Browsing by Author "Wang, Chunyan"

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    Diagnostics based on nucleic acid sequence variant profiling: PCR, hybridization, and NGS approaches
    (Elsevier, 2016) Khodakov, Dmitriy; Wang, Chunyan; Zhang, David Yu; Bioengineering
    Nucleic acid sequence variations have been implicated in many diseases, and reliable detection and quantitation of DNA/RNA biomarkers can inform effective therapeutic action, enabling precision medicine. Nucleic acid analysis technologies being translated into the clinic can broadly be classified into hybridization, PCR, and sequencing, as well as their combinations. Here we review the molecular mechanisms of popular commercial assays, and their progress in translation into in vitro diagnostics.
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    Native characterization of nucleic acid motif thermodynamics via non-covalent catalysis
    (Nature Publishing Group, 2016) Wang, Chunyan; Bae, Jin H.; Zhang, David Yu; Bioengineering; Systems, Synthetic, and Physical Biology
    DNA hybridization thermodynamics is critical for accurate design of oligonucleotides for biotechnology and nanotechnology applications, but parameters currently in use are inaccurately extrapolated based on limited quantitative understanding of thermal behaviours. Here, we present a method to measure the ΔG° of DNA motifs at temperatures and buffer conditions of interest, with significantly better accuracy (6- to 14-fold lower s.e.) than prior methods. The equilibrium constant of a reaction with thermodynamics closely approximating that of a desired motif is numerically calculated from directly observed reactant and product equilibrium concentrations; a DNA catalyst is designed to accelerate equilibration. We measured the ΔG° of terminal fluorophores, single-nucleotide dangles and multinucleotide dangles, in temperatures ranging from 10 to 45 °C.