Baskin Elizabeth, Farouni Rick, Mathé Ewy A
Bioinformatics. 2017 Mar 1;33(5):740-742. doi: 10.1093/bioinformatics/btw688.
Regulatory elements regulate gene transcription, and their location and accessibility is cell-type specific, particularly for enhancers. Mapping and comparing chromatin accessibility between different cell types may identify mechanisms involved in cellular development and disease progression. To streamline and simplify differential analysis of regulatory elements genome-wide using chromatin accessibility data, such as DNase-seq, ATAC-seq, we developed ALTRE ( ALT ered R egulatory E lements), an R package and associated R Shiny web app. ALTRE makes such analysis accessible to a wide range of users-from novice to practiced computational biologists.
https://github.com/Mathelab/ALTRE.
Supplementary data are available at Bioinformatics online.
调控元件调节基因转录，其位置和可及性具有细胞类型特异性，尤其是增强子。绘制并比较不同细胞类型之间的染色质可及性，可能会揭示细胞发育和疾病进展所涉及的机制。为了利用染色质可及性数据（如DNase-seq、ATAC-seq）简化和简化全基因组调控元件的差异分析，我们开发了ALTRE（改变的调控元件），这是一个R包及相关的R Shiny网络应用程序。ALTRE使从新手到经验丰富的计算生物学家等广泛用户都能进行此类分析。
https://github.com/Mathelab/ALTRE。
补充数据可在《生物信息学》在线获取。
