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  2021 (4)
Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development. da Silva, R. F.; Casanova, H.; Chard, K.; Coleman, T.; Laney, D.; Ahn, D.; Jha, S.; Howell, D.; Soiland-Reys, S.; Altintas, I.; and others arXiv preprint. 2021.
Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development [link]Paper   bibtex  
Crossing the chasm between ontology engineering and application development: A survey. Espinoza-Arias, P.; Garijo, D.; and Corcho, O. Journal of Web Semantics,100655. 2021.
Crossing the chasm between ontology engineering and application development: A survey [pdf]Paper   doi   bibtex   abstract  
Artificial Intelligence for Modeling Complex Systems: Taming the Complexity of Expert Models to Improve Decision Making. Gil, Y.; Garijo, D.; Khider, D.; Knoblock, C. A.; Ratnakar, V.; Osorio, M.; Vargas, H.; Pham, M.; Pujara, J.; Shbita, B.; Vu, B.; Chiang, Y.; Feldman, D.; Lin, Y.; Song, H.; Kumar, V.; Khandelwal, A.; Steinbach, M.; Tayal, K.; Xu, S.; Pierce, S. A.; Pearson, L.; Hardesty-Lewis, D.; Deelman, E.; da Silva, R. F.; Mayani, R.; Kemanian, A. R.; Shi, Y.; Leonard, L.; Peckham, S.; Stoica, M.; Cobourn, K.; Zhang, Z.; Duffy, C.; and Shu, L. ACM Trans. Interact. Intell. Syst., 11(2). July 2021.
Artificial Intelligence for Modeling Complex Systems: Taming the Complexity of Expert Models to Improve Decision Making [pdf]Paper   doi   bibtex  
  2020 (10)
Mapping the Web Ontology Language to the OpenAPI Specification. Espinoza-Arias, P.; Garijo, D.; and Corcho, O. In 2nd Workshop on Conceptual Modeling, Ontologies and (Meta)data Management for Findable, Accessible, Interoperable and Reusable (FAIR) Data (CMOMM4FAIR) Colocated with the 2020 Conference on Advances in Conceptual Modeling, pages 117–127, 12 2020.
Mapping the Web Ontology Language to the OpenAPI Specification [pdf]Paper   doi   bibtex  
Nine Best Practices for Research Software Registries and Repositories: A Concise Guide. Monteil, A.; Gonzalez-Beltran, A.; Ioannidis, A.; Allen, A.; Lee, A.; Bandrowski, A.; Wilson, B. E; Mecum, B.; Du, C. F.; Robinson, C.; Garijo, D.; and others arXiv preprint. 2020.
Nine Best Practices for Research Software Registries and Repositories: A Concise Guide [pdf]Paper   bibtex  
A Template-Based Approach for Annotating Long-Tail Datasets. Garijo, D.; Yao, K.; Singh, A.; and Szekely, P. A. In Joint Proceedings of Workshops AI4LEGAL2020, NLIWOD, PROFILES 2020, QuWeDa 2020 and SEMIFORM2020 Colocated with the 19th International Semantic Web Conference (ISWC 2020), Virtual Conference, November, 2020, volume 2722, of CEUR Workshop Proceedings, pages 97–102, 2020. CEUR-WS.org
A Template-Based Approach for Annotating Long-Tail Datasets [pdf]Paper   bibtex  
OBA: An Ontology-Based Framework for Creating REST APIs for Knowledge Graphs. Garijo, D.; and Osorio, M. In International Semantic Web Conference, pages 48–64, 2020. Springer, Cham
OBA: An Ontology-Based Framework for Creating REST APIs for Knowledge Graphs [pdf]Paper   bibtex  
KGTK: A Toolkit for Large Knowledge Graph Manipulation and Analysis. Ilievski, F.; Garijo, D.; Chalupsky, H.; Teja Divvala, N.; Yao, Y.; Rogers, C.; Li, R.; Liu, undefined; Singh, A.; Schwabe, D.; and Szekely, P. In International Semantic Web Conference, pages 278–293, 2020. Springer, Cham
KGTK: A Toolkit for Large Knowledge Graph Manipulation and Analysis [pdf]Paper   bibtex  
Coming to terms with FAIR ontologies: A position paper. Poveda-Villalón, M.; Espinoza-Arias, P.; Garijo, D.; and Corcho, O. In Proceedings of the 22nd International Conference on Knowledge Engineering and Knowledge Management (EKAW 2020), pages 255-270, September 2020.
Coming to terms with FAIR ontologies: A position paper [pdf]Paper   doi   bibtex  
FAIR Computational Workflows. Goble, C.; Cohen-Boulakia, S.; Soiland-Reyes, S.; Garijo, D.; Gil, Y.; Crusoe, M. R.; Peters, K.; and Schober, D. Data Intelligence, 2(1-2): 108–121. 2020.
FAIR Computational Workflows [pdf]Paper   doi   bibtex  
The genetic architecture of the human cerebral cortex. Grasby, K. L; Jahanshad, N.; Painter, J. N; Colodro-Conde, L.; Bralten, J.; Hibar, D. P; Lind, P. A; Pizzagalli, F.; Ching, C. R.; McMahon, M. A. B; and others Science, 367(6484). 2020.
The genetic architecture of the human cerebral cortex [pdf]Paper   bibtex  
Best Practices for Implementing FAIR Vocabularies and Ontologies on the Web. Garijo, D.; and Poveda-Villalón, M. In Giuseppe Cota, M. D.; and Pozzato, G. L., editor(s), Applications and Practices in Ontology Design, Extraction, and Reasoning. IOS Press, Netherlands, 2020.
Best Practices for Implementing FAIR Vocabularies and Ontologies on the Web [pdf]Paper   doi   bibtex  
ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries. Thompson, P. M.; Jahanshad, N.; Ching, C. R. K.; Salminen, L. E.; Thomopoulos, S. I.; Bright, J.; Baune, B. T.; Bertolín, Sara; Bralten, J.; Bruin, W. B.; Bülow, R.; Chen, J.; Chye, Y.; Dannlowski, U.; de Kovel, C. G. F.; Donohoe, G.; Eyler, L. T.; Faraone, S. V.; Favre, P.; Filippi, C. A.; Frodl, T.; Garijo, D.; Gil, Y.; Grabe, H. J.; Grasby, K. L.; Hajek, T.; Han, L. K. M.; Hatton, S. N.; Hilbert, K.; Ho, T. C.; Holleran, L.; Homuth, G.; Hosten, N.; Houenou, J.; Ivanov, I.; Jia, T.; Kelly, S.; Klein, M.; Kwon, J. S.; Laansma, M. A.; Leerssen, J.; Lueken, U.; Nunes, A.; Neill, J. O.; Opel, N.; Piras, F.; Piras, F.; Postema, M. C.; Pozzi, E.; Shatokhina, N.; Soriano-Mas, C.; Spalletta, G.; Sun, D.; Teumer, A.; Tilot, A. K.; Tozzi, L.; van der Merwe, C.; Van Someren, E. J. W.; van Wingen, G. A.; Völzke, H.; Walton, E.; Wang, L.; Winkler, A. M.; Wittfeld, K.; Wright, M. J.; Yun, J.; Zhang, G.; Zhang-James, Y.; Adhikari, B. M.; Agartz, I.; Aghajani, M.; Aleman, A.; Althoff, R. R.; Altmann, A.; Andreassen, O. A.; Baron, D. A.; Bartnik-Olson, B. L.; Marie Bas-Hoogendam, J.; Baskin-Sommers, A. R.; Bearden, C. E.; Berner, L. A.; Boedhoe, P. S. W.; Brouwer, R. M.; Buitelaar, J. K.; Caeyenberghs, K.; Cecil, C. A. M.; Cohen, R. A.; Cole, J. H.; Conrod, P. J.; De Brito, S. A.; de Zwarte, S. M. C.; Dennis, E. L.; Desrivieres, S.; Dima, D.; Ehrlich, S.; Esopenko, C.; Fairchild, G.; Fisher, S. E.; Fouche, J.; Francks, C.; Frangou, S.; Franke, B.; Garavan, H. P.; Glahn, D. C.; Groenewold, N. A.; Gurholt, T. P.; Gutman, B. A.; Hahn, T.; Harding, I. H.; Hernaus, D.; Hibar, D. P.; Hillary, F. G.; Hoogman, M.; Hulshoff Pol, H. E.; Jalbrzikowski, M.; Karkashadze, G. A.; Klapwijk, E. T.; Knickmeyer, R. C.; Kochunov, P.; Koerte, I. K.; Kong, X.; Liew, S.; Lin, A. P.; Logue, M. W.; Luders, E.; Macciardi, F.; Mackey, S.; Mayer, A. R.; McDonald, C. R.; McMahon, A. B.; Medland, S. E.; Modinos, G.; Morey, R. A.; Mueller, S. C.; Mukherjee, P.; Namazova-Baranova, L.; Nir, T. M.; Olsen, A.; Paschou, P.; Pine, D. S.; Pizzagalli, F.; Rentería, Miguel E.; Rohrer, J. D.; Sämann, P. G.; Schmaal, L.; Schumann, G.; Shiroishi, M. S.; Sisodiya, S. M.; Smit, D. J. A.; S\onderby, I. E.; Stein, D. J.; Stein, J. L.; Tahmasian, M.; Tate, D. F.; Turner, J. A.; van den Heuvel, O. A.; van der Wee, N. J. A.; van der Werf, Y. D.; van Erp, T. G. M.; van Haren, N. E. M.; van Rooij, D.; van Velzen, L. S.; Veer, I. M.; Veltman, D. J.; Villalon-Reina, J. E.; Walter, H.; Whelan, C. D.; Wilde, E. A.; Zarei, M.; Zelman, V.; and Consortium, t. E. Translational Psychiatry, 10(1): 100. March 2020.
ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries [pdf]Paper   doi   bibtex  
  2019 (15)
SoMEF: A Framework for Capturing Scientific Software Metadata from its Documentation. Mao, A.; Garijo, D.; and Fakhraei, S. In 2019 IEEE International Conference on Big Data (Big Data), pages 3032–3037, 2019.
SoMEF: A Framework for Capturing Scientific Software Metadata from its Documentation [pdf]Paper   doi   bibtex  
An Intelligent Interface for Integrating Climate, Hydrology, Agriculture, and Socioeconomic Models. Garijo, D.; Khider, D.; Ratnakar, V.; Gil, Y.; Deelman, E.; da Silva, R. F.; Knoblock, C.; Chiang, Y.; Pham, M.; Pujara, J.; Vu, B.; Feldman, D.; Mayani, R.; Cobourn, K.; Duffy, C.; Kemanian, A.; Shu, L.; Kumar, V.; Khandelwal, A.; Tayal, K.; Peckham, S.; Stoica, M.; Dabrowski, A.; Hardesty-Lewis, D.; and Pierce, S. In Proceedings of the 24th International Conference on Intelligent User Interfaces: Companion, of IUI '19, pages 111–112, New York, NY, USA, 2019. ACM
An Intelligent Interface for Integrating Climate, Hydrology, Agriculture, and Socioeconomic Models [pdf]Paper   doi   bibtex  
Towards Human-guided Machine Learning. Gil, Y.; Honaker, J.; Gupta, S.; Ma, Y.; D'Orazio, V.; Garijo, D.; Gadewar, S.; Yang, Q.; and Jahanshad, N. In Proceedings of the 24th International Conference on Intelligent User Interfaces, of IUI '19, pages 614–624, New York, NY, USA, 2019. ACM
Towards Human-guided Machine Learning [pdf]Paper   doi   bibtex  
Semantic Workflows for Benchmark Challenges: Enhancing Comparability, Reusability and Reproducibility. Srivastava, A.; Adusumilli, R.; Boyce, H.; Garijo, D.; Ratnakar, V.; Mayani, R.; Yu, T.; Machiraju, R.; Gil, Y.; and Mallick, P. In Proceedings of the Pacific Symposium on Biocomputing (PSB), 2019.
Semantic Workflows for Benchmark Challenges: Enhancing Comparability, Reusability and Reproducibility [pdf]Paper   bibtex  
T2WML: Table To Wikidata Mapping Language. Szekely, P.; Garijo, D.; Bhatia, D.; Wu, J.; Yao, Y.; and Pujara, J. In Proceedings of the 10th International Conference on Knowledge Capture, of K-CAP ’19, pages 267–270, New York, NY, USA, 2019. Association for Computing Machinery
T2WML: Table To Wikidata Mapping Language [pdf]Paper   doi   bibtex  
Semantic Modelling of Plans and Execution Traces for Enhancing Transparency of IoT Systems. Markovic, M.; Garijo, D.; Edwards, P.; and Vasconcelos, W. In 2019 Sixth International Conference on Internet of Things: Systems, Management and Security (IOTSMS), pages 110–115, October 2019.
Semantic Modelling of Plans and Execution Traces for Enhancing Transparency of IoT Systems [pdf]Paper   doi   bibtex  
T2WML: A Cell-Based Language to Map Tables into Wikidata Records. Szekely, P. A.; Garijo, D.; Pujara, J.; Bhatia, D.; and Wu, J. In ISWC Satellites, 2019.
T2WML: A Cell-Based Language to Map Tables into Wikidata Records [pdf]Paper   bibtex  
Semantic Workflows and Machine Learning for the Assessment of Carbon Storage by Urban Trees. Garcia, J. M. C.; Garijo, D.; Crowley, M.; Carrillo, R.; Gil, Y.; and Borda, K. In Proceedings of the Third Workshop on Capturing Scientific Knowledge (SciKnow 2019), held in conjunction with the 2019 ACM International Conference on Knowledge Capture (K-CAP), volume 2526, Los Angeles, California, 2019.
Semantic Workflows and Machine Learning for the Assessment of Carbon Storage by Urban Trees [pdf]Paper   bibtex  
Linking Abstract Plans of Scientific Experiments to their Corresponding Execution Traces. Markovic, M.; Garijo, D.; and Edwards, P. In Proceedings of the Third Workshop on Capturing Scientific Knowledge (SciKnow 2019), held in conjunction with the 2019 ACM International Conference on Knowledge Capture (K-CAP), volume 2526, Los Angeles, California, 2019.
Linking Abstract Plans of Scientific Experiments to their Corresponding Execution Traces [pdf]Paper   bibtex  
WDPlus: Leveraging Wikidata to Link and Extend Tabular Data. Garijo, D.; and Szekely, P. In Proceedings of the Third Workshop on Capturing Scientific Knowledge (SciKnow 2019), held in conjunction with the 2019 ACM International Conference on Knowledge Capture (K-CAP), volume 2526, Los Angeles, California, 2019.
WDPlus: Leveraging Wikidata to Link and Extend Tabular Data [pdf]Paper   bibtex  
Automating ontology engineering support activities with OnToology. Alobaid, A.; Garijo, D.; Poveda-Villalón, M.; Santana-Perez, I.; Fernández-Izquierdo, A.; and Corcho, O. Journal of Web Semantics, 57: 100472. 2019.
Automating ontology engineering support activities with OnToology [pdf]Paper   doi   bibtex   abstract  
Towards Automated Hypothesis Testing in Neuroscience. Garijo, D.; Fakhraei, S.; Ratnakar, V.; Yang, Q.; Endrias, H.; Ma, Y.; Wang, R.; Bornstein, M.; Bright, J.; Gil, Y.; and Jahanshad, N. In Gadepally, V.; Mattson, T.; Stonebraker, M.; Wang, F.; Luo, G.; Laing, Y.; and Dubovitskaya, A., editor(s), Heterogeneous Data Management, Polystores, and Analytics for Healthcare, pages 249–257, Cham, 2019. Springer International Publishing
Towards Automated Hypothesis Testing in Neuroscience [pdf]Paper   bibtex  
PaCTS 1.0: A Crowdsourced Reporting Standard for Paleoclimate Data. Khider, D.; Emile-Geay, J.; McKay, N. P.; Gil, Y.; Garijo, D.; Ratnakar, V.; Alonso-Garcia, M.; Bertrand, S.; Bothe, O.; Brewer, P.; Bunn, A.; Chevalier, M.; Comas-Bru, L.; Csank, A.; Dassié, E.; DeLong, K.; Felis, T.; Francus, P.; Frappier, A.; Gray, W.; Goring, S.; Jonkers, L.; Kahle, M.; Kaufman, D.; Kehrwald, N. M.; Martrat, B.; McGregor, H.; Richey, J.; Schmittner, A.; Scroxton, N.; Sutherland, E.; Thirumalai, K.; Allen, K.; Arnaud, F.; Axford, Y.; Barrows, T.; Bazin, L.; Pilaar Birch, S. E.; Bradley, E.; Bregy, J.; Capron, E.; Cartapanis, O.; Chiang, H.; Cobb, K. M.; Debret, M.; Dommain, R.; Du, J.; Dyez, K.; Emerick, S.; Erb, M. P.; Falster, G.; Finsinger, W.; Fortier, D.; Gauthier, N.; George, S.; Grimm, E.; Hertzberg, J.; Hibbert, F.; Hillman, A.; Hobbs, W.; Huber, M.; Hughes, A. L. C.; Jaccard, S.; Ruan, J.; Kienast, M.; Konecky, B.; Le Roux, G.; Lyubchich, V.; Novello, V. F.; Olaka, L.; Partin, J. W.; Pearce, C.; Phipps, S. J.; Pignol, C.; Piotrowska, N.; Poli, M.; Prokopenko, A.; Schwanck, F.; Stepanek, C.; Swann, G. E. A.; Telford, R.; Thomas, E.; Thomas, Z.; Truebe, S.; von Gunten, L.; Waite, A.; Weitzel, N.; Wilhelm, B.; Williams, J.; Williams, J. J.; Winstrup, M.; Zhao, N.; and Zhou, Y. Paleoceanography and Paleoclimatology, 34(10): 1570–1596. 2019.
PaCTS 1.0: A Crowdsourced Reporting Standard for Paleoclimate Data [pdf]Paper   doi   bibtex  
OKG-Soft: An Open Knowledge Graph with Machine Readable Scientific Software Metadata. Garijo, D.; Osorio, M.; Khider, D.; Ratnakar, V.; and Gil, Y. In 2019 15th International Conference on eScience (eScience), pages 349–358, San Diego, CA, USA, September 2019. IEEE
OKG-Soft: An Open Knowledge Graph with Machine Readable Scientific Software Metadata [pdf]Paper   doi   bibtex  
Semantic workflows for benchmark challenges: Enhancing comparability, reusability and reproducibility. Srivastava, A.; Adusumilli, R.; Boyce, H.; Garijo, D.; Ratnakar, V.; Mayani, R.; Yu, T.; Machiraju, R.; Gil, Y.; and Mallick, P. In Altman, R. B.; Dunker, A. K.; Hunter, L.; Ritchie, M. D.; and Klein, T. E., editor(s), Biocomputing 2019: Proceedings of the Pacific Symposium, The Big Island of Hawaii, Hawaii, USA, January 3-7, 2019, pages 208–219, 2019.
Semantic workflows for benchmark challenges: Enhancing comparability, reusability and reproducibility [pdf]Paper   bibtex  
  2018 (6)
Semantic Software Metadata for Workflow Exploration and Evolution. Carvalho, L.; Garijo, D.; Medeiros, C. B.; and Gil, Y. In Proceedings of the Fourteenth IEEE International Conference on eScience, Amsterdam, The Netherlands, 2018.
Semantic Software Metadata for Workflow Exploration and Evolution [pdf]Paper   bibtex  
Towards Model Integration via Abductive Workflow Composition and Multi-Method Scalable Model Execution. da Silva, R. F.; Garijo, D.; Peckham, S. D.; Gil, Y.; Deelman, E.; and Ratnakar, V. In Proceedings of the Ninth International Congress on Environmental Modeling and Software, Ft Collins, CO, 2018.
Towards Model Integration via Abductive Workflow Composition and Multi-Method Scalable Model Execution [pdf]Paper   bibtex  
MINT: Model Integration Through Knowledge-Powered Data and Process Composition. Gil, Y.; Cobourn, K.; Deelman, E.; Duffy, C.; da Silva, R. F.; Kemanian, A.; Knoblock, C.; Kumar, V.; Peckham, S.; Carvalho, L.; Chiang, Y.; Garijo, D.; Khider, D.; Khandelwal, A.; Pahm, M.; Pujara, J.; Ratnakar, V.; Stoica, M.; and Vu, B. In Proceedings of the 9th International Congress on Environmental Modelling and Software, 2018.
MINT: Model Integration Through Knowledge-Powered Data and Process Composition [pdf]Paper   bibtex  
A Semantic Model Catalog to Support Comparison and Reuse. Garijo, D.; Khider, D.; Gil, Y.; Carvalho, L.; Essawy, B.; Pierce, S.; Lewis, D. H.; Ratnakar, V.; Peckham, S.; Duffy, C.; and Goodal, J. In Proceedings of the 9th International Congress on Environmental Modelling and Software, 2018.
A Semantic Model Catalog to Support Comparison and Reuse [pdf]Paper   bibtex  
P4ML: A Phased Performance-Based Pipeline Planner for Automated Machine Learning. Gil, Y.; Yao, K.; Ratnakar, V.; Garijo, D.; Steeg, G. V.; Szekely, P.; Brekelmans, R.; Kejriwal, M.; Luo, F.; and Huang, I. In Proceedings of Machine Learning Research, ICML 2018 AutoML Workshop, 2018.
P4ML: A Phased Performance-Based Pipeline Planner for Automated Machine Learning [pdf]Paper   bibtex  
PSM-Flow: Probabilistic Subgraph Mining for Discovering Reusable Fragments in Workflows. Cheong, C. W.; Garijo, D.; Cheung, K.; and Gil, Y. In 2018 IEEE/WIC/ACM International Conference on Web Intelligence, WI 2018, Santiago, Chile, December 3-6, 2018, pages 166–173, 2018.
PSM-Flow: Probabilistic Subgraph Mining for Discovering Reusable Fragments in Workflows [pdf]Paper   doi   bibtex  
  2017 (12)
The DISK Hypothesis Ontology: Capturing Hypothesis Evolution for Automated Discovery. Garijo, D.; Gil, Y.; and Ratnakar, V. In Proceedings of the Workshop on Capturing Scientific Knowledge (SciKnow), held in conjunction with the ACM International Conference on Knowledge Capture (K-CAP), Austin, Texas, 2017.
The DISK Hypothesis Ontology: Capturing Hypothesis Evolution for Automated Discovery [pdf]Paper   bibtex  
NiW: Converting Notebooks into Workflows to Capture Dataflow and Provenance. Carvalho, L. A. M. C.; Wang, R.; Gil, Y.; and Garijo, D. In Proceedings of the Workshop on Capturing Scientific Knowledge (SciKnow), held in conjunction with the ACM International Conference on Knowledge Capture (K-CAP), Austin, Texas, 2017.
NiW: Converting Notebooks into Workflows to Capture Dataflow and Provenance [pdf]Paper   bibtex  
Requirements for Supporting the Iterative Exploration of Scientific Workflow Variants. Carvalho, L. A. M. C.; Essawy, B. T.; Garijo, D.; Medeiros, C. B.; and Gil, Y. In Proceedings of the Workshop on Capturing Scientific Knowledge (SciKnow), held in conjunction with the ACM International Conference on Knowledge Capture (K-CAP), Austin, Texas, 2017.
Requirements for Supporting the Iterative Exploration of Scientific Workflow Variants [pdf]Paper   bibtex  
Improving Publication and Reproducibility of Computational Experiments through Workflow Abstractions. Gil, Y.; Garijo, D.; Knoblock, M.; Deng, A.; Adusumilli, R.; Ratnakar, V.; and Mallick, P. In Proceedings of the Workshop on Capturing Scientific Knowledge (SciKnow), held in conjunction with the ACM International Conference on Knowledge Capture (K-CAP), Austin, Texas, 2017.
Improving Publication and Reproducibility of Computational Experiments through Workflow Abstractions [pdf]Paper   bibtex  
Towards Automatic Generation of Portions of Scientific Papers for Large Multi-Institutional Collaborations Based on Semantic Metadata. Jang, M.; Patted, T.; Gil, Y.; Garijo, D.; Ratnakar, V.; Ji, J.; Wang, P.; McMahon, A.; Thompson, P. M.; and Jahanshad, N. In Proceedings of the Workshop on Enabling Open Semantic Science, co-located with the Sixteenth International Semantic Web Conference (ISWC), Vienna, Austria, 2017.
Towards Automatic Generation of Portions of Scientific Papers for Large Multi-Institutional Collaborations Based on Semantic Metadata [pdf]Paper   Towards Automatic Generation of Portions of Scientific Papers for Large Multi-Institutional Collaborations Based on Semantic Metadata [pdf]Link   bibtex  
Towards Continuous Scientific Data Analysis and Hypothesis Evolution. Gil, Y.; Garijo, D.; Ratnakar, V.; Mayani, R.; Adusumilli, R.; Boyce, H.; Srivastava, A.; and Mallick, P. In Proceedings of the Thirty-First AAAI Conference on Artificial Intelligence, pages 4406–4414, 2017.
Towards Continuous Scientific Data Analysis and Hypothesis Evolution. [pdf]Paper   doi   bibtex  
Abstract, link, publish, exploit: An end to end framework for workflow sharing. Garijo, D.; Gil, Y.; and Corcho, O. Future Generation Computer Systems. 2017.
Abstract, link, publish, exploit: An end to end framework for workflow sharing [pdf]Paper   doi   bibtex  
Towards Automating Data Narratives. Gil, Y.; and Garijo, D. In Proceedings of the 22nd International Conference on Intelligent User Interfaces, pages 565–576, 2017. ACM
Towards Automating Data Narratives [pdf]Paper   doi   bibtex  
AI buzzwords explained: scientific workflows. Garijo, D. AI Matters, 3(1): 4–8. 2017.
AI buzzwords explained: scientific workflows [pdf]Paper   doi   bibtex  
Engineering Academic Software (Dagstuhl Perspectives Workshop 16252). Allen, A.; Aragon, C.; Becker, C.; Carver, J.; Chis, A.; Combemale, B.; Croucher, M.; Crowston, K.; Garijo, D.; Gehani, A.; Goble, C.; Haines, R.; Hirschfeld, R.; Howison, J.; Huff, K.; Jay, C.; Katz, D. S.; Kirchner, C.; Kuksenok, K.; Lämmel, R.; Nierstrasz, O.; Turk, M.; van Nieuwpoort, R.; Vaughn, M.; and Vinju, J. J. Dagstuhl Manifestos, 6(1): 1–20. 2017.
Engineering Academic Software (Dagstuhl Perspectives Workshop 16252) [pdf]Paper   doi   bibtex  
A Controlled Crowdsourcing Approach for Practical Ontology Extensions and Metadata Annotations. Gil, Y.; Garijo, D.; Ratnakar, V.; Khider, D.; Emile-Geay, J.; and McKay, N. In d'Amato C. et al. (eds) The Semantic Web – ISWC 2017, volume 10588, pages 231–246, 2017. Springer, Cham
A Controlled Crowdsourcing Approach for Practical Ontology Extensions and Metadata Annotations [pdf]Paper   doi   bibtex  
WIDOCO: a wizard for documenting ontologies. Garijo, D. In d'Amato C. et al. (eds) The Semantic Web – ISWC 2017, volume 10588, pages 94–102, 2017. Springer, Cham
WIDOCO: a wizard for documenting ontologies [pdf]Paper   doi   bibtex  
  2016 (4)
An ontology for videogame interoperability. Parkkila, J.; Radulovic, F.; Garijo, D.; Poveda-Villalón, M.; Ikonen, J.; Porras, J.; and Gómez-Pérez, A. Multimedia Tools and Applications, 76(4): 4981–5000. 2016.
An ontology for videogame interoperability [pdf]Paper   doi   bibtex  
Automated Hypothesis Testing with Large Scientific Data Repositories. Gil, Y.; Garijo, D.; Ratnakar, V.; Mayani, R.; Adusumilli, R.; Boyce, H.; and Mallick, P. In Proceedings of the Fourth Annual Conference on Advances in Cognitive Systems (ACS), 2016.
Automated Hypothesis Testing with Large Scientific Data Repositories [pdf]Paper   bibtex  
OntoSoft: A distributed semantic registry for scientific software. Gil, Y.; Garijo, D.; Mishra, S.; and Ratnakar, V. In e-Science (e-Science), 2016 IEEE 12th International Conference on, pages 331–336, 2016. IEEE
OntoSoft: A distributed semantic registry for scientific software [pdf]Paper   doi   bibtex  
Lightning Talk:" I solemnly pledge": A Manifesto for Personal Responsibility in the Engineering of Academic Software. Allen, A.; Aragon, C.; Becker, C.; Carver, J.; Chis, V.; Combemale, B.; Croucher, M.; Crowston, K.; Garijo, D.; Gehani, A.; and others . 2016.
Lightning Talk:" I solemnly pledge": A Manifesto for Personal Responsibility in the Engineering of Academic Software [pdf]Paper   bibtex  
  2015 (5)
Using a suite of ontologies for preserving workflow-centric research objects. Belhajjame, K.; Zhao, J.; Garijo, D.; Gamble, M.; Hettne, K.; Palma, R.; Mina, E.; Corcho, O.; Gómez-Pérez, J. M.; Bechhofer, S.; and others Web Semantics: Science, Services and Agents on the World Wide Web, 32: 16–42. 2015.
Using a suite of ontologies for preserving workflow-centric research objects [pdf]Paper   doi   bibtex  
LDP4ROs: Managing Research Objects with the W3C Linked Data Platform. Garijo, D.; Mihindukulasooriya, N.; and Corcho, O. In Proceedings of the 24th International Conference on World Wide Web, pages 1057–1058, 2015. ACM
LDP4ROs: Managing Research Objects with the W3C Linked Data Platform [pdf]Paper   doi   bibtex  
OntoSoft: Capturing scientific software metadata. Gil, Y.; Ratnakar, V.; and Garijo, D. In Proceedings of the 8th International Conference on Knowledge Capture, pages 32, 2015. ACM
OntoSoft: Capturing scientific software metadata [pdf]Paper   doi   bibtex  
OnToology, a tool for collaborative development of ontologies. Alobaid, A.; Garijo, D.; Poveda-Villalón, M.; Pérez, I. S.; and Corcho, O. In ICBO, 2015.
OnToology, a tool for collaborative development of ontologies. [pdf]Paper   bibtex  
Mining Abstractions in Scientific Workows. Garijo Verdejo, D. Ph.D. Thesis, ETSI_Informatica, 2015.
Mining Abstractions in Scientific Workows [pdf]Paper   bibtex  
  2014 (6)
Common motifs in scientific workflows: An empirical analysis. Garijo, D.; Alper, P.; Belhajjame, K.; Corcho, O.; Gil, Y.; and Goble, C. Future Generation Computer Systems, 36: 338–351. 2014.
Common motifs in scientific workflows: An empirical analysis [pdf]Paper   doi   bibtex  
The Research Object Suite of Ontologies: Sharing and Exchanging Research Data and Methods on the Open Web. Belhajjame, K.; Zhao, J.; Garijo, D.; Hettne, K. M.; Palma, R.; Corcho, Ó.; Gómez-Pérez, J. M.; Bechhofer, S.; Klyne, G.; and Goble, C. A. CoRR, abs/1401.4307. 2014.
The Research Object Suite of Ontologies: Sharing and Exchanging Research Data and Methods on the Open Web [pdf]Paper   bibtex  
Workflow reuse in practice: a study of neuroimaging pipeline users. Garijo, D.; Corcho, O.; Gil, Y.; Braskie, M. N; Hibar, D.; Hua, X.; Jahanshad, N.; Thompson, P.; and Toga, A. W In e-Science (e-Science), 2014 IEEE 10th International Conference on, volume 1, pages 239–246, 2014. IEEE
Workflow reuse in practice: a study of neuroimaging pipeline users [pdf]Paper   doi   bibtex  
Fragflow automated fragment detection in scientific workflows. Garijo, D.; Corcho, O.; Gil, Y.; Gutman, B. A; Dinov, I. D; Thompson, P.; and Toga, A. W In e-Science (e-Science), 2014 IEEE 10th International Conference on, volume 1, pages 281–289, 2014. IEEE
Fragflow automated fragment detection in scientific workflows [pdf]Paper   doi   bibtex  
Towards workflow ecosystems through semantic and standard representations. Garijo, D.; Gil, Y.; and Corcho, O. In Proceedings of the 9th Workshop on Workflows in Support of Large-Scale Science, pages 94–104, 2014. IEEE Press
Towards workflow ecosystems through semantic and standard representations [pdf]Paper   doi   bibtex  
Challenges for provenance analytics over geospatial data. Garijo, D.; Gil, Y.; and Harth, A. In International Provenance and Annotation Workshop, pages 261–263, 2014. Springer, Cham
Challenges for provenance analytics over geospatial data [pdf]Paper   doi   bibtex  
  2013 (8)
Transforming meteorological data into linked data. Atemezing, G.; Corcho, O.; Garijo, D.; Mora, J.; Poveda-Villalón, M.; Rozas, P.; Vila-Suero, D.; and Villazón-Terrazas, B. Semantic Web, 4(3): 285–290. 2013.
Transforming meteorological data into linked data [pdf]Paper   doi   bibtex  
A workflow PROV-corpus based on taverna and wings. Belhajjame, K.; Zhao, J.; Garijo, D.; Garrido, A.; Soiland-Reyes, S.; Alper, P.; and Corcho, O. In Proceedings of the Joint EDBT/ICDT 2013 Workshops, pages 331–332, 2013. ACM
A workflow PROV-corpus based on taverna and wings [pdf]Paper   doi   bibtex  
PROV-O: The PROV ontology. Lebo, T.; Sahoo, S.; McGuinness, D.; Belhajjame, K.; Cheney, J.; Corsar, D.; Garijo, D.; Soiland-Reyes, S.; Zednik, S.; and Zhao, J. Technical Report 2013.
PROV-O: The PROV ontology [link]Paper   bibtex  
Detecting common scientific workflow fragments using templates and execution provenance. Garijo, D.; Corcho, O.; and Gil, Y. In Proceedings of the seventh international conference on Knowledge capture, pages 33–40, 2013. ACM
Detecting common scientific workflow fragments using templates and execution provenance [pdf]Paper   doi   bibtex  
On specifying and sharing scientific workflow optimization results using research objects. Holl, S.; Garijo, D.; Belhajjame, K.; Zimmermann, O.; De Giovanni, R.; Obst, M.; and Goble, C. In Proceedings of the 8th Workshop on Workflows in Support of Large-Scale Science, pages 28–37, 2013. ACM
On specifying and sharing scientific workflow optimization results using research objects [pdf]Paper   doi   bibtex  
Quantifying reproducibility in computational biology: the case of the tuberculosis drugome. Garijo, D.; Kinnings, S.; Xie, L.; Xie, L.; Zhang, Y.; Bourne, P. E; and Gil, Y. PloS one, 8(11): e80278. 2013.
Quantifying reproducibility in computational biology: the case of the tuberculosis drugome [pdf]Paper   doi   bibtex  
Dublin Core to PROV Mapping. Garijo, D.; and Eckert, K. Technical Report W3C, April 2013. http://www.w3.org/TR/2013/NOTE-prov-dc-20130430/
Dublin Core to PROV Mapping [link]Paper   bibtex  
Wf4Ever research object model. Belhajjame, K; Klyne, G; Garijo, D; Corcho, O; García-Cuesta, E; and Palma, R Technical Report 2013.
Wf4Ever research object model [link]Paper   bibtex  
  2012 (5)
Common motifs in scientific workflows: An empirical analysis. Garijo, D.; Alper, P.; Belhajjame, K.; Corcho, O.; Gil, Y.; and Goble, C. In 2012 IEEE 8th International Conference on E-Science, pages 1–8, October 2012.
Common motifs in scientific workflows: An empirical analysis [pdf]Paper   doi   bibtex  
Workflow-Centric Research Objects: First Class Citizens in Scholarly Discourse. Belhajjame, K.; Corcho, O.; Garijo, D.; Zhao, J.; Missier, P.; Newman, D.; Palma, R.; Bechhofer, S.; García, Esteban; Cuesta, J. M. G.; and others . 2012.
Workflow-Centric Research Objects: First Class Citizens in Scholarly Discourse [pdf]Paper   doi   bibtex  
Publishing Linked Data-There is no One-Size-Fits-All Formula. Villazón-Terrazas, B.; Vila-Suero, D.; Garijo, D.; Vilches-Blázquez, L. M; Poveda-Villalón, M.; Mora, J.; Corcho, O.; and Gómez-Pérez, A. . 2012.
Publishing Linked Data-There is no One-Size-Fits-All Formula [pdf]Paper   bibtex  
Augmenting PROV with Plans in P-PLAN: Scientific Processes as Linked Data. Garijo, D.; and Gil, Y. In Second International Workshop on Linked Science: Tackling Big Data (LISC), held in conjunction with the International Semantic Web Conference (ISWC), Boston, MA, 2012.
Augmenting PROV with Plans in P-PLAN: Scientific Processes as Linked Data [pdf]Paper   bibtex  
Prov model primer. Miles, S.; Gil, Y.; Belhajjame, K.; Deus, H.; Garijo, D.; Klyne, G.; Missier, P.; Soiland-Reyes, S.; and Zednik, S. Technical Report 2012.
Prov model primer [link]Paper   bibtex  
  2011 (5)
A new approach for publishing workflows: abstractions, standards, and linked data. Garijo, D.; and Gil, Y. In Proceedings of the 6th workshop on Workflows in support of large-scale science, pages 47–56, 2011. ACM
A new approach for publishing workflows: abstractions, standards, and linked data [pdf]Paper   doi   bibtex  
Metadata provenance: dublin core on the next level. Eckert, K.; Garijo, D.; Panzer, M.; and Perçin, Ö. In Proceedings of the 2011 International Conference on Dublin Core and Metadata Applications, pages 192–193, 2011. Dublin Core Metadata Initiative
Metadata provenance: dublin core on the next level [link]Paper   bibtex  
Extending DCAM for metadata provenance. Eckert, K.; Garijo, D.; and Panzer, M. In International Conference on Dublin Core and Metadata Applications, pages 12–25, 2011.
Extending DCAM for metadata provenance [pdf]Paper   bibtex  
A Provenance-Enabled Service for News and Blog Aggregation. Garijo Verdejo, D. Master's thesis, Informatica, 2011.
A Provenance-Enabled Service for News and Blog Aggregation [link]Paper   bibtex  
A Provenance-aware Linked Data Application for Trip Management and Organization. Garijo, D.; Villazón-Terrazas, B.; and Corcho, O. In Proceedings of the 7th International Conference on Semantic Systems, of I-Semantics '11, pages 224–226, New York, NY, USA, 2011. ACM
A Provenance-aware Linked Data Application for Trip Management and Organization [pdf]Paper   doi   bibtex  
  2010 (1)
Provenance xg final report. Gil, Y.; Cheney, J.; Groth, P.; Hartig, O.; Miles, S.; Moreau, L.; and Pinheiro da Silva, P Technical Report 2010.
Provenance xg final report [link]Paper   bibtex