2020,
Genome Biology.
DOI:
10.1186/s13059-020-02167-0
Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation
Abbas Roayaei Ardakany, Halil Tuvan Gezer, Stefano Lonardi, Ferhat Ay
Abstract:
Abstract We presentMustache , a new method for multi-scale detection of chromatin loops from Hi-C and Micro-C contact maps.Mustache employs scale-space theory, a technical advance in computer vision, to detect blob-shaped objects in contact maps.Mustache is scalable to kilobase-resolution maps and reports loops that are highly consistent between replicates and between Hi-C and Micro-C datasets. Compared to other loop callers, such as HiCCUPS and SIP,Mustache recovers a higher number of published ChIA-PET and HiChIP loops as well as loops linking promoters to regulatory elements. Overall,Mustache enables an efficient and comprehensive analysis of chromatin loops. Available at:https://github.com/ay-lab/mustache .
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2024-04-30 13:16:00
徐炳祥:
#paper doi: 10.1186/s13059-020-02167-0 Genome Biology, 2020, Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation。染色质环是染色质空间构象的重要组成部分，也是启动子-增强子相互作用的重要物理背景。基于Hi-C数据的染色质环检测是当前三维基因组学的重要命题。本文立足于计算机视觉中的尺度稳定斑点检测技术开发了一种高灵敏度，高稳定的基于染色质相互作用图谱的染色质环检测算法。该算法是局部最大值搜索这一思路的最新作品，能在保证染色质换检测准确度的前体下大幅度提高其灵敏度。其综合性能为此类算法中最优者。