Next-Generation Sequencing as Input for Chemometrics in Differential Sensing Routines†
Sara Goodwin
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY (USA)
Search for more papers by this authorAlexandra M. Gade
Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorMichelle Byrom
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorBaine Herrera
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorCamille Spears
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorCorresponding Author
Dr. Eric V. Anslyn
Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Eric V. Anslyn, Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Andrew D. Ellington, Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorCorresponding Author
Dr. Andrew D. Ellington
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Eric V. Anslyn, Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Andrew D. Ellington, Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorSara Goodwin
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY (USA)
Search for more papers by this authorAlexandra M. Gade
Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorMichelle Byrom
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorBaine Herrera
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorCamille Spears
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorCorresponding Author
Dr. Eric V. Anslyn
Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Eric V. Anslyn, Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Andrew D. Ellington, Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorCorresponding Author
Dr. Andrew D. Ellington
Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Eric V. Anslyn, Department of Chemistry A1590, The University of Texas at Austin, Austin, TX 78712 (USA)
Andrew D. Ellington, Institute for Cell and Molecular Biology, The University of Texas at Austin, Austin, TX 78712 (USA)
Search for more papers by this authorWe gratefully acknowledge support from both the NIH (R01-GM065515) and the Welch Foundation (F.1151).
Abstract
Differential sensing (DS) methods traditionally use spatially arrayed receptors and optical signals to create score plots from multivariate data which classify individual analytes or complex mixtures. Herein, a new approach is described, in which nucleic acid sequences and sequence counts are used as the multivariate data without the necessity of a spatial array. To demonstrate this approach to DS, previously selected aptamers, identified from the literature, were used as semi-specific receptors, Next-Gen DNA sequencing was used to generate data, and cell line differentiation was the test-bed application. The study of a principal component analysis loading plot revealed cross-reactivity between the aptamers. The technique generates high-dimensionality score plots, and should be applicable to any mixture of complex and subtly different analytes for which nucleic acid-based receptors exist.
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