A review of biomedical datasets relating to drug discovery: a knowledge graph perspective

S Bonner, IP Barrett, C Ye, R Swiers… - Briefings in …, 2022 - academic.oup.com
Drug discovery and development is a complex and costly process. Machine learning
approaches are being investigated to help improve the effectiveness and speed of multiple …

Application of deep learning on single-cell RNA sequencing data analysis: a review

M Brendel, C Su, Z Bai, H Zhang… - Genomics …, 2022 - academic.oup.com
Single-cell RNA sequencing (scRNA-seq) has become a routinely used technique to
quantify the gene expression profile of thousands of single cells simultaneously. Analysis of …

[HTML][HTML] Metabolomic machine learning predictor for diagnosis and prognosis of gastric cancer

Y Chen, B Wang, Y Zhao, X Shao, M Wang… - Nature …, 2024 - nature.com
Gastric cancer (GC) represents a significant burden of cancer-related mortality worldwide,
underscoring an urgent need for the development of early detection strategies and precise …

[HTML][HTML] Interpreting biologically informed neural networks for enhanced proteomic biomarker discovery and pathway analysis

E Hartman, AM Scott, C Karlsson, T Mohanty… - Nature …, 2023 - nature.com
The incorporation of machine learning methods into proteomics workflows improves the
identification of disease-relevant biomarkers and biological pathways. However, machine …

Democratizing knowledge representation with BioCypher

S Lobentanzer, P Aloy, J Baumbach, B Bohar… - Nature …, 2023 - nature.com
Biomedical data are amassed at an ever-increasing rate, and machine learning tools that
use prior knowledge in combination with biomedical big data are gaining much traction 1, 2 …

The scalable precision medicine open knowledge engine (SPOKE): a massive knowledge graph of biomedical information

JH Morris, K Soman, RE Akbas, X Zhou, B Smith… - …, 2023 - academic.oup.com
Abstract Motivation Knowledge graphs (KGs) are being adopted in industry, commerce and
academia. Biomedical KG presents a challenge due to the complexity, size and …

[HTML][HTML] Healthcare knowledge graph construction: A systematic review of the state-of-the-art, open issues, and opportunities

B Abu-Salih, M Al-Qurishi, M Alweshah, M Al-Smadi… - Journal of Big Data, 2023 - Springer
The incorporation of data analytics in the healthcare industry has made significant progress,
driven by the demand for efficient and effective big data analytics solutions. Knowledge …

[HTML][HTML] Integrating and formatting biomedical data as pre-calculated knowledge graph embeddings in the Bioteque

A Fernández-Torras, M Duran-Frigola, M Bertoni… - Nature …, 2022 - nature.com
Biomedical data is accumulating at a fast pace and integrating it into a unified framework is a
major challenge, so that multiple views of a given biological event can be considered …

Deep 3D histology powered by tissue clearing, omics and AI

A Ertürk - Nature Methods, 2024 - nature.com
To comprehensively understand tissue and organism physiology and pathophysiology, it is
essential to create complete three-dimensional (3D) cellular maps. These maps require …

[HTML][HTML] Mining for equitable health: Assessing the impact of missing data in electronic health records

E Getzen, L Ungar, D Mowery, X Jiang… - Journal of biomedical …, 2023 - Elsevier
Electronic health records (EHR) are collected as a routine part of healthcare delivery, and
have great potential to be utilized to improve patient health outcomes. They contain multiple …