beltran2016: Data from Beltran et al. 2016

In lgatto/pRolocdata: Data accompanying the pRoloc package

Data from Beltran et al. 2016

Description

The data contain the spatial proteomics data for 5 time points (24, 48, 72, 96 and 120) and two conditions (HMCV infection and MOCK), totalling 10 MSnSet object. Each contains expression data for 1748 to 2220 proteins along 6 fractions quantified by TMT 6-plex.

Usage

data(beltran2016HCMV24)
data(beltran2016HCMV48)
data(beltran2016HCMV72)
data(beltran2016HCMV96)
data(beltran2016HCMV120)
data(beltran2016MOCK24)
data(beltran2016MOCK48)
data(beltran2016MOCK72)
data(beltran2016MOCK96)
data(beltran2016MOCK120)

Format

The data is an instance of class MSnSet from package MSnbase.

References

Jean Beltran PM, Mathias RA, Cristea IM. A Portrait of the Human Organelle Proteome In Space and Time during Cytomegalovirus Infection. Cell Syst. 2016 Oct 26;3(4):361-373.e6. doi: 10.1016/j.cels.2016.08.012. Epub 2016 Sep 15. PubMed PMID: 27641956; PubMed Central PMCID: PMC5083158.

Examples

## load the two 24 hours datasets
data(beltran2016MOCK24)
data(beltran2016HCMV24)
beltran2016MOCK24
beltran2016HCMV24

## the expression data
head(exprs(beltran2016MOCK24))
head(exprs(beltran2016HCMV24))

## abstract
abstract(beltran2016HCMV24)

## plotting
library("pRoloc")
par(mfrow = c(1, 2))
plot2D(beltran2016HCMV24, main = "HCMV 24hpi")
plot2D(beltran2016MOCK24, main = "MOCK 24hpi")

## Combine the date as a list and keep only common features
ml <- MSnSetList(list(beltran2016HCMV24, beltran2016MOCK24))
ml <- commonFeatureNames(ml)

par(mfrow = c(1, 2))
plot2D(ml[[1]], main = "HCMV 24hpi")
plot2D(ml[[2]], main = "MOCK 24hpi")

lgatto/pRolocdata documentation built on April 7, 2023, 1:56 a.m.