---
OA_embargo: '12'
OA_place: publisher
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acknowledged_ssus:
- _id: Bio
- _id: EM-Fac
- _id: ScienComp
- _id: LifeSc
acknowledgement: "This work was supported by the ERC StG grant ActinID (PRA01221F1049A)
awarded to Florian\r\nSchur, the ERC-SyG grant Pushing from within (P01071793) awarded
to Michael Sixt, and by ISTA.\r\nI would like to thank the Scientific Service Units
at ISTA for their essential support throughout\r\nthis work. In particular, I am
grateful to the Electron Microscopy Facility, Imaging and Optics\r\nFacility, Zebrafish
Facility, Scientific Computing Facility, and Lab Support Facility for their services,\r\nand
technical support, all of which were important for the successful completion of
this project."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Manjunath
full_name: Javoor, Manjunath
id: 305ab18b-dc7d-11ea-9b2f-b58195228ea2
last_name: Javoor
orcid: 0000-0003-2311-2112
citation:
ama: Javoor M. Large-scale imaging of cellular actin networks at single filament
resolution using montage cryo-electron tomography. 2026. doi:10.15479/AT-ISTA-22744
apa: Javoor, M. (2026). Large-scale imaging of cellular actin networks at single
filament resolution using montage cryo-electron tomography. Institute of Science
and Technology Austria . https://doi.org/10.15479/AT-ISTA-22744
chicago: Javoor, Manjunath. “Large-Scale Imaging of Cellular Actin Networks at Single
Filament Resolution Using Montage Cryo-Electron Tomography.” Institute of Science
and Technology Austria , 2026. https://doi.org/10.15479/AT-ISTA-22744.
ieee: M. Javoor, “Large-scale imaging of cellular actin networks at single filament
resolution using montage cryo-electron tomography,” Institute of Science and Technology
Austria , 2026.
ista: Javoor M. 2026. Large-scale imaging of cellular actin networks at single filament
resolution using montage cryo-electron tomography. Institute of Science and Technology
Austria .
mla: Javoor, Manjunath. Large-Scale Imaging of Cellular Actin Networks at Single
Filament Resolution Using Montage Cryo-Electron Tomography. Institute of Science
and Technology Austria , 2026, doi:10.15479/AT-ISTA-22744.
short: M. Javoor, Large-Scale Imaging of Cellular Actin Networks at Single Filament
Resolution Using Montage Cryo-Electron Tomography, Institute of Science and Technology
Austria , 2026.
corr_author: '1'
date_created: 2026-08-21T09:11:04Z
date_published: 2026-08-21T00:00:00Z
date_updated: 2026-09-03T09:36:24Z
day: '21'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: FlSc
- _id: MiSi
doi: 10.15479/AT-ISTA-22744
doi_confirm: '1'
file:
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date_created: 2026-08-26T12:02:47Z
date_updated: 2026-08-27T12:48:42Z
file_id: '22767'
file_name: 2026_Javoor_Manjunath_Thesis.docx
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date_updated: 2026-08-26T12:02:46Z
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fulldoi: https://doi.org/10.15479/AT-ISTA-22744
has_accepted_license: '1'
keyword:
- Actin cytoskeleton
- Cell migration
- cryo-electron tomography
language:
- iso: eng
month: '08'
oa_version: None
page: '121'
project:
- _id: bd980d18-d553-11ed-ba76-ceaa645c97eb
grant_number: '101076260'
name: A molecular atlas of Actin filament IDentities in the cell motility machinery
- _id: bd91e723-d553-11ed-ba76-fe7eeb2185fd
grant_number: '101071793'
name: 'Pushing from within: Control of cell shape, integrity and motility by cytoskeletal
pushing forces'
publication_identifier:
isbn:
- '978-3-99078-090-9 '
issn:
- 2663-337X
publication_status: published
publisher: 'Institute of Science and Technology Austria '
related_material:
record:
- id: '12334'
relation: part_of_dissertation
status: public
- id: '21762'
relation: part_of_dissertation
status: public
- id: '19795'
relation: part_of_dissertation
status: public
- id: '12421'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
title: Large-scale imaging of cellular actin networks at single filament resolution
using montage cryo-electron tomography
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2026'
...
---
_id: '14502'
abstract:
- lang: eng
text: A precise quantitative description of the ultrastructural characteristics
underlying biological mechanisms is often key to their understanding. This is
particularly true for dynamic extra- and intracellular filamentous assemblies,
playing a role in cell motility, cell integrity, cytokinesis, tissue formation
and maintenance. For example, genetic manipulation or modulation of actin regulatory
proteins frequently manifests in changes of the morphology, dynamics, and ultrastructural
architecture of actin filament-rich cell peripheral structures, such as lamellipodia
or filopodia. However, the observed ultrastructural effects often remain subtle
and require sufficiently large datasets for appropriate quantitative analysis.
The acquisition of such large datasets has been enabled by recent advances in
high-throughput cryo-electron tomography (cryo-ET) methods. This also necessitates
the development of complementary approaches to maximize the extraction of relevant
biological information. We have developed a computational toolbox for the semi-automatic
quantification of segmented and vectorized fila- mentous networks from pre-processed
cryo-electron tomograms, facilitating the analysis and cross-comparison of multiple
experimental conditions. GUI-based components simplify the processing of data
and allow users to obtain a large number of ultrastructural parameters describing
filamentous assemblies. We demonstrate the feasibility of this workflow by analyzing
cryo-ET data of untreated and chemically perturbed branched actin filament networks
and that of parallel actin filament arrays. In principle, the computational toolbox
presented here is applicable for data analysis comprising any type of filaments
in regular (i.e. parallel) or random arrangement. We show that it can ease the
identification of key differences between experimental groups and facilitate the
in-depth analysis of ultrastructural data in a time-efficient manner.
author:
- first_name: Georgi A
full_name: Dimchev, Georgi A
id: 38C393BE-F248-11E8-B48F-1D18A9856A87
last_name: Dimchev
orcid: 0000-0001-8370-6161
- first_name: Behnam
full_name: Amiri, Behnam
last_name: Amiri
- first_name: Florian
full_name: Fäßler, Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- first_name: Martin
full_name: Falcke, Martin
last_name: Falcke
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
citation:
ama: Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. Computational toolbox for
ultrastructural quantitative analysis of filament networks in cryo-ET data. 2023.
doi:10.15479/AT:ISTA:14502
apa: Dimchev, G. A., Amiri, B., Fäßler, F., Falcke, M., & Schur, F. K. (2023).
Computational toolbox for ultrastructural quantitative analysis of filament networks
in cryo-ET data. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:14502
chicago: Dimchev, Georgi A, Behnam Amiri, Florian Fäßler, Martin Falcke, and Florian
KM Schur. “Computational Toolbox for Ultrastructural Quantitative Analysis of
Filament Networks in Cryo-ET Data.” Institute of Science and Technology Austria,
2023. https://doi.org/10.15479/AT:ISTA:14502.
ieee: G. A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, and F. K. Schur, “Computational
toolbox for ultrastructural quantitative analysis of filament networks in cryo-ET
data.” Institute of Science and Technology Austria, 2023.
ista: Dimchev GA, Amiri B, Fäßler F, Falcke M, Schur FK. 2023. Computational toolbox
for ultrastructural quantitative analysis of filament networks in cryo-ET data,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:14502.
mla: Dimchev, Georgi A., et al. Computational Toolbox for Ultrastructural Quantitative
Analysis of Filament Networks in Cryo-ET Data. Institute of Science and Technology
Austria, 2023, doi:10.15479/AT:ISTA:14502.
short: G.A. Dimchev, B. Amiri, F. Fäßler, M. Falcke, F.K. Schur, (2023).
corr_author: '1'
date_created: 2023-11-08T19:40:54Z
date_published: 2023-11-21T00:00:00Z
date_updated: 2026-07-06T12:57:43Z
day: '21'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.15479/AT:ISTA:14502
file:
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checksum: a8b9adeb53a4109dea4d5e39fa1acccf
content_type: application/zip
creator: fschur
date_created: 2023-11-08T20:23:07Z
date_updated: 2023-11-08T20:23:07Z
file_id: '14503'
file_name: Computational_Toolbox_v1.2.zip
file_size: 347641117
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checksum: 14db2addbfca61a085ba301ed6f2900b
content_type: text/plain
creator: dernst
date_created: 2023-11-21T08:20:23Z
date_updated: 2023-11-21T08:20:23Z
file_id: '14586'
file_name: Readme.txt
file_size: 1522
relation: main_file
success: 1
file_date_updated: 2023-11-21T08:20:23Z
fulldoi: https://doi.org/10.15479/AT:ISTA:14502
has_accepted_license: '1'
keyword:
- cryo-electron tomography
- actin cytoskeleton
- toolbox
license: https://choosealicense.com/licenses/agpl-3.0/
month: '11'
oa: 1
project:
- _id: 9B954C5C-BA93-11EA-9121-9846C619BF3A
grant_number: P33367
name: Structure and isoform diversity of the Arp2/3 complex
publisher: Institute of Science and Technology Austria
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status: public
title: Computational toolbox for ultrastructural quantitative analysis of filament
networks in cryo-ET data
tmp:
legal_code_url: https://www.gnu.org/licenses/agpl-3.0.html
name: GNU Affero General Public License v3.0
short: 'GNU AGPLv3 '
type: software
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...