1109/E-SCIENCE.2006.261103 https://doi.ieeecomputersociety.org/10.1109/E-SCIENCE.2006.91 https://www.wikidata.org/entity/Q58601128 db/conf/eScience/eScience2006.html#IndaBRVLHB06 M. Scott Marshall Lennart J. G. Post Marco Roos Timo M. Breit Using Semantic Web Tools to Integrate Experimental Measurement Data on Our Own Terms. 679-688 2006 conf/otm/2006-w1 OTM Workshops (1) https://doi.org/10.1007/11915034_92 db/conf/otm/otm2006-w1.html#MarshallPRB06 Ameen Abu-Hanna Pieter W. Adriaans Sergejs Aleksejevs Derk L. Arts Ricardo de Miranda Azevedo Arie Baak Chris Baker Alberto Cámara Ballesteros Dominique Batista Jumamurat Bayjanov Sean Bechhofer Christian-Alexander Behrendt Khalid Belhajjame Adam Belloum Nirupama Benis César Henrique BernabéCésar Bernabé Jiten Bhagat Fedele Bonifazi Sander van Boom Mark Borkum Jildau Bouwman Timo M. Breit Kees Burger Claudio Carta Leyla Jael CastroLeyla Jael García Castro Tim Clark Inés de Oliveira Coelho Simon J. Coles Óscar Corcho Clémence M. A. Le Cornec Ronald Cornet Mélanie Courtot Karolis Cremers Mercè Crosas Don Cruickshank Jesse C. J. van Dam Philip van Damme Aylin Demir Harish Dharuri Betsy van DijkElisabeth M. A. G. van Dijk Roel van Driel Michel Dumontier Johan T. den Dunnen Friederike Ehrhart Esther van EnckevortDavid van Enckevort Chris T. A. Evelo Rianne Fijten Richard Finkers Paul Fisher Erik Flikkenschild Ivo Fokkema Jip Fransen Matthew Gamble Esteban García-Cuesta Daniel Garijo Aleix Garrido Julián Garrido Celia W. G. van Gelder Viviana Giannuzzi Andrew P. Gibson Carole A. Goble Mario Prieto Godoy Jens Goebel José Manuél Gómez-Pérez Alasdair J. G. Gray Karlijn H. J. Groenen Giancarlo Guizzardi Willem Robert van Hage Marc Hanauer Thomas Hankemeier Karsten Kryger Hansen Ali Hasnain Inês Henriques Jaap Heringa Louis O. Hertzberger Kristina M. Hettne Robert Hoehndorf Peter A. C. 't Hoen Peter Bram 't Hoen Piotr Holubowicz Rob W. W. Hooft Eelke van der Horst Melanie Imming Márcia A. Inda Annika Jacobsen Mascha Jansen Keith G. Jeffery Simone A. Joosten Nick S. Juty Dennis Kadioglu Rajaram Kaliyaperumal Teus H. Kappen Konstantinos Karasavvas Sophia Katrenko C. Maria Keet Johannes Keller 0006 Martijn G. Kersloot Christine R. Kirkpatrick Graham Klyne Nandkumar Kollara Leo J. Schultze Kool Vladimir Korkhov Jan A. Kors Konstantinos Krommydas Roman Kudrin Tobias Kuhn Cees T. A. M. de Laat Ignasi Labastida Nawel Lalout Annalisa Landi Jeroen F. J. Laros Thomas Laurent 0002 Peter Li Luana Licata Joep de Ligt Qinqin Long Pedro Lopes 0002 Rodrigo Lopez Barbara Magagna Georgios Malamas Tareq B. Malas M. Scott Marshall Peter McQuilton Edgar Meij Natalie Meyers Danius T. Michaelides Eleni Mina Paolo Missier Barend Mons Annalisa Montesanti Pablo Alarcón Moreno Erik M. van Mulligen Pieter B. T. Neerincx David R. Newman Eric Nzuobontane José Luís Oliveira Jerzy Orlowski Rick Overkleeft Kevin R. Page Raúl Palma Pablo Perdomo-Quinteiro Arnaldo Pereira Robert Pergl Dorien Peters Steve Pettifer Andy D. Pimentel Lennart J. G. Post Tessa E. Pronk Eric Prud'hommeaux Núria Queralt-RosinachNúria Queralt Rosinach Jose Antonio Ramírez Marcus Ramsden Han Rauwerda Rohitha Ravinder Mirjam van Reisen Philippe Rocca-Serra Willeke M. C. van Roon-Mom David De Roure José Enrique Ruiz Fatlume Sadiku Paraskevi Sakellariou Tiago Prince Sales Susanna-Assunta Sansone Luiz Olavo Bonino da Silva Santos Jannik Schaaf Franz Schaefer Juliane Schneider Paul N. Schofield Reinout van Schouwen Lynn M. Schriml Martijn J. Schuemie Erik A. SchultesErik Schultes Pedro Sernadela Sergiu Siminiuc Gurnoor Singh Stian Soiland-Reyes Dhwani Solanki Isadora Valle Sousa Vítor E. Silva Souza Pietro Spitali Andrea Splendiani Sergei Starikov Robert Stevens 0001 Holger Storf George O. Strawn Gregory S. Stupp Andrew I. Su Morris A. Swertz Franck Tanoh Domenica Taruscio Peter E. M. Taschner Zuotian Tatum Lieze Thielemans Mark Thompson 0002 Frank Ückert Niek van Ulzen Dmitry VasuninDmitry Vasyunin Gerrit C. van der Veer K. Joeri van der Velde Lourdes Verdes-Montenegro Paul E. van der Vet Allegra Via Bruna dos Santos Vieira Rutger A. Vos Andra Waagmeester Thomas O. F. Wagner Ingo H. C. Wassink Tobias Weigel Adianto Wibisono Henk Jan van der Wijk Daphne Wijnbergen Mark D. Wilkinson Alan R. Williams Egon L. Willighagen Peter Wittenburg Katy WolstencroftKatherine Wolstencroft Ed Zaluska Shuxin Zhang Jun Zhao 0003 Rosa Zwart