Characterization of early autophagy signaling by quantitative phosphoproteomics

No abstract is available for this paper.

• Publication year

  2014

• Venue

  Autophagy

• Publication date

  2014-02-01

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.4161/auto.26864PMID 24275748PMCID PMC5396084
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Autophagy and Metabolism

  2016cited by this paper
• Regulation and Function of Uncoordinated-51 Like Kinase Proteins

  2012cited by this paper
• Deconvoluting the context-dependent role for autophagy in cancer

  2012cited by this paper
• Quantitative phosphoproteomics to characterize signaling networks.

  2012cited by this paper
• Autophagy in the regulation of pathogen replication and adaptive immunity

  2012cited by this paper
• Leucyl-tRNA synthetase is an intracellular leucine sensor for the mTORC1-signaling pathway.

  2012cited by this paper
• Friend or food

  2012cited by this paper
• Calcium/calmodulin-dependent protein kinase IV limits organ damage in hepatic ischemia-reperfusion injury through induction of autophagy.

  2012cited by this paper
• Identification of Autophagosome-associated Proteins and Regulators by Quantitative Proteomic Analysis and Genetic Screens

  2012cited by this paper
• Phosphoproteomic analysis of cells treated with longevity-related autophagy inducers

  2012cited by this paper
• Autophagosomal Protein Dynamics and Influenza Virus Infection

  2012cited by this paper
• GSK3-TIP60-ULK1 Signaling Pathway Links Growth Factor Deprivation to Autophagy

  2012influential reference
• PhosphoSiteAnalyzer: a bioinformatic platform for deciphering phospho proteomes using kinase predictions retrieved from NetworKIN.

  2012cited by this paper
• Modulation of Serines 17 and 24 in the LC3-interacting Region of Bnip3 Determines Pro-survival Mitophagy versus Apoptosis*

  2012cited by this paper
• The Degradative Inventory of the Cell: Proteomic Insights

  2012cited by this paper
• Supplemental material Identification of autophagosome-associated proteins and regulators by quantitative proteomic analysis and genetic screens

  2012cited by this paper
• Combinatorial use of electrostatic repulsion-hydrophilic interaction chromatography (ERLIC) and strong cation exchange (SCX) chromatography for in-depth phosphoproteome analysis.

  2012cited by this paper
• CDK inhibitors (p16/p19/p21) induce senescence and autophagy in cancer-associated fibroblasts, “fueling” tumor growth via paracrine interactions, without an increase in neo-angiogenesis

  2012cited by this paper
• GProX, a User-Friendly Platform for Bioinformatics Analysis and Visualization of Quantitative Proteomics Data*

  2011cited by this paper
• System-Wide Temporal Characterization of the Proteome and Phosphoproteome of Human Embryonic Stem Cell Differentiation

  2011cited by this paper
• Ca2+/Calmodulin-Dependent Kinase (CaMK) Signaling via CaMKI and AMP-Activated Protein Kinase Contributes to the Regulation of WIPI-1 at the Onset of Autophagy

  2011cited by this paper
• A comprehensive siRNA screen for kinases that suppress macroautophagy in optimal growth conditions

  2011influential reference
• Comparison of ERLIC-TiO2, HILIC-TiO2, and SCX-TiO2 for global phosphoproteomics approaches.

  2011cited by this paper
• Phosphorylation of the Autophagy Receptor Optineurin Restricts Salmonella Growth

  2011cited by this paper
• Phosphorylation of ULK1 (hATG1) by AMP-Activated Protein Kinase Connects Energy Sensing to Mitophagy

  2011cited by this paper
• Global quantification of mammalian gene expression control

  2011cited by this paper
• Phosphoproteomic Analysis Identifies Grb10 as an mTORC1 Substrate That Negatively Regulates Insulin Signaling

  2011influential reference
• Mitochondrial oxidative stress mediates induction of autophagy and hypertrophy in angiotensin-II treated mouse hearts

  2011cited by this paper
• The cyclin-dependent kinase PITSLRE/CDK11 is required for successful autophagy

  2011cited by this paper
• Selective autophagy mediated by autophagic adapter proteins

  2011cited by this paper
• The mTOR-Regulated Phosphoproteome Reveals a Mechanism of mTORC1-Mediated Inhibition of Growth Factor Signaling

  2011influential reference
• A Quantitative Spatial Proteomics Analysis of Proteome Turnover in Human Cells*

  2011cited by this paper
• Serine 403 phosphorylation of p62/SQSTM1 regulates selective autophagic clearance of ubiquitinated proteins.

  2011cited by this paper
• Negative regulation of Vps34 by Cdk mediated phosphorylation.

  2010cited by this paper
• p62/SQSTM1 Is a Target Gene for Transcription Factor NRF2 and Creates a Positive Feedback Loop by Inducing Antioxidant Response Element-driven Gene Transcription*

  2010cited by this paper
• Network organization of the human autophagy system

  2010cited by this paper
• TOR-dependent control of autophagy: biting the hand that feeds.

  2010cited by this paper
• PRAS40 Regulates Protein Synthesis and Cell Cycle in C2C12 Myoblasts

  2010cited by this paper
• The role of the Atg1/ULK1 complex in autophagy regulation.

  2010cited by this paper
• Quantitative proteomics for the analysis of spatio-temporal protein dynamics during autophagy

  2010cited by this paper
• Ammonia Derived from Glutaminolysis Is a Diffusible Regulator of Autophagy

  2010cited by this paper
• Autophagy and Metabolism

  2010cited by this paper
• Glucose deprivation causes oxidative stress and stimulates aggresome formation and autophagy in cultured cardiac myocytes.

  2010cited by this paper
• Proteome-wide quantitation by SILAC.

  2010cited by this paper
• A genome-wide siRNA screen reveals multiple mTORC1 independent signaling pathways regulating autophagy under normal nutritional conditions.

  2010influential reference
• Global and site-specific quantitative phosphoproteomics: principles and applications.

  2009cited by this paper
• Autophagy enhances the presentation of endogenous viral antigens on MHC class I molecules during HSV-1 infection

  2009cited by this paper
• Induction of autophagy by spermidine promotes longevity

  2009cited by this paper
• CDC25B mediates rapamycin-induced oncogenic responses in cancer cells.

  2009cited by this paper
• Regulation mechanisms and signaling pathways of autophagy.

  2009cited by this paper
• Linear Motif Atlas for Phosphorylation-Dependent Signaling

  2008cited by this paper
• MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

  2008cited by this paper
• Oxidative stress induces autophagic cell death independent of apoptosis in transformed and cancer cells

  2008cited by this paper
• A role for the NAD-dependent deacetylase Sirt1 in the regulation of autophagy

  2008cited by this paper
• Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

  2008cited by this paper
• Mitochondrially localized ERK2 regulates mitophagy and autophagic cell stress

  2008cited by this paper
• Mitochondrial Autophagy Is an HIF-1-dependent Adaptive Metabolic Response to Hypoxia*

  2008cited by this paper
• Ordered Organelle Degradation during Starvation-induced Autophagy*S

  2008cited by this paper
• Cyclin-dependent kinase 2 dependent phosphorylation of ATRIP regulates the G2-M checkpoint response to DNA damage.

  2007cited by this paper
• Assessing Bias in Experiment Design for Large Scale Mass Spectrometry-based Quantitative Proteomics*S

  2007cited by this paper
• Clustal W and Clustal X version 2.0

  2007cited by this paper
• Systematic discovery of in vivo phosphorylation networks.

  2007cited by this paper
• Autophagy: from phenomenology to molecular understanding in less than a decade

  2007cited by this paper
• Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation

  2007cited by this paper
• Global, in vivo, and site-specific phosphorylation dynamics in signaling networks.

  2006cited by this paper
• Growth factor regulation of autophagy and cell survival in the absence of apoptosis.

  2005cited by this paper
• An iterative statistical approach to the identification of protein phosphorylation motifs from large-scale data sets

  2005cited by this paper
• Noise-robust Soft Clustering of Gene Expression Time-course Data

  2005cited by this paper
• Elucidation of gene interaction networks through time-lagged correlation analysis of transcriptional data.

  2004cited by this paper
• Phosphorylation of Serine 13 Is Required for the Proper Function of the Hsp90 Co-chaperone, Cdc37*

  2003cited by this paper
• Sensitivity and specificity of inferring genetic regulatory interactions from microarray experiments with dynamic Bayesian networks

  2003cited by this paper
• Stable Isotope Labeling by Amino Acids in Cell Culture, SILAC, as a Simple and Accurate Approach to Expression Proteomics*

  2002cited by this paper
• A novel assay to study autophagy: regulation of autophagosome vacuole size by amino acid deprivation.

  2001cited by this paper
• LC3, a mammalian homologue of yeast Apg8p, is localized in autophagosome membranes after processing

  2000cited by this paper
• Phosphorylation of Ribosomal Protein S6 Is Inhibitory for Autophagy in Isolated Rat Hepatocytes (*)

  1995cited by this paper
• Inhibition of autophagic-lysosomal delivery and autophagic lactolysis by asparagine

  1991cited by this paper
• 3-Methyladenine: specific inhibitor of autophagic/lysosomal protein degradation in isolated rat hepatocytes.

  1982cited by this paper
• Functions of lysosomes.

  1966cited by this paper

• Targeted proteomics addresses selectivity and complexity of protein degradation by autophagy

  2024cites this paper
• Identification of HSPD1 as a novel invasive biomarker associated with mitophagy in pituitary adenomas

  2024cites this paper
• Glucose restriction in Saccharomyces cerevisiae modulates the phosphorylation pattern of the 20S proteasome and increases its activity

  2023cites this paper
• NIPSNAP1 directs dual mechanisms to restrain senescence in cancer cells

  2023cites this paper
• Autophagy dark genes: Can we find them with machine learning?

  2023cites this paper
• The regulatory landscape of the yeast phosphoproteome

  2022cites this paper
• mTORC1 controls Golgi architecture and vesicle secretion by phosphorylation of SCYL1

  2022cites this paper
• Autophagy in cancer cell remodeling and quality control.

  2022cites this paper
• Studying Autophagy Using a TMT-Based Quantitative Proteomics Approach.

  2022cites this paper
• Phosphoproteome Profiling Revealed the Importance of mTOR Inhibition on CDK1 Activation to Further Regulate Cell Cycle Progression.

  2021cites this paper
• NIPSNAP protein family emerges as a sensor of mitochondrial health

  2021cites this paper
• ULK1 phosphorylation of striatin activates protein phosphatase 2A and autophagy.

  2021cites this paper
• Phosphoproteomics Analysis Reveals a Pivotal Mechanism Related to Amino Acid Signals in Goat Fetal Fibroblast

  2021cites this paper
• Proteomics and Autophagy Research.

  2021cites this paper
• The Dawn of Mitophagy: What Do We Know by Now?

  2020cites this paper
• Recent advances in autophagic machinery: a proteomic perspective

  2020cites this paper
• Inhibition of TOR in Chlamydomonas reinhardtii Leads to Rapid Cysteine Oxidation Reflecting Sustained Physiological Changes

  2019cites this paper
• Phosphorylation of mitochondrial matrix proteins regulates their selective mitophagic degradation

  2019cites this paper
• NIPSNAP1 and NIPSNAP2 Act as "Eat Me" Signals for Mitophagy.

  2019cites this paper
• Autophagy dark genes: Can we find them with machine learning?

  2019cites this paper
• Multilayered Control of Protein Turnover by TORC1 and Atg1.

  2019cites this paper
• Investigating the effect of Target of Rapamycin kinase inhibition on the Chlamydomonas reinhardtii phosphoproteome: from known homologs to new targets

  2018influential citation
• Comprehensive Analysis of Lysine Acetylome Reveals a Site-Specific Pattern in Rapamycin-Induced Autophagy.

  2018cites this paper
• Noncanonical Pathway for Regulation of CCL2 Expression by an mTORC1-FOXK1 Axis Promotes Recruitment of Tumor-Associated Macrophages.

  2017cites this paper
• Recent advances in quantitative and chemical proteomics for autophagy studies

  2017cites this paper
• Study of ULK1 Catalytic Activity and Its Regulation.

  2017cites this paper
• Insights into autosomal dominant polycystic kidney disease by quantitative mass spectrometry-based proteomics

  2017cites this paper
• Phosphoproteome-based kinase activity profiling reveals the critical role of MAP2K2 and PLK1 in neuronal autophagy

  2017cites this paper
• TMEM166/EVA1A interacts with ATG16L1 and induces autophagosome formation and cell death

  2016cites this paper
• Fast and easy phosphopeptide fractionation by combinatorial ERLIC-SCX solid-phase extraction for in-depth phosphoproteome analysis

  2015cites this paper
• Connecting autophagy: AMBRA1 and its network of regulation

  2015cites this paper
• Regulation of autophagy by amino acids and MTOR-dependent signal transduction

  2014cites this paper
• Foxk proteins repress the initiation of starvation-induced atrophy and autophagy programs

  2014influential citation
• Inducing autophagy

  2013cites this paper
• University of Groningen Multilayered Control of Protein Turnover by TORC 1 and Atg 1

  year unknowncites this paper