Phosphoproteomics-based network medicine

Construction of human activity-based phosphorylation networks

(2013) R. H. Newman et al.   Molecular Systems Biology

Kinase-Substrate Enrichment Analysis Provides Insights into the Heterogeneity of Signaling Pathway Activation in Leukemia Cells

(2013) P. Casado et al.   Science Signaling

In Vivo SILAC-Based Proteomics Reveals Phosphoproteome Changes during Mouse Skin Carcinogenesis

(2013) Sara Zanivan et al.   Cell Reports

Systematic analysis of the Plk-mediated phosphoregulation in eukaryotes

(2012) Z. Liu et al.   BRIEFINGS IN BIOINFORMATICS

Global Quantitative Phosphoproteome Analysis of Human Tumor Xenografts Treated with a CD44 Antagonist

(2012) S. Weigand et al.   CANCER RESEARCH

Network Medicine Strikes a Blow against Breast Cancer

(2012) Janine T. Erler et al.   CELL

Sequential Application of Anticancer Drugs Enhances Cell Death by Rewiring Apoptotic Signaling Networks

(2012) Michael J. Lee et al.   CELL

Phosphoproteomic analysis of cells treated with longevity-related autophagy inducers

(2012) Martin V. Bennetzen et al.   CELL CYCLE

Is phosphoproteomics ready for clinical research?

(2012) Anton B. Iliuk et al.   CLINICA CHIMICA ACTA

Computational Analysis of Phosphoproteomics: Progresses and Perspectives

(2012) Jian Ren et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Improve the Coverage for the Analysis of Phosphoproteome of HeLa Cells by a Tandem Digestion Approach

(2012) Yangyang Bian et al.   JOURNAL OF PROTEOME RESEARCH

Systematic Analysis of Protein Phosphorylation Networks From Phosphoproteomic Data

(2012) Chunxia Song et al.   MOLECULAR & CELLULAR PROTEOMICS

Phosphosignature Predicts Dasatinib Response in Non-small Cell Lung Cancer

(2012) Martin Klammer et al.   MOLECULAR & CELLULAR PROTEOMICS

Combined experimental and computational analysis of DNA damage signaling reveals context-dependent roles for Erk in apoptosis and G1/S arrest after genotoxic stress

(2012) Andrea R Tentner et al.   Molecular Systems Biology

PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees

(2012) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Advances in Quantitative Phosphoproteomics

(2011) Carol L. Nilsson   ANALYTICAL CHEMISTRY

Multidimensional Strategy for Sensitive Phosphoproteomics Incorporating Protein Prefractionation Combined with SIMAC, HILIC, and TiO2Chromatography Applied to Proximal EGF Signaling

(2011) Kasper Engholm-Keller et al.   JOURNAL OF PROTEOME RESEARCH

Combination of Chemical Genetics and Phosphoproteomics for Kinase Signaling Analysis Enables Confident Identification of Cellular Downstream Targets

(2011) Felix S. Oppermann et al.   MOLECULAR & CELLULAR PROTEOMICS

Quantitative Phospho-proteomics to Investigate the Polo-like Kinase 1-Dependent Phospho-proteome

(2011) Karin Grosstessner-Hain et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteomic and phosphoproteomic comparison of human ES and iPS cells

(2011) Douglas H Phanstiel et al.   NATURE METHODS

Phosphoproteomic Analysis Identifies Grb10 as an mTORC1 Substrate That Negatively Regulates Insulin Signaling

(2011) Y. Yu et al.   SCIENCE

The mTOR-Regulated Phosphoproteome Reveals a Mechanism of mTORC1-Mediated Inhibition of Growth Factor Signaling

(2011) P. P. Hsu et al.   SCIENCE

Quantitative Phosphoproteomics Identifies Substrates and Functional Modules of Aurora and Polo-Like Kinase Activities in Mitotic Cells

(2011) A. N. Kettenbach et al.   Science Signaling

Mapping in vivo signal transduction defects by phosphoproteomics

(2011) Taras Stasyk et al.   TRENDS IN MOLECULAR MEDICINE

Identifying differentially regulated subnetworks from phosphoproteomic data

(2010) Martin Klammer et al.   BMC BIOINFORMATICS

A Tissue-Specific Atlas of Mouse Protein Phosphorylation and Expression

(2010) Edward L. Huttlin et al.   CELL

A Summary of Computational Resources for Protein Phosphorylation

(2010) Yu Xue et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Increasing phosphoproteome coverage and identification of phosphorylation motifs through combination of different HPLC fractionation methods

(2010) Xi Chen et al.   JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES

The Plk1-dependent Phosphoproteome of the Early Mitotic Spindle

(2010) Anna Santamaria et al.   MOLECULAR & CELLULAR PROTEOMICS

Tracing cancer networks with phosphoproteomics

(2010) David B Solit et al.   NATURE BIOTECHNOLOGY

Network medicine: a network-based approach to human disease

(2010) Albert-László Barabási et al.   NATURE REVIEWS GENETICS

ATM-Dependent and -Independent Dynamics of the Nuclear Phosphoproteome After DNA Damage

(2010) A. Bensimon et al.   Science Signaling

Phosphorylation Dynamics during Early Differentiation of Human Embryonic Stem Cells

(2009) Dennis Van Hoof et al.   Cell Stem Cell

Cell cycle kinases as therapeutic targets for cancer

(2009) Silvia Lapenna et al.   NATURE REVIEWS DRUG DISCOVERY

Experimental and computational tools useful for (re)construction of dynamic kinase–substrate networks

(2009) Chris Soon Heng Tan et al.   PROTEOMICS

Global Analysis of Cdk1 Substrate Phosphorylation Sites Provides Insights into Evolution

(2009) L. J. Holt et al.   SCIENCE

Global and Site-Specific Quantitative Phosphoproteomics: Principles and Applications

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

Network medicine

(2008) Tony Pawson et al.   FEBS LETTERS

Proteomic Contributions to Personalized Cancer Care

(2008) John M. Koomen et al.   MOLECULAR & CELLULAR PROTEOMICS

GPS 2.0, a Tool to Predict Kinase-specific Phosphorylation Sites in Hierarchy

(2008) Yu Xue et al.   MOLECULAR & CELLULAR PROTEOMICS

STRING 8--a global view on proteins and their functional interactions in 630 organisms

(2008) L. J. Jensen et al.   NUCLEIC ACIDS RESEARCH

Phosphoproteomics: A possible route to novel biomarkers of breast cancer

(2008) Metodi Metodiev et al.   Proteomics Clinical Applications

Phosphorylation Networks Regulating JNK Activity in Diverse Genetic Backgrounds

(2008) C. Bakal et al.   SCIENCE