<b>Statistical modeling of immunoprecipitation efficiency of MeRIP-seq data enabled accurate detection and quantification of epitranscriptome</b>

The MeRIP-seq datasets used in the study titled <i>"Statistical modeling of immunoprecipitation efficiency of MeRIP-seq data enables accurate detection and quantification of epitranscriptome"</i> are obtained from GSE122744, GSE48037, and GSE106124.The first two datasets come from heart and liver tissues (GEO accession: GSE122744). The third dataset contains m6A profiling of U2OS cells treated with deazaadenosine (DAA) (GEO accession: GSE48037). The fourth dataset is from HEL cells (GEO accession: GSE106124).The read counts for U2OS are stored in <code>data/u2os-DAA.rds</code>, and the m6A sites Grange object is located in <code>data/m6Asites_81519_singlebase.rds</code>. Note that the U2OS dataset uses the hg19 genome assembly.For the other datasets, the IP and input read counts are stored in <code>data/SRR(2024-11-24)/Input_counts_108740.rds</code> and <code>data/SRR(2024-11-24)/IP_counts_108740.rds</code>, respectively. The corresponding m6A sites Grange object is located in <code>data/SRR(2024-11-24)/m6A_108740.rds</code>. The <code>colData.rds</code> file contains metadata indicating which columns correspond to specific studies, tissues, or cell lines.The code file contains all the code used in the study, and the results are stored in <code>data/results</code>.<br>Cite:Statistical modeling of immunoprecipitation efficiency of MeRIP-seq data enabled accurate detection and quantification of epitranscriptome - ScienceDirect

本研究题为《MeRIP-seq数据免疫沉淀效率的统计建模可实现表观转录组的精准检测与定量》所使用的甲基化RNA免疫沉淀测序（MeRIP-seq）数据集，取自GSE122744、GSE48037及GSE106124。其中前两个数据集对应心脏与肝脏组织（GEO登录号：GSE122744）。第三个数据集包含经脱氮腺苷（DAA）处理的U2OS细胞的m6A图谱（GEO登录号：GSE48037）。第四个数据集取自HEL细胞（GEO登录号：GSE106124）。
U2OS细胞的读段计数存储于<code>data/u2os-DAA.rds</code>，对应的m6A位点GRanges对象存储于<code>data/m6Asites_81519_singlebase.rds</code>。请注意，U2OS数据集采用hg19基因组组装版本。
其余数据集的免疫沉淀（IP）与输入对照文库读段计数分别存储于<code>data/SRR(2024-11-24)/Input_counts_108740.rds</code>与<code>data/SRR(2024-11-24)/IP_counts_108740.rds</code>。对应的m6A位点GRanges对象存储于<code>data/SRR(2024-11-24)/m6A_108740.rds</code>。<code>colData.rds</code>文件包含元数据，用于标注各列对应的具体研究、组织或细胞系。
本研究的全部代码均收录于代码文件中，分析结果存储于<code>data/results</code>。
引用：《MeRIP-seq数据免疫沉淀效率的统计建模可实现表观转录组的精准检测与定量》 - ScienceDirect

搜集汇总

背景与挑战

背景概述

该数据集整合了来自心脏、肝脏组织及U2OS和HEL细胞的MeRIP-seq原始数据，用于研究m6A修饰的免疫沉淀效率统计建模。数据集包含read counts文件、m6A位点注释对象和元数据，支持表观转录组的准确检测与定量分析。其特点在于覆盖多组织/细胞类型，并提供完整的代码和结果文件，便于生物信息学方法验证和应用。