A new method for detecting differential peaks from ATAC-seq data

Yucheng Duan

doi:10.1117/12.3012828

8 January 2024 A new method for detecting differential peaks from ATAC-seq data

Yucheng Duan

Proceedings Volume 12924, Third International Conference on Biological Engineering and Medical Science (ICBioMed2023); 1292419 (2024) https://doi.org/10.1117/12.3012828
Event: 3rd International Conference on Biological Engineering and Medical Science (ICBioMed2023), 2023, ONLINE, United Kingdom

Abstract

In the rapidly expanding domain of plant science research, epigenetics has gained significant attention due to its crucial role in understanding genomic and transcriptomic variations. A key aspect of this research is the study of chromatin accessibility and its open regions. Among various biotechnologies, the ATAC-seq technique, developed in 2013, stands out with its distinct advantages in investigating chromatin accessibility. However, the complexities inherent in plant cells and the limitations of the ATAC-seq data analysis process often result in overlooked or inaccurately identified signal peaks. As a consequence, the effectiveness of this technology in plant science research has been suboptimal compared to its application in animal research. This paper introduces a novel peak detection algorithm that overcomes these challenges by identifying peak differences in ATAC-seq signals without any preconditions. The algorithm's performance is evaluated using simulated data, demonstrating its ability to detect even minute signal differences. By enhancing the efficiency of ATAC-seq data analysis, our algorithm optimizes the analysis of plant chromatin accessibility and gene activity. Ultimately, this advancement can greatly contribute to upstream plant breeding and pathological research in transcription.

(2024) Published by SPIE. Downloading of the abstract is permitted for personal use only.

Citation Download Citation

Yucheng Duan "A new method for detecting differential peaks from ATAC-seq data", Proc. SPIE 12924, Third International Conference on Biological Engineering and Medical Science (ICBioMed2023), 1292419 (8 January 2024); https://doi.org/10.1117/12.3012828

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