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Chromatin structure analysis enables detection of DNA insertions into the mammalian nuclear genome

Overview of attention for article published in Biochemistry and Biophysics Reports , June 2015
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Title
Chromatin structure analysis enables detection of DNA insertions into the mammalian nuclear genome
Published in
Biochemistry and Biophysics Reports , June 2015
DOI 10.1016/j.bbrep.2015.06.002
Pubmed ID
Authors

Challise J. Sullivan, Erik D. Pendleton, Rachel E. Abrams, David L. Valente, Michelle L. Alvarez, Richard H. Griffey, John Dresios

Abstract

Genetically modified organisms (GMOs) have numerous biomedical, agricultural and environmental applications. Development of accurate methods for the detection of GMOs is a prerequisite for the identification and control of authorized and unauthorized release of these engineered organisms into the environment and into the food chain. Current detection methods are unable to detect uncharacterized GMOs, since either the DNA sequence of the transgene or the amino acid sequence of the protein must be known for DNA-based or immunological-based detection, respectively. Here we describe the application of an epigenetics-based approach for the detection of mammalian GMOs via analysis of chromatin structural changes occurring in the host nucleus upon the insertion of foreign or endogenous DNA. Immunological methods combined with DNA next generation sequencing enabled direct interrogation of chromatin structure and identification of insertions of various size foreign (human or viral) DNA sequences, DNA sequences often used as genome modification tools (e.g. viral sequences, transposon elements), or endogenous DNA sequences into the nuclear genome of a model animal organism. The results provide a proof-of-concept that epigenetic approaches can be used to detect the insertion of endogenous and exogenous sequences into the genome of higher organisms where the method of genetic modification, the sequence of inserted DNA, and the exact genomic insertion site(s) are unknown. Measurement of chromatin dynamics as a sensor for detection of genomic manipulation and, more broadly, organism exposure to environmental or other factors affecting the epigenomic landscape are discussed.

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 19 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
South Africa 1 5%
Unknown 18 95%

Demographic breakdown

Readers by professional status Count As %
Researcher 5 26%
Other 2 11%
Student > Bachelor 2 11%
Student > Ph. D. Student 2 11%
Student > Master 2 11%
Other 2 11%
Unknown 4 21%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 6 32%
Agricultural and Biological Sciences 5 26%
Computer Science 1 5%
Immunology and Microbiology 1 5%
Medicine and Dentistry 1 5%
Other 1 5%
Unknown 4 21%
Attention Score in Context

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 16 June 2015.
All research outputs
#20,656,820
of 25,374,917 outputs
Outputs from Biochemistry and Biophysics Reports
#414
of 664 outputs
Outputs of similar age
#205,461
of 279,896 outputs
Outputs of similar age from Biochemistry and Biophysics Reports
#3
of 8 outputs
Altmetric has tracked 25,374,917 research outputs across all sources so far. This one is in the 10th percentile – i.e., 10% of other outputs scored the same or lower than it.
So far Altmetric has tracked 664 research outputs from this source. They typically receive more attention than average, with a mean Attention Score of 7.6. This one is in the 24th percentile – i.e., 24% 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 279,896 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 14th percentile – i.e., 14% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 8 others from the same source and published within six weeks on either side of this one. This one has scored higher than 5 of them.