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Metabolome

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Untargeted metabolomic profiling in children identifies novel pathways in asthma and atopy.

The Journal of allergy and clinical immunology
BACKGROUND: Asthma and other atopic disorders can present with varying clinical phenotypes marked by differential metabolomic manifestations and enriched biological pathways.

Plant and microbial sciences as key drivers in the development of metabolomics research.

Proceedings of the National Academy of Sciences of the United States of America
This year marks the 25th anniversary of the coinage of the term metabolome [S. G. Oliver ., , 373-378 (1998)]. As the field rapidly advances, it is important to take stock of the progress which has been made to best inform the disciplines future. Wh...

Accurate prediction of isothermal gas chromatographic Kováts retention indices.

Journal of chromatography. A
We describe a freely available web server called Retention Index Predictor (RIpred) (https://ripred.ca) that rapidly and accurately predicts Gas Chromatographic Kováts Retention Indices (RI) using SMILES strings as chemical structure input. RIpred pe...

An integrated deep learning framework for the interpretation of untargeted metabolomics data.

Briefings in bioinformatics
Untargeted metabolomics is gaining widespread applications. The key aspects of the data analysis include modeling complex activities of the metabolic network, selecting metabolites associated with clinical outcome and finding critical metabolic pathw...

Circular-SWAT for deep learning based diagnostic classification of Alzheimer's disease: application to metabolome data.

EBioMedicine
BACKGROUND: Deep learning has shown potential in various scientific domains but faces challenges when applied to complex, high-dimensional multi-omics data. Alzheimer's Disease (AD) is a neurodegenerative disorder that lacks targeted therapeutic opti...

Application of metabolomics in diagnostics and differentiation of meningitis: A narrative review with a critical approach to the literature.

Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie
Due to its high mortality rate associated with various life-threatening sequelae, meningitis poses a vital problem in contemporary medicine. Numerous algorithms, many of which were derived with the aid of artificial intelligence, were brought up in a...

Machine learning approach reveals microbiome, metabolome, and lipidome profiles in type 1 diabetes.

Journal of advanced research
INTRODUCTION: Type 1 diabetes (T1D) is a complex disorder influenced by genetic and environmental factors. The gut microbiome, the serum metabolome, and the serum lipidome have been identified as key environmental factors contributing to the pathophy...

DeepOmicsAE: Representing Signaling Modules in Alzheimer's Disease with Deep Learning Analysis of Proteomics, Metabolomics, and Clinical Data.

Journal of visualized experiments : JoVE
Large omics datasets are becoming increasingly available for research into human health. This paper presents DeepOmicsAE, a workflow optimized for the analysis of multi-omics datasets, including proteomics, metabolomics, and clinical data. This workf...

Multi-omics analysis identifies potential microbial and metabolite diagnostic biomarkers of bacterial vaginosis.

Journal of the European Academy of Dermatology and Venereology : JEADV
BACKGROUND: Bacterial vaginosis (BV) is a common clinical manifestation of a perturbed vaginal ecology associated with adverse sexual and reproductive health outcomes if left untreated. The existing diagnostic modalities are either cumbersome or requ...

MACC: a visual interactive knowledgebase of metabolite-associated cell communications.

Nucleic acids research
Metabolite-associated cell communications play critical roles in maintaining the normal biological function of human through coordinating cells, organs and physiological systems. Though substantial information of MACCs has been continuously reported,...