Probiotics Intervention Data from the PeerJ32 Study

The peerj32.obj dataset contains high-throughput profiling data from 389 human blood serum lipids and 130 intestinal genus-level bacteria from 44 samples (22 subjects from 2 time points; before and after probiotic/placebo intervention). The data set is designed to investigate associations between intestinal bacteria and host lipid metabolism.

Usage

data(peerj32.obj)

Format

A MicrobiomeStat Data Object containing the following components:

feature.tab

A matrix of microbial abundances (130 intestinal genus-level bacteria)

meta.dat

A data frame with 44 observations and 4 variables:

time: Character. Time point of sample collection ("1" for before, "2" for after intervention)
sex: Character. Sex of the subject
subject: Character. Unique identifier for each subject (e.g., "S1", "S2", etc.)
group: Character. Intervention group ("Placebo" or "Probiotic")

feature.ann

Annotation data for the 389 human blood serum lipids

feature.tab.lipids

A matrix of lipid abundances (389 human blood serum lipids)

Source

Data source: https://doi.org/10.7717/peerj.32

References

Lahti L, Salonen A, Kekkonen RA, Salojärvi J, Jalanka-Tuovinen J, Palva A, Orešič M, de Vos WM. (2013) Associations between the human intestinal microbiota, Lactobacillus rhamnosus GG and serum lipids indicated by integrated analysis of high-throughput profiling data. PeerJ 1:e32 https://doi.org/10.7717/peerj.32

Author

Leo Lahti <[email protected]>

Examples

data(peerj32.obj)
str(peerj32.obj$meta.dat)
#> 'data.frame':	44 obs. of  4 variables:
#>  $ time   : chr  "1" "2" "1" "2" ...
#>  $ sex    : chr  "female" "female" "female" "female" ...
#>  $ subject: chr  "S1" "S1" "S2" "S2" ...
#>  $ group  : chr  "Placebo" "Placebo" "Placebo" "Placebo" ...