vac18 {mixOmics} | R Documentation

## Vaccine study Data

### Description

The data come from a trial evaluating a vaccine based on HIV-1 lipopeptides in HIV-negative volunteers. The vaccine (HIV-1 LIPO-5 ANRS vaccine) contains five HIV-1 amino acid sequences coding for Gag, Pol and Nef proteins. This data set contains the expression measure of a subset of 1000 genes from purified in vitro stimulated Peripheral Blood Mononuclear Cells from 42 repeated samples (12 unique vaccinated participants) 14 weeks after vaccination, , 6 hours after in vitro stimulation by either (1) all the peptides included in the vaccine (LIPO-5), or (2) the Gag peptides included in the vaccine (GAG+) or (3) the Gag peptides not included in the vaccine (GAG-) or (4) without any stimulation (NS).

### Usage

    data(vac18)

### Format

A list containing the following components:

list("gene")

  data frame with 42 rows and 1000 columns. The expression measure of 1000 genes for the 42 samples (PBMC cells from 12 unique subjects).

list("stimulation")

  is a fctor of 42 elements indicating the type of in vitro simulation for each sample.

list("sample")

  is a vector of 42 elements indicating the unique subjects (for example the value '1' correspond to the first patient PBMC cells). Note that the design of this study is unbalanced.

list("tab.prob.gene")

  is a data frame with 1000 rows and 2 columns, indicating the Illumina probe ID and the gene name of the annotated genes.

### Details

This is a subset of the original study for illustrative purposes.

### Value

none

### References

Salmon-Ceron D, Durier C, Desaint C, Cuzin L, Surenaud M, Hamouda N, Lelievre J, Bonnet B, Pialoux G, Poizot-Martin I, Aboulker J, Levy Y, Launay O, trial group AV: Immunogenicity and safety of an HIV-1 lipopeptide vaccine in healthy adults: a phase 2 placebo-controlled ANRS trial. AIDS 2010, 24(14):2211-2223.

[Package mixOmics version 6.16.3 Index]