Public Documents

2025

  1. Nentidis, A., G. Katsimpras, A. Krithara, M. Krallinger, M. Rodriguez Ortega, N. Loukachevitch, A. Sakhovskiy, E. Tutubalina, G. Tsoumakas, G. Giannakoulas, et al., "BioASQ at CLEF2025: The Thirteenth Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge", Advances in Information Retrieval, Cham, Springer Nature Switzerland, 2025. | pdf

2024

  1. Krithara, A., A. Nentidis, E. Vandorou, G. Katsimpras, Y. Almirantis, M. Arnal, A. Bunevicius, E. Farré-Maduell, M. Kassiss, V. Konstantakos, et al., "BioASQ Synergy: a dialogue between question-answering systems and biomedical experts for promoting COVID-19 research", Journal of the American Medical Informatics Association, pp. ocae232, 08, 2024. | pdf
  2. Nentidis, A., A. Krithara, G. Paliouras, M. Krallinger, L. Gasco Sanchez, S. Lima, E. Farre, N. Loukachevitch, V. Davydova, and E. Tutubalina, "BioASQ at CLEF2024: The Twelfth Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge", Advances in Information Retrieval, Cham, Springer Nature Switzerland, 2024. | pdf
  3. Nentidis, A., G. Katsimpras, A. Krithara, and G. Paliouras, "Overview of BioASQ Tasks 12b and Synergy12 in CLEF2024", Working Notes of CLEF, 2024. | pdf
  4. Davydova, V., N. Loukachevitch, and E. Tutubalina, "Overview of BioNNE Task on Biomedical Nested Named Entity Recognition at BioASQ 2024", CLEF Working Notes, 2024. | pdf
  5. Lima-López, S., E. Farré-Maduell, J. Rodríguez-Miret, M. Rodríguez-Ortega, L. Lilli, J. Lenkowicz, G. Ceroni, J. Kossoff, A. Shah, A. Nentidis, et al., "Overview of MultiCardioNER task at BioASQ 2024 on Medical Specialty and Language Adaptation of Clinical NER Systems for Spanish, English and Italian", Conference and Labs of the Evaluation Forum, 2024. | pdf
  6. Nentidis, A., G. Katsimpras, A. Krithara, S. Lima-López, E. Farré-Maduell, M. Krallinger, N. Loukachevitch, V. Davydova, E. Tutubalina, and G. Paliouras, "Overview of BioASQ 2024: The Twelfth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering", Experimental IR Meets Multilinguality, Multimodality, and Interaction, Cham, Springer Nature Switzerland, 2024. | pdf

2023

  1. Nentidis, A., A. Krithara, G. Paliouras, E. Farré-Maduell, S. Lima-López, and M. Krallinger, "BioASQ at CLEF2023: The Eleventh Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge", Advances in Information Retrieval, Cham, Springer Nature Switzerland, 2023. | pdf
  2. Nentidis, A., G. Katsimpras, A. Krithara, S. Lima López, E. Farré-Maduell, L. Gasco, M. Krallinger, and G. Paliouras, "Overview of BioASQ 2023: The Eleventh BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering", Experimental IR Meets Multilinguality, Multimodality, and Interaction, Cham, Springer Nature Switzerland, 2023. | pdf
  3. Krithara, A., J. G. Mork, A. Nentidis, and G. Paliouras, "The road from manual to automatic semantic indexing of biomedical literature: a 10 years journey", Frontiers in Research Metrics and Analytics, vol. 8, 2023. | pdf
  4. Nentidis, A., G. Katsimpras, A. Krithara, and G. Paliouras, "Overview of BioASQ Tasks 11b and Synergy11 in CLEF2023", Working Notes of CLEF, 2023. | pdf
  5. Krithara, A., A. Nentidis, K. Bougiatiotis, and G. Paliouras, "BioASQ-QA: A manually curated corpus for Biomedical Question Answering", Scientific Data, vol. 10, pp. 170, 2023. | pdf
  6. Lima-López, S., E. Farré-Maduell, L. Gasco, A. Nentidis, A. Krithara, G. Katsimpras, G. Paliouras, and M. Krallinger, "Overview of MedProcNER task on medical procedure detection and entity linking at BioASQ 2023", Working Notes of CLEF, 2023. | pdf

2022

  1. Nentidis, A., G. Katsimpras, E. Vandorou, A. Krithara, and G. Paliouras, "Overview of BioASQ Tasks 10a, 10b and Synergy10 in CLEF2022", Proceedings of the 10th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2022. | pdf
  2. Nentidis, A., A. Krithara, G. Paliouras, L. Gasco, and M. Krallinger, "BioASQ at CLEF2022: The Tenth Edition of the Large-scale Biomedical Semantic Indexing and Question Answering Challenge", Advances in Information Retrieval: 44th European Conference on IR Research, ECIR 2022, Stavanger, Norway, April 10–14, 2022, Proceedings, Part II: Springer, 2022. | pdf
  3. Miranda-Escalada, A., L. Gasco, S. Lima-López, E. Farré-Maduell, D. Estrada, A. Nentidis, A. Krithara, G. Katsimpras, G. Paliouras, and M. Krallinger, "Overview of DisTEMIST at BioASQ: Automatic detection and normalization of diseases from clinical texts: results, methods, evaluation and multilingual resources", Working Notes of Conference and Labs of the Evaluation (CLEF) Forum. CEUR Workshop Proceedings, 2022. | pdf
  4. Nentidis, A., G. Katsimpras, E. Vandorou, A. Krithara, A. Miranda-Escalada, L. Gasco, M. Krallinger, and G. Paliouras, "Overview of BioASQ 2022: The tenth BioASQ challenge on large-scale biomedical semantic indexing and question answering", Experimental IR Meets Multilinguality, Multimodality, and Interaction: 13th International Conference of the CLEF Association, CLEF 2022, Bologna, Italy, September 5–8, 2022, Proceedings: Springer, 2022. | pdf

2021

  1. Krithara, A., A. Nentidis, G. Paliouras, M. Krallinger, and A. Miranda, "BioASQ at CLEF2021: Large-Scale Biomedical Semantic Indexing and Question Answering", Advances in Information Retrieval, Cham, Springer International Publishing, 2021. | pdf
  2. Gasco, L., A. Nentidis, A. Krithara, D. Estrada-Zavala, R. Toshiyuki Murasaki, E. Primo-Peña, C. Bojo-Canales, G. Paliouras, and M. Krallinger, "Overview of BioASQ 2021-MESINESP track. Evaluation of advance hierarchical classification techniques for scientific literature, patents and clinical trials.", Proceedings of the 9th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2021. | pdf
  3. Nentidis, A., G. Katsimpras, E. Vandorou, A. Krithara, and G. Paliouras, "Overview of BioASQ Tasks 9a, 9b and Synergy in CLEF2021", Proceedings of the 9th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2021. | pdf
  4. Nentidis, A., G. Katsimpras, E. Vandorou, A. Krithara, L. Gasco, M. Krallinger, and G. Paliouras, "Overview of BioASQ 2021: The Ninth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering", International Conference of the Cross-Language Evaluation Forum for European Languages (CLEF2021) : Springer, 2021. | pdf

2020

  1. Nentidis, A., A. Krithara, K. Bougiatiotis, and G. Paliouras, "Overview of BioASQ 8a and 8b: Results of the eighth edition of the BioASQ tasks a and b", Proceedings of the 8th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2020. | pdf
  2. Krallinger, M., A. Krithara, A. Nentidis, G. Paliouras, and M. Villegas, "BioASQ at CLEF2020: large-scale biomedical semantic indexing and question answering", European Conference on Information Retrieval: Springer, 2020. | pdf
  3. Nentidis, A., A. Krithara, K. Bougiatiotis, M. Krallinger, C. Rodriguez-Penagos, M. Villegas, and G. Paliouras, "Overview of BioASQ 2020: The Eighth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering", International Conference of the Cross-Language Evaluation Forum for European Languages (CLEF2020) : Springer, 2020. | pdf
  4. Rodriguez-Penagos, C., A. Nentidis, A. Gonzalez-Agirre, A. Asensio, J. Armengol-Estapé, A. Krithara, M. Villegas, G. Paliouras, and M. Krallinger, "Overview of MESINESP8, a Spanish Medical Semantic Indexing Task within BioASQ 2020", Proceedings of the 8th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2020. | pdf

2019

  1. Nentidis, A., K. Bougiatiotis, A. Krithara, and G. Paliouras, "Results of the seventh edition of the bioasq challenge", Joint European Conference on Machine Learning and Knowledge Discovery in Databases: Springer, 2019. | pdf

2018

  1. Kakadiaris, I., G. Paliouras, and A. Krithara, "Proceedings of the 6th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering", Proceedings of the 6th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2018. | pdf
  2. Nentidis, A., A. Krithara, K. Bougiatiotis, G. Paliouras, and I. Kakadiaris, "Results of the sixth edition of the BioASQ Challenge", Proceedings of the 6th BioASQ Workshop A challenge on large-scale biomedical semantic indexing and question answering, 2018. | pdf

2017

  1. Nentidis, A., K. Bougiatiotis, A. Krithara, and G. Paliouras, "Results of the fifth edition of the bioasq challenge", BioNLP 2017, 2017. | pdf

2016

  1. Krithara, A., A. Nentidis, G. Paliouras, and I. Kakadiaris, "Results of the 4th edition of BioASQ Challenge", Proceedings of the Fourth BioASQ workshop, 2016. | pdf
  2. Kakadiaris, I., G. Paliouras, and A. Krithara, "Proceedings of the Fourth BioASQ workshop", Proceedings of the Fourth BioASQ workshop, 2016. | pdf

2015

  1. Paliouras, G., "On the need for intelligent access to big data in life sciences", Big Data in the H2020 Societal Challenge Health, demographic change and well-being, Brussels, Belgium, May, 2015. | pdf
  2. Hopfgartner, F., A. Hanbury, H. Mueller, N. Kando, S. Mercer, J. Kalpathy-Cramer, M. Potthast, M. Gollup, A. Krithara, J. Lin, et al., "Report on the Evaluation-as-a-Service (EaaS) expert workshop", SIGIR Forum, vol. 49, pp. 57–65, June, 2015. | pdf
  3. Balikas, G., I. Partalas, N. Baskiotis, T. Artieres, E. Gaussier, P. Gallinari, I. Vetsikas, G. Paliouras, and A. Kosmopoulos, "Evaluation infrastructure software for future oracle use", BioASQ, Project deliverable D4.9, January, 2015. | pdf
  4. Balikas, G., A. Kosmopoulos, A. Krithara, G. Paliouras, and I. Kakadiaris, "Results of the BioASQ tasks of the Question Answering Lab at CLEF 2015", CLEF 2015, 2015. | pdf
  5. Balikas, G., A. Krithara, I. Partalas, and G. Paliouras, "BioASQ: A challenge on large-scale biomedical semantic indexing and question answering", International Workshop on Multimodal Retrieval in the Medical Domain: Springer, 2015. | pdf
  6. Tsatsaronis, G., G. Balikas, P. Malakasiotis, I. Partalas, M. Zschunke, M. R. Alvers, D. Weissenborn, A. Krithara, S. Petridis, D. Polychronopoulos, et al., "An overview of the BIOASQ large-scale biomedical semantic indexing and question answering competition", BMC Bioinformatics, vol. 16, pp. 138, 2015. | pdf

2014

  1. Partalas, I., G. Balikas, A-C. Ngonga Ngomo, M. Malakasiotis, A. Krithara, E. Gaussier, and G. Paliouras, "Technology Overview Report 2", BioASQ, Project deliverable D5.3, September, 2014. | pdf
  2. Balikas, G., I. Partalas, N. Baskiotis, T. Artieres, E. Gaussier, P. Gallinari, and I. Vetsikas, "Report on challenge operation and technical support 2", BioASQ, Project deliverable D4.8, September, 2014. | pdf
  3. Ngomo, A-C. Ngonga, A. Krithara, G. Paliouras, M. Alvers, C. Armeniakou, and K. Stamatakis, "Press Releases 2nd version", BioASQ, Project deliverable D2.12, October, 2014. | pdf
  4. Heino, N., A-C. Ngonga Ngomo, G. Paliouras, A. Krithara, and A. Kosmopoulos, "Project Showcase", BioASQ, Project deliverable D2.9, October, 2014. | pdf
  5. Alvers, M., G. Tsatsaronis, M. Zschunke, A-C. Ngonga Ngomo, A. Kosmopoulos, and C. Armeniakou, "Exploitation and Dissemination Plan", BioASQ, Project deliverable D2.11, October, 2014. | pdf
  6. Malakasiotis, P., I. Androutsopoulos, A. Bernadou, N. Chatzidiakou, E. Papaki, P. Constantopoulos, I. Pavlopoulos, A. Krithara, Y. Almyrantis, D. Polychronopoulos, et al., "Challenge Evaluation Report 2 and Roadmap", BioASQ, Project deliverable D5.4, October, 2014. | pdf
  7. Ngomo, A-C. Ngonga, "Workshop 2", BioASQ, Project deliverable D2.8, October, 2014. | pdf
  8. Ngomo, A-C. Ngonga, A. Krithara, and A. Kosmopoulos, "Journal Special Issue", BioASQ, Project deliverable D2.10, October, 2014. | pdf
  9. Paliouras, G., and A. Krithara, "Final Report", BioASQ, Project deliverable D1.6, November, 2014. | pdf
  10. Partalas, I., G. Balikas, N. Baskiotis, D. Polychronopoulos, Y. Almirantis, E. Gaussier, T. Artieres, and P. Gallinari, "Pre-processed benchmark set 2", BioASQ, Project deliverable D3.8 and D4.6, March, 2014. | pdf
  11. Balikas, G., I. Partalas, N. Baskiotis, T. Artieres, E. Gausier, and P. Gallinari, "Evaluation infrastructure software for the challenges 2nd version", BioASQ, Project deliverable D4.7, March, 2014. | pdf
  12. Paliouras, G., "BioASQ, a challenge on large-scale biomedical semantic indexing and question answering", BioTxtM 2014, 05/2014. | pdf
  13. Androutsopoulos, I., BioASQ, a challenge on large-scale biomedical semantic indexing and question answering, , Digital Curation Unit, Institute for the Management of Information Systems, Research Centre "Athena", 02/2014. | pdf
  14. Artières, P. Gallinari, "BioASQ - A challenge on large-scale biomedical semantic indexing and question answering", Web-Scale Classification Workshop (WSDM), 2014. | pdf
  15. Androutsopoulos, I., Human Language Technology for Cultural Heritage and Digital Humanities, , kick-off meeting του DARIAH-GR, 2014. | pdf

2013

  1. Heino, N., and A-C. Ngonga Ngomo, "Social Network", BioASQ, Project deliverable D2.6, September, 2013. | pdf
  2. Ngomo, A-C. Ngonga, "1st Workshop", BioASQ, Project deliverable D2.5, September, 2013. | pdf
  3. Partalas, I., and E. Gaussier, "Technology Overview Report 1", BioASQ, Project deliverable D5.1, October, 2013. | pdf
  4. Balikas, G., I. Partalas, N. Baskiotis, T. Artieres, E. Gaussier, and P. Gallinari, "Report On Challenge operation and technical support 1", BioASQ, Project deliverable D4.4, October, 2013. | pdf
  5. Alvers, M., G. Tsatsaronis, M. Zschunke, and A-C. Ngonga Ngomo, "Exploitation and dissemination strategy", BioASQ, Project deliverable D2.3, May, 2013. | pdf
  6. Partalas, I., G. Balikas, N. Baskiotis, D. Polychronopoulos, Y. Almirantis, E. Gaussier, T. Artieres, and P. Gallinari, "Pre-processed benchmark set 1", BioASQ, Project deliverable D3.5 and D4.2, June, 2013. | pdf
  7. Balikas, G., I. Partalas, N. Baskiotis, T. Artieres, E. Gaussier, and P. Gallinari, "Evaluation Infrastructure ", BioASQ, Project deliverable D4.3, June, 2013. | pdf
  8. Polychronopoulos, D., Y. Almirantis, A. Krithara, and G. Paliouras, "Expert Team", BioASQ, Project deliverable D3.1, January, 2013. | pdf
  9. Stamatakis, K., and G. Paliouras, "Project Leaflets 2nd version", BioASQ, 2014 D2.7, February, 2013. | pdf
  10. Malakasiotis, P., I. Androutsopoulos, Y. Almirantis, D. Polychronopoulos, and I. Pavlopoulos, "Tutorials and Guidelines 2", BioASQ, Project deliverable D3.7, December, 2013. | pdf
  11. Malakasiotis, P., I. Androutsopoulos, and I. Pavlopoulos, "Challenge Evaluation Report ", BioASQ, Project deliverable D5.2, December, 2013. | pdf
  12. Balikas, G., I. Partalas, N. Baskiotis, P. Malakasiotis, I. Pavlopoulos, I. Androutsopoulos, T. Artieres, E. Gaussier, and P. Gallinari, "Evaluation Framework Specifications - 2nd Version", BioASQ, Project deliverable D4.5, December, 2013. | pdf
  13. Heino, N., "Annotation Tool - 2nd Version", BioASQ, Project deliverable D3.6, December, 2013. | pdf
  14. Androutsopoulos, I., "A challenge on large-scale biomedical semantic indexing and question answering", BioNLP workshop (part of the ACL Conference), 08/2013. | pdf
  15. Tsatsaronis, G., and M. Schroeder, "A Challenge On Large-Scale Biomedical Semantic Indexing And Question Answering", ISMB/ECCB 2013 (BioLINK SIG), 07/2013. | pdf
  16. Stamatakis, K., and G. Paliouras, "Project Leaflets", BioASQ, Project deliverable D2.4, 05/2013. | pdf
  17. Ngomo, A-C. Ngonga, G. Paliouras, A. Krithara, and S. Petridis, "Press Release 1", BioASQ, Project deliverable D2.2, 05/2013. | pdf
  18. Balikas, G., I. Partalas, A. Kosmopoulos, S. Petridis, P. Malakasiotis, I. Pavlopoulos, I. Androutsopoulos, N. Baskiotis, E. Gaussier, T. Artieres, et al., "Evaluation Framework Specifications", BioASQ, Project deliverable D4.1, 05/2013. | pdf
  19. Ngomo, A-C. Ngonga, N. Heino, R. Speck, T. Ermilov, and G. Tsatsaronis, "Annotation Tool", BioASQ, Project deliverable D3.3, 02/2013. | pdf
  20. Tsatsaronis, G., M. Zschunke, M. R. Alvers, and C. Plonka, "Report on existing and selected datasets", BioASQ, Project deliverable D3.2, 01/2013. | pdf
  21. Malakasiotis, P., I. Androutsopoulos, Y. Almirantis, D. Polychronopoulos, and I. Pavlopoulos, "Tutorials and Guidelines", BioASQ, Project deliverable D3.4, 01/2013. | pdf
  22. Petridis, S., A. Kosmopoulos, and K. Stamatakis, "Project Wiki", BioASQ, project deliverable D1.1, 01/2013. | pdf
  23. Krithara, A., G. Paliouras, and C. Armeniakou, "Quality Assurance Plan", BioASQ, Project deliverable D1.2, 01/2013. | pdf
  24. Ngomo, A-C. Ngonga, L. Bühmann, C. Unger, J. Lehmann, and D. Gerber, "Sorry, i don't speak SPARQL: translating SPARQL queries into natural language", Proceedings of the 22nd international conference on World Wide Web, Republic and Canton of Geneva, Switzerland, International World Wide Web Conferences Steering Committee, 2013. | pdf
  25. Kosmopoulos, A., I. Partalas, E. Gaussier, G. Paliouras, and I. Androutsopoulos, "Evaluation Measures for Hierarchical Classification: a unified view and novel approaches", CoRR, vol. abs/1306.6802, 2013. | pdf

2012

  1. Paliouras, G., BioASQ: A challenge on large-scale biomedical semantic indexing and question answering, , 11/2012. | pdf
  2. Tsatsaronis, G., M. Schroeder, G. Paliouras, Y. Almirantis, I. Androutsopoulos, E. Gaussier, P. Gallinari, T. Artieres, M. R. Alvers, M. Zschunke, et al., "BioASQ: A Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering", 2012 AAAI Fall Symposium Series, 2012. | pdf