Tarcisio M. Farias

According to our database, Tarcisio M. Farias authored at least 32 papers between 2014 and 2025.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2025

Federated SPARQL query performance evaluation for exploring disease model mouse: combining gene expression, orthology, and disease knowledge graphs.

Tatsuya Kushida, Tarcisio Mendes de Farias, Ana Claudia Sima, Christophe Dessimoz, Hirokazu Chiba, Frederic B. Bastian, Hiroshi Masuya

BMC Medical Informatics Decis. Mak., March, 2025

A User-Friendly SPARQL Query Editor Powered by Lightweight Metadata.

Vincent Emonet, Ana Claudia Sima, Tarcisio Mendes de Farias

Proceedings of the Semantic Web: ESWC 2025 Satellite Events, 2025

2024

A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications.

Jerven T. Bolleman, Vincent Emonet, Adrian M. Altenhoff, Amos Bairoch, Marie-Claude Blatter, Alan J. Bridge, Severine Duvaud, Elisabeth Gasteiger, Dmitry Kuznetsov, Sébastien Moretti, Pierre-André Michel, Anne Morgat, Marco Pagni, Nicole Redaschi, Monique Zahn-Zabal, Tarcisio Mendes de Farias, Ana Claudia Sima

CoRR, 2024

SPARQL generation: an analysis on fine-tuning OpenLLaMA for Question Answering over a Life Science Knowledge Graph.

Julio Cesar Rangel Reyes, Tarcisio Mendes de Farias, Ana Claudia Sima, Norio Kobayashi

Proceedings of the 15th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, 2024

CHIST-ERA Triple: improving data interoperability and federation across RDF knowledge graphs and Solid Pods.

Jerven T. Bolleman, Elias Crum, Iulian Dragan, Jakub Galgonek, Mark Ibberson, Tarcisio Mendes de Farias, Marek Moos, Marco Pagni, Ruben Taelman, Jirí Vondrásek, Ana Claudia Sima

Proceedings of the 15th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, 2024

LLM-based SPARQL Query Generation from Natural Language over Federated Knowledge Graphs.

Vincent Emonet, Jerven T. Bolleman, Severine Duvaud, Tarcisio Mendes de Farias, Ana Claudia Sima

Proceedings of the Special Session on Harmonising Generative AI and Semantic Web Technologies (HGAIS 2024) co-located with the 23rd International Semantic Web Conference (ISWC 2024), 2024

2023

Boosting interoperability: towards an increasingly reusable bioinformatics knowledge base.

Tarcisio Mendes de Farias, Julien Wollbrett, Marc Robinson-Rechavi, Frederic B. Bastian

CoRR, 2023

Towards predicting essential proteins via federated SPARQL queries.

Petros Liakopoulous, Borbala Banfalvi, Xinyi Wang, Sina Majidian, Tarcisio Mendes de Farias, Christophe Dessimoz, Ana Claudia Sima

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

Data in use for Alzheimer disease study: combining gene expression, orthology, bioresource and disease datasets.

Tarcisio Mendes de Farias, Tatsuya Kushida, Ana Claudia Sima, Christophe Dessimoz, Hirokazu Chiba, Frédéric B. Bastian, Hiroshi Masuya

Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

On the Potential of Artificial Intelligence Chatbots for Data Exploration of Federated Bioinformatics Knowledge Graphs.

Ana Claudia Sima, Tarcisio Mendes de Farias

Proceedings of the 6th Workshop on Semantic Web Solutions for Large-Scale Biomedical Data Analytics co-located with ESWC 2023, 2023

2022

Bio-SODA UX: enabling natural language question answering over knowledge graphs with user disambiguation.

Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger

Distributed Parallel Databases, 2022

Federating and querying heterogeneous and distributed Web APIs and triple stores.

Tarcisio Mendes de Farias, Christophe Dessimoz, Aarón Ayllón-Benítez, Chen Yang, Jiao Long, Ana Claudia Sima

CoRR, 2022

2021

INODE: Building an End-to-End Data Exploration System in Practice.

Sihem Amer-Yahia, Georgia Koutrika, Martin Braschler, Diego Calvanese, Davide Lanti, Hendrik Lücke-Tieke, Alessandro Mosca, Tarcisio Mendes de Farias, Dimitris Papadopoulos, Yogendra Patil, Guillem Rull, Ellery Smith, Dimitrios Skoutas, Srividya Subramanian, Kurt Stockinger

SIGMOD Rec., 2021

Accessing scientific data through knowledge graphs with <i>Ontop</i>.

Diego Calvanese, Davide Lanti, Tarcisio Mendes de Farias, Alessandro Mosca, Guohui Xiao

Patterns, 2021

The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals.

Frederic B. Bastian, Julien Roux, Anne Niknejad, Aurélie Comte, Sara S. Fonseca Costa, Tarcisio Mendes de Farias, Sébastien Moretti, Gilles Parmentier, Valentine Rech de Laval, Marta Rosikiewicz, Julien Wollbrett, Amina Echchiki, Angélique Escoriza, Walid H. Gharib, Mar Gonzales-Porta, Yohan Jarosz, Balazs Laurenczy, Philippe Moret, Emilie Person, Patrick Roelli, Komal Sanjeev, Mathieu Seppey, Marc Robinson-Rechavi

Nucleic Acids Res., 2021

OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more.

Adrian M. Altenhoff, Clément-Marie Train, Kimberly J. Gilbert, Ishita Mediratta, Tarcisio Mendes de Farias, David Moi, Yannis Nevers, Hale-Seda Radoykova, Victor Rossier, Alex Warwick Vesztrocy, Natasha M. Glover, Christophe Dessimoz

Nucleic Acids Res., 2021

Querying knowledge graphs in natural language.

Shiqi Liang, Kurt Stockinger, Tarcisio Mendes de Farias, Maria Anisimova, Manuel Gil

J. Big Data, 2021

INODE: Building an End-to-End Data Exploration System in Practice [Extended Vision].

Sihem Amer-Yahia, Georgia Koutrika, Frederic B. Bastian, Theofilos Belmpas, Martin Braschler, Ursin Brunner, Diego Calvanese, Maximilian Fabricius, Orest Gkini, Catherine Kosten, Davide Lanti, Antonis Litke, Hendrik Lücke-Tieke, Francesco Alessandro Massucci, Tarcisio Mendes de Farias, Alessandro Mosca, Francesco Multari, Nikolaos Papadakis, Dimitris Papadopoulos, Yogendra Patil, Aurélien Personnaz, Guillem Rull, Ana Claudia Sima, Ellery Smith, Dimitrios Skoutas, Srividya Subramanian, Guohui Xiao, Kurt Stockinger

CoRR, 2021

Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data.

Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger

Proceedings of the SSDBM 2021: 33rd International Conference on Scientific and Statistical Database Management, 2021

2019

A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL.

Ana Claudia Sima, Christophe Dessimoz, Kurt Stockinger, Monique Zahn-Zabal, Tarcisio Mendes de Farias

F1000Research, 2019

Enhancing interoperable datasets with virtual links.

Tarcisio Mendes de Farias, Christophe Dessimoz

CoRR, 2019

Enabling semantic queries across federated bioinformatics databases.

Ana Claudia Sima, Tarcisio Mendes de Farias, Erich Zbinden, Maria Anisimova, Manuel Gil, Heinz Stockinger, Kurt Stockinger, Marc Robinson-Rechavi, Christophe Dessimoz

Database J. Biol. Databases Curation, 2019

VoIDext: Vocabulary and Patterns for Enhancing Interoperable Datasets with Virtual Links.

Tarcisio Mendes de Farias, Kurt Stockinger, Christophe Dessimoz

Proceedings of the On the Move to Meaningful Internet Systems: OTM 2019 Conferences, 2019

2018

The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces.

Adrian M. Altenhoff, Natasha M. Glover, Clément-Marie Train, Klara Kaleb, Alex Warwick Vesztrocy, David Dylus, Tarcisio M. Farias, Karina Zile, Charles Stevenson, Jiao Long, Henning Redestig, Gaston H. Gonnet, Christophe Dessimoz

Nucleic Acids Res., 2018

2017

A performance benchmark over semantic rule checking approaches in construction industry.

Pieter Pauwels, Tarcisio Mendes de Farias, Chi Zhang, Ana Roxin, Jakob Beetz, Jos De Roo, Christophe Nicolle

Adv. Eng. Informatics, 2017

Leveraging Logical Rules for Efficacious Representation of Large Orthology Datasets.

Tarcisio M. Farias, Hirokazu Chiba, Jesualdo Tomás Fernández-Breis

Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4LS 2017), 2017

2016

SWRL rule-selection methodology for ontology interoperability.

Tarcisio Mendes de Farias, Ana Roxin, Christophe Nicolle

Data Knowl. Eng., 2016

Querying and reasoning over large scale building data sets: an outline of a performance benchmark.

Pieter Pauwels, Tarcisio Mendes de Farias, Chi Zhang, Ana Roxin, Jakob Beetz, Jos De Roo

Proceedings of the International Workshop on Semantic Big Data, 2016

2015

IfcWoD, Semantically Adapting IFC Model Relations into OWL Properties.

Tarcisio Mendes de Farias, Ana Roxin, Christophe Nicolle

CoRR, 2015

FOWLA, A Federated Architecture for Ontologies.

Tarcisio M. Farias, Ana Roxin, Christophe Nicolle

Proceedings of the Rule Technologies: Foundations, Tools, and Applications, 2015

COBieOWL, an OWL Ontology Based on COBie Standard.

Tarcisio M. Farias, Ana Roxin, Christophe Nicolle

Proceedings of the On the Move to Meaningful Internet Systems: OTM 2015 Conferences, 2015

2014

A Rule Based System for Semantical Enrichment of Building Information Exchange.

Tarcisio M. Farias, Ana Roxin, Christophe Nicolle

Proceedings of the RuleML 2014 Challenge and the RuleML 2014 Doctoral Consortium hosted by the 8th International Web Rule Symposium, 2014