Mitchener M, Muir T. Oncohistones: Exposing the nuances and vulnerabilities of epigenetic regulation. Mol Cell. 2022;82(16):2925–2938. PMCID: PMC9482148

Blostein F, Fisher J, Dou J, Schneper L, Ware E, Notterman D, Mitchell C, Bakulski K. Polymethylation scores for prenatal maternal smoke exposure persist until age 15 and are detected in saliva in the Fragile Families and Child Wellbeing cohort. Epigenetics. 2022;17(13):2223–2240. PMCID: PMC9665138

Lim A, Verrier T, Vosshenrich C, Di Santo J. Developmental options and functional plasticity of innate lymphoid cells. Curr Opin Immunol. 2017;44:61–68. PMID: 28359987

Lim A, McFadden T, Link V, Han S-J, Karlsson R-M, Stacy A, Farley T, Lima-Junior D, Harrison O, Desai J, Lionakis M, Shih H-Y, Cameron H, Belkaid Y. Prenatal maternal infection promotes tissue-specific immunity and inflammation in offspring. Science. 2021;373(6558). PMID: 34446580

Rubbi L, Zhang H, Feng J, He C, Kurnia P, Ratan P, Tammana A, House S, Thompson M, Farrell C, Snir S, Stahler D, Ostrander E, vonHoldt B, Pellegrini M. The effects of age, sex, weight, and breed on canid methylomes. Epigenetics. 2022;17(11):1497–1512. PMCID: PMC9586589

Colonnetta M, Goyal Y, Johnson H, Syal S, Schedl P, Deshpande G. Preformation and epigenesis converge to specify primordial germ cell fate in the early Drosophila embryo. PLoS Genet. 2022;18(1):e1010002. PMCID: PMC8765614

Eeftens J, Kapoor M, Michieletto D, Brangwynne C. Polycomb condensates can promote epigenetic marks but are not required for sustained chromatin compaction. Nat Commun. 2021;12(1):5888. PMCID: PMC8497513

Joyce B, Gao T, Koss K, Zheng Y, Cardenas A, Heiss J, Just A, Zhang K, van Horn L, Allen N, Greenland P, Cohen S, Gordon-Larsen P, Mitchell C, McLanahan S, Schneper L, Notterman D, Rifas-Shiman S, Oken E, Hivert M-F, Wright R, Baccarelli A, Lloyd-Jones D, Hou L. Impact of paternal education on epigenetic ageing in adolescence and mid-adulthood: a multi-cohort study in the USA and Mexico. Int J Epidemiol. 2022;51(3):870–884. PMCID: PMC9189973

Cable J, Pourquié O, Wellen K, Finley L, Aulehla A, Gould A, Teleman A, Tu W, Garrett W, Miguel-Aliaga I, Perrimon N, Hooper L, Walhout A, Wei W, Alexandrov T, Erez A, Ralser M, Rabinowitz J, Hemalatha A, Gutiérrez-Pérez P, Chandel N, Rutter J, Locasale J, Landoni J, Christofk H. Metabolic decisions in development and disease-a Keystone Symposia report. Ann N Y Acad Sci. 2021;1506(1):55–73. PMID: 34414571

Posfai E, Lanner F, Mulas C, Leitch H. All models are wrong, but some are useful: Establishing standards for stem cell-based embryo models. Stem Cell Reports. 2021;16(5):1117–1141. PMCID: PMC8185978

Moore R, Kaletsky R, Murphy C. Protocol for transgenerational learned pathogen avoidance behavior assays in . STAR Protoc. 2021;2(1):100384. PMCID: PMC7960678

Leicher R, Ge E, Lin X, Reynolds M, Xie W, Walz T, Zhang B, Muir T, Liu S. Single-molecule and in silico dissection of the interaction between Polycomb repressive complex 2 and chromatin. Proc Natl Acad Sci U S A. 2020;117(48):30465–30475. PMCID: PMC7720148

Xu Y, Zhang Y, García-Cañaveras J, Guo L, Kan M, Yu S, Blair I, Rabinowitz J, Yang X. Chaperone-mediated autophagy regulates the pluripotency of embryonic stem cells. Science. 2020;369(6502):397–403. PMCID: PMC7939502

Diehl K, Muir T. Chromatin as a key consumer in the metabolite economy. Nat Chem Biol. 2020;16(6):620–629. PMCID: PMC7258299

Burton A, Haugbro M, Gates L, Bagert J, Allis D, Muir T. In situ chromatin interactomics using a chemical bait and trap approach. Nat Chem. 2020;12(6):520–527. PMCID: PMC7331920

Zhu Q, Tekpli X, Troyanskaya O, Kristensen V. Subtype-specific transcriptional regulators in breast tumors subjected to genetic and epigenetic alterations. Bioinformatics. 2020;36(4):994–999. PMCID: PMC7031777

Moore R, Kaletsky R, Murphy C. Piwi/PRG-1 Argonaute and TGF-β Mediate Transgenerational Learned Pathogenic Avoidance. Cell. 2019;177(7):1827–1841.e12. PMCID: PMC7518193

Tabuchi T, Rechtsteiner A, Jeffers T, Egelhofer T, Murphy C, Strome S. Caenorhabditis elegans sperm carry a histone-based epigenetic memory of both spermatogenesis and oogenesis. Nat Commun. 2018;9(1):4310. PMCID: PMC6193031

Kyrchanova O, Kurbidaeva A, Sabirov M, Postika N, Wolle D, Aoki T, Maksimenko O, Mogila V, Schedl P, Georgiev P. The bithorax complex iab-7 Polycomb response element has a novel role in the functioning of the Fab-7 chromatin boundary. PLoS Genet. 2018;14(8):e1007442. PMCID: PMC6110506

vonHoldt B, Ji S, Aardema M, Stahler D, Udell M, Sinsheimer J. Activity of Genes with Functions in Human Williams-Beuren Syndrome Is Impacted by Mobile Element Insertions in the Gray Wolf Genome. Genome Biol Evol. 2018;10(6):1546–1553. PMCID: PMC6007319

Wang X, Paucek R, Gooding A, Brown Z, Ge E, Muir T, Cech T. Molecular analysis of PRC2 recruitment to DNA in chromatin and its inhibition by RNA. Nat Struct Mol Biol. 2017;24(12):1028–1038. PMCID: PMC5771497

Gong Y, Cao R, Ding G, Hong S, Zhou W, Lu W, Damle M, Fang B, Wang C, Qian J, Lie N, Lanzillotta C, Rabinowitz J, Sun Z. Integrated omics approaches to characterize a nuclear receptor corepressor-associated histone deacetylase in mouse skeletal muscle. Mol Cell Endocrinol. 2018;471:22–32. PMCID: PMC5702591

David Y, Muir T. Emerging Chemistry Strategies for Engineering Native Chromatin. J Am Chem Soc. 2017;139(27):9090–9096. PMCID: PMC5752102

Hong S, Zhou W, Fang B, Lu W, Loro E, Damle M, Ding G, Jager J, Zhang S, Zhang Y, Feng D, Chu Q, Dill B, Molina H, Khurana T, Rabinowitz J, Lazar M, Sun Z. Dissociation of muscle insulin sensitivity from exercise endurance in mice by HDAC3 depletion. Nat Med. 2017;23(2):223–234. PMCID: PMC5540654

Snir S, vonHoldt B, Pellegrini M. A Statistical Framework to Identify Deviation from Time Linearity in Epigenetic Aging. PLoS Comput Biol. 2016;12(11):e1005183. PMCID: PMC5106012

Holt M, David Y, Pollock S, Tang Z, Jeon J, Kim J, Roeder R, Muir T. Identification of a functional hotspot on ubiquitin required for stimulation of methyltransferase activity on chromatin. Proc Natl Acad Sci U S A. 2015;112(33):10365–70. PMCID: PMC4547310

Verhoeven K, vonHoldt B, Sork V. Epigenetics in ecology and evolution: what we know and what we need to know. Mol Ecol. 2016;25(8):1631–8. PMID: 26994410

Zhou J, Troyanskaya O. Probabilistic modelling of chromatin code landscape reveals functional diversity of enhancer-like chromatin states. Nat Commun. 2016;7:10528. PMCID: PMC4742914

Su X, Wellen K, Rabinowitz J. Metabolic control of methylation and acetylation. Curr Opin Chem Biol. 2016;30:52–60. PMCID: PMC4731252

Notterman D, Mitchell C. Epigenetics and Understanding the Impact of Social Determinants of Health. Pediatr Clin North Am. 2015;62(5):1227–40. PMCID: PMC4555996

Mitchell C, Schneper L, Notterman D. DNA methylation, early life environment, and health outcomes. Pediatr Res. 2016;79(1-2):212–9. PMCID: PMC4798238

Erokhin M, Elizar’ev P, Parshikov A, Schedl P, Georgiev P, Chetverina D. Transcriptional read-through is not sufficient to induce an epigenetic switch in the silencing activity of Polycomb response elements. Proc Natl Acad Sci U S A. 2015;112(48):14930–5. PMCID: PMC4672805