Published in J Proteome Res on September 03, 2014
Multidimensional proteomics for cell biology. Nat Rev Mol Cell Biol (2015) 1.26
Spatial and temporal dynamics of the cardiac mitochondrial proteome. Expert Rev Proteomics (2015) 0.77
Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res (2003) 103.76
Mass spectrometric sequencing of proteins silver-stained polyacrylamide gels. Anal Chem (1996) 45.70
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol (2008) 38.00
Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics (2010) 26.76
Biochemistry and molecular cell biology of diabetic complications. Nature (2001) 25.43
BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics (2005) 24.04
The NOX family of ROS-generating NADPH oxidases: physiology and pathophysiology. Physiol Rev (2007) 21.13
Free radicals in the physiological control of cell function. Physiol Rev (2002) 19.62
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res (2010) 18.73
STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res (2012) 18.26
p62/SQSTM1 forms protein aggregates degraded by autophagy and has a protective effect on huntingtin-induced cell death. J Cell Biol (2005) 18.23
In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc (2006) 16.56
Mitochondrial dysfunction and oxidative stress in neurodegenerative diseases. Nature (2006) 15.69
An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics (2003) 15.42
Points of control in inflammation. Nature (2002) 10.61
DAVID gene ID conversion tool. Bioinformation (2008) 9.16
mTORC1 senses lysosomal amino acids through an inside-out mechanism that requires the vacuolar H(+)-ATPase. Science (2011) 7.55
Metals, toxicity and oxidative stress. Curr Med Chem (2005) 7.48
The BCL-2 family reunion. Mol Cell (2010) 7.32
The selective autophagy substrate p62 activates the stress responsive transcription factor Nrf2 through inactivation of Keap1. Nat Cell Biol (2010) 6.95
Distinct cysteine residues in Keap1 are required for Keap1-dependent ubiquitination of Nrf2 and for stabilization of Nrf2 by chemopreventive agents and oxidative stress. Mol Cell Biol (2003) 6.91
Selective autophagy mediated by autophagic adapter proteins. Autophagy (2011) 6.88
Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Cell (2012) 6.22
The ferritins: molecular properties, iron storage function and cellular regulation. Biochim Biophys Acta (1996) 6.15
Keap1-dependent proteasomal degradation of transcription factor Nrf2 contributes to the negative regulation of antioxidant response element-driven gene expression. J Biol Chem (2003) 5.67
Reactive oxygen species (ROS) homeostasis and redox regulation in cellular signaling. Cell Signal (2012) 5.65
Endosome maturation. EMBO J (2011) 5.22
A practical recipe for stable isotope labeling by amino acids in cell culture (SILAC). Nat Protoc (2006) 5.21
A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics. Nat Protoc (2009) 4.84
Modulation of oxidative stress as an anticancer strategy. Nat Rev Drug Discov (2013) 4.72
Gene mutations in the succinate dehydrogenase subunit SDHB cause susceptibility to familial pheochromocytoma and to familial paraganglioma. Am J Hum Genet (2001) 4.71
Distinct subcellular localizations of Nox1 and Nox4 in vascular smooth muscle cells. Arterioscler Thromb Vasc Biol (2003) 4.56
The common biology of cancer and ageing. Nature (2007) 4.28
Nrf2:INrf2 (Keap1) signaling in oxidative stress. Free Radic Biol Med (2009) 4.26
The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Mol Cell (2012) 4.21
Superoxide flashes in single mitochondria. Cell (2008) 4.08
Isozymes of mammalian hexokinase: structure, subcellular localization and metabolic function. J Exp Biol (2003) 3.97
Nrf2 redirects glucose and glutamine into anabolic pathways in metabolic reprogramming. Cancer Cell (2012) 3.90
Mitochondrial import efficiency of ATFS-1 regulates mitochondrial UPR activation. Science (2012) 3.86
p62/SQSTM1 is a target gene for transcription factor NRF2 and creates a positive feedback loop by inducing antioxidant response element-driven gene transcription. J Biol Chem (2010) 3.84
The neutrophil NADPH oxidase. Arch Biochem Biophys (2002) 3.71
p62/SQSTM1 is required for Parkin-induced mitochondrial clustering but not mitophagy; VDAC1 is dispensable for both. Autophagy (2010) 3.68
p62 is a key regulator of nutrient sensing in the mTORC1 pathway. Mol Cell (2011) 3.46
Autophagy, mitochondria and oxidative stress: cross-talk and redox signalling. Biochem J (2012) 3.37
QuickGO: a web-based tool for Gene Ontology searching. Bioinformatics (2009) 3.36
The cytoprotective role of the Keap1-Nrf2 pathway. Arch Toxicol (2011) 3.19
Regulation of ROS signal transduction by NADPH oxidase 4 localization. J Cell Biol (2008) 3.13
Combating oxidative stress in vascular disease: NADPH oxidases as therapeutic targets. Nat Rev Drug Discov (2011) 3.08
Prohibitins act as a membrane-bound chaperone for the stabilization of mitochondrial proteins. EMBO J (2000) 3.08
Dimers of mitochondrial ATP synthase form the permeability transition pore. Proc Natl Acad Sci U S A (2013) 2.96
p62/SQSTM1 cooperates with Parkin for perinuclear clustering of depolarized mitochondria. Genes Cells (2010) 2.91
Germline SDHB mutations and familial renal cell carcinoma. J Natl Cancer Inst (2008) 2.89
Poldip2, a novel regulator of Nox4 and cytoskeletal integrity in vascular smooth muscle cells. Circ Res (2009) 2.83
The layered structure of human mitochondrial DNA nucleoids. J Biol Chem (2007) 2.74
Subcellular localization of Nox4 and regulation in diabetes. Proc Natl Acad Sci U S A (2009) 2.73
The V-type H+ ATPase: molecular structure and function, physiological roles and regulation. J Exp Biol (2006) 2.72
Mass spectrometry-based proteomics in cell biology. J Cell Biol (2010) 2.66
Upregulation of Nox4 by hypertrophic stimuli promotes apoptosis and mitochondrial dysfunction in cardiac myocytes. Circ Res (2010) 2.65
Structural basis for recruitment of human flap endonuclease 1 to PCNA. EMBO J (2004) 2.57
The Nrf2 regulatory network provides an interface between redox and intermediary metabolism. Trends Biochem Sci (2014) 2.53
Prohibitin induces the transcriptional activity of p53 and is exported from the nucleus upon apoptotic signaling. J Biol Chem (2003) 2.52
Nuclear and mitochondrial compartmentation of oxidative stress and redox signaling. Annu Rev Pharmacol Toxicol (2006) 2.48
A vesicular transport pathway shuttles cargo from mitochondria to lysosomes. Curr Biol (2012) 2.45
Cytoscape: software for visualization and analysis of biological networks. Methods Mol Biol (2011) 2.43
Redox compartmentalization in eukaryotic cells. Biochim Biophys Acta (2008) 2.35
Mitochondrial reactive oxygen species drive proinflammatory cytokine production. J Exp Med (2011) 2.35
Expression and localization of NOX2 and NOX4 in primary human endothelial cells. Antioxid Redox Signal (2005) 2.32
Myofibroblast differentiation during fibrosis: role of NAD(P)H oxidases. Kidney Int (2011) 2.15
Progesterone receptor membrane component 1: an integrative review. J Steroid Biochem Mol Biol (2007) 2.06
The interplay between mitochondrial dynamics and mitophagy. Antioxid Redox Signal (2011) 2.05
Prohibitin, an evolutionarily conserved intracellular protein that blocks DNA synthesis in normal fibroblasts and HeLa cells. Mol Cell Biol (1991) 2.04
ALIS are stress-induced protein storage compartments for substrates of the proteasome and autophagy. Autophagy (2006) 1.97
p62: a versatile multitasker takes on cancer. Trends Biochem Sci (2012) 1.93
SDH mutations in cancer. Biochim Biophys Acta (2011) 1.92
Bax/Bak-dependent release of DDP/TIMM8a promotes Drp1-mediated mitochondrial fission and mitoptosis during programmed cell death. Curr Biol (2005) 1.87
Identification of the PGRMC1 protein complex as the putative sigma-2 receptor binding site. Nat Commun (2011) 1.86
ATP-dependent proteases that also chaperone protein biogenesis. Trends Biochem Sci (1997) 1.85
Endothelial cell surface F1-F0 ATP synthase is active in ATP synthesis and is inhibited by angiostatin. Proc Natl Acad Sci U S A (2001) 1.83
Vps35 mediates vesicle transport between the mitochondria and peroxisomes. Curr Biol (2010) 1.82
Hydrogen peroxide: a Jekyll and Hyde signalling molecule. Cell Death Dis (2011) 1.79
Prohibitin, a potential tumor suppressor, interacts with RB and regulates E2F function. Oncogene (1999) 1.78
Vi polysaccharide of Salmonella typhi targets the prohibitin family of molecules in intestinal epithelial cells and suppresses early inflammatory responses. Proc Natl Acad Sci U S A (2004) 1.78
Atypical protein kinase C mediates activation of NF-E2-related factor 2 in response to oxidative stress. Am J Physiol Cell Physiol (2003) 1.77
Cloning and functional characterization of PTRF, a novel protein which induces dissociation of paused ternary transcription complexes. EMBO J (1998) 1.77
The cell cycle is a redox cycle: linking phase-specific targets to cell fate. Free Radic Biol Med (2009) 1.75
Prohibitin: potential role in senescence, development, and tumor suppression. Exp Gerontol (1996) 1.72
Multiple pathways differentially regulate global oxidative stress responses in fission yeast. Mol Biol Cell (2007) 1.72
Keap1 perceives stress via three sensors for the endogenous signaling molecules nitric oxide, zinc, and alkenals. Proc Natl Acad Sci U S A (2010) 1.72
PGAM5 tethers a ternary complex containing Keap1 and Nrf2 to mitochondria. Exp Cell Res (2008) 1.64
ROS-induced mitochondrial depolarization initiates PARK2/PARKIN-dependent mitochondrial degradation by autophagy. Autophagy (2012) 1.63
Iron chelators in cancer chemotherapy. Curr Top Med Chem (2004) 1.61
Prohibitin: a potential target for new therapeutics. Trends Mol Med (2005) 1.60
ARF1 regulates pH-dependent COP functions in the early endocytic pathway. J Biol Chem (2000) 1.60
The mitochondrial permeability transition pore: a mystery solved? Front Physiol (2013) 1.57
Aiding and abetting roles of NOX oxidases in cellular transformation. Nat Rev Cancer (2012) 1.57
Aberrant glycolytic metabolism of cancer cells: a remarkable coordination of genetic, transcriptional, post-translational, and mutational events that lead to a critical role for type II hexokinase. J Bioenerg Biomembr (1997) 1.57
Tks5-dependent, nox-mediated generation of reactive oxygen species is necessary for invadopodia formation. Sci Signal (2009) 1.56
Perinuclear mitochondrial clustering creates an oxidant-rich nuclear domain required for hypoxia-induced transcription. Sci Signal (2012) 1.56
Non-autophagic roles of autophagy-related proteins. EMBO Rep (2013) 1.52
Aggrephagy: selective disposal of protein aggregates by macroautophagy. Int J Cell Biol (2012) 1.52
Resolution-phase macrophages possess a unique inflammatory phenotype that is controlled by cAMP. Blood (2008) 2.16
Integrin-induced epidermal growth factor (EGF) receptor activation requires c-Src and p130Cas and leads to phosphorylation of specific EGF receptor tyrosines. J Biol Chem (2001) 2.06
California field test goes forward. Science (1987) 1.91
The cell cycle and cancer. J Pathol (2011) 1.67
Small-molecule mimics of an alpha-helix for efficient transport of proteins into cells. Nat Methods (2007) 1.61
Mcm2, Geminin, and KI67 define proliferative state and are prognostic markers in renal cell carcinoma. Clin Cancer Res (2005) 1.50
Hippocampal Mek/Erk signaling mediates extinction of contextual freezing behavior. Neurobiol Learn Mem (2006) 1.29
Ym1 is a neutrophil granule protein that crystallizes in p47phox-deficient mice. J Biol Chem (2001) 1.28
DNA replication licensing in somatic and germ cells. J Cell Sci (2004) 1.21
Commitment point during G0-->G1 that controls entry into the cell cycle. Mol Cell Biol (2003) 1.21
Two ubiquitin ligases, APC/C-Cdh1 and SKP1-CUL1-F (SCF)-beta-TrCP, sequentially regulate glycolysis during the cell cycle. Proc Natl Acad Sci U S A (2011) 1.18
Loss of proliferative capacity and induction of senescence in oxidatively stressed human fibroblasts. J Biol Chem (2004) 1.14
Cell cycle markers in clinical oncology. Curr Opin Cell Biol (2007) 1.12
Hexameric ring structure of human MCM10 DNA replication factor. EMBO Rep (2007) 1.10
Expression, purification, and characterization of subunit E, an essential subunit of the vacuolar ATPase. Biochem Biophys Res Commun (2002) 1.09
Repression of DNA replication licensing in quiescence is independent of geminin and may define the cell cycle state of progenitor cells. Exp Cell Res (2005) 1.07
Molecular architecture of the DNA replication origin activation checkpoint. EMBO J (2010) 1.04
Biomarkers in bladder cancer. Histopathology (2010) 1.04
Targeting DNA replication before it starts: Cdc7 as a therapeutic target in p53-mutant breast cancers. Am J Pathol (2010) 0.99
Cdc7 kinase is a predictor of survival and a novel therapeutic target in epithelial ovarian carcinoma. Clin Cancer Res (2009) 0.98
Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus. Proteomics (2005) 0.97
Differential activation of CRF receptor subtypes removes stress-induced memory deficit and anxiety. Eur J Neurosci (2007) 0.96
Quantitative organelle proteomics of MCF-7 breast cancer cells reveals multiple subcellular locations for proteins in cellular functional processes. J Proteome Res (2010) 0.96
DNA replication licensing factors and aurora kinases are linked to aneuploidy and clinical outcome in epithelial ovarian carcinoma. Clin Cancer Res (2007) 0.95
Spatial distribution of cellular function: the partitioning of proteins between mitochondria and the nucleus in MCF7 breast cancer cells. J Proteome Res (2012) 0.93
Cdc6 is a rate-limiting factor for proliferative capacity during HL60 cell differentiation. Exp Cell Res (2007) 0.93
Molecular structure of human geminin. Nat Struct Mol Biol (2004) 0.91
Doctors from abroad: a cure for the physician shortage in America. Health Prog (2014) 0.91
Improved in-gel approaches to generate peptide maps of integral membrane proteins with matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. J Mass Spectrom (2002) 0.90
High-sensitivity blood-based detection of breast cancer by multi photon detection diagnostic proteomics. J Proteome Res (2006) 0.89
Proteomic approach to the identification of voltage-dependent anion channel protein isoforms in guinea pig brain synaptosomes. Proteomics (2004) 0.88
Subproteome analysis of the neutrophil cytoskeleton. Proteomics (2009) 0.87
DNA replication licensing in peripheral B-cell lymphoma. J Pathol (2005) 0.87
Sickle cell and anesthesia: do not abandon well-established practices without evidence. Anesthesiology (2005) 0.86
Expression of Ki67, PCNA and the chromosome replication licensing protein Mcm2 in glial cells of the ageing human hippocampus increases with the burden of Alzheimer-type pathology. Neurosci Lett (2005) 0.86
DNA replication licensing factors and aneuploidy are linked to tumor cell cycle state and clinical outcome in penile carcinoma. Clin Cancer Res (2009) 0.85
N-Formyl peptide receptor subtypes in human neutrophils activate L-plastin phosphorylation through different signal transduction intermediates. Biochem J (2004) 0.85
Functional diversity of endothelin pathways in human lung fibroblasts may be based on structural diversity of the endothelin receptors. Biochemistry (2003) 0.84
Pregnancy-associated plasma protein A regulates mitosis and is epigenetically silenced in breast cancer. J Pathol (2014) 0.84
Cell proliferation and granule cell dispersion in human hippocampal sclerosis. J Neuropathol Exp Neurol (2005) 0.83
Novel markers of cell kinetics to evaluate progression from cirrhosis to hepatocellular carcinoma. Liver Int (2006) 0.83
Subcellular proteomics reveals a role for nucleo-cytoplasmic trafficking at the DNA replication origin activation checkpoint. J Proteome Res (2013) 0.83
Membrane raft actin deficiency and altered Ca2+-induced vesiculation in stomatin-deficient overhydrated hereditary stomatocytosis. Biochim Biophys Acta (2007) 0.83
Proteomics study reveals cross-talk between Rho guanidine nucleotide dissociation inhibitor 1 post-translational modifications in epidermal growth factor stimulated fibroblasts. J Proteome Res (2007) 0.83
Human SIRT1 regulates DNA binding and stability of the Mcm10 DNA replication factor via deacetylation. Nucleic Acids Res (2013) 0.82
Cross-talk in the A1-ATPase from Methanosarcina mazei Go1 due to nucleotide binding. J Biol Chem (2002) 0.82
Monitoring of gene expression by functional proteomics: response of human lung fibroblast cells to stimulation by endothelin-1. Biochemistry (2002) 0.82
Proteomic approaches to understanding the role of the cytoskeleton in host-defense mechanisms. Expert Rev Proteomics (2011) 0.81
Systematic nucleo-cytoplasmic trafficking of proteins following exposure of MCF7 breast cancer cells to estradiol. J Proteome Res (2014) 0.81
Identification of an arginine-rich motif in human papillomavirus type 1 E1;E4 protein necessary for E4-mediated inhibition of cellular DNA synthesis in vitro and in cells. J Virol (2008) 0.81
CKS proteins protect mitochondrial genome integrity by interacting with mitochondrial single-stranded DNA-binding protein. Mol Cell Proteomics (2009) 0.81
Bladder cancer diagnosis and identification of clinically significant disease by combined urinary detection of Mcm5 and nuclear matrix protein 22. PLoS One (2012) 0.80
Looking for Thom's biomarkers with proteomics. J Proteome Res (2006) 0.80
Differential expression of a C-terminal splice variant of phosphatidylinositol transfer protein beta lacking the constitutive-phosphorylated Ser262 that localizes to the Golgi compartment. Biochem J (2006) 0.80
Exploring the interaction between siRNA and the SMoC biomolecule transporters: implications for small molecule-mediated delivery of siRNA. Chem Biol Drug Des (2011) 0.80
Rapid changes in the phosphoproteome show diverse cellular responses following stimulation of human lung fibroblasts with endothelin-1. Biochemistry (2003) 0.80
Quantitative proteomics reveals a "poised quiescence" cellular state after triggering the DNA replication origin activation checkpoint. J Proteome Res (2010) 0.78
The proteome of Toll-like receptor 3-stimulated human immortalized fibroblasts: implications for susceptibility to herpes simplex virus encephalitis. J Allergy Clin Immunol (2013) 0.77
The role of grancalcin in adhesion of neutrophils. Cell Immunol (2006) 0.77
Cancer-omics failure: warehouses, magic bullets, space/time and the Life of Brian in a cancer cell. Expert Rev Proteomics (2010) 0.77
Ultra-sensitive immunoassays using multi-photon-detection in diagnostic proteomics of blood. J Proteome Res (2005) 0.77
Modular assembly using sequential palladium coupling gives easy access to the SMoC class of cellular transporters. Chembiochem (2008) 0.77
Multifractal analysis of tumour microscopic images in the prediction of breast cancer chemotherapy response. Biomed Microdevices (2015) 0.77
Dimer formation of subunit G of the yeast V-ATPase. FEBS Lett (2003) 0.77
The construction and implementation of a novel postburn pruritus scale for infants and children aged five years or less: introducing the Toronto Pediatric Itch Scale. J Burn Care Res (2015) 0.76
Enrichment of phosphoproteins for proteomic analysis using immobilized Fe(III)-affinity adsorption chromatography. J Proteome Res (2005) 0.76
Proteomics in immunity and herpes simplex encephalitis. Expert Rev Proteomics (2013) 0.75
Proteomics reveals the importance of the dynamic redistribution of the subcellular location of proteins in breast cancer cells. Expert Rev Proteomics (2015) 0.75
bFGF in tumor tissue independently prognosticates disease outcome of a natural course of invasive breast cancer. Cancer Biomark (2017) 0.75
Six months and counting. Health Prog (2010) 0.75
Automated post-collection concentration for purified preparative fractions via solid phase extraction. J Chromatogr A (2006) 0.75
Homes get smarter. New technology a boon for stay-at-home seniors. Health Prog (2009) 0.75
Early prognosis of metastasis risk in inflammatory breast cancer by texture analysis of tumour microscopic images. Biomed Microdevices (2015) 0.75
Gore seeks to resurrect bioethics commission. Science (1985) 0.75
Use of an implantable needle guide to access difficult or impossible to cannulate arteriovenous fistulae using the buttonhole technique. J Vasc Access (2013) 0.75
Mission group pours medical supplies into Haiti. Health Prog (2010) 0.75
Fuqua biotech bill sets stage for industry debate. Science (1986) 0.75
Managing costs and vendors maintains mission too. Health Prog (2010) 0.75
Characterizing environmental harm: developments in an approach to strategic risk assessment and risk management. Risk Anal (2004) 0.75
Ultra-high sensitivity multi-photon detection imaging in proteomics analyses. Proteomics (2005) 0.75
Technology Opens Promising Portals. Health Prog (2015) 0.75
Palliative care: what and why. Health Prog (2011) 0.75
On the road again: Every year thousands of Kentuckians depend on Saint Joseph Hospital for mobile health care. Health Prog (2010) 0.75
Making data smart. J AHIMA (2014) 0.75
How clean is clean?: chemistry can damage medical equipment in the quest to meet stringent guidelines. Biomed Instrum Technol (2014) 0.75