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An ensemble approach to accurately detect somatic mutations using SomaticSeq

Overview of attention for article published in Genome Biology (Online Edition), September 2015
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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 (93rd percentile)

Mentioned by

twitter
32 tweeters
patent
4 patents
facebook
2 Facebook pages
wikipedia
1 Wikipedia page
googleplus
1 Google+ user

Citations

dimensions_citation
82 Dimensions

Readers on

mendeley
169 Mendeley
citeulike
3 CiteULike
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Title
An ensemble approach to accurately detect somatic mutations using SomaticSeq
Published in
Genome Biology (Online Edition), September 2015
DOI 10.1186/s13059-015-0758-2
Pubmed ID
Authors

Li Tai Fang, Pegah Tootoonchi Afshar, Aparna Chhibber, Marghoob Mohiyuddin, Yu Fan, John C. Mu, Greg Gibeling, Sharon Barr, Narges Bani Asadi, Mark B. Gerstein, Daniel C. Koboldt, Wenyi Wang, Wing H. Wong, Hugo Y.K. Lam

Abstract

SomaticSeq is an accurate somatic mutation detection pipeline implementing a stochastic boosting algorithm to produce highly accurate somatic mutation calls for both single nucleotide variants and small insertions and deletions. The workflow currently incorporates five state-of-the-art somatic mutation callers, and extracts over 70 individual genomic and sequencing features for each candidate site. A training set is provided to an adaptively boosted decision tree learner to create a classifier for predicting mutation statuses. We validate our results with both synthetic and real data. We report that SomaticSeq is able to achieve better overall accuracy than any individual tool incorporated.

Twitter Demographics

The data shown below were collected from the profiles of 32 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 169 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Italy 2 1%
United States 2 1%
Korea, Republic of 1 <1%
Netherlands 1 <1%
United Kingdom 1 <1%
Australia 1 <1%
Taiwan 1 <1%
New Zealand 1 <1%
Unknown 159 94%

Demographic breakdown

Readers by professional status Count As %
Researcher 51 30%
Student > Master 26 15%
Student > Ph. D. Student 23 14%
Student > Bachelor 12 7%
Student > Postgraduate 8 5%
Other 22 13%
Unknown 27 16%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 45 27%
Agricultural and Biological Sciences 44 26%
Computer Science 24 14%
Medicine and Dentistry 12 7%
Engineering 7 4%
Other 7 4%
Unknown 30 18%

Attention Score in Context

This research output has an Altmetric Attention Score of 29. 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 October 2021.
All research outputs
#1,111,568
of 22,428,375 outputs
Outputs from Genome Biology (Online Edition)
#944
of 4,075 outputs
Outputs of similar age
#17,048
of 263,425 outputs
Outputs of similar age from Genome Biology (Online Edition)
#1
of 1 outputs
Altmetric has tracked 22,428,375 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 95th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 4,075 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.7. This one has done well, scoring higher than 76% 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 263,425 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 93% 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