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An API for dynamic estimation of reference intervals for functional abundances of gut microbiota

ABSTRACT: An API for dynamic estimation of reference intervals for functional abundances of gut microbiota

PROVIDER: PRJNA950343 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24015818_1.fastq.gz	Fastqsanger.gz
	SRR24015818_2.fastq.gz	Fastqsanger.gz
	SRR24015819_1.fastq.gz	Fastqsanger.gz
	SRR24015819_2.fastq.gz	Fastqsanger.gz
	SRR24015820_1.fastq.gz	Fastqsanger.gz

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Project description:BackgroundReference intervals represent the expected range of physiological test results in a healthy population and are essential to support medical decision making. Particularly in the context of pediatric reference intervals, where recruitment regulations make prospective studies challenging to conduct, indirect estimation strategies are becoming increasingly important. Established indirect methods enable robust identification of the distribution of "healthy" samples from laboratory databases, which include unlabeled pathologic cases, but are currently severely limited when adjusting for essential patient characteristics such as age. Here, we propose the use of mixture density networks (MDN) to overcome this problem and model all parameters of the mixture distribution in a single step.ResultsEstimated reference intervals from varying settings with simulated data demonstrate the ability to accurately estimate latent distributions from unlabeled data using different implementations of MDNs. Comparing the performance with alternative estimation approaches further highlights the importance of modeling the mixture component weights as a function of the input in order to avoid biased estimates for all other parameters and the resulting reference intervals. We also provide a strategy to generate partially customized starting weights to improve proper identification of the latent components. Finally, the application on real-world hemoglobin samples provides results in line with current gold standard approaches, but also suggests further investigations with respect to adequate regularization strategies in order to prevent overfitting the data.ConclusionsMixture density networks provide a promising approach capable of extracting the distribution of healthy samples from unlabeled laboratory databases while simultaneously and explicitly estimating all parameters and component weights as non-linear functions of the covariate(s), thereby allowing the estimation of age-dependent reference intervals in a single step. Further studies on model regularization and asymmetric component distributions are warranted to consolidate our findings and expand the scope of applications.

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An API for dynamic estimation of reference intervals for functional abundances of gut microbiota

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