2023
Richard Albert J, Kobayashi T, Inoue A, Monteagudo-Sánchez A, Kumamoto S, Takashima T, Miura A, Oikawa M, Miura F, Takada S, Hirabayashi M, Korthauer K, Kurimoto K, Greenberg MVC, Lorincz M, Kobayashi H.
Conservation and divergence of canonical and non-canonical imprinting in murids.
Genome Biol. 2023 Mar 14;24(1):48. doi: 10.1186/s13059-023-02869-1.
Shirane K, Lorincz M.
Epigenetic mechanisms governing female and male germline development in mammals.
Sex Dev. 2023 Jan 26. doi: 10.1159/000529336.
2022
Brind'Amour J, Lorincz MC.
Profiling Histone Methylation in Low Numbers of Cells.
Methods Mol Biol. 2022;2529:229-251. doi: 10.1007/978-1-0716-2481-4_11.
2021
Mochizuki K, Sharif J, Shirane K, Uranishi K, Bogutz AB, Janssen SM, Suzuki A, Okuda A, Koseki H, Lorincz MC.
Repression of germline genes by PRC1.6 and SETDB1 in the early embryo precedes DNA methylation-mediated silencing.
Nat Commun. 2021 Dec 2;12(1):7020. doi: 10.1038/s41467-021-27345-x.
Janssen SM, Lorincz MC.
Interplay between chromatin marks in development and disease.
Nat Rev Genet. 2021 Oct 4. doi: 10.1038/s41576-021-00416-x.
Karahan G, Chan D, Shirane K, McClatchie T, Janssen S, Baltz JM, Lorincz M, Trasler J.
Paternal MTHFR deficiency leads to hypomethylation of young retrotransposons and reproductive decline across two successive generations.
Development. 2021 Jul 1;148(13):dev199492. doi: 10.1242/dev.199492. Epub 2021 Jul 6.
Lismer A, Dumeaux V, Lafleur C, Lambrot R, Brind'Amour J, Lorincz MC, Kimmins S.
Histone H3 lysine 4 trimethylation in sperm is transmitted to the embryo and associated with diet-induced phenotypes in the offspring.
Dev Cell. 2021 Mar 8;56(5):671-686.e6. doi: 10.1016/j.devcel.2021.01.014. Epub 2021 Feb 16.
Martin BJE, Brind'Amour J, Kuzmin A, Jensen KN, Liu ZC, Lorincz M, Howe LJ.
Transcription shapes genome-wide histone acetylation patterns.
Nat Commun. 2021 Jan 11;12(1):210. doi: 10.1038/s41467-020-20543-z.
2020
Richard Albert J, Au Yeung WK, Toriyama K, Kobayashi H, Hirasawa R, Brind'Amour J, Bogutz A, Sasaki H, Lorincz M.
Maternal DNMT3A-dependent de novo methylation of the paternal genome inhibits gene expression in the early embryo.
Nat Commun. 2020 Oct 27;11(1):5417. doi: 10.1038/s41467-020-19279-7.
Shirane K, Miura F, Ito T, Lorincz MC.
NSD1-deposited H3K36me2 directs de novo methylation in the mouse male germline and counteracts Polycomb-associated silencing.
Nat Genet. 2020 Sep 14. doi: 10.1038/s41588-020-0689-z. Online ahead of print.
Rebollo R, Galvão-Ferrarini M, Gagnier L, Zhang Y, Ferraj A, Beck CR, Lorincz MC, Mager DL.
Inter-Strain Epigenomic Profiling Reveals a Candidate IAP Master Copy in C3H Mice.
Viruses. 2020 Jul 21;12(7):783. doi: 10.3390/v12070783.
Brind'Amour J, Lorincz MC.
Setting the chromatin stage in oocytes.
Nature cell biology. 2020 Apr;22(4):355-357. doi: 10.1038/s41556-020-0499-7.
Hu CK, Wang W, Brind'Amour J, Singh PP, Reeves GA, Lorincz MC, Alvarado AS, Brunet A.
Vertebrate diapause preserves organisms long term through Polycomb complex members.
Science. 2020 Feb 21;367(6480):870-874. doi: 10.1126/science.aaw2601.
2019
Bogutz AB, Brind'Amour J, Kobayashi H, Jensen KN, Nakabayashi K, Imai H, Lorincz MC, Lefebvre L
Evolution of Imprinting via lineage-specific insertion of retroviral promoters
Nat Commun. 2019 December;10(1):5674, doi:10.1038/s41467-019-13662-9
Shi H, Strogantsev R, Takahashi N, Kazachenka A, Lorincz MC, Hemberger M, Ferguson-Smith AC
ZFP57 regulation of transposable elements and gene expression within and beyond imprinted domains.
Epigenetics Chromatin. 2019 August;12(1):49, doi:10.1186/s13072-019-0295-4
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.
Nature Genetics. 2019 May;51(5), 844-856. doi: 10.1038/s41588-019-0398-7
Au Yeung WK, Brind'Amour J, Hatano Y, Yamagata K, Feil R, Lorincz MC, Tachibana M, Shinkai Y, Sasaki H.
Histone H3K9 Methyltransferase G9a in Oocytes Is Essential for Preimplantation Development but Dispensable for CG Methylation Protection.
Cell Reports. 2019 April;27(1), 282-293.e4. doi:10.1016/j.celrep.2019.03.002
2018
Brind'Amour J, Kobayashi H, Richard Albert J, Shirane K, Sakashita A, Kamio A, Bogutz A, Koike T, Karimi MM, Lefebvre L, Kono T, Lorincz MC.
LTR retrotransposons transcribed in oocytes drive species-specific and heritable changes in DNA methylation.
Nat Commun. 2018 August;9(1):3331. doi: 10.1038/s41467-018-05841-x
Richard Albert J, Koike T, Younesy H, Thompson R, Bogutz AB, Karimi MM, Lorincz MC.
Development and application of an integrated allele-specific pipeline for methylomic and epigenomic analysis (MEA)
BMC Genomics. 2018 June;19(1), 125. doi: 10.1186/s12864-018-4835-2
Jensen KN, Lorincz MC.
HP1 proteins safeguard embryonic stem cells
Nature. 2018 May;557(7707):640-641. doi: 10.1038/d41586-018-05188-9.
Chen CCL, Goyal P, Karimi MM, Abildgaard MH, Kimura H, Lorincz MC.
H3S10ph broadly marks early-replicating domains in interphase ESCs and shows reciprocal antagonism with H3K9me2.
Genome Res. 2018 Jan;28(1):37-51. doi: 10.1101/gr.224717.117. Epub 2017 Dec 11.
2017
Lorincz MC, Schübeler D.
Evidence for converging DNA methylation pathways in placenta and cancer.
Dev Cell. (2017) 43(3):257-258. doi: 10.1016/j.devcel.2017.10.009.
Wolf G, Rebollo R, Karimi MM, Ewing AD, Kamada R, Wu W, Wu B, Bachu M, Ozato K, Faulkner GJ, Mager DL, Lorincz MC, Macfarlan TS.
On the role of H3.3 in retroviral silencing.
Nature. (2017) 548(7665):E1-E3.
Mager DL & Lorincz MC.
Epigenetic modifier drugs trigger widespread transcription of endogenous retroviruses.
Nature Genetics. (2017) 49, 974-975. doi:10.1038/ng.3902
2016
Sharif J, Endo TA, Nakayama M, Karimi MM, Shimada M, Katsuyama K, Goyal P, Brind'Amour J, Sun MA, Sun Z, Ishikura T, Mizutani-Koseki Y, Ohara O, Shinkai Y, Nakanishi M, Xie H, Lorincz MC, Koseki H.
Activation of Endogenous Retroviruses in Dnmt1(-/-) ESCs Involves Disruption of SETDB1-Mediated Repression by NP95 Binding to Hemimethylated DNA.
Cell Stem Cell. (2016) Jul 7;19(1):81-94. doi: 10.1016/j.stem.2016.03.013.
Thompson PJ, Macfarlan TS, Lorincz MC.
Long Terminal Repeats: From Parasitic Elements to Building Blocks of the Transcriptional Regulatory Repertoire.
Mol Cell. (2016) Jun 2;62(5):766-76. doi: 10.1016/j.molcel.2016.03.029.
Hiragami-Hamada K, Soeroes S, Nikolov M, Wilkins B, Kreuz S, Chen C, De La Rosa-Velázquez IA, Zenn HM, Kost N, Pohl W, Chernev A, Schwarzer D, Jenuwein T, Lorincz M, Zimmermann B, Walla PJ, Neumann H, Baubec T, Urlaub H, Fischle W.
Dynamic and flexible H3K9me3 bridging via HP1β dimerization establishes a plastic state of condensed chromatin.
Nat Commun. (2016) Apr 19;7:11310. doi: 10.1038/ncomms11310.
2015
Yang BX, El Farran CA, Guo HC, Yu T, Fang HT, Wang HF, Schlesinger S, Seah YF, Goh GY, Neo SP, Li Y, Lorincz MC, Tergaonkar V, Lim TM, Chen L, Gunaratne J, Collins JJ, Goff SP, Daley GQ, Li H, Bard FA, Loh YH.
Systematic identification of factors for provirus silencing in embryonic stem cells.
Cell. (2015) Sep 24;163(1):230-45. doi: 10.1016/j.cell.2015.08.037.
Younesy H, Möller T, Lorincz MC, Karimi MM, Jones SJ.
VisRseq: R-based visual framework for analysis of sequencing data.
BMC Bioinformatics. (2015) 16 Suppl 11:S2. doi: 10.1186/1471-2105-16-S11-S2.
Peter J. Thompson, Vered Dulberg, Kyung-Mee Moon, Leonard J. Foster, Carol Chen, Mohammad M. Karimi, & Matthew C. Lorincz.
hnRNP K coordinates transcriptional silencing by SETDB1 in embryonic stem cells.
PLoS Genetics. (2015) 11(1), e1004933. http://doi.org/10.1371/journal.pgen.1004933
Julie Brind'Amour, Sheng Liu, Matthew Hudson, Carol Chen, Mohammad M. Karimi, and Matthew C. Lorincz.
An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations.
Nat Commun. (2015) 6:6033. http://doi.org/10.1038/ncomms7033
2014
Wang, J., Xie, G., Singh, M., Ghanbarian, A. T., Raskó, T., Szvetnik, A., Rasko, T., Szvetnik, A., Huiqiang, C., Besser, D., Prigione, A., Fuchs, N.V., Schumann, G.G., Chen, W., Lorincz, M.C., Zoltan, I., Hurst, L.D., and Izsvak, Z.
Primate-specific endogenous retrovirus-driven transcription defines naive-like stem cells.
Nature. (2014) 516(7531), 405–409. http://doi.org/10.1038/nature13804
Sheng Liu, Julie Brind'Amour, Mohammad M. Karimi, Kenjiro Shirane, Aaron Bogutz, Louis Lefebvre, Hiroyuki Sasaki, Yoichi Shinkai, Matthew C. Lorincz.
Setdb1 is required for germline development and silencing of H3K9me3-marked endogenous retroviruses in primordial germ cells.
Genes Dev. (2014) 15 Sep; 28(18):2041-55.
Danny Leung, Tingting Du, Ulrich Wagner, Wei Xie, Ah Young Lee, Preeti Goyal, Yujing Li, Keith E. Szulwach, Peng Jin, Matthew C. Lorincz, and Bing Ren.
Regulation of DNA methylation turnover at LTR retrotransposons and imprinted loci by the histone methyltransferase Setdb1.
Proc Natl Acad Sci USA. 22 Apr (2014)
Hamid Younesy, Torsten Moller, Alireza Heravi-Moussavi, Jeffrey B. Cheng, Joseph F. Costello, Matthew C. Lorincz, Mohammad M. Karimi, and Steven J.M. Jones.
ALEA: a toolbox for allele-specific epigenomics analysis.
Bioinformatics. 21 Jan (2014)
2013
Kathryn Blaschke, Kevin T. Kabata, Mohammad M. Karimi, Jorge A. Zepeda-Martinez, Preeti Goyal, Sahasransu Mahaptra, Angela Tam, Diana J. Laird, Martin Hirst, Anjana Rao, Matthew C. Lorincz, and Miguel Ramalho-Santos.
Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells.
Nature, 500, 222-226. 8 August (2013)
H. Younesy, C.B. Nielsen, T. Moller, O. Alder, R. Cullum, M.C. Lorincz, M.M. Karimi, and S.J.M. Jones.
An Interactive Analysis and Exploration Tool for Epigenomic Data.
Computer Graphics Forum (Proceedings of EuroVis 2013), 32(3), 2013.
Sylvie Rival-Gervier, Mandy Y.M. Lo, Shahryar Khattak, Peter Pasceri, Matthew C. Lorincz, and James Ellis.
Kinetics and Epigenetics of Retroviral Silencing in Mouse Embryonic Stem Cells Defined by Deletion of the D4Z4 Element.
Mol Ther 2013 Aug; 21(8):1536-50. doi: 10.1038/mt.2013.131.
Irina A. Maksakova, Peter J. Thompson, Preeti Goyal, Steven J.M. Jones, Prim B. Singh, Mohammad M. Karimi, and Matthew C. Lorincz.
Distinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells.
Epigenetics & Chromatin 2013 Jun 4;6(1):15.
2012
Vicki E. Maltby, Benjamin J.E. Martin, Julie Brind’Amour, Adam T. Chruscicki, Kristina McBurney, Julia M. Schulze, Ian J. Johnson, Mark Hills. Thomas Hentrich, Michael S. Kobor , Matthew C. Lorincz, and LeAnn Howe.
Histone H3K4 Demethylation is Negatively Regulated by Histone H3 Acetylation in S. cerevisiae.
Proc Natl Acad Sci USA 109(45): 18505-10 (2012).
Danny C. Leung and Matthew C. Lorincz.
Silencing of endogenous retroviruses: when and why do histone marks predominate?
Trends in Biochemical Sciences (Cover article) 37:4, 127-133 (2012).
2011
Rita Rebollo, Mohammad M. Karimi, Misha Bilenky, Liane Gagnier, Katharine Miceli-Royer, Ying Zhang, Preeti Goyal, Thomas M. Keane, Steven Jones, Martin Hirst, Matthew C. Lorincz and Dixie L. Mager
Retrotransposon-induced heterochromatin spreading in the mouse revealed by insertional polymorphisms
PLoS Genetics 7(9): e1002301 (2011)
Irina A. Maksakova, Preeti Goyal, Jörn Bullwinke, Jeremy P. Brown, Misha Bilenky, Dixie L. Mager, Prim B. Singh and Matthew C. Lorincz.
H3K9me3 binding proteins are dispensable for SETDB1/H3K9me3-dependent retroviral silencing.
Epigenetics & Chromatin, 4:12 doi:10.1186/1756-8935-4-12 (2011)
Karimi, M. M., P. Goyal, I. A. Maksakova, M. Bilenky, D. Leung, J. X. Tang, Y. Shinkai, D. L. Mager, S. Jones, M. Hirst, and M. C. Lorincz.
DNA Methylation and SETDB1/H3K9me3 Regulate Predominantly Distinct Sets of Genes, Retroelements, and Chimeric Transcripts in mESCs.
Cell Stem Cell 8:676-87 (2011)
D.C. Leung, K.B. Dong, I.A. Maksakova, P. Goyal, R. Appanah, S. Lee, M. Tachibana, Y. Shinkai, B. Lehnertz, D.L. Mager, F. Rossi, and M.C. Lorincz.
Lysine methyltransferase G9a is required for de novo DNA methylation and the establishment, but not the maintenance, of proviral silencing.
PNAS, USA 108:5718-23 (2011)
2010
Toshiyuki Matsui, Danny Leung, Hiroki Miyashita, Hitoshi Miyachi, Hiroshi Kimura, Makoto Tachibana, Matthew C. Lorincz and Yoichi Shinkai.
Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET.
Nature, 464, 927-931. 8 April (2010)
2009
Margaret Rush, Ruth Appanah, Sandra Lee, Lucia L. Lam, Preeti Goyal, Matthew C. Lorincz.
Targeting of EZH2 to a defined genomic site is sufficient for recruitment of DNMT3a but not de novo DNA methylation.
Epigenetics, 4:6 1-11 (2009)
Michael S. Kobor and Matthew C. Lorincz.
H2A.Z and DNA methylation: a mutually exclusive relationship.
Trends in Biochemical Sciences. 34:158-61 (2009)
2008
Kevin B. Dong, Irina A. Maksakova, Fabio Mohn, Danny Leung, Ruth Appanah, Sandra Lee, Hao W. Yang, Lucia L. Lam, Dixie L. Mager, Dirk Schübeler, Makoto Tachibana, Yoichi Shinkai and Matthew C. Lorincz.
DNA methylation in ES cells requires the lysine methyltransferase G9a but not its catalytic activity.
EMBO J., 27:2691-701 (2008)
2007
M. C. Lorincz and D. Schübeler.
RNA polymerase II: Just Stopping By.
Cell, 130: 16-18 (2007)
Appanah, R., D. R. Dickerson, P. Goyal, M. Groudine and M. C. Lorincz.
An Unmethylated 3′ Unmethylated 3′ Promoter-Proximal Region Is Required for Efficient Transcription Initiation.
PLoS Genetics. 3.2: e27 doi:10.1371/journal.pgen.0030027 (2007)
2006
Laura B. Sontag, M. C. Lorincz and E. Georg Luebeck.
Dynamics,stability and inheritance of somatic DNA methylation imprints.
Journal of Theoretical Biology, 242:4, 890-899 (2006)