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 …

[HTML][HTML] Literature based discovery: models, methods, and trends

S Henry, BT McInnes - Journal of biomedical informatics, 2017 - Elsevier
Objectives This paper provides an introduction and overview of literature based discovery
(LBD) in the biomedical domain. It introduces the reader to modern and historical LBD …

[HTML][HTML] Drug repurposing for COVID-19 via knowledge graph completion

R Zhang, D Hristovski, D Schutte, A Kastrin… - Journal of biomedical …, 2021 - Elsevier
Objective To discover candidate drugs to repurpose for COVID-19 using literature-derived
knowledge and knowledge graph completion methods. Methods We propose a novel …

SemMedDB: a PubMed-scale repository of biomedical semantic predications

H Kilicoglu, D Shin, M Fiszman, G Rosemblat… - …, 2012 - academic.oup.com
Effective access to the vast biomedical knowledge present in the scientific literature is
challenging. Semantic relations are increasingly used in knowledge management …

[HTML][HTML] Broad-coverage biomedical relation extraction with SemRep

H Kilicoglu, G Rosemblat, M Fiszman, D Shin - BMC bioinformatics, 2020 - Springer
Background In the era of information overload, natural language processing (NLP)
techniques are increasingly needed to support advanced biomedical information …

[HTML][HTML] Building disease-specific drug-protein connectivity maps from molecular interaction networks and PubMed abstracts

J Li, X Zhu, JY Chen - PLoS computational biology, 2009 - journals.plos.org
The recently proposed concept of molecular connectivity maps enables researchers to
integrate experimental measurements of genes, proteins, metabolites, and drug compounds …

Automated acquisition of disease–drug knowledge from biomedical and clinical documents: an initial study

ES Chen, G Hripcsak, H Xu, M Markatou… - Journal of the …, 2008 - academic.oup.com
Objective: Explore the automated acquisition of knowledge in biomedical and clinical
documents using text mining and statistical techniques to identify disease-drug associations …

Biomedical text mining: a survey of recent progress

MS Simpson, D Demner-Fushman - Mining text data, 2012 - Springer
The biomedical community makes extensive use of text mining technology. In the past
several years, enormous progress has been made in developing tools and methods, and the …

[HTML][HTML] A survey on literature based discovery approaches in biomedical domain

V Gopalakrishnan, K Jha, W Jin, A Zhang - Journal of biomedical …, 2019 - Elsevier
Abstract Literature Based Discovery (LBD) refers to the problem of inferring new and
interesting knowledge by logically connecting independent fragments of information units …

[HTML][HTML] SemaTyP: a knowledge graph based literature mining method for drug discovery

S Sang, Z Yang, L Wang, X Liu, H Lin, J Wang - BMC bioinformatics, 2018 - Springer
Background Drug discovery is the process through which potential new medicines are
identified. High-throughput screening and computer-aided drug discovery/design are the …