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RNase-mediated protein footprint sequencing reveals protein-binding sites throughout the human transcriptome

Overview of attention for article published in Genome Biology (Online Edition), January 2014
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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 (98th percentile)
  • High Attention Score compared to outputs of the same age and source (93rd percentile)

Mentioned by

news
9 news outlets
blogs
3 blogs
twitter
4 tweeters
q&a
1 Q&A thread

Citations

dimensions_citation
62 Dimensions

Readers on

mendeley
219 Mendeley
citeulike
5 CiteULike
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Title
RNase-mediated protein footprint sequencing reveals protein-binding sites throughout the human transcriptome
Published in
Genome Biology (Online Edition), January 2014
DOI 10.1186/gb-2014-15-1-r3
Pubmed ID
Authors

Ian M Silverman, Fan Li, Anissa Alexander, Loyal Goff, Cole Trapnell, John L Rinn, Brian D Gregory

Abstract

Although numerous approaches have been developed to map RNA-binding sites of individual RNA-binding proteins (RBPs), few methods exist that allow assessment of global RBP-RNA interactions. Here, we describe PIP-seq, a universal, high-throughput, ribonuclease-mediated protein footprint sequencing approach that reveals RNA-protein interaction sites throughout a transcriptome of interest. We apply PIP-seq to the HeLa transcriptome and compare binding sites found using different cross-linkers and ribonucleases. From this analysis, we identify numerous putative RBP-binding motifs, reveal novel insights into co-binding by RBPs, and uncover a significant enrichment for disease-associated polymorphisms within RBP interaction sites.

Twitter Demographics

The data shown below were collected from the profiles of 4 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 219 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 5 2%
France 2 <1%
Japan 2 <1%
United Kingdom 2 <1%
Sweden 2 <1%
South Africa 1 <1%
India 1 <1%
Italy 1 <1%
Argentina 1 <1%
Other 2 <1%
Unknown 200 91%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 71 32%
Researcher 67 31%
Student > Master 13 6%
Professor > Associate Professor 9 4%
Student > Bachelor 9 4%
Other 27 12%
Unknown 23 11%
Readers by discipline Count As %
Agricultural and Biological Sciences 105 48%
Biochemistry, Genetics and Molecular Biology 56 26%
Medicine and Dentistry 13 6%
Computer Science 7 3%
Neuroscience 5 2%
Other 7 3%
Unknown 26 12%

Attention Score in Context

This research output has an Altmetric Attention Score of 90. 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 13 January 2015.
All research outputs
#288,396
of 17,897,867 outputs
Outputs from Genome Biology (Online Edition)
#211
of 3,675 outputs
Outputs of similar age
#3,820
of 276,594 outputs
Outputs of similar age from Genome Biology (Online Edition)
#9
of 139 outputs
Altmetric has tracked 17,897,867 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 98th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 3,675 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 26.6. This one has done particularly well, scoring higher than 94% 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 276,594 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 98% of its contemporaries.
We're also able to compare this research output to 139 others from the same source and published within six weeks on either side of this one. This one has done particularly well, scoring higher than 93% of its contemporaries.