Cite Us
Please either cite the URL (www.replicationdomain.org) or the following manuscript that describes the creation and usage of this web site:
Nodin Weddington*, Alexander Stuy*, Ichiro Hiratani*, Tyrone Ryba, Tomoki Yokochi, and David M. Gilbert,
"ReplicationDomain: a visualization tool and comparative database for genome-wide replication-timing data,"
BMC Bioinformatics (2008) 9:530
Publication on Biomedcentral
Here are the papers describing the data sets displayed in the public domain:
MOUSE
Lu J, Li F, Murphy CS, Davidson MW, Gilbert DM.
G2 phase chromatin lacks determinants of replication timing.
J Cell Biol. 2010 Jun 14;189(6):967-80. Epub 2010 Jun 7.
Hiratani I, Ryba T, Itoh M, Rathjen J, Kulik M, Papp B, Fussner E, Bazett-Jones DP, Plath K, Dalton S, Rathjen PD, Gilbert DM.
Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis.
Genome Res. 2010 Feb;20(2):155-69. Epub 2009 Dec 1.
Yokochi T, Poduch K, Ryba T, Lu J, Hiratani I, Tachibana M, Shinkai Y, Gilbert DM.
G9a selectively represses a class of late-replicating genes at the nuclear periphery.
Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19363-8.
Ichiro Hiratani, Tyrone Ryba, Mari Itoh, Tomoki Yokochi, Michaela Schwaiger, Chia-Wei Chang, Yung Lyou, Tim M. Townes, Dirk Sch\xfcbeler, David M. Gilbert,
"Global Reorganization of Replication Domains During Embryonic Stem Cell Differentiation,"
PLoS Biology (2008) 6:e245
Publication on www.plosbiology.org
DROSOPHILA
Schwaiger M, Kohler H, Oakeley EJ, Stadler MB, Schübeler D.
Heterochromatin protein 1 (HP1) modulates replication timing of the Drosophila genome.
Genome Res. 2010 20: 771-780. PMID: 20435908
Schwaiger M, Stadler MB, Bell O, Kohler H, Oakeley EJ, Schübeler D.
Chromatin state marks cell-type- and gender-specific replication of the Drosophila genome.
Genes Dev. (2009) 23:589-601.
HUMAN
Ryba T, Hiratani I, Lu J, Itoh M, Kulik M, Zhang J, Schulz T, Robins A, Dalton S, Gilbert DM.
Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types.
Genome Res. 2010 20: 155-169. PMID: 20430782
