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CVE: an R package for interactive variant prioritisation in precision oncology

Overview of attention for article published in BMC Medical Genomics, May 2017
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About this Attention Score

  • Above-average Attention Score compared to outputs of the same age (55th percentile)
  • Average Attention Score compared to outputs of the same age and source

Mentioned by

twitter
4 tweeters

Citations

dimensions_citation
7 Dimensions

Readers on

mendeley
41 Mendeley
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Title
CVE: an R package for interactive variant prioritisation in precision oncology
Published in
BMC Medical Genomics, May 2017
DOI 10.1186/s12920-017-0261-6
Pubmed ID
Authors

Andreas Mock, Suzanne Murphy, James Morris, Francesco Marass, Nitzan Rosenfeld, Charlie Massie

Abstract

An increasing number of precision oncology programmes are being launched world-wide. To support this development, we present the Cancer Variant Explorer (CVE), an R package with an interactive Shiny web browser interface. Leveraging Oncotator and the Drug Gene Interaction Database, CVE offers exploration of variants within single or multiple tumour exomes to identify drivers, resistance mechanisms and to assess druggability. We present example applications including the analysis of an individual patient and a cohort-wide study, and provide a first extension of CVE by adding a tumour-specific co-expression network. The CVE package allows interactive variant prioritisation to expedite the analysis of cancer sequencing studies. Our framework also includes the prioritisation of druggable targets, allows exploratory analysis of tissue specific networks and is extendable for specific applications by virtue of its modular design. We encourage the use of CVE within translational research studies and molecular tumour boards. The CVE package is available via Bioconductor ( http://bioconductor.org/packages/CVE/ ).

Twitter Demographics

The data shown below were collected from the profiles of 4 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 41 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Taiwan 1 2%
Unknown 40 98%

Demographic breakdown

Readers by professional status Count As %
Researcher 16 39%
Student > Ph. D. Student 10 24%
Other 5 12%
Student > Bachelor 3 7%
Student > Master 2 5%
Other 2 5%
Unknown 3 7%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 13 32%
Agricultural and Biological Sciences 6 15%
Medicine and Dentistry 5 12%
Computer Science 4 10%
Design 2 5%
Other 7 17%
Unknown 4 10%

Attention Score in Context

This research output has an Altmetric Attention Score of 2. 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 05 March 2018.
All research outputs
#6,827,291
of 12,600,122 outputs
Outputs from BMC Medical Genomics
#289
of 603 outputs
Outputs of similar age
#113,502
of 264,992 outputs
Outputs of similar age from BMC Medical Genomics
#10
of 15 outputs
Altmetric has tracked 12,600,122 research outputs across all sources so far. This one is in the 44th percentile – i.e., 44% of other outputs scored the same or lower than it.
So far Altmetric has tracked 603 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.1. This one is in the 49th percentile – i.e., 49% 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 264,992 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 55% of its contemporaries.
We're also able to compare this research output to 15 others from the same source and published within six weeks on either side of this one. This one is in the 33rd percentile – i.e., 33% of its contemporaries scored the same or lower than it.