期刊
BIOINFORMATICS
卷 30, 期 17, 页码 2511-2513出版社
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btu200
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资金
- Swiss Federal Commission for Technology and Innovation CTI [13539.1 PFFLI-LS]
- ETH [ETH-30 11-2]
- PhosphonetX project of SystemsX.ch
- European Research Council grant Proteomics v3.0 [233226]
- Swiss National Science Foundation
- European Research Council (ERC) [233226] Funding Source: European Research Council (ERC)
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.
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