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A computational tool to detect DNA alterations tailored to formalin-fixed paraffin-embedded samples in cancer clinical sequencing

Overview of attention for article published in Genome Medicine, June 2018
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About this Attention Score

  • Good Attention Score compared to outputs of the same age (67th percentile)

Mentioned by

twitter
4 tweeters
patent
1 patent

Citations

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19 Dimensions

Readers on

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47 Mendeley
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Title
A computational tool to detect DNA alterations tailored to formalin-fixed paraffin-embedded samples in cancer clinical sequencing
Published in
Genome Medicine, June 2018
DOI 10.1186/s13073-018-0547-0
Pubmed ID
Authors

Mamoru Kato, Hiromi Nakamura, Momoko Nagai, Takashi Kubo, Asmaa Elzawahry, Yasushi Totoki, Yuko Tanabe, Eisaku Furukawa, Joe Miyamoto, Hiromi Sakamoto, Shingo Matsumoto, Kuniko Sunami, Yasuhito Arai, Yutaka Suzuki, Teruhiko Yoshida, Katsuya Tsuchihara, Kenji Tamura, Noboru Yamamoto, Hitoshi Ichikawa, Takashi Kohno, Tatsuhiro Shibata

Abstract

Advanced cancer genomics technologies are now being employed in clinical sequencing, where next-generation sequencers are used to simultaneously identify multiple types of DNA alterations for prescription of molecularly targeted drugs. However, no computational tool is available to accurately detect DNA alterations in formalin-fixed paraffin-embedded (FFPE) samples commonly used in hospitals. Here, we developed a computational tool tailored to the detection of single nucleotide variations, indels, fusions, and copy number alterations in FFPE samples. Elaborated multilayer noise filters reduced the inherent noise while maintaining high sensitivity, as evaluated in tumor-unmatched normal samples using orthogonal technologies. This tool, cisCall, should facilitate clinical sequencing in everyday diagnostics. It is available at https://www.ciscall.org .

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

Geographical breakdown

Country Count As %
Unknown 47 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 11 23%
Student > Master 10 21%
Student > Ph. D. Student 9 19%
Other 3 6%
Student > Doctoral Student 2 4%
Other 3 6%
Unknown 9 19%
Readers by discipline Count As %
Agricultural and Biological Sciences 12 26%
Biochemistry, Genetics and Molecular Biology 10 21%
Computer Science 5 11%
Medicine and Dentistry 3 6%
Immunology and Microbiology 2 4%
Other 4 9%
Unknown 11 23%

Attention Score in Context

This research output has an Altmetric Attention Score of 5. 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 17 March 2022.
All research outputs
#5,602,092
of 21,340,902 outputs
Outputs from Genome Medicine
#948
of 1,357 outputs
Outputs of similar age
#95,856
of 298,589 outputs
Outputs of similar age from Genome Medicine
#1
of 1 outputs
Altmetric has tracked 21,340,902 research outputs across all sources so far. This one has received more attention than most of these and is in the 73rd percentile.
So far Altmetric has tracked 1,357 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 23.9. This one is in the 29th percentile – i.e., 29% 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 298,589 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 67% 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