ProteoMM is a statistical method to perform model-based peptide-level differential expression analysis of single or multiple datasets. For multiple datasets ProteoMM produces a single fold change and p-value for each protein across multiple datasets. ProteoMM provides functionality for normalization, missing value imputation and differential expression. Model-based peptide-level imputation and differential expression analysis component of package follows the analysis described in “A statistical framework for protein quantitation in bottom-up MS based proteomics" (Karpievitch et al. Bioinformatics 2009). EigenMS normalisation is implemented as described in "Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition." (Karpievitch et al. Bioinformatics 2009).
Package details |
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Author | Yuliya V Karpievitch, Tim Stuart and Sufyaan Mohamed |
Bioconductor views | DifferentialExpression ImmunoOncology MassSpectrometry Normalization Proteomics |
Maintainer | Yuliya V Karpievitch <yuliya.k@gmail.com> |
License | MIT |
Version | 1.8.0 |
Package repository | View on Bioconductor |
Installation |
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