Statistical Approach to Protein Quantification

ProteinLasso: A Lasso regression approach to protein inference problem in shotgun proteomics

(2013) Ting Huang et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

Accurate Mass Spectrometry Based Protein Quantification via Shared Peptides

(2012) Banu Dost et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Direct Maximization of Protein Identifications from Tandem Mass Spectra

(2011) Marina Spivak et al.   MOLECULAR & CELLULAR PROTEOMICS

Estimation of Absolute Protein Quantities of Unlabeled Samples by Selected Reaction Monitoring Mass Spectrometry

(2011) Christina Ludwig et al.   MOLECULAR & CELLULAR PROTEOMICS

Protein Significance Analysis in Selected Reaction Monitoring (SRM) Measurements

(2011) Ching-Yun Chang et al.   MOLECULAR & CELLULAR PROTEOMICS

Quantification of mRNA and protein and integration with protein turnover in a bacterium

(2011) T. Maier et al.   Molecular Systems Biology

The quantitative proteome of a human cell line

(2011) M. Beck et al.   Molecular Systems Biology

Computational Mass Spectrometry–Based Proteomics

(2011) Lukas Käll et al.   PLoS Computational Biology

Refinements to Label Free Proteome Quantitation: How to Deal with Peptides Shared by Multiple Proteins

(2010) Ying Zhang et al.   ANALYTICAL CHEMISTRY

Efficient Marginalization to Compute Protein Posterior Probabilities from Shotgun Mass Spectrometry Data

(2010) Oliver Serang et al.   JOURNAL OF PROTEOME RESEARCH

Options and considerations when selecting a quantitative proteomics strategy

(2010) Bruno Domon et al.   NATURE BIOTECHNOLOGY

Protein and gene model inference based on statistical modeling in k-partite graphs

(2010) S. Gerster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

2-D PAGE-based comparison of proteasome inhibitor bortezomib in sensitive and resistant mantle cell lymphoma

(2009) Marc Weinkauf et al.   ELECTROPHORESIS

A Bayesian Approach to Protein Inference Problem in Shotgun Proteomics

(2009) Yong Fuga Li et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Modified Spectral Count Index (mSCI) for Estimation of Protein Abundance by Protein Relative Identification Possibility (RIPpro): A New Proteomic Technological Parameter

(2009) Aihua Sun et al.   JOURNAL OF PROTEOME RESEARCH

Protein Quantification in Label-Free LC-MS Experiments

(2009) Timothy Clough et al.   JOURNAL OF PROTEOME RESEARCH

IDPicker 2.0: Improved Protein Assembly with High Discrimination Peptide Identification Filtering

(2009) Ze-Qiang Ma et al.   JOURNAL OF PROTEOME RESEARCH

Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans

(2009) Johan Malmström et al.   NATURE

Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis

(2009) Noelle M Griffin et al.   NATURE BIOTECHNOLOGY

Comprehensive proteomic and transcriptomic analysis reveals early induction of a protective anti-oxidative stress response by low-dose proteasome inhibition

(2009) Sven Bieler et al.   PROTEOMICS

The APEX Quantitative Proteomics Tool: Generating protein quantitation estimates from LC-MS/MS proteomics results

(2008) John C Braisted et al.   BMC BIOINFORMATICS

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY

The Effects of Shared Peptides on Protein Quantitation in Label-Free Proteomics by LC/MS/MS

(2007) Shuangshuang Jin et al.   JOURNAL OF PROTEOME RESEARCH