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FunSeq2: a framework for prioritizing noncoding regulatory variants in cancer

Overview of attention for article published in Genome Biology (Online Edition), October 2014
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • Good Attention Score compared to outputs of the same age (77th percentile)
  • Average Attention Score compared to outputs of the same age and source

Mentioned by

twitter
12 tweeters

Citations

dimensions_citation
274 Dimensions

Readers on

mendeley
352 Mendeley
citeulike
7 CiteULike
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Title
FunSeq2: a framework for prioritizing noncoding regulatory variants in cancer
Published in
Genome Biology (Online Edition), October 2014
DOI 10.1186/s13059-014-0480-5
Pubmed ID
Authors

Yao Fu, Zhu Liu, Shaoke Lou, Jason Bedford, Xinmeng Jasmine Mu, Kevin Y Yip, Ekta Khurana, Mark Gerstein

Abstract

Identification of noncoding drivers from thousands of somatic alterations in a typical tumor is a difficult and unsolved problem. We report a computational framework, FunSeq2, to annotate and prioritize these mutations. The framework combines an adjustable data context integrating large-scale genomics and cancer resources with a streamlined variant-prioritization pipeline. The pipeline has a weighted scoring system combining: inter- and intra-species conservation; loss- and gain-of function events for transcription-factor binding; enhancer-gene linkages and network centrality; and per-element recurrence across samples. We further highlight putative drivers with information specific to a particular sample, such as differential expression. FunSeq2 is available from funseq2.gersteinlab.org.

Twitter Demographics

The data shown below were collected from the profiles of 12 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 352 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 5 1%
United Kingdom 4 1%
Germany 3 <1%
Italy 2 <1%
Hong Kong 2 <1%
Spain 2 <1%
Sweden 1 <1%
Korea, Republic of 1 <1%
Norway 1 <1%
Other 1 <1%
Unknown 330 94%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 109 31%
Researcher 76 22%
Student > Master 41 12%
Student > Bachelor 19 5%
Student > Doctoral Student 17 5%
Other 41 12%
Unknown 49 14%
Readers by discipline Count As %
Agricultural and Biological Sciences 113 32%
Biochemistry, Genetics and Molecular Biology 96 27%
Computer Science 40 11%
Medicine and Dentistry 15 4%
Engineering 7 2%
Other 25 7%
Unknown 56 16%

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 February 2019.
All research outputs
#4,104,839
of 17,020,562 outputs
Outputs from Genome Biology (Online Edition)
#2,306
of 3,552 outputs
Outputs of similar age
#52,376
of 237,024 outputs
Outputs of similar age from Genome Biology (Online Edition)
#68
of 105 outputs
Altmetric has tracked 17,020,562 research outputs across all sources so far. Compared to these this one has done well and is in the 75th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 3,552 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 26.2. This one is in the 34th percentile – i.e., 34% 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 237,024 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 77% of its contemporaries.
We're also able to compare this research output to 105 others from the same source and published within six weeks on either side of this one. This one is in the 36th percentile – i.e., 36% of its contemporaries scored the same or lower than it.