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2020 – today
- 2023
[j20]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. J. Biomed. Semant. 14(1): 21 (2023)- [j19]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. Data Sci. J. 22 (2023) - [c46]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. ER (Companion) 2023 - [c45]César Henrique Bernabé, Annika Jacobsen, Luiz Olavo Bonino da Silva Santos, Marco Roos:
A Method to Facilitate the Identification of FAIRification Objectives. ICBO 2023: 179 - [c44]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. SWAT4HCLS 2023: 107-111 - [c43]Daphne Wijnbergen, Rajaram Kaliyaperumal, Marco Roos, Eleni Mina:
The FAIR Data Point Populator: collaborative FAIRification and population of FAIR Data Points. SWAT4HCLS 2023: 114-115 - [c42]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. SWAT4HCLS 2023: 130-132 - [c41]Karolis Cremers, Marco Roos, Katy Wolstencroft, Eleni Mina, Núria Queralt-Rosinach:
Structured review on Huntington's disease iron hypothesis. SWAT4HCLS 2023: 147-148 - [c40]Núria Queralt-Rosinach, Paul N. Schofield, Marco Roos, Robert Hoehndorf:
Updating the CEMO ontology for future epidemiological challenges. SWAT4HCLS 2023: 151-152 - 2022
- [j18]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. J. Biomed. Semant. 13(1): 9 (2022) - [j17]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. J. Biomed. Semant. 13(1): 12 (2022) - [j16]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. Frontiers Big Data 5: 883341 (2022) - [c39]Rajaram Kaliyaperumal, Gurnoor Singh, Núria Queralt-Rosinach, Jumamurat Bayjanov, Peter Bram 't Hoen, Marco Roos:
Phenopackets for the Semantic Web. SWAT4HCLS 2022: 29-33 - [c38]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. SWAT4HCLS 2022: 34-43 - [e1]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. CEUR Workshop Proceedings 3127, CEUR-WS.org 2022 [contents] - 2021
- [j15]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. J. Biomed. Informatics 122: 103897 (2021) - [c37]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. dHealth 2021: 144-146 - [c36]Núria Queralt-Rosinach, César Henrique Bernabé, Qinqin Long, Rajaram Kaliyaperumal, Marco Roos:
LUMC Clinical Ontology for Biomedical Research. ICBO 2021: 84-88 - [c35]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. JOWO 2021 - 2020
- [j14]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, Andra Waagmeester, Tobias Weigel, Mark D. Wilkinson, Egon L. Willighagen, Peter Wittenburg, Marco Roos, Barend Mons, Erik Schultes:
FAIR Principles: Interpretations and Implementation Considerations. Data Intell. 2(1-2): 10-29 (2020) - [j13]Annalisa Landi, Mark Thompson, 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. Data Intell. 2(1-2): 47-55 (2020) - [j12]Annika Jacobsen, Rajaram Kaliyaperumal, Luiz Olavo Bonino da Silva Santos, Barend Mons, Erik Schultes, Marco Roos, Mark Thompson:
A Generic Workflow for the Data FAIRification Process. Data Intell. 2(1-2): 56-65 (2020) - [j11]Mark Thompson, Kees Burger, Rajaram Kaliyaperumal, Marco Roos, Luiz Olavo Bonino da Silva Santos:
Making FAIR Easy with FAIR Tools: From Creolization to Convergence. Data Intell. 2(1-2): 87-95 (2020) - [c34]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. DaMaLOS 2020: 1-10 - [c33]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). dHealth 2020: 115-116
2010 – 2019
- 2018
- [c32]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. GMDS 2018: 209-213 - [c31]Annika Jacobsen, Andra Waagmeester, Rajaram Kaliyaperumal, Gregory S. Stupp, Lynn M. Schriml, Mark Thompson, Andrew I. Su, Marco Roos:
Wikidata as an intuitive resource towards semantic data modeling in data FAIRification. SWAT4LS 2018 - 2017
- [c30]Claudio Carta, Marco Roos, Annika Jacobsen, Rajaram Kaliyaperumal, Mark Thompson, 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. SWAT4LS 2017 - [c29]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. SWAT4LS 2017 - [c28]Mark Thompson, 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. SWAT4LS 2017 - 2016
- [c27]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. SWAT4LS 2016 - [c26]Marco Roos, Mark D. Wilkinson, Rajaram Kaliyaperumal, Mark Thompson, 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. SWAT4LS 2016 - 2015
- [j10]Eleni Mina, Mark Thompson, Rajaram Kaliyaperumal, Jun Zhao, 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. J. Biomed. Semant. 6: 5 (2015) - [c25]Eleni Mina, Mark Thompson, 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. e-Science 2015: 118-125 - [c24]Eelke van der Horst, Rajaram Kaliyaperumal, Zuotian Tatum, Mark Thompson, 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. SWAT4LS 2015: 2-12 - 2014
- [j9]Kristina M. Hettne, Harish Dharuri, Jun Zhao, Katherine Wolstencroft, Khalid Belhajjame, Stian Soiland-Reyes, Eleni Mina, Mark Thompson, 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. J. Biomed. Semant. 5: 41 (2014) - [j8]Zuotian Tatum, Marco Roos, Andrew P. Gibson, Peter E. M. Taschner, Mark Thompson, Erik A. Schultes, Jeroen F. J. Laros:
Preserving sequence annotations across reference sequences. J. Biomed. Semant. 5(S-1): S6 (2014) - [j7]Tim Clark, Marco Roos:
Recent applications of web semantics in eLifeScience. J. Web Semant. 29: 1-2 (2014) - [c23]Pedro Sernadela, Eelke van der Horst, Mark Thompson, Pedro Lopes, Marco Roos, José Luís Oliveira:
A Nanopublishing Architecture for Biomedical Data. PACBB 2014: 277-284 - [c22]Rajaram Kaliyaperumal, Peter Bram 't Hoen, Mark Thompson, Eelke van der Horst, Marco Roos:
Genome Annotation using Nanopublications: An Approach to Interoperability of Genetic Data. SWAT4LS 2014 - [c21]Marco Roos, Alasdair J. G. Gray, Andra Waagmeester, Mark Thompson, 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. SWAT4LS 2014 - [i3]Kristina M. Hettne, Reinout van Schouwen, Eleni Mina, Eelke van der Horst, Mark Thompson, Rajaram Kaliyaperumal, Barend Mons, Erik M. van Mulligen, Jan A. Kors, Marco Roos:
Explain your data by Concept Profile Analysis Web Services. F1000Research 3: 173 (2014) - 2013
- [c20]Eelke van der Horst, Marco Roos, Kristina M. Hettne:
Workflows and Services for Concept Profile Generation. SWAT4LS 2013 - [c19]Eleni Mina, Mark Thompson, Rajaram Kaliyaperumal, Jun Zhao, Kristina M. Hettne, Erik A. Schultes, Marco Roos:
Nanopublications for Exposing Experimental Data in the Life-sciences: A Huntington's Disease Case Study. SWAT4LS 2013 - [i2]Kristina M. Hettne, Harish Dharuri, Jun Zhao, Katherine Wolstencroft, Khalid Belhajjame, Stian Soiland-Reyes, Eleni Mina, Mark Thompson, 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. CoRR abs/1311.2789 (2013) - 2012
- [c18]Jun Zhao, 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. eScience 2012: 1-9 - [c17]Khalid Belhajjame, Óscar Corcho, Daniel Garijo, Jun Zhao, 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. SePublica@ESWC 2012: 1-12 - [c16]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. HealthGrid 2012: 131-141 - [c15]Jun Zhao, 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. LISC@ISWC 2012 - [c14]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. SWAT4LS 2012 - [c13]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. SWAT4LS 2012 - [i1]Mark Thompson, Erik A. Schultes, Marco Roos, Barend Mons:
Data Publishing Using Nanopublications. Adv. Math. Commun. 1 (2012) - 2011
- [c12]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. iPRES 2011 - [c11]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. SWAT4LS 2011: 36-37 - 2010
- [j6]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. Nucleic Acids Res. 38(Web-Server-Issue): 677-682 (2010) - [j5]Jiten Bhagat, Franck Tanoh, Eric Nzuobontane, Thomas Laurent, Jerzy Orlowski, Marco Roos, Katy Wolstencroft, Sergejs Aleksejevs, Robert Stevens, Steve Pettifer, Rodrigo Lopez, Carole A. Goble:
BioCatalogue: a universal catalogue of web services for the life sciences. Nucleic Acids Res. 38(Web-Server-Issue): 689-694 (2010) - [c10]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:
The Evolution of myExperiment. eScience 2010: 153-160 - [c9]Marco Roos, Sean Bechhofer, Jun Zhao, Paolo Missier, David R. Newman, David De Roure, M. Scott Marshall:
A Linked Data Approach to Sharing Workflows and Workflow Results. ISoLA (1) 2010: 340-354 - [c8]Adianto Wibisono, Marco Roos, M. Scott Marshall:
The AIDA Toolkit - a Tool for Users and Developers. SWAT4LS 2010 - [p1]M. Scott Marshall, Marco Roos, Edgar Meij, Sophia Katrenko, Willem Robert van Hage, Pieter W. Adriaans:
Semantic Disclosure in an e-Science Environment. Semantic e-Science 2010: 29-65
2000 – 2009
- 2009
- [j4]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. BMC Bioinform. 10(S-10): 9 (2009) - [c7]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. ECCE 2009: 29 - [c6]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. SERVICES I 2009: 314-321 - 2008
- [c5]Paolo Missier, Khalid Belhajjame, Jun Zhao, Marco Roos, Carole A. Goble:
Data Lineage Model for Taverna Workflows with Lightweight Annotation Requirements. IPAW 2008: 17-30 - [c4]Marco Roos, M. Scott Marshall, Andrew P. Gibson, Pieter W. Adriaans:
Structuring Mined Knowledge for the Support of Hypothesis Generation in Molecular Biology. SWAT4LS 2008 - 2007
- [j3]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. Bioinform. 23(22): 3080-3087 (2007) - [j2]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. Biosyst. 90(3): 623-635 (2007) - [j1]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. Sci. Program. 15(3): 173-188 (2007) - [c3]C. Maria Keet, Marco Roos, M. Scott Marshall:
A Survey of Requirements for Automated Reasoning Services for Bio-Ontolgies in OWL. OWLED 2007 - 2006
- [c2]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. e-Science 2006: 19 - [c1]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. OTM Workshops (1) 2006: 679-688
Coauthor Index
Núria Queralt-Rosinach
aka: Núria Queralt Rosinach
aka: Núria Queralt Rosinach
Erik A. Schultes
aka: Erik Schultes
aka: Erik Schultes
Katy Wolstencroft
aka: Katherine Wolstencroft
aka: Katherine Wolstencroft
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