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Circular Trajectory Reconstruction Uncovers Cell-Cycle Progression and Regulatory Dynamics from Single-Cell Hi-C Maps
Ye, Yusen1; Gao, Lin1; Zhang, Shihua2,3,4
2019-09-30
Source PublicationADVANCED SCIENCE
Pages13
AbstractSingle-cell Hi-C technology is emerging and will provide unprecedented opportunities to elucidate chromosomal dynamics with high resolution. How to characterize pseudo time-series of single cells using single-cell Hi-C maps is an essential and challenging topic. To this end, a powerful circular trajectory reconstruction tool CIRCLET is developed to resolve cell cycle phases of single cells by considering multiscale features of chromosomal architectures without specifying a starting cell. CIRCLET reveals its best superiority based on the combination of one feature set about global information and another two feature sets about local interactional information in terms of designed evaluation indexes and verification strategies from a collection of cell-cycle Hi-C maps of 1171 single cells. Further division of the reconstructed trajectory into 12 stages helps to accurately characterize the dynamics of chromosomal structures and explain the special regulatory events along cell-cycle progression. Last but not the least, the reconstructed trajectory helps to uncover important regulatory genes related with dynamic substructures, providing a novel framework for discovering regulatory regions even cancer markers at single-cell resolution.
Keywordcell cycle chromosomal architectures circular trajectory dynamic structures single-cell Hi-C maps
DOI10.1002/advs.201900986
Language英语
Funding ProjectNational Natural Science Foundation of China[61873198] ; National Natural Science Foundation of China[61532014] ; National Natural Science Foundation of China[61432010] ; National Natural Science Foundation of China[11661141019] ; National Natural Science Foundation of China[61621003] ; National Natural Science Foundation of China[61422309] ; National Natural Science Foundation of China[61379092] ; Strategic Priority Research Program of the Chinese Academy of Sciences (CAS)[XDB13040600] ; Key Research Program of the Chinese Academy of Sciences[KFZD-SW-219] ; National Key Research and Development Program of China[2017YFC0908405] ; CAS Frontier Science Research Key Project for Top Young Scientist[QYZDB-SSW-SYS008]
WOS Research AreaChemistry ; Science & Technology - Other Topics ; Materials Science
WOS SubjectChemistry, Multidisciplinary ; Nanoscience & Nanotechnology ; Materials Science, Multidisciplinary
WOS IDWOS:000488171600001
PublisherWILEY
Citation statistics
Document Type期刊论文
Identifierhttp://ir.amss.ac.cn/handle/2S8OKBNM/35749
Collection应用数学研究所
Corresponding AuthorGao, Lin; Zhang, Shihua
Affiliation1.Xidian Univ, Sch Comp Sci & Technol, Xian 710071, Shaanxi, Peoples R China
2.Chinese Acad Sci, Acad Math & Syst Sci, RCSDS, CEMS,NCMIS, Beijing 100190, Peoples R China
3.Univ Chinese Acad Sci, Sch Math Sci, Beijing 100049, Peoples R China
4.Chinese Acad Sci, Ctr Excellence Anim Evolut & Genet, Kunming 650223, Yunnan, Peoples R China
Recommended Citation
GB/T 7714
Ye, Yusen,Gao, Lin,Zhang, Shihua. Circular Trajectory Reconstruction Uncovers Cell-Cycle Progression and Regulatory Dynamics from Single-Cell Hi-C Maps[J]. ADVANCED SCIENCE,2019:13.
APA Ye, Yusen,Gao, Lin,&Zhang, Shihua.(2019).Circular Trajectory Reconstruction Uncovers Cell-Cycle Progression and Regulatory Dynamics from Single-Cell Hi-C Maps.ADVANCED SCIENCE,13.
MLA Ye, Yusen,et al."Circular Trajectory Reconstruction Uncovers Cell-Cycle Progression and Regulatory Dynamics from Single-Cell Hi-C Maps".ADVANCED SCIENCE (2019):13.
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