Searching journal content for articles similar to Heid et al. 6 (10): 986.

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  1. Method: Quantitative mitochondrial DNA copy number determination using droplet digital PCR with single-cell resolution
    • Ryan O'Hara,
    • Enzo Tedone,
    • Andrew Ludlow,
    • Ejun Huang,
    • Beatrice Arosio,
    • Daniela Mari,
    • and Jerry W. Shay
    Genome Res. November 2019 29: 1878-1888; Published in Advance September 23, 2019, doi:10.1101/gr.250480.119
    ...and therefore might be considered as a biomarker that mirrors alterations within the human body. Here, we present a new quantitative, highly sensitive droplet digital PCR (ddPCR) method, droplet digital mitochondrial DNA measurement (ddMDM), to measure mtDNA copy number not only from cell populations but also...
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  2. Research: SARS-CoV-2 genomic diversity and the implications for qRT-PCR diagnostics and transmission
    • Nicolae Sapoval,
    • Medhat Mahmoud,
    • Michael D. Jochum,
    • Yunxi Liu,
    • R.A. Leo Elworth,
    • Qi Wang,
    • Dreycey Albin,
    • Huw A. Ogilvie,
    • Michael D. Lee,
    • Sonia Villapol,
    • Kyle M. Hernandez,
    • Irina Maljkovic Berry,
    • Jonathan Foox,
    • Afshin Beheshti,
    • Krista Ternus,
    • Kjersti M. Aagaard,
    • David Posada,
    • Christopher E. Mason,
    • Fritz J. Sedlazeck,
    • and Todd J. Treangen
    Genome Res. April 2021 31: 635-644; Published in Advance February 18, 2021, doi:10.1101/gr.268961.120
    ...targets affects the accuracy of viral quantitative PCR. J Clin Virol 34: 104–107. doi:10.1016/j.jcv.2005.02.010 ↵Wilm A, Aw PPK, Bertrand D, Yeo GHT, Ong SH, Wong CH, Khor CC, Petric R, Hibberd ML, Nagarajan N. 2012. LoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell...
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  3. Method: Determining the impact of uncharacterized inversions in the human genome by droplet digital PCR
    • Marta Puig,
    • Jon Lerga-Jaso,
    • Carla Giner-Delgado,
    • Sarai Pacheco,
    • David Izquierdo,
    • Alejandra Delprat,
    • Magdalena Gayà-Vidal,
    • Jack F. Regan,
    • George Karlin-Neumann,
    • and Mario Cáceres
    Genome Res. May 2020 30: 724-735; Published in Advance May 18, 2020, doi:10.1101/gr.255273.119
    ...that involved handling of the DNA were done pipetting gently with wide-bore tips, and DNA was stored at 4°C. Identity of the isolated DNAs was confirmed by microsatellite analysis.Droplet digital PCR genotypingInversion genotyping by ddPCR assays was carried out by quantitative amplification of three different...
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  4. Method: Quantitative insertion-site sequencing (QIseq) for high throughput phenotyping of transposon mutants
    • Iraad F. Bronner,
    • Thomas D. Otto,
    • Min Zhang,
    • Kenneth Udenze,
    • Chengqi Wang,
    • Michael A. Quail,
    • Rays H.Y. Jiang,
    • John H. Adams,
    • and Julian C. Rayner
    Genome Res. July 2016 26: 980-989; Published in Advance May 10, 2016, doi:10.1101/gr.200279.115
    ...determined using quantitative PCR (qPCR). To distinguish true integrations from putative false positives, ITR-specific sequencing primers were designed 5 bases upstream of the transposon integration site. This meant reads originating from true integration sites would all contain a 5-bp transposon sequence...
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  5. ARTICLES: A novel method for real time quantitative RT-PCR.
    • U E Gibson,
    • C A Heid,
    • and P M Williams
    Genome Res. October 1996 6: 995-1001; doi:10.1101/gr.6.10.995
    ...A novel method for real time quantitative RT-PCR. U E Gibson , C A Heid , and P M Williams Genentech, Inc., South San Francisco, California 94080-4990, USA. Abstract A novel approach to quantitative reverse transcriptase polymerase chain...
  6. Resource: A quantitative atlas of polyadenylation in five mammals
    • Adnan Derti,
    • Philip Garrett-Engele,
    • Kenzie D. MacIsaac,
    • Richard C. Stevens,
    • Shreedharan Sriram,
    • Ronghua Chen,
    • Carol A. Rohl,
    • Jason M. Johnson,
    • and Tomas Babak
    Genome Res. June 2012 22: 1173-1183; Published in Advance March 27, 2012, doi:10.1101/gr.132563.111
    ...was used to reveal thousands of novel polyA sites in C. elegans, but requires many steps during library construction and has not been shown to be quantitative. Lastly, PAS-seq is similar to MAPS in that a universal sequence is upstream of the T20VN, which enables direct amplification by serving as a PCR...
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  7. Resource: Quantitative interaction screen of telomeric repeat-containing RNA reveals novel TERRA regulators
    • Marion Scheibe,
    • Nausica Arnoult,
    • Dennis Kappei,
    • Frank Buchholz,
    • Anabelle Decottignies,
    • Falk Butter,
    • and Matthias Mann
    Genome Res. December 2013 23: 2149-2157; Published in Advance August 6, 2013, doi:10.1101/gr.151878.112
    ...for RNA extraction 48 h later. Quantitative real-time PCR For quantificationofmRNA transcript levels upon individual esiRNA knockdown, RNA was extracted with the RNeasy kit (QIAGEN), including DNase I digestion. cDNA was synthesized from the eluted RNA using the SuperScript III and an oligo(dT) primer...
  8. Method: Quantitative evaluation of all hexamers as exonic splicing elements
    • Shengdong Ke,
    • Shulian Shang,
    • Sergey M. Kalachikov,
    • Irina Morozova,
    • Lin Yu,
    • James J. Russo,
    • Jingyue Ju,
    • and Lawrence A. Chasin
    Genome Res. August 2011 21: 1360-1374; Published in Advance June 9, 2011, doi:10.1101/gr.119628.110
    ...Quantitative evaluation of all hexamers as exonic splicing elements Shengdong Ke 1 , Shulian Shang 1 , 4 , Sergey M. Kalachikov 2 , 3 , Irina Morozova 2 , 3 , Lin Yu 2 , 3 , James J. Russo 2 , 3 , Jingyue Ju 2 , 3...
  9. Review: A systematic guide for identifying transcription factors that directly regulate the expression of a gene of interest
    • Andrew D. Bates,
    • Dawid Grzela,
    • Maciej Studzian,
    • Louise Brennan,
    • Moli Williams,
    • Conor Fawcett,
    • Beth Hammond,
    • Manreen Grewal,
    • Marcin Ratajewski,
    • Lukasz Pulaski,
    • and Urszula L. McClurg
    Genome Res. March 2026 36: 433-459; Published in Advance February 17, 2026, doi:10.1101/gr.281154.125
    ...DNA); this cDNA template is used for the quantitative PCR or real-time PCR reaction (qRT-PCR). Specific target fluorescent DNA-binding probes or fluorescent dsDNA-binding dyes (nonspecific used with target-specific primers) are incorporated during the PCR reaction, so that the increase in emitted fluorescence...
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  10. ARTICLE: Improved quantitative PCR using nested primers.
    • L A Haff
    Genome Res. June 1994 3: 332-337
    ...PCR product yield in a nested-primer HIV-1 PCR. References 1. Higuchi, R., Fockler, C. Dollinger, G. and Watson. R. 1993 . Kinetic PCR analysis: Real-time monitoring of DNA amplification reactions. Biotechnology 11 : 1026 – 1030 . 2. Wang, A.M. and D.F. Mark. 1990. Quantitative PCR. In PCR protocols...
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