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Mouse germ line mutations due to retrotransposon insertions.

Gagnier L, Belancio VP, Mager DL.

Mob DNA. 2019 Apr 13;10:15. doi: 10.1186/s13100-019-0157-4. eCollection 2019. Review.


LIONS: Analysis Suite for Detecting and Quantifying Transposable Element Initiated Transcription from RNA-seq.

Babaian A, Thompson IR, Lever J, Gagnier L, Karimi MM, Mager DL.

Bioinformatics. 2019 Feb 21. pii: btz130. doi: 10.1093/bioinformatics/btz130. [Epub ahead of print]


Ten things you should know about transposable elements.

Bourque G, Burns KH, Gehring M, Gorbunova V, Seluanov A, Hammell M, Imbeault M, Izsvák Z, Levin HL, Macfarlan TS, Mager DL, Feschotte C.

Genome Biol. 2018 Nov 19;19(1):199. doi: 10.1186/s13059-018-1577-z. Review.


On the role of H3.3 in retroviral silencing.

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.

Nature. 2017 Aug 2;548(7665):E1-E3. doi: 10.1038/nature23277. No abstract available.


A novel isoform of IL-33 revealed by screening for transposable element promoted genes in human colorectal cancer.

Lock FE, Babaian A, Zhang Y, Gagnier L, Kuah S, Weberling A, Karimi MM, Mager DL.

PLoS One. 2017 Jul 17;12(7):e0180659. doi: 10.1371/journal.pone.0180659. eCollection 2017.


Epigenetic modifier drugs trigger widespread transcription of endogenous retroviruses.

Mager DL, Lorincz MC.

Nat Genet. 2017 Jun 28;49(7):974-975. doi: 10.1038/ng.3902.


Induction of endogenous retroelements as a potential mechanism for mouse-specific drug-induced carcinogenicity.

Coskran TM, Jiang Z, Klaunig JE, Mager DL, Obert L, Robertson A, Tsinoremas N, Wang Z, Gosink M.

PLoS One. 2017 May 4;12(5):e0176768. doi: 10.1371/journal.pone.0176768. eCollection 2017.


Endogenous retroviral promoter exaptation in human cancer.

Babaian A, Mager DL.

Mob DNA. 2016 Dec 1;7:24. eCollection 2016. Review.


Transposable elements in the mammalian embryo: pioneers surviving through stealth and service.

Gerdes P, Richardson SR, Mager DL, Faulkner GJ.

Genome Biol. 2016 May 9;17:100. doi: 10.1186/s13059-016-0965-5. Review.


Methylated DNA Immunoprecipitation Analysis of Mammalian Endogenous Retroviruses.

Rebollo R, Mager DL.

Methods Mol Biol. 2016;1400:377-85. doi: 10.1007/978-1-4939-3372-3_23.


Pluripotency and the endogenous retrovirus HERVH: Conflict or serendipity?

Izsvák Z, Wang J, Singh M, Mager DL, Hurst LD.

Bioessays. 2016 Jan;38(1):109-17. doi: 10.1002/bies.201500096. Review.


Mammalian Endogenous Retroviruses.

Mager DL, Stoye JP.

Microbiol Spectr. 2015 Feb;3(1):MDNA3-0009-2014. doi: 10.1128/microbiolspec.MDNA3-0009-2014. Review.


Epigenetic mechanism causes Wnt9b deficiency and nonsyndromic cleft lip and palate in the A/WySn mouse strain.

Juriloff DM, Harris MJ, Mager DL, Gagnier L.

Birth Defects Res A Clin Mol Teratol. 2014 Oct;100(10):772-88. doi: 10.1002/bdra.23320. Epub 2014 Sep 25.


Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma.

Lock FE, Rebollo R, Miceli-Royer K, Gagnier L, Kuah S, Babaian A, Sistiaga-Poveda M, Lai CB, Nemirovsky O, Serrano I, Steidl C, Karimi MM, Mager DL.

Proc Natl Acad Sci U S A. 2014 Aug 26;111(34):E3534-43. doi: 10.1073/pnas.1405507111. Epub 2014 Aug 11. Erratum in: Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):E4630.


Genistein versus ICI 182, 780: an ally or enemy in metastatic progression of prostate cancer.

Nakamura H, Wang Y, Xue H, Romanish MT, Mager DL, Helgason CD, Wang Y.

Prostate. 2013 Dec;73(16):1747-60. doi: 10.1002/pros.22712. Epub 2013 Aug 26.


Visualized computational predictions of transcriptional effects by intronic endogenous retroviruses.

Zhang Y, Babaian A, Gagnier L, Mager DL.

PLoS One. 2013 Aug 6;8(8):e71971. doi: 10.1371/journal.pone.0071971. Print 2013.


Epigenetic interplay between mouse endogenous retroviruses and host genes.

Rebollo R, Miceli-Royer K, Zhang Y, Farivar S, Gagnier L, Mager DL.

Genome Biol. 2012 Oct 3;13(10):R89. doi: 10.1186/gb-2012-13-10-r89.


Transposable elements: an abundant and natural source of regulatory sequences for host genes.

Rebollo R, Romanish MT, Mager DL.

Annu Rev Genet. 2012;46:21-42. doi: 10.1146/annurev-genet-110711-155621. Epub 2012 Aug 16. Review.


Transposable elements: not as quiet as a mouse.

Rebollo R, Zhang Y, Mager DL.

Genome Biol. 2012 Jun 20;13(6):159. doi: 10.1186/gb-2012-13-6-159.


C-GATE - catalogue of genes affected by transposable elements.

Rebollo R, Farivar S, Mager DL.

Mob DNA. 2012 May 23;3(1):9. doi: 10.1186/1759-8753-3-9.


Gene properties and chromatin state influence the accumulation of transposable elements in genes.

Zhang Y, Mager DL.

PLoS One. 2012;7(1):e30158. doi: 10.1371/journal.pone.0030158. Epub 2012 Jan 17.


Human Th1 and Th17 cells exhibit epigenetic stability at signature cytokine and transcription factor loci.

Cohen CJ, Crome SQ, MacDonald KG, Dai EL, Mager DL, Levings MK.

J Immunol. 2011 Dec 1;187(11):5615-26. doi: 10.4049/jimmunol.1101058. Epub 2011 Nov 2.


Retrotransposon-induced heterochromatin spreading in the mouse revealed by insertional polymorphisms.

Rebollo R, Karimi MM, Bilenky M, Gagnier L, Miceli-Royer K, Zhang Y, Goyal P, Keane TM, Jones S, Hirst M, Lorincz MC, Mager DL.

PLoS Genet. 2011 Sep;7(9):e1002301. doi: 10.1371/journal.pgen.1002301. Epub 2011 Sep 29.


Placenta-specific expression of the interleukin-2 (IL-2) receptor β subunit from an endogenous retroviral promoter.

Cohen CJ, Rebollo R, Babovic S, Dai EL, Robinson WP, Mager DL.

J Biol Chem. 2011 Oct 14;286(41):35543-52. doi: 10.1074/jbc.M111.227637. Epub 2011 Aug 24.


H3K9me3-binding proteins are dispensable for SETDB1/H3K9me3-dependent retroviral silencing.

Maksakova IA, Goyal P, Bullwinkel J, Brown JP, Bilenky M, Mager DL, Singh PB, Lorincz MC.

Epigenetics Chromatin. 2011 Jul 20;4(1):12. doi: 10.1186/1756-8935-4-12.


DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs.

Karimi MM, Goyal P, Maksakova IA, Bilenky M, Leung D, Tang JX, Shinkai Y, Mager DL, Jones S, Hirst M, Lorincz MC.

Cell Stem Cell. 2011 Jun 3;8(6):676-87. doi: 10.1016/j.stem.2011.04.004.


Distributions of transposable elements reveal hazardous zones in mammalian introns.

Zhang Y, Romanish MT, Mager DL.

PLoS Comput Biol. 2011 May;7(5):e1002046. doi: 10.1371/journal.pcbi.1002046. Epub 2011 May 5.


Lysine methyltransferase G9a is required for de novo DNA methylation and the establishment, but not the maintenance, of proviral silencing.

Leung DC, Dong KB, Maksakova IA, Goyal P, Appanah R, Lee S, Tachibana M, Shinkai Y, Lehnertz B, Mager DL, Rossi F, Lorincz MC.

Proc Natl Acad Sci U S A. 2011 Apr 5;108(14):5718-23. doi: 10.1073/pnas.1014660108. Epub 2011 Mar 22.


The clf2 gene has an epigenetic role in the multifactorial etiology of cleft lip and palate in the A/WySn mouse strain.

Plamondon JA, Harris MJ, Mager DL, Gagnier L, Juriloff DM.

Birth Defects Res A Clin Mol Teratol. 2011 Aug;91(8):716-27. doi: 10.1002/bdra.20788. Epub 2011 Mar 7.


Expression of the leukemic prognostic marker CD7 is linked to epigenetic modifications in chronic myeloid leukemia.

Rogers SL, Zhao Y, Jiang X, Eaves CJ, Mager DL, Rouhi A.

Mol Cancer. 2010 Feb 22;9:41. doi: 10.1186/1476-4598-9-41.


Variable DNA methylation of transposable elements: the case study of mouse Early Transposons.

Reiss D, Zhang Y, Rouhi A, Reuter M, Mager DL.

Epigenetics. 2010 Jan 1;5(1):68-79. Epub 2010 Jan 13.


Human endogenous retroviral long terminal repeat sequences as cell type-specific promoters in retroviral vectors.

Schön U, Diem O, Leitner L, Günzburg WH, Mager DL, Salmons B, Leib-Mösch C.

J Virol. 2009 Dec;83(23):12643-50. doi: 10.1128/JVI.00858-09. Epub 2009 Sep 9.


Evidence for high bi-allelic expression of activating Ly49 receptors.

Rouhi A, Lai CB, Cheng TP, Takei F, Yokoyama WM, Mager DL.

Nucleic Acids Res. 2009 Sep;37(16):5331-42. doi: 10.1093/nar/gkp592. Epub 2009 Jul 15.


Endogenous retroviral LTRs as promoters for human genes: a critical assessment.

Cohen CJ, Lock WM, Mager DL.

Gene. 2009 Dec 15;448(2):105-14. doi: 10.1016/j.gene.2009.06.020. Epub 2009 Jul 3. Review.


A novel protein isoform of the multicopy human NAIP gene derives from intragenic Alu SINE promoters.

Romanish MT, Nakamura H, Lai CB, Wang Y, Mager DL.

PLoS One. 2009 Jun 2;4(6):e5761. doi: 10.1371/journal.pone.0005761.


Isolation of human iPS cells using EOS lentiviral vectors to select for pluripotency.

Hotta A, Cheung AY, Farra N, Vijayaragavan K, Séguin CA, Draper JS, Pasceri P, Maksakova IA, Mager DL, Rossant J, Bhatia M, Ellis J.

Nat Methods. 2009 May;6(5):370-6. doi: 10.1038/nmeth.1325. Epub 2009 Apr 26.


Creation of the two isoforms of rodent NKG2D was driven by a B1 retrotransposon insertion.

Lai CB, Zhang Y, Rogers SL, Mager DL.

Nucleic Acids Res. 2009 May;37(9):3032-43. doi: 10.1093/nar/gkp174. Epub 2009 Mar 20.


Preferential epigenetic suppression of the autonomous MusD over the nonautonomous ETn mouse retrotransposons.

Maksakova IA, Zhang Y, Mager DL.

Mol Cell Biol. 2009 May;29(9):2456-68. doi: 10.1128/MCB.01383-08. Epub 2009 Mar 9.


DNA methylation in ES cells requires the lysine methyltransferase G9a but not its catalytic activity.

Dong KB, Maksakova IA, Mohn F, Leung D, Appanah R, Lee S, Yang HW, Lam LL, Mager DL, Schübeler D, Tachibana M, Shinkai Y, Lorincz MC.

EMBO J. 2008 Oct 22;27(20):2691-701. doi: 10.1038/emboj.2008.193. Epub 2008 Sep 25.


MiRNAs, epigenetics, and cancer.

Rouhi A, Mager DL, Humphries RK, Kuchenbauer F.

Mamm Genome. 2008 Aug;19(7-8):517-25. doi: 10.1007/s00335-008-9133-x. Epub 2008 Aug 8. Review.


Genome-wide assessments reveal extremely high levels of polymorphism of two active families of mouse endogenous retroviral elements.

Zhang Y, Maksakova IA, Gagnier L, van de Lagemaat LN, Mager DL.

PLoS Genet. 2008 Feb 29;4(2):e1000007. doi: 10.1371/journal.pgen.1000007.


Widely variable endogenous retroviral methylation levels in human placenta.

Reiss D, Zhang Y, Mager DL.

Nucleic Acids Res. 2007;35(14):4743-54. Epub 2007 Jul 7.


Expression of murine killer immunoglobulin-like receptor KIRL1 on CD1d-independent NK1.1(+) T cells.

Wilson EB, Parachoniak CA, Carpenito C, Mager DL, Takei F.

Immunogenetics. 2007 Aug;59(8):641-51. Epub 2007 May 22.


Repeated recruitment of LTR retrotransposons as promoters by the anti-apoptotic locus NAIP during mammalian evolution.

Romanish MT, Lock WM, van de Lagemaat LN, Dunn CA, Mager DL.

PLoS Genet. 2007 Jan 12;3(1):e10. Epub 2006 Dec 6.


Multiple effects govern endogenous retrovirus survival patterns in human gene introns.

van de Lagemaat LN, Medstrand P, Mager DL.

Genome Biol. 2006;7(9):R86.


Prolactin in man: a tale of two promoters.

Gerlo S, Davis JR, Mager DL, Kooijman R.

Bioessays. 2006 Oct;28(10):1051-5. Review.


Stochastic epigenetic silencing of retrotransposons: does stability come with age?

Reiss D, Mager DL.

Gene. 2007 Apr 1;390(1-2):130-5. Epub 2006 Aug 18. Review.


Plasticity of Ly49g expression is due to epigenetics.

Rouhi A, Brooks CG, Takei F, Mager DL.

Mol Immunol. 2007 Feb;44(5):821-6. Epub 2006 Jun 5.


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