Published in J Biol Chem on September 18, 2013
Repriming of DNA synthesis at stalled replication forks by human PrimPol. Nat Struct Mol Biol (2013) 1.39
Exploiting replicative stress to treat cancer. Nat Rev Drug Discov (2015) 1.27
The Replication Checkpoint Prevents Two Types of Fork Collapse without Regulating Replisome Stability. Mol Cell (2015) 1.10
FANCD2-controlled chromatin access of the Fanconi-associated nuclease FAN1 is crucial for the recovery of stalled replication forks. Mol Cell Biol (2014) 1.00
Preventing over-resection by DNA2 helicase/nuclease suppresses repair defects in Fanconi anemia cells. Cell Cycle (2014) 0.95
FANCD2, FANCJ and BRCA2 cooperate to promote replication fork recovery independently of the Fanconi Anemia core complex. Cell Cycle (2015) 0.95
Interplay between Fanconi anemia and homologous recombination pathways in genome integrity. EMBO J (2016) 0.92
Increased Rrm2 gene dosage reduces fragile site breakage and prolongs survival of ATR mutant mice. Genes Dev (2015) 0.89
The dual nature of mismatch repair as antimutator and mutator: for better or for worse. Front Genet (2014) 0.88
The Fanconi anemia ID2 complex: dueling saxes at the crossroads. Cell Cycle (2014) 0.87
SMARCAL1 Resolves Replication Stress at ALT Telomeres. Cell Rep (2016) 0.85
Selective recruitment of nuclear factors to productively replicating herpes simplex virus genomes. PLoS Pathog (2015) 0.85
DNA replication stress: from molecular mechanisms to human disease. Chromosoma (2016) 0.84
Mammalian RAD51 paralogs protect nascent DNA at stalled forks and mediate replication restart. Nucleic Acids Res (2015) 0.83
DNA copy-number control through inhibition of replication fork progression. Cell Rep (2014) 0.83
FANCD2 Maintains Fork Stability in BRCA1/2-Deficient Tumors and Promotes Alternative End-Joining DNA Repair. Cell Rep (2016) 0.82
Control of structure-specific endonucleases to maintain genome stability. Nat Rev Mol Cell Biol (2017) 0.81
Replication stress by Py-Im polyamides induces a non-canonical ATR-dependent checkpoint response. Nucleic Acids Res (2014) 0.81
Identification of a large protein network involved in epigenetic transmission in replicating DNA of embryonic stem cells. Nucleic Acids Res (2014) 0.81
Ring of Change: CDC48/p97 Drives Protein Dynamics at Chromatin. Front Genet (2016) 0.81
Histone modifications and a choice of variant: a language that helps the genome express itself. F1000Prime Rep (2014) 0.81
Purification of proteins on newly synthesized DNA using iPOND. Methods Mol Biol (2015) 0.81
The Eukaryotic Mismatch Recognition Complexes Track with the Replisome during DNA Synthesis. PLoS Genet (2015) 0.81
Essential domains of Schizosaccharomyces pombe Rad8 required for DNA damage response. G3 (Bethesda) (2014) 0.79
Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells. J Mol Cell Biol (2015) 0.79
Human CST Facilitates Genome-wide RAD51 Recruitment to GC-Rich Repetitive Sequences in Response to Replication Stress. Cell Rep (2016) 0.79
AKAP12 mediates PKA-induced phosphorylation of ATR to enhance nucleotide excision repair. Nucleic Acids Res (2016) 0.78
Enhancer of Rudimentary Homolog Affects the Replication Stress Response through Regulation of RNA Processing. Mol Cell Biol (2015) 0.78
The human oncoprotein and chromatin architectural factor DEK counteracts DNA replication stress. Oncogene (2014) 0.78
Perspective: The Promise of Proteomics in the Study of Oncogenic Viruses. Mol Cell Proteomics (2017) 0.78
Investigation of N-Terminal Phospho-Regulation of Uracil DNA Glycosylase Using Protein Semisynthesis. Biophys J (2017) 0.78
Replication-Coupled Recruitment of Viral and Cellular Factors to Herpes Simplex Virus Type 1 Replication Forks for the Maintenance and Expression of Viral Genomes. PLoS Pathog (2017) 0.78
FANCJ at the FORK. Mutat Res (2016) 0.76
The Intra-S Checkpoint Responses to DNA Damage. Genes (Basel) (2017) 0.76
Cell resistance to the Cytolethal Distending Toxin involves an association of DNA repair mechanisms. Sci Rep (2016) 0.75
N(2) -Substituted 2'-Deoxyguanosine Triphosphate Derivatives as Selective Substrates for Human DNA Polymerase κ. Angew Chem Int Ed Engl (2017) 0.75
Human CTF18-RFC clamp-loader complexed with non-synthesising DNA polymerase ε efficiently loads the PCNA sliding clamp. Nucleic Acids Res (2017) 0.75
Replication Protein A Prohibits Diffusion of the PCNA Sliding Clamp along Single-Stranded DNA. Biochemistry (2017) 0.75
Novel insight into the composition of human single-stranded DNA-binding protein 1 (hSSB1)-containing protein complexes. BMC Mol Biol (2016) 0.75
Replication fork instability and the consequences of fork collisions from rereplication. Genes Dev (2016) 0.75
Class I Histone Deacetylase HDAC1 and WRN RECQ Helicase Contribute Additively to Protect Replication Forks upon Hydroxyurea-induced Arrest. J Biol Chem (2016) 0.75
Crosslinks and replication: the show must go on. Cell Cycle (2015) 0.75
Rescue from replication stress during mitosis. Cell Cycle (2017) 0.75
Understanding replication fork progression, stability, and chromosome fragility by exploiting the Suppressor of Underreplication protein. Bioessays (2015) 0.75
Abro1 maintains genome stability and limits replication stress by protecting replication fork stability. Genes Dev (2017) 0.75
Phosphorylated SIRT1 associates with replication origins to prevent excess replication initiation and preserve genomic stability. Nucleic Acids Res (2017) 0.75
Smarcal1-Mediated Fork Reversal Triggers Mre11-Dependent Degradation of Nascent DNA in the Absence of Brca2 and Stable Rad51 Nucleofilaments. Mol Cell (2017) 0.75
Identification of Vaccinia Virus Replisome and Transcriptome Proteins by iPOND Coupled with Mass Spectrometry. J Virol (2017) 0.75
The impact of replication stress on replication dynamics and DNA damage in vertebrate cells. Nat Rev Genet (2017) 0.75
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc (2009) 137.99
ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage. Science (2007) 20.11
Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Res (2011) 18.50
The DNA damage response: making it safe to play with knives. Mol Cell (2010) 16.13
ATR: an essential regulator of genome integrity. Nat Rev Mol Cell Biol (2008) 11.86
The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function. Nucleic Acids Res (2010) 10.97
PCNA, the maestro of the replication fork. Cell (2007) 10.43
A chemical method for fast and sensitive detection of DNA synthesis in vivo. Proc Natl Acad Sci U S A (2008) 10.09
Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database. Anal Chem (1995) 9.39
ATR and ATRIP: partners in checkpoint signaling. Science (2001) 7.58
ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res (2009) 7.34
TopBP1 activates the ATR-ATRIP complex. Cell (2006) 6.29
MyriMatch: highly accurate tandem mass spectral peptide identification by multivariate hypergeometric analysis. J Proteome Res (2007) 5.85
Functional uncoupling of MCM helicase and DNA polymerase activities activates the ATR-dependent checkpoint. Genes Dev (2005) 5.53
A genome-wide siRNA screen reveals diverse cellular processes and pathways that mediate genome stability. Mol Cell (2009) 4.17
Fancd2 counteracts the toxic effects of naturally produced aldehydes in mice. Nature (2011) 3.79
IDPicker 2.0: Improved protein assembly with high discrimination peptide identification filtering. J Proteome Res (2009) 3.72
Shotgun identification of protein modifications from protein complexes and lens tissue. Proc Natl Acad Sci U S A (2002) 3.70
Regulation of DNA cross-link repair by the Fanconi anemia/BRCA pathway. Genes Dev (2012) 3.42
TopBP1 activates ATR through ATRIP and a PIKK regulatory domain. Genes Dev (2008) 2.86
Selective killing of ATM- or p53-deficient cancer cells through inhibition of ATR. Nat Chem Biol (2011) 2.85
The annealing helicase SMARCAL1 maintains genome integrity at stalled replication forks. Genes Dev (2009) 2.50
Analysis of protein dynamics at active, stalled, and collapsed replication forks. Genes Dev (2011) 2.47
Determinants of nucleosome positioning. Nat Struct Mol Biol (2013) 2.47
The Williams syndrome transcription factor interacts with PCNA to target chromatin remodelling by ISWI to replication foci. Nat Cell Biol (2004) 1.90
ATM-dependent and -independent dynamics of the nuclear phosphoproteome after DNA damage. Sci Signal (2010) 1.86
Histone H3 lysine 56 methylation regulates DNA replication through its interaction with PCNA. Mol Cell (2012) 1.79
ATR phosphorylates SMARCAL1 to prevent replication fork collapse. Genes Dev (2013) 1.70
Ribonucleotides are signals for mismatch repair of leading-strand replication errors. Mol Cell (2013) 1.66
Identification of a novel, widespread, and functionally important PCNA-binding motif. J Cell Biol (2009) 1.63
Structure of the FANCI-FANCD2 complex: insights into the Fanconi anemia DNA repair pathway. Science (2011) 1.58
A genome-wide camptothecin sensitivity screen identifies a mammalian MMS22L-NFKBIL2 complex required for genomic stability. Mol Cell (2010) 1.50
DNA damage response: three levels of DNA repair regulation. Cold Spring Harb Perspect Biol (2013) 1.48
SIRT6 recruits SNF2H to DNA break sites, preventing genomic instability through chromatin remodeling. Mol Cell (2013) 1.47
Monitoring the spatiotemporal dynamics of proteins at replication forks and in assembled chromatin using isolation of proteins on nascent DNA. Nat Protoc (2012) 1.45
Comparative shotgun proteomics using spectral count data and quasi-likelihood modeling. J Proteome Res (2010) 1.43
Functional genomic screens identify CINP as a genome maintenance protein. Proc Natl Acad Sci U S A (2009) 1.38
Cyclin-dependent kinase 9-cyclin K functions in the replication stress response. EMBO Rep (2010) 1.36
Mismatch repair, but not heteroduplex rejection, is temporally coupled to DNA replication. Science (2011) 1.34
The MMS22L-TONSL complex mediates recovery from replication stress and homologous recombination. Mol Cell (2010) 1.32
Identification of the MMS22L-TONSL complex that promotes homologous recombination. Mol Cell (2010) 1.21
FANCD2 regulates BLM complex functions independently of FANCI to promote replication fork recovery. Nucleic Acids Res (2013) 1.18
A proteomic characterization of factors enriched at nascent DNA molecules. Cell Rep (2013) 1.15
The protein phosphatase 1 regulator PNUTS is a new component of the DNA damage response. EMBO Rep (2010) 1.10
SnapShot: Chromatin remodeling: ISWI. Cell (2011) 0.98
Inhibition of expression of the chromatin remodeling gene, SNF2L, selectively leads to DNA damage, growth inhibition, and cancer cell death. Mol Cancer Res (2009) 0.91
Refining comparative proteomics by spectral counting to account for shared peptides and multiple search engines. Anal Bioanal Chem (2012) 0.83
Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics (2010) 13.35
DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics. J Proteome Res (2003) 12.31
ATR: an essential regulator of genome integrity. Nat Rev Mol Cell Biol (2008) 11.86
A proteomic view of the Plasmodium falciparum life cycle. Nature (2002) 10.65
Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat Biotechnol (2009) 9.67
Role of Rpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome. Science (2002) 7.49
Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis. Science (2006) 6.74
MS1, MS2, and SQT-three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications. Rapid Commun Mass Spectrom (2004) 4.76
Assigning function to yeast proteins by integration of technologies. Mol Cell (2003) 4.58
Regulation of ATR substrate selection by Rad17-dependent loading of Rad9 complexes onto chromatin. Genes Dev (2002) 4.58
Proteomic parsimony through bipartite graph analysis improves accuracy and transparency. J Proteome Res (2007) 4.53
A cross-platform toolkit for mass spectrometry and proteomics. Nat Biotechnol (2012) 4.48
IDPicker 2.0: Improved protein assembly with high discrimination peptide identification filtering. J Proteome Res (2009) 3.72
Shotgun identification of protein modifications from protein complexes and lens tissue. Proc Natl Acad Sci U S A (2002) 3.70
Cln3 activates G1-specific transcription via phosphorylation of the SBF bound repressor Whi5. Cell (2004) 3.60
Determination and comparison of the baseline proteomes of the versatile microbe Rhodopseudomonas palustris under its major metabolic states. J Proteome Res (2006) 3.32
ATRIP binding to replication protein A-single-stranded DNA promotes ATR-ATRIP localization but is dispensable for Chk1 phosphorylation. Mol Biol Cell (2005) 3.08
TopBP1 activates ATR through ATRIP and a PIKK regulatory domain. Genes Dev (2008) 2.86
Rapid activation of ATR by ionizing radiation requires ATM and Mre11. J Biol Chem (2006) 2.76
Deletion of histone deacetylase 3 reveals critical roles in S phase progression and DNA damage control. Mol Cell (2008) 2.71
Automatic quality assessment of peptide tandem mass spectra. Bioinformatics (2004) 2.70
Tea4p links microtubule plus ends with the formin for3p in the establishment of cell polarity. Dev Cell (2005) 2.65
Swi1 and Swi3 are components of a replication fork protection complex in fission yeast. Mol Cell Biol (2004) 2.55
The annealing helicase SMARCAL1 maintains genome integrity at stalled replication forks. Genes Dev (2009) 2.50
Analysis of protein dynamics at active, stalled, and collapsed replication forks. Genes Dev (2011) 2.47
Interlaboratory study characterizing a yeast performance standard for benchmarking LC-MS platform performance. Mol Cell Proteomics (2009) 2.39
ATR signalling: more than meeting at the fork. Biochem J (2011) 2.37
Proteomics analysis reveals stable multiprotein complexes in both fission and budding yeasts containing Myb-related Cdc5p/Cef1p, novel pre-mRNA splicing factors, and snRNAs. Mol Cell Biol (2002) 2.32
Proteolysis-independent regulation of the transcription factor Met4 by a single Lys 48-linked ubiquitin chain. Nat Cell Biol (2004) 2.30
Cell size and growth rate are major determinants of replicative lifespan. Cell Cycle (2011) 2.26
Cid13 is a cytoplasmic poly(A) polymerase that regulates ribonucleotide reductase mRNA. Cell (2002) 2.23
The basic cleft of RPA70N binds multiple checkpoint proteins, including RAD9, to regulate ATR signaling. Mol Cell Biol (2008) 2.17
Performance metrics for liquid chromatography-tandem mass spectrometry systems in proteomics analyses. Mol Cell Proteomics (2009) 2.09
Function of a conserved checkpoint recruitment domain in ATRIP proteins. Mol Cell Biol (2007) 2.02
Dephosphorylation of F-BAR protein Cdc15 modulates its conformation and stimulates its scaffolding activity at the cell division site. Mol Cell (2010) 2.02
Cleavage N-terminal to proline: analysis of a database of peptide tandem mass spectra. Anal Chem (2003) 1.98
Carcinoma and stromal enzyme activity profiles associated with breast tumor growth in vivo. Proc Natl Acad Sci U S A (2004) 1.96
Constraining G1-specific transcription to late G1 phase: the MBF-associated corepressor Nrm1 acts via negative feedback. Mol Cell (2006) 1.92
SMARCAL1 catalyzes fork regression and Holliday junction migration to maintain genome stability during DNA replication. Genes Dev (2012) 1.85
DDB1 maintains genome integrity through regulation of Cdt1. Mol Cell Biol (2006) 1.84
Applicability of tandem affinity purification MudPIT to pathway proteomics in yeast. Mol Cell Proteomics (2003) 1.82
Common mechanisms of PIKK regulation. DNA Repair (Amst) (2009) 1.73
ATR phosphorylates SMARCAL1 to prevent replication fork collapse. Genes Dev (2013) 1.70
Helicobacter pylori exploits a unique repertoire of type IV secretion system components for pilus assembly at the bacteria-host cell interface. PLoS Pathog (2011) 1.67
The Nse5-Nse6 dimer mediates DNA repair roles of the Smc5-Smc6 complex. Mol Cell Biol (2006) 1.65
Protein identification using customized protein sequence databases derived from RNA-Seq data. J Proteome Res (2011) 1.62
Staphylococcus aureus fur regulates the expression of virulence factors that contribute to the pathogenesis of pneumonia. Infect Immun (2010) 1.59
Dpb11 activates the Mec1-Ddc2 complex. Proc Natl Acad Sci U S A (2008) 1.58
Evaluation of strong cation exchange versus isoelectric focusing of peptides for multidimensional liquid chromatography-tandem mass spectrometry. J Proteome Res (2008) 1.55
Nse1, Nse2, and a novel subunit of the Smc5-Smc6 complex, Nse3, play a crucial role in meiosis. Mol Biol Cell (2004) 1.52
The enterocyte microvillus is a vesicle-generating organelle. J Cell Biol (2009) 1.51
ATRIP oligomerization is required for ATR-dependent checkpoint signaling. J Biol Chem (2005) 1.51
Replication checkpoint kinase Cds1 regulates recombinational repair protein Rad60. Mol Cell Biol (2003) 1.50
TagRecon: high-throughput mutation identification through sequence tagging. J Proteome Res (2010) 1.49
Efficient and specific trypsin digestion of microgram to nanogram quantities of proteins in organic-aqueous solvent systems. Anal Chem (2006) 1.49
DNA damage response: three levels of DNA repair regulation. Cold Spring Harb Perspect Biol (2013) 1.48
Monitoring the spatiotemporal dynamics of proteins at replication forks and in assembled chromatin using isolation of proteins on nascent DNA. Nat Protoc (2012) 1.45
Azospirillum genomes reveal transition of bacteria from aquatic to terrestrial environments. PLoS Genet (2011) 1.45
Staphylococcus aureus LukAB cytotoxin kills human neutrophils by targeting the CD11b subunit of the integrin Mac-1. Proc Natl Acad Sci U S A (2013) 1.45
Substrate-selective repair and restart of replication forks by DNA translocases. Cell Rep (2013) 1.39
Functional genomic screens identify CINP as a genome maintenance protein. Proc Natl Acad Sci U S A (2009) 1.38
Characterization of the 70S Ribosome from Rhodopseudomonas palustris using an integrated "top-down" and "bottom-up" mass spectrometric approach. J Proteome Res (2004) 1.38
The Clp1/Cdc14 phosphatase contributes to the robustness of cytokinesis by association with anillin-related Mid1. J Cell Biol (2008) 1.38
MS2Grouper: group assessment and synthetic replacement of duplicate proteomic tandem mass spectra. J Am Soc Mass Spectrom (2005) 1.37
Cyclin-dependent kinase 9-cyclin K functions in the replication stress response. EMBO Rep (2010) 1.36
RNA-binding protein Csx1 mediates global control of gene expression in response to oxidative stress. EMBO J (2003) 1.35
A bioinformatics workflow for variant peptide detection in shotgun proteomics. Mol Cell Proteomics (2011) 1.34
MASPIC: intensity-based tandem mass spectrometry scoring scheme that improves peptide identification at high confidence. Anal Chem (2005) 1.34
Phospho-regulation of the Cdc14/Clp1 phosphatase delays late mitotic events in S. pombe. Dev Cell (2006) 1.31
Dynamics of the peroxisomal import cycle of PpPex20p: ubiquitin-dependent localization and regulation. J Cell Biol (2006) 1.27
Cyclin-dependent kinase 2 dependent phosphorylation of ATRIP regulates the G2-M checkpoint response to DNA damage. Cancer Res (2007) 1.27
Phosphorylation of Rad55 on serines 2, 8, and 14 is required for efficient homologous recombination in the recovery of stalled replication forks. Mol Cell Biol (2006) 1.27
Sensitivity to poly(ADP-ribose) polymerase (PARP) inhibition identifies ubiquitin-specific peptidase 11 (USP11) as a regulator of DNA double-strand break repair. J Biol Chem (2010) 1.26
Eph/ephrin profiling in human breast cancer reveals significant associations between expression level and clinical outcome. PLoS One (2011) 1.22
Network-assisted protein identification and data interpretation in shotgun proteomics. Mol Syst Biol (2009) 1.19
Use of fluorescence-activated vesicle sorting for isolation of Naked2-associated, basolaterally targeted exocytic vesicles for proteomics analysis. Mol Cell Proteomics (2008) 1.18
ProRata: A quantitative proteomics program for accurate protein abundance ratio estimation with confidence interval evaluation. Anal Chem (2006) 1.16
Thr-1989 phosphorylation is a marker of active ataxia telangiectasia-mutated and Rad3-related (ATR) kinase. J Biol Chem (2011) 1.16
Expressed peptide tags: an additional layer of data for genome annotation. J Proteome Res (2006) 1.14
Large-scale protein identification using mass spectrometry. Biochim Biophys Acta (2003) 1.12
Activation of ATR and related PIKKs. Cell Cycle (2008) 1.12
A unique covalent bond in basement membrane is a primordial innovation for tissue evolution. Proc Natl Acad Sci U S A (2013) 1.12
Proteomic analysis of Chinese hamster ovary cells. J Proteome Res (2012) 1.11
Proteomic characterization of the Chlamydomonas reinhardtii chloroplast ribosome. Identification of proteins unique to th e70 S ribosome. J Biol Chem (2003) 1.09
QuaMeter: multivendor performance metrics for LC-MS/MS proteomics instrumentation. Anal Chem (2012) 1.08
Protein disulfide isomerase serves as a molecular chaperone to maintain estrogen receptor alpha structure and function. Mol Endocrinol (2006) 1.08
Supporting tool suite for production proteomics. Bioinformatics (2011) 1.08
Robust estimation of peptide abundance ratios and rigorous scoring of their variability and bias in quantitative shotgun proteomics. Anal Chem (2006) 1.08
Differential localization and dynamics of class I myosins in the enterocyte microvillus. Mol Biol Cell (2010) 1.07
ATR and ATRIP are recruited to herpes simplex virus type 1 replication compartments even though ATR signaling is disabled. J Virol (2010) 1.07
Pepitome: evaluating improved spectral library search for identification complementarity and quality assessment. J Proteome Res (2012) 1.07
A face in the crowd: recognizing peptides through database search. Mol Cell Proteomics (2011) 1.07
Shotgun proteomics: identification of unique protein profiles of apoptotic bodies from biliary epithelial cells. Hepatology (2014) 1.06
Identifying proteomic LC-MS/MS data sets with Bumbershoot and IDPicker. Curr Protoc Bioinformatics (2012) 1.03
HDAC3 is essential for DNA replication in hematopoietic progenitor cells. J Clin Invest (2013) 1.02