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Quality control material for the detection of somatic mutations in fixed clinical specimens by next-generation sequencing.

Overview of attention for article published in Diagnostic Pathology, January 2015
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About this Attention Score

  • Above-average Attention Score compared to outputs of the same age (61st percentile)
  • Above-average Attention Score compared to outputs of the same age and source (62nd percentile)

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3 tweeters
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1 Facebook page

Citations

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10 Dimensions

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34 Mendeley
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Title
Quality control material for the detection of somatic mutations in fixed clinical specimens by next-generation sequencing.
Published in
Diagnostic Pathology, January 2015
DOI 10.1186/s13000-015-0403-0
Pubmed ID
Authors

Catherine I Dumur, Jorge A Almenara, Celeste N Powers, Andrea Ferreira-Gonzalez

Abstract

Targeted next generation sequencing (NGS) technology to assess the mutational status of multiple genes on formalin-fixed, paraffin embedded (FFPE) tumors is rapidly being adopted in clinical settings, where quality control (QC) practices are required. Establishing reliable FFPE QC materials for NGS can be challenging and/or expensive. Here, we established a reliable and cost-effective FFPE QC material for routine utilization in the Ion AmpliSeq™ Cancer Hotspot Panel v2 (CHP2) assay. The performance characteristics of the CHP2 assay were determined by sequencing various cell line mixtures and 55 different FFPE tumors on the Ion Torrent PGM platform. A FFPE QC material was prepared from a mixture of cell lines derived from different cancers, comprising single nucleotide variants and small deletions on actionable genes at different allelic frequencies. The CHP2 assay performed with high precision and sensitivity when custom variant calling pipeline parameters where established. In addition, all expected somatic variants in the QC material were consistently called at variant frequencies ranging from 9.1 % (CV = 11.1 %) to 37.9 % (CV = 2.8 %). The availability of a reliable and cost-effective QC material is instrumental in assessing the performance of this or any targeted NGS assay that detects somatic variants in fixed solid tumor specimens.

Twitter Demographics

The data shown below were collected from the profiles of 3 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 34 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Denmark 1 3%
Unknown 33 97%

Demographic breakdown

Readers by professional status Count As %
Researcher 12 35%
Student > Postgraduate 4 12%
Student > Ph. D. Student 4 12%
Student > Bachelor 3 9%
Student > Doctoral Student 2 6%
Other 5 15%
Unknown 4 12%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 9 26%
Agricultural and Biological Sciences 9 26%
Medicine and Dentistry 4 12%
Engineering 3 9%
Computer Science 1 3%
Other 2 6%
Unknown 6 18%

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 09 December 2015.
All research outputs
#2,525,845
of 6,717,285 outputs
Outputs from Diagnostic Pathology
#161
of 646 outputs
Outputs of similar age
#82,573
of 227,787 outputs
Outputs of similar age from Diagnostic Pathology
#14
of 50 outputs
Altmetric has tracked 6,717,285 research outputs across all sources so far. This one has received more attention than most of these and is in the 60th percentile.
So far Altmetric has tracked 646 research outputs from this source. They receive a mean Attention Score of 2.0. This one has gotten more attention than average, scoring higher than 71% 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 227,787 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 61% of its contemporaries.
We're also able to compare this research output to 50 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 62% of its contemporaries.