Live-SIMBA: an ImageJ plug-in for the universal and accelerated single molecule-guided Bayesian localization super resolution microscopy (SIMBA) method

doi:10.1364/BOE.404820

	Live-SIMBA: an ImageJ plug-in for the universal and accelerated single molecule-guided Bayesian localization super resolution microscopy (SIMBA) method
	Li, Hongjia 1,2; Xu, Fan 3; Gao, Shan 1,2; Zhang, Mingshu 4; Xue, Fudong 4; Xu, Pingyong 2,4,5; Zhang, Fa 1,2
	2020-10-01
发表期刊	BIOMEDICAL OPTICS EXPRESS
ISSN	2156-7085
卷号	11 期号:10 页码:5842-5859
摘要	Live-cell super-resolution fluorescence microscopy techniques allow biologists to observe subcellular structures, interactions and dynamics at the nanoscale level. Among of them, single molecule-guided Bayesian localization super resolution microscopy (SIMBA) and its derivatives produce an appropriate 50 nm spatial resolution and a 0.1-2s temporal resolution in living cells with simple off-the-shelf total internal reflection fluorescence (TIRF) equipment. However, SIMBA and its derivatives are limited by the requirement for dual-channel dataset or single-channel dataset with special design, the time-consuming calculation for extended field of view and the lack of real-time visualization tool. Here, we propose a universal and accelerated SIMBA ImageJ plug-in, Live-SIMBA, for time-series analysis in living cells. Live-SIMBA circumvents the requirement of dual-channel dataset using intensity-based sampling algorithm and improves the computing speed using multi-core parallel computing technique. Live-SIMBA also better resolves the weak signals inside the specimens with adjustable background estimation and distance-threshold filter. With improved fidelity on reconstructed structures, greatly accelerated computation, and real-time visualization, Live-SIMBA demonstrates its extended capabilities in live-cell super-resolution imaging. (C) 2020 Optical Society of America under the terms of the OSA Open Access Publishing Agreement
DOI	10.1364/BOE.404820
收录类别	SCI
语种	英语
资助项目	National Key Research and Development Program of China[2017YFA0504702] ; National Key Research and Development Program of China[2017YFA0505300] ; National Key Research and Development Program of China[2017YFE0103900] ; National Natural Science Foundation of China[21778069] ; National Natural Science Foundation of China[31421002] ; National Natural Science Foundation of China[61672493] ; National Natural Science Foundation of China[61932018] ; National Natural Science Foundation of China[U1611261] ; National Natural Science Foundation of China[U1611263] ; Beijing Municipal Natural Science Foundation[L182053] ; Project of the National Laboratory of Biomacromolecules
WOS研究方向	Biochemistry & Molecular Biology ; Optics ; Radiology, Nuclear Medicine & Medical Imaging
WOS类目	Biochemical Research Methods ; Optics ; Radiology, Nuclear Medicine & Medical Imaging
WOS记录号	WOS:000577572500033
出版者	OPTICAL SOC AMER
引用统计	被引频次：8[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/2XEOYT63/15705
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Xu, Pingyong
作者单位	1.Chinese Acad Sci, High Performance Comp Res Ctr, Inst Comp Technol, 6 Kexueyuan South Rd, Beijing 100190, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Purdue Univ, Weldon Sch Biomed Engn, W Lafayette, IN 47907 USA 4.Chinese Acad Sci, Inst Biophys, Key Lab RNA Biol, Beijing 100101, Peoples R China 5.Chinese Acad Sci, CAS Ctr Excellence Biomacromol, Inst Biophys, Natl Lab Biomacromol, Beijing 100101, Peoples R China
推荐引用方式 GB/T 7714	Li, Hongjia,Xu, Fan,Gao, Shan,et al. Live-SIMBA: an ImageJ plug-in for the universal and accelerated single molecule-guided Bayesian localization super resolution microscopy (SIMBA) method[J]. BIOMEDICAL OPTICS EXPRESS,2020,11(10):5842-5859.
APA	Li, Hongjia.,Xu, Fan.,Gao, Shan.,Zhang, Mingshu.,Xue, Fudong.,...&Zhang, Fa.(2020).Live-SIMBA: an ImageJ plug-in for the universal and accelerated single molecule-guided Bayesian localization super resolution microscopy (SIMBA) method.BIOMEDICAL OPTICS EXPRESS,11(10),5842-5859.
MLA	Li, Hongjia,et al."Live-SIMBA: an ImageJ plug-in for the universal and accelerated single molecule-guided Bayesian localization super resolution microscopy (SIMBA) method".BIOMEDICAL OPTICS EXPRESS 11.10(2020):5842-5859.