README.md

EpiTxDb

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The epitranscriptome includes all post-transcriptional modifications of the RNA and describes and additional layer of information encoded on RNA. Like the term epigenome it is not about a change in nucleotide sequences, but the addition of functional elements through modifications.

With the development of high throughput detection strategies for specific RNA modifications, such as miCLIP and Pseudo-Seq amongst other, a large number of modified positions have been identified and were summarized via the RMBase project (Xuan et al. 2017, Sun et al. 2015) project.

To make these information avaialble within the Bioconductor universe EpiTxDb was developed, which facilitates the storage of epitranscriptomic information. More specifically, it can keep track of modification identity, position, the enzyme for introducing it on the RNA, a specifier which determines the position on the RNA to be modified and the literature references each modification is associated with.

Installation

The current version of the EpiTxDb package is available from Bioconductor.

Github

remotes::install_github("FelixErnst/EpiTxDb")
#
library(EpiTxDb)

Bioconductor

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("EpiTxDb")
library(EpiTxDb)

Literature



FelixErnst/EpiTxDb documentation built on March 31, 2024, 1:21 a.m.