Reconstructing kinase network topologies from phosphoproteomics data reveals cancer-associated rewiring

Phosphatidylinositol 3-Kinase α–Selective Inhibition With Alpelisib (BYL719) in PIK3CA-Altered Solid Tumors: Results From the First-in-Human Study

(2018) Dejan Juric et al.   JOURNAL OF CLINICAL ONCOLOGY

Proteomic and genomic integration identifies kinase and differentiation determinants of kinase inhibitor sensitivity in leukemia cells

(2018) Pedro Casado et al.   LEUKEMIA

Kinome rewiring reveals AURKA limits PI3K-pathway inhibitor efficacy in breast cancer

(2018) Hayley J. Donnella et al.   Nature Chemical Biology

Kinase inhibitors: the road ahead

(2018) Fleur M. Ferguson et al.   NATURE REVIEWS DRUG DISCOVERY

Combining Phosphoproteomics Datasets and Literature Information to Reveal the Functional Connections in a Cell Phosphorylation Network

(2018) Francesca Sacco et al.   PROTEOMICS

Reconstructing phosphorylation signalling networks from quantitative phosphoproteomic data

(2018) Brandon M. Invergo et al.   Essays in Biochemistry

Functional characterization of CFI-402257, a potent and selective Mps1/TTK kinase inhibitor, for the treatment of cancer

(2017) Jacqueline M. Mason et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The target landscape of clinical kinase drugs

(2017) Susan Klaeger et al.   SCIENCE

Oncogenic KRAS Regulates Tumor Cell Signaling via Stromal Reciprocation

(2016) Christopher J. Tape et al.   CELL

Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer

(2016) Justin M. Drake et al.   CELL

Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer

(2016) Hui Zhang et al.   CELL

An atlas of human kinase regulation

(2016) David Ochoa et al.   Molecular Systems Biology

Proteogenomics connects somatic mutations to signalling in breast cancer

(2016) Philipp Mertins et al.   NATURE

Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry

(2016) Robert T Lawrence et al.   NATURE METHODS

KEGG: new perspectives on genomes, pathways, diseases and drugs

(2016) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Kinome-wide Decoding of Network-Attacking Mutations Rewiring Cancer Signaling

(2015) Pau Creixell et al.   CELL

Comprehensive characterization of the Published Kinase Inhibitor Set

(2015) Jonathan M Elkins et al.   NATURE BIOTECHNOLOGY

SIGNOR: a database of causal relationships between biological entities

(2015) Livia Perfetto et al.   NUCLEIC ACIDS RESEARCH

2016 update of the PRIDE database and its related tools

(2015) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Empirical inference of circuitry and plasticity in a kinase signaling network

(2015) Edmund H. Wilkes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Large-scale models of signal propagation in human cells derived from discovery phosphoproteomic data

(2015) Camille D. A. Terfve et al.   Nature Communications

Building Predictive Models inRUsing thecaretPackage

(2015) Max Kuhn   Journal of Statistical Software

First-in-Human Phase I Study of Pictilisib (GDC-0941), a Potent Pan-Class I Phosphatidylinositol-3-Kinase (PI3K) Inhibitor, in Patients with Advanced Solid Tumors

(2014) D. Sarker et al.   CLINICAL CANCER RESEARCH

KinomeXplorer: an integrated platform for kinome biology studies

(2014) Heiko Horn et al.   NATURE METHODS

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

Polyamine production is downstream and upstream of oncogenic PI3K signalling and contributes to tumour cell growth

(2013) Vinothini Rajeeve et al.   BIOCHEMICAL JOURNAL

Identification of Direct Tyrosine Kinase Substrates Based on Protein Kinase Assay-Linked Phosphoproteomics

(2013) Liang Xue et al.   MOLECULAR & CELLULAR PROTEOMICS

Maximizing Peptide Identification Events in Proteomic Workflows Using Data-Dependent Acquisition (DDA)

(2013) Nicholas W. Bateman et al.   MOLECULAR & CELLULAR PROTEOMICS

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

(2013) P. Casado et al.   Science Signaling

Molecular Characterization of EGFR and EGFRvIII Signaling Networks in Human Glioblastoma Tumor Xenografts

(2012) Hannah Johnson et al.   MOLECULAR & CELLULAR PROTEOMICS

Phosphoproteomic Analysis of Leukemia Cells under Basal and Drug-treated Conditions Identifies Markers of Kinase Pathway Activation and Mechanisms of Resistance

(2012) Maria P. Alcolea et al.   MOLECULAR & CELLULAR PROTEOMICS

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

Characterization of a TiO2 enrichment method for label-free quantitative phosphoproteomics

(2011) Alex Montoya et al.   METHODS

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

Large-Scale Discovery of ERK2 Substrates Identifies ERK-Mediated Transcriptional Regulation by ETV3

(2011) S. M. Carlson et al.   Science Signaling

Systems analysis of EGF receptor signaling dynamics with microwestern arrays

(2010) Mark F Ciaccio et al.   NATURE METHODS

KEA: kinase enrichment analysis

(2009) A. Lachmann et al.   BIOINFORMATICS

IDEAL-Q, an Automated Tool for Label-free Quantitation Analysis Using an Efficient Peptide Alignment Approach and Spectral Data Validation

(2009) Chih-Chiang Tsou 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

Global alignment of multiple protein interaction networks with application to functional orthology detection

(2008) R. Singh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Helical domain and kinase domain mutations in p110  of phosphatidylinositol 3-kinase induce gain of function by different mechanisms

(2008) L. Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA