BioASQ at CLEF2025: The Thirteenth Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge - Anastasios Nentidis; Georgios Katsimpras; Anastasia Krithara; Martin Krallinger; Miguel Rodríguez-Ortega; Natalia V. Loukachevitch; Andrey Sakhovskiy; Elena Tutubalina; Grigorios Tsoumakas; George Giannakoulas; Alexandra Bekiaridou; Athanasios Samaras; et al. (Advances in Information Retrieval - 47th European Conference on Information Retrieval, ECIR 2025, Lucca, Italy, April 6-10, 2025, Proceedings, Part V, 2025)

Overview of the MEDIQA-M3G 2024 Shared Task on Multilingual Multimodal Medical Answer Generation - Wen-wai Yim; Asma Ben Abacha; Yujuan Fu; Zhaoyi Sun; Fei Xia; Meliha Yetisgen; Martin Krallinger (Proceedings of the 6th Clinical Natural Language Processing Workshop, ClinicalNLP@NAACL 2024, Mexico City, Mexico, June 21, 2024, 2024)

Overview of BioASQ 2024: The Twelfth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Anastasia Krithara; Salvador Lima-López; Eulàlia Farré-Maduell; Martin Krallinger; Natalia V. Loukachevitch; Vera Davydova; Elena Tutubalina; Georgios Paliouras (Experimental IR Meets Multilinguality, Multimodality, and Interaction - 15th International Conference of the CLEF Association, CLEF 2024, Grenoble, France, September 9-12, 2024, Proceedings, Part II, 2024)

Overview of MultiCardioNER task at BioASQ 2024 on Medical Specialty and Language Adaptation of Clinical NER Systems for Spanish, English and Italian - Salvador Lima-López; Eulàlia Farré-Maduell; Jan Rodríguez-Miret; Miguel Rodríguez-Ortega; Livia Lilli; Jacopo Lenkowicz; Giovanna Ceroni; Jonathan Kossof; Anoop Shah; Anastasios Nentidis; Anastasia Krithara; Georgios Katsimpras; et al. (Working Notes of the Conference and Labs of the Evaluation Forum (CLEF 2024), Grenoble, France, 9-12 September, 2024, 2024)

BioASQ at CLEF2024: The Twelfth Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge - Anastasios Nentidis; Anastasia Krithara; Georgios Paliouras; Martin Krallinger; Luis Gascó Sánchez; Salvador Lima-López; Eulàlia Farré; Natalia V. Loukachevitch; Vera Davydova; Elena Tutubalina (Advances in Information Retrieval - 46th European Conference on Information Retrieval, ECIR 2024, Glasgow, UK, March 24-28, 2024, Proceedings, Part V, 2024)

ClinLinker: Medical Entity Linking of Clinical Concept Mentions in Spanish - Fernando Gallego Donoso; Guillermo López-García; Luis Gascó Sánchez; Martin Krallinger; Francisco J. Veredas (Computational Science - ICCS 2024 - 24th International Conference, Malaga, Spain, July 2-4, 2024, Proceedings, Part V, 2024)

ClinLinker: Medical Entity Linking of Clinical Concept Mentions in Spanish - Fernando Gallego Donoso; Guillermo López-García; Luis Gascó Sánchez; Martin Krallinger; Francisco J. Veredas (CoRR, 2024)

Overview of DrugProt task at BioCreative VII: data and methods for large-scale text mining and knowledge graph generation of heterogenous chemical-protein relations - Antonio Miranda-Escalada; Farrokh Mehryary; Jouni Luoma; Darryl Estrada-Zavala; Luis Gascó; Sampo Pyysalo; Alfonso Valencia; Martin Krallinger (Database J. Biol. Databases Curation, 2023)

MEDDOPLACE Shared Task overview: recognition, normalization and classification of locations and patient movement in clinical texts - Salvador Lima-López; Eulàlia Farré-Maduell; Vicent Brivá-Iglesias; Luis Gascó Sánchez; Martin Krallinger (Proces. del Leng. Natural, 2023)

Overview of MedProcNER Task on Medical Procedure Detection and Entity Linking at BioASQ 2023 - Salvador Lima-López; Eulàlia Farré-Maduell; Luis Gascó; Anastasios Nentidis; Anastasia Krithara; Georgios Katsimpras; Georgios Paliouras; Martin Krallinger (Working Notes of the Conference and Labs of the Evaluation Forum (CLEF 2023), Thessaloniki, Greece, September 18th to 21st, 2023, 2023)

Overview of BioASQ 2023: The Eleventh BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Anastasia Krithara; Salvador Lima-López; Eulàlia Farré-Maduell; Luis Gascó; Martin Krallinger; Georgios Paliouras (Experimental IR Meets Multilinguality, Multimodality, and Interaction - 14th International Conference of the CLEF Association, CLEF 2023, Thessaloniki, Greece, September 18-21, 2023, Proceedings, 2023)

BioASQ at CLEF2023: The Eleventh Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge - Anastasios Nentidis; Anastasia Krithara; Georgios Paliouras; Eulàlia Farré-Maduell; Salvador Lima-López; Martin Krallinger (Advances in Information Retrieval - 45th European Conference on Information Retrieval, ECIR 2023, Dublin, Ireland, April 2-6, 2023, Proceedings, Part III, 2023)

Overview of BioASQ 2023: The eleventh BioASQ challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Anastasia Krithara; Salvador Lima-López; Eulàlia Farré-Maduell; Luis Gascó; Martin Krallinger; Georgios Paliouras (CoRR, 2023)

Overview of the COVID-19 text mining tool interactive demonstration track in BioCreative VII - Andrew Chatr-aryamontri; Lynette Hirschman; Karen E. Ross; Rose Oughtred; Martin Krallinger; Kara Dolinski; Mike Tyers; Tonia Korves; Cecilia N. Arighi (Database J. Biol. Databases Curation, 2022)

Challenges and opportunities for mining adverse drug reactions: perspectives from pharma, regulatory agencies, healthcare providers and consumers - Graciela Gonzalez-Hernandez; Martin Krallinger; Monica A. Muñoz; Raul Rodriguez-Esteban; Özlem Uzuner; Lynette Hirschman (Database J. Biol. Databases Curation, 2022)

Mention detection, normalization & classification of species, pathogens, humans and food in clinical documents: Overview of the LivingNER shared task and resources - Antonio Miranda-Escalada; Eulàlia Farré-Maduell; Salvador Lima-López; Darryl Estrada; Luis Gascó; Martin Krallinger (Proces. del Leng. Natural, 2022)

Overview of DisTEMIST at BioASQ: Automatic detection and normalization of diseases from clinical texts: results, methods, evaluation and multilingual resources - Antonio Miranda-Escalada; Luis Gascó; Salvador Lima-López; Eulàlia Farré-Maduell; Darryl Estrada; Anastasios Nentidis; Anastasia Krithara; Georgios Katsimpras; Georgios Paliouras; Martin Krallinger (Proceedings of the Working Notes of CLEF 2022 - Conference and Labs of the Evaluation Forum, Bologna, Italy, September 5th - to - 8th, 2022, 2022)

Overview of BioASQ 2022: The Tenth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Eirini Vandorou; Anastasia Krithara; Antonio Miranda-Escalada; Luis Gascó; Martin Krallinger; Georgios Paliouras (Experimental IR Meets Multilinguality, Multimodality, and Interaction - 13th International Conference of the CLEF Association, CLEF 2022, Bologna, Italy, September 5-8, 2022, Proceedings, 2022)

The SocialDisNER shared task on detection of disease mentions in health-relevant content from social media: methods, evaluation, guidelines and corpora - Luis Gascó Sánchez; Darryl Estrada-Zavala; Eulàlia Farré-Maduell; Salvador Lima-López; Antonio Miranda-Escalada; Martin Krallinger (Proceedings of The Seventh Workshop on Social Media Mining for Health Applications, Workshop & Shared Task, SMM4H@COLING 2022, Gyeongju, Republic of Korea, October 12 - 17, 2022, 2022)

Overview of the Seventh Social Media Mining for Health Applications (#SMM4H) Shared Tasks at COLING 2022 - Davy Weissenbacher; Juan M. Banda; Vera Davydova; Darryl Estrada-Zavala; Luis Gascó Sánchez; Yao Ge; Yuting Guo; Ari Z. Klein; Martin Krallinger; Mathias Leddin; Arjun Magge; Raul Rodriguez-Esteban; et al. (Proceedings of The Seventh Workshop on Social Media Mining for Health Applications, Workshop & Shared Task, SMM4H@COLING 2022, Gyeongju, Republic of Korea, October 12 - 17, 2022, 2022)

BioASQ at CLEF2022: The Tenth Edition of the Large-scale Biomedical Semantic Indexing and Question Answering Challenge - Anastasios Nentidis; Anastasia Krithara; Georgios Paliouras; Luis Gascó; Martin Krallinger (Advances in Information Retrieval - 44th European Conference on IR Research, ECIR 2022, Stavanger, Norway, April 10-14, 2022, Proceedings, Part II, 2022)

Findings of the WMT 2022 Biomedical Translation Shared Task: Monolingual Clinical Case Reports - Mariana Neves; Antonio Jimeno-Yepes; Amy Siu; Roland Roller; Philippe Thomas; Maika Vicente Navarro; Lana Yeganova; Dina Wiemann; Giorgio Maria Di Nunzio; Federica Vezzani; Christel Gérardin; Rachel Bawden; et al. (Proceedings of the Seventh Conference on Machine Translation, WMT 2022, Abu Dhabi, United Arab Emirates (Hybrid), December 7-8, 2022, 2022)

Overview of BioASQ 2022: The tenth BioASQ challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Eirini Vandorou; Anastasia Krithara; Antonio Miranda-Escalada; Luis Gascó; Martin Krallinger; Georgios Paliouras (CoRR, 2022)

ECO-CollecTF: A Corpus of Annotated Evidence-Based Assertions in Biomedical Manuscripts - Elizabeth T. Hobbs; Stephen M. Goralski; Ashley Mitchell; Andrew Simpson; Dorjan Leka; Emmanuel Kotey; Matt Sekira; James B. Munro; Suvarna Nadendla; Rebecca Jackson; Aitor Gonzalez-Agirre; Martin Krallinger; et al. (Frontiers Res. Metrics Anal., 2021)

NLP applied to occupational health: MEDDOPROF shared task at IberLEF 2021 on automatic recognition, classification and normalization of professions and occupations from medical texts - Salvador Lima-López; Eulàlia Farré-Maduell; Antonio Miranda-Escalada; Vicent Brivá-Iglesias; Martin Krallinger (Proces. del Leng. Natural, 2021)

Overview of BioASQ 2021-MESINESP track. Evaluation of advance hierarchical classification techniques for scientific literature, patents and clinical trials - Luis Gascó; Anastasios Nentidis; Anastasia Krithara; Darryl Estrada-Zavala; Renato Toshiyuki Murasaki; Elena Primo-Peña; Cristina Bojo-Canales; Georgios Paliouras; Martin Krallinger (Proceedings of the Working Notes of CLEF 2021 - Conference and Labs of the Evaluation Forum, Bucharest, Romania, September 21st - to - 24th, 2021, 2021)

Overview of BioASQ 2021: The Ninth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Eirini Vandorou; Anastasia Krithara; Luis Gascó; Martin Krallinger; Georgios Paliouras (Experimental IR Meets Multilinguality, Multimodality, and Interaction - 12th International Conference of the CLEF Association, CLEF 2021, Virtual Event, September 21-24, 2021, Proceedings, 2021)

BioASQ at CLEF2021: Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasia Krithara; Anastasios Nentidis; Georgios Paliouras; Martin Krallinger; Antonio Miranda (Advances in Information Retrieval - 43rd European Conference on IR Research, ECIR 2021, Virtual Event, March 28 - April 1, 2021, Proceedings, Part II, 2021)

The ProfNER shared task on automatic recognition of occupation mentions in social media: systems, evaluation, guidelines, embeddings and corpora - Antonio Miranda-Escalada; Eulàlia Farré-Maduell; Salvador Lima-López; Luis Gascó; Vicent Brivá-Iglesias; Marvin M. Agüero-Torales; Martin Krallinger (Proceedings of the Sixth Social Media Mining for Health Workshop and Shared Task, SMM4H@NAACL-HLT 2021, Mexico City, Mexico, June 10, 2021, 2021)

Overview of the Sixth Social Media Mining for Health Applications (#SMM4H) Shared Tasks at NAACL 2021 - Arjun Magge; Ari Z. Klein; Antonio Miranda-Escalada; Mohammed Ali Al-Garadi; Ilseyar Alimova; Zulfat Miftahutdinov; Eulàlia Farré; Salvador Lima-López; Ivan Flores; Karen O'Connor; Davy Weissenbacher; Elena Tutubalina; et al. (Proceedings of the Sixth Social Media Mining for Health Workshop and Shared Task, SMM4H@NAACL-HLT 2021, Mexico City, Mexico, June 10, 2021, 2021)

Proceedings of the Sixth Social Media Mining for Health Workshop and Shared Task, SMM4H@NAACL-HLT 2021, Mexico City, Mexico, June 10, 2021 - Arjun Magge; Ari Z. Klein; Antonio Miranda-Escalada; Mohammed Ali Al-garadi; Ilseyar Alimova; Zulfat Miftahutdinov; Eulàlia Farré-Maduell; Salvador Lima-López; Ivan Flores; Karen O'Connor; Davy Weissenbacher; Elena Tutubalina; et al. (Association for Computational Linguistics, 2021)

Overview of BioASQ 2020: The eighth BioASQ challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Anastasia Krithara; Konstantinos Bougiatiotis; Martin Krallinger; Carlos Rodríguez Penagos; Marta Villegas; Georgios Paliouras (CoRR, 2021)

Overview of BioASQ 2021: The ninth BioASQ challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Georgios Katsimpras; Eirini Vandorou; Anastasia Krithara; Luis Gascó; Martin Krallinger; Georgios Paliouras (CoRR, 2021)

Spanish Biomedical Crawled Corpus: A Large, Diverse Dataset for Spanish Biomedical Language Models - Casimiro Pio Carrino; Jordi Armengol-Estapé; Ona De Gibert Bonet; Asier Gutiérrez-Fandiño; Aitor Gonzalez-Agirre; Martin Krallinger; Marta Villegas (CoRR, 2021)

Overview of the CLEF eHealth Evaluation Lab 2020 - Lorraine Goeuriot; Hanna Suominen; Liadh Kelly; Antonio Miranda-Escalada; Martin Krallinger; Zhengyang Liu; Gabriella Pasi; Gabriela González Sáez; Marco Viviani; Chenchen Xu (Experimental IR Meets Multilinguality, Multimodality, and Interaction - 11th International Conference of the CLEF Association, CLEF 2020, Thessaloniki, Greece, September 22-25, 2020, Proceedings, 2020)

Overview of Automatic Clinical Coding: Annotations, Guidelines, and Solutions for non-English Clinical Cases at CodiEsp Track of CLEF eHealth 2020 - Antonio Miranda-Escalada; Aitor Gonzalez-Agirre; Jordi Armengol-Estapé; Martin Krallinger (Working Notes of CLEF 2020 - Conference and Labs of the Evaluation Forum, Thessaloniki, Greece, September 22-25, 2020, 2020)

Overview of BioASQ 2020: The Eighth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering - Anastasios Nentidis; Anastasia Krithara; Konstantinos Bougiatiotis; Martin Krallinger; Carlos Rodríguez Penagos; Marta Villegas; Georgios Paliouras (Experimental IR Meets Multilinguality, Multimodality, and Interaction - 11th International Conference of the CLEF Association, CLEF 2020, Thessaloniki, Greece, September 22-25, 2020, Proceedings, 2020)

Overview of MESINESP, a Spanish Medical Semantic Indexing Task within BioASQ 2020 - Carlos Rodríguez Penagos; Anastasios Nentidis; Aitor Gonzalez-Agirre; Alejandro Asensio; Jordi Armengol-Estapé; Anastasia Krithara; Marta Villegas; Georgios Paliouras; Martin Krallinger (Working Notes of CLEF 2020 - Conference and Labs of the Evaluation Forum, Thessaloniki, Greece, September 22-25, 2020, 2020)

Report of the First International Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages - Francisco M. Couto; Martin Krallinger (Proceedings of the Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages co-located with 42nd European Conference on Information Retrieval, SIIRH@ECIR 2020, Lisbon, Portugal, April 14, 2020, 2020)

BioASQ at CLEF2020: Large-Scale Biomedical Semantic Indexing and Question Answering - Martin Krallinger; Anastasia Krithara; Anastasios Nentidis; Georgios Paliouras; Marta Villegas (Advances in Information Retrieval - 42nd European Conference on IR Research, ECIR 2020, Lisbon, Portugal, April 14-17, 2020, Proceedings, Part II, 2020)

CLEF eHealth Evaluation Lab 2020 - Hanna Suominen; Liadh Kelly; Lorraine Goeuriot; Martin Krallinger (Advances in Information Retrieval - 42nd European Conference on IR Research, ECIR 2020, Lisbon, Portugal, April 14-17, 2020, Proceedings, Part II, 2020)

Proposal of the First International Workshop on Semantic Indexing and Information Retrieval for Health from Heterogeneous Content Types and Languages (SIIRH) - Francisco M. Couto; Martin Krallinger (Advances in Information Retrieval - 42nd European Conference on IR Research, ECIR 2020, Lisbon, Portugal, April 14-17, 2020, Proceedings, Part II, 2020)

Corpora as Evolving Entities: Embedding Corpora in Biomedical Ontologies - Elizabeth T. Hobbs; Stephen M. Goralski; Ashley Mitchell; Andrew Simpson; Dorjan Leka; Emmanuel Kotey; Matt Sekira; James B. Munro; Suvarna Nadendla; Rebecca Jackson; Aitor Gonzalez-Agirre; Martin Krallinger; et al. (Proceedings of the 11th International Conference on Biomedical Ontologies (ICBO) joint with the 10th Workshop on Ontologies and Data in Life Sciences (ODLS) and part of the Bolzano Summer of Knowledge (BoSK 2020), Virtual conference hosted in Bolzano, Italy, September 17, 2020, 2020)

Named Entity Recognition, Concept Normalization and Clinical Coding: Overview of the Cantemist Track for Cancer Text Mining in Spanish, Corpus, Guidelines, Methods and Results - Antonio Miranda-Escalada; Eulàlia Farré; Martin Krallinger (Proceedings of the Iberian Languages Evaluation Forum (IberLEF 2020) co-located with 36th Conference of the Spanish Society for Natural Language Processing (SEPLN 2020), Málaga, Spain, September 23th, 2020, 2020)

Proceedings of the Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages co-located with 42nd European Conference on Information Retrieval, SIIRH@ECIR 2020, Lisbon, Portugal, April 14, 2020 - Francisco M. Couto; Martin Krallinger (CEUR-WS.org, 2020)

Next generation community assessment of biomedical entity recognition web servers: metrics, performance, interoperability aspects of BeCalm - Martín Pérez-Pérez; Gael Pérez Rodríguez; Aitor Blanco-Míguez; Florentino Fdez-Riverola; Alfonso Valencia; Martin Krallinger; Anália Lourenço (J. Cheminformatics, 2019)

PharmaCoNER: Pharmacological Substances, Compounds and proteins Named Entity Recognition track - Aitor Gonzalez-Agirre; Montserrat Marimon; Ander Intxaurrondo; Obdulia Rabal; Marta Villegas; Martin Krallinger (Proceedings of The 5th Workshop on BioNLP Open Shared Tasks, BioNLP-OST@EMNLP-IJNCLP 2019, Hong Kong, China, November 4, 2019, 2019)

Automatic De-identification of Medical Texts in Spanish: the MEDDOCAN Track, Corpus, Guidelines, Methods and Evaluation of Results - Montserrat Marimon; Aitor Gonzalez-Agirre; Ander Intxaurrondo; Heidy Rodriguez; Jose Lopez Martin; Marta Villegas; Martin Krallinger (Proceedings of the Iberian Languages Evaluation Forum co-located with 35th Conference of the Spanish Society for Natural Language Processing, IberLEF@SEPLN 2019, Bilbao, Spain, September 24th, 2019, 2019)

Findings of the WMT 2019 Biomedical Translation Shared Task: Evaluation for MEDLINE Abstracts and Biomedical Terminologies - Rachel Bawden; Kevin Bretonnel Cohen; Cristian Grozea; Antonio Jimeno-Yepes; Madeleine Kittner; Martin Krallinger; Nancy Mah; Aurélie Névéol; Mariana L. Neves; Felipe Soares; Amy Siu; Karin Verspoor; et al. (Proceedings of the Fourth Conference on Machine Translation, WMT 2019, Florence, Italy, August 1-2, 2019 - Volume 3: Shared Task Papers, Day 2, 2019)

BSC Participation in the WMT Translation of Biomedical Abstracts - Felipe Soares; Martin Krallinger (Proceedings of the Fourth Conference on Machine Translation, WMT 2019, Florence, Italy, August 1-2, 2019 - Volume 3: Shared Task Papers, Day 2, 2019)

Proceedings of the Iberian Languages Evaluation Forum co-located with 35th Conference of the Spanish Society for Natural Language Processing, IberLEF@SEPLN 2019, Bilbao, Spain, September 24th, 2019 - Miguel Ángel García Cumbreras; Julio Gonzalo; Eugenio Martínez Cámara; Raquel Martínez-Unanue; Paolo Rosso; Jorge Carrillo-de-Albornoz; Soto Montalvo; Luis Chiruzzo; Sandra Collovini; Yoan Gutiérrez; Salud M. Jiménez-Zafra; Martin Krallinger; et al. (CEUR-WS.org, 2019)

BVS Corpus: A Multilingual Parallel Corpus of Biomedical Scientific Texts - Felipe Soares; Martin Krallinger (CoRR, 2019)

Construcción de recursos terminológicos médicos para el espa exttildelownol: el sistema de extracción de términos CUTEXT y los repositorios de términos biomédicos - Jesus Santamaría; Martin Krallinger (Proces. del Leng. Natural, 2018)

Finding Mentions of Abbreviations and Their Definitions in Spanish Clinical Cases: The BARR2 Shared Task Evaluation Results - Ander Intxaurrondo; Montserrat Marimon; Aitor Gonzalez-Agirre; Jose Antonio López-Martín; Heidy Rodriguez; Jesus Santamaría; Marta Villegas; Martin Krallinger (Proceedings of the Third Workshop on Evaluation of Human Language Technologies for Iberian Languages (IberEval 2018) co-located with 34th Conference of the Spanish Society for Natural Language Processing (SEPLN 2018), Sevilla, Spain, September 18th, 2018, 2018)

LimTox: a web tool for applied text mining of adverse event and toxicity associations of compounds, drugs and genes - Andrés Cañada; Salvador Capella-Gutiérrez; Obdulia Rabal; Julen Oyarzabal; Alfonso Valencia; Martin Krallinger (Nucleic Acids Res., 2017)

Esfuerzos para fomentar la minería de textos en biomedicina más allá del inglés: el plan estratégico nacional español para las tecnologías del lenguaje - Marta Villegas; Santiago de la Peña; Ander Intxaurrondo; Jesus Santamaría; Martin Krallinger (Proces. del Leng. Natural, 2017)

The Biomedical Abbreviation Recognition and Resolution (BARR) Track: Benchmarking, Evaluation and Importance of Abbreviation Recognition Systems Applied to Spanish Biomedical Abstracts - Ander Intxaurrondo; Martín Pérez-Pérez; Gael Pérez Rodríguez; Jose Antonio López-Martín; Jesus Santamaría; Santiago de la Peña; Marta Villegas; Saber Ahmad Akhondi; Alfonso Valencia; Anália Lourenço; Martin Krallinger (Proceedings of the Second Workshop on Evaluation of Human Language Technologies for Iberian Languages (IberEval 2017) co-located with 33th Conference of the Spanish Society for Natural Language Processing (SEPLN 2017), Murcia, Spain, September 19, 2017, 2017)

CNIO at BARR IberEval 2017: Exploring Three Biomedical Abbreviation Identifiers for Spanish Biomedical Publications - Ander Intxaurrondo; Martin Krallinger (Proceedings of the Second Workshop on Evaluation of Human Language Technologies for Iberian Languages (IberEval 2017) co-located with 33th Conference of the Spanish Society for Natural Language Processing (SEPLN 2017), Murcia, Spain, September 19, 2017, 2017)

The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge - Martín Pérez-Pérez; Gael Pérez Rodríguez; Obdulia Rabal; Miguel Vazquez; Julen Oyarzabal; Florentino Fdez-Riverola; Alfonso Valencia; Martin Krallinger; Anália Lourenço (Database J. Biol. Databases Curation, 2016)

Annotation Process, Guidelines and Text Corpus of Small Non-Coding RNA Molecules: the MiNCor for MicroRNA Annotations - Jose Camilla Sammartino; Martin Krallinger; Alfonso Valencia (Proceedings of the 7th International Symposium on Semantic Mining in Biomedicine, SMBM 2016, Potsdam, Germany, August 4-5, 2016, 2016)

FUN-L: gene prioritization for RNAi screens - Jonathan G. Lees; Jean-Karim Hériché; Ian Morilla; José María Fernández; Priit Adler; Martin Krallinger; Jaak Vilo; Alfonso Valencia; Jan Ellenberg; Juan A. G. Ranea; Christine A. Orengo (Bioinform., 2015)

CHEMDNER: The drugs and chemical names extraction challenge - Martin Krallinger; Florian Leitner; Obdulia Rabal; Miguel Vazquez; Julen Oyarzabal; Alfonso Valencia (J. Cheminformatics, 2015)

The CHEMDNER corpus of chemicals and drugs and its annotation principles - Martin Krallinger; Obdulia Rabal; Florian Leitner; Miguel Vazquez; David Salgado; Zhiyong Lu; Robert Leaman; Yanan Lu; Donghong Ji; Daniel M. Lowe; Roger A. Sayle; Riza Theresa Batista-Navarro; et al. (J. Cheminformatics, 2015)

BioCreative-IV virtual issue - Cecilia N. Arighi; Cathy H. Wu; Kevin Bretonnel Cohen; Lynette Hirschman; Martin Krallinger; Alfonso Valencia; Zhiyong Lu; W. John Wilbur; Thomas C. Wiegers (Database J. Biol. Databases Curation, 2014)

Retrieval and Discovery of Cell Cycle Literature and Proteins by Means of Machine Learning, Text Mining and Network Analysis - Martin Krallinger; Florian Leitner; Alfonso Valencia (8th International Conference on Practical Applications of Computational Biology & Bioinformatics, PACBB 2014, 4-6 June, 2014, Salamanca, Spain, 2014)

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task - Cecilia N. Arighi; Ben Carterette; K. Bretonnel Cohen; Martin Krallinger; W. John Wilbur; Petra Fey; Robert J. Dodson; Laurel Cooper; Ceri E. Van Slyke; Wasila M. Dahdul; Paula M. Mabee; Donghui Li; et al. (Database J. Biol. Databases Curation, 2013)

BioC: a minimalist approach to interoperability for biomedical text processing - Donald C. Comeau; Rezarta Islamaj Dogan; Paolo Ciccarese; Kevin Bretonnel Cohen; Martin Krallinger; Florian Leitner; Zhiyong Lu; Yifan Peng; Fabio Rinaldi; Manabu Torii; Alfonso Valencia; Karin Verspoor; et al. (Database J. Biol. Databases Curation, 2013)

Machine Reading of Biomedical Texts about Alzheimer's Disease - Roser Morante; Martin Krallinger; Alfonso Valencia; Walter Daelemans (Working Notes for CLEF 2013 Conference , Valencia, Spain, September 23-26, 2013, 2013)

Text mining for the biocuration workflow - Lynette Hirschman; Gully A. P. C. Burns; Martin Krallinger; Cecilia N. Arighi; K. Bretonnel Cohen; Alfonso Valencia; Cathy H. Wu; Andrew Chatr-aryamontri; Karen G. Dowell; Eva Huala; Anália Lourenço; Robert S. Nash; et al. (Database J. Biol. Databases Curation, 2012)

How to link ontologies and protein-protein interactions to literature: text-mining approaches and the BioCreative experience - Martin Krallinger; Florian Leitner; Miguel Vazquez; David Salgado; Christophe Marcelle; Mike Tyers; Alfonso Valencia; Andrew Chatr-aryamontri (Database J. Biol. Databases Curation, 2012)

BioCreative-2012 Virtual Issue - Cathy H. Wu; Cecilia N. Arighi; Kevin Bretonnel Cohen; Lynette Hirschman; Martin Krallinger; Zhiyong Lu; Carolyn J. Mattingly; Alfonso Valencia; Thomas C. Wiegers; W. John Wilbur (Database J. Biol. Databases Curation, 2012)

MyMiner: a web application for computer-assisted biocuration and text annotation - David Salgado; Martin Krallinger; Marc Depaule; Elodie Drula; Ashish V. Tendulkar; Florian Leitner; Alfonso Valencia; Christophe Marcelle (Bioinform., 2012)

Machine Reading of Biomedical Texts about Alzheimer's Disease - Roser Morante; Martin Krallinger; Alfonso Valencia; Walter Daelemans (CLEF 2012 Evaluation Labs and Workshop, Online Working Notes, Rome, Italy, September 17-20, 2012, 2012)

Overview of the BioCreative III Workshop - Cecilia N. Arighi; Zhiyong Lu; Martin Krallinger; Kevin Bretonnel Cohen; W. John Wilbur; Alfonso Valencia; Lynette Hirschman; Cathy H. Wu (BMC Bioinform., 2011)

The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text - Martin Krallinger; Miguel Vazquez; Florian Leitner; David Salgado; Andrew Chatr-aryamontri; Andrew G. Winter; Livia Perfetto; Leonardo Briganti; Luana Licata; Marta Iannuccelli; Luisa Castagnoli; Gianni Cesareni; et al. (BMC Bioinform., 2011)

BioCreative III interactive task: an overview - Cecilia N. Arighi; Phoebe M. Roberts; Shashank Agarwal; Sanmitra Bhattacharya; Gianni Cesareni; Andrew Chatr-aryamontri; Simon Clematide; Pascale Gaudet; Michelle G. Giglio; Ian Harrow; Eva Huala; Martin Krallinger; et al. (BMC Bioinform., 2011)

The PPI affix dictionary (PPIAD) and BioMethod Lexicon: importance of affixes and tags for recognition of entity mentions and experimental protein interactions - Martin Krallinger; Ashish V. Tendulkar; Florian Leitner; Andrew Chatr-aryamontri; Alfonso Valencia (BMC Bioinform., 2010)

An Overview of BioCreative II.5 - Florian Leitner; Scott A. Mardis; Martin Krallinger; Gianni Cesareni; Lynette Hirschman; Alfonso Valencia (IEEE ACM Trans. Comput. Biol. Bioinform., 2010)

Importance of negations and experimental qualifiers in biomedical literature - Martin Krallinger (Proceedings of the Workshop on Negation and Speculation in Natural Language Processing, NeSp-NLP@ACL 2010, Uppsala, Sweden, July 10, 2010, 2010)

Extraction of human kinase mutations from literature, databases and genotyping studies - Martin Krallinger; José M. G. Izarzugaza; Carlos Rodríguez Penagos; Alfonso Valencia (BMC Bioinform., 2009)

PLAN2L: a web tool for integrated text mining and literature-based bioentity relation extraction - Martin Krallinger; Carlos Rodríguez Penagos; Ashish V. Tendulkar; Alfonso Valencia (Nucleic Acids Res., 2009)

Refactoring Corpora - Helen L. Johnson; William A. Baumgartner Jr.; Martin Krallinger; K. Bretonnel Cohen; Lawrence Hunter (Proceedings of the Workshop on Linking Natural Language and Biology, BioNLP@NAACL-HLT 2006, New York, NY, USA, June 8, 2006, 2006)

Evaluation of BioCreAtIvE assessment of task 2 - Christian Blaschke; Eduardo Andrés León; Martin Krallinger; Alfonso Valencia (BMC Bioinform., 2005)

A sentence sliding window approach to extract protein annotations from biomedical articles - Martin Krallinger; Maria Padron; Alfonso Valencia (BMC Bioinform., 2005)

Applications of Text Mining in Molecular Biology, from Name Recognition to Protein Interaction Maps - Martin Krallinger; Alfonso Valencia (Data Analysis and Visualization in Genomics and Proteomics, 2005)

Assessing the Correlation between Contextual Patterns and Biological Entity Tagging - Martin Krallinger; Maria Padron; Christian Blaschke; Alfonso Valencia (Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications, NLPBA/BioNLP 2004, Geneva, Switzerland, August 28-29, 2004, 2004)