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A Complete Set of Nascent Transcription Rates for Yeast Genes

Overview of attention for article published in PLoS ONE, November 2010
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  • In the top 25% of all research outputs scored by Altmetric
  • Good Attention Score compared to outputs of the same age (79th percentile)
  • Good Attention Score compared to outputs of the same age and source (76th percentile)

Mentioned by

blogs
1 blog

Citations

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92 Dimensions

Readers on

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133 Mendeley
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1 CiteULike
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Title
A Complete Set of Nascent Transcription Rates for Yeast Genes
Published in
PLoS ONE, November 2010
DOI 10.1371/journal.pone.0015442
Pubmed ID
Authors

Vicent Pelechano, Sebastián Chávez, José E. Pérez-Ortín

Abstract

The amount of mRNA in a cell is the result of two opposite reactions: transcription and mRNA degradation. These reactions are governed by kinetics laws, and the most regulated step for many genes is the transcription rate. The transcription rate, which is assumed to be exercised mainly at the RNA polymerase recruitment level, can be calculated using the RNA polymerase densities determined either by run-on or immunoprecipitation using specific antibodies. The yeast Saccharomyces cerevisiae is the ideal model organism to generate a complete set of nascent transcription rates that will prove useful for many gene regulation studies. By combining genomic data from both the GRO (Genomic Run-on) and the RNA pol ChIP-on-chip methods we generated a new, more accurate nascent transcription rate dataset. By comparing this dataset with the indirect ones obtained from the mRNA stabilities and mRNA amount datasets, we are able to obtain biological information about posttranscriptional regulation processes and a genomic snapshot of the location of the active transcriptional machinery. We have obtained nascent transcription rates for 4,670 yeast genes. The median RNA polymerase II density in the genes is 0.078 molecules/kb, which corresponds to an average of 0.096 molecules/gene. Most genes have transcription rates of between 2 and 30 mRNAs/hour and less than 1% of yeast genes have >1 RNA polymerase molecule/gene. Histone and ribosomal protein genes are the highest transcribed groups of genes and other than these exceptions the transcription of genes is an infrequent phenomenon in a yeast cell.

Mendeley readers

The data shown below were compiled from readership statistics for 133 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 3 2%
Germany 2 2%
France 1 <1%
Chile 1 <1%
Italy 1 <1%
Poland 1 <1%
Spain 1 <1%
Canada 1 <1%
Unknown 122 92%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 45 34%
Researcher 31 23%
Professor 14 11%
Student > Master 14 11%
Professor > Associate Professor 7 5%
Other 22 17%
Readers by discipline Count As %
Agricultural and Biological Sciences 86 65%
Biochemistry, Genetics and Molecular Biology 27 20%
Unspecified 6 5%
Physics and Astronomy 5 4%
Chemistry 3 2%
Other 6 5%

Attention Score in Context

This research output has an Altmetric Attention Score of 6. 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 06 December 2010.
All research outputs
#2,605,244
of 12,090,963 outputs
Outputs from PLoS ONE
#33,823
of 133,011 outputs
Outputs of similar age
#26,582
of 131,760 outputs
Outputs of similar age from PLoS ONE
#1,052
of 4,440 outputs
Altmetric has tracked 12,090,963 research outputs across all sources so far. Compared to these this one has done well and is in the 78th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 133,011 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 11.6. This one has gotten more attention than average, scoring higher than 74% 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 131,760 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 79% of its contemporaries.
We're also able to compare this research output to 4,440 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 76% of its contemporaries.