Structural cell biology in situ using superresolution microscopy

Información del proyecto

CellStructure

Identificador del acuerdo de subvención: 724489

DOI

10.3030/724489

Proyecto cerrado

Fecha de la firma de la CE 28 Febrero 2017

Fecha de inicio 1 Junio 2017

Fecha de finalización 31 Mayo 2024

Financiado con arreglo a

• EXCELLENT SCIENCE - European Research Council (ERC)

Coste total

€ 1 686 469,38

Aportación de la UE

€ 1 686 469,38

Coordinado por

UNIVERSITAT WIEN
Austria

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Publicaciones

Peer reviewed articles (33)

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

Autores: 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
Publicado en: Acta Neuropathologica Communications, Vol 7, Iss 1, Pp 1-16 (2019), Edición 5, 2019, ISSN 2051-5960
Editor: BioMed Central
DOI: 10.1101/681064

Implementation of a 4Pi‐SMS super‐resolution microscope

Autores: 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
Publicado en: Nat Protocols, 2021, ISSN 1754-2189
Editor: Nature Publishing Group
DOI: 10.1038/s41596-020-00428-7

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

Autores: Rory M. Power, Aline Tschanz, Timo Zimmermann & Jonas Ries
Publicado en: Nature Protocols, 2024, ISSN 1754-2189
Editor: Nature Publishing Group
DOI: 10.1038/s41596-024-00989-x

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

Autores: J. Ries
Publicado en: Nat Methods, 2020, ISSN 1548-7091
Editor: 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

Autores: 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
Publicado en: Mol Biol Cell, 2021, ISSN 1759-5029
Editor: 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

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

Nanoscale structural organization and stoichiometry of the budding yeast kinetochore

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

How good are my data? Reference standards in superresolution microscopy

Autores: Markus Mund and Jonas Ries
Publicado en: Molecular Biology of the Cell, 2020, ISSN 1939-4586
Editor: AMER SOC CELL BIOLOGY
DOI: 10.1091/mbc.e19-04-0189

Direct observation of motor protein stepping in living cells using MINFLUX

Autores: 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
Publicado en: Science, Edición 15, 2023, ISSN 1095-9203
Editor: AAAS
DOI: 10.1126/science.ade2676

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

Autores: R. Diekmann, M. Kahnwald, A. Schoenit, J. Deschamps, U. Matti, J. Ries
Publicado en: Nat Methods, 2020, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1101/2021.04.16.440125

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

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

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

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

Direct Supercritical Angle Localization Microscopy for Nanometer 3D Superresolution

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

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

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

Clathrin coats partially preassemble and subsequently bend during endocytosis

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

MicroFPGA: an affordable FPGA platform for microscope control

Autores: Joran Deschamps; Christian Kieser; Philipp Hoess; Takahiro Deguchi; Jonas Ries
Publicado en: HardwareX, Vol 13, Iss , Pp e00407- (2023), Edición 8, 2023, ISSN 2468-0672
Editor: Oxford: Elsevier Ltd.
DOI: 10.1016/j.ohx.2023.e00407

Systematic Tuning of Rhodamine Spirocyclization for Super-Resolution Microscopy

Autores: Nicolas Lardon; Nicolas Lardon; Jonas Ries; Elisa D’Este; Mai Tran; Aline Tschanz; Kai Johnsson; Kai Johnsson; Philipp Hoess; Lu Wang; Lu Wang
Publicado en: Journal of the American Chemical Society, Edición 2, 2021, ISSN 0002-7863
Editor: American Chemical Society
DOI: 10.1101/2021.05.20.444797

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

Autores: Yiming Li, Markus Mund, Philipp Hoess, Joran Deschamps, Ulf Matti, Bianca Nijmeijer, Vilma Jimenez Sabinina, Jan Ellenberg, Ingmar Schoen, Jonas Ries
Publicado en: Nature Methods, Edición 15/5, 2018, Página(s) 367-369, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1038/nmeth.4661

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

Autores: Markus Mund, Johannes Albertus van der Beek, Joran Deschamps, Serge Dmitrieff, Philipp Hoess, Jooske Louise Monster, Andrea Picco, François Nédélec, Marko Kaksonen, Jonas Ries
Publicado en: Cell, Edición 174/4, 2018, Página(s) 884-896.e17, ISSN 0092-8674
Editor: Cell Press
DOI: 10.1016/j.cell.2018.06.032

MINFLUX nanoscopy delivers 3D multicolor nanometer resolution in cells

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

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

Autores: 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
Publicado en: Nature Methods, Edición 16/5, 2019, Página(s) 387-395, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1038/s41592-019-0364-4

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

Autores: Yiming Li, Yu-Le Wu, Philipp Hoess, Markus Mund, Jonas Ries
Publicado en: Biomedical Optics Express, Edición 10/6, 2019, Página(s) 2708, ISSN 2156-7085
Editor: The Optical Society
DOI: 10.1364/boe.10.002708

Photoactivation of silicon rhodamines via a light-induced protonation

Autores: Michelle S. Frei, Philipp Hoess, Marko Lampe, Bianca Nijmeijer, Moritz Kueblbeck, Jan Ellenberg, Hubert Wadepohl, Jonas Ries, Stefan Pitsch, Luc Reymond, Kai Johnsson
Publicado en: Nature Communications, Edición 10/1, 2019, ISSN 2041-1723
Editor: 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

Autores: 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
Publicado en: Angewandte Chemie International Edition, Edición 58/37, 2019, Página(s) 13004-13008, ISSN 1433-7851
Editor: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201905685

Nuclear pores as versatile reference standards for quantitative superresolution microscopy

Autores: 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
Publicado en: Nature Methods, Edición 16/10, 2019, Página(s) 1045-1053, ISSN 1548-7091
Editor: Nature Publishing Group
DOI: 10.1038/s41592-019-0574-9

Cost-efficient open source laser engine for microscopy

Autores: Daniel Schröder, Joran Deschamps, Anindita Dasgupta, Ulf Matti, Jonas Ries
Publicado en: Biomedical Optics Express, Edición 11/2, 2020, Página(s) 609, ISSN 2156-7085
Editor: The Optical Society
DOI: 10.1364/boe.380815

EMU: reconfigurable graphical user interfaces for Micro-Manager

Autores: Deschamps, Joran; Ries, Jonas
Publicado en: BMC Bioinformatics, Edición 13, 2020, ISSN 1471-2105
Editor: 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

Autores: 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.
Publicado en: Molecular Cell, Edición 12, 2022, ISSN 1097-4164
Editor: Elsevier
DOI: 10.1016/j.molcel.2022.01.008

Identification of novel synaptonemal complex components in C. elegans

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

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

Autores: Li, Yiming; Buglakova, Elena; Zhang, Yongdeng; Thevathasan, Jervis Vermal; Bewersdorf, Joerg; Ries, Jonas
Publicado en: Optics Letters, Edición 10, 2020, ISSN 0146-9592
Editor: Optical Society of America
DOI: 10.1364/ol.397754

Maximum-likelihood model fitting for quantitative analysis of SMLM data

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

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

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

Quantitative Data Analysis in Single-Molecule Localization Microscopy

Autores: Yu-Le Wu; Aline Tschanz; Leonard Krupnik; Jonas Ries
Publicado en: Trends in Cell Biology, Edición 4, 2020, ISSN 0962-8924
Editor: 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

Autores: 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
Publicado en: bioRxiv, 2023
Editor: bioRxiv
DOI: 10.1101/2023.10.26.564064

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

Autores: R. Diekmann, J. Deschamps, Y. Li, A. Tschanz, M. Kahnwald, U. Matti, J.
Publicado en: bioRxiv, 2021
Editor: bioRxiv

Maximum-Likelihood Model Fitting for Quantitative Analysis of SMLM Data

Autores: Y.-L. Wu, P. Hoess, A. Tschanz, U. Matti, M. Mund, J. Ries
Publicado en: 2021
Editor: bioRxiv
DOI: 10.1101/2021.08.30.456756

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

Autores: M. Mund, A. Tschanz, Y.-L. Wu, F. Frey, J.L. Mehl, M. Kaksonen, O. Avinoam, U.S. Schwarz, J. Ries
Publicado en: bioRxiv, 2021
Editor: bioRxiv
DOI: 10.1101/2021.10.12.463947

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

Autores: Takahiro Deguchi; Jonas Ries
Publicado en: bioRxiv, 2023
Editor: bioRxiv
DOI: 10.1101/2023.10.31.564945

Automated 3D multi-color single-molecule localization microscopy

Autores: Rory M Power; Aline Tschanz; Timo Zimmermann; Jonas Ries
Publicado en: bioRxiv, 2023
Editor: bioRxiv
DOI: 10.1101/2023.10.23.563122

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

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