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This research aims to develop a computational pipeline for efficient targeted long-read transcriptomic analysis using Oxford Nanopore technology.

June 7, 2026Methods and ProtocolsOpen Access

A Lightweight Workflow for Targeted Long-Read Transcriptomic Profiling Using Oxford Nanopore Sequencing

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Randomized trial evaluates targeted long-read transcriptomic profiling, suggesting improved accessibility for analysis in low-resource settings.

This research aims to develop a computational pipeline for efficient targeted long-read transcriptomic analysis using Oxford Nanopore technology.
Developed a pipeline for targeted long-read transcriptomic profiling using ONT data.
Performed sequencing on the Oxford Nanopore MinION platform with FFPE colorectal carcinoma samples.
Utilized minimap2 for alignment and reads-per-million for normalization.
Achieved rapid quantification of mismatch repair gene expression and immune-related transcripts.
Detected transcripts including CD8A, PDCD1, and HAVCR2 across multiplexed samples.
Demonstrated the workflow's low computational demand and reproducibility.

Mariya Levkova (2026) studied this question.

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Randomized trial evaluates targeted long-read transcriptomic profiling, suggesting improved accessibility for analysis in low-resource settings.