Analyzing Peptide Microarray Data with the R pepStat Package.
Details
Serval ID
serval:BIB_577340325A95
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Analyzing Peptide Microarray Data with the R pepStat Package.
Journal
Methods in molecular biology
ISSN
1940-6029 (Electronic)
ISSN-L
1064-3745
Publication state
Published
Issued date
2016
Peer-reviewed
Oui
Volume
1352
Pages
127-142
Language
english
Notes
Publication types: Journal Article
Publication Status: ppublish
Publication Status: ppublish
Abstract
In this chapter we demonstrate the use of R Bioconductor packages pepStat and Pviz on a set of paired peptide microarrays generated from vaccine trial data. Data import, background correction, normalization, and summarization techniques are presented. We introduce a sliding mean method for amplifying signal and reducing noise in the data, and show the value of gathering paired samples from subjects. Useful visual summaries are presented, and we introduce a simple method for setting a decision rule for subject/peptide responses that can be used with a set of control peptides or placebo subjects.
Keywords
Antibodies/immunology, Clinical Trials as Topic, Humans, Peptides/immunology, Peptides/metabolism, Protein Array Analysis/methods, Statistics as Topic/methods, Vaccines/immunology, Background correction, Baseline correction, Data visualization, Decision rule, False discovery rate, Normalization, Sliding mean, Smoothing
Pubmed
Web of science
Create date
28/02/2022 12:45
Last modification date
23/03/2024 8:24
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