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Academy of Mathematics and Systems Science, CAS
Colloquia & Seminars

Speaker:

曾婉雯 博士,清华大学自动化系

Inviter: 王勇 副研究员
Title:
Deconvolution of chromatin interaction data via single-cell genomics data
Time & Venue:
2018.12.24 9:30 S915
Abstract:

With the rapid development of single-cell genomics technology, researchers are now able to study heterogeneous mixtures of cell populations by simultaneously using scRNA-seq and scATAC-seq data. The accessible regions from scATAC-seq identify the active regulatory elements while the expression profiles from scRNA-seq identify actively transcribed genes. Linkage of active enhancers to their target genes can be established by bulk H3K27ac HiChIP. Unfortunately, HiChIP or other similar experiments require a large number of input cells and hence cannot be performed on single cells. Therefore, It is of considerable scientific significance to be able to deconvolve the bulk sample HiChIP signal into subpopulation-specific HiChIP signals, based on the joint analysis of the following three types of data from separate samples from the same cell population: scRNA-seq, scATAC-seq, bulk H3K27ac HiChIP. Here, we introduce dcHiChIP (for deconvolution of HiChIP) for the solution of this problem. Based on simulation experiments and on real data tests, we conclude that dcHiChIP can decompose bulk HiChIP loop counts into subpopulation-specific loop counts. At the same time, the subpopulation-specific loop counts in turn lead to improved clustering results in the scRNA-seq and scATAC-seq data.

 

 

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