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portrait of Dr Ernesto Jiménez-Ruiz

Dr Ernesto Jiménez-Ruiz

Lecturer in Artificial Intelligence

School of Mathematics, Computer Science and Engineering, Department of Computer Science

Contact Information

Contact

Visit Ernesto Jiménez-Ruiz

A309L, College Building

Postal Address

City, University of London
Northampton Square
London
EC1V 0HB
United Kingdom

About

Overview

Ernesto Jimenez Ruiz is a Lecturer in Artificial Intelligence at City, University of London affiliated to the Research Centers for Machine Learning and Artificial Intelligence. He is also a researcher in the Centre for Scalable Data Access (SIRIUS) at the University of Oslo, Norway. He previously held a Senior Research Associate position at The Alan Turing Institute in London (UK) and a Research Assistant position at the University of Oxford. His home university (Universitat Jaume I, Castellon, Spain) awarded a “Premio extraordinario de doctorado” (roughly translated as a Extraordinary Doctoral Award) to his doctoral thesis (Engineering category 2010-2011). His research has covered several areas, including bio-medical information processing and integration, ontology reuse, ontology versioning and evolution, ontology alignment. His current research interests focus on the application of Semantic Technology to Data Science workflows and the combination of Knowledge Representation and Machine Learning techniques.

Office hours
My drop-in times for Term 1 are scheduled to Tuesday from 2pm to 5pm, but I am regularly in the office A309L. Nevertheless, as the agenda gets packed, it is convenient to arrange a meeting via email beforehand. Note that I will be attending a conference from October 23 to November 1.

Qualifications

  1. PhD, Jaume I University, Spain, Jun 2006 – Jun 2010
  2. BSc/MSc, Jaume I University, Spain, Sep 1999 – Sep 2004

Employment

  1. Lecturer in Artificial Intelligence, City, University London, Sep 2019 – present
  2. Senior Research Associate, The Alan Turing Institute, Apr 2018 – Sep 2019
  3. Researcher, University of Oslo, Sep 2016 – present
  4. Research Assistant, University of Oxford, Jan 2011 – Aug 2016
  5. Researcher, European Bioinformatics Institute, Oct 2010 – Jan 2011
  6. Research Assistant, Jaume I University, Oct 2004 – Oct 2010

Languages

English (can read, write, speak, understand spoken and peer review), Italian (can read, write, speak and understand spoken) and Spanish; Castilian (can read, write, speak, understand spoken and peer review).

Research

Research Interests

My research has covered several areas, including bio-medical information processing and integration, ontology reuse, ontology versioning and evolution, ontology alignment, and text mining. I have also designed novel algorithmic techniques and developed java-based tools to serve as a proof of concept of the conducted theoretical research. My current research interest focuses on the integration of Knowledge Representation and Machine Learning techniques.

Supervision

I am willing to supervise undergraduate, MSc and PhD students. Please drop me a line and we can discuss possible projects.

Research Students

Ole Magnus Holter

Attendance: Jan 2018 – Jun 2019, part-time

Thesis title: Semantic Embeddings for OWL 2 Ontologies

Role: 1st Supervisor

Further information: MSc thesis, University of Oslo, 2019

Erik Bryhn Myklebust.

Attendance: Jan 2018 – present, full-time

Thesis title: Ecotoxicological Effect Prediction using Knowledge Graphs and Deep Learning

Role: 1st Supervisor

Further information: PhD student, University of Oslo

Alessandro Solimando

Attendance: Jan 2014 – May 2015, full-time

Thesis title: Change Management in the Traditional and Semantic Web

Role: 2nd Supervisor

Further information: PhD thesis, University of Genoa, Italy

Publications

Book

  1. Dragoni, M., Poveda-Villalón, M. and Jimenez-Ruiz, E. (2017). Preface. ISBN 978-3-319-54626-1.

Conference papers and proceedings (111)

  1. Geng, Y., Chen, J., Jimenez-Ruiz, E. and Chen, H. (2019). Human-centric Transfer Learning Explanation via Knowledge Graph
    [Extended Abstract].
    AAAI-19 Workshop on Network Interpretability for Deep Learning 27-28 January, Honolulu, Hawaii, USA.
  2. Kharlamov, E., Skjaveland, M., Hovland, D., Mailis, T., Jimenez-Ruiz, E., Xiao, G. … Waaler, A. (2019). Finding Data Should be Easier than Finding Oil.
  3. Holter, O.M., Myklebust, E.B., Chen, J. and Jimenez-Ruiz, E. (2019). Embedding OWL ontologies with OWL2Vec.
  4. Kudama, S., Berlanga, R. and Jiménez-Ruiz, E. (2018). Enriching the Human Phenotype Ontology with inferred axioms from textual descriptions.
  5. Algergawy, A., Cheatham, M., Faria, D., Ferrara, A., Fundulaki, I., Harrow, I. … Zhou, L. (2018). Results of the ontology alignment evaluation initiative 2018.
  6. Shvaiko, P., Euzenat, J., Jiménez-Ruiz, E., Cheatham, M. and Hassanzadeh, O. (2018). Ontology matching OM-2018.
  7. Jiménez-Ruiz, E., Cuenca Grau, B. and Cross, V. (2018). LogMap family participation in the OAEI2018.
  8. Jiménez-Ruiz, E., Saveta, T., Zamazal, O., Hertling, S., Röder, M., Fundulaki, I. … Trojahn, C. (2018). Introducing the HOBBIT platform into the Ontology Alignment Evaluation campaign.
  9. Jiménez-Ruiz, E., Agibetov, A., Samwald, M. and Cross, V. (2018). We divide, you conquer: From large-scale ontology alignment to manageable subtasks with a lexical index and neural embeddings.
  10. Khiat, A., Yaman, B., Guerrini, G., Jimènez-Ruiz, E. and Karam, N. (2017). Boosting MultiFarm track with Turkish dataset.
  11. Jimènez-Ruiz, E., Grau, B.C. and Cross, V. (2017). LogMap family participation in the OAEI 2017.
  12. Jiménez-Ruiz, E., Hovland, D., Slaughter, L., Håndstad, T. and Waaler, A. (2017). On adopting Ontology Alignment techniques within the Phenotype Acquisition Process.
  13. Achichi, M., Cheatham, M., Dragisic, Z., Euzenat, J., Faria, D., Ferrara, A. … Zamazal, O. (2017). Results of the ontology alignment evaluation initiative 2017?
  14. Pereira, S., Cross, V. and Jiménez-Ruiz, E. (2017). On partitioning for ontology alignment.
  15. Pinkel, C., Binnig, C., Jimenez-Ruiz, E., Kharlamov, E., Nikolov, A., Schwarte, A. … Kraska, T. (2017). INCMap: A Journey towards ontology-based data integration.
  16. Kharlamov, E., Mailis, T., Bereta, K., Bilidas, D., Brandt, S., Jimenez-Ruiz, E. … Waaler, A. (2016). A semantic approach to polystores.
  17. Soylu, A., Giese, M., Schlatte, R., Jimenez-Ruiz, E., Özçep, Ö. and Brandt, S. (2016). A visual query system for stream data access over ontologies.
  18. Kharlamov, E., Grau, B.C., Jiménez-Ruiz, E., Lamparter, S., Mehdi, G., Ringsquandl, M. … Horrocks, I. (2016). Capturing industrial information models with ontologies and constraints.
  19. Kharlamov, E., Brandt, S., Giese, M., Jiménez-Ruiz, E., Kotidis, Y., Lamparter, S. … Waaler, A. (2016). Demo: Enabling semantic access to static and streaming distributed data with optique.
  20. Kharlamov, E., Brandt, S., Jimenez-Ruiz, E., Kotidis, Y., Lamparter, S., Mailis, T. … Möller, R. (2016). Ontology-based integration of streaming and static relational data with optique.
  21. Carapella, V., Jiménez-Ruiz, E., Lukaschuk, E., Aung, N., Fung, K., Paiva, J. … Piechnik, S. (2016). Towards the semantic enrichment of free-text annotation of image quality assessment for UK Biobank cardiac Cine MRI scans.
  22. Dragisic, Z., Ivanova, V., Lambrix, P., Faria, D., Jiménez-Ruiz, E. and Pesquita, C. (2016). User validation in ontology alignment.
  23. Soylu, A., Giese, M., Schlatte, R., Jimenez-Ruiz, E., Özçep, Ö. and Brandt, S. (2016). Domain experts surfing on stream sensor data over ontologies.
  24. Harrow, I., Jimenez-Ruiz, E., Splendiani, A., Romacker, M., Negru, S., Woollard, P. … Malone, J. (2016). Introducing the disease and phenotype OAEI track.
  25. Jiménez-Ruiz, E., Cuenca Grau, B. and Cross, V. (2016). LogMap family participation in the OAEI 2016.
  26. Shvaiko, P., Euzenat, J., Jiménez-Ruiz, E., Cheatham, M., Hassanzadeh, O. and Ichise, R. (2016). Ontology matching: OM-2016.
  27. Harrow, I., Romacker, M., Splendiani, A., Negru, S., Woollard, P., Markel, S. … Jimenez-Ruiz, E. (2016). Ontologies guidelines for best practice and a process to evaluate existing ontologies mapping tools and algorithms.
  28. Soylu, A., Giese, M., Jimenez-Ruiz, E., Kharlamov, E., Schlatte, R., Neuenstadt, C. … Horrocks, I. (2016). Ontology-based visual querying with OptiqueVQS: Statoil and Siemens cases.
  29. Achichi, M., Cheatham, M., Dragisic, Z., Euzenat, J., Faria, D., Ferrara, A. … Zamazal, O. (2016). Results of the Ontology Alignment Evaluation Initiative 2016.
  30. Kharlamov, E., Cuenca Grau, B., Jiménez-Ruiz, E., Lamparter, S., Mehdi, G., Ringsquandl, M. … Horrocks, I. (2016). SOMM: Industry oriented ontology management tool.
  31. Jiménez-Ruiz, E., Carapella, V., Lukaschuk, E., Aung, N., Fung, K., Paiva, J. … Piechnik, S. (2016). Towards the creation of the cardiovascular magnetic resonance quality assessment ontology (CMR-QA).
  32. Kharlamov, E., Brandt, S., Giese, M., Jiménez-Ruiz, E., Kotidis, Y., Lamparter, S. … Waaler, A. (2016). Scalable semantic access to siemens static and streaming distributed data?
  33. Khiat, A., Diallo, G., Yaman, B., Jiménez-Ruiz, E. and Benaissa, M. (2015). ABOM and ADOM: Arabic datasets for the ontology alignment evaluation campaign.
  34. Jimènez-Ruiz, E., Kharlamov, E., Zheleznyakov, D., Horrocks, I., Pinkel, C., Skjæveland, M.G. … Mora, J. (2015). BOOTOX: Practical mapping of RDBs to OWL 2.
  35. Soylu, A., Kharlamov, E., Zheleznyakov, D., Jimenez-Ruiz, E., Giese, M. and Horrocks, I. (2015). Ontology-based visual query formulation: An industry experience.
  36. Kharlamov, E., Hovland, D., Jimènez-Ruiz, E., Lanti, D., Lie, H., Pinkel, C. … Horrocks, I. (2015). Ontology based access to exploration data at statoil.
  37. Pinkel, C., Binnig, C., Jimènez-Ruiz, E., May, W., Ritze, D., Skjæveland, M.G. … Kharlamov, E. (2015). RODI: A benchmark for automatic mapping generation in relational-to-ontology data integration.
  38. Khiat, A., Benaissa, M. and Jiménez-Ruiz, E. (2015). ADOM: Arabic dataset for evaluating Arabic and cross-lingual ontology alignment systems.
  39. Jiménez-Ruiz, E., Kharlamov, E., Zheleznyakov, D., Horrocks, I., Pinkel, C., Skjæveland, M.G. … Mora, J. (2015). BOOTOX: Bootstrapping OWL 2 ontologies and R2RML mappings from relational databases.
  40. Jiménez-Ruiz, E., Cuenca Grau, B., Solimando, A. and Cross, V. (2015). LogMap family results for OAEI 2015.
  41. Kharlamov, E., Jiménez-Ruiz, E., Pinkel, C., Rezk, M., Skjæveland, M.G., Soylu, A. … Waaler, A. (2015). OPTIQUE: Ontology-based data access platform.
  42. Solimando, A., Jimenez-Ruiz, E. and Guerrini, G. (2015). On the feasibility of using OWL 2 reasoners in ontology alignment repair problems.
  43. Shvaiko, P., Euzenat, J., Jiménez-Ruiz, E., Cheatham, M. and Hassanzadeh, O. (2015). Ontology matching OM-2015: Proceedings of the ISWC workshop.
  44. Cheatham, M., Dragisic, Z., Euzenat, J., Faria, D., Ferrara, A., Flouris, G. … Zamazal, O. (2015). Results of the ontology alignment evaluation initiative 2015.
  45. Soylu, A., Kharlamov, E., Zheleznyakov, D., Jimenez-Ruiz, E., Giese, M. and Horrocks, I. (2015). OptiqueVQS: Ontology-based visual querying.
  46. Kudama, S., Berlanga, R., Houlden, H., Jiménez-Ruiz, E., Jonvik, H., Milward, A. … Wood, N. (2015). Towards enabling the semantic access of phenotypic information in clinical letters.
  47. Kharlamov, E., Brandt, S., Giese, M., Jiménez-Ruiz, E., Lamparter, S., Neuenstadt, C. … Horrocks, I. (2015). Semantic access to siemens streaming data: The OPTIQUE way.
  48. Agibetov, A., Jiménez-Ruiz, E., Solimando, A., Guerrini, G., Patanè, G. and Spagnuolo, M. (2015). Towards shared hypothesis testing in the biomedical domain.
  49. Xia, W., Jimenez-Ruiz, E. and Cross, V. (2015). Using BioPortal as a repository for mediating ontologies in ontology alignment.
  50. Martins, C., Jimenez-Ruiz, E., Santos, E. and Pesquita, C. (2015). Towards visualizing the mapping incoherences in BioPortal.
  51. Arenas, M., Grau, B.C., Kharlamov, E., Marciuška, Š., Zheleznyakov, D. and Jimenez-Ruiz, E. (2014). SemFacet: Semantic faceted search over Yago.
  52. Soylu, A., Giese, M., Jimenez-Ruiz, E., Kharlamov, E., Zheleznyakov, D. and Horrocks, I. (2014). Why not simply Google?
  53. Solimando, A., Jiménez-Ruiz, E. and Guerrini, G. (2014). Detecting and correcting conservativity principle violations in ontology-to-ontology mappings.
  54. Solimando, A., Jiménez-Ruiz, E. and Guerrini, G. (2014). A multi-strategy approach for detecting and correcting conservativity principle violations in ontology alignments.
  55. Solimando, A., Jiménez-Ruiz, E. and Pinkel, C. (2014). Evaluating ontology alignment systems in query answering tasks.
  56. Chen, X., Xia, W., Jiménez-Ruiz, E. and Cross, V. (2014). Extending an ontology alignment system with BIOPORTAL: A preliminary analysis.
  57. Jiménez-Ruiz, E., Grau, B.C., Xia, W., Solimo, A., Chen, X., Cross, V. … Chennai-Thiagarajan, A. (2014). Logmap family results for OAEI 2014.
  58. Soylu, A., Kharlamov, E., Zheleznyakov, D., Jimenez-Ruiz, E., Giese, M. and Horrocks, I. (2014). OptiqueVQS: Visual query formulation for OBDA.
  59. Shvaiko, P., Euzenat, J., Mao, M., Li, J., Jiménez-Ruiz, E. and Ngonga, A. (2014). Ontology matching om-2014.
  60. Bail, S., Glimm, B., Jimenez-Ruiz, E., Matentzoglu, N., Parsia, B. and Steigmiller, A. (2014). Preface.
  61. Dragisic, Z., Eckert, K., Euzenat, J., Faria, D., Ferrara, A., Granada, R. … Grau, B.C. (2014). Results of the ontology alignment evaluation initiative 2014.
  62. Faria, D., Jiménez-Ruiz, E., Pesquita, C., Santos, E. and Couto, F.M. (2014). Towards annotating potential incoherences in bioportal mappings.
  63. Arenas, M., Grau, B.C., Kharlamov, E., Marciuška, Š., Zheleznyakov, D. and Jimenez-Ruiz, E. (2014). Towards semantic faceted search.
  64. Soylu, A., Giese, M., Jimenez-Ruiz, E., Kharlamov, E., Zheleznyakov, D. and Horrocks, I. (2014). Towards Exploiting Query History for Adaptive Ontology-Based Visual Query Formulation.
  65. Soylu, A., Skjæveland, M.G., Giese, M., Horrocks, I., Jimenez-Ruiz, E., Kharlamov, E. … Zheleznyakov, D. (2013). A Preliminary Approach on Ontology-Based Visual Query Formulation for Big Data.
  66. Calvanese, D., Giese, M., Haase, P., Horrocks, I., Hubauer, T., Ioannidis, Y. … Zheleznyakov, D. (2013). Optique: OBDA solution for big data.
  67. Soylu, A., Giese, M., Jimenez-Ruiz, E., Kharlamov, E., Zheleznyakov, D. and Horrocks, I. (2013). OptiqueVQS - Towards an ontology-based visual query system for big data.
  68. Kharlamov, E., Jiménez-Ruiz, E., Zheleznyakov, D., Bilidas, D., Giese, M., Haase, P. … Waaler, A. (2013). Optique: Towards OBDA systems for industry.
  69. Horrocks, I., Hubauer, T., Jimenez-Ruiz, E., Kharlamov, E., Koubarakis, M., Möller, R. … Zheleznyakov, D. (2013). Addressing streaming and historical data in OBDA systems: Optique's approach (statement of interest).
  70. Kllapi, H., Bilidas, D., Horrocks, I., Ioannidis, Y., Jimenez-Ruiz, E., Kharlamov, E. … Zheleznyakov, D. (2013). Distributed query processing on the cloud: The optique point of view.
  71. Sesen, M.B., Jiménez-Ruiz, E., Bañares-Alcántara, R. and Brady, S.M. (2013). Evaluating OWL 2 reasoners in the context of clinical decision support in lung cancer treatment selection.
  72. Jiménez-Ruiz, E., Meilicke, C., Cuenca Grau, B. and Horrocks, I. (2013). Evaluating mapping repair systems with large biomedical ontologies.
  73. Jiménez-Ruiz, E., Meilicke, C., Grau, B.C. and Horrocks, I. (2013). Evaluating mapping repair systems with large biomedical ontologies.
  74. Jiménez-Ruiz, E., Grau, B.C. and Horrocks, I. (2013). Is my ontology matching system similar to yours?
  75. Jiménez-Ruiz, E., Grau, B.C. and Horrocks, I. (2013). LogMap and LogMapLt results for OAEI 2013.
  76. Romero, A.A., Grau, B.C., Horrocks, I. and Jiménez-Ruiz, E. (2013). MORe: A modular owl reasoner for ontology classification.
  77. Gonçalves, R.S., Bail, S., Jimenez-Ruiz, E., Matentzoglu, N., Parsia, B., Glimm, B. … Kazakov, Y. (2013). OWL reasoner evaluation (ORE) workshop 2013 results: Short report.
  78. Calvanese, D., Horrocks, I., Jimenez-Ruiz, E., Kharlamov, E., Meier, M., Rodriguez-Muro, M. … Zheleznyakov, D. (2013). On rewriting and answering queries in OBDA systems for big data.
  79. Shvaiko, P., Euzenat, J., Srinivas, K., Mao, M. and Jiménez-Ruiz, E. (2013). Ontology matching OM-2013.
  80. Kharlamov, E., Giese, M., Jiménez-Ruiz, E., Skjæveland, M.G., Soylu, A., Zheleznyakov, D. … Waaler, A. (2013). Optique 1.0: Semantic access to big data The case of norwegian petroleum directorate's fact pages.
  81. Haase, P., Horrocks, I., Hovland, D., Hubauer, T., Jimenez-Ruiz, E., Kharlamov, E. … Zheleznyakov, D. (2013). Optique system: Towards ontology and mapping management in OBDA solutions.
  82. Grau, B.C., Dragisic, Z., Eckert, K., Euzenat, J., Ferrara, A., Granada, R. … Zamazal, O. (2013). Results of the ontology alignment evaluation initiative 2013.
  83. Calvanese, D., Giese, M., Haase, P., Horrocks, I., Hubauer, T., Ioannidis, Y. … Zheleznyakov, D. (2013). The optique project: Towards OBDA systems for industry.
  84. Cuenca Grau, B., Giese, M., Horrocks, I., Hubauer, T., Jiménez-Ruiz, E., Kharlamov, E. … Zheleznyakov, D. (2013). Towards query formulation and query-driven ontology extensions in OBDA systems.
  85. Jiménez-Ruiz, E., Cuenca Grau, B. and Zhou, Y. (2012). LogMap 2.0: Towards logic-based, scalable and interactive ontology matching.
  86. Aguirre, J.L., Eckert, K., Euzenat, J., Ferrara, A., Van Hage, W.R., Hollink, L. … Zapilko, B. (2012). Results of the ontology alignment evaluation initiative 2012.
  87. Jiménez-Ruiz, E., Grau, B.C. and Horrocks, I. (2012). LogMap and LogMapLt results for OAEI 2012.
  88. Jiménez-Ruiz, E., Grau, B.C. and Horrocks, I. (2012). On the feasibility of using OWL 2 DL reasoners for ontology matching problems.
  89. Jiménez-Ruiz, E., Grau, B.C. and Horrocks, I. (2012). Exploiting the UMLS metathesaurus in the ontology alignment evaluation initiative.
  90. Jiménez-Ruiz, E., Grau, B.C., Zhou, Y. and Horrocks, I. (2012). Large-scale interactive ontology matching: Algorithms and implementation.
  91. Cuenca Grau, B., Jimenez-Ruiz, E., Kharlamov, E. and Zheleznyakov, D. (2012). Ontology evolution under semantic constraints.
  92. Berlanga, R., Jimeno-Yepes, A., Aramburu, M.J., Jimenez-Ruiz, E. and Sanz, I. (2011). Message from the workshop chairs.
  93. Jiménez-Ruiz, E. and Cuenca Grau, B. (2011). LogMap: Logic-based and scalable ontology matching.
  94. Jiménez-Ruiz, E., Rebholz-Schuhmann, D. and Lewin, I. (2011). Exploitation of cross-references between terminological resources within the CALBC context.
  95. Jiménez-Ruiz, E. and Grau, B.C. (2011). Towards more challenging problems for ontology matching tools.
  96. Jiménez-Ruiz, E., Morant, A. and Grau, B.C. (2011). LogMap results for OAEI 2011.
  97. Jiménez-Ruiz, E., Cuenca Grau, B., Horrocks, I. and Berlanga, R. (2010). Towards a UMLS-based silver standard for matching biomedical ontologies.
  98. Duque, A., Campos, C., Jiménez-Ruiz, E. and Chalmeta, R. (2009). An ontological solution to support interoperability in the textile industry.
  99. Jiménez-Ruiz, E., Cuenca Grau, B., Horrocks, I. and Berlanga, R. (2009). Ontology integration using mappings: Towards getting the right logical consequences.
  100. Jiménez-Ruiz, E., Cuenca Grau, B., Horrocks, I. and Berlanga, R. (2009). ContentCVS: A CVS-based collaborative ONTology ENgineering tool.
  101. Jimeno-Yepes, A., Jiménez-Ruiz, E., Berlanga, R. and Rebholz-Schuhmann, D. (2009). Use of shared lexical resources for efficient ontological engineering.
  102. Jiménez-Ruiz, E., Cuenca Grau, B., Berlanga, R. and Horrocks, I. (2009). Towards a logic-based assessment of the compatibility of UMLS sources.
  103. Jiménez-Ruiz, E., Cuenca Grau, B., Horrocks, I. and Berlanga, R. (2009). Building ontologies collaboratively using contentCVS.
  104. Jimenez-Ruiz, E., Grau, B.C., Sattler, U., Schneider, T. and Berlanga, R. (2009). Safe and economic re-use of ontologies: A logic-based methodology and tool support.
  105. Berlanga, R., Jimenez-Ruiz, E., Nebot, V., Manset, D., Branson, A., Hauer, T. … Freund, J. (2008). Medical data integration and the semantic annotation of medical protocols.
  106. Berlanga-Llavori, R., Anaya-Sánchez, H., Pons-Porrata, A. and Jiménez-Ruiz, E. (2008). Conceptual subtopic identification in the medical domain.
  107. Jiménez-Ruiz, E., Grau, B.C., Sattler, U., Schneider, T. and Berlanga, R. (2008). Safe and economic re-use of ontologies: A logic-based methodology and tool support.
  108. Jiménez-Ruiz, E., Grau, B.C., Sattler, U., Schneider, T. and Berlanga, R. (2008). Safe and economic re-use of ontologies: A logic-based methodology and tool support.
  109. Jiménez-Ruiz, E., Berlanga, R., Nebot, V. and Sanz, I. (2007). OntoPath: A language for retrieving ontology fragments.
  110. Riechert, T., Ruiz, E., Cantador, I., Engler, M., Michaelides, D., Bortenschlager, M. … Tolksdorf, R. (2006). Working Group Report on Semantic Technologies in Collaborative Applications. 15th IEEE International Workshops on Enabling Technologies: Infrastructure for Collaborative Enterprises (WETICE'06) 26-28 June.
  111. Jiménez-Ruiz, E. and Berlanga, R. (2006). A view-based methodology for collaborative ontology engineering: An approach for complex applications (VIMethCOE).

Journal articles (31)

  1. Harrow, I., Balakrishnan, R., Jimenez-Ruiz, E., Jupp, S., Lomax, J., Reed, J. … Woollard, P. (2019). Ontology mapping for semantically enabled applications. Drug Discovery Today, 24(10), pp. 2068–2075. doi:10.1016/j.drudis.2019.05.020.
  2. Klungre, V.N., Soylu, A., Jimenez-Ruiz, E., Kharlamov, E. and Giese, M. (2019). Query Extension Suggestions for Visual Query Systems Through Ontology Projection and Indexing. New Generation Computing. doi:10.1007/s00354-019-00071-1.
  3. Chen, J., Jimenez-Ruiz, E., Horrocks, I., Sutton, C. and AAAI, (2019). ColNet: Embedding the Semantics of Web Tables for Column Type Prediction. THIRTY-THIRD AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTY-FIRST INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / NINTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE pp. 29–36.
  4. Soylu, A., Kharlamov, E., Zheleznyakov, D., Jimenez-Ruiz, E., Giese, M., Skjæveland, M.G. … Horrocks, I. (2018). OptiqueVQS: A visual query system over ontologies for industry. Semantic Web, 9(5), pp. 627–660. doi:10.3233/sw-180293.
  5. Agibetov, A., Jiménez-Ruiz, E., Ondrésik, M., Solimando, A., Banerjee, I., Guerrini, G. … Spagnuolo, M. (2018). Supporting shared hypothesis testing in the biomedical domain. Journal of Biomedical Semantics, 9(1). doi:10.1186/s13326-018-0177-x.
  6. Pinkel, C., Binnig, C., Jiménez-Ruiz, E., Kharlamov, E., May, W., Nikolov, A. … Horrocks, I. (2018). RODI: Benchmarking relational-to-ontology mapping generation quality. Semantic Web, 9(1), pp. 25–52. doi:10.3233/SW-170268.
  7. Harrow, I., Jiménez-Ruiz, E., Splendiani, A., Romacker, M., Woollard, P., Markel, S. … Waaler, A. (2017). Matching disease and phenotype ontologies in the ontology alignment evaluation initiative. Journal of Biomedical Semantics, 8(1). doi:10.1186/s13326-017-0162-9.
  8. Solimando, A., Jiménez-Ruiz, E. and Guerrini, G. (2017). Minimizing conservativity violations in ontology alignments: algorithms and evaluation. Knowledge and Information Systems, 51(3), pp. 775–819. doi:10.1007/s10115-016-0983-3.
  9. Soylu, A., Giese, M., Jimenez-Ruiz, E., Kharlamov, E., Zheleznyakov, D. and Horrocks, I. (2017). Ontology-based end-user visual query formulation: Why, what, who, how, and which? Universal Access in the Information Society, 16(2), pp. 435–467. doi:10.1007/s10209-016-0465-0.
  10. Kharlamov, E., Hovland, D., Skjæveland, M.G., Bilidas, D., Jiménez-Ruiz, E., Xiao, G. … Waaler, A. (2017). Ontology Based Data Access in Statoil. Journal of Web Semantics, 44, pp. 3–36. doi:10.1016/j.websem.2017.05.005.
  11. Soylu, A., Giese, M., Schlatte, R., Jimenez-Ruiz, E., Kharlamov, E., Özçep, Ö. … Brandt, S. (2017). Querying industrial stream-temporal data: An ontology-based visual approach. Journal of Ambient Intelligence and Smart Environments, 9(1), pp. 77–95. doi:10.3233/AIS-160415.
  12. Soylu, A., Giese, M., Jimenez-Ruiz, E., Vega-Gorgojo, G. and Horrocks, I. (2016). Experiencing OptiqueVQS: a multi-paradigm and ontology-based visual query system for end users. Universal Access in the Information Society, 15(1), pp. 129–152. doi:10.1007/s10209-015-0404-5.
  13. Giese, M., Soylu, A., Vega-Gorgojo, G., Waaler, A., Haase, P., Jiménez-Ruiz, E. … Rosati, R. (2015). Optique: Zooming in on Big Data. Computer, 48(3), pp. 60–67. doi:10.1109/MC.2015.82.
  14. Marti, J.V., Sales, J., Marin, R. and Jimenez-Ruiz, E. (2012). Localization of mobile sensors and actuators for intervention in low-visibility conditions: The ZigBee fingerprinting approach. International Journal of Distributed Sensor Networks, 2012. doi:10.1155/2012/951213.
  15. Berlanga, R., Jiménez-Ruiz, E. and Nebot, V. (2012). Exploring and linking biomedical resources through multidimensional semantic spaces. BMC bioinformatics, 13 Suppl 1.
  16. Jiménez-Ruiz, E., Grau, B.C., Horrocks, I. and Berlanga, R. (2011). Logic-based assessment of the compatibility of UMLS ontology sources. Journal of Biomedical Semantics, 2(1). doi:10.1186/2041-1480-2-S1-S2.
  17. Falomir, Z., Jiménez-Ruiz, E., Escrig, M.T. and Museros, L. (2011). Describing images using qualitative models and description logics. Spatial Cognition and Computation, 11(1), pp. 45–74. doi:10.1080/13875868.2010.545611.
  18. Jiménez Ruiz, E., Grau, B.C., Horrocks, I. and Berlanga, R. (2011). Supporting concurrent ontology development: Framework, algorithms and tool. Data and Knowledge Engineering, 70(1), pp. 146–164. doi:10.1016/j.datak.2010.10.001.
  19. Jiménez-Ruiz, E., Grau, B.C., Berlanga, R. and Rebholz-Schuhmann, D. (2010). First steps in the logic-based assessment of post-composed phenotypic descriptions. CEUR Workshop Proceedings, 698.
  20. Berlanga, R., Jiménez-Ruiz, E. and Nebot, V. (2010). Building conceptual spaces for exploring and linking biomedical resources. CEUR Workshop Proceedings, 698.
  21. Berlanga, R., Jiménez-Ruiz, E., Nebot, V. and Sanz, I. (2010). FAETON: Form analysis and extraction tool for ontology construction. International Journal of Computer Applications in Technology, 39(4), pp. 224–233. doi:10.1504/IJCAT.2010.036026.
  22. Mesiti, M., Jiménez-Ruiz, E., Sanz, I., Berlanga-Llavori, R., Perlasca, P., Valentini, G. … Manset, D. (2009). XML-based approaches for the integration of heterogeneous bio-molecular data. BMC Bioinformatics, 10(SUPPL. 12). doi:10.1186/1471-2105-10-S12-S7.
  23. Jimeno-Yepes, A., Jiménez-Ruiz, E., Berlanga-Llavori, R. and Rebholz-Schuhmann, D. (2009). Reuse of terminological resources for efficient ontological engineering in Life Sciences. BMC Bioinformatics, 10(SUPPL. 10). doi:10.1186/1471-2105-10-S10-S4.
  24. Jimeno, A., Jimenez-Ruiz, E., Lee, V., Gaudan, S., Berlanga, R. and Rebholz-Schuhmann, D. (2008). Assessment of disease named entity recognition on a corpus of annotated sentences. BMC Bioinformatics, 9(SUPPL. 3). doi:10.1186/1471-2105-9-S3-S3.
  25. Jimenez-Ruiz, E., Berlanga, R., Sanz, I., McClatchey, R., Danger, R., Manset, D. … Rios, A. (2006). The management and integration of biomedical knowledge: Application in the health-e-child project (position paper). Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 4278 LNCS - II, pp. 1062–1067.
  26. Chen, J., Jimenez-Ruiz, E., Horrocks, I. and Sutton, C. Learning Semantic Annotations for Tabular Data. International Joint Conferences on Artificial Intelligence (IJCAI 2019).
  27. Myklebust, E.B., Jimenez-Ruiz, E., Chen, J., Wolf, R. and Tollefsen, K.E. Knowledge Graph Embedding for Ecotoxicological Effect Prediction. International Semantic Web Conference.
  28. Myklebust, E.B., Jimenez-Ruiz, E., Chen, J., Wolf, R. and Tollefsen, K.E. Enabling Semantic Data Access for Toxicological Risk Assessment. .
  29. Chen, J., Jimenez-Ruiz, E. and Horrocks, I. Canonicalizing Knowledge Base Literals. International Semantic Web Conference (ISWC) 2019.
  30. Meilicke, C., Sváb-Zamazal, O., Trojahn, C., Jiménez-Ruiz, E., Aguirre, J.-.L., Stuckenschmidt, H. … Grau, B.C. Evaluating Ontology Matching Systems on Large, Multilingual and
    Real-world Test Cases.
    .
  31. Li, H., Dragisic, Z., Faria, D., Ivanova, V., Jiménez-Ruiz, E., Lambrix, P. … Pesquita, C. User validation in ontology alignment: functional assessment and impact. The Knowledge Engineering Review.

Report

  1. Jimenez-Ruiz, E., Agibetov, A., Samwald, M. and Cross, V. Breaking-down the Ontology Alignment Task with a Lexical Index and
    Neural Embeddings.
    .

Other Activities

Editorial activity (3)

  1. Journal of Web Semantics, Guest Editor, Jun 2019 – present.
  2. The Knowledge Engineering Review, Guest Editor, Sep 2018 – present.
  3. Journal of Biomedical Semantics, Guest Editor, Jan 2017 – Oct 2018.

Event/conference

  1. The Fourteenth International Workshop on Ontology Matching. (Workshop) (2019). Organising Committee.