Published in Hum Mol Genet on November 01, 2007
PINK1/Parkin-mediated mitophagy is dependent on VDAC1 and p62/SQSTM1. Nat Cell Biol (2010) 12.26
Selective autophagy mediated by autophagic adapter proteins. Autophagy (2011) 6.88
Cellular strategies for controlling protein aggregation. Nat Rev Mol Cell Biol (2010) 3.54
Acetylation of tau inhibits its degradation and contributes to tauopathy. Neuron (2010) 3.15
Ubiquitin accumulation in autophagy-deficient mice is dependent on the Nrf2-mediated stress response pathway: a potential role for protein aggregation in autophagic substrate selection. J Cell Biol (2010) 2.32
Ubiquitination and selective autophagy. Cell Death Differ (2012) 2.12
The role of parkin in familial and sporadic Parkinson's disease. Mov Disord (2010) 1.90
Impaired protein aggregate handling and clearance underlie the pathogenesis of p97/VCP-associated disease. J Biol Chem (2008) 1.82
HDAC inhibitor-based therapies: can we interpret the code? Mol Oncol (2012) 1.67
Chaperone-mediated autophagy: roles in disease and aging. Cell Res (2013) 1.57
Integration of clearance mechanisms: the proteasome and autophagy. Cold Spring Harb Perspect Biol (2010) 1.52
Aggrephagy: selective disposal of protein aggregates by macroautophagy. Int J Cell Biol (2012) 1.52
Polyubiquitin linkage profiles in three models of proteolytic stress suggest the etiology of Alzheimer disease. J Biol Chem (2011) 1.48
Ubiquitination directly enhances activity of the deubiquitinating enzyme ataxin-3. EMBO J (2009) 1.46
Suppression of protein aggregation by chaperone modification of high molecular weight complexes. Brain (2012) 1.42
Identification of an autophagy defect in smokers' alveolar macrophages. J Immunol (2010) 1.36
Avid interactions underlie the Lys63-linked polyubiquitin binding specificities observed for UBA domains. Nat Struct Mol Biol (2009) 1.35
Of the atypical PKCs, Par-4 and p62: recent understandings of the biology and pathology of a PB1-dominated complex. Cell Death Differ (2009) 1.35
Parkin-mediated ubiquitin signalling in aggresome formation and autophagy. Biochem Soc Trans (2010) 1.31
Sequestosome 1/p62 links familial ALS mutant SOD1 to LC3 via an ubiquitin-independent mechanism. J Neurochem (2009) 1.26
A perturbed ubiquitin landscape distinguishes between ubiquitin in trafficking and in proteolysis. Mol Cell Proteomics (2011) 1.25
Dynamics of the degradation of ubiquitinated proteins by proteasomes and autophagy: association with sequestosome 1/p62. J Biol Chem (2011) 1.24
K63 polyubiquitination is a new modulator of the oxidative stress response. Nat Struct Mol Biol (2015) 1.24
The ubiquitin-proteasome pathway and synaptic plasticity. Learn Mem (2010) 1.20
Relationship between the proteasomal system and autophagy. Int J Biochem Mol Biol (2013) 1.16
Multiplex SILAC analysis of a cellular TDP-43 proteinopathy model reveals protein inclusions associated with SUMOylation and diverse polyubiquitin chains. Mol Cell Proteomics (2010) 1.16
The role of ubiquitin in autophagy-dependent protein aggregate processing. Genes Cancer (2010) 1.15
Tau-based treatment strategies in neurodegenerative diseases. Neurotherapeutics (2008) 1.13
The elimination of accumulated and aggregated proteins: a role for aggrephagy in neurodegeneration. Neurobiol Dis (2010) 1.12
Virus-Induced Chaperone-Enriched (VICE) domains function as nuclear protein quality control centers during HSV-1 infection. PLoS Pathog (2009) 1.11
The ubiquitin-proteasome system in neurodegenerative diseases: precipitating factor, yet part of the solution. Front Mol Neurosci (2014) 1.10
Protein aggregation and degradation mechanisms in neurodegenerative diseases. Am J Neurodegener Dis (2013) 1.09
Disruption of protein quality control in Parkinson's disease. Cold Spring Harb Perspect Med (2012) 1.07
Differential roles of the ubiquitin proteasome system and autophagy in the clearance of soluble and aggregated TDP-43 species. J Cell Sci (2014) 1.06
Posttranslational modification and quality control. Circ Res (2013) 1.06
Mitochondrial dysfunction and mitophagy: the beginning and end to diabetic nephropathy? Br J Pharmacol (2014) 1.02
Molecular determinants of selective clearance of protein inclusions by autophagy. Nat Commun (2012) 1.00
Rapamycin activates autophagy in Hutchinson-Gilford progeria syndrome: implications for normal aging and age-dependent neurodegenerative disorders. Autophagy (2012) 1.00
Crystal structures of Lys-63-linked tri- and di-ubiquitin reveal a highly extended chain architecture. Proteins (2009) 0.99
Mitochondrial dynamics and Parkinson's disease: focus on parkin. Antioxid Redox Signal (2011) 0.99
Parkin ubiquitinates Tar-DNA binding protein-43 (TDP-43) and promotes its cytosolic accumulation via interaction with histone deacetylase 6 (HDAC6). J Biol Chem (2012) 0.97
Mechanisms of Selective Autophagy. J Mol Biol (2016) 0.97
Proteasome malfunction activates macroautophagy in the heart. Am J Cardiovasc Dis (2011) 0.96
GSK-3β signaling determines autophagy activation in the breast tumor cell line MCF7 and inclusion formation in the non-tumor cell line MCF10A in response to proteasome inhibition. Cell Death Dis (2013) 0.96
CYLD, a deubiquitinase specific for lysine63-linked polyubiquitins, accumulates at the postsynaptic density in an activity-dependent manner. Biochem Biophys Res Commun (2012) 0.93
The laforin-malin complex, involved in Lafora disease, promotes the incorporation of K63-linked ubiquitin chains into AMP-activated protein kinase beta subunits. Mol Biol Cell (2010) 0.91
P62/SQSTM1 at the interface of aging, autophagy, and disease. Age (Dordr) (2014) 0.91
Proteasome inhibition promotes Parkin-Ubc13 interaction and lysine 63-linked ubiquitination. PLoS One (2013) 0.90
Malin regulates Wnt signaling pathway through degradation of dishevelled2. J Biol Chem (2012) 0.89
Protein-protein interaction antagonists as novel inhibitors of non-canonical polyubiquitylation. PLoS One (2010) 0.89
Versatile roles of k63-linked ubiquitin chains in trafficking. Cells (2014) 0.88
Identification of proteins sensitive to thermal stress in human neuroblastoma and glioma cell lines. PLoS One (2012) 0.88
K63 linked ubiquitin chain formation is a signal for HIF1A degradation by Chaperone-Mediated Autophagy. Sci Rep (2015) 0.88
Proteolysis, synaptic plasticity and memory. Neurobiol Learn Mem (2016) 0.88
Insulin receptor substrate 1/2 (IRS1/2) regulates Wnt/β-catenin signaling through blocking autophagic degradation of dishevelled2. J Biol Chem (2014) 0.88
Receptor proteins in selective autophagy. Int J Cell Biol (2012) 0.87
Ankyrin repeat and suppressor of cytokine signaling box containing protein-10 is associated with ubiquitin-mediated degradation pathways in trabecular meshwork cells. Mol Vis (2013) 0.87
Cathepsin L Mediates the Degradation of Novel APP C-Terminal Fragments. Biochemistry (2015) 0.87
Convergence of Parkin, PINK1, and α-Synuclein on Stress-induced Mitochondrial Morphological Remodeling. J Biol Chem (2015) 0.86
The ubiquitin-proteasome system in spongiform degenerative disorders. Biochim Biophys Acta (2008) 0.86
Proteomics of protein post-translational modifications implicated in neurodegeneration. Transl Neurodegener (2014) 0.86
Effects of Sex, Strain, and Energy Intake on Hallmarks of Aging in Mice. Cell Metab (2016) 0.85
UEV-1 is an ubiquitin-conjugating enzyme variant that regulates glutamate receptor trafficking in C. elegans neurons. PLoS One (2010) 0.85
CaMKII mediates recruitment and activation of the deubiquitinase CYLD at the postsynaptic density. PLoS One (2014) 0.85
Niclosamide prevents the formation of large ubiquitin-containing aggregates caused by proteasome inhibition. PLoS One (2010) 0.85
Ataxin-3 regulates aggresome formation of copper-zinc superoxide dismutase (SOD1) by editing K63-linked polyubiquitin chains. J Biol Chem (2012) 0.85
Mutations in the ubiquitin-binding domain of OPTN/optineurin interfere with autophagy-mediated degradation of misfolded proteins by a dominant-negative mechanism. Autophagy (2015) 0.85
The Interplay between Alpha-Synuclein Clearance and Spreading. Biomolecules (2015) 0.84
The ubiquitin signal and autophagy: an orchestrated dance leading to mitochondrial degradation. EMBO Rep (2016) 0.84
VCP/p97 cooperates with YOD1, UBXD1 and PLAA to drive clearance of ruptured lysosomes by autophagy. EMBO J (2016) 0.83
Interferon-stimulated gene 15 (ISG15) and ISG15-linked proteins can associate with members of the selective autophagic process, histone deacetylase 6 (HDAC6) and SQSTM1/p62. J Biol Chem (2014) 0.83
VBP1 facilitates proteasome and autophagy-mediated degradation of MutS homologue hMSH4. FASEB J (2013) 0.83
Quality control systems in cardiac aging. Ageing Res Rev (2015) 0.83
UCHL1 deficiency exacerbates human islet amyloid polypeptide toxicity in β-cells: evidence of interplay between the ubiquitin/proteasome system and autophagy. Autophagy (2014) 0.83
Lysine 63-linked ubiquitination is important for arachidonic acid-induced cellular adhesion and migration. Biochem Cell Biol (2010) 0.83
Copper-triggered aggregation of ubiquitin. PLoS One (2009) 0.82
Low autophagy capacity implicated in motor system vulnerability to mutant superoxide dismutase. Acta Neuropathol Commun (2016) 0.82
LRRK2 dephosphorylation increases its ubiquitination. Biochem J (2015) 0.82
Protein misfolding specifies recruitment to cytoplasmic inclusion bodies. J Cell Biol (2016) 0.81
Autophagy regulates T lymphocyte proliferation through selective degradation of the cell-cycle inhibitor CDKN1B/p27Kip1. Autophagy (2015) 0.80
Ubiquitin ligase Nedd4-2 modulates Kv1.3 current amplitude and ion channel protein targeting. J Neurophysiol (2016) 0.80
Residues 240-250 in the C-terminus of the Pirh2 protein complement the function of the RING domain in self-ubiquitination of the Pirh2 protein. PLoS One (2013) 0.80
Individual Src-family tyrosine kinases direct the degradation or protection of the clock protein Timeless via differential ubiquitylation. Cell Signal (2012) 0.80
Mahogunin regulates fusion between amphisomes/MVBs and lysosomes via ubiquitination of TSG101. Cell Death Dis (2015) 0.78
Dual roles for ubiquitination in the processing of sperm organelles after fertilization. BMC Dev Biol (2014) 0.78
K63-Linked Ubiquitination Targets Toxoplasma gondii for Endo-lysosomal Destruction in IFNγ-Stimulated Human Cells. PLoS Pathog (2016) 0.78
Ubiquitin-activating enzyme activity contributes to differential accumulation of mutant huntingtin in brain and peripheral tissues. J Neurosci (2014) 0.78
Neuronal autophagy: self-eating or self-cannibalism in Alzheimer's disease. Neurochem Res (2013) 0.78
Implications of therapy-induced selective autophagy on tumor metabolism and survival. Int J Cell Biol (2012) 0.78
Parkin Protects Against Misfolded SOD1 Toxicity by Promoting Its Aggresome Formation and Autophagic Clearance. Mol Neurobiol (2015) 0.78
Accumulation of Ubiquitin and Sequestosome-1 Implicate Protein Damage in Diacetyl-Induced Cytotoxicity. Am J Pathol (2016) 0.78
The different roles of selective autophagic protein degradation in mammalian cells. Oncotarget (2015) 0.77
Mahogunin-mediated α-tubulin ubiquitination via noncanonical K6 linkage regulates microtubule stability and mitotic spindle orientation. Cell Death Dis (2014) 0.77
The Jak/STAT signaling pathway is downregulated at febrile temperatures. PLoS One (2012) 0.77
p62 links the autophagy pathway and the ubiqutin-proteasome system upon ubiquitinated protein degradation. Cell Mol Biol Lett (2016) 0.76
IKK regulates the deubiquitinase CYLD at the postsynaptic density. Biochem Biophys Res Commun (2014) 0.76
The Guanine nucleotide exchange factor kalirin-7 is a novel synphilin-1 interacting protein and modifies synphilin-1 aggregate transport and formation. PLoS One (2012) 0.76
Cytosolic PTEN-induced Putative Kinase 1 Is Stabilized by the NF-κB Pathway and Promotes Non-selective Mitophagy. J Biol Chem (2015) 0.76
USP14 regulates autophagy by suppressing K63 ubiquitination of Beclin 1. Genes Dev (2016) 0.76
Parkin Regulation and Neurodegenerative Disorders. Front Aging Neurosci (2016) 0.76
The impact of microRNAs on protein output. Nature (2008) 32.39
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat Methods (2007) 25.29
Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes. Autophagy (2007) 20.92
ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage. Science (2007) 20.11
Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy (2012) 20.08
Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1. Nature (2005) 18.41
Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer. Cell (2007) 17.98
Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase. Science (2004) 17.38
A PGC1-α-dependent myokine that drives brown-fat-like development of white fat and thermogenesis. Nature (2012) 14.67
A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat Biotechnol (2006) 12.13
Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: the yeast proteome. J Proteome Res (2003) 11.96
Defining the human deubiquitinating enzyme interaction landscape. Cell (2009) 11.39
Network organization of the human autophagy system. Nature (2010) 11.38
Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. Proc Natl Acad Sci U S A (2003) 10.82
Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc Natl Acad Sci U S A (2004) 10.78
A proteomics approach to understanding protein ubiquitination. Nat Biotechnol (2003) 10.51
A quantitative atlas of mitotic phosphorylation. Proc Natl Acad Sci U S A (2008) 10.07
Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain. PLoS Genet (2010) 8.74
A tissue-specific atlas of mouse protein phosphorylation and expression. Cell (2010) 8.65
Mediation of poly(ADP-ribose) polymerase-1-dependent cell death by apoptosis-inducing factor. Science (2002) 8.41
PINK1-dependent recruitment of Parkin to mitochondria in mitophagy. Proc Natl Acad Sci U S A (2009) 8.25
Molecular pathways of neurodegeneration in Parkinson's disease. Science (2003) 7.55
Systematic and quantitative assessment of the ubiquitin-modified proteome. Mol Cell (2011) 7.30
Parkinson's disease-associated mutations in leucine-rich repeat kinase 2 augment kinase activity. Proc Natl Acad Sci U S A (2005) 6.98
Comprehensive proteomic analysis of the human spliceosome. Nature (2002) 6.85
Abraxas and RAP80 form a BRCA1 protein complex required for the DNA damage response. Science (2007) 6.77
Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations. Nat Methods (2005) 6.73
mTOR and S6K1 mediate assembly of the translation preinitiation complex through dynamic protein interchange and ordered phosphorylation events. Cell (2005) 6.71
Identification of the FANCI protein, a monoubiquitinated FANCD2 paralog required for DNA repair. Cell (2007) 6.68
Large-scale phosphorylation analysis of mouse liver. Proc Natl Acad Sci U S A (2007) 6.08
An iterative statistical approach to the identification of protein phosphorylation motifs from large-scale data sets. Nat Biotechnol (2005) 5.93
Molecular pathophysiology of Parkinson's disease. Annu Rev Neurosci (2005) 5.93
Mutant presenilins specifically elevate the levels of the 42 residue beta-amyloid peptide in vivo: evidence for augmentation of a 42-specific gamma secretase. Hum Mol Genet (2003) 5.92
Phosphoproteomic analysis identifies Grb10 as an mTORC1 substrate that negatively regulates insulin signaling. Science (2011) 5.73
An AMPK-FOXO pathway mediates longevity induced by a novel method of dietary restriction in C. elegans. Curr Biol (2007) 5.48
Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair. Cell (2009) 5.41
Ubiquitin chain editing revealed by polyubiquitin linkage-specific antibodies. Cell (2008) 5.37
Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution. Science (2009) 5.37
Kinase activity of mutant LRRK2 mediates neuronal toxicity. Nat Neurosci (2006) 5.32
Human ESCRT and ALIX proteins interact with proteins of the midbody and function in cytokinesis. EMBO J (2007) 5.31
Tumor-promoting phorbol esters and activated Ras inactivate the tuberous sclerosis tumor suppressor complex via p90 ribosomal S6 kinase. Proc Natl Acad Sci U S A (2004) 5.16
The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry. Nat Protoc (2008) 5.10
Enhancement of proteasome activity by a small-molecule inhibitor of USP14. Nature (2010) 5.08
Signaling networks assembled by oncogenic EGFR and c-Met. Proc Natl Acad Sci U S A (2008) 5.08
Parkinson's disease-associated mutations in LRRK2 link enhanced GTP-binding and kinase activities to neuronal toxicity. Hum Mol Genet (2007) 4.99
Initiation of myoblast to brown fat switch by a PRDM16-C/EBP-beta transcriptional complex. Nature (2009) 4.98
S-nitrosylation of parkin regulates ubiquitination and compromises parkin's protective function. Science (2004) 4.97
BAD and glucokinase reside in a mitochondrial complex that integrates glycolysis and apoptosis. Nature (2003) 4.80
Increased expression of alpha-synuclein reduces neurotransmitter release by inhibiting synaptic vesicle reclustering after endocytosis. Neuron (2010) 4.76
Regulation of monoubiquitinated PCNA by DUB autocleavage. Nat Cell Biol (2006) 4.67
Inhibitors of leucine-rich repeat kinase-2 protect against models of Parkinson's disease. Nat Med (2010) 4.45
Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell (2004) 4.34
Quantitative analysis of in vitro ubiquitinated cyclin B1 reveals complex chain topology. Nat Cell Biol (2006) 4.25
Optimization and use of peptide mass measurement accuracy in shotgun proteomics. Mol Cell Proteomics (2006) 4.25
The energy sensor AMP-activated protein kinase directly regulates the mammalian FOXO3 transcription factor. J Biol Chem (2007) 4.22
Toca-1 mediates Cdc42-dependent actin nucleation by activating the N-WASP-WIP complex. Cell (2004) 4.21
Ubiquitin-like protein involved in the proteasome pathway of Mycobacterium tuberculosis. Science (2008) 4.15
PARIS (ZNF746) repression of PGC-1α contributes to neurodegeneration in Parkinson's disease. Cell (2011) 4.00
Parkin mediates nonclassical, proteasomal-independent ubiquitination of synphilin-1: implications for Lewy body formation. J Neurosci (2005) 3.92
Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae. Mol Cell Proteomics (2002) 3.89
Genetic animal models of Parkinson's disease. Neuron (2010) 3.86
The conserved Bardet-Biedl syndrome proteins assemble a coat that traffics membrane proteins to cilia. Cell (2010) 3.83
Identification of aneuploidy-tolerating mutations. Cell (2010) 3.73
SDH5, a gene required for flavination of succinate dehydrogenase, is mutated in paraganglioma. Science (2009) 3.72
Localization of LRRK2 to membranous and vesicular structures in mammalian brain. Ann Neurol (2006) 3.72
The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods (2005) 3.71
Association of the histone methyltransferase Set2 with RNA polymerase II plays a role in transcription elongation. J Biol Chem (2002) 3.70
SCF(FBW7) regulates cellular apoptosis by targeting MCL1 for ubiquitylation and destruction. Nature (2011) 3.69
Certain pairs of ubiquitin-conjugating enzymes (E2s) and ubiquitin-protein ligases (E3s) synthesize nondegradable forked ubiquitin chains containing all possible isopeptide linkages. J Biol Chem (2007) 3.68
Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization. Nature (2013) 3.57
Apoptosis-inducing factor mediates poly(ADP-ribose) (PAR) polymer-induced cell death. Proc Natl Acad Sci U S A (2006) 3.47
Poly(ADP-ribose) (PAR) polymer is a death signal. Proc Natl Acad Sci U S A (2006) 3.41
MS3 eliminates ratio distortion in isobaric multiplexed quantitative proteomics. Nat Methods (2011) 3.40
A mitochondrial pyruvate carrier required for pyruvate uptake in yeast, Drosophila, and humans. Science (2012) 3.39
A molecular determinant for the establishment of sister chromatid cohesion. Science (2008) 3.39
Human alpha-synuclein-harboring familial Parkinson's disease-linked Ala-53 --> Thr mutation causes neurodegenerative disease with alpha-synuclein aggregation in transgenic mice. Proc Natl Acad Sci U S A (2002) 3.33
A chromatin localization screen reveals poly (ADP ribose)-regulated recruitment of the repressive polycomb and NuRD complexes to sites of DNA damage. Proc Natl Acad Sci U S A (2010) 3.31
A protein complex network of Drosophila melanogaster. Cell (2011) 3.31
Intensity-based protein identification by machine learning from a library of tandem mass spectra. Nat Biotechnol (2004) 3.30
Activation of multiple proto-oncogenic tyrosine kinases in breast cancer via loss of the PTPN12 phosphatase. Cell (2011) 3.27
A UAF1-containing multisubunit protein complex regulates the Fanconi anemia pathway. Mol Cell (2007) 3.27