Exploring Epigenomic Datasets by ChIPseeker

By Qianwen Wang, Ming Li, Tianzhi Wu, Li Zhan, Lin Li, Meijun Chen, W. Xie, Zijing Xie, Erqiang Hu, Shuangbing Xu and 1 more. Current Protocols, 2022

321 citations recorded by the source corpus.

In many aspects of life, epigenetics, or the altering of phenotype without changes in sequences, play an essential role in biological function. A vast number of epigenomic datasets are emerging as a result of the advent of next‐generation sequencing. Annotation, comparison, visualization, and interpretation of epigenomic datasets remain key aspects of computational biology. ChIPseeker is a Bioconductor package for performing these analyses among variable epigenomic datasets. The fundamental functions of ChIPseeker, including data preparation, annotation, comparison, and visualization, are explained in this article. ChIPseeker is a freely available open‐source package that may be found at https://www.bioconductor.org/packages/ChIPseeker. © 2022 Wiley Periodicals LLC.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/c84ae09d1f2c778edf5eb3a221abd46c23efa09e

Citations in the corpus

• Using clusterProfiler to characterize multiomics data (2024, unknown): “By integrating our developed packages such as ReactomePA 17 , meshes 18 , DOSE 19 , GOSemSim 20 and ChIPseeker 21,22 into the framework of clusterProfiler, we have extended the software’s capability to conduct detailed analyses across multiple dimensions, offering insights into biological…”