Integrative analysis of DNA replication origins and ORC/MCM binding sites in human cells reveals a lack of overlap
暂无分享,去创建一个
Y. Shibata | C. Zang | A. Dutta | Zhenjia Wang | Zhangli Su | Mengxue Tian | Etsuko Shibata | Zhangli Su
[1] B. Stillman,et al. Origins of DNA replication in eukaryotes. , 2023, Molecular cell.
[2] H. Blum,et al. Human ORC/MCM density is low in active genes and correlates with replication time but does not delimit initiation zones , 2021, eLife.
[3] Jennifer E. Phillips-Cremins,et al. Cohesin-mediated loop anchors confine the locations of human replication origins , 2021, bioRxiv.
[4] R. Rohs,et al. Humanizing the yeast origin recognition complex , 2021, Nature Communications.
[5] Brian T. Lee,et al. The UCSC Genome Browser database: 2021 update , 2020, Nucleic Acids Research.
[6] P. Tiňo,et al. A predictable conserved DNA base composition signature defines human core DNA replication origins , 2020, Nature Communications.
[7] Anindya Dutta,et al. A human cancer cell line initiates DNA replication normally in the absence of ORC5 and ORC2 proteins , 2020, The Journal of Biological Chemistry.
[8] Rongqin Li,et al. Superresolution imaging reveals spatiotemporal propagation of human replication foci mediated by CTCF-organized chromatin structures , 2020, Proceedings of the National Academy of Sciences.
[9] Philip D. Tatman,et al. Isolation and analysis of rereplicated DNA by Rerep-Seq , 2020, Nucleic acids research.
[10] A. Ratan,et al. Cancer-specific CTCF binding facilitates oncogenic transcriptional dysregulation , 2020, bioRxiv.
[11] Peiyao A. Zhao,et al. High-resolution Repli-Seq defines the temporal choreography of initiation, elongation and termination of replication in mammalian cells , 2019, Genome Biology.
[12] M. Méchali,et al. Metazoan DNA replication origins. , 2019, Current opinion in cell biology.
[13] Xiaoyan Zhang,et al. Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis , 2018, Nucleic Acids Res..
[14] A. Arneodo,et al. Developmental and cancer-associated plasticity of DNA replication preferentially targets GC-poor, lowly expressed and late-replicating regions , 2018, Nucleic acids research.
[15] V. Coppola,et al. Endoreduplication of the mouse genome in the absence of ORC1 , 2018, Genes & development.
[16] Otto Hudecz,et al. The replicative helicase MCM recruits cohesin acetyltransferase ESCO2 to mediate centromeric sister chromatid cohesion , 2018, The EMBO journal.
[17] Y. Ohkawa,et al. Genome-wide analysis of the spatiotemporal regulation of firing and dormant replication origins in human cells , 2018, Nucleic acids research.
[18] Nathan C. Sheffield,et al. BART: a transcription factor prediction tool with query gene sets or epigenomic profiles , 2018, bioRxiv.
[19] M. Aladjem,et al. Phosphorylated SIRT1 associates with replication origins to prevent excess replication initiation and preserve genomic stability , 2017, Nucleic acids research.
[20] Y. Shibata,et al. Two subunits of human ORC are dispensable for DNA replication and proliferation , 2016, eLife.
[21] Jean-Louis Mergny,et al. Re-evaluation of G-quadruplex propensity with G4Hunter , 2016, Nucleic acids research.
[22] Anne-Claude Gingras,et al. BRPF3‐HBO1 regulates replication origin activation and histone H3K14 acetylation , 2016, The EMBO journal.
[23] Y. D'Aubenton-Carafa,et al. Replication landscape of the human genome , 2016, Nature Communications.
[24] D. Remus,et al. Post-licensing Specification of Eukaryotic Replication Origins by Facilitated Mcm2-7 Sliding along DNA. , 2015, Molecular cell.
[25] John M. Urban,et al. Characterizing and controlling intrinsic biases of lambda exonuclease in nascent strand sequencing reveals phasing between nucleosomes and G-quadruplex motifs around a subset of human replication origins , 2015, Genome research.
[26] William B. Langdon,et al. Performance of genetic programming optimised Bowtie2 on genome comparison and analytic testing (GCAT) benchmarks , 2015, BioData Mining.
[27] K. Yura,et al. Human Origin Recognition Complex Binds Preferentially to G-quadruplex-preferable RNA and Single-stranded DNA* , 2013, The Journal of Biological Chemistry.
[28] S. Bekiranov,et al. Bubble-seq analysis of the human genome reveals distinct chromatin-mediated mechanisms for regulating early- and late-firing origins , 2013, Genome research.
[29] Sean R. Davis,et al. NCBI GEO: archive for functional genomics data sets—update , 2012, Nucleic Acids Res..
[30] Raymond K. Auerbach,et al. An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.
[31] Jean-Michel Marin,et al. Unraveling cell type–specific and reprogrammable human replication origin signatures associated with G-quadruplex consensus motifs , 2012, Nature Structural &Molecular Biology.
[32] Neerja Karnani,et al. Genomic Study of Replication Initiation in Human Chromosomes Reveals the Influence of Transcription Regulation and Chromatin Structure on Origin Selection , 2010, Molecular biology of the cell.
[33] Michael O Dorschner,et al. Sequencing newly replicated DNA reveals widespread plasticity in human replication timing , 2009, Proceedings of the National Academy of Sciences.
[34] J. Diffley,et al. Concerted Loading of Mcm2–7 Double Hexamers around DNA during DNA Replication Origin Licensing , 2009, Cell.
[35] Daniela Rhodes,et al. G-quadruplex structures: in vivo evidence and function. , 2009, Trends in cell biology.
[36] Chen Zeng,et al. A clustering approach for identification of enriched domains from histone modification ChIP-Seq data , 2009, Bioinform..
[37] Clifford A. Meyer,et al. Model-based Analysis of ChIP-Seq (MACS) , 2008, Genome Biology.
[38] M. Asano,et al. The origin recognition complex is dispensable for endoreplication in Drosophila , 2008, Proceedings of the National Academy of Sciences.
[39] M. Méchali,et al. DNA replication origins. , 2006, Cold Spring Harbor perspectives in biology.
[40] Terrence S. Furey,et al. The UCSC Genome Browser Database: update 2006 , 2005, Nucleic Acids Res..
[41] S. Vashee,et al. Sequence-independent DNA binding and replication initiation by the human origin recognition complex. , 2003, Genes & development.
[42] S. Bell,et al. The origin recognition complex: from simple origins to complex functions. , 2002, Genes & development.
[43] R. Laskey,et al. The roles of the MCM, ORC, and Cdc6 proteins in determining the replication competence of chromatin in quiescent cells. , 2000, Journal of structural biology.
[44] J. Blow,et al. Changes in association of the Xenopus origin recognition complex with chromatin on licensing of replication origins. , 1999, Journal of cell science.
[45] P. Cook. The organization of replication and transcription. , 1999, Science.
[46] T. Coleman,et al. The Xenopus Cdc6 Protein Is Essential for the Initiation of a Single Round of DNA Replication in Cell-Free Extracts , 1996, Cell.
[47] Bruce Stillman,et al. ATP-dependent recognition of eukaryotic origins of DNA replication by a multiprotein complex , 1992, Nature.
[48] Ira M. Hall,et al. BEDTools: a flexible suite of utilities for comparing genomic features , 2010, Bioinform..
[49] Conrad A. Nieduszynski,et al. OriDB : a DNA replication origin database , 2006 .
[50] Anindya Dutta,et al. DNA replication in eukaryotic cells. , 2002, Annual review of biochemistry.
[51] T. Tsurimoto. [Initiation of eukaryotic DNA replication]. , 1994, Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme.