小柯机器人

美国加州大学圣迭戈分校任兵研究小组开发出用于解决多重DNA FISH中染色质结构的空间基因组对准器。相关论文于2023年1月2日在线发表在《自然—生物技术》杂志上。

Title: A spatial genome aligner for resolving chromatin architectures from multiplexed DNA FISH

Author: Jia, Bojing Blair, Jussila, Adam, Kern, Colin, Zhu, Quan, Ren, Bing

Issue&Volume: 2023-01-02

Abstract: Multiplexed fluorescence in situ hybridization (FISH) is a widely used approach for analyzing three-dimensional genome organization, but it is challenging to derive chromosomal conformations from noisy fluorescence signals, and tracing chromatin is not straightforward. Here we report a spatial genome aligner that parses true chromatin signal from noise by aligning signals to a DNA polymer model. Using genomic distances separating imaged loci, our aligner estimates spatial distances expected to separate loci on a polymer in three-dimensional space. Our aligner then evaluates the physical probability observed signals belonging to these loci are connected, thereby tracing chromatin structures. We demonstrate that this spatial genome aligner can efficiently model chromosome architectures from DNA FISH data across multiple scales and be used to predict chromosome ploidies de novo in interphase cells. Reprocessing of previous whole-genome chromosome tracing data with this method indicates the spatial aggregation of sister chromatids in S/G2 phase cells in asynchronous mouse embryonic stem cells and provides evidence for extranumerary chromosomes that remain tightly paired in postmitotic neurons of the adult mouse cortex.

DOI: 10.1038/s41587-022-01568-9

Source: https://www.nature.com/articles/s41587-022-01568-9

Nature Biotechnology：《自然—生物技术》，创刊于1996年。隶属于施普林格·自然出版集团，最新IF：68.164
官方网址：https://www.nature.com/nbt/
投稿链接：https://mts-nbt.nature.com/cgi-bin/main.plex