Publications

2024

An elevated rate of whole-genome duplications in cancers from Black patients
Leanne M. Brown, Ryan A. Hagenson, Tilen Koklič, Iztok Urbančič, Lu Qiao, Janez Strancar, Jason M. Sheltzer
Nature Communications, September 2024 (read more here)


Particulate matter constituents trigger the formation of extracellular amyloid β and Tau -containing plaques and neurite shortening in vitro
Aleksandar Sebastijanović, Laura Maria Azzurra Camassa, Vilhelm Malmborg, Slavko Kralj, Joakim Pagels, Ulla Vogel, Shan Zienolddiny-Narui, Iztok Urbančič, Tilen Koklič, Janez Štrancar
Nanotoxicology, June 2024 (read more here)


Amphiphilic coumarin-based probes for live-cell STED nanoscopy of plasma membrane
Hana Kokot, Boštjan Kokot, Anja Pišlar, Hana Esih, Alen Gabrič, Dunja Urbančič, Rojbin El, Iztok Urbančič, Stane Pajk
Bioorganic Chemistry, June 2024 (read more here)


Effects and avoidance of photoconversion-induced artifacts in confocal and STED microscopy
Anindita Dasgupta, Agnes Koerfer, Boštjan Kokot, Iztok Urbančič, Christian Eggeling, Pablo Carravilla
Nature methods, June 2024 (read more here)



2023

Do lipids tune B cell signaling?
Iztok Urbančič, Christian Eggeling, Erdinc Sezgin
Nature Chemical Biology, March 2023 (read more here)



2021

How to Control Fluorescent Labeling of Metal Oxide Nanoparticles for Artefact-free Live Cell Microscopy
Boštjan Kokot, Hana Kokot, Polona Umek, Katarina Petra van Midden, Stane Pajk, Maja Garvas, Christian Eggeling, Tilen Koklič, Iztok Urbančič, Janez Štrancar
Nanotoxicology, October 2021 (read more here)


Method for controlled tissue theranostics using a single tunable laser source
Rok Podlipec, Jaka Mur, Jaka Petelin, Janez Štrancar, Rok Petkovšek
Biomedical Optics Express, September 2021 (read more here)


Aggregation and mobility of membrane proteins interplay with local lipid order in the plasma membrane of T cells
Iztok Urbančič, Lisa Schiffelers, Edward Jenkins, Weijian Gong, Ana Mafalda Santos, Falk Schneider, Caitlin O’Brien-Ball, Mai Tuyet Vuong, Nicole Ashman, Erdinc Sezgin, Christian Eggeling
FEBS Letters, June 2021 (read more here)


Revealing Inflammatory Indications Induced by Titanium Alloy Wear Debris in Periprosthetic Tissue by Label-Free Correlative High-Resolution Ion, Electron and Optical Microspectroscopy
Rok Podlipec, Esther Punzón-Quijorna, Luka Pirker, Mitja Kelemen, Primož Vavpetič, Rajko Kavalar, Gregor Hlawacek, Janez Štrancar, Primož Pelicon, Samo K. Fokter
Materials, June 2021 (read more here)



2020

Prediction of Chronic Inflammation for Inhaled Particles: the Impact of Material Cycling and Quarantining in the Lung Epithelium
Hana Kokot, Boštjan Kokot, Aleksandar Sebastijanović, Carola Voss, Rok Podlipec, Patrycja Zawilska, Trine Berthing, Carolina Ballester-López, Pernille Høgh Danielsen, Claudia Contini, Mikhail Ivanov, Ana Krišelj, Petra Čotar, Qiaoxia Zhou, Jessica Ponti, Vadim Zhernovkov, Matthew Schneemilch, Zahra Doumandji, Mojca Pušnik, Polona Umek, Stane Pajk, Olivier Joubert, Otmar Schmid, Iztok Urbančič, Martin Irmler, Johannes Beckers, Vladimir Lobaskin, Sabina Halappanavar, Nick Quirke, Alexander P. Lyubartsev, Ulla Vogel, Tilen Koklič, Tobias Stoeger, Janez Štrancar
Advanced Materials, October 2020 (read more here)


Background Reduction in STED-FCS Using a Bivortex Phase Mask
Aurélien Barbotin, Iztok Urbančič, Silvia Galiani, Christian Eggeling, Martin Booth
ACS Photonics, June 2020 (read more here)


Two-photon retinal theranostics by adaptive compact laser source
Rok Podlipec, Jaka Mur, Jaka Petelin, Janez Štrancar, Rok Petkovšek
Applied Physics A, May 2020 (read more here)


Characterization of blood coagulation dynamics and oxygenation in ex-vivo retinal vessels by fluorescence hyperspectral imaging
Rok Podlipec, Zoran Arsov, Tilen Koklič, Janez Štrancar
Journal of Biophonotics, April 2020 (read more here)



2019

New coumarin- and phenoxazine-based fluorescent probes for live-cell STED nanoscopy
Stane Pajk, Hana Majaron, Matej Novak, Boštjan Kokot, Janez Štrancar
European Biophysics Journal, March 2019 (read more here)



2018

Lipid Composition but Not Curvature Is the Determinant Factor for the Low Molecular Mobility Observed on the Membrane of Virus-Like Vesicles
Iztok Urbančič, Juliane Brun, Dilip Shrestha, Dominic Waithe, Christian Eggeling, Jakub Chojnacki
Viruses, August 2018 (read more here)


Surface deposited one-dimensional copper-doped TiO2 nanomaterials for prevention of health care acquired infections
Tilen Koklic, Iztok Urbančič, Irena Zdovc, Majda Golob, Polona Umek, Zoran Arsov, Goran Dražić, Štefan Pintarič, Martin Dobeic, Janez Štrancar
PLoS ONE, July 2018 (read more here)


Nanoparticles Can Wrap Epithelial Cell Membranes and Relocate Them Across the Epithelial Cell Layer
Iztok Urbančič, Maja Garvas, Boštjan Kokot, Hana Majaron, Polona Umek, Hilary Cassidy, Miha Škarabot, Falk Schneider, Silvia Galiani, Zoran Arsov, Tilen Koklic, David Matallanas, Miran Čeh, Igor Muševič, Christian Eggeling, and Janez Štrancar
Nano Letters, July 2018 (read more here)


Aggregation-induced emission spectral shift as a measure of local concentration of a pH-activatable rhodamine-based smart probe
Zoran Arsov, Iztok Urbančič, JanezŠtrancar
Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy, February 2018 (read more here)



2015

Internalization and Accumulation in Dendritic Cells of a Small pH-Activatable Glycomimetic Fluorescent Probe as Revealed by Spectral Detection
Zoran Arsov, Urban Švajger, Janez Mravljak, Stane Pajk, Anita Kotar, Iztok Urbančič, Janez Štrancar, Marko Anderluh
ChemBioChem, October 2015 (read more here)


Protein Corona Prevents TiO2 Phototoxicity
Maja Garvas, Anze Testen, Polona Umek, Alexandre Gloter, Tilen Koklic, Janez Strancar
PLoS ONE, June 2015 (read more here)


Cell-Scaffold Adhesion Dynamics Measured in First Seconds Predicts Cell Growth on Days Scale – Optical Tweezers Study
Rok Podlipec, Janez Štrancar
ACS Appl. Mater. Interfaces, March 2015 (read more here)



2014

Resolving Internal Motional Correlations to Complete the Conformational Entropy Meter
Iztok Urbančič, Ajasja Ljubetič,Janez Štrancar
J. Phys. Chem. Lett., October 2014 (read more here)


Ca2+ switches the effect of PS-containing membranes on Factor Xa from activating to inhibiting: implications for initiation of blood coagulation
Tilen Koklic, Rinku Majumder, Barry R Lentz
Biochemical Journal, September 2014 (read more here)


Molecular Mobility of Scaffolds’ Biopolymers Influences Cell Growth
Rok Podlipec, Selestina Gorgieva, Darija Jurašin, Iztok Urbančič, Vanja Kokol, Janez Štrancar
ACS Appl. Mater. Interfaces, August 2014 (read more here)


Recovering position-dependent diffusion from biased molecular dynamics simulations
Ajasja Ljubetič, Iztok Urbančič, Janez Štrancar
J. Chem. Phys., February 2014 (read more here)



2013

Bleaching-corrected fluorescence microspectroscopy with nanometer peak position resolution
Iztok Urbančič, Zoran Arsov, Ajasja Ljubetič, Daniele Biglino, Janez Štrancar
Optics express, October 2013 (read more here)


Coexistence of Probe Conformations in Lipid Phases—A Polarized Fluorescence Microspectroscopy Study
Iztok Urbančič, Ajasja Ljubetič, Zoran Arsov, Janez Štrancar
Biophysical journal, August 2013 (read more here)



2011

Fluorescence microspectroscopy as a tool to study mechanism of nanoparticles delivery into living cancer cells
Zoran Arsov, Iztok Urbančič, Maja Garvas, Daniele Biglino, Ajasja Ljubetič, Tilen Koklič, Janez Štrancar
Biomedical optics express, August 2011 (read more here)


Nitroxide–fluorophore double probes: a potential tool for studying membrane heterogeneity by ESR and fluorescence
Stane Pajk, Maja Garvas, Janez Štrancar, Slavko Pečar
Organic & Biomolecular Chemistry, March 2011 (read more here)



2010

Effects of different detachment procedures on viability, nitroxide reduction kinetics and plasma membrane heterogeneity of V-79 cells
Urška Batista, Maja Garvas, Marjana Nemec, Milan Schara, Peter Veranič, Tilen Koklic
Cell Biology International, June 2010 (read more here)


Conformational analysis of the partially disordered measles virus NTAIL-XD complex by SDSL EPR spectroscopy
Aleh Kavalenka, Iztok Urbančič, Valérie Belle, Sabrina Rouger, Stéphanie Costanzo, Sandra Kure, André Fournel, Sonia Longhi, Bruno Guigliarelli, Janez Strancar
Biophysical journal, March 2010 (read more here)



2009

SDSL-ESR-based protein structure characterization
Janez Štrancar, Aleh Kavalenka, Iztok Urbančič, Ajasja Ljubetič, Marcus A. Hemminga
European Biophysics Journal, August 2009 (read more here)