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The In Vitro Stability of Circulating Tumour DNA

Overview of attention for article published in PLoS ONE, December 2016
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Title
The In Vitro Stability of Circulating Tumour DNA
Published in
PLoS ONE, December 2016
DOI 10.1371/journal.pone.0168153
Pubmed ID
Authors

Emanuela Henao Diaz, Jeffrey Yachnin, Henrik Grönberg, Johan Lindberg

Abstract

DNA from apoptotic cancer cells, present in the circulation, has the potential to facilitate genomic profiling and disease monitoring. However, only low fractions of total cell-free DNA originates from cancer cells, limiting the applicability of circulating tumour DNA (ctDNA). Optimal sample processing is consequently of uttermost importance. Therefore, we evaluated the in vitro stability of ctDNA. Blood was collected in 10 ml EDTA or Streck tubes. Three conditions (EDTA and Streck tubes in room temperature, EDTA tubes at five degrees) and four time points (plasma harvested from blood aliquots of each 10 ml tube in a time series up to 24 h) were investigated. Each condition was evaluated in five metastatic prostate cancer patients. Subsequently, three additional patients were collected enabling investigation of the in vitro stability in EDTA tubes up to 48 h. The in vitro stability of ctDNA was interrogated by low-pass whole genome sequencing which allows for the identification of somatic copy-number alterations (CNAs). In silico simulations demonstrated that non-parametric testing could detect a 1% contamination by white blood cell DNA. Mutational profiling was performed by targeted, in-solution based hybridization capture and subsequent sequencing. The allelic fraction of individual mutations was used as an estimate of the in vitro stability. Somatic CNAs were detected in all patients. Surprisingly, the ctDNA levels at zero hours were not significantly different to 24 or 48 hour in vitro incubation in any investigated condition. Subsequently, mutational profiling corroborated the conclusions from the CNA analysis. The stability of ctDNA simplifies logistics without the requirement of immediate processing or applying fixatives to prevent white blood cell lysis.

Twitter Demographics

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Mendeley readers

The data shown below were compiled from readership statistics for 28 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 28 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 7 25%
Student > Master 6 21%
Student > Ph. D. Student 4 14%
Other 3 11%
Student > Bachelor 2 7%
Other 2 7%
Unknown 4 14%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 11 39%
Medicine and Dentistry 5 18%
Agricultural and Biological Sciences 5 18%
Computer Science 1 4%
Decision Sciences 1 4%
Other 1 4%
Unknown 4 14%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. 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 15 December 2016.
All research outputs
#7,504,840
of 9,728,122 outputs
Outputs from PLoS ONE
#92,483
of 125,160 outputs
Outputs of similar age
#216,907
of 314,585 outputs
Outputs of similar age from PLoS ONE
#3,717
of 5,418 outputs
Altmetric has tracked 9,728,122 research outputs across all sources so far. This one is in the 12th percentile – i.e., 12% of other outputs scored the same or lower than it.
So far Altmetric has tracked 125,160 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 11.2. This one is in the 15th percentile – i.e., 15% 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 314,585 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 18th percentile – i.e., 18% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 5,418 others from the same source and published within six weeks on either side of this one. This one is in the 19th percentile – i.e., 19% of its contemporaries scored the same or lower than it.