Bayesian identification of protein differential expression in multi-group isobaric labelled mass spectrometry data
From MaRDI portal
Abstract: In this paper we develop a Bayesian statistical inference approach to the unified analysis of isobaric labelled MS/MS proteomic data across multiple experiments. An explicit probabilistic model of the log-intensity of the isobaric labels' reporter ions across multiple pre-defined groups and experiments is developed. This is then used to develop a full Bayesian statistical methodology for the identification of differentially expressed proteins, with respect to a control group, across multiple groups and experiments. This methodology is implemented and then evaluated on simulated data and on two model experimental datasets (for which the differentially expressed proteins are known) that use a TMT labelling protocol.
Recommendations
- Bayesian hierarchical model for protein identifications
- Bayesian Analysis of Mass Spectrometry Proteomic Data Using Wavelet-Based Functional Mixed Models
- Protein identification problem from a Bayesian point of view
- A review of statistical methods for protein identification using tandem mass spectrometry
- Liquid chromatography mass spectrometry-based proteomics: biological and technological as\-pects
Cites work
- A review of Bayesian variable selection methods: what, how and which
- Bayesian data analysis.
- BGX: a fully Bayesian integrated approach to the analysis of Affymetrix GeneChip data
- Evolutionary stochastic search for Bayesian model exploration
- scientific article; zbMATH DE number 3624650 (Why is no real title available?)
- scientific article; zbMATH DE number 720689 (Why is no real title available?)
- Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments
- Markov chain Monte Carlo. Stochastic simulation for Bayesian inference.
- On Multivariate Normal Probabilities of Rectangles: Their Dependence on Correlations
- Variable selection for regression models
Cited in
(12)- Variance function estimation in quantitative mass spectrometry with application to iTRAQ labeling
- A sparse hierarchical Bayesian model for detecting relevant antigenic sites in virus evolution
- A new protocol of analyzing isotope-coded affinity tag data from high-resolution LC-MS spec\-tro\-metry
- A mixed-effects model for incomplete data from labeling-based quantitative proteomics experiments
- Analysis of dynamic protein expression data
- Bayesian Analysis of Mass Spectrometry Proteomic Data Using Wavelet-Based Functional Mixed Models
- A review of statistical methods for protein identification using tandem mass spectrometry
- Protein identification problem from a Bayesian point of view
- Analyzing LC-MS/MS data by spectral count and ion abundance: two case studies
- Generalized linear and mixed models for label-free shotgun proteomics
- Bayesian hierarchical model for protein identifications
- Accounting for spot matching uncertainty in the analysis of proteomics data from two-dimensional gel electrophoresis
This page was built for publication: Bayesian identification of protein differential expression in multi-group isobaric labelled mass spectrometry data
Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q470303)
