Structural cell biology in situ using superresolution microscopy

Informazioni relative al progetto

CellStructure

ID dell’accordo di sovvenzione: 724489

DOI

10.3030/724489

Progetto chiuso

Data della firma CE 28 Febbraio 2017

Data di avvio 1 Giugno 2017

Data di completamento 31 Maggio 2024

Finanziato da

• EXCELLENT SCIENCE - European Research Council (ERC)

Costo totale

€ 1 686 469,38

Contributo UE

€ 1 686 469,38

Coordinato da

UNIVERSITAT WIEN
Austria

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Pubblicazioni

Peer reviewed articles (33)

Organotypic slice culture model demonstrates interneuronal spreading of alpha-synuclein aggregates

Autori: Sabry Gad; Nelson Ferreira; Jervis Vermal Thevathasan; Cristine Betzer; Deniz Kirik; Robin Diekmann; Mohamed Z. Boraie; Jonas Ries; Mohamed Adel; Nanna Møller Jensen; Sara Elfarrash; Sara Elfarrash; Poul Henning Jensen; Nisreen Mansour Omar; Sadegh Nabavi
Pubblicato in: Acta Neuropathologica Communications, Vol 7, Iss 1, Pp 1-16 (2019), Numero 5, 2019, ISSN 2051-5960
Editore: BioMed Central
DOI: 10.1101/681064

Implementation of a 4Pi‐SMS super‐resolution microscope

Autori: J. Wang, E.S. Allgeyer, G. Sirinakis, Y. Zhang, K. Hu, M.D. Lessard, Y. Li, R. Diekmann, M.A. Phillips, I.M. Dobbie§, J. Ries§, M.J. Booth§, J. Bewersdorf
Pubblicato in: Nat Protocols, 2021, ISSN 1754-2189
Editore: Nature Publishing Group
DOI: 10.1038/s41596-020-00428-7

Build and operation of a custom 3D, multicolor, single-molecule localization microscope

Autori: Rory M. Power, Aline Tschanz, Timo Zimmermann & Jonas Ries
Pubblicato in: Nature Protocols, 2024, ISSN 1754-2189
Editore: Nature Publishing Group
DOI: 10.1038/s41596-024-00989-x

SMAP: a modular super-resolution microscopy analysis platform for SMLM data

Autori: J. Ries
Pubblicato in: Nat Methods, 2020, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-020-0938-1

3D super-resolution fluorescence microscopy maps the variable molecular architecture of the Nuclear Pore Complex

Autori: V. Jimenez Sabinina, M.J. Hossain, J.-K. Heriche, P. Hoess, B. Nijmeijer, S. Mosalaganti, M. Kueblbeck, A. Callegari, A. Szymborska, M. Beck, J. Ries, J. Ellenberg
Pubblicato in: Mol Biol Cell, 2021, ISSN 1759-5029
Editore: Nature Publishing Group
DOI: 10.1091/mbc.e20-11-0728

Photon-free (s)CMOS camera characterization for artifact reduction in high- and super-resolution microscopy

Autori: Diekmann, Robin; Deschamps, Joran; Li, Yiming; Deguchi, Takahiro; Tschanz, Aline; Kahnwald, Maurice; Matti, Ulf; Ries, Jonas
Pubblicato in: Nature Communications, 2022, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-022-30907-2

Nanoscale structural organization and stoichiometry of the budding yeast kinetochore

Autori: Cieslinski, Konstanty; Wu, Yu-Le; Nechyporenko, Lisa; Hörner, Sarah Janice; Conti, Duccio; Skruzny, Michal; Ries, Jonas
Pubblicato in: Journal of Cell Biology, 2023, ISSN 0021-9525
Editore: Rockefeller University Press
DOI: 10.1083/jcb.202209094

How good are my data? Reference standards in superresolution microscopy

Autori: Markus Mund and Jonas Ries
Pubblicato in: Molecular Biology of the Cell, 2020, ISSN 1939-4586
Editore: AMER SOC CELL BIOLOGY
DOI: 10.1091/mbc.e19-04-0189

Direct observation of motor protein stepping in living cells using MINFLUX

Autori: Deguchi, Takahiro; Iwanski, Malina K.; Schentarra, Eva-Maria; Heidebrecht, Christopher; Schmidt, Lisa; Heck, Jennifer; Weihs, Tobias; Schnorrenberg, Sebastian; Hoess, Philipp; Liu, Sheng; Chevyreva, Veronika; Noh, Kyung-Min; Kapitein, Lukas C.; Ries, Jonas
Pubblicato in: Science, Numero 15, 2023, ISSN 1095-9203
Editore: AAAS
DOI: 10.1126/science.ade2676

Optimizing imaging speed and excitation intensity for single-molecule localization microscopy

Autori: R. Diekmann, M. Kahnwald, A. Schoenit, J. Deschamps, U. Matti, J. Ries
Pubblicato in: Nat Methods, 2020, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1101/2021.04.16.440125

3D particle averaging and detection of macromolecular symmetry in localization microscopy

Autori: H. Heydarian, M. Joosten, A. Przybylski, F. Schueder, R. Jungmann, B. van Werkhoven, J. Keller-Findeisen, J. Ries, S. Stallinga, M. Bates, B. Rieger
Pubblicato in: Nat Commun, 2021, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-021-22006-5

Deep learning enables fast and dense single-molecule localization with high accuracy

Autori: A. Speiser, L.-R. Müller, U. Matti, C.J. Obara, W.R. Legant, A. Kreshuk, J. Macke§, J. Ries§, S.C. Turaga§.
Pubblicato in: Nat Methods, 2021, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-021-01236-x

Direct Supercritical Angle Localization Microscopy for Nanometer 3D Superresolution

Autori: A. Dasgupta, J. Deschamps, U. Matti, U. Huebner, J. Becker, S. Strauss, R. Jungmann, R. Heintzmann, J. Ries
Pubblicato in: Nat Commun, 2021, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-021-21333-x

Global fitting for high-accuracy multi-channel single-molecule localization

Autori: Li, Yiming; Shi, Wei; Liu, Sheng; Cavka, Ivana; Wu, Yu-Le; Matti, Ulf; Wu, Decheng; Koehler, Simone; Ries, Jonas
Pubblicato in: Nature Communications, 2022, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-022-30719-4

Clathrin coats partially preassemble and subsequently bend during endocytosis

Autori: Markus Mund; Aline Tschanz; Yu-Le Wu; Felix Frey; Johanna L. Mehl; Marko Kaksonen; Ori Avinoam; Ulrich S. Schwarz; Jonas Ries
Pubblicato in: Journal of Cell Biology, 222 (3), Numero 13, 2023, ISSN 0021-9525
Editore: Rockefeller University Press
DOI: 10.1083/jcb.202206038

MicroFPGA: an affordable FPGA platform for microscope control

Autori: Joran Deschamps; Christian Kieser; Philipp Hoess; Takahiro Deguchi; Jonas Ries
Pubblicato in: HardwareX, Vol 13, Iss , Pp e00407- (2023), Numero 8, 2023, ISSN 2468-0672
Editore: Oxford: Elsevier Ltd.
DOI: 10.1016/j.ohx.2023.e00407

Systematic Tuning of Rhodamine Spirocyclization for Super-Resolution Microscopy

Autori: Nicolas Lardon; Nicolas Lardon; Jonas Ries; Elisa D’Este; Mai Tran; Aline Tschanz; Kai Johnsson; Kai Johnsson; Philipp Hoess; Lu Wang; Lu Wang
Pubblicato in: Journal of the American Chemical Society, Numero 2, 2021, ISSN 0002-7863
Editore: American Chemical Society
DOI: 10.1101/2021.05.20.444797

Real-time 3D single-molecule localization using experimental point spread functions

Autori: Yiming Li, Markus Mund, Philipp Hoess, Joran Deschamps, Ulf Matti, Bianca Nijmeijer, Vilma Jimenez Sabinina, Jan Ellenberg, Ingmar Schoen, Jonas Ries
Pubblicato in: Nature Methods, Numero 15/5, 2018, Pagina/e 367-369, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/nmeth.4661

Systematic Nanoscale Analysis of Endocytosis Links Efficient Vesicle Formation to Patterned Actin Nucleation

Autori: Markus Mund, Johannes Albertus van der Beek, Joran Deschamps, Serge Dmitrieff, Philipp Hoess, Jooske Louise Monster, Andrea Picco, François Nédélec, Marko Kaksonen, Jonas Ries
Pubblicato in: Cell, Numero 174/4, 2018, Pagina/e 884-896.e17, ISSN 0092-8674
Editore: Cell Press
DOI: 10.1016/j.cell.2018.06.032

MINFLUX nanoscopy delivers 3D multicolor nanometer resolution in cells

Autori: Klaus C. Gwosch, Jasmin K. Pape, Francisco Balzarotti, Philipp Hoess, Jan Ellenberg, Jonas Ries, Stefan W. Hell
Pubblicato in: Nature Methods, 2020, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-019-0688-0

Super-resolution fight club: assessment of 2D and 3D single-molecule localization microscopy software

Autori: Daniel Sage, Thanh-An Pham, Hazen Babcock, Tomas Lukes, Thomas Pengo, Jerry Chao, Ramraj Velmurugan, Alex Herbert, Anurag Agrawal, Silvia Colabrese, Ann Wheeler, Anna Archetti, Bernd Rieger, Raimund Ober, Guy M. Hagen, Jean-Baptiste Sibarita, Jonas Ries, Ricardo Henriques, Michael Unser, Seamus Holden
Pubblicato in: Nature Methods, Numero 16/5, 2019, Pagina/e 387-395, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-019-0364-4

Depth-dependent PSF calibration and aberration correction for 3D single-molecule localization

Autori: Yiming Li, Yu-Le Wu, Philipp Hoess, Markus Mund, Jonas Ries
Pubblicato in: Biomedical Optics Express, Numero 10/6, 2019, Pagina/e 2708, ISSN 2156-7085
Editore: The Optical Society
DOI: 10.1364/boe.10.002708

Photoactivation of silicon rhodamines via a light-induced protonation

Autori: Michelle S. Frei, Philipp Hoess, Marko Lampe, Bianca Nijmeijer, Moritz Kueblbeck, Jan Ellenberg, Hubert Wadepohl, Jonas Ries, Stefan Pitsch, Luc Reymond, Kai Johnsson
Pubblicato in: Nature Communications, Numero 10/1, 2019, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-019-12480-3

Direct Visualization of Single Nuclear Pore Complex Proteins Using Genetically-Encoded Probes for DNA-PAINT

Autori: Thomas Schlichthaerle, Maximilian T. Strauss, Florian Schueder, Alexander Auer, Bianca Nijmeijer, Moritz Kueblbeck, Vilma Jimenez Sabinina, Jervis V. Thevathasan, Jonas Ries, Jan Ellenberg, Ralf Jungmann
Pubblicato in: Angewandte Chemie International Edition, Numero 58/37, 2019, Pagina/e 13004-13008, ISSN 1433-7851
Editore: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201905685

Nuclear pores as versatile reference standards for quantitative superresolution microscopy

Autori: Jervis Vermal Thevathasan, Maurice Kahnwald, Konstanty Cieśliński, Philipp Hoess, Sudheer Kumar Peneti, Manuel Reitberger, Daniel Heid, Krishna Chaitanya Kasuba, Sarah Janice Hoerner, Yiming Li, Yu-Le Wu, Markus Mund, Ulf Matti, Pedro Matos Pereira, Ricardo Henriques, Bianca Nijmeijer, Moritz Kueblbeck, Vilma Jimenez Sabinina, Jan Ellenberg, Jonas Ries
Pubblicato in: Nature Methods, Numero 16/10, 2019, Pagina/e 1045-1053, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-019-0574-9

Cost-efficient open source laser engine for microscopy

Autori: Daniel Schröder, Joran Deschamps, Anindita Dasgupta, Ulf Matti, Jonas Ries
Pubblicato in: Biomedical Optics Express, Numero 11/2, 2020, Pagina/e 609, ISSN 2156-7085
Editore: The Optical Society
DOI: 10.1364/boe.380815

EMU: reconfigurable graphical user interfaces for Micro-Manager

Autori: Deschamps, Joran; Ries, Jonas
Pubblicato in: BMC Bioinformatics, Numero 13, 2020, ISSN 1471-2105
Editore: BioMed Central
DOI: 10.1186/s12859-020-03727-8

The interplay between BAX and BAK tunes apoptotic pore growth to control mitochondrial-DNA-mediated inflammation

Autori: Cosentino, Katia; Hertlein, Vanessa; Jenner, Andreas; Dellmann, Timo; Gojkovic, Milos; Peña-Blanco, Aida; Dadsena, Shashank; Wajngarten, Noel; Danial, John S.H.; Thevathasan, Jervis Vermal; Mund, Markus; Ries, Jonas; Garcia-Saez, Ana J.
Pubblicato in: Molecular Cell, Numero 12, 2022, ISSN 1097-4164
Editore: Elsevier
DOI: 10.1016/j.molcel.2022.01.008

Identification of novel synaptonemal complex components in C. elegans

Autori: M.E. Hurlock, I. Čavka, J. Haversat, M. Wooten, Z. Nizami, R. Turniansky, P. Hoess, J. Ries, J.G. Gall, S. Köhler, Y. Kim
Pubblicato in: J Cell Biol, 2020, ISSN 0021-9525
Editore: Rockefeller University Press
DOI: 10.1083/jcb.201910043

Accurate 4Pi single-molecule localization using an experimental PSF model

Autori: Li, Yiming; Buglakova, Elena; Zhang, Yongdeng; Thevathasan, Jervis Vermal; Bewersdorf, Joerg; Ries, Jonas
Pubblicato in: Optics Letters, Numero 10, 2020, ISSN 0146-9592
Editore: Optical Society of America
DOI: 10.1364/ol.397754

Maximum-likelihood model fitting for quantitative analysis of SMLM data

Autori: Wu, Yu-Le; Hoess, Philipp; Tschanz, Aline; Matti, Ulf; Mund, Markus; Ries, Jonas
Pubblicato in: Nature Methods, 2023, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-022-01676-z

Site-Specifically-Labeled Antibodies for Super-Resolution Microscopy Reveal

Autori: Susanna M, Früh; Ulf, Matti; Philipp R, Spycher; Marina, Rubini; Sebastian, Lickert; Thomas, Schlichthaerle; Ralf, Jungmann; Viola, Vogel; Jonas, Ries; Ingmar, Schoen
Pubblicato in: ACS Nano, Numero 8, 2021, ISSN 1936-0851
Editore: American Chemical Society
DOI: 10.1021/acsnano.1c03677

Quantitative Data Analysis in Single-Molecule Localization Microscopy

Autori: Yu-Le Wu; Aline Tschanz; Leonard Krupnik; Jonas Ries
Pubblicato in: Trends in Cell Biology, Numero 4, 2020, ISSN 0962-8924
Editore: Elsevier BV
DOI: 10.1016/j.tcb.2020.07.005

Other (7)

Universal inverse modelling of point spread functions for SMLM localization and microscope characterization

Autori: Sheng Liu; Jianwei Chen; Jonas Hellgoth; Lucas-Raphael Mueller; Boris Ferdman; Christian Karras; Dafei Xiao; Keith A Lidke; Rainer Heintzmann; Yoav Shechtman; Yiming Li; Jonas Ries
Pubblicato in: bioRxiv, 2023
Editore: bioRxiv
DOI: 10.1101/2023.10.26.564064

Photon-free (s)CMOS camera characterization for artifact reduction in high- and super-resolution microscopy

Autori: R. Diekmann, J. Deschamps, Y. Li, A. Tschanz, M. Kahnwald, U. Matti, J.
Pubblicato in: bioRxiv, 2021
Editore: bioRxiv

Maximum-Likelihood Model Fitting for Quantitative Analysis of SMLM Data

Autori: Y.-L. Wu, P. Hoess, A. Tschanz, U. Matti, M. Mund, J. Ries
Pubblicato in: 2021
Editore: bioRxiv
DOI: 10.1101/2021.08.30.456756

Superresolution Microscopy Reveals Partial Preassembly and Subsequent Bending of the Clathrin Coat during Endocytosis

Autori: M. Mund, A. Tschanz, Y.-L. Wu, F. Frey, J.L. Mehl, M. Kaksonen, O. Avinoam, U.S. Schwarz, J. Ries
Pubblicato in: bioRxiv, 2021
Editore: bioRxiv
DOI: 10.1101/2021.10.12.463947

Fast and robust 3D MINFLUX excitation with a variable phase plate

Autori: Takahiro Deguchi; Jonas Ries
Pubblicato in: bioRxiv, 2023
Editore: bioRxiv
DOI: 10.1101/2023.10.31.564945

Automated 3D multi-color single-molecule localization microscopy

Autori: Rory M Power; Aline Tschanz; Timo Zimmermann; Jonas Ries
Pubblicato in: bioRxiv, 2023
Editore: bioRxiv
DOI: 10.1101/2023.10.23.563122

Three dimensional particle averaging for structural imaging of macromolecular complexes by localization microscopy

Autori: Rieger, B., Stallinga, S., Heydarian, H., Schueder, F., Jungmann, R., Ries, J., Przybylski, A., Bates, M., Keller-Findeisen, J., and van Werkhoven, B.
Pubblicato in: bioRxiv, 2019
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/837575