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Pavel Tomancak

Featured movie

3d rendering of Drosophila embryo stained with nuclear marker and anti-GFP antibody revealing the expression of FlyFos-CG4702-GFP  gene expression reporter. The embryo was imaged with SPIM from 8 angles and reconstructed with bead-based registration framework followed by content-based image fusion. 3d rendering was done Daniel James White using BioImageXD. 

Additional videos and images

Csp_OpenSPIM.mov

Csp-sGFP imaged in OpenSPIM

4.3 M

Drosophila_Embryogenesis_beads_removed.mov

3d rendering of Drosophila embryogenesis time-lapse reconstructed from 5 angles SPIM recording. All cells are marked with His-YFP.

5.0 M

Drosophila_Gastrulation.mov

3d rendering of Drosophila gastrulation time-lapse reconstructed from 5 angles SPIM recording. All cells are marked with His-YFP.

393 K

Global_Opt.mov

Progress of global optimization during bead-based registration of 8-view SPIM acquisition of C. elegans larva.

3.9 M

Global_Opt_with_Tiling.mov

Progress of global optimization during bead-based registration of 18-view tiled acquisition of Drosophila blastoderm stage embryo using a spinning disc confocal.

6.3 M

EM_registration_6x6.avi

Visualization of registration of 6x6 EM tile system using global optimization of SIFT feature displacement. Green dots are corresponding SIFT features and red lines show the residual error at a given iteration of the optimizer.

15.4 M

EM_registration_3x4x4.avi

Visualization of registration of 3 serial TEM sections consisting of 4x4 image tiles using global optimization of SIFT feature displacement. Green dots are corresponding SIFT features and red lines show the residual error at a given iteration of the optimizer.

9.3 M

Warhol.jpg

Andy Warhol inspired poster for the FlyFos system - designed by Pavel made by Radek

1.0 M

mosaic4.jpg

a pattern of gene expression as a mosaic from images of embryo gene expression patterns I

638 K

mosaic5.jpg

a pattern of gene expression as a mosaic from images of embryo gene expression patterns II

357 K

Dmel_mosaic.jpg

Adult Drosophila male (template photo from Nicolas Gompel) as a mosaic from images of embryo gene expression patterns

0.9 M

Zebrafish_pharyngula_mosaic.jpg

Pharyngula stage zebra fish embryo (template photo from Andy Oates) as a mosaic from images of embryo gene expression patterns

1.0 M

Tomancak_Haeckel_mosaic.jpg

Famous Haeckel embryos as a as a mosaic from images of embryo gene expression patterns (as appeared on cover of Nature Dec 9th 2010)

1.7 M