cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data
cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data
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DOI：
10.1038/s41592-019-0367-1
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发表时间：
2019-05-01
期刊：
影响因子：
48
通讯作者：
Aerts, Stein
中科院分区：
文献类型：
--
作者：
Gonzalez-Blas, Carmen Bravo;Minnoye, Liesbeth;Aerts, Stein
我们提出了cisTopic，这是一个概率框架，用于从稀疏的单细胞表观基因组学数据中同时发现可共存的增强子和稳定的细胞状态（http：//github.com/aertslab/cistopic）。使用来自区分造血细胞，脑和转录因子扰动的单细胞ATAC-seq数据集的概要，我们证明了主题建模可以用于细胞类型，增强子和相关转录因子的稳健识别。cisTopic提供了对细胞群体中调节异质性的潜在机制的深入了解。
We present cisTopic, a probabilistic framework used to simultaneously discover coaccessible enhancers and stable cell states from sparse single-cell epigenomics data (http://github.com/aertslab/cistopic). Using a compendium of single-cell ATAC-seq datasets from differentiating hematopoietic cells, brain and transcription factor perturbations, we demonstrate that topic modeling can be exploited for robust identification of cell types, enhancers and relevant transcription factors. cisTopic provides insight into the mechanisms underlying regulatory heterogeneity in cell populations.