DeepContact: High-throughput quantification of membrane contact sites based on electron microscopy imaging

doi:10.1083/jcb.202106190

	DeepContact: High-throughput quantification of membrane contact sites based on electron microscopy imaging
	Liu, Liqing 1,5; Yang, Shuxin 2,4; Liu, Yang 2,4; Li, Xixia 5; Hu, Junjie 1,6; Xiao, Li 2,3,4; Xu, Tao 1,6,7
	2022-08-25
发表期刊	JOURNAL OF CELL BIOLOGY
ISSN	0021-9525
卷号	221 期号:9 页码:21
摘要	Membrane contact site (MCS)-mediated organelle interactions play essential roles in the cell. Quantitative analysis of MCSs reveals vital clues for cellular responses under various physiological and pathological conditions. However, an efficient tool is lacking. Here, we developed DeepContact, a deep-learning protocol for optimizing organelle segmentation and contact analysis based on label-free EM. DeepContact presents high efficiency and flexibility in interactive visualizations, accommodating new morphologies of organelles and recognizing contacts in versatile width ranges, which enables statistical analysis of various types of MCSs in multiple systems. DeepContact profiled previously unidentified coordinative rearrangements of MCS types in cultured cells with combined nutritional conditions. DeepContact also unveiled a subtle wave of ER-mitochondrial entanglement in Sertoli cells during the seminiferous epithelial cycle, indicating its potential in bridging MCS dynamics to physiological and pathological processes.
DOI	10.1083/jcb.202106190
收录类别	SCI
语种	英语
资助项目	National Natural Science Foundation of China[32027901] ; National Natural Science Foundation of China[31730054] ; National Natural Science Foundation of China[91854202] ; National Natural Science Foundation of China[31900979] ; National Natural Science Foundation of China[31700748] ; National Key Research and Development Program of China[2017YFA0504702] ; Chinese Academy of Sciences[XDB39000000] ; CCF-Tencent Open Fund
WOS研究方向	Cell Biology
WOS类目	Cell Biology
WOS记录号	WOS:000868653800001
出版者	ROCKEFELLER UNIV PRESS
引用统计	被引频次：12[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://119.78.100.204/handle/2XEOYT63/19777
专题	中国科学院计算技术研究所期刊论文
通讯作者	Hu, Junjie; Xiao, Li; Xu, Tao
作者单位	1.Chinese Acad Sci, Inst Biophys, Natl Lab Biomacromol, Beijing, Peoples R China 2.Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, Beijing, Peoples R China 3.Univ Chinese Acad Sci, Ningbo HuaMei Hosp, Ningbo, Peoples R China 4.Univ Chinese Acad Sci, Sch Comp & Control Engn, Beijing, Peoples R China 5.Chinese Acad Sci, Ctr Biol Imaging, Inst Biophys, Beijing, Peoples R China 6.Univ Chinese Acad Sci, Coll Life Sci, Beijing, Peoples R China 7.Guangzhou Med Univ, Sch Biomed Engn, Guangzhou, Guangdong, Peoples R China
推荐引用方式 GB/T 7714	Liu, Liqing,Yang, Shuxin,Liu, Yang,et al. DeepContact: High-throughput quantification of membrane contact sites based on electron microscopy imaging[J]. JOURNAL OF CELL BIOLOGY,2022,221(9):21.
APA	Liu, Liqing.,Yang, Shuxin.,Liu, Yang.,Li, Xixia.,Hu, Junjie.,...&Xu, Tao.(2022).DeepContact: High-throughput quantification of membrane contact sites based on electron microscopy imaging.JOURNAL OF CELL BIOLOGY,221(9),21.
MLA	Liu, Liqing,et al."DeepContact: High-throughput quantification of membrane contact sites based on electron microscopy imaging".JOURNAL OF CELL BIOLOGY 221.9(2022):21.