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Putative cis-regulatory drivers in colorectal cancer

Overview of attention for article published in Nature, July 2014
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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 (98th percentile)
  • Good Attention Score compared to outputs of the same age and source (66th percentile)

Mentioned by

news
6 news outlets
blogs
1 blog
twitter
66 X users
weibo
2 weibo users
wikipedia
2 Wikipedia pages

Citations

dimensions_citation
135 Dimensions

Readers on

mendeley
372 Mendeley
citeulike
11 CiteULike
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Title
Putative cis-regulatory drivers in colorectal cancer
Published in
Nature, July 2014
DOI 10.1038/nature13602
Pubmed ID
Authors

Halit Ongen, Claus L. Andersen, Jesper B. Bramsen, Bodil Oster, Mads H. Rasmussen, Pedro G. Ferreira, Juan Sandoval, Enrique Vidal, Nicola Whiffin, Alexandra Planchon, Ismael Padioleau, Deborah Bielser, Luciana Romano, Ian Tomlinson, Richard S. Houlston, Manel Esteller, Torben F. Orntoft, Emmanouil T. Dermitzakis

Abstract

The cis-regulatory effects responsible for cancer development have not been as extensively studied as the perturbations of the protein coding genome in tumorigenesis. To better characterize colorectal cancer (CRC) development we conducted an RNA-sequencing experiment of 103 matched tumour and normal colon mucosa samples from Danish CRC patients, 90 of which were germline-genotyped. By investigating allele-specific expression (ASE) we show that the germline genotypes remain important determinants of allelic gene expression in tumours. Using the changes in ASE in matched pairs of samples we discover 71 genes with excess of somatic cis-regulatory effects in CRC, suggesting a cancer driver role. We correlate genotypes and gene expression to identify expression quantitative trait loci (eQTLs) and find 1,693 and 948 eQTLs in normal samples and tumours, respectively. We estimate that 36% of the tumour eQTLs are exclusive to CRC and show that this specificity is partially driven by increased expression of specific transcription factors and changes in methylation patterns. We show that tumour-specific eQTLs are more enriched for low CRC genome-wide association study (GWAS) P values than shared eQTLs, which suggests that some of the GWAS variants are tumour specific regulatory variants. Importantly, tumour-specific eQTL genes also accumulate more somatic mutations when compared to the shared eQTL genes, raising the possibility that they constitute germline-derived cancer regulatory drivers. Collectively the integration of genome and the transcriptome reveals a substantial number of putative somatic and germline cis-regulatory cancer changes that may have a role in tumorigenesis.

X Demographics

X Demographics

The data shown below were collected from the profiles of 66 X users who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 372 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 10 3%
United Kingdom 7 2%
Germany 3 <1%
Korea, Republic of 2 <1%
Netherlands 2 <1%
Norway 1 <1%
Italy 1 <1%
Switzerland 1 <1%
Sweden 1 <1%
Other 2 <1%
Unknown 342 92%

Demographic breakdown

Readers by professional status Count As %
Researcher 107 29%
Student > Ph. D. Student 94 25%
Professor > Associate Professor 29 8%
Student > Master 26 7%
Professor 20 5%
Other 63 17%
Unknown 33 9%
Readers by discipline Count As %
Agricultural and Biological Sciences 180 48%
Biochemistry, Genetics and Molecular Biology 77 21%
Medicine and Dentistry 46 12%
Computer Science 12 3%
Immunology and Microbiology 4 1%
Other 18 5%
Unknown 35 9%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 93. 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 2021.
All research outputs
#458,990
of 25,522,520 outputs
Outputs from Nature
#21,525
of 98,139 outputs
Outputs of similar age
#4,030
of 240,062 outputs
Outputs of similar age from Nature
#327
of 964 outputs
Altmetric has tracked 25,522,520 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 98th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 98,139 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 102.6. This one has done well, scoring higher than 78% 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 240,062 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 98% of its contemporaries.
We're also able to compare this research output to 964 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 66% of its contemporaries.