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CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data

Overview of attention for article published in Genome Biology (Online Edition), June 2016
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About this Attention Score

  • In the top 5% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (94th percentile)

Mentioned by

blogs
1 blog
twitter
60 tweeters
googleplus
1 Google+ user
f1000
1 research highlight platform

Citations

dimensions_citation
205 Dimensions

Readers on

mendeley
291 Mendeley
citeulike
3 CiteULike
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Title
CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data
Published in
Genome Biology (Online Edition), June 2016
DOI 10.1186/s13059-016-0992-2
Pubmed ID
Authors

Jonathan Cairns, Paula Freire-Pritchett, Steven W. Wingett, Csilla Várnai, Andrew Dimond, Vincent Plagnol, Daniel Zerbino, Stefan Schoenfelder, Biola-Maria Javierre, Cameron Osborne, Peter Fraser, Mikhail Spivakov

Abstract

Capture Hi-C (CHi-C) is a method for profiling chromosomal interactions involving targeted regions of interest, such as gene promoters, globally and at high resolution. Signal detection in CHi-C data involves a number of statistical challenges that are not observed when using other Hi-C-like techniques. We present a background model and algorithms for normalisation and multiple testing that are specifically adapted to CHi-C experiments. We implement these procedures in CHiCAGO ( http://regulatorygenomicsgroup.org/chicago ), an open-source package for robust interaction detection in CHi-C. We validate CHiCAGO by showing that promoter-interacting regions detected with this method are enriched for regulatory features and disease-associated SNPs.

Twitter Demographics

The data shown below were collected from the profiles of 60 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 291 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Germany 2 <1%
United Kingdom 2 <1%
Norway 1 <1%
Sweden 1 <1%
Switzerland 1 <1%
Denmark 1 <1%
Unknown 283 97%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 76 26%
Researcher 55 19%
Student > Bachelor 35 12%
Student > Master 21 7%
Student > Doctoral Student 17 6%
Other 44 15%
Unknown 43 15%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 100 34%
Agricultural and Biological Sciences 95 33%
Medicine and Dentistry 14 5%
Computer Science 14 5%
Engineering 7 2%
Other 14 5%
Unknown 47 16%

Attention Score in Context

This research output has an Altmetric Attention Score of 43. 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 07 November 2017.
All research outputs
#541,460
of 16,250,814 outputs
Outputs from Genome Biology (Online Edition)
#481
of 3,447 outputs
Outputs of similar age
#13,760
of 268,419 outputs
Outputs of similar age from Genome Biology (Online Edition)
#1
of 2 outputs
Altmetric has tracked 16,250,814 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 96th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 3,447 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 26.1. This one has done well, scoring higher than 86% 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 268,419 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 94% of its contemporaries.
We're also able to compare this research output to 2 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