Article

Deep in the Bowel: Highly Interpretable Neural Encoder-Decoder Networks Predict Gut Metabolites from Gut Microbiome

2019-06-28

Abstract excerpt

Technological advances in next-generation sequencing (NGS) and chromatographic assays [e.g., liquid chromatography mass spectrometry (LC-MS)] have made it possible to identify thousands of microbe and metabolite species, and to measure their relative abundance. In this paper, we propose a sparse neural encoder-decoder network to predict metabolite abundances from microbe abundances. Using paired data from a cohort...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: f2f584e3-923e-5afa-a0a9-b70282633117
DOI: 10.1101/686394

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Deep in the Bowel: Highly Interpretable Neural Encoder-Decoder Networks Predict Gut Metabolites from Gut MicrobiomeDOI 10.1101/686394Read

MiMeNet: Exploring Microbiome-Metabolome Relationships using Neural NetworksSemantic proximity Read

Learning a deep language model for microbiomes: the power of large scale unlabeled microbiome dataSemantic proximity Read

Incorporating metabolic activity, taxonomy and community structure to improve microbiome-based predictive models for host phenotype prediction.Semantic proximity Read

Deep learning methods in metagenomics: a reviewSemantic proximity Read

Incorporating metabolic activity, taxonomy and community structure to improve microbiome-based predictive models for host phenotype predictionSemantic proximity Read

Decoding the Microbiome-Disease Axis with Interpretable Graph Neural NetworksSemantic proximity Read

Predicting metabolomic profiles from microbial composition through neural ordinary differential equationsSemantic proximity Read

MB-SupCon: Microbiome-based predictive models via Supervised Contrastive LearningSemantic proximity Read

Microbiome-metabolome interactions predict host phenotypeSemantic proximity Read

Deep learning and host variable embedding augment microbiome-based simultaneous detection of multiple diseasesSemantic proximity Read

Phenotype-driven parallel embedding for microbiome multi-omic data integrationSemantic proximity Read

DeepBiome: a phylogenetic tree informed deep neural network for microbiome data analysisSemantic proximity Read