Endocrine Regulatory Genomics, Department of Experimental & Health Sciences, University Pompeu Fabra, Barcelona 08003, Spain.
Bioinformatics. 2021 Nov 18;37(22):4240-4242. doi: 10.1093/bioinformatics/btab392.
UMI-4C, a technique that combines chromosome conformation capture (4C) and unique molecular identifiers (UMI), is widely used to profile and quantitatively compare targeted chromosomal contact profiles. The analysis of UMI-4C experiments presents several computational challenges, including the removal of the PCR duplication bias and the identification of differential chromatin contacts.
We have developed UMI4Cats (UMI-4C Analysis Turned Simple), an R package that facilitates processing, analyzing and visualizing of data obtained by UMI-4C experiments.
UMI4Cats is implemented as an R package supported on Linux, MacOS and MS Windows. UMI4Cats is available from Bioconductor (https://www.bioconductor.org/packages/release/bioc/html/UMI4Cats.html) and GitHub (https://github.com/Pasquali-lab/UMI4Cats).
Supplementary data are available at Bioinformatics online.
UMI-4C 技术结合了染色体构象捕获（4C）和独特分子标识符（UMI），被广泛用于分析和定量比较靶向染色体接触谱。UMI-4C 实验的分析提出了一些计算挑战，包括去除 PCR 重复偏差和鉴定差异染色质接触。
我们开发了 UMI4Cats（简单化的 UMI-4C 分析），这是一个 R 包，方便处理、分析和可视化 UMI-4C 实验获得的数据。
UMI4Cats 作为一个支持 Linux、MacOS 和 MS Windows 的 R 包实现。UMI4Cats 可在 Bioconductor（https://www.bioconductor.org/packages/release/bioc/html/UMI4Cats.html）和 GitHub（https://github.com/Pasquali-lab/UMI4Cats）上获得。
补充数据可在 Bioinformatics 在线获得。
