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Related Experiment Video

Updated: Feb 3, 2026

Detection and Monitoring of Tumor Associated Circulating DNA in Patient Biofluids

Detection and Monitoring of Tumor Associated Circulating DNA in Patient Biofluids

Published on: June 8, 2019

TNER: a novel background error suppression method for mutation detection in circulating tumor DNA.

Shibing Deng¹, Maruja Lira², Donghui Huang²

¹Pfizer Early Clinical Development Biostatistics, Cambridge, UK.

BMC Bioinformatics

|October 22, 2018

Summary

Tri-Nucleotide Error Reducer (TNER) improves cancer detection accuracy by reducing sequencing errors in circulating tumor DNA (ctDNA). This novel method enhances the specificity of mutation detection, aiding early cancer diagnosis and monitoring.

Keywords:

Error suppression Next-generation sequencing Single-nucleotide variant Variant calling ctDNA

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Detection and Monitoring of Tumor Associated Circulating DNA in Patient Biofluids

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Next Generation Sequencing for the Detection of Actionable Mutations in Solid and Liquid Tumors

Next Generation Sequencing for the Detection of Actionable Mutations in Solid and Liquid Tumors

Published on: September 20, 2016

Area of Science:

Genomics
Bioinformatics
Cancer Research

Background:

Ultra-deep next-generation sequencing of circulating tumor DNA (ctDNA) shows promise for early cancer detection and disease monitoring.
Low ctDNA abundance and technical sequencing errors challenge accurate mutation detection.

Purpose of the Study:

To develop a novel method for background error suppression to improve the accuracy of variant calling in ctDNA.
To enhance the distinction between low-frequency ctDNA mutations and background sequencing errors.

Main Methods:

Introduction of Tri-Nucleotide Error Reducer (TNER), a novel background error suppression method.
Robust estimation of background noise to reduce sequencing errors.
Validation using simulated data and real data from healthy subjects.

Main Results:

TNER consistently outperforms a state-of-the-art, position-specific error polishing model.
Performance advantage is particularly notable with small sample sizes of healthy subjects.
Demonstrated accurate variant calling by distinguishing low-frequency ctDNA mutations from background errors.

Conclusions:

TNER significantly enhances the specificity of ctDNA mutation detection without compromising sensitivity.
The tool provides a robust solution for reducing sequencing errors in ctDNA analysis.
TNER is publicly available for use in cancer research and diagnostics.