bioRxivGenomicsPreprint
Mapping eukaryotic chromatin accessibility and histone modifications with DNA deaminase
Wenyang Dong, Jiankun ZhangiD, Leyi Dai, Jinxin Phaedo Chen, Honggui WuiD, Runsheng He, Yuxuan PangiD, Zhi WangiD, Fanchong JianiD, Jun ReniD, Yijun LiuiD, Yu TianiD, Shuang LiuiD, Xuechen Zhao, Xiaoliang Sunney XieiD
Abstract
A variety of methods such as ATAC-seq and CUT&Tag have been developed for probing chromatin states. However, enzymatic cleavage of DNA in these methods hinders their multi-omics integration with other DNA profiling techniques. Here, by extending our use of dsDNA deaminase (FOOtprinting with DeamInasE, FOODIE), we introduce two new methods for mapping Chromatin Open region by DeamInasE (ChrODIE) and histone modification by ANtibody-associated DeamInasE (ANDIE), respectively. Unlike cleavage-based methods, both ChrODIE and ANDIE leave genomic DNA after deamination unfragmented and amplifiable. This offers the potential for simultaneous or downstream integration with other genomic profiling methods, such as mapping 3D genome interactions.
- assay: ATAC-seq
- assay: CUT&Tag
- assay: DNA methylation
- research focus: variant calling
- research focus: variant effect prediction
- approach: experimental assay
- Citations
- 1
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