primirTSS：一个用于识别细胞特异性 microRNA 转录起始位点的 R 包。
primirTSS: an R package for identifying cell-specific microRNA transcription start sites.
机构信息
The State Key Laboratory of Pharmaceutical Biotechnology and Jiangsu Engineering Research Center for MicroRNA Biology and Biotechnology, NJU Advanced Institute for Life Sciences (NAILS), School of Life Science, Nanjing University, Nanjing 210093, China.
High-Tech Research Institute of Nanjing University, Changzhou, China.
出版信息
Bioinformatics. 2020 Jun 1;36(11):3605-3606. doi: 10.1093/bioinformatics/btaa173.
SUMMARY
The R/Bioconductor package primirTSS is a fast and convenient tool that allows implementation of the analytical method to identify transcription start sites of microRNAs by integrating ChIP-seq data of H3K4me3 and Pol II. It further ensures the precision by employing the conservation score and sequence features. The tool showed a good performance when using H3K4me3 or Pol II Chip-seq data alone as input, which brings convenience to applications where multiple datasets are hard to acquire. This flexible package is provided with both R-programming interfaces as well as graphical web interfaces.
AVAILABILITY AND IMPLEMENTATION
primirTSS is available at: http://bioconductor.org/packages/primirTSS. The documentation of the package including an accompanying tutorial was deposited at: https://bioconductor.org/packages/release/bioc/vignettes/primirTSS/inst/doc/primirTSS.html.
CONTACT
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
R/Bioconductor 包 primirTSS 是一种快速便捷的工具，可通过整合 H3K4me3 和 Pol II 的 ChIP-seq 数据，实现 miRNA 转录起始位点分析方法的实现。它进一步通过使用保守评分和序列特征来确保精度。当单独使用 H3K4me3 或 Pol II Chip-seq 数据作为输入时，该工具表现出良好的性能，这为难以获取多个数据集的应用带来了便利。这个灵活的软件包同时提供了 R 编程语言接口和图形化网络接口。
可用性和实现
primirTSS 可在：http://bioconductor.org/packages/primirTSS 获取。该软件包的文档包括一个随附的教程，已存储在：https://bioconductor.org/packages/release/bioc/vignettes/primirTSS/inst/doc/primirTSS.html。
联系人
补充信息
补充数据可在生物信息学在线获得。
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