Frontiers of biomedical text mining: current progress

P Zweigenbaum, D Demner-Fushman… - Briefings in …, 2007 - academic.oup.com
It is now almost 15 years since the publication of the first paper on text mining in the
genomics domain, and decades since the first paper on text mining in the medical domain …

A survey on annotation tools for the biomedical literature

M Neves, U Leser - Briefings in bioinformatics, 2014 - academic.oup.com
New approaches to biomedical text mining crucially depend on the existence of
comprehensive annotated corpora. Such corpora, commonly called gold standards, are …

[PDF][PDF] Modeling biological processes for reading comprehension

J Berant, V Srikumar, PC Chen… - Proceedings of the …, 2014 - aclanthology.org
Abstract Machine reading calls for programs that read and understand text, but most current
work only attempts to extract facts from redundant web-scale corpora. In this paper, we focus …

Construction of an annotated corpus to support biomedical information extraction

P Thompson, SA Iqbal, J McNaught, S Ananiadou - BMC bioinformatics, 2009 - Springer
Abstract Background Information Extraction (IE) is a component of text mining that facilitates
knowledge discovery by automatically locating instances of interesting biomedical events …

Discovering temporal communities from social network documents

D Zhou, I Councill, H Zha… - Seventh IEEE International …, 2007 - ieeexplore.ieee.org
This paper studies the discovery of communities from social network documents produced
over time, addressing the discovery of temporal trends in community memberships. We first …

Extracting a knowledge base of mechanisms from COVID-19 papers

T Hope, A Amini, D Wadden, M van Zuylen… - arxiv preprint arxiv …, 2020 - arxiv.org
The COVID-19 pandemic has spawned a diverse body of scientific literature that is
challenging to navigate, stimulating interest in automated tools to help find useful …

PQSCT: Pseudo-siamese BERT for concept tagging with both questions and solutions

T Huang, S Hu, H Yang, J Geng, S Liu… - IEEE Transactions …, 2023 - ieeexplore.ieee.org
The global outbreak of the new coronavirus epidemic has promoted the development of
intelligent education and the utilization of online learning systems. In order to provide …

New challenges for biological text-mining in the next decade

HJ Dai, YC Chang, R Tzong-Han Tsai… - Journal of computer …, 2010 - Springer
The massive flow of scholarly publications from traditional paper journals to online outlets
has benefited biologists because of its ease to access. However, due to the sheer volume of …

Quality and efficiency of manual annotation: Pre-annotation bias

M Mikulová, M Straka, J Štěpánek… - arxiv preprint arxiv …, 2023 - arxiv.org
This paper presents an analysis of annotation using an automatic pre-annotation for a mid-
level annotation complexity task--dependency syntax annotation. It compares the annotation …

The robotic-surgery propositional bank

M Bombieri, M Rospocher, SP Ponzetto… - Language Resources and …, 2024 - Springer
Robot-assisted minimally invasive surgery is the gold standard for the surgical treatment of
many pathological conditions since it guarantees to the patient shorter hospital stay and …