Deep learning methods for biomedical named entity recognition: a survey and qualitative comparison

B Song, F Li, Y Liu, X Zeng - Briefings in Bioinformatics, 2021 - academic.oup.com
The biomedical literature is growing rapidly, and the extraction of meaningful information
from the large amount of literature is increasingly important. Biomedical named entity …

Community challenges in biomedical text mining over 10 years: success, failure and the future

CC Huang, Z Lu - Briefings in bioinformatics, 2016 - academic.oup.com
One effective way to improve the state of the art is through competitions. Following the
success of the Critical Assessment of protein Structure Prediction (CASP) in bioinformatics …

HunFlair: an easy-to-use tool for state-of-the-art biomedical named entity recognition

L Weber, M Sänger, J Münchmeyer, M Habibi… - …, 2021 - academic.oup.com
Named entity recognition (NER) is an important step in biomedical information extraction
pipelines. Tools for NER should be easy to use, cover multiple entity types, be highly …

A survey on event extraction for natural language understanding: Riding the biomedical literature wave

G Frisoni, G Moro, A Carbonaro - IEEE Access, 2021 - ieeexplore.ieee.org
Motivation: The scientific literature embeds an enormous amount of relational knowledge,
encompassing interactions between biomedical entities, like proteins, drugs, and symptoms …

[BOK][B] Healthcare data analytics

CK Reddy, CC Aggarwal - 2015 - books.google.com
Supplying a comprehensive overview of healthcare analytics research, Healthcare Data
Analytics provides an understanding of the analytical techniques currently available to solve …

Overview of the cancer genetics and pathway curation tasks of bionlp shared task 2013

S Pyysalo, T Ohta, R Rak, A Rowley, HW Chun… - BMC …, 2015 - Springer
Background Since their introduction in 2009, the BioNLP Shared Task events have been
instrumental in advancing the development of methods and resources for the automatic …

HunFlair2 in a cross-corpus evaluation of biomedical named entity recognition and normalization tools

M Sänger, S Garda, XD Wang, L Weber-Genzel… - …, 2024 - academic.oup.com
Motivation With the exponential growth of the life sciences literature, biomedical text mining
(BTM) has become an essential technology for accelerating the extraction of insights from …

Automatic semantic classification of scientific literature according to the hallmarks of cancer

S Baker, I Silins, Y Guo, I Ali, J Högberg… - …, 2016 - academic.oup.com
Motivation: The hallmarks of cancer have become highly influential in cancer research. They
reduce the complexity of cancer into 10 principles (eg resisting cell death and sustaining …

DocEE: A large-scale and fine-grained benchmark for document-level event extraction

MH Tong, B Xu, S Wang, M Han, Y Cao, J Zhu, S Chen… - 2022 - ink.library.smu.edu.sg
Event extraction aims to identify an event and then extract the arguments participating in the
event. Despite the great success in sentencelevel event extraction, events are more …

[PDF][PDF] TEES 2.1: Automated annotation scheme learning in the BioNLP 2013 Shared Task

J Björne, T Salakoski - Proceedings of the BioNLP shared task …, 2013 - aclanthology.org
We participate in the BioNLP 2013 Shared Task with Turku Event Extraction System (TEES)
version 2.1. TEES is a support vector machine (SVM) based text mining system for the …