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Items: 1 to 20 of 140

1.

Replication timing: a fingerprint for cell identity and pluripotency.

Ryba T, Hiratani I, Sasaki T, Battaglia D, Kulik M, Zhang J, Dalton S, Gilbert DM.

PLoS Comput Biol. 2011 Oct;7(10):e1002225. doi: 10.1371/journal.pcbi.1002225. Epub 2011 Oct 20.

2.

Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis.

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 Res. 2010 Feb;20(2):155-69. doi: 10.1101/gr.099796.109. Epub 2009 Dec 1.

3.

DNA methylation profiles define stem cell identity and reveal a tight embryonic-extraembryonic lineage boundary.

Senner CE, Krueger F, Oxley D, Andrews S, Hemberger M.

Stem Cells. 2012 Dec;30(12):2732-45. doi: 10.1002/stem.1249.

4.

Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types.

Ryba T, Hiratani I, Lu J, Itoh M, Kulik M, Zhang J, Schulz TC, Robins AJ, Dalton S, Gilbert DM.

Genome Res. 2010 Jun;20(6):761-70. doi: 10.1101/gr.099655.109. Epub 2010 Apr 29.

5.

Histone variant macroH2A marks embryonic differentiation in vivo and acts as an epigenetic barrier to induced pluripotency.

Pasque V, Radzisheuskaya A, Gillich A, Halley-Stott RP, Panamarova M, Zernicka-Goetz M, Surani MA, Silva JC.

J Cell Sci. 2012 Dec 15;125(Pt 24):6094-104. doi: 10.1242/jcs.113019. Epub 2012 Oct 17.

6.

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

Rivera-Mulia JC, Buckley Q, Sasaki T, Zimmerman J, Didier RA, Nazor K, Loring JF, Lian Z, Weissman S, Robins AJ, Schulz TC, Menendez L, Kulik MJ, Dalton S, Gabr H, Kahveci T, Gilbert DM.

Genome Res. 2015 Aug;25(8):1091-103. doi: 10.1101/gr.187989.114. Epub 2015 Jun 8.

7.

Embryonic stem cell specific "master" replication origins at the heart of the loss of pluripotency.

Julienne H, Audit B, Arneodo A.

PLoS Comput Biol. 2015 Feb 6;11(2):e1003969. doi: 10.1371/journal.pcbi.1003969. eCollection 2015 Feb.

8.

Epigenetic regulation of pluripotency and differentiation.

Boland MJ, Nazor KL, Loring JF.

Circ Res. 2014 Jul 7;115(2):311-24. doi: 10.1161/CIRCRESAHA.115.301517. Review.

9.

Chromatin modifications and genomic contexts linked to dynamic DNA methylation patterns across human cell types.

Yan H, Zhang D, Liu H, Wei Y, Lv J, Wang F, Zhang C, Wu Q, Su J, Zhang Y.

Sci Rep. 2015 Feb 12;5:8410. doi: 10.1038/srep08410.

10.

The epigenome in pluripotency and differentiation.

Thiagarajan RD, Morey R, Laurent LC.

Epigenomics. 2014 Feb;6(1):121-37. doi: 10.2217/epi.13.80. Review.

PMID:
24579950
11.

A dynamic switch in the replication timing of key regulator genes in embryonic stem cells upon neural induction.

Perry P, Sauer S, Billon N, Richardson WD, Spivakov M, Warnes G, Livesey FJ, Merkenschlager M, Fisher AG, Azuara V.

Cell Cycle. 2004 Dec;3(12):1645-50. Epub 2004 Dec 4.

PMID:
15611653
12.

The impact of chromatin modifiers on the timing of locus replication in mouse embryonic stem cells.

Jørgensen HF, Azuara V, Amoils S, Spivakov M, Terry A, Nesterova T, Cobb BS, Ramsahoye B, Merkenschlager M, Fisher AG.

Genome Biol. 2007;8(8):R169.

13.

The role of H1 linker histone subtypes in preserving the fidelity of elaboration of mesendodermal and neuroectodermal lineages during embryonic development.

Nguyen GD, Gokhan S, Molero AE, Yang SM, Kim BJ, Skoultchi AI, Mehler MF.

PLoS One. 2014 May 6;9(5):e96858. doi: 10.1371/journal.pone.0096858. eCollection 2014.

14.

Dynamic expression of combinatorial replication-dependent histone variant genes during mouse spermatogenesis.

Sun R, Qi H.

Gene Expr Patterns. 2014 Jan;14(1):30-41. doi: 10.1016/j.gep.2013.10.002. Epub 2013 Oct 18.

PMID:
24140495
15.

Gata6 potently initiates reprograming of pluripotent and differentiated cells to extraembryonic endoderm stem cells.

Wamaitha SE, del Valle I, Cho LT, Wei Y, Fogarty NM, Blakeley P, Sherwood RI, Ji H, Niakan KK.

Genes Dev. 2015 Jun 15;29(12):1239-55. doi: 10.1101/gad.257071.114.

16.

Epigenomic analysis of multilineage differentiation of human embryonic stem cells.

Xie W, Schultz MD, Lister R, Hou Z, Rajagopal N, Ray P, Whitaker JW, Tian S, Hawkins RD, Leung D, Yang H, Wang T, Lee AY, Swanson SA, Zhang J, Zhu Y, Kim A, Nery JR, Urich MA, Kuan S, Yen CA, Klugman S, Yu P, Suknuntha K, Propson NE, Chen H, Edsall LE, Wagner U, Li Y, Ye Z, Kulkarni A, Xuan Z, Chung WY, Chi NC, Antosiewicz-Bourget JE, Slukvin I, Stewart R, Zhang MQ, Wang W, Thomson JA, Ecker JR, Ren B.

Cell. 2013 May 23;153(5):1134-48. doi: 10.1016/j.cell.2013.04.022. Epub 2013 May 9.

17.

Histone H1 variants are differentially expressed and incorporated into chromatin during differentiation and reprogramming to pluripotency.

Terme JM, Sesé B, Millán-Ariño L, Mayor R, Izpisúa Belmonte JC, Barrero MJ, Jordan A.

J Biol Chem. 2011 Oct 14;286(41):35347-57. doi: 10.1074/jbc.M111.281923. Epub 2011 Aug 18.

18.

Dual roles of histone H3 lysine 9 acetylation in human embryonic stem cell pluripotency and neural differentiation.

Qiao Y, Wang R, Yang X, Tang K, Jing N.

J Biol Chem. 2015 Jan 23;290(4):2508-20. doi: 10.1074/jbc.M114.603761. Epub 2014 Dec 17. Erratum in: J Biol Chem. 2015 Apr 17;290(16):9949.

19.

Histone variants as emerging regulators of embryonic stem cell identity.

Turinetto V, Giachino C.

Epigenetics. 2015;10(7):563-73. doi: 10.1080/15592294.2015.1053682. Review.

20.

Combinatorial modeling of chromatin features quantitatively predicts DNA replication timing in Drosophila.

Comoglio F, Paro R.

PLoS Comput Biol. 2014 Jan;10(1):e1003419. doi: 10.1371/journal.pcbi.1003419. Epub 2014 Jan 23.

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