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Advanced BiomEdical OPTICAL Imaging and Data Analysis

Periodic Reporting for period 1 - BE-OPTICAL (Advanced BiomEdical OPTICAL Imaging and Data Analysis)

Reporting period: 2015-10-01 to 2017-09-30

Biomedical imaging is a research field that is producing ground breaking scientific discoveries that enhance the health and life quality of European citizens and have a huge economic impact. In order to maintain Europe’s leading position in the field, it is crucial to invest in the people who will lead research and development, and to promote the academic-private sector partnerships that will transfer the novel technologies to the market.

By training a new generation of researchers, by developing cutting-edge science, and by engaging in long-term collaborations, BE-OPTICAL will not only strengthen the European position in the field of biomedical imaging, but it will also bring direct societal returns through improved health care services.

The main objective of the BE-OPTICAL project is to provide top-class multi-skill training to 14 early stage researchers (ESRs) on optical imaging techniques (super-resolution fluoresce microscopy –WP1, high-resolution cardiac imaging –WP2, ophthalmic imaging –WP3), and on optical components and image data analysis methods –WP4.
Organized training events

1. The first School on Fundamentals of Biophotonics, Imaging, and Cardiac Electrophysiology took place during the week 14-18 November 2016 in the Max Planck Institute for Dynamics and Self Organization (Gottingen, Germany). The school was organized by Prof. Ulrich Parlitz. Information can be found here:

2. The second School on High Resolution Optical Imaging, Tissue Optics and Data Analysis took place during the week 2-5 May 2017 in Nicolas Copernicus University (Torun, Poland). The school was organized by Prof. Ireneusz Grulkowski. Information can be found here:

3. The first BE-OPTICAL workshop took place during the week 25-29 September 2017 in Pollentia Club Resort (Alcudia, Mallorca, Spain). The workshop was co-located with the project Mid-Term review and the conference “Biophysics by the Sea: Fluorescence Spectroscopy, Microscopy and Molecular Cell Mechanics and Theoretical Neurophysics”, organized by Dr. Anna Chizhik and Prof. Jörg Enderlein. Information can be found here:

Work carried by Work Package

Work Package 1: Super-resolution optical imaging for the analysis of cellular processes

This WP involves the work of three ESRs. Soheil Mojiri (ESR1 at Georg August University, Germany) research is aimed at advancing biomedical imaging technologies by a combination of super-resolution optical fluctuation imaging (SOFI) and light sheet fluorescence microscopy (LSFM).

Adrià Escobet (ESR 2 at University of St. Andrews, UK) research is focused on the development of a new disruptive technology that will allow imaging microscopic fluorescent samples through hundreds of microns of turbid media and tissue without aberration correction.

Mariano Gonzalez Pisfil (ESR 3 at PQ, Germany) research is aimed at developing a way to track dynamics of multi-stained samples in super-resolution microscopy. The project combines two main microscopy fields: fluorescence lifetime and super-resolution microscopy.

Work package 2: High-resolution optical imaging of cardiac tissue

This WP involves the work of four ESRs. Vineesh Kappadan (ESR 4 at MPI, Germany) research is focused on understanding the dynamics of animal hearts during lethal heart rhythm disorders by simultaneously recording the electrical and mechanical activity of heart by using fluorescent imaging technique.

Raul Quiñonez Uribe (ESR 5, also at MPI, Germany) is using optogenetics to study the electrical activity of the heart and has built a setup to achieve panoramic stimulation of the heart, which is the first step for structured illumination.

Setegn Ayalew (ESR 6 at the University of Glasgow, UK) research is aimed at improving a multi-photon laser scanning microscopy technique applied to cardiac myocardium.

Michał Hamkało (ESR 7 at NCU, Poland) project is focused on OCT (Optical Coherence Tomography) imaging of the heart. The goal of the project is to build the long-depth-range Megahertz OCT for structural and functional cardiac imaging.

Work package 3: Advanced instrumentation for ophthalmic imaging

This WP involves the work of three ESRs. Tommaso Alterini (ESR 8 at UPC, Spain) research is aimed at the development of a novel fast LED-based hyperspectral imaging system to investigate both the spatial and the spectral properties of the ocular fundus. The system will provide much more spectral information than common fundus cameras.

Ana Rodriguez (ESR 9 at IMO, Spain) research is aimed at improving existing optical technologies for early diagnosis of ocular pathologies and making them accessible in the clinical practice. More specifically, the ESR is working in the development of an optoelectronic instrument for visual performance diagnosis that incorporates an OCT system.

Alfonso Jiménez (ESR 10 at NCU, Poland) project is focused on the development of novel methods and instruments for ocular ima
"The project has developed several prototypes of novel imaging instruments (Prototype of a combined SOFI-Light-Sheet microscope, see Deliverable D1.1; Prototype of Airy beam Light-Sheet microscope, see Deliverable D1.2; and Prototype SS-OCT instrument for heart imaging, D2.5) and several others are in progress and will be finalized within the next two years of the project. Novel image analysis algorithms have been developed and a patent application is in progress (""Image processing method for glaucoma detection and computer program products thereof"", by Universitat Politecnica de Catalunya, Max Planck Society and Institute de Microcirugia Ocular, IMO)."
Group picture of BE-Optical second school
super-resolution SOFI image (WP1)
Experimental comparison of speckle in double-pass images (WP4)
Group picture of BE-Optical first workshop and mid-term review
Group picture of BE-Optical first school
OCT image of rabbit heart (WP2)
Implementation of hyperspectral fundus camera (WP3)