Tomáš Čižmár

 

Tomáš Čižmár leads the group of Complex Photoonics at ISI. Although his scientific background is Physics, throughout his scientific career he took part in a variety of inter-disciplinary projects in Bio-Medical Photonics, mostly related to optical manipulation, digital holography, microscopy and cell biology. His recent research activities are focused on Photonics in random environments and highly turbid media such as biological tissues or multimode waveguides.

  • 2017 onwards
    • Head of the Complex Photonics lab at ISI CAS Brno
    • Head of the Fibre Optics division at Leibniz-IPHT Jena
    • Professor in Waveguide optics, Friedrich-Schiller University Jena
  • 2013 2017 - Reader in Physics & Life Sciences, University of Dundee, Scotland, UK
  • 2010 - 2013 - Academic research fellow at School of Medicine, University of St Andrews, Scotland, UK
  • 2007 - 2010 - PDRA at School of Physics and Astronomy, University of St Andrews, Scotland, UK
  • 2003 - 2006 - PhD at the Institute of Scientific Instruments & Masaryk University, Brno, Czechia

CV

Tel.: +420 541 514 131

E-mail: cizmart@isibrno.cz

Johanna Traegaardh

Johanna Trägårdh is the leader of the workpackage focused on label-free imaging with chemical contrast. Her research is focused on instrument and method development for imaging and spectroscopy applications. Specifically, for studying light matter interaction at the nanoscale and bio-imaging.
As a postdoc at the University of Bristol she developed an instrument that combined NSOM with crossed beam spectral interferometry for characterising ultrafast light propagation in photonics structures. As a postdoc at the Centre for Biophotonics at the University of Strathclyde, she developed excitation sources and methods for bioimaging. This included e.g. a source for third harmonic generation (THG) imaging in thick brain tissue. She was also part of the team developing the Mesolens, which is a novel instrument for (confocal) imaging over a large field of view with subcellular resolution.

 

  • 2008 PhD, Lund University/LTH, Lund, Sweden (Optical spectroscopy of single nanowires)
  • 2008-2009 Postdoc at Lund University/LTH
  • 2009-2013 Postdoc at University of Bristol, UK
  • 2013-2016 Postdoc at University of Strathclyde, UK
  • 2016-current Postdoc at Institute of Scientific Instruments of the CAS, Brno, Czech Republic

CV

Tel.: +420 541 514 133

E-mail: johanna@isibrno.cz

Tomáš Pikálek

Tomas Pikalek studied Physical Engineering and Nanotechnology at Brno University of Technology. Currently working on his PhD on multiphoton and non-linear Raman imaging through a multimode fiber.
 

 

Tel.: +420 541 514 240

E-mail: tpikalek@isibrno.cz

 

Hana Uhlířová

Hana Uhlířová is leading the work focused on deep brain tissue imaging within the workpackage of in vivo endoscopy. Her background is in engineering and optics but she always has been interested in biological applications of optical imaging technology. In her research career she has been focused on investigation of brain function, specifically on communication between different types of cells and vessels in the basic response of brain to a stimulus – the hemodynamic response. Now, she would like to use high-resolution endoscopes to investigate these mechanisms in deep brain tissue such as hippocampus in awake animals.

 

  • 2018 onwards    Scientist, Institute of Scientific Instruments of the CAS, Brno, CR
  • 2015-2017     Junior researcher, CEITEC BUT, Brno University of Technology, Brno, CR
  • 2011-2015     Postdoc, University of California San Diego, CA, USA.
  • 2010-2011     Research Assistant, Brno University of Technology, Brno, CR.
  • 2006-2010     PhD, Brno University of Technology, Brno, CR

CV

Tel.: +420 541 514 340

E-mail: huhlirova@isibrno.cz

 

Petra Ondráčková

Petra Ondráčková has a PhD in veterinary immunology and experience with in vivo experiments. Previous research interests included mostly studies of biology of phagocytes, ontogeny of the immune system and use of primary cell cultures in various animal species . Methods used included flow cytometry, immunohistochemistry, immunofluorescence, chemiluminescence and qPCR. At the current project Petra is responsible for animal surgery and in vivo experiments.

Tel.: +420 541 514 340

E-mail: ondrackova@isibrno.cz 

 

Hana Štolzová

Hana Štolzová is a student of engineering and optics. She introduced herself to the field of fiber optics in the year 2017, working in a Complex Photonics group led by prof. Tomáš Čižmár. Since then she continued her research focused on limitations of fiber imaging. Currently she is working on her PhD project, improvement of the multimode fiber imaging techniques for in-vivo medical applications.

 

  • 2018 onwards    PhD student, Institute of Scientific Instruments of the CAS, Brno, CR
  • 2017-2018     Research assistant, Institute of Scientific Instruments of the CAS, Brno, CR
  • 2016-2018     Master’s degree, Optics and Precise mechanics, Brno University of Technology

Tel.: +420 541 514 340

E-mail: stolz@isibrno.cz

 

Tereza Tučková

Tereza Tučková is a PhD student, participate in a group focusing on In vivo application of Holographic endoscopy. She studied at Masaryk University Brno Molecular Biophysics.

 

  • 2017 onwards    Researcher - PhD student, Institute of Scientific Instruments of the   CAS, v. v. i.
  • 2017 onwards    PhD programme, Central European Institute of Technology Brno, University of Technology (CEITEC BUT), Programme: Advanced Materials and Nanosciences
  • 2016                  Master's degree, Masaryk University Brno, Faculty of Science, Department of Condensed Matter Physics, Programme: Physics - Molecular Biophysics.

Tel.: +420 541 514 340

E-mail: tuckovat@isibrno.cz

 

Miroslav Stibůrek

Miroslav Stibůrek is a PhD student, participate in a group focusing on In vivo application of Holographic endoscopy. He studied at Brno University of Technology Biomedical Engineering and Bioinformatics.

  • 2019 onwards    PhD student, Institute of Scientific Instruments of the CAS, Brno, CR
  • 2017-2019         Master’s degree, Biomedical Engineering and Bioinformatics, Brno University of Technology

Tel.: +420 541 514 134

E-mail: stiburek@isibrno.cz

Martin Šiler

Martin Šiler is a co-leader of advanced technologies work-package. His background is in the area of optical tweezers where he performed both theoretical as well as experimental studies in various types of tailored light fields, such as evanescent waves, optical vortices or tractor beams. His main activities combined advanced analysis of trapped particle random motion, simulations and studies of stochastic behavior in unstable systems. He also takes part in employing artificial intelligence algorithms for identification of bacterial species using Raman spectroscopy and creates user-friendly graphic interfaces for advanced data processing.

 

  • 2015 onwards    Scientist, Institute of Scientific Instruments of the CAS
  • 2009-2015     Postdoc, Institute of Scientific Instruments of the CAS
  • 2006-2010     PhD, Institute of Scientific Instruments of the CAS & Masaryk University Brno

Tel.: +420 541 514 240

E-mail: siler@isibrno.cz

 

Petr jákl

Petr Jákl is a co-leader of work-package of advanced technology. His background is Physical Engineering with specialization in Photonics. Main part of his career he was involved in advanced optical micromanipulation techniques, mainly design and building of complex optical setups, experiment automation and processing the results. His main activities dealt with holographic optical tweezers, sorting of both living and non-living objects in interference fields, arrays of optical vortices and photopolymerization techniques.

 

  • 2009 onwards    Scientist, Institute of Scientific Instruments of the CAS
  • 2005-2009     Postdoc, Institute of Scientific Instruments of the CAS
  • 1998-2005     PhD, Institute of Scientific Instruments of the CAS & Faculty of Mechanical Engineering of the BUT, thesis “Microscopy with optically held local probe”

Tel.: +420 541 514 402

E-mail: jakl@isibrno.cz

 

Angel Cifuentes

Angel Cifuentes works on the advanced technology work package. His background includes photothermal techniques, instrument development and non-destructive testing. He has been involved in the design and implementation of several experimental setups using high power lasers, ultrasonic excitation and infrared imaging. He also has experience in data and image processing, algorithm development and electronic instrumentation.

 

  • 2018 onwards    Scientist, Institute of Scientific Instruments of the CAS, Brno
  • 2017-2018    Postdoctoral fellow, National Polytechnic Institute, Research Centre for Applied Science and Advanced Technology, Mexico City, Mexico
  • 2003-2017    PhD, University of The Basque Country, Faculty of Engineering, Bilbao, Biscay, Spain & National Polytechnic Institute, Research Centre for Applied Science and Advanced Technology, Mexico City, Mexico.

Tel.: +420 541 514 259

E-mail: cifuentes@isibrno.cz

 

Stephen Simpson

Stephen Simpson works on the theoretical work package. Previous activities range from astrophysical plasmas to optical forces, non-equilibrium thermodynamics and near-field optics. My current focus is on facilitating research on the linear propagation of light in ideal multi-mode fibers, on the effects of small deformations or other perturbations (with Prof. Tomáš Tyc, Masaryk University, Brno), and on optical fiber calibration and optical mode processing (with Dr. David Phillips, University of Exeter, UK). Drawing these research strands together will contribute to the development of the broad spectrum of fiber based imaging techniques featured in other work packages.

 

  • 2014 onwards    Scientist, Institute of Scientific Instruments of the CAS
  • 2003-2014    PDRA University of Bristol, UK – in the schools of Physics and Chemistry.
  • 1999-2003    Scientist, Marconi optical components
  • 1999             PhD in near field optics, University of Bristol UK.

Tel.: +420 541 514 132

E-mail: simpson@isibrno.cz

 

Tomáš Tyc

Tomáš Tyc is a professor at Masaryk University in Brno, Czechia. He has been interested in a variety of topics in his research, ranging from electron and quantum optics, theory of invisible cloaking and absolute optical instruments to imaging by optical fibres. Apart from his research, he popularizes science at his shows "Physics as an adventure" and on public media.

 

  • 2013 and 2014    Visiting professor, University of Dundee, Scotland
  • from  2009     professor (chair), Masaryk University in Brno
  • 2007, 2008, 2010, 2011, 2012   Research Fellow and Visiting professor
  • 2006-2009     associate professor, Masaryk University in Brno, University of St Andrews, Scotland
  • 2004              Research fellow at University of Calgary, Canada
  • 2000, 2001    Research fellow at Macquarie University, Sydney, Australia
  • 2000-2006     assistant professor, Masaryk University in Brno
  • 1996-1999     PhD, Masaryk University in Brno

CV

Tel.: +420 541 514 132

E-mail: tomtyc@isibrno.cz

 

Soňa Palečková

Soňa Palečková is an administrative support of the project and takes care of organizing visits, travels and seminars. She studied Secondary Industrial School of Textile in Brno and worked on administrative positions in companies like Honeywell, Infosys, Marzotto or PPG Industries.  

Tel.: +420 541 514 131

E-mail: sona@isibrno.cz