Literature DB >> 23182074

Viral diagnostics in the era of digital polymerase chain reaction.

Ruth Hall Sedlak1, Keith R Jerome.   

Abstract

Unlike quantitative polymerase chain reaction (qPCR), digital PCR (dPCR) achieves sensitive and accurate absolute quantitation of a DNA sample without the need for a standard curve. A single PCR reaction is divided into many separate reactions that each have a positive or negative signal. By applying Poisson statistics, the number of DNA molecules in the original sample is directly calculated from the number of positive and negative reactions. The recent availability of multiple commercial dPCR platforms has led to increased interest in clinical diagnostic applications, such as low viral load detection and low abundance mutant detection, where dPCR could be superior to traditional qPCR. Here we review current literature that demonstrates dPCR's potential utility in viral diagnostics, particularly through absolute quantification of target DNA sequences and rare mutant allele detection.
Copyright © 2013 Elsevier Inc. All rights reserved.

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Year:  2012        PMID: 23182074      PMCID: PMC3519953          DOI: 10.1016/j.diagmicrobio.2012.10.009

Source DB:  PubMed          Journal:  Diagn Microbiol Infect Dis        ISSN: 0732-8893            Impact factor:   2.803


  24 in total

1.  Digital PCR.

Authors:  B Vogelstein; K W Kinzler
Journal:  Proc Natl Acad Sci U S A       Date:  1999-08-03       Impact factor: 11.205

Review 2.  Real-time PCR in virology.

Authors:  Ian M Mackay; Katherine E Arden; Andreas Nitsche
Journal:  Nucleic Acids Res       Date:  2002-03-15       Impact factor: 16.971

3.  Optimization of quantitative detection of cytomegalovirus DNA in plasma by real-time PCR.

Authors:  Michael Boeckh; MeeiLi Huang; James Ferrenberg; Terry Stevens-Ayers; Laurence Stensland; W Garrett Nichols; Lawrence Corey
Journal:  J Clin Microbiol       Date:  2004-03       Impact factor: 5.948

4.  Human herpesvirus 6 DNA levels in cerebrospinal fluid due to primary infection differ from those due to chromosomal viral integration and have implications for diagnosis of encephalitis.

Authors:  Katherine N Ward; Hoe Nam Leong; Anton D Thiruchelvam; Claire E Atkinson; Duncan A Clark
Journal:  J Clin Microbiol       Date:  2007-01-17       Impact factor: 5.948

5.  Comparison of methods for extraction of viral DNA from cellular specimens.

Authors:  Linda Cook; Ederlyn E Atienza; Arthur Bagabag; Rose M Obrigewitch; Keith R Jerome
Journal:  Diagn Microbiol Infect Dis       Date:  2009-02-18       Impact factor: 2.803

6.  Low-level detection and quantitation of cellular HIV-1 DNA and 2-LTR circles using droplet digital PCR.

Authors:  Timothy J Henrich; Sebastien Gallien; Jonathan Z Li; Florencia Pereyra; Daniel R Kuritzkes
Journal:  J Virol Methods       Date:  2012-09-04       Impact factor: 2.014

7.  Identification of ras oncogene mutations in the stool of patients with curable colorectal tumors.

Authors:  D Sidransky; T Tokino; S R Hamilton; K W Kinzler; B Levin; P Frost; B Vogelstein
Journal:  Science       Date:  1992-04-03       Impact factor: 47.728

8.  Single-molecule detection of epidermal growth factor receptor mutations in plasma by microfluidics digital PCR in non-small cell lung cancer patients.

Authors:  Tony K F Yung; K C Allen Chan; Tony S K Mok; Joanna Tong; Ka-Fai To; Y M Dennis Lo
Journal:  Clin Cancer Res       Date:  2009-03-10       Impact factor: 12.531

9.  Quantitation of targets for PCR by use of limiting dilution.

Authors:  P J Sykes; S H Neoh; M J Brisco; E Hughes; J Condon; A A Morley
Journal:  Biotechniques       Date:  1992-09       Impact factor: 1.993

10.  High-throughput quantitative polymerase chain reaction in picoliter droplets.

Authors:  Margaret Macris Kiss; Lori Ortoleva-Donnelly; N Reginald Beer; Jason Warner; Christopher G Bailey; Bill W Colston; Jonathon M Rothberg; Darren R Link; John H Leamon
Journal:  Anal Chem       Date:  2008-12-01       Impact factor: 6.986

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  43 in total

1.  Another transistor-based revolution: on-chip qPCR.

Authors:  Carlotta Guiducci; Fabio M Spiga
Journal:  Nat Methods       Date:  2013-07       Impact factor: 28.547

2.  Absolute determination of single-stranded and self-complementary adeno-associated viral vector genome titers by droplet digital PCR.

Authors:  Martin Lock; Mauricio R Alvira; Shu-Jen Chen; James M Wilson
Journal:  Hum Gene Ther Methods       Date:  2014-02-14       Impact factor: 2.396

3.  Emerging infections of the central nervous system.

Authors:  Jennifer Lyons; Justin McArthur
Journal:  Curr Infect Dis Rep       Date:  2013-12       Impact factor: 3.725

4.  Narrowing of the Diagnostic Gap of Acute Gastroenteritis in Children 0-6 Years of Age Using a Combination of Classical and Molecular Techniques, Delivers Challenges in Syndromic Approach Diagnostics.

Authors:  Andrej Steyer; Monika Jevšnik; Miroslav Petrovec; Marko Pokorn; Štefan Grosek; Adela Fratnik Steyer; Barbara Šoba; Tina Uršič; Tjaša Cerar Kišek; Marko Kolenc; Marija Trkov; Petra Šparl; Raja Duraisamy; W Ian Lipkin; Sara Terzić; Mojca Kolnik; Tatjana Mrvič; Amit Kapoor; Franc Strle
Journal:  Pediatr Infect Dis J       Date:  2016-09       Impact factor: 2.129

5.  Development of a quantitative recombinase polymerase amplification assay with an internal positive control.

Authors:  Zachary A Crannell; Brittany Rohrman; Rebecca Richards-Kortum
Journal:  J Vis Exp       Date:  2015-03-30       Impact factor: 1.355

6.  Comparative evaluation of three commercial quantitative cytomegalovirus standards by use of digital and real-time PCR.

Authors:  R T Hayden; Z Gu; S S Sam; Y Sun; L Tang; S Pounds; A M Caliendo
Journal:  J Clin Microbiol       Date:  2015-02-18       Impact factor: 5.948

7.  Development and assessment of a duplex droplet digital PCR method for quantification of GM rice Kemingdao.

Authors:  Jun Li; Shanshan Zhai; Hongfei Gao; Fang Xiao; Yunjing Li; Gang Wu; Yuhua Wu
Journal:  Anal Bioanal Chem       Date:  2021-05-22       Impact factor: 4.142

Review 8.  Applications of Digital PCR for Clinical Microbiology.

Authors:  Jane Kuypers; Keith R Jerome
Journal:  J Clin Microbiol       Date:  2017-03-15       Impact factor: 5.948

Review 9.  Emerging technologies for the clinical microbiology laboratory.

Authors:  Blake W Buchan; Nathan A Ledeboer
Journal:  Clin Microbiol Rev       Date:  2014-10       Impact factor: 26.132

Review 10.  Detection of congenital cytomegalovirus in newborns using nucleic acid amplification techniques and its public health implications.

Authors:  Guoyu Liu; Rong Hai; Fenyong Liu
Journal:  Virol Sin       Date:  2017-10-30       Impact factor: 4.327

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