AIMC Topic: Metabolic Networks and Pathways

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Using Machine Learning to Identify Metabolomic Signatures of Pediatric Chronic Kidney Disease Etiology.

Journal of the American Society of Nephrology : JASN
BACKGROUND: Untargeted plasma metabolomic profiling combined with machine learning (ML) may lead to discovery of metabolic profiles that inform our understanding of pediatric CKD causes. We sought to identify metabolomic signatures in pediatric CKD b...

Precise Prediction of Promoter Strength Based on a De Novo Synthetic Promoter Library Coupled with Machine Learning.

ACS synthetic biology
Promoters are one of the most critical regulatory elements controlling metabolic pathways. However, the fast and accurate prediction of promoter strength remains challenging, leading to time- and labor-consuming promoter construction and characteriza...

Genetic dissection of complex traits using hierarchical biological knowledge.

PLoS computational biology
Despite the growing constellation of genetic loci linked to common traits, these loci have yet to account for most heritable variation, and most act through poorly understood mechanisms. Recent machine learning (ML) systems have used hierarchical bio...

Polycystic ovary syndrome: clinical and laboratory variables related to new phenotypes using machine-learning models.

Journal of endocrinological investigation
PURPOSE: Polycystic Ovary Syndrome (PCOS) is the most frequent endocrinopathy in women of reproductive age. Machine learning (ML) is the area of artificial intelligence with a focus on predictive computing algorithms. We aimed to define the most rele...

Delivery mode and perinatal antibiotics influence the predicted metabolic pathways of the gut microbiome.

Scientific reports
Delivery mode and perinatal antibiotics influence gut microbiome composition in children. Most microbiome studies have used the sequencing of the bacterial 16S marker gene but have not reported the metabolic function of the gut microbiome, which may ...

Applications of artificial intelligence to enzyme and pathway design for metabolic engineering.

Current opinion in biotechnology
Metabolic engineering for developing industrial strains capable of overproducing bioproducts requires good understanding of cellular metabolism, including metabolic reactions and enzymes. However, metabolic pathways and enzymes involved are still unk...

Ensemble learning application to discover new trypanothione synthetase inhibitors.

Molecular diversity
Trypanosomatid-caused diseases are among the neglected infectious diseases with the highest disease burden, affecting about 27 million people worldwide and, in particular, socio-economically vulnerable populations. Trypanothione synthetase (TryS) is ...

SCOUR: a stepwise machine learning framework for predicting metabolite-dependent regulatory interactions.

BMC bioinformatics
BACKGROUND: The topology of metabolic networks is both well-studied and remarkably well-conserved across many species. The regulation of these networks, however, is much more poorly characterized, though it is known to be divergent across organisms-t...

Integration of machine learning and genome-scale metabolic modeling identifies multi-omics biomarkers for radiation resistance.

Nature communications
Resistance to ionizing radiation, a first-line therapy for many cancers, is a major clinical challenge. Personalized prediction of tumor radiosensitivity is not currently implemented clinically due to insufficient accuracy of existing machine learnin...