Single-cell ATAC-seq data analysis method

Abstract

The invention provides a single-cell ATAC-seq data analysis method. The single-cell ATAC-seq data analysis method comprises the following steps: S1, performing data analysis and quality control on sequencing original data; S2, performing comparative analysis; S3, analyzing an insertion fragment; S4, carrying out Peak analysis on the enrichment region; S5, classifying the single-cell subgroups; S6,carrying out annotation and enrichment on the Peak related genes; S7, carrying out TF-motif analysis; S8, carrying out the subgroup accessibility difference analysis; S9, analyzing related genes of the difference accessibility sites, and annotating genes corresponding to the transcription start sites closest to the peak region where the identified difference TF-motif is located, and the like. According to the method, a comprehensive single-cell ATAC-seq data analysis process with rich analysis contents is constructed; the analysis result reveals a large amount of biological information, people can deeply excavate biological phenomena and characteristics contained in the single-cell level conveniently, the analysis process and result are visually displayed in the form of html, the analysiscontent is clear in hierarchy, the result display forms are diversified, and the readability of the report is improved.

Description

technical field [0001] The invention belongs to the technical field of bioinformatics, and in particular relates to the technical field of biological analysis of single-cell ATAC-Seq data. Background technique [0002] It is well known that the chromatin in most genomes is tightly coiled in the nucleus, and only a small area is relatively loose. This part of the naked DNA area without nucleosomes is called open chromatin (open chromatin), DNA replication and gene transcription Often occurs in these areas. ATAC-seq (Assay for Transposase-Accessible Chromatin with high-throughput sequencing) is to use Tn5 transposase to cut open chromatin regions, and add sequencing primers for high-throughput sequencing, and identify them through bioinformatics analysis Transcription factor binding sites and nucleosome region locations, thus providing effective methods for studying gene regulation, DNA imprinting, etc. [0003] At present, single-cell technology is developing rapidly, and t...

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Problems solved by technology

[0004] However, at present, there is no unified standard for the analysis process of single-cell epigenetic group sequencing data. The Chinese patent with publication number CN 107368701A discloses a large-scale single-cell ATAC-seq data quality control and analysis method, including Quality control at the level of sequencing fragments and multi-cell levels, quality control at the single-cell level, cell clustering and detection of cell-specific peaks, and finally provide users with a quality control report document

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