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ORCIDTarcisio M. Farias
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- affiliation: Active3D, Dijon, France
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2020 – today
- 2024
[i11]Julio Cesar Rangel Reyes, Tarcisio Mendes de Farias, Ana Claudia Sima, Norio Kobayashi:
SPARQL Generation: an analysis on fine-tuning OpenLLaMA for Question Answering over a Life Science Knowledge Graph. CoRR abs/2402.04627 (2024)- [i10]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:
A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications. CoRR abs/2410.06010 (2024) - [i9]Vincent Emonet, Jerven T. Bolleman, Severine Duvaud, Tarcisio Mendes de Farias, Ana Claudia Sima:
LLM-based SPARQL Query Generation from Natural Language over Federated Knowledge Graphs. CoRR abs/2410.06062 (2024) - 2023
- [c10]Ana Claudia Sima, Tarcisio Mendes de Farias:
On the Potential of Artificial Intelligence Chatbots for Data Exploration of Federated Bioinformatics Knowledge Graphs. SeWeBMeDA@ESWC 2023 - [c9]Petros Liakopoulous, Borbala Banfalvi, Xinyi Wang, Sina Majidian, Tarcisio Mendes de Farias, Christophe Dessimoz, Ana Claudia Sima:
Towards predicting essential proteins via federated SPARQL queries. SWAT4HCLS 2023: 173-174 - [c8]Tarcisio Mendes de Farias, Tatsuya Kushida, Ana Claudia Sima, Christophe Dessimoz, Hirokazu Chiba, Frédéric B. Bastian, Hiroshi Masuya:
Data in use for Alzheimer disease study: combining gene expression, orthology, bioresource and disease datasets. SWAT4HCLS 2023: 177-178 - [i8]Tarcisio Mendes de Farias, Julien Wollbrett, Marc Robinson-Rechavi, Frederic B. Bastian:
Boosting interoperability: towards an increasingly reusable bioinformatics knowledge base. CoRR abs/2303.12329 (2023) - [i7]Ana Claudia Sima, Tarcisio Mendes de Farias:
On the Potential of Artificial Intelligence Chatbots for Data Exploration of Federated Bioinformatics Knowledge Graphs. CoRR abs/2304.10427 (2023) - 2022
- [j10]Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova
, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger:
Bio-SODA UX: enabling natural language question answering over knowledge graphs with user disambiguation. Distributed Parallel Databases 40(2-3): 409-440 (2022) - [i6]Tarcisio Mendes de Farias, Christophe Dessimoz, Aarón Ayllón-Benítez, Chen Yang, Jiao Long, Ana Claudia Sima:
Federating and querying heterogeneous and distributed Web APIs and triple stores. CoRR abs/2206.01594 (2022) - 2021
- [j9]Shiqi Liang, Kurt Stockinger, Tarcisio Mendes de Farias, Maria Anisimova, Manuel Gil:
Querying knowledge graphs in natural language. J. Big Data 8(1): 3 (2021) - [j8]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:
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more. Nucleic Acids Res. 49(Database-Issue): D373-D379 (2021) - [j7]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:
The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals. Nucleic Acids Res. 49(Database-Issue): D831-D847 (2021) - [j6]Diego Calvanese, Davide Lanti, Tarcisio Mendes de Farias, Alessandro Mosca, Guohui Xiao:
Accessing scientific data through knowledge graphs with Ontop. Patterns 2(10): 100346 (2021) - [j5]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:
INODE: Building an End-to-End Data Exploration System in Practice. SIGMOD Rec. 50(4): 23-29 (2021) - [c7]Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger:
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data. SSDBM 2021: 61-72 - [i5]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:
INODE: Building an End-to-End Data Exploration System in Practice [Extended Vision]. CoRR abs/2104.04194 (2021) - [i4]Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger:
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data. CoRR abs/2104.13744 (2021)
2010 – 2019
- 2019
- [j4]Ana Claudia Sima, Tarcisio Mendes de Farias, Erich Zbinden, Maria Anisimova, Manuel Gil, Heinz Stockinger, Kurt Stockinger, Marc Robinson-Rechavi, Christophe Dessimoz:
Enabling semantic queries across federated bioinformatics databases. Database J. Biol. Databases Curation 2019: baz106 (2019) - [c6]Tarcisio Mendes de Farias, Kurt Stockinger, Christophe Dessimoz:
VoIDext: Vocabulary and Patterns for Enhancing Interoperable Datasets with Virtual Links. OTM Conferences 2019: 607-625 - [i3]Tarcisio Mendes de Farias, Christophe Dessimoz:
Enhancing interoperable datasets with virtual links. CoRR abs/1906.01950 (2019) - [i2]Ana Claudia Sima, Christophe Dessimoz, Kurt Stockinger, Monique Zahn-Zabal, Tarcisio Mendes de Farias:
A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL. F1000Research 8: 1822 (2019) - 2018
- [j3]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:
The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces. Nucleic Acids Res. 46(Database-Issue): D477-D485 (2018) - 2017
- [j2]Pieter Pauwels, Tarcisio Mendes de Farias, Chi Zhang, Ana Roxin, Jakob Beetz, Jos De Roo, Christophe Nicolle:
A performance benchmark over semantic rule checking approaches in construction industry. Adv. Eng. Informatics 33: 68-88 (2017) - [c5]Tarcisio M. Farias, Hirokazu Chiba, Jesualdo Tomás Fernández-Breis:
Leveraging Logical Rules for Efficacious Representation of Large Orthology Datasets. SWAT4LS 2017 - 2016
- [j1]Tarcisio Mendes de Farias, Ana Roxin, Christophe Nicolle:
SWRL rule-selection methodology for ontology interoperability. Data Knowl. Eng. 105: 53-72 (2016) - [c4]Pieter Pauwels, Tarcisio Mendes de Farias, Chi Zhang, Ana Roxin, Jakob Beetz, Jos De Roo:
Querying and reasoning over large scale building data sets: an outline of a performance benchmark. SBD@SIGMOD 2016: 11 - 2015
- [c3]Tarcisio M. Farias, Ana Roxin, Christophe Nicolle:
COBieOWL, an OWL Ontology Based on COBie Standard. OTM Conferences 2015: 361-377 - [c2]Tarcisio M. Farias, Ana Roxin, Christophe Nicolle:
FOWLA, A Federated Architecture for Ontologies. RuleML 2015: 97-111 - [i1]Tarcisio Mendes de Farias, Ana Roxin, Christophe Nicolle:
IfcWoD, Semantically Adapting IFC Model Relations into OWL Properties. CoRR abs/1511.03897 (2015) - 2014
- [c1]Tarcisio M. Farias, Ana Roxin, Christophe Nicolle:
A Rule Based System for Semantical Enrichment of Building Information Exchange. Challenge+DC@RuleML 2014
Coauthor Index
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