Autophagosome formation: core machinery and adaptations.

AMPK and mTOR regulate autophagy through direct phosphorylation of Ulk1. Nat Cell Biol (2011) 15.71

Endoplasmic reticulum stress and the inflammatory basis of metabolic disease. Cell (2010) 10.96

Dynamics and diversity in autophagy mechanisms: lessons from yeast. Nat Rev Mol Cell Biol (2009) 9.32

Recognition and processing of ubiquitin-protein conjugates by the proteasome. Annu Rev Biochem (2009) 8.83

Eaten alive: a history of macroautophagy. Nat Cell Biol (2010) 8.83

Mitochondria supply membranes for autophagosome biogenesis during starvation. Cell (2010) 8.29

Mammalian autophagy: core molecular machinery and signaling regulation. Curr Opin Cell Biol (2009) 7.96

Selective autophagy mediated by autophagic adapter proteins. Autophagy (2011) 6.88

Discovery of Atg5/Atg7-independent alternative macroautophagy. Nature (2009) 6.74

Termination of autophagy and reformation of lysosomes regulated by mTOR. Nature (2010) 6.26

Defective hepatic autophagy in obesity promotes ER stress and causes insulin resistance. Cell Metab (2010) 5.82

Nix is a selective autophagy receptor for mitochondrial clearance. EMBO Rep (2009) 5.52

Autophagy inhibition compromises degradation of ubiquitin-proteasome pathway substrates. Mol Cell (2009) 5.18

p53 and metabolism. Nat Rev Cancer (2009) 5.05

De novo mutations in the autophagy gene WDR45 cause static encephalopathy of childhood with neurodegeneration in adulthood. Nat Genet (2013) 4.71

Atg9a controls dsDNA-driven dynamic translocation of STING and the innate immune response. Proc Natl Acad Sci U S A (2009) 4.48

Atg8 controls phagophore expansion during autophagosome formation. Mol Biol Cell (2008) 4.41

The role of autophagy in mammalian development: cell makeover rather than cell death. Dev Cell (2008) 4.25

An Atg1/Atg13 complex with multiple roles in TOR-mediated autophagy regulation. Mol Biol Cell (2009) 4.07

Characterization of autophagosome formation site by a hierarchical analysis of mammalian Atg proteins. Autophagy (2010) 3.99

Autophagy: cellular and molecular mechanisms. J Pathol (2010) 3.96

Emerging functions of the VCP/p97 AAA-ATPase in the ubiquitin system. Nat Cell Biol (2012) 3.90

Biology of Zika Virus Infection in Human Skin Cells. J Virol (2015) 3.87

Selective autophagy: ubiquitin-mediated recognition and beyond. Nat Cell Biol (2010) 3.74

Delivery of cytosolic components by autophagic adaptor protein p62 endows autophagosomes with unique antimicrobial properties. Immunity (2010) 3.62

High-resolution view of the yeast meiotic program revealed by ribosome profiling. Science (2011) 3.53

The Atg8 and Atg12 ubiquitin-like conjugation systems in macroautophagy. 'Protein modifications: beyond the usual suspects' review series. EMBO Rep (2008) 3.52

Dual role of 3-methyladenine in modulation of autophagy via different temporal patterns of inhibition on class I and III phosphoinositide 3-kinase. J Biol Chem (2010) 3.45

An overview of the molecular mechanism of autophagy. Curr Top Microbiol Immunol (2009) 3.29

A diacylglycerol-dependent signaling pathway contributes to regulation of antibacterial autophagy. Cell Host Microbe (2010) 3.18

The dynamic interaction of AMBRA1 with the dynein motor complex regulates mammalian autophagy. J Cell Biol (2010) 3.17

The machinery of macroautophagy. Cell Res (2013) 3.13

ER stress-induced cell death mechanisms. Biochim Biophys Acta (2013) 3.07

HDACs link the DNA damage response, processing of double-strand breaks and autophagy. Nature (2011) 3.01

An Atg9-containing compartment that functions in the early steps of autophagosome biogenesis. J Cell Biol (2010) 2.98

Mitophagy of damaged mitochondria occurs locally in distal neuronal axons and requires PINK1 and Parkin. J Cell Biol (2014) 2.95

The autophagy effector Beclin 1: a novel BH3-only protein. Oncogene (2008) 2.94

Parkin and PINK1 function in a vesicular trafficking pathway regulating mitochondrial quality control. EMBO J (2014) 2.93

TAK1 activates AMPK-dependent cytoprotective autophagy in TRAIL-treated epithelial cells. EMBO J (2009) 2.88

Tor directly controls the Atg1 kinase complex to regulate autophagy. Mol Cell Biol (2009) 2.86

The known unknowns of antigen processing and presentation. Nat Rev Immunol (2008) 2.85

Autophagy pathway intersects with HIV-1 biosynthesis and regulates viral yields in macrophages. J Cell Biol (2009) 2.83

Mitophagy in yeast occurs through a selective mechanism. J Biol Chem (2008) 2.80

Early endosomes and endosomal coatomer are required for autophagy. J Cell Biol (2009) 2.69

Post-Golgi Sec proteins are required for autophagy in Saccharomyces cerevisiae. Mol Biol Cell (2010) 2.66

MyD88 and Trif target Beclin 1 to trigger autophagy in macrophages. J Biol Chem (2008) 2.63

Life on the inside: the intracellular lifestyle of cytosolic bacteria. Nat Rev Microbiol (2009) 2.62

Targeting the prodeath and prosurvival functions of autophagy as novel therapeutic strategies in cancer. Autophagy (2010) 2.62

Unconventional secretion of Pichia pastoris Acb1 is dependent on GRASP protein, peroxisomal functions, and autophagosome formation. J Cell Biol (2010) 2.58

FYCO1 is a Rab7 effector that binds to LC3 and PI3P to mediate microtubule plus end-directed vesicle transport. J Cell Biol (2010) 2.57

Autophagosome targeting and membrane curvature sensing by Barkor/Atg14(L). Proc Natl Acad Sci U S A (2011) 2.46

Autophagosome precursor maturation requires homotypic fusion. Cell (2011) 2.39

Autophagy negatively regulates Wnt signalling by promoting Dishevelled degradation. Nat Cell Biol (2010) 2.37

Role of JNK1-dependent Bcl-2 phosphorylation in ceramide-induced macroautophagy. J Biol Chem (2008) 2.31

Modulation of intracellular ROS levels by TIGAR controls autophagy. EMBO J (2009) 2.31

Apolipoprotein L1, a novel Bcl-2 homology domain 3-only lipid-binding protein, induces autophagic cell death. J Biol Chem (2008) 2.30

The Tor and PKA signaling pathways independently target the Atg1/Atg13 protein kinase complex to control autophagy. Proc Natl Acad Sci U S A (2009) 2.30

Autophagosomes initiate distally and mature during transport toward the cell soma in primary neurons. J Cell Biol (2012) 2.30

Targeted activation of innate immunity for therapeutic induction of autophagy and apoptosis in melanoma cells. Cancer Cell (2009) 2.28

Ubiquilin functions in autophagy and is degraded by chaperone-mediated autophagy. Hum Mol Genet (2010) 2.25

The scaffold protein Atg11 recruits fission machinery to drive selective mitochondria degradation by autophagy. Dev Cell (2013) 2.24

Pex3-anchored Atg36 tags peroxisomes for degradation in Saccharomyces cerevisiae. EMBO J (2012) 2.23

Eating the enemy within: autophagy in infectious diseases. Cell Death Differ (2008) 2.17

p62 Targeting to the autophagosome formation site requires self-oligomerization but not LC3 binding. J Cell Biol (2011) 2.16

Autophagy failure in Alzheimer's disease--locating the primary defect. Neurobiol Dis (2011) 2.14

Maternal control of early mouse development. Development (2010) 2.13

Atg1-mediated myosin II activation regulates autophagosome formation during starvation-induced autophagy. EMBO J (2010) 2.12

Hypoxia-induced autophagy promotes tumor cell survival and adaptation to antiangiogenic treatment in glioblastoma. Cancer Res (2012) 2.12

Exit from the Golgi is required for the expansion of the autophagosomal phagophore in yeast Saccharomyces cerevisiae. Mol Biol Cell (2010) 2.10

IRGM is a common target of RNA viruses that subvert the autophagy network. PLoS Pathog (2011) 2.09

Control of autophagy initiation by phosphoinositide 3-phosphatase Jumpy. EMBO J (2009) 2.07

Retrograde axonal transport: pathways to cell death? Trends Neurosci (2010) 2.06

Impaired autophagic flux mediates acinar cell vacuole formation and trypsinogen activation in rodent models of acute pancreatitis. J Clin Invest (2009) 2.06

Mitochondria removal by autophagy. Autophagy (2011) 2.04

Cargo binding to Atg19 unmasks additional Atg8 binding sites to mediate membrane-cargo apposition during selective autophagy. Nat Cell Biol (2014) 2.00

Early autophagic response in a novel knock-in model of Huntington disease. Hum Mol Genet (2010) 1.99

ApoL1, a BH3-only lipid-binding protein, induces autophagic cell death. Autophagy (2008) 1.87

Autophagy contributes to leaf starch degradation. Plant Cell (2013) 1.85

Binding of the Atg1/ULK1 kinase to the ubiquitin-like protein Atg8 regulates autophagy. EMBO J (2012) 1.83

p62 and NDP52 proteins target intracytosolic Shigella and Listeria to different autophagy pathways. J Biol Chem (2011) 1.82

The Legionella effector RavZ inhibits host autophagy through irreversible Atg8 deconjugation. Science (2012) 1.82

Autophagy protein microtubule-associated protein 1 light chain-3B (LC3B) activates extrinsic apoptosis during cigarette smoke-induced emphysema. Proc Natl Acad Sci U S A (2010) 1.82

Cytoprotective roles for autophagy. Curr Opin Cell Biol (2010) 1.81

Sent to destroy: the ubiquitin proteasome system regulates cell signaling and protein quality control in cardiovascular development and disease. Circ Res (2010) 1.78

Mammalian macroautophagy at a glance. J Cell Sci (2009) 1.78

Viruses and autophagy. Rev Med Virol (2009) 1.75

Skeletal muscle autophagy and apoptosis during aging: effects of calorie restriction and life-long exercise. Exp Gerontol (2009) 1.74

EGFR tyrosine kinase inhibitors activate autophagy as a cytoprotective response in human lung cancer cells. PLoS One (2011) 1.73

Conserved role for autophagy in Rho1-mediated cortical remodeling and blood cell recruitment. Proc Natl Acad Sci U S A (2010) 1.71

Autophagic dysfunction in mucolipidosis type IV patients. Hum Mol Genet (2008) 1.66

Therapeutic potential of a synthetic lethal interaction between the MYC proto-oncogene and inhibition of aurora-B kinase. Proc Natl Acad Sci U S A (2010) 1.65

Regulation of glycogen metabolism in yeast and bacteria. FEMS Microbiol Rev (2010) 1.64

Membrane delivery to the yeast autophagosome from the Golgi-endosomal system. Mol Biol Cell (2010) 1.61

PICALM modulates autophagy activity and tau accumulation. Nat Commun (2014) 1.60

The decreased expression of Beclin-1 correlates with progression to esophageal adenocarcinoma: the role of deoxycholic acid. Am J Physiol Gastrointest Liver Physiol (2012) 1.60

Role of autophagy in glycogen breakdown and its relevance to chloroquine myopathy. PLoS Biol (2013) 1.59

Control of autophagy maturation by acid sphingomyelinase in mouse coronary arterial smooth muscle cells: protective role in atherosclerosis. J Mol Med (Berl) (2014) 1.59

Liver autophagy contributes to the maintenance of blood glucose and amino acid levels. Autophagy (2011) 1.59

Self-interaction is critical for Atg9 transport and function at the phagophore assembly site during autophagy. Mol Biol Cell (2008) 1.58

Assaying autophagic activity in transgenic GFP-Lc3 and GFP-Gabarap zebrafish embryos. Autophagy (2009) 1.57

Autophagy fights disease through cellular self-digestion. Nature (2008) 33.83

Development by self-digestion: molecular mechanisms and biological functions of autophagy. Dev Cell (2004) 21.68

Regulation mechanisms and signaling pathways of autophagy. Annu Rev Genet (2009) 14.06

Autophagy in health and disease: a double-edged sword. Science (2004) 13.69

A unified nomenclature for yeast autophagy-related genes. Dev Cell (2003) 9.18

Eaten alive: a history of macroautophagy. Nat Cell Biol (2010) 8.83

Potential therapeutic applications of autophagy. Nat Rev Drug Discov (2007) 8.56

Mammalian autophagy: core molecular machinery and signaling regulation. Curr Opin Cell Biol (2009) 7.96

Atg32 is a mitochondrial protein that confers selectivity during mitophagy. Dev Cell (2009) 5.77

Protein turnover via autophagy: implications for metabolism. Annu Rev Nutr (2007) 5.75

Endoplasmic reticulum stress triggers autophagy. J Biol Chem (2006) 5.05

The Atg1-Atg13 complex regulates Atg9 and Atg23 retrieval transport from the pre-autophagosomal structure. Dev Cell (2004) 4.72

Mechanism of cargo selection in the cytoplasm to vacuole targeting pathway. Dev Cell (2002) 4.49

Atg8 controls phagophore expansion during autophagosome formation. Mol Biol Cell (2008) 4.41

In search of an "autophagomometer". Autophagy (2009) 4.31

Convergence of multiple autophagy and cytoplasm to vacuole targeting components to a perivacuolar membrane compartment prior to de novo vesicle formation. J Biol Chem (2001) 3.90

Cargo proteins facilitate the formation of transport vesicles in the cytoplasm to vacuole targeting pathway. J Biol Chem (2004) 3.86

Atg17 regulates the magnitude of the autophagic response. Mol Biol Cell (2005) 3.71

Autophagy in the eukaryotic cell. Eukaryot Cell (2002) 3.61

The Atg8 and Atg12 ubiquitin-like conjugation systems in macroautophagy. 'Protein modifications: beyond the usual suspects' review series. EMBO Rep (2008) 3.52

Physiological functions of Atg6/Beclin 1: a unique autophagy-related protein. Cell Res (2007) 3.49

Does bafilomycin A1 block the fusion of autophagosomes with lysosomes? Autophagy (2008) 3.47

An overview of the molecular mechanism of autophagy. Curr Top Microbiol Immunol (2009) 3.29

Autophagy and human disease. Cell Cycle (2007) 3.22

A diacylglycerol-dependent signaling pathway contributes to regulation of antibacterial autophagy. Cell Host Microbe (2010) 3.18

The Atg1 kinase complex is involved in the regulation of protein recruitment to initiate sequestering vesicle formation for nonspecific autophagy in Saccharomyces cerevisiae. Mol Biol Cell (2007) 3.10

SNARE proteins are required for macroautophagy. Cell (2011) 2.99

An Atg9-containing compartment that functions in the early steps of autophagosome biogenesis. J Cell Biol (2010) 2.98

Early stages of the secretory pathway, but not endosomes, are required for Cvt vesicle and autophagosome assembly in Saccharomyces cerevisiae. Mol Biol Cell (2004) 2.84

Cooperative binding of the cytoplasm to vacuole targeting pathway proteins, Cvt13 and Cvt20, to phosphatidylinositol 3-phosphate at the pre-autophagosomal structure is required for selective autophagy. J Biol Chem (2002) 2.80

Mitophagy in yeast occurs through a selective mechanism. J Biol Chem (2008) 2.80

The regulation of autophagy - unanswered questions. J Cell Sci (2011) 2.73

Atg11 links cargo to the vesicle-forming machinery in the cytoplasm to vacuole targeting pathway. Mol Biol Cell (2005) 2.73

Chemical genetic analysis of Apg1 reveals a non-kinase role in the induction of autophagy. Mol Biol Cell (2003) 2.72

Post-Golgi Sec proteins are required for autophagy in Saccharomyces cerevisiae. Mol Biol Cell (2010) 2.66

The molecular mechanism of autophagy. Mol Med (2003) 2.63

Eating the endoplasmic reticulum: quality control by autophagy. Trends Cell Biol (2007) 2.60

Trs85 directs a Ypt1 GEF, TRAPPIII, to the phagophore to promote autophagy. Proc Natl Acad Sci U S A (2010) 2.53

Atg9 cycles between mitochondria and the pre-autophagosomal structure in yeasts. Autophagy (2005) 2.52

Atg21 is a phosphoinositide binding protein required for efficient lipidation and localization of Atg8 during uptake of aminopeptidase I by selective autophagy. Mol Biol Cell (2004) 2.51

Protein kinase A and Sch9 cooperatively regulate induction of autophagy in Saccharomyces cerevisiae. Mol Biol Cell (2007) 2.45

Autophagosomes: biogenesis from scratch? Curr Opin Cell Biol (2005) 2.42

The Ras/cAMP-dependent protein kinase signaling pathway regulates an early step of the autophagy process in Saccharomyces cerevisiae. J Biol Chem (2004) 2.40

Recruitment of Atg9 to the preautophagosomal structure by Atg11 is essential for selective autophagy in budding yeast. J Cell Biol (2006) 2.35

Molecular mechanisms and regulation of specific and nonspecific autophagy pathways in yeast. J Biol Chem (2005) 2.33

Aup1p, a yeast mitochondrial protein phosphatase homolog, is required for efficient stationary phase mitophagy and cell survival. J Biol Chem (2006) 2.32

The Cvt pathway as a model for selective autophagy. FEBS Lett (2010) 2.26

The scaffold protein Atg11 recruits fission machinery to drive selective mitochondria degradation by autophagy. Dev Cell (2013) 2.24

The conserved oligomeric Golgi complex is involved in double-membrane vesicle formation during autophagy. J Cell Biol (2010) 2.12

Autophagy in yeast: a review of the molecular machinery. Cell Struct Funct (2002) 2.09

How to live long and prosper: autophagy, mitochondria, and aging. Physiology (Bethesda) (2008) 2.08

A genomic screen for yeast mutants defective in selective mitochondria autophagy. Mol Biol Cell (2009) 2.04

Mitochondria removal by autophagy. Autophagy (2011) 2.04

An overview of autophagy: morphology, mechanism, and regulation. Antioxid Redox Signal (2013) 2.04

Atg27 is required for autophagy-dependent cycling of Atg9. Mol Biol Cell (2006) 1.98

The actin cytoskeleton is required for selective types of autophagy, but not nonspecific autophagy, in the yeast Saccharomyces cerevisiae. Mol Biol Cell (2005) 1.94

Atg22 recycles amino acids to link the degradative and recycling functions of autophagy. Mol Biol Cell (2006) 1.85

Yeast homotypic vacuole fusion requires the Ccz1-Mon1 complex during the tethering/docking stage. J Cell Biol (2003) 1.81

Arp2 links autophagic machinery with the actin cytoskeleton. Mol Biol Cell (2008) 1.80

Autophagic processes in yeast: mechanism, machinery and regulation. Genetics (2013) 1.78

Biochemical methods to monitor autophagy-related processes in yeast. Methods Enzymol (2008) 1.68

Vps51 is part of the yeast Vps fifty-three tethering complex essential for retrograde traffic from the early endosome and Cvt vesicle completion. J Biol Chem (2002) 1.66

Endoplasmic reticulum stress: a new pathway to induce autophagy. Autophagy (2007) 1.62

A cycling protein complex required for selective autophagy. Autophagy (2007) 1.60

Molecular machinery required for autophagy and the cytoplasm to vacuole targeting (Cvt) pathway in S. cerevisiae. Curr Opin Cell Biol (2002) 1.60

Self-interaction is critical for Atg9 transport and function at the phagophore assembly site during autophagy. Mol Biol Cell (2008) 1.58

Assaying autophagic activity in transgenic GFP-Lc3 and GFP-Gabarap zebrafish embryos. Autophagy (2009) 1.57

Quantitative analysis of autophagy-related protein stoichiometry by fluorescence microscopy. J Cell Biol (2008) 1.55

Regulation of macroautophagy in Saccharomyces cerevisiae. Semin Cell Dev Biol (2010) 1.51

The molecular mechanism of mitochondria autophagy in yeast. Mol Microbiol (2010) 1.51

The Ccz1-Mon1 protein complex is required for the late step of multiple vacuole delivery pathways. J Biol Chem (2002) 1.50

Receptor protein complexes are in control of autophagy. Autophagy (2012) 1.49

In vivo reconstitution of autophagy in Saccharomyces cerevisiae. J Cell Biol (2008) 1.48

Increased levels of reduced cytochrome b and mitophagy components are required to trigger nonspecific autophagy following induced mitochondrial dysfunction. J Cell Sci (2012) 1.45

Autophagy in organelle homeostasis: peroxisome turnover. Mol Aspects Med (2006) 1.44

The role of autophagy in Parkinson's disease. Cold Spring Harb Perspect Med (2012) 1.44

The quantitative Pho8Delta60 assay of nonspecific autophagy. Methods Enzymol (2008) 1.44

The histone H4 lysine 16 acetyltransferase hMOF regulates the outcome of autophagy. Nature (2013) 1.43

Multiple roles of the cytoskeleton in autophagy. Biol Rev Camb Philos Soc (2009) 1.43

Atg23 is essential for the cytoplasm to vacuole targeting pathway and efficient autophagy but not pexophagy. J Biol Chem (2003) 1.39

Two MAPK-signaling pathways are required for mitophagy in Saccharomyces cerevisiae. J Cell Biol (2011) 1.37

A role for Atg8-PE deconjugation in autophagosome biogenesis. Autophagy (2012) 1.35

In the beginning there was babble... Autophagy (2012) 1.35

Trs85 is required for macroautophagy, pexophagy and cytoplasm to vacuole targeting in Yarrowia lipolytica and Saccharomyces cerevisiae. Autophagy (2005) 1.32

Roles of the lipid-binding motifs of Atg18 and Atg21 in the cytoplasm to vacuole targeting pathway and autophagy. J Biol Chem (2010) 1.28

Cell biology: regulated self-cannibalism. Nature (2004) 1.26

Positive or negative roles of different cyclin-dependent kinase Pho85-cyclin complexes orchestrate induction of autophagy in Saccharomyces cerevisiae. Mol Cell (2010) 1.23

The regulation of aging: does autophagy underlie longevity? Trends Cell Biol (2009) 1.22

Antibacterial autophagy occurs at PI(3)P-enriched domains of the endoplasmic reticulum and requires Rab1 GTPase. Autophagy (2011) 1.20

Aspartyl aminopeptidase is imported from the cytoplasm to the vacuole by selective autophagy in Saccharomyces cerevisiae. J Biol Chem (2011) 1.17

Relieving autophagy and 4EBP1 from rapamycin resistance. Mol Cell Biol (2011) 1.16

The variability of autophagy and cell death susceptibility: Unanswered questions. Autophagy (2013) 1.15

Monitoring mitophagy in yeast: the Om45-GFP processing assay. Autophagy (2009) 1.14

Dual roles of Atg8-PE deconjugation by Atg4 in autophagy. Autophagy (2012) 1.14

Artophagy: the art of autophagy--the Cvt pathway. Autophagy (2010) 1.13

The quiz factor. CBE Life Sci Educ (2008) 1.13

Tap42-associated protein phosphatase type 2A negatively regulates induction of autophagy. Autophagy (2009) 1.12

Atg29 phosphorylation regulates coordination of the Atg17-Atg31-Atg29 complex with the Atg11 scaffold during autophagy initiation. Proc Natl Acad Sci U S A (2013) 1.10

Mitochondria autophagy in yeast. Antioxid Redox Signal (2011) 1.10

A genomic screen for yeast mutants defective in mitophagy. Autophagy (2010) 1.08