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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, 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 (95th percentile)

Mentioned by

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

Citations

dimensions_citation
78 Dimensions

Readers on

mendeley
232 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, 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.

X Demographics

X Demographics

The data shown below were collected from the profiles of 3 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 232 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 5 2%
Japan 2 <1%
France 2 <1%
Sweden 2 <1%
South Africa 1 <1%
Germany 1 <1%
United Kingdom 1 <1%
Switzerland 1 <1%
India 1 <1%
Other 1 <1%
Unknown 215 93%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 71 31%
Researcher 68 29%
Student > Master 15 6%
Professor > Associate Professor 10 4%
Student > Bachelor 9 4%
Other 31 13%
Unknown 28 12%
Readers by discipline Count As %
Agricultural and Biological Sciences 103 44%
Biochemistry, Genetics and Molecular Biology 62 27%
Medicine and Dentistry 14 6%
Computer Science 8 3%
Neuroscience 6 3%
Other 10 4%
Unknown 29 13%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 92. 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 26 October 2023.
All research outputs
#463,037
of 25,374,647 outputs
Outputs from Genome Biology
#253
of 4,467 outputs
Outputs of similar age
#4,447
of 318,511 outputs
Outputs of similar age from Genome Biology
#5
of 115 outputs
Altmetric has tracked 25,374,647 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 4,467 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.6. 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 318,511 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 115 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 95% of its contemporaries.