Paper Info
Title
aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data.
Abstract
Motivation: The determination of absolute quantities of proteins in biological samples is necessary for multiple types of scientific inquiry. While relative quantification has been commonly used in proteomics, few proteomic datasets measuring absolute protein quantities have been reported to date. Various technologies have been applied using different types of input data, e.g. ion intensities or spectral counts, as well as different absolute normalization strategies. To date, a user-friendly and transparent software supporting large-scale absolute protein quantification has been lacking. Results: We present a bioinformatics tool, termed aLFQ, which supports the commonly used absolute label-free protein abundance estimation methods (TopN, iBAQ, APEX, NSAF and SCAMPI) for LCMS/MS proteomics data, together with validation algorithms enabling automated data analysis and error estimation.
Year
DOI
Venue
2014
10.1093/bioinformatics/btu200
BIOINFORMATICS
Field
DocType
Volume
Data mining,PeptideAtlas,Normalization (statistics),Proteomics,Quantitative proteomics,Computer science,Tandem mass spectrometry,Raw data,Software,Abundance estimation,Bioinformatics
Journal
30
Issue
ISSN
Citations 
17
1367-4803
0
PageRank 
References 
Authors
0.34
0
5
Name
Order
Citations
PageRank
George Rosenberger110.80
Christina Ludwig200.34
Hannes L. Röst321.17
Ruedi Aebersold414614.45
Lars Malmström5657.19