Direct quantification of EGFR variant allele frequency in cell-free DNA using a microfluidic-free digital droplet PCR assay

Author(s):  
Benjamin Demaree ◽  
Daniel Weisgerber ◽  
Ata Dolatmoradi ◽  
Makiko Hatori ◽  
Adam R. Abate
2021 ◽  
Author(s):  
Ryo Ariyasu ◽  
Ken Uchibori ◽  
Takaaki Sasaki ◽  
Mika Tsukahara ◽  
Kazuma Kiyotani ◽  
...  

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Josiah T. Wagner ◽  
Hyun Ji Kim ◽  
Katie C. Johnson-Camacho ◽  
Taylor Kelley ◽  
Laura F. Newell ◽  
...  

Abstract Many emerging technologies are reliant on circulating cell-free DNA (cfDNA) and cell-free RNA (cfRNA) applications in the clinic. However, the impact of diurnal cycles or daily meals on circulating analytes are poorly understood and may be confounding factors when developing diagnostic platforms. To begin addressing this knowledge gap, we obtained plasma from four healthy donors serially sampled five times during 12 h in a single day. For all samples, we measured concentrations of cfDNA and cfRNA using both bulk measurements and gene-specific digital droplet PCR. We found no significant variation attributed to blood draw number for the cfDNA or cfRNA. This indicated that natural diurnal cycles and meal consumption do not appear to significantly affect abundance of total cfDNA, total cfRNA, or our two selected cfRNA transcripts. Conversely, we observed significant variation between individual donors for cfDNA and one of the cfRNA transcripts. The results of this work suggest that it will be important to consider patient-specific baselines when designing reliable circulating cfDNA or cfRNA clinical assays.


2020 ◽  
Vol 22 (7) ◽  
pp. 943-956 ◽  
Author(s):  
Saskia Hussung ◽  
Marie Follo ◽  
Rhena F.U. Klar ◽  
Sandra Michalczyk ◽  
Kornelia Fritsch ◽  
...  

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Atsushi Kondo ◽  
China Nagano ◽  
Shinya Ishiko ◽  
Takashi Omori ◽  
Yuya Aoto ◽  
...  

AbstractGitelman syndrome is an autosomal recessive inherited salt-losing tubulopathy. It has a prevalence of around 1 in 40,000 people, and heterozygous carriers are estimated at approximately 1%, although the exact prevalence is unknown. We estimated the predicted prevalence of Gitelman syndrome based on multiple genome databases, HGVD and jMorp for the Japanese population and gnomAD for other ethnicities, and included all 274 pathogenic missense or nonsense variants registered in HGMD Professional. The frequencies of all these alleles were summed to calculate the total variant allele frequency in SLC12A3. The carrier frequency and the disease prevalence were assumed to be twice and the square of the total allele frequency, respectively, according to the Hardy–Weinberg principle. In the Japanese population, the total carrier frequencies were 0.0948 (9.5%) and 0.0868 (8.7%) and the calculated prevalence was 0.00225 (2.3 in 1000 people) and 0.00188 (1.9 in 1000 people) in HGVD and jMorp, respectively. Other ethnicities showed a prevalence varying from 0.000012 to 0.00083. These findings indicate that the prevalence of Gitelman syndrome in the Japanese population is higher than expected and that some other ethnicities also have a higher prevalence than has previously been considered.


2021 ◽  
Author(s):  
Antony Tin ◽  
Vasily Aushev ◽  
Ekaterina Kalashnikova ◽  
Raheleh Salari ◽  
Svetalana Shchegrova ◽  
...  

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