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Differential long-term stability of microRNAs and RNU6B snRNA in 12–20 year old archived formalin-fixed paraffin-embedded specimens

Overview of attention for article published in BMC Cancer, January 2017
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  • Good Attention Score compared to outputs of the same age (72nd percentile)
  • High Attention Score compared to outputs of the same age and source (86th percentile)

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5 tweeters
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1 Facebook page
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1 Google+ user

Citations

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22 Dimensions

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36 Mendeley
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Title
Differential long-term stability of microRNAs and RNU6B snRNA in 12–20 year old archived formalin-fixed paraffin-embedded specimens
Published in
BMC Cancer, January 2017
DOI 10.1186/s12885-016-3008-4
Pubmed ID
Authors

Sarah B. Peskoe, John R. Barber, Qizhi Zheng, Alan K. Meeker, Angelo M. De Marzo, Elizabeth A. Platz, Shawn E. Lupold

Abstract

The quantitative analysis of microRNA (miRNA) gene expression in archived formalin-fixed, paraffin embedded (FFPE) tissues has been instrumental to identifying their potential roles in cancer biology, diagnosis, and prognosis. However, it remains unclear whether miRNAs remain stable in FFPE tissues stored for long periods of time. Here we report Taqman real-time RT-PCR quantification of miR-21, miR-141, miR-221, and RNU6B small nuclear RNA (snRNA) levels from 92 radical prostatectomy specimens stored for 12-20 years in FFPE blocks. The relative stability of each transcript over time was assessed using general linear models. The correlation between transcript quantities, sample age, and RNA integrity number (RIN) were determined utilizing Spearman rank correlation. All transcript levels linearly decreased with sample age, demonstrating a clear loss of miRNA stability and RNU6B snRNA stability over time. The most rapid rates of degradation were observed for RNU6B and miR-21, while miR-141 and miR-221 were more stable. RNA quality was not correlated with sample age or with miR-21, miR-221, or RNU6B snRNA levels. Conversely, miR-141 levels increased with RNA quality. MiRNA and snRNA levels gradually decreased over an eight year period in FFPE tissue blocks. Sample age was the most consistent feature associated with miRNA stability. The reference snRNA, RUN6B, was more rapidly degraded when compared to miR-141 and miR-221 miRNAs. Various miRNAs demonstrated differential rates of degradation. Quantitative miRNA studies from long-term archived FFPE tissues may therefore benefit from epidemiologic study design or statistical analysis methods that take into account differential storage-dependent transcript degradation.

Twitter Demographics

The data shown below were collected from the profiles of 5 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 36 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 36 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 5 14%
Other 5 14%
Student > Bachelor 5 14%
Student > Ph. D. Student 5 14%
Student > Master 3 8%
Other 6 17%
Unknown 7 19%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 9 25%
Agricultural and Biological Sciences 6 17%
Medicine and Dentistry 6 17%
Unspecified 2 6%
Nursing and Health Professions 1 3%
Other 3 8%
Unknown 9 25%

Attention Score in Context

This research output has an Altmetric Attention Score of 5. 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 11 January 2017.
All research outputs
#4,083,867
of 15,918,909 outputs
Outputs from BMC Cancer
#969
of 5,907 outputs
Outputs of similar age
#106,659
of 387,315 outputs
Outputs of similar age from BMC Cancer
#88
of 656 outputs
Altmetric has tracked 15,918,909 research outputs across all sources so far. This one has received more attention than most of these and is in the 74th percentile.
So far Altmetric has tracked 5,907 research outputs from this source. They receive a mean Attention Score of 4.1. This one has done well, scoring higher than 83% 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 387,315 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 72% of its contemporaries.
We're also able to compare this research output to 656 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 86% of its contemporaries.