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Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing

Overview of attention for article published in Genome Biology (Online Edition), March 2018
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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)
  • High Attention Score compared to outputs of the same age and source (81st percentile)

Mentioned by

news
1 news outlet
twitter
73 tweeters

Citations

dimensions_citation
82 Dimensions

Readers on

mendeley
178 Mendeley
citeulike
1 CiteULike
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Title
Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing
Published in
Genome Biology (Online Edition), March 2018
DOI 10.1186/s13059-018-1418-0
Pubmed ID
Authors

Seyed Yahya Anvar, Guy Allard, Elizabeth Tseng, Gloria M. Sheynkman, Eleonora de Klerk, Martijn Vermaat, Raymund H. Yin, Hans E. Johansson, Yavuz Ariyurek, Johan T. den Dunnen, Stephen W. Turner, Peter A. C. ‘t Hoen

Abstract

The multifaceted control of gene expression requires tight coordination of regulatory mechanisms at transcriptional and post-transcriptional level. Here, we studied the interdependence of transcription initiation, splicing and polyadenylation events on single mRNA molecules by full-length mRNA sequencing. In MCF-7 breast cancer cells, we find 2700 genes with interdependent alternative transcription initiation, splicing and polyadenylation events, both in proximal and distant parts of mRNA molecules, including examples of coupling between transcription start sites and polyadenylation sites. The analysis of three human primary tissues (brain, heart and liver) reveals similar patterns of interdependency between transcription initiation and mRNA processing events. We predict thousands of novel open reading frames from full-length mRNA sequences and obtained evidence for their translation by shotgun proteomics. The mapping database rescues 358 previously unassigned peptides and improves the assignment of others. By recognizing sample-specific amino-acid changes and novel splicing patterns, full-length mRNA sequencing improves proteogenomics analysis of MCF-7 cells. Our findings demonstrate that our understanding of transcriptome complexity is far from complete and provides a basis to reveal largely unresolved mechanisms that coordinate transcription initiation and mRNA processing.

Twitter Demographics

The data shown below were collected from the profiles of 73 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 178 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 178 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 43 24%
Student > Ph. D. Student 41 23%
Student > Master 20 11%
Student > Postgraduate 13 7%
Student > Bachelor 12 7%
Other 27 15%
Unknown 22 12%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 78 44%
Agricultural and Biological Sciences 40 22%
Computer Science 6 3%
Immunology and Microbiology 5 3%
Neuroscience 4 2%
Other 15 8%
Unknown 30 17%

Attention Score in Context

This research output has an Altmetric Attention Score of 48. 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 03 August 2022.
All research outputs
#734,793
of 22,792,160 outputs
Outputs from Genome Biology (Online Edition)
#538
of 4,114 outputs
Outputs of similar age
#18,662
of 329,101 outputs
Outputs of similar age from Genome Biology (Online Edition)
#8
of 38 outputs
Altmetric has tracked 22,792,160 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 4,114 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 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 329,101 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 38 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 81% of its contemporaries.