Updated review of advances in microRNAs and complex diseases: taxonomy, trends and challenges of computational models

L Huang, L Zhang, X Chen - Briefings in bioinformatics, 2022 - academic.oup.com
Since the problem proposed in late 2000s, microRNA–disease association (MDA)
predictions have been implemented based on the data fusion paradigm. Integrating diverse …

Natural language processing systems for capturing and standardizing unstructured clinical information: a systematic review

K Kreimeyer, M Foster, A Pandey, N Arya… - Journal of biomedical …, 2017 - Elsevier
We followed a systematic approach based on the Preferred Reporting Items for Systematic
Reviews and Meta-Analyses to identify existing clinical natural language processing (NLP) …

Neuro-symbolic representation learning on biological knowledge graphs

M Alshahrani, MA Khan, O Maddouri, AR Kinjo… - …, 2017 - academic.oup.com
Motivation Biological data and knowledge bases increasingly rely on Semantic Web
technologies and the use of knowledge graphs for data integration, retrieval and federated …

Computational methods for identifying similar diseases

L Cheng, H Zhao, P Wang, W Zhou, M Luo, T Li… - … Therapy-Nucleic Acids, 2019 - cell.com
Although our knowledge of human diseases has increased dramatically, the molecular
basis, phenotypic traits, and therapeutic targets of most diseases still remain unclear. An …

Artificial intelligence (AI) in rare diseases: is the future brighter?

S Brasil, C Pascoal, R Francisco, V dos Reis Ferreira… - Genes, 2019 - mdpi.com
The amount of data collected and managed in (bio) medicine is ever-increasing. Thus, there
is a need to rapidly and efficiently collect, analyze, and characterize all this information …

The anatomy of phenotype ontologies: principles, properties and applications

GV Gkoutos, PN Schofield… - Briefings in …, 2018 - academic.oup.com
The past decade has seen an explosion in the collection of genotype data in domains as
diverse as medicine, ecology, livestock and plant breeding. Along with this comes the …

Computational drug repositioning for rare diseases in the era of precision medicine

B Delavan, R Roberts, R Huang, W Bao, W Tong… - Drug discovery today, 2018 - Elsevier
Highlights•Next-generation sequencing technology accelerates rare disease research.•
Accumulated genomics information aids orphan drug development.•Novel drug …

[PDF][PDF] Application and evaluation of knowledge graph embeddings in biomedical data

M Alshahrani, MA Thafar, M Essack - PeerJ Computer Science, 2021 - peerj.com
Linked data and bio-ontologies enabling knowledge representation, standardization, and
dissemination are an integral part of developing biological and biomedical databases. That …

A framework for evaluating the technical performance of multiparameter quantitative imaging biomarkers (mp-QIBs)

NA Obuchowski, E Huang, MS Nandita, D Raunig… - Academic radiology, 2023 - Elsevier
Multiparameter quantitative imaging incorporates anatomical, functional, and/or behavioral
biomarkers to characterize tissue, detect disease, identify phenotypes, define longitudinal …

Extracting medical entities from social media

S Scepanovic, E Martin-Lopez, D Quercia… - Proceedings of the …, 2020 - dl.acm.org
Accurately extracting medical entities from social media is challenging because people use
informal language with different expressions for the same concept, and they also make …