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Primary accessions

Gene Expression Omnibus

References

  1. 1.

    , , , & Histone H3.3 is required for endogenous retroviral element silencing in embryonic stem cells. Nature 522, 240–244 (2015)

  2. 2.

    et al. DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs. Cell Stem Cell 8, 676–687 (2011)

  3. 3.

    et al. KAP1 controls endogenous retroviruses in embryonic stem cells. Nature 463, 237–240 (2010)

  4. 4.

    , , & Genomic mapping of intracisternal A-particle proviral elements. Mamm. Genome 4, 69–77 (1993)

  5. 5.

    et al. Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance. Genome Res. 22, 870–884 (2012)

  6. 6.

    , , , & Genome-wide assessments reveal extremely high levels of polymorphism of two active families of mouse endogenous retroviral elements. PLoS Genet. 4, e1000007 (2008)

  7. 7.

    et al. The genomic landscape shaped by selection on transposable elements across 18 mouse strains. Genome Biol. 13, R45 (2012)

  8. 8.

    , , , & Genetic variation and population substructure in outbred CD-1 mice: implications for genome-wide association studies. PLoS ONE 4, e4729 (2009)

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Author information

Author notes

    • Rita Rebollo
    • , Mohammad M. Karimi
    •  & Rui Kamada

    Present addresses: Université de Lyon, INSA-Lyon, INRA, UMR203 BF2i, Biologie Fonctionnelle Insectes et Interactions, F-69621 Villeurbanne, France (R.R.); Département de Génomique Fonctionnelle et Cancer, Institut de Génétique et Biologie Moléculaire et Cellulaire (IGBMC)/Université de Strasbourg/CNRS/INSERM, 67404 Illkirch Cedex, France (M.M.K.); Laboratory of Biological Chemistry, Department of Chemistry, Faculty of Science, Hokkaido University, Sapporo 060-0810, Japan (R.K.).

Affiliations

  1. The Eunice Kennedy Shriver National Institute of Child Health and Human Development, The National Institutes of Health, Bethesda, Maryland, USA

    • Gernot Wolf
    • , Rui Kamada
    • , Warren Wu
    • , Brenda Wu
    • , Mahesh Bachu
    • , Keiko Ozato
    •  & Todd S. Macfarlan
  2. Department of Medical Genetics, University of British Columbia, Vancouver, British Columbia, Canada

    • Rita Rebollo
    • , Mohammad M. Karimi
    • , Dixie L. Mager
    •  & Matthew C. Lorincz
  3. Terry Fox Laboratory, BC Cancer Agency, Vancouver, British Columbia, Canada

    • Rita Rebollo
    •  & Dixie L. Mager
  4. Mater Research Institute—University of Queensland, TRI Building, Woolloongabba Queensland 4102, Australia

    • Adam D. Ewing
    •  & Geoffrey J. Faulkner

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Contributions

G.W., T.S.M., M.C.L., D.L.M., K.O. and G.J.F. planned and designed the study. G.W., R.R., W.W., B.W., M.B. and R.K. performed experiments. G.W., M.M.K. and A.D.E. analysed the data. G.W. and T.S.M. wrote the manuscript with contributions from M.C.L., D.L.M. and G.J.F.

Competing interests

The authors declare no competing financial interests.

Corresponding author

Correspondence to Todd S. Macfarlan.

Extended data

Supplementary information

PDF files

  1. 1.

    Supplementary Methods

    This file contains supplementary methods regarding Cell lines, Native ChIP-seq, RNA-seq, Re-analysis of RNA-seq and ChIP-seq data, PCR screening of polymorphic IAP insertions and Polymorphic IAP insertion genotyping.

Excel files

  1. 1.

    Supplementary Table 1

    Re-analysis of reported de novo IAP integrations in H3.3 KO ES cells.

  2. 2.

    Supplementary Table 2

    List of IAP integrations incorrectly annotated as “H3.3 KO only” by Elsasser et al.

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