David M Gilbert

David M Gilbert

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David M Gilbert

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Replication timing networks reveal a link between transcription regulatory circuits and replication timing control.

Genome Res 2019 Sep 21;29(9):1415-1428. Epub 2019 Aug 21.

Department of Biological Science, Florida State University, Tallahassee, Florida, 32306-4295, USA.

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http://dx.doi.org/10.1101/gr.247049.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6724675PMC
September 2019

Control of DNA replication timing in the 3D genome.

Nat Rev Mol Cell Biol 2019 Sep 2. Epub 2019 Sep 2.

Department of Biological Science, Florida State University, Tallahassee, FL, USA.

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http://dx.doi.org/10.1038/s41580-019-0162-yDOI Listing
September 2019

RT States: systematic annotation of the human genome using cell type-specific replication timing programs.

Bioinformatics 2019 Jul;35(13):2167-2176

Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA, USA.

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http://dx.doi.org/10.1093/bioinformatics/bty957DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6681175PMC
July 2019

Continuous-Trait Probabilistic Model for Comparing Multi-species Functional Genomic Data.

Cell Syst 2018 08 20;7(2):208-218.e11. Epub 2018 Jun 20.

Computational Biology Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA 15213, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2018.05.022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6107375PMC
August 2018

Cellular senescence induces replication stress with almost no affect on DNA replication timing.

Cell Cycle 2018 21;17(13):1667-1681. Epub 2018 Aug 21.

b Laboratory of Genome and Stem Cell Plasticity in Development and Aging , Institute of Regenerative Medicine, U1183, Université de Montpellier , Montpellier Cedex , France.

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http://dx.doi.org/10.1080/15384101.2018.1491235DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6133336PMC
August 2018

Replication Domains: Genome Compartmentalization into Functional Replication Units.

Adv Exp Med Biol 2017 ;1042:229-257

Department of Biological Science, Florida State University, Tallahassee, FL, USA.

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http://dx.doi.org/10.1007/978-981-10-6955-0_11DOI Listing
July 2018

Allele-specific control of replication timing and genome organization during development.

Genome Res 2018 06 7;28(6):800-811. Epub 2018 May 7.

Department of Biological Science, Florida State University, Tallahassee, Florida 32306-4295, USA.

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http://dx.doi.org/10.1101/gr.232561.117DOI Listing
June 2018

Bacterial artificial chromosomes establish replication timing and sub-nuclear compartment de novo as extra-chromosomal vectors.

Nucleic Acids Res 2018 02;46(4):1810-1820

Department of Biological Science, 319 Stadium Drive, Florida State University, Tallahassee, FL 32306, USA.

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https://academic.oup.com/nar/article/46/4/1810/4774271
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http://dx.doi.org/10.1093/nar/gkx1265DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5829748PMC
February 2018

Large-Scale Chromatin Structure-Function Relationships during the Cell Cycle and Development: Insights from Replication Timing.

Cold Spring Harb Symp Quant Biol 2015 20;80:53-63. Epub 2015 Nov 20.

Department of Biological Science, Florida State University, Tallahassee, Florida 32306-4295 Center for Genomics and Personalized Medicine, Florida State University, Tallahassee, Florida 32306-4295.

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http://dx.doi.org/10.1101/sqb.2015.80.027284DOI Listing
January 2018

Single-cell replication profiling to measure stochastic variation in mammalian replication timing.

Nat Commun 2018 01 30;9(1):427. Epub 2018 Jan 30.

Department of Biological Science, Florida State University, 319 Stadium Drive, Tallahassee, FL, 32306, USA.

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http://dx.doi.org/10.1038/s41467-017-02800-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5789892PMC
January 2018

Stability of patient-specific features of altered DNA replication timing in xenografts of primary human acute lymphoblastic leukemia.

Exp Hematol 2017 07 19;51:71-82.e3. Epub 2017 Apr 19.

Department of Biological Science, Florida State University, Tallahassee, FL; Center for Genomics and Personalized Medicine, Florida State University, Tallahassee, FL. Electronic address:

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http://dx.doi.org/10.1016/j.exphem.2017.04.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5491210PMC
July 2017

Unearthing worm replication origins.

Nat Struct Mol Biol 2017 03;24(3):195-196

Department of Biological Science, Florida State University, Tallahassee, Florida, USA.

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http://dx.doi.org/10.1038/nsmb.3385DOI Listing
March 2017

Spatio-temporal re-organization of replication foci accompanies replication domain consolidation during human pluripotent stem cell lineage specification.

Cell Cycle 2016 Sep 19;15(18):2464-75. Epub 2016 Jul 19.

a Department of Biological Science , Florida State University , Tallahassee , FL , USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5026818PMC
http://dx.doi.org/10.1080/15384101.2016.1203492DOI Listing
September 2016

Replication timing and transcriptional control: beyond cause and effect-part III.

Curr Opin Cell Biol 2016 06 23;40:168-178. Epub 2016 Apr 23.

Department of Biological Science, Florida State University, Tallahassee, FL 32306-4295, USA; Center for Genomics and Personalized Medicine, Florida State University, Tallahassee, FL, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ceb.2016.03.022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4887323PMC
June 2016

Replicating Large Genomes: Divide and Conquer.

Mol Cell 2016 06;62(5):756-65

Department of Biological Science, Florida State University, Tallahassee, FL 32306-4295, USA; Center for Genomics and Personalized Medicine, Florida State University, Tallahassee, FL 32306-4295, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.05.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4893193PMC
June 2016

Influence of ATM-Mediated DNA Damage Response on Genomic Variation in Human Induced Pluripotent Stem Cells.

Stem Cells Dev 2016 05 11;25(9):740-7. Epub 2016 Apr 11.

1 Department of Pediatric Newborn Medicine and Division of Genetics, Department of Medicine, Brigham and Women's Hospital , Harvard Stem Cell Institute, Harvard Medical School, Boston, Massachusetts.

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https://www.liebertpub.com/doi/10.1089/scd.2015.0393
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http://dx.doi.org/10.1089/scd.2015.0393DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4854209PMC
May 2016

Autosomal lyonization of replication domains during early Mammalian development.

Adv Exp Med Biol 2010 ;695:41-58

Department of Biological Science, Florida State University, Tallahassee, Florida, USA.

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http://dx.doi.org/10.1007/978-1-4419-7037-4_4DOI Listing
April 2016

Computing interaction probabilities in signaling networks.

EURASIP J Bioinform Syst Biol 2015 Dec 11;2015(1):10. Epub 2015 Nov 11.

Department of Computer & Information Science & Engineering, University of Florida, Gainesville, Florida, USA.

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http://dx.doi.org/10.1186/s13637-015-0031-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4642599PMC
December 2015

Precise repair of mPing excision sites is facilitated by target site duplication derived microhomology.

Mob DNA 2015 7;6:15. Epub 2015 Sep 7.

Department of Biology and Geology, University of South Carolina Aiken, 471 University Parkway, Aiken, SC 29801 USA.

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http://www.mobilednajournal.com/content/6/1/15
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http://dx.doi.org/10.1186/s13100-015-0046-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4561436PMC
September 2015

Topologically associating domains and their long-range contacts are established during early G1 coincident with the establishment of the replication-timing program.

Genome Res 2015 Aug 20;25(8):1104-13. Epub 2015 May 20.

Department of Biological Science, Florida State University, Tallahassee, Florida 32306, USA; Center for Genomics and Personalized Medicine, Florida State University, Tallahassee, Florida 32306, USA.

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http://dx.doi.org/10.1101/gr.183699.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4509995PMC
August 2015

Dynamic changes in replication timing and gene expression during lineage specification of human pluripotent stem cells.

Genome Res 2015 Aug 8;25(8):1091-103. Epub 2015 Jun 8.

Department of Biological Science, Florida State University, Tallahassee, Florida 32306-4295, USA; Center for Genomics and Personalized Medicine, Florida State University, Tallahassee, Florida 32306, USA.

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http://dx.doi.org/10.1101/gr.187989.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4509994PMC
August 2015

Many paths lead chromatin to the nuclear periphery.

Bioessays 2015 Aug 8;37(8):862-6. Epub 2015 Jun 8.

Department of Biological Science, Florida State University, Tallahassee, FL, USA.

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http://dx.doi.org/10.1002/bies.201500034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4511709PMC
August 2015

Three Dimensional Organization of the Nucleus: adding DNA sequences to the big picture.

Genome Biol 2015 Aug 29;16:181. Epub 2015 Aug 29.

Nuclear Dynamics Programme, The Babraham Institute, Cambridge, CB22 3AT, UK.

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http://dx.doi.org/10.1186/s13059-015-0751-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4553008PMC
August 2015

Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression.

Genome Res 2015 Apr 12;25(4):544-57. Epub 2015 Feb 12.

Department of Computer Science and Engineering, University of Washington, Seattle, Washington 98195, USA Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA.

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http://dx.doi.org/10.1101/gr.184341.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4381526PMC
April 2015

A comparative encyclopedia of DNA elements in the mouse genome.

Authors:
Feng Yue Yong Cheng Alessandra Breschi Jeff Vierstra Weisheng Wu Tyrone Ryba Richard Sandstrom Zhihai Ma Carrie Davis Benjamin D Pope Yin Shen Dmitri D Pervouchine Sarah Djebali Robert E Thurman Rajinder Kaul Eric Rynes Anthony Kirilusha Georgi K Marinov Brian A Williams Diane Trout Henry Amrhein Katherine Fisher-Aylor Igor Antoshechkin Gilberto DeSalvo Lei-Hoon See Meagan Fastuca Jorg Drenkow Chris Zaleski Alex Dobin Pablo Prieto Julien Lagarde Giovanni Bussotti Andrea Tanzer Olgert Denas Kanwei Li M A Bender Miaohua Zhang Rachel Byron Mark T Groudine David McCleary Long Pham Zhen Ye Samantha Kuan Lee Edsall Yi-Chieh Wu Matthew D Rasmussen Mukul S Bansal Manolis Kellis Cheryl A Keller Christapher S Morrissey Tejaswini Mishra Deepti Jain Nergiz Dogan Robert S Harris Philip Cayting Trupti Kawli Alan P Boyle Ghia Euskirchen Anshul Kundaje Shin Lin Yiing Lin Camden Jansen Venkat S Malladi Melissa S Cline Drew T Erickson Vanessa M Kirkup Katrina Learned Cricket A Sloan Kate R Rosenbloom Beatriz Lacerda de Sousa Kathryn Beal Miguel Pignatelli Paul Flicek Jin Lian Tamer Kahveci Dongwon Lee W James Kent Miguel Ramalho Santos Javier Herrero Cedric Notredame Audra Johnson Shinny Vong Kristen Lee Daniel Bates Fidencio Neri Morgan Diegel Theresa Canfield Peter J Sabo Matthew S Wilken Thomas A Reh Erika Giste Anthony Shafer Tanya Kutyavin Eric Haugen Douglas Dunn Alex P Reynolds Shane Neph Richard Humbert R Scott Hansen Marella De Bruijn Licia Selleri Alexander Rudensky Steven Josefowicz Robert Samstein Evan E Eichler Stuart H Orkin Dana Levasseur Thalia Papayannopoulou Kai-Hsin Chang Arthur Skoultchi Srikanta Gosh Christine Disteche Piper Treuting Yanli Wang Mitchell J Weiss Gerd A Blobel Xiaoyi Cao Sheng Zhong Ting Wang Peter J Good Rebecca F Lowdon Leslie B Adams Xiao-Qiao Zhou Michael J Pazin Elise A Feingold Barbara Wold James Taylor Ali Mortazavi Sherman M Weissman John A Stamatoyannopoulos Michael P Snyder Roderic Guigo Thomas R Gingeras David M Gilbert Ross C Hardison Michael A Beer Bing Ren

Nature 2014 Nov;515(7527):355-64

Ludwig Institute for Cancer Research and University of California, San Diego School of Medicine, 9500 Gilman Drive, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/nature13992DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266106PMC
November 2014

Copy number variation is a fundamental aspect of the placental genome.

PLoS Genet 2014 May 1;10(5):e1004290. Epub 2014 May 1.

Department of Genetics, Stanford University School of Medicine, Stanford, California, United States of America.

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https://dx.plos.org/10.1371/journal.pgen.1004290
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http://dx.doi.org/10.1371/journal.pgen.1004290DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4006706PMC
May 2014

Complex correlations: replication timing and mutational landscapes during cancer and genome evolution.

Curr Opin Genet Dev 2014 Apr 2;25:93-100. Epub 2014 Mar 2.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA. Electronic address:

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http://dx.doi.org/10.1016/j.gde.2013.11.022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4140690PMC
April 2014

The distribution of genomic variations in human iPSCs is related to replication-timing reorganization during reprogramming.

Cell Rep 2014 Apr 27;7(1):70-8. Epub 2014 Mar 27.

Department of Pediatric Newborn Medicine and Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Boston, MA 02115, USA; Harvard Medical School, Harvard Stem Cell Institute, Boston, MA 02115, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S22111247140016
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http://dx.doi.org/10.1016/j.celrep.2014.03.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4133748PMC
April 2014

Genetics: Up and down in Down's syndrome.

Nature 2014 Apr;508(7496):323-4

Department of Biological Science, Florida State University, Tallahassee, Florida 32306, USA.

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http://dx.doi.org/10.1038/508323aDOI Listing
April 2014

The replication domain model: regulating replicon firing in the context of large-scale chromosome architecture.

J Mol Biol 2013 Nov 17;425(23):4690-5. Epub 2013 Apr 17.

Department of Biological Science, Florida State University, 319 Stadium Drive, Tallahassee, FL 32306-4295, USA.

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http://dx.doi.org/10.1016/j.jmb.2013.04.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3775993PMC
November 2013

Low-cost fabrication of centimetre-scale periodic arrays of single plasmid DNA molecules.

Lab Chip 2013 Sep 4;13(17):3367-72. Epub 2013 Jul 4.

Department of Chemical and Biomedical Engineering, FAMU-FSU College of Engineering, Florida State University, 2525 Pottsdamer Street, Tallahassee, Florida 32310-2870, USA.

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http://dx.doi.org/10.1039/c3lc50562fDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3753405PMC
September 2013

DNA replication timing.

Cold Spring Harb Perspect Biol 2013 Aug 1;5(8):a010132. Epub 2013 Aug 1.

Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA.

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http://dx.doi.org/10.1101/cshperspect.a010132DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3721284PMC
August 2013

Developmental control of replication timing defines a new breed of chromosomal domains with a novel mechanism of chromatin unfolding.

Nucleus 2012 Nov-Dec;3(6):500-7. Epub 2012 Sep 28.

Department of Biological Science; Florida State University, Tallahassee, FL, USA.

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http://dx.doi.org/10.4161/nucl.22318DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3515532PMC
May 2013

Development of a single-cell array for large-scale DNA fluorescence in situ hybridization.

Lab Chip 2013 Apr;13(7):1316-24

Department of Chemical and Biomedical Engineering, FAMU-FSU College of Engineering, Florida State University, Tallahassee, Florida 32310-2870, USA.

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http://dx.doi.org/10.1039/c2lc40364aDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3594524PMC
April 2013

SnapShot: Replication timing.

Cell 2013 Mar;152(6):1390-1390.e1

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1016/j.cell.2013.02.038DOI Listing
March 2013

Abnormal developmental control of replication-timing domains in pediatric acute lymphoblastic leukemia.

Genome Res 2012 Oct 24;22(10):1833-44. Epub 2012 May 24.

Department of Biological Science, Florida State University, Tallahassee, Florida 32306, USA.

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http://dx.doi.org/10.1101/gr.138511.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3460179PMC
October 2012

Replication origins run (ultra) deep.

Authors:
David M Gilbert

Nat Struct Mol Biol 2012 Aug;19(8):740-2

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http://dx.doi.org/10.1038/nsmb.2352DOI Listing
August 2012

An encyclopedia of mouse DNA elements (Mouse ENCODE).

August 2012

Chromatin-interaction compartment switch at developmentally regulated chromosomal domains reveals an unusual principle of chromatin folding.

Proc Natl Acad Sci U S A 2012 Jul 17;109(31):12574-9. Epub 2012 Jul 17.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1073/pnas.1207185109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3411983PMC
July 2012

Microfluidic extraction and stretching of chromosomal DNA from single cell nuclei for DNA fluorescence in situ hybridization.

Biomed Microdevices 2012 Jun;14(3):443-51

Department of Chemical and Biomedical Engineering, FAMU-FSU College of Engineering, Florida State University, 2525 Pottsdamer Street, Tallahassee, FL 32310, USA.

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http://dx.doi.org/10.1007/s10544-011-9621-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3425352PMC
June 2012

Genome-wide analysis of replication timing in mammalian cells: troubleshooting problems encountered when comparing different cell types.

Methods 2012 Jun 6;57(2):165-9. Epub 2012 Jun 6.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1016/j.ymeth.2012.05.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3432148PMC
June 2012

Evidence for a mammalian late-G1 phase inhibitor of replication licensing distinct from geminin or Cdk activity.

Nucleus 2011 Sep-Oct;2(5):455-64. Epub 2011 Sep 1.

Department of Biological Science, Florida State University, Tallahassee, FL, USA.

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http://dx.doi.org/10.4161/nucl.2.5.17859DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3322585PMC
March 2012

Replication timing: a fingerprint for cell identity and pluripotency.

PLoS Comput Biol 2011 Oct 20;7(10):e1002225. Epub 2011 Oct 20.

Department of Biological Science, Florida State University, Tallahassee, Florida, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1002225DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3197641PMC
October 2011

Genome-scale analysis of replication timing: from bench to bioinformatics.

Nat Protoc 2011 Jun 2;6(6):870-95. Epub 2011 Jun 2.

Department of Biological Science, Florida State University, Tallahassee, USA.

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http://dx.doi.org/10.1038/nprot.2011.328DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3111951PMC
June 2011

FISH Finder: a high-throughput tool for analyzing FISH images.

Bioinformatics 2011 Apr 9;27(7):933-8. Epub 2011 Feb 9.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr053DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065689PMC
April 2011

Chromatin and chromosomes.

Mol Biol Cell 2011 Mar;22(6):717

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1091/mbc.E10-12-0990DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3057689PMC
March 2011

Cell fate transitions and the replication timing decision point.

Authors:
David M Gilbert

J Cell Biol 2010 Nov;191(5):899-903

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1083/jcb.201007125DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2995162PMC
November 2010

Evaluating genome-scale approaches to eukaryotic DNA replication.

Authors:
David M Gilbert

Nat Rev Genet 2010 Oct 1;11(10):673-84. Epub 2010 Sep 1.

Department of Biological Science, Florida State University, Tallahassee, 32306, USA.

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http://dx.doi.org/10.1038/nrg2830DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2962615PMC
October 2010

G2 phase chromatin lacks determinants of replication timing.

J Cell Biol 2010 Jun 7;189(6):967-80. Epub 2010 Jun 7.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://www.jcb.org/lookup/doi/10.1083/jcb.201002002
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http://dx.doi.org/10.1083/jcb.201002002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2886351PMC
June 2010

Nucleus and gene expression: the structure and function conundrum.

Curr Opin Cell Biol 2010 Jun 22;22(3):269-70. Epub 2010 May 22.

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http://dx.doi.org/10.1016/j.ceb.2010.04.010DOI Listing
June 2010

Domain-wide regulation of DNA replication timing during mammalian development.

Chromosome Res 2010 Jan;18(1):127-36

Department of Biological Science, Florida State University, Tallahassee, FL, 32306, USA.

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http://dx.doi.org/10.1007/s10577-009-9100-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2827620PMC
January 2010

G9a selectively represses a class of late-replicating genes at the nuclear periphery.

Proc Natl Acad Sci U S A 2009 Nov 4;106(46):19363-8. Epub 2009 Nov 4.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.0906142106
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http://dx.doi.org/10.1073/pnas.0906142106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2780741PMC
November 2009

Replication timing and transcriptional control: beyond cause and effect--part II.

Curr Opin Genet Dev 2009 Apr 1;19(2):142-9. Epub 2009 Apr 1.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1016/j.gde.2009.02.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2677117PMC
April 2009

[Establishment of spatial and temporal program for mammalian chromosome replication].

Authors:
David M Gilbert

Tanpakushitsu Kakusan Koso 2009 Mar;54(4 Suppl):320-6

Department of Biological Science, Florida State University, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3057877PMC
March 2009

Replication timing as an epigenetic mark.

Epigenetics 2009 Feb 1;4(2):93-7. Epub 2009 Feb 1.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2688700PMC
http://dx.doi.org/10.4161/epi.4.2.7772DOI Listing
February 2009

ReplicationDomain: a visualization tool and comparative database for genome-wide replication timing data.

BMC Bioinformatics 2008 Dec 10;9:530. Epub 2008 Dec 10.

Department of Biological Sciences, Florida State University, Tallahassee, Florida 32306, USA.

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http://dx.doi.org/10.1186/1471-2105-9-530DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2636809PMC
December 2008

Cell cycle regulated transcription of heterochromatin in mammals vs. fission yeast: functional conservation or coincidence?

Cell Cycle 2008 Jul 29;7(13):1907-10. Epub 2008 Apr 29.

Department of Biological Science, Florida State University, Tallahassee, Florida 32306-4295, USA.

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http://dx.doi.org/10.4161/cc.7.13.6206DOI Listing
July 2008

Intranuclear changes in cancer cells.

Genome Biol 2007 ;8(8):312

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1186/gb-2007-8-8-312DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2374982PMC
February 2008

Proliferation-dependent and cell cycle regulated transcription of mouse pericentric heterochromatin.

J Cell Biol 2007 Nov;179(3):411-21

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1083/jcb.200706176DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2064789PMC
November 2007

Replication origin plasticity, Taylor-made: inhibition vs recruitment of origins under conditions of replication stress.

Authors:
David M Gilbert

Chromosoma 2007 Aug 3;116(4):341-7. Epub 2007 Apr 3.

Department of Biological Science, Florida State University, Tallahassee, FL 32306-4300, USA.

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http://dx.doi.org/10.1007/s00412-007-0105-9DOI Listing
August 2007

The many faces of the origin recognition complex.

Curr Opin Cell Biol 2007 Jun 26;19(3):337-43. Epub 2007 Apr 26.

Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

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http://dx.doi.org/10.1016/j.ceb.2007.04.007DOI Listing
June 2007

Replication labeling with halogenated thymidine analogs.

Curr Protoc Cell Biol 2007 Jun;Chapter 22:Unit 22.10

Department of Biological Science Florida State University Tallahassee, Florida, USA.

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http://dx.doi.org/10.1002/0471143030.cb2210s35DOI Listing
June 2007

Observing S-phase dynamics of histone modifications with fluorescently labeled antibodies.

Methods Mol Biol 2006 ;325:139-48

Department of Biochemistry and Molecular Biology, SUNY Upstate Medical University, Syracuse, NY, USA.

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http://dx.doi.org/10.1385/1-59745-005-7:139DOI Listing
July 2006

Uncoupling global and fine-tuning replication timing determinants for mouse pericentric heterochromatin.

J Cell Biol 2006 Jul 10;174(2):185-94. Epub 2006 Jul 10.

Department of Biochemistry and Molecular Biology, State University of New York Upstate Medical University, Syracuse, NY 13210, USA.

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http://dx.doi.org/10.1083/jcb.200601113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2064179PMC
July 2006

Electrolytic transformation of ordinance related compounds (ORCs) in groundwater: laboratory mass balance studies.

Chemosphere 2006 Feb 2;62(5):689-98. Epub 2005 Aug 2.

Applied Research Associates, Inc., 119 Monument Place, Vicksburg, MS 39180, USA.

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http://dx.doi.org/10.1016/j.chemosphere.2005.06.012DOI Listing
February 2006

Overexpression of ORC subunits and increased ORC-chromatin association in transformed mammalian cells.

J Cell Biochem 2005 Dec;96(5):879-87

Department of Biochemistry and Molecular Biology, S.U.N.Y. Upstate Medical University, Syracuse, New York 13210, USA.

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http://dx.doi.org/10.1002/jcb.20609DOI Listing
December 2005

Origins go plastic.

Authors:
David M Gilbert

Mol Cell 2005 Dec;20(5):657-8

Department of Biochemistry and Molecular Biology, The State University of New York Upstate Medical University, 750 East Adams Street, Syracuse, New York 13210, USA.

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http://dx.doi.org/10.1016/j.molcel.2005.11.013DOI Listing
December 2005

Sequential electrolytic oxidation and reduction of aqueous phase energetic compounds.

Environ Sci Technol 2005 Dec;39(23):9270-7

Department of Civil Engineering, Colorado State University, Fort Collins 80523, USA.

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http://dx.doi.org/10.1021/es051452kDOI Listing
December 2005

Chinese hamster ORC subunits dynamically associate with chromatin throughout the cell-cycle.

Exp Cell Res 2005 Aug;308(2):345-56

Department of Biochemistry and Molecular Biology, S.U.N.Y. Upstate Medical University, 750 East Adams Street, Syracuse, NY 13210, USA.

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http://dx.doi.org/10.1016/j.yexcr.2005.05.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1350721PMC
August 2005

Differential subnuclear localization and replication timing of histone H3 lysine 9 methylation states.

Mol Biol Cell 2005 Jun 23;16(6):2872-81. Epub 2005 Mar 23.

Department of Biochemistry and Molecular Biology, State University of New York Upstate Medical University, Syracuse, NY 13210, USA.

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http://dx.doi.org/10.1091/mbc.e04-11-0997DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1142431PMC
June 2005

Spatio-temporal organization of DNA replication in murine embryonic stem, primary, and immortalized cells.

J Cell Biochem 2005 May;95(1):74-82

Department of Biochemistry and Molecular Biology, SUNY Upstate Medical University, 750 East Adams Street, Syracuse, New York 13210, USA.

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http://dx.doi.org/10.1002/jcb.20395DOI Listing
May 2005

Differentiation-induced replication-timing changes are restricted to AT-rich/long interspersed nuclear element (LINE)-rich isochores.

Proc Natl Acad Sci U S A 2004 Nov 19;101(48):16861-6. Epub 2004 Nov 19.

Department of Biochemistry and Molecular Biology, State University of New York Upstate Medical University, 750 East Adams Street, Syracuse, NY 13210, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.0406687101
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC534734PMC
November 2004

In search of the holy replicator.

Authors:
David M Gilbert

Nat Rev Mol Cell Biol 2004 Oct;5(10):848-55

Department of Biochemistry and Molecular Biology, State University of New York Upstate Medical University, 750 East Adams Street, Syracuse, NewYork 13210, USA.

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http://www.nature.com/articles/nrm1495
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1255919PMC
October 2004

The future of human embryonic stem cell research: addressing ethical conflict with responsible scientific research.

Authors:
David M Gilbert

Med Sci Monit 2004 May 28;10(5):RA99-103. Epub 2004 Apr 28.

Department of Biochemistry and Molecular Biology, SUNY Upstate Medical University, Syracuse, NY 13210, USA.

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May 2004

Actin up in the nucleus.

Nat Rev Mol Cell Biol 2004 May;5(5):410-5

Department of Biochemistry and Molecular Biology, SUNY Upstate Medical University, 750 East Adams Street, Syracuse, New York 13210, USA.

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http://dx.doi.org/10.1038/nrm1370DOI Listing
May 2004

Heterochromatin and tri-methylated lysine 20 of histone H4 in animals.

J Cell Sci 2004 May 5;117(Pt 12):2491-501. Epub 2004 May 5.

Nuclear Reprogramming Laboratory, Division of Gene Expression and Development, Roslin Institute, Edinburgh, EH25 9PS, UK.

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http://dx.doi.org/10.1242/jcs.01238DOI Listing
May 2004

Structure of a palindromic amplicon junction implicates microhomology-mediated end joining as a mechanism of sister chromatid fusion during gene amplification.

Nucleic Acids Res 2004 2;32(2):749-56. Epub 2004 Feb 2.

Department of Biochemistry and Molecular Biology, SUNY Upstate Medical University, 750 East Adams Street, Syracuse, NY 13210, USA.

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http://dx.doi.org/10.1093/nar/gkh244DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC373360PMC
April 2004