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Review: The superpowers of imprinting control regions
- Bertille Montibus,
- Franck Court,
- and Philippe Arnaud
Genome Res. January 2026 36: 1-19; Published in Advance December 10, 2025, doi:10.1101/gr.281215.125
...of the Impact and Slc38a4 loci, each ICR controls the imprinting of multiple genes within large domains ranging from 100 kb to several Mb (Table 1; Fig. 1). Of the two largest known imprinting clusters in mice, the Snrpn locus, is 3.25 Mb in size and contains 14 imprinted genes, whereas the Kcnq1 locus is 845...
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Research: Germline and somatic imprinting in the nonhuman primate highlights species differences in oocyte methylation
- Clara Y. Cheong,
- Keefe Chng,
- Shilen Ng,
- Siew Boom Chew,
- Louiza Chan,
- and Anne C. Ferguson-Smith
Genome Res. May 2015 25: 611-623; Published in Advance April 10, 2015, doi:10.1101/gr.183301.114
....SNPs around each DMR were used to make the allelic distinctions shown. Cheong et al. 614 Genome Research www..org apparent sequence homology (Li et al. 2005). Imprinting at this locus was acquired after the divergence of primate from rodent, and the status of this gene inmacaque helps to further refine...
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Research: ZNF91 deletion in human embryonic stem cells leads to ectopic activation of SVA retrotransposons and up-regulation of KRAB zinc finger gene clusters
- Nina L. Haring,
- Elisabeth J. van Bree,
- Whitney S. Jordaan,
- Judith R.E. Roels,
- Gonzalo Congrains Sotomayor,
- Tiziana M. Hey,
- Fred T.G. White,
- Marc D. Galland,
- Marten P. Smidt,
- and Frank M.J. Jacobs
Genome Res. April 2021 31: 551-563; Published in Advance March 15, 2021, doi:10.1101/gr.265348.120
...-lasting impact on gene regulation, which continues many millions of years after the spreading of novel TE insertions has been halted. Most TE families are silenced through binding of members of the KZNF family of which members coevolved to recognize specific TE families (Wolf and Goff 2009; Thomas and Schneider...
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Chicken Special/Letters: Structural and functional analysis of a 0.5-Mb chicken region orthologous to the imprinted mammalian Ascl2/Mash2–Igf2–H19 region
- Takaaki Yokomine,
- Hisao Shirohzu,
- Wahyu Purbowasito,
- Atsushi Toyoda,
- Hisakazu Iwama,
- Kazuho Ikeo,
- Tetsuya Hori,
- Shigeki Mizuno,
- Masaoki Tsudzuki,
- Yoh-ichi Matsuda,
- Masahira Hattori,
- Yoshiyuki Sakaki,
- and Hiroyuki Sasaki
Genome Res. January 2005 15: 154-165; Published in Advance December 8, 2004, doi:10.1101/gr.2609605
...with tandem repeats has been suggested to be a feature of mammalian imprinted genes ( Neumann et al. 1995 ). Indeed, tandem repeats have been shown to be associated with functional imprinting at the mouse Impact and Rasgrf1 loci ( Okamura et al. 2000 ; Yoon et al. 2002 ). A program called Tandem Repeat Finder...
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LETTER: Comparative Sequence Analysis of the Imprinted Dlk1–Gtl2 Locus in Three Mammalian Species Reveals Highly Conserved Genomic Elements and Refines Comparison with the Igf2–H19 Region
- Martina Paulsen,
- Shuji Takada,
- Neil A. Youngson,
- Mehdi Benchaib,
- Carole Charlier,
- Karin Segers,
- Michel Georges,
- and Anne C. Ferguson-Smith
Genome Res. December 1, 2001 11: 2085-2094; doi:10.1101/gr.206901
...T. ( 2000 ) Comparative analysis of the mouse imprinted gene Impact and its nonimprinted human homolog IMPACT : Toward the structural basis of species-specific imprinting. Genome Res. 10 : 1878 – 1889 . ↵ Onyango P. , Miller W. , Lehoczky J. , Leung C.T. , Birren B. , Wheelan S. , Dewar K...
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PERSPECTIVE: The opossum genome: Insights and opportunities from an alternative mammal
- Paul B. Samollow
Genome Res. August 2008 18: 1199-1215; doi:10.1101/gr.065326.107
...quantification of relative gene expression levels in tissue and cell samples. In the remainder of this section, I discuss selected research areas in which the availability of physical and functional genomic resources for the opossum are likely to have significant impact for contributing to our understanding...
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Research: Targeted deletion of a 170-kb cluster of LINE-1 repeats and implications for regional control
- Miguel L. Soares,
- Carol A. Edwards,
- Frances L. Dearden,
- Sacri R. Ferrón,
- Scott Curran,
- Jennifer A. Corish,
- Rebecca C. Rancourt,
- Sarah E. Allen,
- Marika Charalambous,
- Malcolm A. Ferguson-Smith,
- Willem Rens,
- David J. Adams,
- and Anne C. Ferguson-Smith
Genome Res. March 2018 28: 345-356; Published in Advance January 24, 2018, doi:10.1101/gr.221366.117
...as a target for epigenetic modifications that regulate imprinting (Shirohzu et al. 2004). To investigate whether the recently evolved, long, dense, lamina-associated LINE-1 array in the Dlk1/Dio3 domain might have an impact upon imprinting and gene regulation, it was subjected to targeted deletion...
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LETTER: A Comprehensive Analysis of Allelic Methylation Status of CpG Islands on Human Chromosome 21q
- Yoichi Yamada,
- Hidemi Watanabe,
- Fumihito Miura,
- Hidenobu Soejima,
- Michiko Uchiyama,
- Tsuyoshi Iwasaka,
- Tsunehiro Mukai,
- Yoshiyuki Sakaki,
- and Takashi Ito
Genome Res. February 2004 14: 247-266; doi:10.1101/gr.1351604
...II-McrBC PCR wasapplied to the intronic DMR of mouse Impact , a paternally expressed gene. JF, B6, and (B6 × JF) F 1 indicate Mus musculus molossinus JF1, Mus musculus domesticus C57BL/6, and F 1 hybrid generated between JF and B6, respectively. The PCR products from mock-treated (-), HpaII-digested, or Mcr...
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Research: Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance
- Jingfeng Li,
- Keiko Akagi,
- Yongjun Hu,
- Anna L. Trivett,
- Christopher J.W. Hlynialuk,
- Deborah A. Swing,
- Natalia Volfovsky,
- Tamara C. Morgan,
- Yelena Golubeva,
- Robert M. Stephens,
- David E. Smith,
- and David E. Symer
Genome Res. May 2012 22: 870-884; Published in Advance February 23, 2012, doi:10.1101/gr.130740.111
...differences of unknown cause. Genomic distribution of polymorphic ERVs suggests deleterious impact on gene expression We assessed the genomic locations of young ERV polymorphisms relative to annotated genes, since their existing distribution would reflect insertion preferences and/or losses of deleterious...
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LETTER: Comparative Sequence and X-Inactivation Analyses of a Domain of Escape in Human Xp11.2 and the Conserved Segment in Mouse
- Karen D. Tsuchiya,
- John M. Greally,
- Yajun Yi,
- Kevin P. Noel,
- Jean-Pierre Truong,
- and Christine M. Disteche
Genome Res. July 2004 14: 1275-1284; Published in Advance June 14, 2004, doi:10.1101/gr.2575904
..., A.I., Longepied, G., Ty, M.T., Bishop, C.E., and Mitchell, M. 1999 . Mouse H-Y encoding Smcy gene and its X chromosomal homolog Smcx. Mamm. Genome 10 : 926 –929. ↵ Allen, E., Horvath, S., Tong, F., Kraft, P., Spiteri, E., Riggs, A.D., and Marahrens, Y. 2003 . High concentrations of long interspersed...

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