Super resolution imaging of a distinct chromatin loop in human lymphoblastoid cells
Super resolution imaging of a distinct chromatin loop in human lymphoblastoid cells
Abstract The three-dimensional genome structure plays a fundamental role in gene regulation and cellular functions. Recent studies in genomics based on sequencing technologies inferred the very basic functional chromatin folding structures of the genome known as chromatin loops, the long-range chromatin interactions that are often mediated by protein factors. To visualize the looping structure of chromatin we applied super-resolution microscopy iPALM to image a specific chromatin loop in GM12878 cells. Totally, we have generated six images of the target chromatin region at the single molecule resolution. To infer the chromatin structures from the captured images, we modeled them as looping conformations using different computational algorithms and then evaluated the models by comparing with Hi-C data to examine the concordance. The results showed a good correlation between the imaging data and sequencing data, suggesting the visualization of higher-order chromatin structures for the very short genomic segments can be realized by microscopic imaging.
Aaron Jesse、Chew Teng-Leong、Zhu Jacqueline Jufen、Lee Byoungkoo、Szalaj Przemyslaw、Jodkowska Karolina、Parteka Zofia、Plewczynski Dariusz、Wang Ping、Ruan Yijun
Advanced Imaging Center, Janelia Research Campus, Howard Hughes Medical InstituteAdvanced Imaging Center, Janelia Research Campus, Howard Hughes Medical InstituteThe Jackson Laboratory for Genomic Medicine||Department of Genetics and Genome Sciences, University of Connecticut Health CenterThe Jackson Laboratory for Genomic MedicineCentre of New Technologies, University of Warsaw||Center for Bioinformatics and Data Analysis, Medical University of Bialystok||I-BioStat, Hasselt UniversityCentre of New Technologies, University of WarsawCentre of New Technologies, University of Warsaw||Faculty of Mathematics and Information Science, Warsaw University of TechnologyCentre of New Technologies, University of Warsaw||Faculty of Mathematics and Information Science, Warsaw University of TechnologyThe Jackson Laboratory for Genomic MedicineThe Jackson Laboratory for Genomic Medicine||Department of Genetics and Genome Sciences, University of Connecticut Health Center||National key laboratory of crop genetic improvement, College of Life Sciences and Technology, Huazhong Agricultural University
生物科学研究方法、生物科学研究技术生物科学理论、生物科学方法分子生物学
Aaron Jesse,Chew Teng-Leong,Zhu Jacqueline Jufen,Lee Byoungkoo,Szalaj Przemyslaw,Jodkowska Karolina,Parteka Zofia,Plewczynski Dariusz,Wang Ping,Ruan Yijun.Super resolution imaging of a distinct chromatin loop in human lymphoblastoid cells[EB/OL].(2025-03-28)[2025-05-18].https://www.biorxiv.org/content/10.1101/621920.点此复制
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