AuTom: A novel automatic platform for electron tomography reconstruction

doi:10.1016/j.jsb.2017.07.008

	AuTom: A novel automatic platform for electron tomography reconstruction
	Han, Renmin 1; Wan, Xiaohua 2; Wang, Zihao 2,3; Hao, Yu 2,3; Zhang, Jingrong 2,3; Chen, Yu 2,3; Gao, Xin 1; Liu, Zhiyong 4; Ren, Fei 2; Sun, Fei 3,5,6; Zhang, Fa 2
	2017-09-01
发表期刊	JOURNAL OF STRUCTURAL BIOLOGY
ISSN	1047-8477
卷号	199 期号:3 页码:196-208
摘要	We have developed a software package towards automatic electron tomography (ET): Automatic Tomography (AuTom). The presented package has the following characteristics: accurate alignment modules for marker-free datasets containing substantial biological structures; fully automatic alignment modules for datasets with fiducial markers; wide coverage of reconstruction methods including a new iterative method based on the compressed-sensing theory that suppresses the "missing wedge" effect; and multi-platform acceleration solutions that support faster iterative algebraic reconstruction. AuTom aims to achieve fully automatic alignment and reconstruction for electron tomography and has already been successful for a variety of datasets. AuTom also offers user-friendly interface and auxiliary designs for file management and workflow management, in which fiducial marker-based datasets and marker-free datasets are addressed with totally different subprocesses. With all of these features, AuTom can serve as a convenient and effective tool for processing in electron tomography.
关键词	Electron tomography Alignment Reconstruction Image processing workflow
DOI	10.1016/j.jsb.2017.07.008
收录类别	SCI
语种	英语
资助项目	Strategic Priority Research Program of Chinese Academy of Sciences[XDB08030202] ; National Natural Science Foundation of China[61232001] ; National Natural Science Foundation of China[61232991] ; National Natural Science Foundation of China[61472397] ; National Natural Science Foundation of China[61502455] ; National Natural Science Foundation of China[61672493] ; National Natural Science Foundation of China[U1611263] ; National Natural Science Foundation of China[U1611261] ; National Key Research and Development Program of China[2017YFA0504702] ; King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR)[URF/1/1976-04] ; King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR)[URF/1/2602-01] ; King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR)[URF/1/3007-01] ; Special Program for Applied Research on Super Computation of the NSFC-Guangdong Joint Fund (the second phase) ; National Basic Research Program (973 Program) of Ministry of Science and Technology of China[2014CB910700]
WOS研究方向	Biochemistry & Molecular Biology ; Biophysics ; Cell Biology
WOS类目	Biochemistry & Molecular Biology ; Biophysics ; Cell Biology
WOS记录号	WOS:000411921000004
出版者	ACADEMIC PRESS INC ELSEVIER SCIENCE
引用统计	被引频次：22[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/2XEOYT63/6755
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Sun, Fei; Zhang, Fa
作者单位	1.King Abdudllah Univ Sci & Technol, CEMSE Div, CBRC, Thuwal 239556900, Saudi Arabia 2.Chinese Acad Sci, Key Lab Intelligent Informat Proc, Inst Comp Technol, Beijing 100190, Peoples R China 3.Univ Chinese Acad Sci, Beijing, Peoples R China 4.Chinese Acad Sci, Inst Comp Technol, State Key Lab Comp Architecture, Beijing 100190, Peoples R China 5.Chinese Acad Sci, Inst Biophys, CAS Ctr Excellence Biomacromol, Natl Lab Biomacromol, 15 Datun Rd, Beijing 100101, Peoples R China 6.Chinese Acad Sci, Inst Biophys, Ctr Biol Imaging, 15 Datum Rd, Beijing 100101, Peoples R China
推荐引用方式 GB/T 7714	Han, Renmin,Wan, Xiaohua,Wang, Zihao,et al. AuTom: A novel automatic platform for electron tomography reconstruction[J]. JOURNAL OF STRUCTURAL BIOLOGY,2017,199(3):196-208.
APA	Han, Renmin.,Wan, Xiaohua.,Wang, Zihao.,Hao, Yu.,Zhang, Jingrong.,...&Zhang, Fa.(2017).AuTom: A novel automatic platform for electron tomography reconstruction.JOURNAL OF STRUCTURAL BIOLOGY,199(3),196-208.
MLA	Han, Renmin,et al."AuTom: A novel automatic platform for electron tomography reconstruction".JOURNAL OF STRUCTURAL BIOLOGY 199.3(2017):196-208.