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Stratification of TAD boundaries reveals preferential insulation of super-enhancers by strong boundaries

Overview of attention for article published in Nature Communications, February 2018
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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)

Mentioned by

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40 tweeters

Citations

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96 Dimensions

Readers on

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251 Mendeley
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Title
Stratification of TAD boundaries reveals preferential insulation of super-enhancers by strong boundaries
Published in
Nature Communications, February 2018
DOI 10.1038/s41467-018-03017-1
Pubmed ID
Authors

Yixiao Gong, Charalampos Lazaris, Theodore Sakellaropoulos, Aurelie Lozano, Prabhanjan Kambadur, Panagiotis Ntziachristos, Iannis Aifantis, Aristotelis Tsirigos

Abstract

The metazoan genome is compartmentalized in areas of highly interacting chromatin known as topologically associating domains (TADs). TADs are demarcated by boundaries mostly conserved across cell types and even across species. However, a genome-wide characterization of TAD boundary strength in mammals is still lacking. In this study, we first use fused two-dimensional lasso as a machine learning method to improve Hi-C contact matrix reproducibility, and, subsequently, we categorize TAD boundaries based on their insulation score. We demonstrate that higher TAD boundary insulation scores are associated with elevated CTCF levels and that they may differ across cell types. Intriguingly, we observe that super-enhancers are preferentially insulated by strong boundaries. Furthermore, we demonstrate that strong TAD boundaries and super-enhancer elements are frequently co-duplicated in cancer patients. Taken together, our findings suggest that super-enhancers insulated by strong TAD boundaries may be exploited, as a functional unit, by cancer cells to promote oncogenesis.

Twitter Demographics

The data shown below were collected from the profiles of 40 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 251 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 251 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 67 27%
Researcher 36 14%
Student > Bachelor 25 10%
Student > Master 23 9%
Student > Doctoral Student 11 4%
Other 27 11%
Unknown 62 25%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 122 49%
Agricultural and Biological Sciences 34 14%
Computer Science 7 3%
Medicine and Dentistry 7 3%
Engineering 3 1%
Other 11 4%
Unknown 67 27%

Attention Score in Context

This research output has an Altmetric Attention Score of 22. 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 21 December 2018.
All research outputs
#1,297,800
of 20,595,200 outputs
Outputs from Nature Communications
#17,547
of 40,828 outputs
Outputs of similar age
#35,729
of 393,909 outputs
Outputs of similar age from Nature Communications
#1
of 3 outputs
Altmetric has tracked 20,595,200 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 93rd percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 40,828 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 54.5. This one has gotten more attention than average, scoring higher than 56% 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 393,909 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 3 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them