Evolution of Cell-Type-Specific RNA Aptamers via Live Cell-Based SELEX

Methods Mol Biol. 2023:2666:317-346. doi: 10.1007/978-1-0716-3191-1_22.

Abstract

Live cell-based SELEX (Systematic Evolution of Ligand EXponential enrichment) is a promising approach for identifying aptamers that can selectively bind to a cell-surface receptor or recognize a particular target cell population. In particular, it offers a facile selection strategy for some special cell-surface proteins that are originally glycosylated or heavily posttranslationally modified and are unavailable in their native/active conformation after in vitro expression and purification. In this chapter, we describe a generalized procedure for evolution of cell type-specific RNA aptamers targeting a cell membrane bound target by combining the live cell-based SELEX strategy with high-throughput sequencing (HTS) and bioinformatics analysis.

Keywords: Cell-type-specific RNA aptamer; High-throughput sequencing (HTS); Live cell-based SELEX.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Aptamers, Nucleotide* / genetics
  • Aptamers, Nucleotide* / metabolism
  • Computational Biology
  • High-Throughput Nucleotide Sequencing / methods
  • Ligands
  • SELEX Aptamer Technique / methods

Substances

  • Aptamers, Nucleotide
  • Ligands