BioASQ at CLEF2025: The Thirteenth Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge. - Nentidis, Anastasios; Katsimpras, Georgios; Krithara, Anastasia; Krallinger, Martin; Rodríguez-Ortega, Miguel; Loukachevitch, Natalia V.; Sakhovskiy, Andrey; Tutubalina, Elena; Tsoumakas, Grigorios; Giannakoulas, George; Bekiaridou, Alexandra; Samaras, Athanasios; et al. (2025)

Overview of the MEDIQA-M3G 2024 Shared Task on Multilingual Multimodal Medical Answer Generation. - Yim, Wen-wai; Abacha, Asma Ben; Fu, Yujuan; Sun, Zhaoyi; Xia, Fei; Yetisgen, Meliha; Krallinger, Martin (2024)

Overview of BioASQ 2024: The Twelfth BioASQ Challenge on Large-Scale Biomedical Semantic Indexing and Question Answering. - Nentidis, Anastasios; Katsimpras, Georgios; Krithara, Anastasia; Lima-López, Salvador; Farré-Maduell, Eulàlia; Krallinger, Martin; Loukachevitch, Natalia V.; Davydova, Vera; Tutubalina, Elena; Paliouras, Georgios (2024)

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

BioASQ at CLEF2024: The Twelfth Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge. - Nentidis, Anastasios; Krithara, Anastasia; Paliouras, Georgios; Krallinger, Martin; Sánchez, Luis Gascó; Lima-López, Salvador; Farré, Eulàlia; Loukachevitch, Natalia V.; Davydova, Vera; Tutubalina, Elena (2024)

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

ClinLinker: Medical Entity Linking of Clinical Concept Mentions in Spanish. - Donoso, Fernando Gallego; López-García, Guillermo; Sánchez, Luis Gascó; Krallinger, Martin; Veredas, Francisco J. (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. - Miranda-Escalada, Antonio; Mehryary, Farrokh; Luoma, Jouni; Estrada-Zavala, Darryl; Gascó, Luis; Pyysalo, Sampo; Valencia, Alfonso; Krallinger, Martin (Database J. Biol. Databases Curation, 2023)

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

Overview of MedProcNER Task on Medical Procedure Detection and Entity Linking at BioASQ 2023. - Lima-López, Salvador; Farré-Maduell, Eulàlia; Gascó, Luis; Nentidis, Anastasios; Krithara, Anastasia; Katsimpras, Georgios; Paliouras, Georgios; Krallinger, Martin (2023)

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

BioASQ at CLEF2023: The Eleventh Edition of the Large-Scale Biomedical Semantic Indexing and Question Answering Challenge. - Nentidis, Anastasios; Krithara, Anastasia; Paliouras, Georgios; Farré-Maduell, Eulàlia; Lima-López, Salvador; Krallinger, Martin (2023)

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

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

Challenges and opportunities for mining adverse drug reactions: perspectives from pharma, regulatory agencies, healthcare providers and consumers. - Gonzalez-Hernandez, Graciela; Krallinger, Martin; Muñoz, Monica A.; Rodriguez-Esteban, Raul; Uzuner, Özlem; Hirschman, Lynette (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. - Miranda-Escalada, Antonio; Farré-Maduell, Eulàlia; Lima-López, Salvador; Estrada, Darryl; Gascó, Luis; Krallinger, Martin (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. - Miranda-Escalada, Antonio; Gascó, Luis; Lima-López, Salvador; Farré-Maduell, Eulàlia; Estrada, Darryl; Nentidis, Anastasios; Krithara, Anastasia; Katsimpras, Georgios; Paliouras, Georgios; Krallinger, Martin (2022)

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

The SocialDisNER shared task on detection of disease mentions in health-relevant content from social media: methods, evaluation, guidelines and corpora. - Sánchez, Luis Gascó; Estrada-Zavala, Darryl; Farré-Maduell, Eulàlia; Lima-López, Salvador; Miranda-Escalada, Antonio; Krallinger, Martin (2022)

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

BioASQ at CLEF2022: The Tenth Edition of the Large-scale Biomedical Semantic Indexing and Question Answering Challenge. - Nentidis, Anastasios; Krithara, Anastasia; Paliouras, Georgios; Gascó, Luis; Krallinger, Martin (2022)

Findings of the WMT 2022 Biomedical Translation Shared Task: Monolingual Clinical Case Reports. - Neves, Mariana; Jimeno-Yepes, Antonio; Siu, Amy; Roller, Roland; Thomas, Philippe; Navarro, Maika Vicente; Yeganova, Lana; Wiemann, Dina; Nunzio, Giorgio Maria Di; Vezzani, Federica; Gérardin, Christel; Bawden, Rachel; et al. (2022)

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

ECO-CollecTF: A Corpus of Annotated Evidence-Based Assertions in Biomedical Manuscripts. - Hobbs, Elizabeth T.; Goralski, Stephen M.; Mitchell, Ashley; Simpson, Andrew; Leka, Dorjan; Kotey, Emmanuel; Sekira, Matt; Munro, James B.; Nadendla, Suvarna; Jackson, Rebecca; Gonzalez-Agirre, Aitor; Krallinger, Martin; 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. - Lima-López, Salvador; Farré-Maduell, Eulàlia; Miranda-Escalada, Antonio; Brivá-Iglesias, Vicent; Krallinger, Martin (Proces. del Leng. Natural, 2021)

Overview of BioASQ 2021-MESINESP track. Evaluation of advance hierarchical classification techniques for scientific literature, patents and clinical trials. - Gascó, Luis; Nentidis, Anastasios; Krithara, Anastasia; Estrada-Zavala, Darryl; Murasaki, Renato Toshiyuki; Primo-Peña, Elena; Bojo-Canales, Cristina; Paliouras, Georgios; Krallinger, Martin (2021)

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

BioASQ at CLEF2021: Large-Scale Biomedical Semantic Indexing and Question Answering. - Krithara, Anastasia; Nentidis, Anastasios; Paliouras, Georgios; Krallinger, Martin; Miranda, Antonio (2021)

The ProfNER shared task on automatic recognition of occupation mentions in social media: systems, evaluation, guidelines, embeddings and corpora. - Miranda-Escalada, Antonio; Farré-Maduell, Eulàlia; Lima-López, Salvador; Gascó, Luis; Brivá-Iglesias, Vicent; Agüero-Torales, Marvin M.; Krallinger, Martin (2021)

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

Proceedings of the Sixth Social Media Mining for Health Workshop and Shared Task, SMM4H@NAACL-HLT 2021, Mexico City, Mexico, June 10, 2021 (Association for Computational Linguistics, 2021)

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

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

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

Overview of the CLEF eHealth Evaluation Lab 2020. - Goeuriot, Lorraine; Suominen, Hanna; Kelly, Liadh; Miranda-Escalada, Antonio; Krallinger, Martin; Liu, Zhengyang; Pasi, Gabriella; Sáez, Gabriela González; Viviani, Marco; Xu, Chenchen (2020)

Overview of Automatic Clinical Coding: Annotations, Guidelines, and Solutions for non-English Clinical Cases at CodiEsp Track of CLEF eHealth 2020. - Miranda-Escalada, Antonio; Gonzalez-Agirre, Aitor; Armengol-Estapé, Jordi; Krallinger, Martin (2020)

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

Overview of MESINESP, a Spanish Medical Semantic Indexing Task within BioASQ 2020. - Penagos, Carlos Rodríguez; Nentidis, Anastasios; Gonzalez-Agirre, Aitor; Asensio, Alejandro; Armengol-Estapé, Jordi; Krithara, Anastasia; Villegas, Marta; Paliouras, Georgios; Krallinger, Martin (2020)

Report of the First International Workshop on Semantic Indexing and Information Retrieval for Health from heterogeneous content types and languages. - Couto, Francisco M.; Krallinger, Martin (2020)

BioASQ at CLEF2020: Large-Scale Biomedical Semantic Indexing and Question Answering. - Krallinger, Martin; Krithara, Anastasia; Nentidis, Anastasios; Paliouras, Georgios; Villegas, Marta (2020)

CLEF eHealth Evaluation Lab 2020. - Suominen, Hanna; Kelly, Liadh; Goeuriot, Lorraine; Krallinger, Martin (2020)

Proposal of the First International Workshop on Semantic Indexing and Information Retrieval for Health from Heterogeneous Content Types and Languages (SIIRH). - Couto, Francisco M.; Krallinger, Martin (2020)

Corpora as Evolving Entities: Embedding Corpora in Biomedical Ontologies. - Hobbs, Elizabeth T.; Goralski, Stephen M.; Mitchell, Ashley; Simpson, Andrew; Leka, Dorjan; Kotey, Emmanuel; Sekira, Matt; Munro, James B.; Nadendla, Suvarna; Jackson, Rebecca; Gonzalez-Agirre, Aitor; Krallinger, Martin; et al. (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. - Miranda-Escalada, Antonio; Farré, Eulàlia; Krallinger, Martin (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. (CEUR-WS.org, 2020)

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

PharmaCoNER: Pharmacological Substances, Compounds and proteins Named Entity Recognition track. - Gonzalez-Agirre, Aitor; Marimon, Montserrat; Intxaurrondo, Ander; Rabal, Obdulia; Villegas, Marta; Krallinger, Martin (2019)

Automatic De-identification of Medical Texts in Spanish: the MEDDOCAN Track, Corpus, Guidelines, Methods and Evaluation of Results. - Marimon, Montserrat; Gonzalez-Agirre, Aitor; Intxaurrondo, Ander; Rodriguez, Heidy; Martin, Jose Lopez; Villegas, Marta; Krallinger, Martin (2019)

Findings of the WMT 2019 Biomedical Translation Shared Task: Evaluation for MEDLINE Abstracts and Biomedical Terminologies. - Bawden, Rachel; Cohen, Kevin Bretonnel; Grozea, Cristian; Jimeno-Yepes, Antonio; Kittner, Madeleine; Krallinger, Martin; Mah, Nancy; Névéol, Aurélie; Neves, Mariana L.; Soares, Felipe; Siu, Amy; Verspoor, Karin; et al. (2019)

BSC Participation in the WMT Translation of Biomedical Abstracts. - Soares, Felipe; Krallinger, Martin (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. (CEUR-WS.org, 2019)

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

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

Finding Mentions of Abbreviations and Their Definitions in Spanish Clinical Cases: The BARR2 Shared Task Evaluation Results. - Intxaurrondo, Ander; Marimon, Montserrat; Gonzalez-Agirre, Aitor; López-Martín, Jose Antonio; Rodriguez, Heidy; Santamaría, Jesus; Villegas, Marta; Krallinger, Martin (2018)

LimTox: a web tool for applied text mining of adverse event and toxicity associations of compounds, drugs and genes. - Cañada, Andrés; Capella-Gutiérrez, Salvador; Rabal, Obdulia; Oyarzabal, Julen; Valencia, Alfonso; Krallinger, Martin (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. - Villegas, Marta; Peña, Santiago de la; Intxaurrondo, Ander; Santamaría, Jesus; Krallinger, Martin (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. - Intxaurrondo, Ander; Pérez-Pérez, Martín; Rodríguez, Gael Pérez; López-Martín, Jose Antonio; Santamaría, Jesus; Peña, Santiago de la; Villegas, Marta; Akhondi, Saber Ahmad; Valencia, Alfonso; Lourenço, Anália; Krallinger, Martin (2017)

CNIO at BARR IberEval 2017: Exploring Three Biomedical Abbreviation Identifiers for Spanish Biomedical Publications. - Intxaurrondo, Ander; Krallinger, Martin (2017)

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

Annotation Process, Guidelines and Text Corpus of Small Non-Coding RNA Molecules: the MiNCor for MicroRNA Annotations. - Sammartino, Jose Camilla; Krallinger, Martin; Valencia, Alfonso (2016)

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

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

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

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

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

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

Machine Reading of Biomedical Texts about Alzheimer's Disease. - Morante, Roser; Krallinger, Martin; Valencia, Alfonso; Daelemans, Walter (2013)

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

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

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

Machine Reading of Biomedical Texts about Alzheimer's Disease. - Morante, Roser; Krallinger, Martin; Valencia, Alfonso; Daelemans, Walter (2012)

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

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

BioCreative III interactive task: an overview. - Arighi, Cecilia N.; Roberts, Phoebe M.; Agarwal, Shashank; Bhattacharya, Sanmitra; Cesareni, Gianni; Chatr-aryamontri, Andrew; Clematide, Simon; Gaudet, Pascale; Giglio, Michelle G.; Harrow, Ian; Huala, Eva; Krallinger, Martin; 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. - Krallinger, Martin; Tendulkar, Ashish V.; Leitner, Florian; Chatr-aryamontri, Andrew; Valencia, Alfonso (BMC Bioinform., 2010)

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

Importance of negations and experimental qualifiers in biomedical literature. - Krallinger, Martin (2010)

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

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

Refactoring Corpora. - Johnson, Helen L.; Baumgartner, William A., Jr.; Krallinger, Martin; Cohen, K. Bretonnel; Hunter, Lawrence (2006)

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

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

Applications of Text Mining in Molecular Biology, from Name Recognition to Protein Interaction Maps. - Krallinger, Martin; Valencia, Alfonso (2005)

Assessing the Correlation between Contextual Patterns and Biological Entity Tagging. - Krallinger, Martin; Padron, Maria; Blaschke, Christian; Valencia, Alfonso (2004)