Jones MJK , Gelot C , Munk S , Koren A , Kawasoe Y , George KA , Santos RE , Olsen JV , McCarroll SA , Frattini MG , Takahashi TS , Jallepalli PV .

R01 GM094972 NIGMS NIH HHS , P30 CA008748 NCI NIH HHS , DP2 GM123495 NIGMS NIH HHS

             DNA replication
             S phase

Abid Ali, Cryo-EM structures of the eukaryotic replicative helicase bound to a translocation substrate. 2016, Pubmed

Abid Ali, Cryo-EM structures of the eukaryotic replicative helicase bound to a translocation substrate. 2016, Pubmed
Alver, Reversal of DDK-Mediated MCM Phosphorylation by Rif1-PP1 Regulates Replication Initiation and Replisome Stability Independently of ATR/Chk1. 2017, Pubmed , Xenbase
Bainor, The HDAC-Associated Sin3B Protein Represses DREAM Complex Targets and Cooperates with APC/C to Promote Quiescence. 2018, Pubmed
Berdougo, Functional dissection of mitotic regulators through gene targeting in human somatic cells. 2009, Pubmed
Berti, The plasticity of DNA replication forks in response to clinically relevant genotoxic stress. 2020, Pubmed
Bhat, RPA and RAD51: fork reversal, fork protection, and genome stability. 2018, Pubmed
Boeynaems, Protein Phase Separation: A New Phase in Cell Biology. 2018, Pubmed
Bousset, The Cdc7 protein kinase is required for origin firing during S phase. 1998, Pubmed
Brough, APRIN is a cell cycle specific BRCA2-interacting protein required for genome integrity and a predictor of outcome after chemotherapy in breast cancer. 2012, Pubmed
Burkard, Plk1 self-organization and priming phosphorylation of HsCYK-4 at the spindle midzone regulate the onset of division in human cells. 2009, Pubmed
Byun, Functional uncoupling of MCM helicase and DNA polymerase activities activates the ATR-dependent checkpoint. 2005, Pubmed , Xenbase
Carvajal-Maldonado, Perturbing cohesin dynamics drives MRE11 nuclease-dependent replication fork slowing. 2019, Pubmed
Chen, DNA replication checkpoint signaling depends on a Rad53-Dbf4 N-terminal interaction in Saccharomyces cerevisiae. 2013, Pubmed
Chen, ATR-mediated phosphorylation of FANCI regulates dormant origin firing in response to replication stress. 2015, Pubmed
Cho, CDC7 kinase phosphorylates serine residues adjacent to acidic amino acids in the minichromosome maintenance 2 protein. 2006, Pubmed
Couturier, Roles for APRIN (PDS5B) in homologous recombination and in ovarian cancer prediction. 2016, Pubmed
Cox, MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. 2008, Pubmed
Deegan, Phosphopeptide binding by Sld3 links Dbf4-dependent kinase to MCM replicative helicase activation. 2016, Pubmed
Donaldson, Cdc7 is required throughout the yeast S phase to activate replication origins. 1998, Pubmed
Douglas, The mechanism of eukaryotic CMG helicase activation. 2018, Pubmed
Dungrawala, The Replication Checkpoint Prevents Two Types of Fork Collapse without Regulating Replisome Stability. 2015, Pubmed
Evrin, A double-hexameric MCM2-7 complex is loaded onto origin DNA during licensing of eukaryotic DNA replication. 2009, Pubmed , Xenbase
Fu, Replication timing and nuclear structure. 2018, Pubmed
Georgescu, Structure of eukaryotic CMG helicase at a replication fork and implications to replisome architecture and origin initiation. 2017, Pubmed
Georgescu, Reconstitution of a eukaryotic replisome reveals suppression mechanisms that define leading/lagging strand operation. 2015, Pubmed
Guo, Interaction of Chk1 with Treslin negatively regulates the initiation of chromosomal DNA replication. 2015, Pubmed , Xenbase
Heller, Eukaryotic origin-dependent DNA replication in vitro reveals sequential action of DDK and S-CDK kinases. 2011, Pubmed
Hiraga, Human RIF1 and protein phosphatase 1 stimulate DNA replication origin licensing but suppress origin activation. 2017, Pubmed
Holland, Polo-like kinase 4 kinase activity limits centrosome overduplication by autoregulating its own stability. 2010, Pubmed
Huang, The FANCM/FAAP24 complex is required for the DNA interstrand crosslink-induced checkpoint response. 2010, Pubmed
Hughes, Essential role for Cdk2 inhibitory phosphorylation during replication stress revealed by a human Cdk2 knockin mutation. 2013, Pubmed
Hughes, Crystal structure of human CDC7 kinase in complex with its activator DBF4. 2012, Pubmed
Jackson, Replicon clusters are stable units of chromosome structure: evidence that nuclear organization contributes to the efficient activation and propagation of S phase in human cells. 1998, Pubmed
Jiang, MERIT40 cooperates with BRCA2 to resolve DNA interstrand cross-links. 2015, Pubmed
Koren, Genetic variation in human DNA replication timing. 2014, Pubmed
Koren, Differential relationship of DNA replication timing to different forms of human mutation and variation. 2012, Pubmed
Kyrieleis, Three-Dimensional Architecture of the Human BRCA1-A Histone Deubiquitinase Core Complex. 2016, Pubmed
Larochelle, Cyclin-dependent kinase control of the initiation-to-elongation switch of RNA polymerase II. 2012, Pubmed
Lee, Dbf4 is direct downstream target of ataxia telangiectasia mutated (ATM) and ataxia telangiectasia and Rad3-related (ATR) protein to regulate intra-S-phase checkpoint. 2012, Pubmed
Leonhardt, Dynamics of DNA replication factories in living cells. 2000, Pubmed
Li, Fast and accurate long-read alignment with Burrows-Wheeler transform. 2010, Pubmed
Li, The Sequence Alignment/Map format and SAMtools. 2009, Pubmed
Lossaint, FANCD2 binds MCM proteins and controls replisome function upon activation of s phase checkpoint signaling. 2013, Pubmed
Macek, Global and site-specific quantitative phosphoproteomics: principles and applications. 2009, Pubmed
Maciejowski, Mps1 Regulates Kinetochore-Microtubule Attachment Stability via the Ska Complex to Ensure Error-Free Chromosome Segregation. 2017, Pubmed
Maciejowski, Mps1 directs the assembly of Cdc20 inhibitory complexes during interphase and mitosis to control M phase timing and spindle checkpoint signaling. 2010, Pubmed
Marchal, Control of DNA replication timing in the 3D genome. 2019, Pubmed
Matsumoto, Multiple pathways can bypass the essential role of fission yeast Hsk1 kinase in DNA replication initiation. 2011, Pubmed
Moiseeva, ATR kinase inhibition induces unscheduled origin firing through a Cdc7-dependent association between GINS and And-1. 2017, Pubmed
Moiseeva, An ATR and CHK1 kinase signaling mechanism that limits origin firing during unperturbed DNA replication. 2019, Pubmed
Montagnoli, Identification of Mcm2 phosphorylation sites by S-phase-regulating kinases. 2006, Pubmed
Montagnoli, A Cdc7 kinase inhibitor restricts initiation of DNA replication and has antitumor activity. 2008, Pubmed
Morales, PDS5 proteins are required for proper cohesin dynamics and participate in replication fork protection. 2020, Pubmed
Oldfield, Intrinsically disordered proteins and intrinsically disordered protein regions. 2014, Pubmed
Olsen, Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. 2010, Pubmed
Parker, A new class of disordered elements controls DNA replication through initiator self-assembly. 2019, Pubmed
Parua, A Cdk9-PP1 switch regulates the elongation-termination transition of RNA polymerase II. 2018, Pubmed
Pasero, Nucleases Acting at Stalled Forks: How to Reboot the Replication Program with a Few Shortcuts. 2017, Pubmed
Pfander, Control of Mus81 nuclease during the cell cycle. 2017, Pubmed
Pope, Topologically associating domains are stable units of replication-timing regulation. 2014, Pubmed
Quinet, Replication Fork Reversal: Players and Guardians. 2017, Pubmed
Rainey, DNA Replication Dynamics and Cellular Responses to ATP Competitive CDC7 Kinase Inhibitors. 2017, Pubmed
Rainey, CDC7 kinase promotes MRE11 fork processing, modulating fork speed and chromosomal breakage. 2020, Pubmed
Randell, Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7. 2010, Pubmed
Reaper, Selective killing of ATM- or p53-deficient cancer cells through inhibition of ATR. 2011, Pubmed
Remus, Concerted loading of Mcm2-7 double hexamers around DNA during DNA replication origin licensing. 2009, Pubmed
Rhind, DNA replication timing. 2013, Pubmed
Rickman, Advances in understanding DNA processing and protection at stalled replication forks. 2019, Pubmed
Rodriguez-Bravo, Nuclear pores protect genome integrity by assembling a premitotic and Mad1-dependent anaphase inhibitor. 2014, Pubmed
Rodriguez-Rodriguez, Distinct Roles of RZZ and Bub1-KNL1 in Mitotic Checkpoint Signaling and Kinetochore Expansion. 2018, Pubmed
Ruiz, A Genome-wide CRISPR Screen Identifies CDC25A as a Determinant of Sensitivity to ATR Inhibitors. 2016, Pubmed
Ryba, Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types. 2010, Pubmed
Sakaue-Sawano, Visualizing spatiotemporal dynamics of multicellular cell-cycle progression. 2008, Pubmed
Saldivar, The essential kinase ATR: ensuring faithful duplication of a challenging genome. 2017, Pubmed
Sasi, DDK Has a Primary Role in Processing Stalled Replication Forks to Initiate Downstream Checkpoint Signaling. 2018, Pubmed
Sasi, The potent Cdc7-Dbf4 (DDK) kinase inhibitor XL413 has limited activity in many cancer cell lines and discovery of potential new DDK inhibitor scaffolds. 2014, Pubmed
Sheu, Domain within the helicase subunit Mcm4 integrates multiple kinase signals to control DNA replication initiation and fork progression. 2014, Pubmed
Sheu, The Dbf4-Cdc7 kinase promotes S phase by alleviating an inhibitory activity in Mcm4. 2010, Pubmed
Shin, Liquid phase condensation in cell physiology and disease. 2017, Pubmed
Silva, Xenopus CDC7/DRF1 complex is required for the initiation of DNA replication. 2006, Pubmed , Xenbase
Sima, Identifying cis Elements for Spatiotemporal Control of Mammalian DNA Replication. 2019, Pubmed
Sparks, The CMG Helicase Bypasses DNA-Protein Cross-Links to Facilitate Their Repair. 2019, Pubmed , Xenbase
Stracker, The MRE11 complex: starting from the ends. 2011, Pubmed
Takahashi, Cdc7-Drf1 kinase links chromosome cohesion to the initiation of DNA replication in Xenopus egg extracts. 2008, Pubmed , Xenbase
Takahashi, Cdc7-Drf1 is a developmentally regulated protein kinase required for the initiation of vertebrate DNA replication. 2005, Pubmed , Xenbase
Tanaka, CDK-dependent phosphorylation of Sld2 and Sld3 initiates DNA replication in budding yeast. 2007, Pubmed
Tenca, Cdc7 is an active kinase in human cancer cells undergoing replication stress. 2007, Pubmed
Toledo, ATR prohibits replication catastrophe by preventing global exhaustion of RPA. 2013, Pubmed
Tsuji, The role of Dbf4/Drf1-dependent kinase Cdc7 in DNA-damage checkpoint control. 2008, Pubmed , Xenbase
Tyanova, The Perseus computational platform for comprehensive analysis of (prote)omics data. 2016, Pubmed
Tye, A fork in the road: Where homologous recombination and stalled replication fork protection part ways. 2021, Pubmed
Vannier, RTEL1 is a replisome-associated helicase that promotes telomere and genome-wide replication. 2013, Pubmed
Vizcaíno, ProteomeXchange provides globally coordinated proteomics data submission and dissemination. 2014, Pubmed
Wan, Cdc28-Clb5 (CDK-S) and Cdc7-Dbf4 (DDK) collaborate to initiate meiotic recombination in yeast. 2008, Pubmed
Wright, Intrinsically disordered proteins in cellular signalling and regulation. 2015, Pubmed
Yeeles, Regulated eukaryotic DNA replication origin firing with purified proteins. 2015, Pubmed
Yuan, Structure of the eukaryotic replicative CMG helicase suggests a pumpjack motion for translocation. 2016, Pubmed
Zegerman, Phosphorylation of Sld2 and Sld3 by cyclin-dependent kinases promotes DNA replication in budding yeast. 2007, Pubmed
Zegerman, Checkpoint-dependent inhibition of DNA replication initiation by Sld3 and Dbf4 phosphorylation. 2010, Pubmed