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Related Experiment Video

Updated: Feb 7, 2026

Transcriptome Analysis of Single Cells

Transcriptome Analysis of Single Cells

Published on: April 25, 2011

Fusion gene discovery in single cells from high throughput long read single cell transcriptomes.

Cheng-Kai Shiau^1,2, Hsiao-Yun Lin^1,2, Timothy Pan^1,2,3

¹Department of Biochemistry and Molecular Genetics, Northwestern University - Feinberg School of Medicine, Chicago, IL, USA 60611.

Biorxiv : the Preprint Server for Biology

|February 6, 2026

Summary

High throughput long-read single cell RNA sequencing can now discover fusion genes using LongFUSE. This new computational tool accurately detects cell-specific fusion genes and splicing isoforms, outperforming existing methods.

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Published on: September 30, 2018

Area of Science:

Genomics
Bioinformatics
Molecular Biology

Background:

High throughput long-read single cell RNA sequencing enables parallel fusion gene discovery.
Current computational tools lack the robustness for accurate fusion gene detection.

Purpose of the Study:

To develop a robust computational tool for accurate fusion gene and splicing isoform detection.
To address the limitations of existing bioinformatics tools in single cell RNA sequencing analysis.

Main Methods:

Development of LongFUSE, a novel computational tool.
Utilizing XOR logic operations and stringent filtering criteria.
Application in both simulated and real single cell RNA sequencing data.

Main Results:

LongFUSE accurately detects cell-specific fusion genes.
The tool identifies various splicing isoforms of fusion genes.
LongFUSE demonstrates superior performance compared to existing tools.

Conclusions:

LongFUSE provides a robust and accurate solution for fusion gene discovery in single cell RNA sequencing.
The developed tool enhances the analysis of complex transcriptomic data.
This advancement facilitates deeper understanding of gene fusion events at the single cell level.