Publications
Zhang B, Upadhyay R, Hao Y, Samanovic MI, Herati RS, Blair JD, Axelrad J, Mulligan MJ, Littman DR, Satija R. Multimodal single-cell datasets characterize antigen-specific CD8+ T cells across SARS-CoV-2 vaccination and infection. Nat Immunol. 2023 Oct;24(10):1725-1734. doi: 10.1038/s41590-023-01608-9. Epub 2023 Sep 21. PMID: 37735591; PMCID: PMC10522491.
Stuart T, Hao S, Zhang B, Mekerishvili L, Landau DA, Maniatis S, Satija R, Raimondi I. Nanobody-tethered transposition enables multifactorial chromatin profiling at single-cell resolution. Nat Biotechnol. 2023 Jun;41(6):806-812. doi: 10.1038/s41587-022-01588-5. Epub 2022 Dec 19. PMID: 36536150; PMCID: PMC10272075.
Zhang B, Srivastava A, Mimitou E, Stuart T, Raimondi I, Hao Y, Smibert P, Satija R. Characterizing cellular heterogeneity in chromatin state with scCUT&Tag-pro. Nat Biotechnol. 2022 Aug;40(8):1220-1230. doi: 10.1038/s41587-022-01250-0. Epub 2022 Mar 24. PMID: 35332340; PMCID: PMC9378363.
Wu X, Zhang H, Zhang B, Zhang Y, Wang Q, Shen W, Wu X, Li L, Xia W, Nakamura R, Liu B, Liu F, Takeda H, Meng A, Xie W. Methylome inheritance and enhancer dememorization reset an epigenetic gate safeguarding embryonic programs. Sci Adv. 2021 Dec 24;7(52):eabl3858. doi: 10.1126/sciadv.abl3858. Epub 2021 Dec 22. PMID: 34936444; PMCID: PMC8694617.
Xiang Y, Zhang Y, Xu Q, Zhou C, Liu B, Du Z, Zhang K, Zhang B, Wang X, Gayen S, Liu L, Wang Y, Li Y, Wang Q, Kalantry S, Li L, Xie W. Epigenomic analysis of gastrulation identifies a unique chromatin state for primed pluripotency. Nat Genet. 2020 Jan;52(1):95-105. doi: 10.1038/s41588-019-0545-1. Epub 2019 Dec 16. PMID: 31844322; PMCID: PMC7362285.
Xu Q, Xiang Y, Wang Q, Wang L, Brind'Amour J, Bogutz AB, Zhang Y, Zhang B, Yu G, Xia W, Du Z, Huang C, Ma J, Zheng H, Li Y, Liu C, Walker CL, Jonasch E, Lefebvre L, Wu M, Lorincz MC, Li W, Li L, Xie W. SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development. Nat Genet. 2019 May;51(5):844-856. doi: 10.1038/s41588-019-0398-7. Epub 2019 Apr 29. PMID: 31040401.
Zhang B, Wu X, Zhang W, Shen W, Sun Q, Liu K, Zhang Y, Wang Q, Li Y, Meng A, Xie W. Widespread Enhancer Dememorization and Promoter Priming during Parental-to-Zygotic Transition. Mol Cell. 2018 Nov 15;72(4):673-686.e6. doi: 10.1016/j.molcel.2018.10.017. PMID: 30444999.
Zheng H, Huang B, Zhang B, Xiang Y, Du Z, Xu Q, Li Y, Wang Q, Ma J, Peng X, Xu F, Xie W. Resetting Epigenetic Memory by Reprogramming of Histone Modifications in Mammals. Mol Cell. 2016 Sep 15;63(6):1066-79. doi: 10.1016/j.molcel.2016.08.032. PMID: 27635762.
Zhang B, Zheng H, Huang B, Li W, Xiang Y, Peng X, Ming J, Wu X, Zhang Y, Xu Q, Liu W, Kou X, Zhao Y, He W, Li C, Chen B, Li Y, Wang Q, Ma J, Yin Q, Kee K, Meng A, Gao S, Xu F, Na J, Xie W. Allelic reprogramming of the histone modification H3K4me3 in early mammalian development. Nature. 2016 Sep 22;537(7621):553-557. doi: 10.1038/nature19361. Epub 2016 Sep 14. PMID: 27626382.
Wu J, Huang B, Chen H, Yin Q, Liu Y, Xiang Y, Zhang B, Liu B, Wang Q, Xia W, Li W, Li Y, Ma J, Peng X, Zheng H, Ming J, Zhang W, Zhang J, Tian G, Xu F, Chang Z, Na J, Yang X, Xie W. The landscape of accessible chromatin in mammalian preimplantation embryos. Nature. 2016 Jun 30;534(7609):652-7. doi: 10.1038/nature18606. Epub 2016 Jun 15. PMID: 27309802.