HintikkaXOData: HintikkaXOData

In microbiome/mia: Microbiome analysis

HintikkaXOData

Description

HintikkaXO is a multiomics dataset from a rat experiment studying effect of fat and prebiotics in diet. It contains high-throughput profiling data from 40 rat samples, including 39 biomarkers, 38 metabolites (NMR), and 12706 OTUs from 318 species, measured from Cecum. This is diet comparison study with High/Low fat diet and xylo-oligosaccaride supplementation. Column metadata is common for all experiments (microbiota, metabolites, biomarkers) and is described below.

Usage

data(HintikkaXOData)

Format

A MultiAssayExperiment with 3 experiments (microbiota, metabolites and biomarkers). rowData of the microbiota experiment contains taxonomic information at Phylum, Class, Order, Family, Genus, Species and OTU levels. The metabolites and biomarkers experiments contain 38 NMR metabolites and 39 biomarkers, respectively. The colData includes:

Sample

Sample ID (character)

Rat

Rat ID (factor)

Site

Site of measurement ("Cecum"); single value

Diet

Diet group (factor; combination of the Fat and XOS fields)

Fat

Fat in Diet (factor; Low/High)

XOS

XOS Diet Supplement (numeric; 0/1)

Author(s)

Hintikka L et al.

References

Hintikka L et al. (2021): Xylo-oligosaccharides in prevention of hepatic steatosis and adipose tissue inflammation: associating taxonomic and metabolomic patterns in fecal microbiota with biclustering. International Journal of Environmental Research and Public Health 18(8):4049. https://doi.org/10.3390/ijerph18084049

See Also

mia-datasets

microbiome/mia documentation built on April 27, 2024, 4:04 a.m.