Publications
Zhenhai Du, Liangjun Hu, Zhuoning Zou, Meishuo Liu, Zihan Li, Xukun Lu, Clair Harris, Yunlong Xiang, Fengling Chen, Guang Yu, Kai Xu, Feng Kong, Qianhua Xu, Bo Huang, Ling Liu, Qiang Fan, Haifeng Wang*, Sundeep Kalantry,* Wei Xie*. Stepwise de novo establishment of inactive X chromosome architecture in early development. Nature Genetics, 2024. *, Co-corresponding authors. Du et al., 2024.pdf
Khoa LT P, Yang W, Shan M, Zhang L, Mao F, Zhou B, Li Q, Malcore R, Harris C, Zhao L, Rao RC, Iwase S, Kalantry S, Bielas SL, Lyssiotis CA, Dou Y. Quiescence enables unrestricted cell fate in naive embryonic stem cells. Nature Communications, 2024. Khoa et al., 2024.pdf
Malcore R & Kalantry S. A Comparative Analysis of Mouse Imprinted and Random X Chromosome Inactivation. Epigenomes, 2024. Malcore & Kalantry, 2024.pdf
Samanta MK*, Gayen S*, Harris C, Maclary E, Murata-Nakamura Y, Malcore RM, Porter RS, Garay PM, Vallianatos C, Samollow PB, Iwase S, and Kalantry S. Activation of Xist by an Evolutionarily Conserved Function of the KDM5C Demethylase. Nature Communications, 2022. *, Equal contribution. Samanta et al., 2022.pdf
Cloutier M*, Kumar S*, Buttigieg E, Keller L, Lee B, Williams A, Mojica-Perez S, Erliandri I, Monteiro Da Rocha A, Cadigan K, Smith GD, and Kalantry S. *, Equal contribution. Preventing Erosion of X-chromosome Inactivation in Human Embryonic Stem Cells. Nature Communications, 2022. *, Equal contribution. Cloutier et al., 2022.pdf
Yi Y, Meng Q, Li Q, Li F, Lu B, Shen J, Fazli L, Zhao D, Li C, Jiang W, Wang R, Liu Q, Szczepanski A, Li Q, Qin W, Weiner AB, Lotan TL, Ji Z, Kalantry S, Wang L, Schaeffer EM, Niu H, Dong X, Zhao W, Chen K, Cao Q. A PRC2-independent function for EZH2 in regulating rRNA 2′-O methylation and IRES-dependent translation. Nature Cell Biology, 2020. Yi et al., 2020.pdf
Xiang Y, Zhang Y, Xu Q, Zhout C, Liu B, Du Z, Zhang K, Zhang B, Wang Z, Gayen S, Liu L, Wang Y, Li Y, Wang Q, Kalantry S, Li L, X W. Epigenomic analysis of gastrulation identifies a unique chromatin state for primed pluripotency. Nature Genetics, 2020. Xiang et al., 2020.pdf
Samanta M, Kalantry S. Generating primed pluripotent epiblast stem cells: A methodology chapter. Current Topics in Developmental Biology, 2020. Samanta & Kalantry, 2020.pdf
Harris C*, Cloutier M*, Trotter M, Hinten M, Gayen S, Du Z, Xie W, Kalantry S. Conversion of Random X-inactivation to Imprinted X-inactivation by Maternal PRC2. eLife, 2019. Harris, Cloutier et al., 2019.pdf
Cloutier M*, Harris C*, Gayen S*, Maclary E*, Kalantry S. Experimental Analysis of Imprinted Mouse X-Chromosome Inactivation. Methods in Molecular Biology, 2018. *, Equal contribution. Cloutier et al., 2018.pdf
Gayen S, Kalantry S. Chromatin-enriched lncRNAs: a novel class of enhancer RNAs. Nature Structural & Molecular Biology, 2017. Gayen et al., 2017.pdf
Maclary E, Hinten M, Harris C, Sethuraman S, Gayen S, Kalantry S. PRC2 represses transcribed genes on the imprinted inactive X chromosome in mice. Genome Biology, 2017. Maclary et al., 2017.pdf
Huisman B*, Manske G*, Carney S*, Kalantry S. Functional Dissection of the m6A RNA Modification. Trends in Biochemical Sciences, 2017. *, Equal contribution. Huisman et al., 2016.pdf
Zhang H, Gayen S, Xiong J, Zhou B, Shanmugam AK, Sun Y, Karatas H, Liu L, Rao RC, Wang S, Nesvizhskii AI, Kalantry S, and Dou Y. MLL1 Inhibition Reprograms Epiblast Stem cells to Naive Pluripotency. Cell Stem Cell, 2016. Zhang et al., 2016.pdf
Gayen S, Maclary E, Hinten M, and Kalantry S. Sex-specific Silencing of X-linked Genes by Xist RNA. PNAS, 2016. Gayen et al., 2016.pdf
Hinten M*, Maclary E*, Gayen S*, Harris C*, and Kalantry S. Visualizing Long Non-coding RNAs on Chromatin. Methods in Molecular Biology, 2016. *, Equal contribution. Hinten et al., 2016.pdf
Taniguchi K, Townshend RF, Freddo AM, Prakash A, Gayen S, Harris CE, Tsai Y-H, DeLong CJ, Chue DJ, Lopez SA, Spence JR, O’Shea KS, Margolis B, Kalantry S, and Gumucio DL. Pluripotent Stem Cells: An Improved Model of Lumen Formation. Stem Cell Reports 5:954-962, 2015. Taniguchi et al., 2015.pdf
Kalantry S and Mueller. Mary Lyon: A Tribute. Americal Journal of Human Genetics,97(4):507-511, 2015. Kalantry & Mueller, 2015.pdf
Ku C-J, Lim K-C, Kalantry S, Maillard I, Engel JD, and Tomonori H. A mono- to biallelic T cell transcriptional switch regulates GATA3 abundance. Genes & Development, 29(18):1930-41, 2015. Ku et al., 2015.pdf
Sarkar MK*, Gayen S*, Kumar S*, Maclary E, Buttigieg E, Hinten M, Kumari A, Harris C, Sado T, and Kalantry S. An Xist Activating Antisense RNA Required for X-chromosome Inactivation. Nature Communications, 6:8564, 2015. *, Equal contribution. Sarkar et al., 2015.pdf
Kang, J, Lienhard M, Pastor WA, Chawla A, Novotny M, Tsagaratou A, Lasken RS, Thompson EC, Surani MA, Koralov SB, Kalantry S, Chavez L, and Rao A. Simultaneous deletion of Tet1 and Tet3 increases transcriptional variability in early embryogenesis. PNAS, 112(31):E4236-45, 2015. Kang et al., 2015.pdf
Gayen S*, Maclary E*, Buttigieg E, Hinten M, and Kalantry S. A Primary Role for the Tsix lncRNA in Maintaining Random X-Chromosome Inactivation. Cell Reports, 26;11(8):1251-65, 2015. *, Equal contribution. Gayen et al., 2015.pdf
Maclary E, Buttigieg E, Hinten M, Gayen S, Harris C, Sarkar MK, Purushothaman S, and Kalantry S. Differentiation-dependent requirement of Tsix long non-coding RNA in imprinted X-chromosome inactivation. Nature Communications, 5:4209, 2014. Maclary et al., 2014.pdf
Cao Q, Wang X, Zhao M, Yang R, Malik R, Qiao Y, Poliakov A, Yocum AK, Li Y, Chen W, Cao X, Jiang X, Dahiya A, Harris C, Feng FY, Kalantry S, Qin ZS, Dhanasekaran SM, and Chinnaiyan AM. The central role of EED in the orchestration of Polycomb Group complexes. Nature Communications, 5: 3127, 2014. Cao et al., 2014.pdf
Maclary E*, Hinten M*, Harris C*, and Kalantry, S. Long noncoding RNAs in the X-inactivation center. Chromosome Research, 21(6-7): 601-614, 2013. *, Equal contribution. Maclary et al., 2013.pdf
Kang J, Kalantry S, and Rao A. PGC7, H3K9me2 and Tet3: regulators of DNA methylation in zygotes. Cell Research, 23(1): 6-9, 2013. Kang et al., 2013.pdf
Jiao B, Ma H, Shokhirev MN, Drung A, Yang Q, Shin JD, Lu S, Byron M, Kalantry S, Mercurio A, Lawrence JB, Hoffmann A, Bach I. Paternal RLIM/Rnf12 is a survival factor for milk producing alveolar cells. Cell, 149 (3): 630-641, 2012. Jiao et al., 2012.pdf
Williams LH, Kalantry S, Starmer J, Magnuson T. Transcription precedes loss of Xist coating and depletion of H3K27me3 during X-chromosome reprogramming in the mouse inner cell mass. Development, 226 (7): 1714-1718, 2011. Development 2011 Williams.pdf
Kalantry S. Recent advances in X-chromosome inactivation. J. Cell. Physiol., 226 (7): 1714-1718, 2011. Kalantry, 2011.pdf
Kalantry S, Purushothaman S, Bowen Randall B, Starmer J, Magnuson T. Evidence of Xist RNA-independent initiation of mouse imprinted X-chromosome inactivation. Nature, 460 (7255): 647-651, 2009. Kalantry et al., 2009.pdf Supplement.pdf
Alexander MK, Mlynarczyk-Evans S, Royce-Tolland M, Plocik A, Kalantry S, Magnuson T, Panning B. Differences between homologous alleles of olfactory receptor genes require the Polycomb Group protein Eed. J Cell Biol, 179(2):269-276, 2007. Alexander et al., 2007.pdf
Kalantry S, Magnuson T. Epigenetic influences on gene expression pathways. In Principles of Developmental Genetics, S. A. Moody, ed. (Elsevier Academic Press) 2007.
Ciavatta D, Kalantry S, Magnuson T, Smithies O. A DNA insulator prevents repression of a targeted X-linked transgene but not its random or imprinted X inactivation. PNAS, 103(26):9958-9963, 2006. Ciavatta et al., 2006.pdf
Kalantry S, and Magnuson T. The Polycomb Group Protein EED Is Dispensable for the Initiation of Random X-Chromosome Inactivation. PLoS Genetics, 2(5):e66, 2006. Kalantry et al., 2006b.pdf
Kalantry S, Mills KC, Yee D, Otte A, Panning B, and Magnuson T. The Polycomb group protein EED protects the inactive X-chromosome from differentiation-induced reactivation. Nature Cell Biology, 8(2):195-202, 2006. Kalantry et al., 2006a.pdf Supplement.pdf
Mlynarczyk-Evans S, Andersen, A A, Kalantry S, Gribnau J, Panning B. X Chromosomes Alternate between Two States prior to Random X-Inactivation. PLoS Biology, 4(6):e159, 2006. Mlynarczyk-Evans et al., 2006.pdf
Montgomery N, Chen, A, Kalantry S, Yee D, Chamberlain S, Otte A, Magnuson, T. The Polycomb PRC2 complex mediates mono-, di-, and tri-methylation of Histone H3-Lysine 27. Current Biology, 15(10):942-947, 2005. Montgomery et al., 2005.pdf
Kalantry S, Manning S, Haub O, Tomihara-Newberger C, Lee H-G, Fangman J, Disteche CM, Manova K, and Lacy E. Amnionless, an essential gene for mouse gastrulation, encodes a visceral endoderm-specific protein with an extracellular cysteine-rich doman. Nature Genetics, 27:412-416, 2001. Kalantry et al., 2001.pdf
Zhong S, Delva L, Rachez C, Cenciarelli C, Gandini D, Zhang H, Kalantry S, Freedman LP, Pandolfi PP. A RA-dependent, tumour-growth suppressive transcription complex is the target of the PML-RARalpha and T18 oncoproteins. Nature Genetics 23(3):287-95, 1999. Zhong et al., 1999.pdf
Manova K, Tomihara-Newberger C, Wang S, Godelman A, Kalantry S, Witty-Blease K, De Leon V, Chen WS, Lacy E, and Bachvarova RF. Apoptosis in mouse embryos: elevated levels in pregastrulae and in the distal anterior region of gastrulae of normal and mutant mice. Developmental Dynamics, 213:293-308, 1998. Manova et al., 1998.pdf
Kalantry S, Delva L, Gaboli M, Gandini D, Giorgio M, Hawe N, He LZ, Peruzzi D, Rivi R, Tribioli C, Wang ZG, Zhag H, Pandolfi PP. Gene rearrangements in the molecular pathogenesis of acute promyelocytic leukemia. J. Cell. Physiol., 173(2):288-296, 1997. Kalantry et al., 1998.pdf
Manova K, De Leon V, Angeles M, Kalantry S, Giarre M, Attisano L, Wrana J, Bachvarova RF. MRNAs for activin receports II and IIB are expressed in mouse oocytes and in the epiblast of pregastrula and gastrula stage mouse embryos. Mech Dev., 49(1-2):3-11, 1995. Manova et al., 1995.pdf