Five-Dimensional Localization Microscopy for Sub-Cellular Dynamics

Project Information

5D-NanoTrack

Grant agreement ID: 802567

DOI

10.3030/802567

Project closed

EC signature date 2 October 2018

Start date 1 November 2018

End date 30 April 2024

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 802 500,00

EU contribution

€ 1 802 500,00

Coordinated by

TECHNION - ISRAEL INSTITUTE OF TECHNOLOGY
Israel

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (21)

All-in-focus large-FOV GRIN lens imaging by multi-focus image fusion

Author(s): Dafei Xiao, Zhige Lin, and Yoav Shechtman
Published in: Optics Continuum, 2023, ISSN 2770-0208
Publisher: Optics continuum
DOI: 10.1364/optcon.500503

Automated Analysis of Fluorescence Kinetics in Single-Molecule Localization Microscopy Data Reveals Protein Stoichiometry

Author(s): Alon Saguy, Tim N. Baldering, Lucien E. Weiss, Elias Nehme, Christos Karathanasis, Marina S. Dietz, Mike Heilemann, Yoav Shechtman
Published in: The Journal of Physical Chemistry B, 2021, ISSN 1520-5207
Publisher: American Chemical Society
DOI: 10.1021/acs.jpcb.1c01130

DeepOM: single-molecule optical genome mapping via deep learning

Author(s): Yevgeni Nogin, Tahir Detinis Zur, Sapir Margalit, Ilana Barzilai, Onit Alalouf, Yuval Ebenstein, Yoav Shechtman
Published in: Bioinformatics, 2023, ISSN 1367-4811
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btad137

3D printable diffractive optical elements by liquid immersion

Author(s): Reut Orange-Kedem, Elias Nehme, Lucien E. Weiss, Boris Ferdman, Onit Alalouf, Nadav Opatovski, Yoav Shechtman
Published in: Nature Communications, Issue 12/1, 2021, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-23279-6

OM2Seq: Learning retrieval embeddings for optical genome mapping

Author(s): Yevgeni Nogin, Danielle Sapir, Tahir Detinis Zur, Nir Weinberger, Yonatan Belinkov, Yuval Ebenstein, Yoav Shechtman
Published in: Bioinformatics Advances, 2024, ISSN 2635-0041
Publisher: Oxford University Press
DOI: 10.1093/bioadv/vbae079

Multiplexed PSF Engineering for Three-Dimensional Multicolor Particle Tracking

Author(s): Nadav Opatovski, Yael Shalev Ezra, Lucien E. Weiss, Boris Ferdman, Reut Orange-Kedem, and Yoav Shechtman
Published in: Nano Letters, 2021, ISSN 1530-6992
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.1c02068

Learning optimal wavefront shaping for multi-channel imaging

Author(s): Elias Nehme, Boris Ferdman, Lucien Weiss, Tal Naor, Daniel Freedman, Tomer Michaeli, Yoav Shechtman
Published in: IEEE Transactions on Pattern Analysis and Machine Intelligence, Issue vol. 43, no. 7, pp. 2179-2192, 2021, Page(s) 1-1, ISSN 0162-8828
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tpami.2021.3076873

Deep-ROCS: from speckle patterns to superior-resolved images by deep learning in rotating coherent scattering microscopy

Author(s): Alon Saguy, Felix Jünger, Aviv Peleg, Boris Ferdman, Elias Nehme, Alexander Rohrbach, and Yoav Shechtman
Published in: Optics Express, 2021, ISSN 1094-4087
Publisher: Optical Society of America
DOI: 10.1364/oe.424730

Microscopic scan-free surface profiling over extended axial ranges by point-spread-function engineering

Author(s): Racheli Gordon-Soffer, Lucien E. Weiss, Ran Eshel, Boris Ferdman, Elias Nehme, Moran Bercovici, Yoav Shechtman
Published in: Science Advances, Issue 6/44, 2020, Page(s) eabc0332, ISSN 2375-2548
Publisher: science advances
DOI: 10.1126/sciadv.abc0332

Design of optimal labeling patterns for optical genome mapping via information theory

Author(s): Yevgeni Nogin, Daniella Bar-Lev, Dganit Hanania, Tahir Detinis Zur, Yuval Ebenstein, Eitan Yaakobi, Nir Weinberger, Yoav Shechtman
Published in: Bioinformatics, 2023, ISSN 1367-4811
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/btad601

Diffractive optical system design by cascaded propagation

Author(s): Ferdman, Boris; Saguy, Alon; Alalouf, Onit; Shechtman, Yoav
Published in: Optics Express, Issue 3, 2022, ISSN 1094-4087
Publisher: Optical Society of America
DOI: 10.1364/oe.465230

Monocular kilometer-scale passive ranging by point-spread function engineering

Author(s): Nadav Opatovski, Dafei Xiao, Gal Harari, Yoav Shechtman
Published in: Optics Express, 2022, ISSN 1094-4087
Publisher: Optical Society of America
DOI: 10.1364/oe.472150

Multicolor localization microscopy and point-spread-function engineering by deep learning

Author(s): Eran Hershko, Lucien E. Weiss, Tomer Michaeli, Yoav Shechtman
Published in: Optics Express, Issue 27/5, 2019, Page(s) 6158, ISSN 1094-4087
Publisher: Optical Society of America
DOI: 10.1364/oe.27.006158

DeepSTORM3D: dense 3D localization microscopy and PSF design by deep learning

Author(s): Elias Nehme, Daniel Freedman, Racheli Gordon, Boris Ferdman, Lucien E. Weiss, Onit Alalouf, Tal Naor, Reut Orange, Tomer Michaeli, Yoav Shechtman
Published in: Nature Methods, 2020, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-020-0853-5

Three-dimensional localization microscopy in live flowing cells

Author(s): Lucien E. Weiss, Yael Shalev Ezra, Sarah Goldberg, Boris Ferdman, Omer Adir, Avi Schroeder, Onit Alalouf, Yoav Shechtman
Published in: Nature Nanotechnology, Issue 15/6, 2020, Page(s) 500-506, ISSN 1748-3387
Publisher: Nature Publishing Group
DOI: 10.1038/s41565-020-0662-0

VIPR: vectorial implementation of phase retrieval for fast and accurate microscopic pixel-wise pupil estimation

Author(s): Boris Ferdman, Elias Nehme, Lucien E. Weiss, Reut Orange, Onit Alalouf, Yoav Shechtman
Published in: Optics Express, Issue 28/7, 2020, Page(s) 10179, ISSN 1094-4087
Publisher: Optical Society of America
DOI: 10.1364/oe.388248

Quantifying cell cycle dependent chromatin dynamics during interphase by live 3D tracking

Author(s): Tal Naor ,Yevgeni Nogin , Elias Nehme , Boris Ferdman, Lucien E. Weiss, Onit Alalouf, Yoav Shechtman
Published in: iScience, 2022, ISSN 2589-0042
Publisher: [Cambridge MA]: Cell Press Elsevier Inc.
DOI: 10.1016/j.isci.2022.104197

Near index matching enables solid diffractive optical element fabrication via additive manufacturing

Author(s): Reut Orange kedem; Nadav Opatovski; Dafei Xiao; Boris Ferdman; Onit Alalouf; Sushanta Kumar Pal; Ziyun Wang; Henrik von der Emde; Michael Weber; Steffen J. Sahl; Aleks Ponjavic; Ady Arie; Stefan W. Hell; Yoav Shechtman
Published in: Light: Science & Applications, Issue 12, 2023, ISSN 2047-7538
Publisher: Light: Science & Applications
DOI: 10.1038/s41377-023-01277-1

Large-FOV 3D localization microscopy by spatially variant point spread function generation

Author(s): Dafei Xiao, Reut Kedem Orange, Nadav Opatovski, Amit Parizat, Elias Nehme, Onit Alalouf, Yoav Shechtman
Published in: Science Advances, 2024, ISSN 2375-2548
Publisher: Science Advances
DOI: 10.1126/sciadv.adj3656

DBlink: Dynamic localization microscopy in super spatiotemporal resolution via deep learning

Author(s): Alon Saguy; Onit Alalouf; Nadav Opatovski; Sooyhen Jang; Mike Heilemann; Yoav Shechtman
Published in: Nature Methods, Issue 8, 2023, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1101/2022.07.01.498428

Depth-enhanced high-throughput microscopy by compact PSF engineering

Author(s): Nadav Opatovski, Elias Nehme, Noam Zoref, Ilana Barzilai, Reut Orange Kedem, Boris Ferdman, Paul Keselman, Onit Alalouf, Yoav Shechtman
Published in: Nature communications, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-48502-y

Other (1)

This microtubule does not exist: Super-resolution microscopy image generation by a diffusion model

Author(s): Alon Saguy, Tav Nahimov, Maia Lehrman, Estibaliz Gómez-de-Mariscal, Iván Hidalgo-Cenalmor, Onit Alalouf, Ricardo Henriques,Yoav Shechtman
Published in: NO JOURNAL TITLE, 2024
Publisher: bioRxiv
DOI: 10.1101/2023.07.06.548004