Publications by Tomas Lukes | EPFL Graph Search

Open-source microscope add-on for structured illumination microscopy

Matthias Lütolf, Theo Lasser, Aleksandra Radenovic, John McKinney, Georg Fantner, Olivier François Venzin, Mélanie Thérèse Marie Hannebelle, Tomas Lukes, Samuel Mendes Leitão, Antonius Chrisnandy, Chiara Toniolo, Andrew Charles Oates, Prabhu Prasad Swain, Nathan Cyprien Arsène Ronceray

Super-resolution techniques expand the abilities of researchers who have the knowledge and resources to either build or purchase a system. This excludes the part of the research community without these capabilities. Here we introduce the openSIM add-on to ...

Nature Portfolio2024

Smoothness correction for better SOFI imaging

Tomas Lukes

Sub-diffraction or super-resolution fluorescence imaging allows the visualization of the cellular morphology and interactions at the nanoscale. Statistical analysis methods such as super-resolution optical fluctuation imaging (SOFI) obtain an improved spat ...

NATURE RESEARCH2021

Spectral cross-cumulants for multicolor super-resolved SOFI imaging

Marcel Leutenegger, Theo Lasser, Aleksandra Radenovic, Adrien Charles-François Raymond Descloux, Tomas Lukes, Kristin Stefanie Grussmayer

Super-resolution opticalfluctuation imaging provides a resolution beyond the diffraction limitby analysing stochasticfluorescencefluctuations with higher-order statistics. Usingnthorderspatio-temporal cross-cumulants the spatial resolution and the sampling ...

Nature Research2020

Self-Blinking Dyes Unlock High-Order and Multiplane Super-Resolution Optical Fluctuation Imaging

Theo Lasser, Aleksandra Radenovic, Tomas Lukes, Kristin Stefanie Grussmayer

Most diffraction-unlimited super-resolution imaging critically depends on the switching of fluorophores between at least two states, often induced using intense laser light and specialized buffers or UV radiation. Recently, so-called self-blinking dyes tha ...

AMER CHEMICAL SOC2020

High-speed multiplane structured illumination microscopy of living cells using an image-splitting prism

Theo Lasser, Aleksandra Radenovic, Adrien Charles-François Raymond Descloux, Tomas Lukes, Vytautas Navikas

Super-resolution structured illumination microscopy (SR-SIM) can be conducted at video-rate acquisition speeds when combined with high-speed spatial light modulators and sCMOS cameras, rendering it particularly suitable for live-cell imaging. If, however, ...

2020

Identifying microbial species by single-molecule DNA optical mapping and resampling statistics

Theo Lasser, Aleksandra Radenovic, Adrien Charles-François Raymond Descloux, Arno Pino Bouwens, Tomas Lukes, Jochem Deen, Kristin Stefanie Grussmayer

Single-molecule DNA mapping has the potential to serve as a powerful complement to high-throughput sequencing in metagenomic analysis. Offering longer read lengths and forgoing the need for complex library preparation and amplification, mapping stands to p ...

2019

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

Michaël Unser, Daniel Sage, Ricardo Henriques, Thanh-An Michel Pham, Thomas Pengo, Seamus John Holden, Tomas Lukes, Anna Archetti, Silvia Colabrese, Anurag Agrawal

With the widespread uptake of two-dimensional (2D) and three-dimensional (3D) single-molecule localization microscopy (SMLM), a large set of different data analysis packages have been developed to generate super-resolution images. In a large community effo ...

2019

Imaging tissues and cells beyond the diffraction limit with structured illumination microscopy and Bayesian image reconstruction

Tomas Lukes, Jakub Pospisil

Background: Structured illumination microscopy (SIM) is a family of methods in optical fluorescence microscopy that can achieve both optical sectioning and super-resolution effects. SIM is a valuable method for high-resolution imaging of fixed cells or tis ...

Oxford University Press (OUP)2019

Influence of Artificially Generated Interocular Blur Difference on Fusion Stability Under Vergence Stress

Tomas Lukes

The stability of fusion was evaluated by its breakage when interocular blur differences were presented under vergence demand to healthy subjects. We presumed that these blur differences cause suppression of the more blurred image (interocular blur suppress ...

2019

Combined Multi-Plane Tomographic Phase Retrieval and Stochastic Optical Fluctuation Imaging for 4D Cell Microscopy

Marcel Leutenegger, Theo Lasser, Hilal Lashuel, Adrien Charles-François Raymond Descloux, Emrah Bostan, Arno Pino Bouwens, Anne-Laure Mahul Mellier, Tomas Lukes

Super-resolution fluorescence microscopy provides unprecedented insight into cellular and subcellular structures. However, going beyond the diffraction barrier comes at a price since most far-field super-resolution imaging techniques trade temporal for spa ...

Nature Publishing Group2018

Quantitative super-resolution single molecule microscopy dataset of YFP-tagged growth factor receptors

Theo Lasser, Tomas Lukes, Jakub Pospisil

2018

Superresolved synthetic aperture microscope

Theo Lasser, Adrien Charles-François Raymond Descloux, Daniel Pawel Szlag, Tomas Lukes

Optical system comprising a synthetic aperture generating unit; said synthetic aperture generating unit being adapted for generating several apertures, which are correlated by interference for improving contrast and/or resolution based on the interference ...

2017

Quantifying protein densities on cell membranes using super-resolution optical fluctuation imaging

Theo Lasser, Tomas Lukes

Surface molecules, distributed in diverse patterns and clusters on cell membranes, influence vital functions of living cells. It is therefore important to understand their molecular surface organisation under different physiological and pathological condit ...

Nature Research2017

Combining PALM and SOFI for quantitative imaging of focal adhesions in living cells

Theo Lasser, Aleksandra Radenovic, Lely Feletti, Azat Sharipov, Hendrik Georges Deschout, Tomas Lukes

Focal adhesions are complicated assemblies of hundreds of proteins that allow cells to sense their extracellular matrix and adhere to it. Although most focal adhesion proteins have been identified, their spatial organization in living cells remains challen ...

Spie-Int Soc Optical Engineering2017

Complementarity of PALM and SOFI for super-resolution live-cell imaging of focal adhesions

Marcel Leutenegger, Theo Lasser, Aleksandra Radenovic, Lely Feletti, Daniel Pawel Szlag, Azat Sharipov, Hendrik Georges Deschout, Tomas Lukes

Live-cell imaging of focal adhesions requires a sufficiently high temporal resolution, which remains a challenge for super-resolution microscopy. Here we address this important issue by combining photoactivated localization microscopy (PALM) with super-res ...

Nature Publishing Group2016

SIMToolbox: a MATLAB toolbox for structured illumination fluorescence microscopy

Tomas Lukes

SIMToolbox is an open-source, modular set of functions for MATLAB equipped with a user-friendly graphical interface and designed for processing two-dimensional and three-dimensional data acquired by structured illumination microscopy (SIM). Both optical se ...

Oxford University Press2016

Three-dimensional super-resolution structured illumination microscopy with maximum a posteriori probability image estimation

Tomas Lukes

We introduce and demonstrate a new high performance image reconstruction method for super-resolution structured illumination microscopy based on maximum a posteriori probability estimation (MAP-SIM). Imaging performance is demonstrated on a variety of fluo ...

Optical Society of America2014