Cited by 90

The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.

High-Resolution Analysis of Cytosine Methylation in Ancient DNA

Llamas, Bastien, Holland, Michelle L., Chen, Kefei, Cropley, Jennifer E., Cooper, Alan, Suter, Catherine M.·2012·PLoS ONE

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Crossref · 10.1371/journal.pone.0030226

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  • Bisulfite conversion is also extremely harmful to DNA and, thus, generally not recommended for aDNA, despite a few successes on limited numbers of samples.

    “However, bisulfite conversion is also extremely harmful to DNA and, thus, generally not recommended for aDNA, despite a few successes on limited numbers of samples 244,245 .”

    From Ancient DNA analysis (2021) · cites this paper as [244]

    The Results section (page unavailable) reports successful bisulphite sequencing in only one of six ancient DNA samples; the other five, with lower DNA integrity, could not be amplified despite different treatment protocols. This supports the limited-success qualifier, but the paper does not say that bisulphite conversion itself is extremely harmful to DNA or generally not recommended for ancient DNA. Its Introduction instead says methylation patterns can be resolved when nuclear DNA can be amplified. (LLM, conf=0.85)

    Experimental — accuracy not yet measured

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Research works printed but not linked: 18

  1. EJ Richards, 2006, Inherited epigenetic variation–revisiting soft inheritance., Nature Reviews Genetics, 7, 395, 10.1038/nrg1834 · DOI
  2. EJ Richards, 2008, Population epigenetics., Current Opinion in Genetics and Development, 18, 221, 10.1016/j.gde.2008.01.014 · DOI
  3. C Guerrero-Bosagna, 2005, Environmental signaling and evolutionary change: can exposure of pregnant mammals to environmental estrogens lead to epigenetically induced evolutionary changes in embryos?, Evolution & Development, 7, 341, 10.1111/j.1525-142X.2005.05033.x · DOI
  4. E Jablonka, 1989, The Inheritance of Acquired Epigenetic Variations., Journal of Theoretical Biology, 139, 69, 10.1016/S0022-5193(89)80058-X · DOI
  5. RA Rapp, 2005, Epigenetics and plant evolution., New Phytologist, 168, 81, 10.1111/j.1469-8137.2005.01491.x · DOI
  6. AP Feinberg, 2010, Stochastic epigenetic variation as a driving force of development, evolutionary adaptation, and disease., Proceedings of the National Academy of Sciences of the United States of America, 107, 1757, 10.1073/pnas.0906183107 · DOI
  7. AW Briggs, 2010, Removal of deaminated cytosines and detection of in vivo methylation in ancient DNA., Nucleic Acids Research, 38, e87, 10.1093/nar/gkp1163 · DOI · Paper page
  8. SJ Clark, 2006, DNA methylation: bisulphite modification and analysis., Nature Protocols, 1, 2353, 10.1038/nprot.2006.324 · DOI
  9. A Bird, 2002, DNA methylation patterns and epigenetic memory., Genes and Development, 16, 6, 10.1101/gad.947102 · DOI · Paper page
  10. BE Hayward, 1998, Bidirectional imprinting of a single gene: GNAS1 encodes maternally, paternally, and biallelically derived proteins., Proceedings of the National Academy of Sciences of the United States of America, 95, 15475, 10.1073/pnas.95.26.15475 · DOI
  11. JM Huang, 2009, DNA methylation analysis of the mammalian PEG3 imprinted domain., Gene, 442, 18, 10.1016/j.gene.2009.04.016 · DOI
  12. P Brotherton, 2007, Novel high-resolution characterization of ancient DNA reveals C>U-type base modification events as the sole cause of post mortem miscoding lesions., Nucleic Acids Research, 35, 5717, 10.1093/nar/gkm588 · DOI
  13. M Stiller, 2006, Patterns of nucleotide misincorporations during enzymatic amplification and direct large-scale sequencing of ancient DNA., Proceedings of the National Academy of Sciences of the United States of America, 103, 13578, 10.1073/pnas.0605327103 · DOI
  14. B Shapiro, 2004, Rise and fall of the Beringian steppe bison., Science, 306, 1561, 10.1126/science.1101074 · DOI
  15. RE Green, 2010, A Draft Sequence of the Neandertal Genome., Science, 328, 710, 10.1126/science.1188021 · DOI · Paper page
  16. W Miller, 2008, Sequencing the nuclear genome of the extinct woolly mammoth., Nature, 456, 387, 10.1038/nature07446 · DOI
  17. A Cooper, 2000, Ancient DNA: Do It Right or Not at All., Science, 289, 1139, 10.1126/science.289.5482.1139b · DOI
  18. J Jurka, 2000, Repbase Update - a database and an electronic journal of repetitive elements., Trends in Genetics, 16, 418, 10.1016/S0168-9525(00)02093-X · DOI

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Metadata

Authors
Llamas, B., Holland, M. L., Chen, K., Cropley, J. E., Cooper, A., & Suter, C. M.
Venue
PLoS ONE
Published
2012-01-19
Volume
7
Issue
1
Pages
e30226
ISSN
1932-6203
Cited by
90
References
3
Language
en

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