Zhang W, Chronis C, Chen X, Zhang H, Spalinskas R, Pardo M, Chen L, Wu G, Zhu Z, Yu Y, Yu L, Choudhary J, Nichols J, Parast MM, Greber B, Sahlén P, Plath K. The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation. Cell Stem Cell. 2019 Jan 3;24(1):138-152.e8. doi: 10.1016/j.stem.2018.12.001. PubMed PMID: 30609396; PubMed Central PMCID: PMC6486830.

Sun F, Chronis C, Kronenberg M, Chen XF, Su T, Lay FD, Plath K, Kurdistani SK, Carey MF. Promoter-Enhancer Communication Occurs Primarily within Insulated Neighborhoods. Mol Cell. 2019 Jan 17;73(2):250-263.e5. doi: 10.1016/j.molcel.2018.10.039. Epub 2018 Dec 6. PubMed PMID: 30527662; PubMed Central PMCID: PMC6338517.

Bonora G, Rubbi L, Morselli M, Ma F, Chronis C, Plath K, Pellegrini M. DNA methylation estimation using methylation-sensitive restriction enzyme bisulfite sequencing (MREBS). PLoS One. 2019;14(4):e0214368. doi: 10.1371/journal.pone.0214368. eCollection 2019. PubMed PMID: 30946758; PubMed Central PMCID: PMC6448829.

Fu K, Chronis C, Soufi A, Bonora G, Edwards M, Smale ST, Zaret KS, Plath K, Pellegrini M. Comparison of reprogramming factor targets reveals both species-specific and conserved mechanisms in early iPSC reprogramming. BMC Genomics. 2018 Dec 22;19(1):956. doi: 10.1186/s12864-018-5326-1. PubMed PMID: 30577748; PubMed Central PMCID: PMC6303873.

Pasque V, Karnik R, Chronis C, Petrella P, Langerman J, Bonora G, Song J, Vanheer L, Sadhu Dimashkie A, Meissner A, Plath K. X Chromosome Dosage Influences DNA Methylation Dynamics during Reprogramming to Mouse iPSCs. Stem Cell Reports. 2018 May 8;10(5):1537-1550. doi: 10.1016/j.stemcr.2018.03.019. Epub 2018 Apr 19. PubMed PMID: 29681539;

Ohashi M, Korsakova E, Allen D, Lee P, Fu K, Vargas BS, Cinkornpumin J, Salas C, Park JC, Germanguz I, Langerman J, Chronis C, Kuoy E, Tran S, Xiao X, Pellegrini M, Plath K, Lowry WE. Loss of MECP2 Leads to Activation of P53 and Neuronal Senescence. Stem Cell Reports. 2018 May 8;10(5):1453-1463. doi: 10.1016/j.stemcr.2018.04.001. PubMed PMID: 29742391;

Chronis C, Fiziev P, Papp B, Butz S, Bonora G, Sabri S, Ernst J, Plath K. Cooperative Binding of Transcription Factors Orchestrates Reprogramming. Cell. 2017 Jan 26;168(3):442-459.e20. doi: 10.1016/j.cell.2016.12.016. Epub 2017 Jan 19. PubMed PMID: 28111071; PubMed Central PMCID: PMC5302508.

Sahakyan A, Kim R, Chronis C, Sabri S, Bonora G, Theunissen TW, Kuoy E, Langerman J, Clark AT, Jaenisch R, Plath K. Human Naive Pluripotent Stem Cells Model X Chromosome Dampening and X Inactivation. Cell Stem Cell. 2017 Jan 5;20(1):87-101. doi: 10.1016/j.stem.2016.10.006. Epub 2016 Dec 15. PubMed PMID: 27989770; PubMed Central PMCID: PMC5218861.

Xue Y, Pradhan SK, Sun F, Chronis C, Tran N, Su T, Van C, Vashisht A, Wohlschlegel J, Peterson CL, Timmers HTM, Kurdistani SK, Carey MF. Mot1, Ino80C, and NC2 Function Coordinately to Regulate Pervasive Transcription in Yeast and Mammals. Mol Cell. 2017 Aug 17;67(4):594-607.e4. doi: 10.1016/j.molcel.2017.06.029. Epub 2017 Jul 20. PubMed PMID: 28735899

Patel S, Bonora G, Sahakyan A, Kim R, Chronis C, Langerman J, Fitz-Gibbon S, Rubbi L, Skelton RJP, Ardehali R, Pellegrini M, Lowry WE, Clark AT, Plath K. Human Embryonic Stem Cells Do Not Change Their X Inactivation Status during Differentiation. Cell Rep. 2017 Jan 3;18(1):54-67. doi: 10.1016/j.celrep.2016.11.054. Epub 2016 Dec 16. PubMed PMID: 27989715;

Denholtz M, Bonora G, Chronis C, Splinter E, de Laat W, Ernst J, Pellegrini M, Plath K. Long-range chromatin contacts in embryonic stem cells reveal a role for pluripotency factors and polycomb proteins in genome organization. Cell Stem Cell. 2013 Nov 7;13(5):602-16. doi: 10.1016/j.stem.2013.08.013. Epub 2013 Sep 12. PubMed PMID: 24035354;

Sridharan R, Gonzales-Cope M, Chronis C, Bonora G, McKee R, Huang C, Patel S, Lopez D, Mishra N, Pellegrini M, Carey M, Garcia BA, Plath K. Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency. Nat Cell Biol. 2013 Jul;15(7):872-82. doi: 10.1038/ncb2768. Epub 2013 Jun 9. PubMed PMID: 23748610; PubMed Central PMCID: PMC3733997.

Gäken J, Mohamedali AM, Jiang J, Malik F, Stangl D, Smith AE, Chronis C, Kulasekararaj AG, Thomas NS, Farzaneh F, Tavassoli M, Mufti GJ. A functional assay for microRNA target identification and validation. Nucleic Acids Res. 2012 May;40(10):e75. doi: 10.1093/nar/gks145. Epub 2012 Feb 9. PubMed PMID: 22323518; PubMed Central PMCID: PMC3378903.

Orr SJ, Boutz DR, Wang R, Chronis C, Lea NC, Thayaparan T, Hamilton E, Milewicz H, Blanc E, Mufti GJ, Marcotte EM, Thomas NS. Proteomic and protein interaction network analysis of human T lymphocytes during cell-cycle entry. Mol Syst Biol. 2012 Mar 13;8:573. doi: 10.1038/msb.2012.5. PubMed PMID: 22415777; PubMed Central PMCID: PMC3321526.

Ho R, Chronis C, Plath K. Mechanistic insights into reprogramming to induced pluripotency. J Cell Physiol. 2011 Apr;226(4):868-78. doi: 10.1002/jcp.22450. Review. PubMed PMID: 20945378; PubMed Central PMCID: PMC3077549.

Orr SJ, Gaymes T, Ladon D, Chronis C, Czepulkowski B, Wang R, Mufti GJ, Marcotte EM, Thomas NS. Reducing MCM levels in human primary T cells during the G(0)-->G(1) transition causes genomic instability during the first cell cycle. Oncogene. 2010 Jul 1;29(26):3803-14. doi: 10.1038/onc.2010.138. Epub 2010 May 3. PubMed PMID: 20440261; PubMed Central PMCID: PMC3654664.

Smith AE, Chronis C, Christodoulakis M, Orr SJ, Lea NC, Twine NA, Bhinge A, Mufti GJ, Thomas NS. Epigenetics of human T cells during the G0-->G1 transition. Genome Res. 2009 Aug;19(8):1325-37. doi: 10.1101/gr.085530.108. Epub 2009 Jun 22. PubMed PMID: 19546172; PubMed Central PMCID: PMC2720178.

Raj K, John A, Ho A, Chronis C, Khan S, Samuel J, Pomplun S, Thomas NS, Mufti GJ. CDKN2B methylation status and isolated chromosome 7 abnormalities predict responses to treatment with 5-azacytidine. Leukemia. 2007 Sep;21(9):1937-44. doi: 10.1038/sj.leu.2404796. Epub 2007 Jul 5. PubMed PMID: 17611569.