Quantitative phosphoproteomics strategies for understanding protein kinase-mediated signal transduction pathways

Phosphorylation of nucleoporins

(2011) Hidetaka Kosako et al.   Nucleus

Gas-Phase Rearrangements Do Not Affect Site Localization Reliability in Phosphoproteomics Data Sets

(2010) Mike Aguiar et al.   JOURNAL OF PROTEOME RESEARCH

Comparative Assessment of Site Assignments in CID and Electron Transfer Dissociation Spectra of Phosphopeptides Discloses Limited Relocation of Phosphate Groups

(2010) Nikolai Mischerikow et al.   MOLECULAR & CELLULAR PROTEOMICS

Decoding signalling networks by mass spectrometry-based proteomics

(2010) Chunaram Choudhary et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Phosphoproteome dynamics reveal heat-shock protein complexes specific to the Leishmania donovani infectious stage

(2010) M. A. Morales et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantitative Phosphoproteomics Reveals Widespread Full Phosphorylation Site Occupancy During Mitosis

(2010) J. V. Olsen et al.   Science Signaling

Absolute Quantification of Phosphorylation on the Kinase Activation Loop of Cellular Focal Adhesion Kinase by Stable Isotope Dilution Liquid Chromatography/Mass Spectrometry

(2009) Eugene Ciccimaro et al.   ANALYTICAL CHEMISTRY

Identification and Functional Characterization of Protein Kinase A-catalyzed Phosphorylation of Potassium Channel Kv1.2 at Serine 449

(2009) Rosalyn P. Johnson et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Phosphoproteome Study Reveals Hsp27 as a Novel Signaling Molecule Involved in GDNF-Induced Neurite Outgrowth

(2009) Zhen Hong et al.   JOURNAL OF PROTEOME RESEARCH

SLoMo: Automated Site Localization of Modifications from ETD/ECD Mass Spectra

(2009) Christopher M. Bailey et al.   JOURNAL OF PROTEOME RESEARCH

Quantitative Phosphoproteomic Analysis of the STAT3/IL-6/HIF1α Signaling Network: An Initial Study in GSC11 Glioblastoma Stem Cells

(2009) Carol L. Nilsson et al.   JOURNAL OF PROTEOME RESEARCH

Combining low- and high-energy tandem mass spectra for optimized peptide quantification with isobaric tags

(2009) Loïc Dayon et al.   Journal of Proteomics

Epidermal Growth Factor Receptor Phosphorylation Sites Ser991and Tyr998Are Implicated in the Regulation of Receptor Endocytosis and Phosphorylations at Ser1039and Thr1041

(2009) Jiefei Tong et al.   MOLECULAR & CELLULAR PROTEOMICS

Large Scale Localization of Protein Phosphorylation by Use of Electron Capture Dissociation Mass Spectrometry

(2009) Steve M. M. Sweet et al.   MOLECULAR & CELLULAR PROTEOMICS

Global Effects of Kinase Inhibitors on Signaling Networks Revealed by Quantitative Phosphoproteomics

(2009) Cuiping Pan et al.   MOLECULAR & CELLULAR PROTEOMICS

Functional Proteomics Identifies Targets of Phosphorylation by B-Raf Signaling in Melanoma

(2009) William M. Old et al.   MOLECULAR CELL

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

(2009) Noelle M Griffin et al.   NATURE BIOTECHNOLOGY

Global identification of protein kinase substrates by protein microarray analysis

(2009) Janine Mok et al.   Nature Protocols

A sensitive mass spectrometric method for hypothesis-driven detection of peptide post-translational modifications: multiple reaction monitoring-initiated detection and sequencing (MIDAS)

(2009) Richard D Unwin et al.   Nature Protocols

Phosphoproteomics reveals new ERK MAP kinase targets and links ERK to nucleoporin-mediated nuclear transport

(2009) Hidetaka Kosako et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry

(2009) D. L. Swaney et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phosphoproteomic analysis of distinct tumor cell lines in response to nocodazole treatment

(2009) Kohji Nagano et al.   PROTEOMICS

Large-scale proteomic analysis of tyrosine-phosphorylation induced by T-cell receptor or B-cell receptor activation reveals new signaling pathways

(2009) Masaki Matsumoto et al.   PROTEOMICS

Improved method of phosphopeptides enrichment using biphasic phosphate-binding tag/C18 tip for versatile analysis of phosphorylation dynamics

(2009) Takuji Nabetani et al.   PROTEOMICS

Analytical strategies for phosphoproteomics

(2009) Tine E. Thingholm et al.   PROTEOMICS

Evaluation of Gas-Phase Rearrangement and Competing Fragmentation Reactions on Protein Phosphorylation Site Assignment Using Collision Induced Dissociation-MS/MS and MS3

(2008) Amanda M. Palumbo et al.   ANALYTICAL CHEMISTRY

Global and Site-Specific Quantitative Phosphoproteomics: Principles and Applications

(2008) Boris Macek et al.   Annual Review of Pharmacology and Toxicology

SILAC Mouse for Quantitative Proteomics Uncovers Kindlin-3 as an Essential Factor for Red Blood Cell Function

(2008) Marcus Krüger et al.   CELL

Quantitative phosphoproteomic analysis of signaling network dynamics

(2008) Forest M White   CURRENT OPINION IN BIOTECHNOLOGY

Identification of protein kinase substrates by proteomic approaches

(2008) Seisuke Hattori et al.   Expert Review of Proteomics

MAPK target networks in Arabidopsis thaliana revealed using functional protein microarrays

(2008) S. C. Popescu et al.   GENES & DEVELOPMENT

Requirements for Protein Phosphorylation and the Kinase Activity of Polo-like Kinase 1 (Plk1) for the Kinetochore Function of Mitotic Arrest Deficiency Protein 1 (Mad1)

(2008) Ya-Hui Chi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

An Assessment of Software Solutions for the Analysis of Mass Spectrometry Based Quantitative Proteomics Data

(2008) Lukas N. Mueller et al.   JOURNAL OF PROTEOME RESEARCH

Hydrophilic Interaction Chromatography Reduces the Complexity of the Phosphoproteome and Improves Global Phosphopeptide Isolation and Detection

(2008) Dean E. McNulty et al.   MOLECULAR & CELLULAR PROTEOMICS

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

Decision tree–driven tandem mass spectrometry for shotgun proteomics

(2008) Danielle L Swaney et al.   NATURE METHODS

Protein phosphatase 1 regulates the phosphorylation state of the polarity scaffold Par-3

(2008) A. Traweger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Covalent capture of kinase-specific phosphopeptides reveals Cdk1-cyclin B substrates

(2008) J. D. Blethrow et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cross-talk between GlcNAcylation and phosphorylation: Site-specific phosphorylation dynamics in response to globally elevated O-GlcNAc

(2008) Z. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A quantitative atlas of mitotic phosphorylation

(2008) N. Dephoure et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Towards functional phosphoproteomics by mapping differential phosphorylation events in signaling networks

(2008) Sergio de la Fuente van Bentem et al.   PROTEOMICS

BSKs Mediate Signal Transduction from the Receptor Kinase BRI1 in Arabidopsis

(2008) W. Tang et al.   SCIENCE