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Authors: Zhiyong Lu
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Journal Article
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Advancing entity recognition in biomedicine via instruction tuning of large language models
Vipina K Keloth and others
Bioinformatics, btae163, https://doi.org/10.1093/bioinformatics/btae163
Published: 21 March 2024
Journal Article
GeneGPT: augmenting large language models with domain tools for improved access to biomedical information
Qiao Jin and others
Bioinformatics, Volume 40, Issue 2, February 2024, btae075, https://doi.org/10.1093/bioinformatics/btae075
Published: 10 February 2024
Journal Article
Term-BLAST-like alignment tool for concept recognition in noisy clinical texts
Tudor Groza and others
Bioinformatics, Volume 39, Issue 12, December 2023, btad716, https://doi.org/10.1093/bioinformatics/btad716
Published: 24 November 2023
Journal Article
MedCPT: Contrastive Pre-trained Transformers with large-scale PubMed search logs for zero-shot biomedical information retrieval
Qiao Jin and others
Bioinformatics, Volume 39, Issue 11, November 2023, btad651, https://doi.org/10.1093/bioinformatics/btad651
Published: 01 November 2023
Journal Article
GNorm2: an improved gene name recognition and normalization system
Chih-Hsuan Wei and others
Bioinformatics, Volume 39, Issue 10, October 2023, btad599, https://doi.org/10.1093/bioinformatics/btad599
Published: 25 October 2023
Journal Article
AIONER: all-in-one scheme-based biomedical named entity recognition using deep learning
Ling Luo and others
Bioinformatics, Volume 39, Issue 5, May 2023, btad310, https://doi.org/10.1093/bioinformatics/btad310
Published: 12 May 2023
Journal Article
tmVar 3.0: an improved variant concept recognition and normalization tool
Chih-Hsuan Wei and others
Bioinformatics, Volume 38, Issue 18, September 2022, Pages 4449–4451, https://doi.org/10.1093/bioinformatics/btac537
Published: 29 July 2022
Journal Article
PhenoTagger: a hybrid method for phenotype concept recognition using human phenotype ontology
Ling Luo and others
Bioinformatics, Volume 37, Issue 13, July 2021, Pages 1884–1890, https://doi.org/10.1093/bioinformatics/btab019
Published: 20 January 2021
Journal Article
BERT-GT: cross-sentence n-ary relation extraction with BERT and Graph Transformer
Po-Ting Lai and Zhiyong Lu
Bioinformatics, Volume 36, Issue 24, December 2020, Pages 5678–5685, https://doi.org/10.1093/bioinformatics/btaa1087
Published: 08 January 2021
Journal Article
FullMeSH: improving large-scale MeSH indexing with full text
Suyang Dai and others
Bioinformatics, Volume 36, Issue 5, March 2020, Pages 1533–1541, https://doi.org/10.1093/bioinformatics/btz756
Published: 09 October 2019
Journal Article
PMC text mining subset in BioC: about three million full-text articles and growing
Donald C Comeau and others
Bioinformatics, Volume 35, Issue 18, September 2019, Pages 3533–3535, https://doi.org/10.1093/bioinformatics/btz070
Published: 31 January 2019
Journal Article
Generalizing biomedical relation classification with neural adversarial domain adaptation
Anthony Rios and others
Bioinformatics, Volume 34, Issue 17, September 2018, Pages 2973–2981, https://doi.org/10.1093/bioinformatics/bty190
Published: 26 March 2018
Journal Article
tmVar 2.0: integrating genomic variant information from literature with dbSNP and ClinVar for precision medicine
Chih-Hsuan Wei and others
Bioinformatics, Volume 34, Issue 1, January 2018, Pages 80–87, https://doi.org/10.1093/bioinformatics/btx541
Published: 01 September 2017
Journal Article
On expert curation and scalability: UniProtKB/Swiss-Prot as a case study
Sylvain Poux and others
Bioinformatics, Volume 33, Issue 21, November 012017, Pages 3454–3460, https://doi.org/10.1093/bioinformatics/btx439
Published: 13 July 2017
Journal Article
TaggerOne: joint named entity recognition and normalization with semi-Markov Models
Robert Leaman and Zhiyong Lu
Bioinformatics, Volume 32, Issue 18, September 2016, Pages 2839–2846, https://doi.org/10.1093/bioinformatics/btw343
Published: 09 June 2016
Journal Article
Beyond accuracy: creating interoperable and scalable text-mining web services
Chih-Hsuan Wei and others
Bioinformatics, Volume 32, Issue 12, June 2016, Pages 1907–1910, https://doi.org/10.1093/bioinformatics/btv760
Published: 16 February 2016
Journal Article
DNorm: disease name normalization with pairwise learning to rank
Robert Leaman and others
Bioinformatics, Volume 29, Issue 22, November 2013, Pages 2909–2917, https://doi.org/10.1093/bioinformatics/btt474
Published: 21 August 2013
Journal Article
tmVar: a text mining approach for extracting sequence variants in biomedical literature
Chih-Hsuan Wei and others
Bioinformatics, Volume 29, Issue 11, June 2013, Pages 1433–1439, https://doi.org/10.1093/bioinformatics/btt156
Published: 05 April 2013
Journal Article
Extraction of data deposition statements from the literature: a method for automatically tracking research results
Aurélie Névéol and others
Bioinformatics, Volume 27, Issue 23, December 2011, Pages 3306–3312, https://doi.org/10.1093/bioinformatics/btr573
Published: 13 October 2011
Journal Article
Click-words: learning to predict document keywords from a user perspective
Rezarta Islamaj Doğan and Zhiyong Lu
Bioinformatics, Volume 26, Issue 21, November 2010, Pages 2767–2775, https://doi.org/10.1093/bioinformatics/btq459
Published: 01 September 2010
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