Chih Hsuan Wei

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Zhiyong LuSenior Investigator, NLM; Adjunct Professor of CS, UIUCVerified email at nih.gov
Robert LeamanStaff Scientist, NCBI/NLM/NIHVerified email at nih.gov
Hung-Yu KaoNational Tsing Hua UniversityVerified email at cs.nthu.edu.tw
Po-Ting LaiNational Center for Biotechnology Information (NCBI)Verified email at ncbi.nlm.nih.gov
Ling LuoAssociate Professor, School of Computer Science and Technology, Dalian University of TechnologyVerified email at dlut.edu.cn
Qingyu ChenBiomedical Informatics & Data Science, Yale University; NCBI-NLM, National Institutes of HealthVerified email at yale.edu
Yifan PengAssociate Professor at Weill Cornell MedicineVerified email at med.cornell.edu
Carolyn MattinglyProfessor, Biological Sciences, North Carolina State UniversityVerified email at ncsu.edu
Sun KimAmazon Alexa AI; National Center for Biotechnology Information (NCBI)Verified email at amazon.com
Rezarta IslamajNational Library of Medicine, National Institutes ofVerified email at nih.gov
Kyubum LeeAmgenVerified email at amgen.com
Cecilia ArighiUniversity of DelawareVerified email at udel.edu
Ritu KhareIQVIA Data Science and Advanced AnalyticsVerified email at iqvia.com
Yi-Yu HsuSchool of Computing, National Cheng Kung UniversityVerified email at gs.ncku.edu.tw
Eva HualaPhoenix BioinformaticsVerified email at phoenixbioinformatics.org
Sampo PyysaloUniversity of TurkuVerified email at utu.fi
Filip GinterUniversity of TurkuVerified email at utu.fi
Yves Van de PeerProfessor in Bioinformatics and Genome Biology, Ghent University, BelgiumVerified email at psb.ugent.be
Sophia AnaniadouProfessor, Computer Science, Manchester University, National Centre for Text MiningVerified email at manchester.ac.uk
Jari BjörnePost-doctoral researcher, University of Turku, FinlandVerified email at utu.fi

Chih Hsuan Wei

Staff Scientist, NCBI (National Center for Biotechnology Information) / NLM / NIH

Verified email at ncbi.nlm.nih.gov

Natural language processing Machine learning Deep learning BioNLP


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BioCreative V CDR task corpus: a resource for chemical disease relation extraction J Li, Y Sun, RJ Johnson, D Sciaky, CH Wei, R Leaman, AP Davis, ... Database 2016, 2016	965	2016
PubTator: a web-based text mining tool for assisting biocuration CH Wei, HY Kao, Z Lu Nucleic acids research 41 (W1), W518-W522, 2013	639	2013
Assessing the state of the art in biomedical relation extraction: overview of the BioCreative V chemical-disease relation (CDR) task CH Wei, Y Peng, R Leaman, AP Davis, CJ Mattingly, J Li, TC Wiegers, ... Database 2016, baw032, 2016	443	2016
PubTator Central: Automated Concept Annotation for Biomedical Full Text Articles CH Wei, A Allot, R Leaman, Z Lu Nucleic Acids Research 47 (W1), W587–W593, 2019	408	2019
tmChem: a high performance approach for chemical named entity recognition and normalization R Leaman, CH Wei, Z Lu Journal of cheminformatics 7 (1), S3, 2015	320	2015
GNormPlus: An Integrative Approach for Tagging Genes, Gene Families, and Protein Domains CH Wei, HY Kao, Z Lu BioMed Research International 2015, 918710, 2015	251	2015
tmVar: a text mining approach for extracting sequence variants in biomedical literature CH Wei, BR Harris, HY Kao, Z Lu Bioinformatics 29 (11), 1433-1439, 2013	198	2013
The gene normalization task in BioCreative III Z Lu, HY Kao, CH Wei, M Huang, J Liu, CJ Kuo, CN Hsu, RTH Tsai, ... BMC bioinformatics 12 (8), S2, 2011	174	2011
LitVar: a semantic search engine for linking genomic variant data in PubMed and PMC A Allot, Y Peng, CH Wei, K Lee, L Phan, Z Lu Nucleic acids research 46 (W1), W530-W536, 2018	141	2018
BioRED: a rich biomedical relation extraction dataset L Luo, PT Lai, CH Wei, CN Arighi, Z Lu Briefings in Bioinformatics, bbac282, 2022	134	2022
Large-scale event extraction from literature with multi-level gene normalization S Van Landeghem, J Björne, CH Wei, K Hakala, S Pyysalo, S Ananiadou, ... PloS one 8 (4), e55814, 2013	133	2013
On expert curation and scalability: UniProtKB/Swiss-Prot as a case study S Poux, CN Arighi, M Magrane, A Bateman, CH Wei, Z Lu, E Boutet, ... Bioinformatics 33 (21), 3454-3460, 2017	127	2017
SR4GN: a species recognition software tool for gene normalization CH Wei, HY Kao, Z Lu PloS one 7 (6), e38460, 2012	116	2012
Cross-species gene normalization by species inference CH Wei, HY Kao BMC bioinformatics 12 (8), S5, 2011	110	2011
tmVar 2.0: Integrating genomic variant information from literature with dbSNP and ClinVar for precision medicine CH Wei, L Phan, J Feltz, R Maiti, T Hefferon, Z Lu Bioinformatics, btx541, 2017	106	2017
Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts CH Wei, BR Harris, D Li, TZ Berardini, E Huala, HY Kao, Z Lu Database 2012, bas041, 2012	103	2012
Improving chemical disease relation extraction with rich features and weakly labeled data Y Peng, CH Wei, Z Lu Journal of Cheminformatics 8 (1), 53, 2016	92	2016
Annotating chemicals, diseases, and their interactions in biomedical literature J Li, Y Sun, R Johnson, D Sciaky, CH Wei, R Leaman, AP Davis, ... Proceedings of the fifth BioCreative challenge evaluation workshop, 173-182, 2015	92	2015
An overview of the BioCreative 2012 Workshop Track III: interactive text mining task CN Arighi, B Carterette, KB Cohen, M Krallinger, WJ Wilbur, P Fey, ... Database 2013, bas056, 2013	86	2013
Artificial intelligence in action: addressing the COVID-19 pandemic with natural language processing Q Chen, R Leaman, A Allot, L Luo, CH Wei, S Yan, Z Lu Annual review of biomedical data science 4 (1), 313-339, 2021	76	2021

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