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Items: 18

1.

Lysosomal Signaling Licenses Embryonic Stem Cell Differentiation via Inactivation of Tfe3.

Villegas F, Lehalle D, Mayer D, Rittirsch M, Stadler MB, Zinner M, Olivieri D, Vabres P, Duplomb-Jego L, De Bont ESJM, Duffourd Y, Duijkers F, Avila M, Geneviève D, Houcinat N, Jouan T, Kuentz P, Lichtenbelt KD, Thauvin-Robinet C, St-Onge J, Thevenon J, van Gassen KLI, van Haelst M, van Koningsbruggen S, Hess D, Smallwood SA, Rivière JB, Faivre L, Betschinger J.

Cell Stem Cell. 2019 Feb 7;24(2):257-270.e8. doi: 10.1016/j.stem.2018.11.021. Epub 2018 Dec 27.

PMID:
30595499
2.

Genome-Scale Oscillations in DNA Methylation during Exit from Pluripotency.

Rulands S, Lee HJ, Clark SJ, Angermueller C, Smallwood SA, Krueger F, Mohammed H, Dean W, Nichols J, Rugg-Gunn P, Kelsey G, Stegle O, Simons BD, Reik W.

Cell Syst. 2018 Jul 25;7(1):63-76.e12. doi: 10.1016/j.cels.2018.06.012.

3.

Low Input Whole-Genome Bisulfite Sequencing Using a Post-Bisulfite Adapter Tagging Approach.

Peat JR, Smallwood SA.

Methods Mol Biol. 2018;1708:161-169. doi: 10.1007/978-1-4939-7481-8_9.

PMID:
29224144
4.

Genome-Wide Analysis of DNA Methylation in Single Cells Using a Post-bisulfite Adapter Tagging Approach.

Lee HJ, Smallwood SA.

Methods Mol Biol. 2018;1712:87-95. doi: 10.1007/978-1-4939-7514-3_7.

PMID:
29224070
5.

Transcription and chromatin determinants of de novo DNA methylation timing in oocytes.

Gahurova L, Tomizawa SI, Smallwood SA, Stewart-Morgan KR, Saadeh H, Kim J, Andrews SR, Chen T, Kelsey G.

Epigenetics Chromatin. 2017 May 12;10:25. doi: 10.1186/s13072-017-0133-5. eCollection 2017.

6.

Genome-wide base-resolution mapping of DNA methylation in single cells using single-cell bisulfite sequencing (scBS-seq).

Clark SJ, Smallwood SA, Lee HJ, Krueger F, Reik W, Kelsey G.

Nat Protoc. 2017 Mar;12(3):534-547. doi: 10.1038/nprot.2016.187. Epub 2017 Feb 9.

PMID:
28182018
7.

Single-cell epigenomics: powerful new methods for understanding gene regulation and cell identity.

Clark SJ, Lee HJ, Smallwood SA, Kelsey G, Reik W.

Genome Biol. 2016 Apr 18;17:72. doi: 10.1186/s13059-016-0944-x. Review.

8.

Erratum to: Deep sequencing and de novo assembly of the mouse occyte transcriptome define the contribution of transcription to the DNA methylation landscape.

Veselovska L, Smallwood SA, Saadeh H, Stewart KR, Krueger F, Maupetit-Méhouas S, Arnaud P, Tomizawa S, Andrews S, Kelsey G.

Genome Biol. 2015 Dec 3;16:271. doi: 10.1186/s13059-015-0809-8. No abstract available.

9.

Dynamic changes in histone modifications precede de novo DNA methylation in oocytes.

Stewart KR, Veselovska L, Kim J, Huang J, Saadeh H, Tomizawa S, Smallwood SA, Chen T, Kelsey G.

Genes Dev. 2015 Dec 1;29(23):2449-62. doi: 10.1101/gad.271353.115. Epub 2015 Nov 19.

10.

Continuous Histone Replacement by Hira Is Essential for Normal Transcriptional Regulation and De Novo DNA Methylation during Mouse Oogenesis.

Nashun B, Hill PW, Smallwood SA, Dharmalingam G, Amouroux R, Clark SJ, Sharma V, Ndjetehe E, Pelczar P, Festenstein RJ, Kelsey G, Hajkova P.

Mol Cell. 2015 Nov 19;60(4):611-25. doi: 10.1016/j.molcel.2015.10.010. Epub 2015 Nov 5.

11.

Deep sequencing and de novo assembly of the mouse oocyte transcriptome define the contribution of transcription to the DNA methylation landscape.

Veselovska L, Smallwood SA, Saadeh H, Stewart KR, Krueger F, Maupetit-Méhouas S, Arnaud P, Tomizawa S, Andrews S, Kelsey G.

Genome Biol. 2015 Sep 25;16:209. doi: 10.1186/s13059-015-0769-z. Erratum in: Genome Biol. 2015;16:271.

12.

Genome-wide bisulfite sequencing in zygotes identifies demethylation targets and maps the contribution of TET3 oxidation.

Peat JR, Dean W, Clark SJ, Krueger F, Smallwood SA, Ficz G, Kim JK, Marioni JC, Hore TA, Reik W.

Cell Rep. 2014 Dec 24;9(6):1990-2000. doi: 10.1016/j.celrep.2014.11.034. Epub 2014 Dec 12.

13.

Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity.

Smallwood SA, Lee HJ, Angermueller C, Krueger F, Saadeh H, Peat J, Andrews SR, Stegle O, Reik W, Kelsey G.

Nat Methods. 2014 Aug;11(8):817-820. doi: 10.1038/nmeth.3035. Epub 2014 Jul 20.

14.

Detailed analysis of the genetic and epigenetic signatures of iPSC-derived mesodiencephalic dopaminergic neurons.

Roessler R, Smallwood SA, Veenvliet JV, Pechlivanoglou P, Peng SP, Chakrabarty K, Groot-Koerkamp MJ, Pasterkamp RJ, Wesseling E, Kelsey G, Boddeke E, Smidt MP, Copray S.

Stem Cell Reports. 2014 Apr 3;2(4):520-33. doi: 10.1016/j.stemcr.2014.03.001. eCollection 2014 Apr 8.

15.

Genome-wide analysis of DNA methylation in low cell numbers by reduced representation bisulfite sequencing.

Smallwood SA, Kelsey G.

Methods Mol Biol. 2012;925:187-97. doi: 10.1007/978-1-62703-011-3_12.

PMID:
22907498
16.

De novo DNA methylation: a germ cell perspective.

Smallwood SA, Kelsey G.

Trends Genet. 2012 Jan;28(1):33-42. doi: 10.1016/j.tig.2011.09.004. Epub 2011 Oct 21. Review.

PMID:
22019337
17.

Dynamic CpG island methylation landscape in oocytes and preimplantation embryos.

Smallwood SA, Tomizawa S, Krueger F, Ruf N, Carli N, Segonds-Pichon A, Sato S, Hata K, Andrews SR, Kelsey G.

Nat Genet. 2011 Jun 26;43(8):811-4. doi: 10.1038/ng.864.

18.

Transcription is required for establishment of germline methylation marks at imprinted genes.

Chotalia M, Smallwood SA, Ruf N, Dawson C, Lucifero D, Frontera M, James K, Dean W, Kelsey G.

Genes Dev. 2009 Jan 1;23(1):105-17. doi: 10.1101/gad.495809. Erratum in: Genes Dev. 2009 Oct 1;23(19):2358.

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