Aptamer Bioinformatics

Int J Mol Sci. 2017 Nov 24;18(12):2516. doi: 10.3390/ijms18122516.


Aptamers are short nucleic acid sequences capable of specific, high-affinity molecular binding. They are isolated via SELEX (Systematic Evolution of Ligands by Exponential Enrichment), an evolutionary process that involves iterative rounds of selection and amplification before sequencing and aptamer characterization. As aptamers are genetic in nature, bioinformatic approaches have been used to improve both aptamers and their selection. This review will discuss the advancements made in several enclaves of aptamer bioinformatics, including simulation of aptamer selection, fragment-based aptamer design, patterning of libraries, identification of lead aptamers from high-throughput sequencing (HTS) data and in silico aptamer optimization.

Keywords: HTS; aptamer; fragment based design; in silico selection; molecular dynamics; simulation.

Publication types

  • Review

MeSH terms

  • Aptamers, Nucleotide / chemistry*
  • Aptamers, Nucleotide / pharmacology
  • Computational Biology / methods*
  • Ligands
  • Molecular Docking Simulation
  • SELEX Aptamer Technique / methods*


  • Aptamers, Nucleotide
  • Ligands