| A comparative encyclopedia of DNA elements in the mouse genome F Yue, Y Cheng, A Breschi, J Vierstra, W Wu, T Ryba, R Sandstrom, Z Ma, ... Nature 515 (7527), 355-364, 2014 | 1898 | 2014 |
| Topologically associating domains are stable units of replication-timing regulation BD Pope, T Ryba, V Dileep, F Yue, W Wu, O Denas, DL Vera, Y Wang, ... Nature 515 (7527), 402-405, 2014 | 918 | 2014 |
| Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types T Ryba, I Hiratani, J Lu, M Itoh, M Kulik, J Zhang, TC Schulz, AJ Robins, ... Genome research 20 (6), 761-770, 2010 | 661 | 2010 |
| Global reorganization of replication domains during embryonic stem cell differentiation I Hiratani, T Ryba, M Itoh, T Yokochi, M Schwaiger, CW Chang, Y Lyou, ... PLoS biology 6 (10), e245, 2008 | 628 | 2008 |
| An encyclopedia of mouse DNA elements (Mouse ENCODE) Mouse ENCODE Consortium, JA Stamatoyannopoulos, M Snyder, ... Genome biology 13, 1-5, 2012 | 369 | 2012 |
| Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis I Hiratani, T Ryba, M Itoh, J Rathjen, M Kulik, B Papp, E Fussner, ... Genome research 20 (2), 155-169, 2010 | 352 | 2010 |
| Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis I Hiratani, T Ryba, M Itoh, J Rathjen, M Kulik, B Papp, E Fussner, ... Genome research 20 (2), 155-169, 2010 | 352 | 2010 |
| Independence of repressive histone marks and chromatin compaction during senescent heterochromatic layer formation T Chandra, K Kirschner, JY Thuret, BD Pope, T Ryba, S Newman, ... Molecular cell 47 (2), 203-214, 2012 | 298 | 2012 |
| G9a selectively represses a class of late-replicating genes at the nuclear periphery T Yokochi, K Poduch, T Ryba, J Lu, I Hiratani, M Tachibana, Y Shinkai, ... Proceedings of the National Academy of Sciences 106 (46), 19363-19368, 2009 | 179 | 2009 |
| An encyclopedia of mouse DNA elements (Mouse ENCODE) EC Mouse, JA Stamatoyannopoulos, M Snyder, R Hardison, B Ren, ... Genome Biol 13 (8), 418, 2012 | 146 | 2012 |
| Genome-scale analysis of replication timing: from bench to bioinformatics T Ryba, D Battaglia, BD Pope, I Hiratani, DM Gilbert Nature protocols 6 (6), 870-895, 2011 | 140 | 2011 |
| Abnormal developmental control of replication-timing domains in pediatric acute lymphoblastic leukemia T Ryba, D Battaglia, BH Chang, JW Shirley, Q Buckley, BD Pope, ... Genome research 22 (10), 1833-1844, 2012 | 116 | 2012 |
| Space and time in the nucleus developmental control of replication timing and chromosome architecture DM Gilbert, SI Takebayashi, T Ryba, J Lu, BD Pope, KA Wilson, I Hiratani Cold Spring Harbor symposia on quantitative biology 75, 143-153, 2010 | 115 | 2010 |
| Replication timing: a fingerprint for cell identity and pluripotency T Ryba, I Hiratani, T Sasaki, D Battaglia, M Kulik, J Zhang, S Dalton, ... PLoS computational biology 7 (10), e1002225, 2011 | 102 | 2011 |
| ReplicationDomain: a visualization tool and comparative database for genome-wide replication timing data N Weddington, A Stuy, I Hiratani, T Ryba, T Yokochi, DM Gilbert BMC bioinformatics 9, 1-11, 2008 | 100 | 2008 |
| Chromatin-interaction compartment switch at developmentally regulated chromosomal domains reveals an unusual principle of chromatin folding S Takebayashi, V Dileep, T Ryba, JH Dennis, DM Gilbert Proceedings of the National Academy of Sciences 109 (31), 12574-12579, 2012 | 76 | 2012 |
| Replication-timing boundaries facilitate cell-type and species-specific regulation of a rearranged human chromosome in mouse BD Pope, T Chandra, Q Buckley, M Hoare, T Ryba, FK Wiseman, A Kuta, ... Human molecular genetics 21 (19), 4162-4170, 2012 | 44 | 2012 |
| ANK1 Methylation regulates expression of MicroRNA-486-5p and discriminates lung tumors by histology and smoking status M Tessema, CM Yingling, MA Picchi, G Wu, T Ryba, Y Lin, AO Bungum, ... Cancer letters 410, 191-200, 2017 | 37 | 2017 |
| Murine esBAF chromatin remodeling complex subunits BAF250a and Brg1 are necessary to maintain and reprogram pluripotency-specific replication timing of select replication domains S Takebayashi, I Lei, T Ryba, T Sasaki, V Dileep, D Battaglia, X Gao, ... Epigenetics & chromatin 6, 1-12, 2013 | 33 | 2013 |
| Developmental control of replication timing defines a new breed of chromosomal domains with a novel mechanism of chromatin unfolding S Takebayashi, T Ryba, DM Gilbert Nucleus 3 (6), 500-507, 2012 | 30 | 2012 |
