Generation of digital phantoms of cell nuclei and simulation of image formation in 3D image cytometry

2009 ◽  
Vol 75A (6) ◽  
pp. 494-509 ◽  
Author(s):  
David Svoboda ◽  
Michal Kozubek ◽  
Stanislav Stejskal
2021 ◽  
Vol 22 (13) ◽  
pp. 7098
Author(s):  
Anna Ligasová ◽  
Karel Koberna

Cytocentrifugation is a common technique for the capture of cells on microscopic slides. It usually requires a special cytocentrifuge or cytorotor and cassettes. In the study presented here, we tested the new concept of cytocentrifugation based on the threaded connection of the lid and the sample holder to ensure an adjustable flow of solutions through the filters and the collection of the filtered solutions in the reservoir during centrifugation. To test this concept, we developed a device for the preparation of cell samples on circular coverslips. The device was tested for the capture and sample processing of both eukaryotic and prokaryotic cells, cell nuclei, and mitochondria for microscopy analysis including image cytometry. Moreover, an efficient procedure was developed for capturing formaldehyde-fixed cells on non-treated coverslips without cell drying. The results showed that the tested arrangement enables the effective capture and processing of all of the tested samples and the developed device represents an inexpensive alternative to common cytocentrifuges, as only the paper filter is consumed during sample processing, and no special centrifuge, cytorotor, or cassette is necessary. As no additional system of solution removal is required during sample staining, the tested concept also facilitates the eventual automation of the staining procedure.


1996 ◽  
Vol 4 (3) ◽  
pp. 393-400 ◽  
Author(s):  
P.G. Auran ◽  
O. Silven

2020 ◽  
Vol 75 (1) ◽  
pp. 147-162
Author(s):  
MarKjoe Olunna Uba ◽  
Karol Mikula ◽  
Zuzana Krivá ◽  
Hanh Nguyen ◽  
Thierry Savy ◽  
...  

AbstractIn this work, we focused on 3D image segmentation where the segmented surface is reconstructed by the use of 3D digital image information and information from thresholded 3D image in a local neighbourhood. To this end, we applied a mathematical model based on the level set formulation and numerical method which is based on the so-called reduced diamond cell approach. The segmentation approach is based on surface evolution governed by a nonlinear PDE, the modified subjective surface equation. This is done by defining the input to the edge detector function as the weighted sum of norm of presmoothed 3D image and norm of presmoothed thresholded 3D image in a local neighbourhood. For the numerical discretization, we used a semi-implicit finite volume scheme. The method was applied to real data representing 3D microscopy images of cell nuclei within the zebrafish pectoral fin.


Author(s):  
Dushan N. Wadduwage ◽  
Marcus Parrish ◽  
Heejin Choi ◽  
Bevin P. Engelward ◽  
Paul Matsudaira ◽  
...  

2015 ◽  
Author(s):  
Dushan N. Wadduwage ◽  
Marcus Parrish ◽  
Heejin Choi ◽  
Bevin P. Engelward ◽  
Paul Matsudaira ◽  
...  

2005 ◽  
Vol 27 (1) ◽  
pp. 33-41
Author(s):  
Xiao Rong Sun ◽  
Jian Wang ◽  
David Garner ◽  
Branko Palcic

Objective: To establish if measurements of DNA ploidy could be used to assist cytopathologists and cytotechnologists in population based cervical cancer screening programs in countries where manually reading the slides is impossible due to the lack of sufficient skilled cytotechnologists. The goal of such program is to identify only clinically significant lesions, i.e. those where a clinical intervention to remove the lesion is required immediately. Study Design: A total of 9905 women were enrolled in the study. Cervical samples were taken with a cervix brush that was then placed into a fixative solution. The cells were separated from mucus by mechanical and chemical treatment and then deposited onto microscope slides by a cytocentrifuge. Two slides were prepared from each case; one slide was stained by Papanicolaou stain for manual cytology examination, while the other slide was stained by a DNA specific stain. The latter slide was used to determine the relative amount of DNA in the cell nuclei. Results: A total of 876 women were followed by colposcopy examination where biopsies were taken from the visible lesions or from suspicious areas and histopathology diagnosed 459 as normal or benign cases, 325 as CIN1, 36 as CIN2, 25 as CIN3/CIS, and 31 as invasive cancer. Of these 876 cases, manual cytology called 655 normal or ASCUS, 197 as LSIL, 16 cases as HSIL, and 8 as cancer. DNA measurements found 704 cases having no cells with DNA greater than 5c, 98 cases where there were 1 or 2 cells having DNA amount greater than 5c, and 74 cases where there were 3 or more cells having DNA amount greater than 5c. If manual cytology were to be used to refer all cases of HSIL and cancer to colposcopy and biopsy, 23 lesions that had to be removed would have been discovered (2 CIN2, 11 CIN3/CIS, and 10 cancers), for a sensitivity of 25.0±5.2% at specificity of 99.9±0.1%. If DNA assisted cytology were to be used instead, and all cases having 3 or more cells with DNA amount greater than 5c were to be referred to colposcopy and biopsy, then 50 lesions that had to be removed would have been discovered (10 CIN2, 15 CIN3/CIS and 25 cancers) for the sensitivity of 54.3±6.2% at specificity of 96.9±0.6%. Conclusions: The study suggests that screening for high grade cervical neoplastic lesions and cervical cancer by DNA assisted cytology could be implemented with minimal use of skilled cytotechnologists, at least in those countries where it would be difficult to introduce population based screening for cervical cancer due to the lack of availability of such skilled cytotechnologists.


2021 ◽  
Author(s):  
Shang Mu ◽  
Szi-chieh Yu ◽  
Nicholas L. Turner ◽  
Claire E. McKellar ◽  
Sven Dorkenwald ◽  
...  

We reconstructed all cell nuclei in a 3D image of a Drosophila brain acquired by serial section electron microscopy (EM). The total number of nuclei is approximately 133,000, at least 87% of which belong to neurons. Neuronal nuclei vary from several hundred down to roughly 5 cubic micrometers. Glial nuclei can be even smaller. The optic lobes contain more than two times the number of cells than the central brain. Our nuclear reconstruction serves as a spatial map and index to the cells in a Drosophila brain.


NeuroImage ◽  
2009 ◽  
Vol 47 ◽  
pp. S72
Author(s):  
K. Kim ◽  
P.A. Habas ◽  
F. Rousseau ◽  
O.A. Glenn ◽  
A.J. Barkovich ◽  
...  

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