A single-cell atac-seq data analysis method

Abstract

The present invention provides a single-cell ATAC-seq data analysis method, comprising the following steps: Step S1, performing data analysis and quality control on the sequencing raw data; Step S2, comparing analysis; Step S3, inserting fragment analysis; Step S4, enriching Peak analysis of set area; step S5, classification of single-cell subgroups; step S6, annotation and enrichment of Peak-related genes; step S7, TF-motif analysis; step S8, difference analysis of subgroup accessibility; step S9, difference Accessibility site-related gene analysis, gene annotation corresponding to the transcription start site closest to the peak region where the identified differential TF-motif is located, etc. The present invention constructs a single-cell ATAC-seq data analysis process that is comprehensive and rich in analysis content. The analysis results reveal a large amount of biological information, which is convenient for people to dig deep into the biological phenomena and characteristics hidden in the single-cell level, and analyze the process and results. Visual display in the form of html, the level of analysis content is clear, and the results are displayed in various forms, which increases the readability of the report.

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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