DiAna, an ImageJ tool for object-based 3D co-localization and distance analysis

被引：140

作者：

Gilles, Jean-Francois ^{[1
]}

Dos Santos, Marc ^{[2
]}

Boudier, Thomas ^{[3
,4
]}

Bolte, Susanne ^{[1
]}

Heck, Nicolas ^{[2
]}

机构：

[1] UPMC Univ Paris 06, Sorbonne Univ, Core Facil, CNRS,IBPS, F-75005 Paris, France

[2] UPMC Univ Paris 06, Sorbonne Univ, NPS IBPS, INSERM,CNRS, F-75005 Paris, France

[3] UPMC Univ Paris 06, Sorbonne Univ, IPAL, CNRS, Singapore, Singapore

[4] ASTAR, Bioinformat Inst, Singapore, Singapore

来源：

METHODS | 2017年 / 115卷

关键词：

Image segmentation; Image co-localization; Fluorescence microscopy; Deconvolution; Spatial analysis; 3D imaging; SYNAPTIC VESICLE; DECONVOLUTION; PROTEINS; EXOCYTOSIS; DYNAMICS; COMPLEX; GUIDE;

D O I：

10.1016/j.ymeth.2016.11.016

中图分类号：

Q5 [生物化学];

学科分类号：

070307 [化学生物学];

摘要：

We present a new plugin for Image) called DiAna, for Distance Analysis, which comes with a user-friendly interface. DiAna proposes robust and accurate 3D segmentation for object extraction. The plugin performs automated object-based co-localization and distance analysis. DiAna offers an in-depth analysis of co-localization between objects and retrieves 3D measurements including co-localizing volumes and surfaces of contact. It also computes the distribution of distances between objects in 3D. With DiAna, we furthermore introduce an original method, which allows for estimating the statistical significance of object co-localization. DiAna offers a complete and intuitive 3D image analysis tool for biologists. (C) 2016 Elsevier Inc. All rights reserved.

引用

页码：55 / 64

页数：10

共 40 条

[1]

Deconvolution and chromatic aberration corrections in quantifying colocalization of a transcription factor in three-dimensional cellular space [J].

Abraham, Thomas ;

Allan, Sarah E. ;

Levings, Megan K. .

MICRON, 2010, 41 (06) :633-640

[2]

Statistical Analysis of 3D Images Detects Regular Spatial Distributions of Centromeres and Chromocenters in Animal and Plant Nuclei [J].

Andrey, Philippe ;

Kieu, Kien ;

Kress, Clemence ;

Lehmann, Gaetan ;

Tirichine, Leila ;

Liu, Zichuan ;

Biot, Eric ;

Adenot, Pierre-Gael ;

Hue-Beauvais, Cathy ;

Houba-Herin, Nicole ;

Duranthon, Veronique ;

Devinoy, Eve ;

Beaujean, Nathalie ;

Gaudin, Valerie ;

Maurin, Yves ;

Debey, Pascale .

PLOS COMPUTATIONAL BIOLOGY, 2010, 6 (07) :27

[3]

MULTIDIMENSIONAL BINARY SEARCH TREES USED FOR ASSOCIATIVE SEARCHING [J].

BENTLEY, JL .

COMMUNICATIONS OF THE ACM, 1975, 18 (09) :509-517

[4]

A guided tour into subcellular colocalization analysis in light microscopy [J].

Bolte, S. ;

Cordelieres, F. P. .

JOURNAL OF MICROSCOPY, 2006, 224 (213-232) :213-232

[5]

Cordelieres F.P., 2014, METHOD CELL BIOL, V123

[6]

Costes SV, 2004, BIOPHYS J, V86, P3993, DOI [10.1529/biophysj.103.038422, 10.1529/biophysi.103.038422]

[7]

Improving Axial Resolution in Confocal Microscopy with New High Refractive Index Mounting Media [J].

Fouquet, Coralie ;

Gilles, Jean-Francois ;

Heck, Nicolas ;

Dos Santos, Marc ;

Schwartzmann, Richard ;

Cannaya, Vidjeacoumary ;

Morel, Marie-Pierre ;

Davidson, Robert Stephen ;

Trembleau, Alain ;

Bolte, Susanne .

PLOS ONE, 2015, 10 (03)

[8]

Molecular determinants of presynaptic active zones [J].

Garner, CC ;

Kindler, S ;

Gundelfinger, ED .

CURRENT OPINION IN NEUROBIOLOGY, 2000, 10 (03) :321-327

[9]

Quantitative Comparison of Glutamatergic and GABAergic Synaptic Vesicles Unveils Selectivity for Few Proteins Including MAL2, a Novel Synaptic Vesicle Protein [J].

Gronborg, Mads ;

Pavlos, Nathan J. ;

Brunk, Irene ;

Chua, John J. E. ;

Muenster-Wandowski, Agnieszka ;

Riedel, Dietmar ;

Ahnert-Hilger, Gudrun ;

Urlaub, Henning ;

Jahn, Reinhard .

JOURNAL OF NEUROSCIENCE, 2010, 30 (01) :2-12

[10]

Gul-Mohammed J., 2014, BMC BIOINFORMATICS, V14, P15

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