Conference Agenda

Session Overview
Location: B325
3rd floor, 32 seats
 
Date: Tuesday, 13/Sept/2022
4:30pm - 6:00pmTOM4 S01: Bio-Medical Optics
Location: B325
 
4:30pm - 4:45pm
ID: 142 / TOM4 S01: 1
TOM 4 Bio-Medical Optics

Single-shot 3D endoscopic imaging exploiting a diffuser and neural networks

Julian Lich1, Tom Glosemeyer1, Jürgen Czarske1,2, Robert Kuschmierz1,2

1Laboratory of Measurement and Sensor Systems, TU Dresden, Germany; 2Competence Center for Biomedical Computational Laser Systems (BIOLAS), TU Dresden, Germany

Lens-based endoscopes offer high lateral resolution, but suffer from rigid imaging properties, such as a fixed focal plane. We present a miniaturized 0.5 mm diameter endoscope in which the objective lens is replaced by an optical diffuser. The intensity information of the object space is scattered and passed to a camera via a coherent fibre bundle. The image is reconstructed by a neural network. The field of view and resolution depend on the object distance. 3D-single-shot imaging up to video rate can be enabled. The approach shows great potential for applications like robust 3D fluorescence imaging.



4:45pm - 5:00pm
ID: 216 / TOM4 S01: 2
TOM 4 Bio-Medical Optics

Linearly modulated multi-focal diffractive lens for multi-sheet excitation of flow-driven samples in a light-sheet fluorescence microscope

Meike Hofmann1, Shima Gharbi Ghebjagh1, Chao Fan1, Yuchao Feng1, Karen Lemke2, Stefan Sinzinger1

1Technische Universität Ilmenau, Germany; 2Institut für Bioprozess- und Analysenmesstechnik Heiligenstadt, Germany

Light-sheet fluorescence microscopy (LSFM) with single light-sheet illumination enables rapid 3D-imaging of living cells. In this paper we show the design, fabrication and characterization of a diffractive optical element producing several light sheets along an inclined tube for applications in flow-driven imaging. The element, which is based on a multi-focal Fresnel zone plate and a linear grating, generates in combination with a refractive cylindrical lens five thin light sheets of equal intensity.



5:00pm - 5:15pm
ID: 271 / TOM4 S01: 3
TOM 4 Bio-Medical Optics

C-reactive protein detection using a lensless fibre optic fluorescence sensor

Victoria Esteso1,2, Pietro Lombardi1,2, Francesco Chiavaioli3, Maja Colautti1,2, Steffen Howitz4, Paolo Cecchi5, Mario Agio6, Ambra Giannetti3, Costanza Toninelli1,2

1CNR-INO, Italy; 2LENS, Italy; 3Istituto di Fisica Applicata "Nello Carrara", Italy; CNR-IFAC (Italy); 4GeSiM Gesellschaft fuer Silizium-Mikrosysteme mbH (Germany); 5Cecchi s.r.l. (Italy); 6Univ. Siegen (Germany)

Herein we show a prototype based on a lens-less fibre optic for fluorescence detection of labelled bio-assay which in this work it has been tested for early diagnosis of sepsis through detection of C-reactive protein (CRP) biomarker. In particular the rationalized optical design of the assay substrate allows to improve the coupling among the emitter and the optical fibre while enhancing the collection efficiency of the fluorescence signal for small numerical apertures. The prototype has been tested in a well-stablish and reproducible standard as it is the immunoglobuline IgG/Anti-IgG assay, reporting an enhancement above one order of magnitude compared to a commercial equipment. The limit-of-detection (LOD) achieved with this prototype for the CRP biomarker in matrices mimicking a real sample is in the clinically relevant range for early diagnosis of sepsis. These results demonstrate the validity of this prototype as an affordable, easy-to-use, compatible with micro-well arrays device for sepsis diagnosis ideal for hospital benches. Moreover, it can be extended to other biomarkers and fluid samples.



5:15pm - 5:30pm
ID: 400 / TOM4 S01: 4
TOM 4 Bio-Medical Optics

Physics-informed machine learning for microscopy

Emmanouil Xypakis1,2, Valeria deTuris1, Fabrizio Gala3, Giancarlo Ruocco1, Marco Leonetti1,2,4

1Center for Life Nano- and Neuro-Science, Istituto Italiano di Tecnologia, Viale Regina Elena 291, 00161, Rome, Italy; 2D-TAILS srl, 00161, Rome, Italy; 3Crestoptics S.p.A. (Italy); 4Soft and Living Matter Laboratory, Institute of Nanotechnology, Consiglio Nazionale delle Ricerche, 00185, Rome, Italy

We developed a physics-informed deep neural network architecture able to achieve signal to noise ratio improvement starting from low exposure noisy data. Our model is based on the nature of the photon detection process characterized by a Poisson probability distribution which we included in the training loss function. Our approach surpasses previous algorithms performance for microscopy data, moreover, the generality of the physical concepts employed here, makes it readily exportable to any imaging context.

 

 
Date: Wednesday, 14/Sept/2022
9:00am - 10:30amTOM4 S02: Bio-Medical Optics
Location: B325
 
9:00am - 9:30am
Invited
ID: 405 / TOM4 S02: 1
TOM 4 Bio-Medical Optics

“Random illumination microscopy (RIM) : some advances and biological applications”

Simon Labouesse1, Guillaume Giroussens2, Kevin Affannoukoue2, Claire Estibal1, Renaud Poincloux3, Loïc Le Goffe2, Marc Allain2, Jérome Idier4, Anne Sentenac2, Thomas Mangeat1

1LITC Core Facility, Centre de Biologie Integrative, Université de Toulouse, CNRS, UPS, 31062 Toulouse, France; 2Institut Fresnel, Aix Marseille Université, CNRS, Centrale Marseille, Marseille, France; 3Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, UPS, Toulouse, France; 4LS2N, CNRS UMR 6004, 1 rue de la Noë, F44321 Nantes Cedex 3, France

Current super-resolution microscopy (SRM) methods suffer from an intrinsic complexity that might curtail their routine use in cell biology. We describe here random illumination microscopy (RIM) for live-cell imaging at super-resolutions matching that of 3D structured illumination microscopy, in a robust fashion. Based on speckled illumination and variance matchning process called AlgoRIM [1-2-3], easy to implement and user-friendly, RIM is unaffected by optical aberrations on the excitation side, linear to brightness, and compatible with multicolor live-cell imaging over extended periods of time [1]. AlgoRIM is compatible with various RIM extensions which leads to use one single including TIRF RIM, RIM, mutliplane 3DRIM,exRIM. In the best case a resolution of 76nm is possible in TIRF RIM as well as around 120-140nm on 3D live sample until 100µm depth. The recent technological advances, allow to implement RIM on a basic microscope for a rate of 1300hz in two colors, and a lightened synchronization with the scmos detectors in comparison with the SIM technology.

[1] Mangeat, T., et al,Super-resolved live-cell imaging using Random Illumination Microscopy. Cell Reports Methods, 1(1), 100009.

[2] Labouesse.et al,2020 28th European Signal Processing Conference (EUSIPCO) (pp. 785-789). IEEE.

[3] https://github.com/teamRIM/tutoRIM



9:30am - 10:00am
Invited
ID: 402 / TOM4 S02: 2
TOM 4 Bio-Medical Optics

Phase contrast imaging to detect transparent cells in the retinal ganglion cells layer

Elena Gofas Salas1,2, Nathaniel Norberg2, Céline Louapre3, Ysoline Beigneux3, Catherine Vignal-Clermont2,4, Michel Paques2, Kate Grieve1

1Sorbonne Université, INSERM, CNRS, Institut de la Vision, 17 rue Moreau, F-75012 Paris, France; 2CHNO des Quinze-Vingts, INSERM-DGOS CIC 1423, 28 rue de Charenton, F-75012 Paris, France; 3Sorbonne Université, Paris Brain Institute - ICM, Assistance Publique Hôpitaux de Paris, Inserm, CNRS, Hôpital de la Pitié Salpêtrière, CIC neurosciences, Paris, France; 4Hôpital Fondation Rothschild, Paris, France

The eye is an optical window giving access to neural networks in a non-invasive way. It is possible to find in the retina biomarkers informing about the pathological state of other parts of the human body, and in particular of the brain. Neurodegenerative diseases could thus be diagnosed early and monitored by high-resolution imaging of the retina. However, a large part of the neurons in the retina are too transparent to be detected by existing techniques. At the Quinze-Vingts hospital, we have a unique retinal imaging platform in which ophthalmologists, neurologists and engineers participate. We implemented a technique based on scanning laser ophthalmoscopy (SLO) to capture the fine variations in refractive index between retinal cells. In this project we aimed at imaging and monitor cellular changes on transparent cells in the retinal ganglion cells layer in vivo on healthy participants and patients with neurodegenerative diseases.



10:00am - 10:30am
Invited
ID: 398 / TOM4 S02: 3
TOM 4 Bio-Medical Optics

Wavefront shaping using acousto-optic deflectors allows fast 3D recording of neuronal activity and transcranial imaging

Laurent Bourdieu

CNRS, France

Optically recording unitary neuronal activity with millisecond temporal resolution, in 3D, at large depths and in the behaving animal, is a major challenge in neuroscience. Acousto- optic deflectors (AODs) are known to be fast 2D-scanning devices. We have recently shown that they can be also used a fast beam shaping devices by synchronizing the laser pulses of low-repetition rate laser (typically a 40 kHz regenerative amplifier) with the update of the acoustic pattern in the AODs. In this configuration, the wavefront of every single laser pulse is individually patterned in phase and amplitude. We implemented this technique in a 2 photon microscope to perform (i) fast 3D serial recording at kHz rate of selected individual targets and (ii) transcranial widefield 2D-imaging using aberration and scattering corrections.