Figure 2
From: Selection of aptamers against triple negative breast cancer cells using high throughput sequencing
Primary structure, phylogenetic tree, and Gibbs free energy. (A) Multiple sequence alignments of the random region from the twenty-five top-ranked oligonucleotide sequences obtained after NGS of the eighth selection cycle. Highlighted sequences denoted the regions of homology. (B) Phylogenetic analysis of aptamer candidates’ sequences was performed using the Tree Builder function in Geneious software (Geneious version 9.1.4; https://www.geneious.com/). The tree distances and sequence relatedness were determined using a neighbor-joining model with no outgroup. (C) Gibbs free energy of the twenty-five most frequent aptamer sequences was calculated considering the flanking regions, at 37 °C, 187 mM Na+ and 0.5 mM Mg2+, using mfold web server (version 3.0, http://www.unafold.org/mfold/applications/dna-folding-form.php).
