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Updated: Aug 27, 2025

In Vitro Selection of Aptamers to Differentiate Infectious from Non-Infectious Viruses

In Vitro Selection of Aptamers to Differentiate Infectious from Non-Infectious Viruses

Published on: September 7, 2022

FASTAptameR 2.0: A web tool for combinatorial sequence selections.

Skyler T Kramer^1,2, Paige R Gruenke^2,3, Khalid K Alam⁴

¹MU Institute for Data Science and Informatics, University of Missouri, Columbia, MO, USA.

Molecular Therapy. Nucleic Acids

|September 26, 2022

Summary

This summary is machine-generated.

FASTAptameR 2.0 simplifies high-throughput sequencing analysis for biopolymer identification. This R-based toolkit offers a user-friendly interface and faster processing, making complex sequence analysis accessible to more researchers.

Keywords:

MT: Bioinformatics Next-generation sequencing SELEX aptamer combinatorial selection directed evolution phage display ribozyme sequence analysis synthetic biology

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Last Updated: Aug 27, 2025

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Area of Science:

Biotechnology
Bioinformatics
Computational Biology

Background:

Combinatorial selections are vital for discovering biopolymers with desired characteristics.
Existing high-throughput sequencing analysis tools often require advanced programming skills, limiting accessibility.
There is a need for user-friendly software to analyze complex sequence data.

Purpose of the Study:

To introduce FASTAptameR 2.0, an R-based reimplementation of FASTAptamer.
To lower the barrier to entry for high-throughput sequencing analysis.
To provide a tool capable of addressing complex sequence-level and population-level questions.

Main Methods:

Developed FASTAptameR 2.0 as an R-based toolkit.
Integrated a user-friendly web tool and interactive graphics.
Optimized clustering algorithms for up to 100x speed improvement.
Expanded the module set and created an extensive user guide.

Main Results:

FASTAptameR 2.0 offers a simplified approach to sequence analysis.
The toolkit supports diverse input polymer types and sequence-encoded selections.
Enhanced processing speed and user accessibility were achieved.
The software maintains the capability for complex data analysis.

Conclusions:

FASTAptameR 2.0 effectively reduces the technical expertise required for biopolymer identification via sequencing.
The toolkit enhances the accessibility and efficiency of analyzing sequence-based selection data.
It serves as a valuable resource for researchers in various biological and chemical fields.