A review of multi-omics data integration through deep learning approaches for disease diagnosis, prognosis, and treatment

JS Wekesa, M Kimwele - Frontiers in Genetics, 2023 - frontiersin.org
Accurate diagnosis is the key to providing prompt and explicit treatment and disease
management. The recognized biological method for the molecular diagnosis of infectious …

Integrative multi-omics approaches to explore immune cell functions: Challenges and opportunities

X Wang, D Fan, Y Yang, RC Gimple, S Zhou - IScience, 2023 - cell.com
As modern biological sciences evolve from investigation of individual molecules and
pathways to growing emphasis on global and systems-based processes, increasing efforts …

CCPA: cloud-based, self-learning modules for consensus pathway analysis using GO, KEGG and Reactome

H Nguyen, VD Pham, H Nguyen, B Tran… - Briefings in …, 2024 - academic.oup.com
This manuscript describes the development of a resource module that is part of a learning
platform named 'NIGMS Sandbox for Cloud-based Learning'(https://github …

Directional integration and pathway enrichment analysis for multi-omics data

M Slobodyanyuk, AT Bahcheli, ZP Klein… - Nature …, 2024 - nature.com
Omics techniques generate comprehensive profiles of biomolecules in cells and tissues.
However, a holistic understanding of underlying systems requires joint analyses of multiple …

[HTML][HTML] A guide to multi-omics data collection and integration for translational medicine

E Athieniti, GM Spyrou - Computational and Structural Biotechnology …, 2023 - Elsevier
The emerging high-throughput technologies have led to the shift in the design of
translational medicine projects towards collecting multi-omics patient samples and …

Current approaches and outstanding challenges of functional annotation of metabolites: a comprehensive review

QH Nguyen, H Nguyen, EC Oh… - Briefings in …, 2024 - academic.oup.com
Metabolite profiling is a powerful approach for the clinical diagnosis of complex diseases,
ranging from cardiometabolic diseases, cancer, and cognitive disorders to respiratory …

Prediction of Feed Efficiency and Performance-Based Traits in Fish via Integration of Multiple Omics and Clinical Covariates

T Young, O Laroche, SP Walker, MR Miller… - Biology, 2023 - mdpi.com
Simple Summary Aquaculture plays a key role in many emerging economies. Sources of fish
for human consumption now exceed those from capture fisheries. However, the high cost of …

Integrated-omics analysis with explainable deep networks on pathobiology of infant bronchiolitis

T Ooka, N Usuyama, R Shibata, M Kyo… - NPJ Systems Biology …, 2024 - nature.com
Bronchiolitis is the leading cause of infant hospitalization. However, the molecular networks
driving bronchiolitis pathobiology remain unknown. Integrative molecular networks …

Hearing loss and its association with the proteome of perilymph, cerebrospinal fluid, and tumor tissue in patients with vestibular schwannoma

J Edvardsson Rasmussen, P Li, G Laurell… - Scientific Reports, 2024 - nature.com
This study examined the association between hearing loss in sporadic vestibular
schwannoma patients and the proteome of perilymph (PL), cerebrospinal fluid (CSF), and …

PathIntegrate: Multivariate modelling approaches for pathway-based multi-omics data integration

C Wieder, J Cooke, C Frainay, N Poupin… - PLOS Computational …, 2024 - journals.plos.org
As terabytes of multi-omics data are being generated, there is an ever-increasing need for
methods facilitating the integration and interpretation of such data. Current multi-omics …