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Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes

Overview of attention for article published in Genome Biology (Online Edition), May 2015
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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 (97th percentile)

Mentioned by

news
5 news outlets
blogs
1 blog
twitter
22 tweeters
facebook
6 Facebook pages
googleplus
1 Google+ user

Citations

dimensions_citation
81 Dimensions

Readers on

mendeley
125 Mendeley
citeulike
1 CiteULike
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Title
Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes
Published in
Genome Biology (Online Edition), May 2015
DOI 10.1186/s13059-015-0651-z
Pubmed ID
Authors

Dmitry E Andreev, Patrick BF O’Connor, Alexander V Zhdanov, Ruslan I Dmitriev, Ivan N Shatsky, Dmitri B Papkovsky, Pavel V Baranov

Abstract

Oxygen and glucose metabolism play pivotal roles in many (patho)physiological conditions. In particular, oxygen and glucose deprivation (OGD) during ischemia and stroke results in extensive tissue injury and cell death. Using time-resolved ribosome profiling, we assess gene expression levels in a neural cell line, PC12, during the first hour of OGD. The most substantial alterations are seen to occur within the first 20 minutes of OGD. While transcription of only 100 genes is significantly altered during one hour of OGD, the translation response affects approximately 3,000 genes. This response involves reprogramming of initiation and elongation rates, as well as the stringency of start codon recognition. Genes involved in oxidative phosphorylation are most affected. Detailed analysis of ribosome profiles reveals salient alterations of ribosome densities on individual mRNAs. The mRNA-specific alterations include increased translation of upstream open reading frames, site-specific ribosome pauses, and production of alternative protein isoforms with amino-terminal extensions. Detailed analysis of ribosomal profiles also reveals six mRNAs with translated ORFs occurring downstream of annotated coding regions and two examples of dual coding mRNAs, where two protein products are translated from the same long segment of mRNA, but in two different frames. These findings uncover novel regulatory mechanisms of translational response to OGD in mammalian cells that are different from the classical pathways such as hypoxia inducible factor (HIF) signaling, while also revealing sophisticated organization of protein coding information in certain genes.

Twitter Demographics

The data shown below were collected from the profiles of 22 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 125 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 4 3%
United Kingdom 2 2%
Russia 1 <1%
Netherlands 1 <1%
Spain 1 <1%
Switzerland 1 <1%
Poland 1 <1%
Unknown 114 91%

Demographic breakdown

Readers by professional status Count As %
Researcher 30 24%
Student > Ph. D. Student 29 23%
Student > Master 16 13%
Professor > Associate Professor 10 8%
Student > Doctoral Student 9 7%
Other 20 16%
Unknown 11 9%
Readers by discipline Count As %
Agricultural and Biological Sciences 61 49%
Biochemistry, Genetics and Molecular Biology 32 26%
Medicine and Dentistry 5 4%
Pharmacology, Toxicology and Pharmaceutical Science 2 2%
Engineering 2 2%
Other 7 6%
Unknown 16 13%

Attention Score in Context

This research output has an Altmetric Attention Score of 59. 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 February 2016.
All research outputs
#363,918
of 15,431,972 outputs
Outputs from Genome Biology (Online Edition)
#323
of 3,327 outputs
Outputs of similar age
#6,759
of 231,330 outputs
Outputs of similar age from Genome Biology (Online Edition)
#1
of 1 outputs
Altmetric has tracked 15,431,972 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 97th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 3,327 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 25.2. This one has done particularly well, scoring higher than 90% 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 231,330 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 97% of its contemporaries.
We're also able to compare this research output to 1 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