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Simple synthesis of massively parallel RNA microarrays via enzymatic conversion from DNA microarrays

Author

Listed:
  • Erika Schaudy

    (University of Vienna)

  • Kathrin Hölz

    (University of Vienna)

  • Jory Lietard

    (University of Vienna)

  • Mark M. Somoza

    (University of Vienna
    Technical University of Munich
    Leibniz Institute for Food Systems Biology at the Technical University of Munich)

Abstract

RNA catalytic and binding interactions with proteins and small molecules are fundamental elements of cellular life processes as well as the basis for RNA therapeutics and molecular engineering. In the absence of quantitative predictive capacity for such bioaffinity interactions, high throughput experimental approaches are needed to sufficiently sample RNA sequence space. Here we report on a simple and highly accessible approach to convert commercially available customized DNA microarrays of any complexity and density to RNA microarrays via a T7 RNA polymerase-mediated extension of photocrosslinked methyl RNA primers and subsequent degradation of the DNA templates.

Suggested Citation

  • Erika Schaudy & Kathrin Hölz & Jory Lietard & Mark M. Somoza, 2022. "Simple synthesis of massively parallel RNA microarrays via enzymatic conversion from DNA microarrays," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-31370-9
    DOI: 10.1038/s41467-022-31370-9
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    References listed on IDEAS

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    1. Eric L. Nostrand & Peter Freese & Gabriel A. Pratt & Xiaofeng Wang & Xintao Wei & Rui Xiao & Steven M. Blue & Jia-Yu Chen & Neal A. L. Cody & Daniel Dominguez & Sara Olson & Balaji Sundararaman & Liju, 2020. "A large-scale binding and functional map of human RNA-binding proteins," Nature, Nature, vol. 583(7818), pages 711-719, July.
    2. Ariel Afek & Honglue Shi & Atul Rangadurai & Harshit Sahay & Alon Senitzki & Suela Xhani & Mimi Fang & Raul Salinas & Zachery Mielko & Miles A. Pufall & Gregory M. K. Poon & Tali E. Haran & Maria A. S, 2020. "DNA mismatches reveal conformational penalties in protein–DNA recognition," Nature, Nature, vol. 587(7833), pages 291-296, November.
    3. Kathrin Hölz & Erika Schaudy & Jory Lietard & Mark M. Somoza, 2019. "Multi-level patterning nucleic acid photolithography," Nature Communications, Nature, vol. 10(1), pages 1-8, December.
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