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Activation of an endogenous retrovirus-associated long non-coding RNA in human adenocarcinoma

Overview of attention for article published in Genome Medicine, March 2015
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  • Above-average Attention Score compared to outputs of the same age (58th percentile)

Mentioned by

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5 tweeters

Citations

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41 Dimensions

Readers on

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87 Mendeley
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Title
Activation of an endogenous retrovirus-associated long non-coding RNA in human adenocarcinoma
Published in
Genome Medicine, March 2015
DOI 10.1186/s13073-015-0142-6
Pubmed ID
Authors

Ewan A Gibb, René L Warren, Gavin W Wilson, Scott D Brown, Gordon A Robertson, Gregg B Morin, Robert A Holt

Abstract

Long non-coding RNAs (lncRNAs) are emerging as molecules that significantly impact many cellular processes and have been associated with almost every human cancer. Compared to protein-coding genes, lncRNA genes are often associated with transposable elements, particularly with endogenous retroviral elements (ERVs). ERVs can have potentially deleterious effects on genome structure and function, so these elements are typically silenced in normal somatic tissues, albeit with varying efficiency. The aberrant regulation of ERVs associated with lncRNAs (ERV-lncRNAs), coupled with the diverse range of lncRNA functions, creates significant potential for ERV-lncRNAs to impact cancer biology. We used RNA-seq analysis to identify and profile the expression of a novel lncRNA in six large cohorts, including over 7,500 samples from The Cancer Genome Atlas (TCGA). We identified the tumor-specific expression of a novel lncRNA that we have named Endogenous retroViral-associated ADenocarcinoma RNA or 'EVADR', by analyzing RNA-seq data derived from colorectal tumors and matched normal control tissues. Subsequent analysis of TCGA RNA-seq data revealed the striking association of EVADR with adenocarcinomas, which are tumors of glandular origin. Moderate to high levels of EVADR were detected in 25 to 53% of colon, rectal, lung, pancreas and stomach adenocarcinomas (mean = 30 to 144 FPKM), and EVADR expression correlated with decreased patient survival (Cox regression; hazard ratio = 1.47, 95% confidence interval = 1.06 to 2.04, P = 0.02). In tumor sites of non-glandular origin, EVADR expression was detectable at only very low levels and in less than 10% of patients. For EVADR, a MER48 ERV element provides an active promoter to drive its transcription. Genome-wide, MER48 insertions are associated with nine lncRNAs, but none of the MER48-associated lncRNAs other than EVADR were consistently expressed in adenocarcinomas, demonstrating the specific activation of EVADR. The sequence and structure of the EVADR locus is highly conserved among Old World monkeys and apes but not New World monkeys or prosimians, where the MER48 insertion is absent. Conservation of the EVADR locus suggests a functional role for this novel lncRNA in humans and our closest primate relatives. Our results describe the specific activation of a highly conserved ERV-lncRNA in numerous cancers of glandular origin, a finding with diagnostic, prognostic and therapeutic implications.

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 87 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United Kingdom 1 1%
Netherlands 1 1%
Unknown 85 98%

Demographic breakdown

Readers by professional status Count As %
Researcher 24 28%
Student > Ph. D. Student 20 23%
Student > Master 14 16%
Student > Bachelor 10 11%
Student > Doctoral Student 6 7%
Other 6 7%
Unknown 7 8%
Readers by discipline Count As %
Agricultural and Biological Sciences 30 34%
Biochemistry, Genetics and Molecular Biology 29 33%
Medicine and Dentistry 8 9%
Immunology and Microbiology 5 6%
Computer Science 4 5%
Other 5 6%
Unknown 6 7%

Attention Score in Context

This research output has an Altmetric Attention Score of 3. 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 02 January 2018.
All research outputs
#6,436,384
of 19,844,828 outputs
Outputs from Genome Medicine
#997
of 1,295 outputs
Outputs of similar age
#76,850
of 228,171 outputs
Outputs of similar age from Genome Medicine
#1
of 1 outputs
Altmetric has tracked 19,844,828 research outputs across all sources so far. This one is in the 45th percentile – i.e., 45% of other outputs scored the same or lower than it.
So far Altmetric has tracked 1,295 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 23.6. This one is in the 19th percentile – i.e., 19% of its peers scored the same or lower than it.
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 228,171 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 58% 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