Analysis of phosphoproteomics data.
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Summary
After reviewing the key concepts of phosphoproteomics and some major data analysis methods, these tools are applied to a real-world data set and some can be borrowed from the gene expression analysis field.
- Type
- article
- Published
- 2011-01-01
- Cited by
- 14
- References
- 32
- OpenAlex
- https://openalex.org/W14460211
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:44639401
Keywords
Phosphoproteomics, Computational biology, Computer science, Signal transduction, Phosphorylation
References
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- Immunoaffinity profiling of tyrosine phosphorylation in cancer cells
- Global, in vivo, and site-specific phosphorylation dynamics in signaling networks.
- Mining the Tumor Phosphoproteome for Cancer Markers
- Controlling the false discovery rate: a practical and powerful approach to multiple testing
- Multiple reaction monitoring for quantitative biomarker analysis in proteomics and metabolomics.
- A Simple Sequentially Rejective Multiple Test Procedure
- Upstream and downstream of mTOR.
- A global approach to identify differentially expressed genes in cDNA (two-color) microarray experiments
- Global and site-specific quantitative phosphoproteomics: principles and applications.
- Analyzing gene expression data in terms of gene sets: methodological issues
- GoMiner: a resource for biological interpretation of genomic and proteomic data
Cited by
- Phosphoproteome Analysis Reveals Differential Mode of Action of Sorafenib in Wildtype and Mutated FLT3 Acute Myeloid Leukemia (AML) Cells
- Pareto Optimization Identifies Diverse Set of Phosphorylation Signatures Predicting Response to Treatment with Dasatinib
- Qualitative and quantitative analysis of post-translational modifications of chromatin in the mouse brain and sperm
- Phosphoproteomics in photosynthetic organisms
- Bacterial Phosphoproteomic Analysis Reveals the Correlation Between Protein Phosphorylation and Bacterial Pathogenicity
- Comparison of SILAC and mTRAQ quantification for phosphoproteomics on a quadrupole orbitrap mass spectrometer.
- Phosphosignature Predicts Dasatinib Response in Non-small Cell Lung Cancer*
- Identification of Significant Features by the Global Mean Rank Test
- Analysis of High Accuracy, Quantitative Proteomics Data in the MaxQB Database
- Phosphoproteomics and Lung Cancer Research
- Global quantitative phosphoproteome analysis of human tumor xenografts treated with a CD44 antagonist.
- Quantitative proteome analyses of phosphorylated proteins and alternative splice variants in human cell lines and urine
- Identification of the Molecular Basis of Anti-fibrotic Effects of Soluble Guanylate Cyclase Activator Using the Human Lung Fibroblast Phosphoproteome
- Identification of the Molecular Basis of Anti-fibrotic Effects of Soluble Guanylate Cyclase Activator Using the Human Lung Fibroblast
- Integrated Systems and Technologies Global Quantitative Phosphoproteome Analysis of Human Tumor Xenografts Treated with a CD 44 Antagonist
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