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Updated: Feb 19, 2026

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

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FragmentFinder-a user-friendly, Windows-based tool for identifying and characterizing short RNAs excised from any

Jeffrey D DeMeis¹, Courtlyn M Breaux², Allison H Powell²

¹Department of Pharmacology, Frederick P. Whiddon College of Medicine, University of South Alabama, Mobile, AL 36688, United States.

NAR Genomics and Bioinformatics

|February 18, 2026

Summary

This summary is machine-generated.

Researchers developed FragmentFinder, a user-friendly tool to identify and characterize short noncoding RNA (sncRNA) fragments. This platform analyzes all sncRNA-derived RNAs, including novel fragments, from sequencing data without requiring computational expertise.

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Last Updated: Feb 19, 2026

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

Area of Science:

* Molecular Biology
* Genomics
* Bioinformatics

Background:

* Short noncoding RNAs (sncRNAs) <200 nucleotides regulate cellular activities.
* MicroRNAs (miRNAs) are a key class of sncRNAs involved in gene regulation.
* Novel regulatory sncRNA fragments are often overlooked in analyses.

Purpose of the Study:

* To develop a user-friendly platform for identifying and characterizing sncRNA fragments.
* To enable the analysis of both annotated and unknown sncRNA-derived RNAs.
* To overcome computational barriers in sncRNA fragment analysis.

Main Methods:

* Development of FragmentFinder, a Windows-executable software.
* Real-time characterization of sncRNA-derived RNAs from raw small RNA sequencing data.
* Designed for users with minimal programming experience.

Main Results:

* FragmentFinder accurately characterizes all sncRNA-derived RNAs, including novel fragments.
* The platform requires no computational background for operation.
* Enables comprehensive analysis of sncRNA expression profiles.

Conclusions:

* FragmentFinder provides an accessible solution for sncRNA fragment analysis.
* Facilitates the study of previously uncharacterized sncRNA fragments.
* Advances the understanding of regulatory RNA biology.