Andre Lamurias

Publication Activity (10 Years)

Years Active: 2014-2023
Publications (10 Years): 30

Top Topics

Temporal Expressions

Question Answering

Named Entity Recognition

Chemical Reaction

Top Venues

J. Cheminformatics

CLEF (Working Notes)

Publications

Muhammad Asif, Hugo F. M. C. Martiniano, Andre Lamurias, Samina Kausar, Francisco M. Couto
DGH-GO: dissecting the genetic heterogeneity of complex diseases using gene ontology. BMC Bioinform. 24 (1) (2023)
Andre Lamurias, Alessandro Tibo, Katja Hose, Mads Albertsen, Thomas Dyhre Nielsen
Metagenomic Binning using Connectivity-constrained Variational Autoencoders. ICML (2023)
Zekeriya Anil Guven, Andre Lamurias
Multilingual bi-encoder models for biomedical entity linking. Expert Syst. J. Knowl. Eng. 40 (9) (2023)
Oliver S. Bak, Marcus D. Jensen, Frederik M. Trudslev, Andreas Windfeld, Andre Lamurias
BinChill: A Metagenomic Binning Ensemble Method. IEEE Access 11 (2023)
Andre Lamurias, Alessandro Tibo, Katja Hose, Mads Albertsen, Thomas Dyhre Nielsen
Graph Neural Networks for Microbial Genome Recovery. CoRR (2022)
Andre Lamurias, Mantas Sereika, Mads Albertsen, Katja Hose, Thomas Dyhre Nielsen
Metagenomic binning with assembly graph embeddings. Bioinform. 38 (19) (2022)
Rúben Cardoso, Afonso Mendes, Andre Lamurias
Priberam Labs at the NTCIR-15 SHINRA2020-ML: Classification Task. CoRR (2021)
Andre Lamurias, Sofia Jesus, Vanessa Neveu, Reza M. Salek, Francisco M. Couto
Information Retrieval Using Machine Learning for Biomarker Curation in the Exposome-Explorer. Frontiers Res. Metrics Anal. 6 (2021)
Andre Lamurias, Diana Sousa, Francisco M. Couto
Generating Biomedical Question Answering Corpora From Q&A Forums. IEEE Access 8 (2020)
Jiayuan He, Dat Quoc Nguyen, Saber A. Akhondi, Christian Druckenbrodt, Camilo Thorne, Ralph Hoessel, Zubair Afzal, Zenan Zhai, Biaoyan Fang, Hiyori Yoshikawa, Ameer Albahem, Jingqi Wang, Yuankai Ren, Zhi Zhang, Yaoyun Zhang, Mai Hoang Dao, Pedro Ruas, Andre Lamurias, Francisco M. Couto, Jenny Copara, Nona Naderi, Julien Knafou, Patrick Ruch, Douglas Teodoro, Daniel M. Lowe, John Mayfield, Abdullatif Köksal, Hilal Dönmez, Elif Özkirimli, Arzucan Özgür, Darshini Mahendran, Gabrielle Gurdin, Nastassja Lewinski, Christina Tang, Bridget T. McInnes, C. S. Malarkodi, Pattabhi Rk Rao, Sobha Lalitha Devi, Lawrence Cavedon, Trevor Cohn, Timothy Baldwin, Karin Verspoor
An Extended Overview of the CLEF 2020 ChEMU Lab: Information Extraction of Chemical Reactions from Patents. CLEF (Working Notes) (2020)
Andre Lamurias, Diana Sousa, Francisco M. Couto
Generating Scientific Question Answering Corpora from Q&A forums. CoRR (2020)
Pedro Ruas, Andre Lamurias, Francisco M. Couto
Linking chemical and disease entities to ontologies by integrating PageRank with extracted relations from literature. J. Cheminformatics 12 (1) (2020)
Pedro Ruas, Andre Lamurias, Francisco M. Couto
LasigeBioTM Team at CLEF2020 ChEMU Evaluation Lab: Named Entity Recognition and Event extraction from chemical reactions described in patents using BioBERT NER and RE. CLEF (Working Notes) (2020)
Diana Sousa, Andre Lamurias, Francisco M. Couto
A hybrid approach toward biomedical relation extraction training corpora: combining distant supervision with crowdsourcing. Database J. Biol. Databases Curation 2020 (2020)
Márcia Barros, Andre Lamurias, Diana Sousa, Pedro Ruas, Francisco M. Couto
COVID-19: A Semantic-Based Pipeline for Recommending Biomedical Entities. NLP4COVID@EMNLP (2020)
Diana Sousa, Andre Lamurias, Francisco M. Couto
A Silver Standard Corpus of Human Phenotype-Gene Relations. NAACL-HLT (1) (2019)
Andre Lamurias, Diana Sousa, Luka A. Clarke, Francisco M. Couto
BO-LSTM: classifying relations via long short-term memory networks along biomedical ontologies. BMC Bioinform. 20 (1) (2019)
Diana Sousa, Andre Lamurias, Francisco M. Couto
A Silver Standard Corpus of Human Phenotype-Gene Relations. CoRR (2019)
Diana Sousa, Andre Lamurias, Francisco M. Couto
Using Neural Networks for Relation Extraction from Biomedical Literature. CoRR (2019)
Andre Lamurias, Francisco M. Couto
LasigeBioTM at MEDIQA 2019: Biomedical Question Answering using Bidirectional Transformers and Named Entity Recognition. BioNLP@ACL (2019)
Andre Lamurias, Pedro Ruas, Francisco M. Couto
PPR-SSM: personalized PageRank and semantic similarity measures for entity linking. BMC Bioinform. 20 (1) (2019)
Francisco M. Couto, Andre Lamurias
MER: a shell script and annotation server for minimal named entity recognition and linking. J. Cheminformatics 10 (1) (2018)
Andre Lamurias, Diana Sousa, Sofia Pereira, Luka A. Clarke, Francisco M. Couto
ULISBOA at SemEval-2017 Task 12: Extraction and classification of temporal expressions and events. SemEval@ACL (2017)
Andre Lamurias, Miguel J. Rodrigues, Luka A. Clarke, Francisco M. Couto
Extraction of Regulatory Events using Kernel-based Classifiers and Distant Supervision. BioNLP (Shared Task) (2016)
Miguel J. Rodrigues, Miguel Falé, Andre Lamurias, Francisco M. Couto
WS4A: a Biomedical Question and Answering System based on public Web Services and Ontologies. CoRR (2016)
Márcia Barros, Andre Lamurias, Gonçalo Figueiró, Marta Antunes, Joana Teixeira, Alexandre Pinheiro, Francisco M. Couto
ULISBOA at SemEval-2016 Task 12: Extraction of temporal expressions, clinical events and relations using IBEnt. SemEval@NAACL-HLT (2016)
Andre Lamurias, Luka A. Clarke, Francisco M. Couto
IICE: Web Tool for Automatic Identification of Chemical Entities and Interactions. ECML/PKDD (3) (2015)
Andre Lamurias, João D. Ferreira, Francisco M. Couto
Improving chemical entity recognition through h-index based semantic similarity. J. Cheminformatics 7 (S-1) (2015)
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, Rafal Rak, Torsten Huber, Tim Rocktäschel, Sérgio Matos, David Campos, Buzhou Tang, Hua Xu, Tsendsuren Munkhdalai, Keun Ho Ryu, S. V. Ramanan, P. Senthil Nathan, Slavko Zitnik, Marko Bajec, Lutz Weber, Matthias Irmer, Saber A. Akhondi, Jan A. Kors, Shuo Xu, Xin An, Utpal Kumar Sikdar, Asif Ekbal, Masaharu Yoshioka, Thaer M. Dieb, Miji Choi, Karin Verspoor, Madian Khabsa, C. Lee Giles, Hongfang Liu, Ravikumar Komandur Elayavilli, Andre Lamurias, Francisco M. Couto, Hong-Jie Dai, Richard Tzong-Han Tsai, Caglar Ata, Tolga Can, Anabel Usie, Rui Alves, Isabel Segura-Bedmar, Paloma Martínez, Julen Oyarzabal, Alfonso Valencia
The CHEMDNER corpus of chemicals and drugs and its annotation principles. J. Cheminformatics 7 (S-1) (2015)
Andre Lamurias, Vasco Pedro, Luka A. Clarke, Francisco M. Couto
Annotating biomedical ontology terms in electronic health records using crowd-sourcing. ICBO (2015)
Andre Lamurias, João D. Ferreira, Francisco M. Couto
Identifying interactions between chemical entities in biomedical text. J. Integr. Bioinform. 11 (3) (2014)
Andre Lamurias, João D. Ferreira, Francisco M. Couto
Chemical Named Entity Recognition: Improving Recall Using a Comprehensive List of Lexical Features. PACBB (2014)