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DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape

Overview of attention for article published in Nature Genetics, May 2013
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  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (90th percentile)
  • Average Attention Score compared to outputs of the same age and source

Mentioned by

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15 X users
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9 patents

Citations

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199 Dimensions

Readers on

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445 Mendeley
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8 CiteULike
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Title
DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape
Published in
Nature Genetics, May 2013
DOI 10.1038/ng.2649
Pubmed ID
Authors

Mingchao Xie, Chibo Hong, Bo Zhang, Rebecca F Lowdon, Xiaoyun Xing, Daofeng Li, Xin Zhou, Hyung Joo Lee, Cecile L Maire, Keith L Ligon, Philippe Gascard, Mahvash Sigaroudinia, Thea D Tlsty, Theresa Kadlecek, Arthur Weiss, Henriette O'Geen, Peggy J Farnham, Pamela A F Madden, Andrew J Mungall, Angela Tam, Baljit Kamoh, Stephanie Cho, Richard Moore, Martin Hirst, Marco A Marra, Joseph F Costello, Ting Wang

Abstract

Transposable element (TE)-derived sequences comprise half of the human genome and DNA methylome and are presumed to be densely methylated and inactive. Examination of genome-wide DNA methylation status within 928 TE subfamilies in human embryonic and adult tissues identified unexpected tissue-specific and subfamily-specific hypomethylation signatures. Genes proximal to tissue-specific hypomethylated TE sequences were enriched for functions important for the relevant tissue type, and their expression correlated strongly with hypomethylation within the TEs. When hypomethylated, these TE sequences gained tissue-specific enhancer marks, including monomethylation of histone H3 at lysine 4 (H3K4me1) and occupancy by p300, and a majority exhibited enhancer activity in reporter gene assays. Many such TEs also harbored binding sites for transcription factors that are important for tissue-specific functions and showed evidence of evolutionary selection. These data suggest that sequences derived from TEs may be responsible for wiring tissue type-specific regulatory networks and may have acquired tissue-specific epigenetic regulation.

X Demographics

X Demographics

The data shown below were collected from the profiles of 15 X users who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 445 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 11 2%
Germany 4 <1%
France 4 <1%
Spain 3 <1%
Brazil 2 <1%
Canada 2 <1%
Norway 1 <1%
Austria 1 <1%
United Kingdom 1 <1%
Other 6 1%
Unknown 410 92%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 127 29%
Researcher 110 25%
Student > Bachelor 33 7%
Student > Master 32 7%
Professor > Associate Professor 29 7%
Other 74 17%
Unknown 40 9%
Readers by discipline Count As %
Agricultural and Biological Sciences 246 55%
Biochemistry, Genetics and Molecular Biology 102 23%
Medicine and Dentistry 16 4%
Computer Science 8 2%
Neuroscience 6 1%
Other 23 5%
Unknown 44 10%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 15. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 06 February 2024.
All research outputs
#2,429,119
of 25,284,710 outputs
Outputs from Nature Genetics
#2,970
of 7,554 outputs
Outputs of similar age
#19,802
of 200,818 outputs
Outputs of similar age from Nature Genetics
#47
of 70 outputs
Altmetric has tracked 25,284,710 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 90th percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 7,554 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 43.0. This one has gotten more attention than average, scoring higher than 60% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 200,818 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 90% of its contemporaries.
We're also able to compare this research output to 70 others from the same source and published within six weeks on either side of this one. This one is in the 31st percentile – i.e., 31% of its contemporaries scored the same or lower than it.