Our Publications

The Entomotoxic fungal lectin Marasmius oreades agglutinin disrupts the midgut epithelium of Colorado potato beetle larvae

Tjaša Peternel; Katarina Karničar; Marko Fonović; Dušan Turk

10.1021/acs.jafc.5c16986

Stefin B and cystatin C deficiency suppresses tumor growth and alters tumor microenvironment in a breast cancer model

Petra Matjan Štefin; Dr. Janja Završnik; Dr. Miha Butinar; Georgy Mikhaylov; Boris Turk; Olga Vasiljeva

10.3390/cells15040360

Regulation of HPV-16 infection by ubiquitination of the L1 major capsid protein

Dr. Urška Repnik

10.1128/jvi.00285-26

Protein aggregation in progressive myoclonus epilepsies and related syndromes

Eva Žerovnik

10.37349/en.2026.1006136

Phosphorylation of YBX1 in the kidneys is altered in legumain knockout-mice

Tilen Sever; Tea Sinožić; Matej Kolarič; Boris Turk; Marko Fonović

10.1021/acs.jproteome.6c00105

Persistence and Fab-specific interaction of acyl-protein thioesterase-1 with monoclonal antibodies during downstream processing

Aleksander Krajnc

10.1016/j.pep.2026.106920

PeptideVisualizer : a novel software solution for PROTOMAP analysis

Matej Kolarič; Sara Ivanovski; Tilen Sever; Boris Turk; Marko Fonović

10.1021/acs.jproteome.5c01209

Opposing roles of DGAT-mediated lipid droplet biogenesis in the regulation of ferroptosis sensitivity

Ana Kump

10.1111/febs.70467

Nanometer-precision tracking of adipocyte dynamics via single lipid droplet whispering-gallery optical resonances

Petra Matjan Štefin

10.1021/acssensors.5c03272

MicroICS : predictive phenotyping of Listeria monocytogenes biofilms from three-dimensional structural features

Tjaša Peternel

10.1038/s41522-026-01083-8

Graphlet-based edge weighting for improved community detection in complex networks

Jure Pražnikar

10.1007/s10844-026-01073-4

Fast prediction of protein flexibility

Jure Pražnikar

10.1093/bioinformatics/btag175

Epigenetic evidence implies disturbed proteostasis and potentially protein aggregation in suicidality

Eva Žerovnik

10.3390/biom16050733

Visualization of calpain-1 activation during cell death and its role in GSDMD cleavage using chemical probes

Boris Turk

10.1016/j.chembiol.2025.03.002

Towards the application of nature's catalytic nanomachines : cellulosomes in 2nd generation biofuel production

Nataša Lindič

10.1016/j.biotechadv.2025.108523

Total esterase and paraoxonase activity in human saliva of periodontitis patients and healthy individuals : a pilot study

Dr. Ajda Taler-Verčič

10.1016/j.cbi.2025.111836

Structural and proteomic analysis of the mouse cathepsin B-DARPin 4m3 complex reveals species-specific binding determinants

Miki Zarić; Livija Tušar; Olga Vasiljeva; Matej Novak; Aleksandra Usenik; Dušan Turk; Boris Turk

10.3390/ijms262411910

Structural and functional insights into cellulosomes : masters of plant cell wall degradation

Nataša Lindič

10.3389/fmicb.2025.1638551

Silica-coated SPIONs induce ferroptosis in endothelial cells while oleic acid mitigates their cytotoxic effects

Ana Kump

10.2147/IJN.S548090

Prediction of temperature factors in proteins : effect of data pre-processing and experimental conditions

Jure Pražnikar

10.3390/cryst15050455

Novel nucleus-oriented quenched activity-based probes link cathepsin nuclear localization with mitosis

Boris Turk

10.1021/acssensors.4c03217

Navigating the clinical landscape of liposomal therapeutics in cancer treatment

Andreja Kozak; Georgy Mikhaylov; Boris Turk; Olga Vasiljeva

10.3390/pharmaceutics17020276

Incorporation of recombinant proteins into extracellular vesicles by Lactococcus cremoris

Robert Vidmar

10.1038/s41598-025-86492-z

In vitro functional validation of an anti-FREM2 nanobody for glioblastoma cell targeting

Ana Kump

10.3390/antib14010008

HIV protein Nef expression in human microglia drives the release of distinct Nef-containing extracellular vesicles

Dr. Jure Loboda

10.20517/evcna.2025.106

Fungal lectins show differential antiproliferative activity against cancer cell lines

Katarina Karničar; Dušan Turk

10.1016/j.ijbiomac.2024.139220

Exploring taste sensitivity variation across different dietary patterns : a cross-sectional study

Jure Pražnikar

Engineering unnatural amino acids in peptide linkers enables cathepsin-selective antibody-drug conjugates for HER2-positive breast cancer

Boris Turk

10.1016/j.jconrel.2025.114269

Effects of time-restricted eating (early and late) combined with energy restriction vs. energy restriction alone on the gut microbiome in adults with obesity

Jure Pražnikar

10.3390/nu17142284

Development and application of small molecule-peptide conjugates as cathepsin K-specific covalent irreversible inhibitors in human osteoclast and lung cancer

Dr. Jure Loboda; Boris Turk; Dušan Turk

10.1021/jacsau.4c00840

Cheminformatic analysis of protein surfaces provides binding site insights andinforms identification strategies

Jure Pražnikar

10.1080/17568919.2025.2592531

Cellulase, xylanase, lipase, and protease activities of selected wild mushrooms from Slovenia

Matija Hrovatin

10.14720/abs.68.01.19821

CD74 and proteases : impact of location on immune and cellular functions

Iztok Dolenc

10.3390/cells14241960

Apoptotic caspases-3 and -7 cleave extracellular domains of membrane-bound proteins from MDA-MB-231 breast cancer cells

Eva Vidak; Dr. Matej Vizovišek; Dr. Nežka Kavčič; Dr. Monika Biasizzo; Marko Fonović; Boris Turk

10.3390/ijms26083466

The relationship between climate classes and particulate matters over Europe

Jure Pražnikar

10.1038/s41598-024-80365-7

The early iron age elite grave from the Kapiteljska njiva barrow cemetery (Novo mesto, Slovenia) : an approach to dental profiling through non-invasive and minimally-invasive techniques

Robert Vidmar; Marko Fonović

10.1127/anthranz/2023/1604

Structural elucidation and antiviral activity of covalent cathepsin L inhibitors

Dr. Jure Loboda; Katarina Karničar; Aleksandra Usenik; Nataša Lindič; Andreja Sekirnik; Prof Vito Turk 44bff; Prof. Vito Turk; Dušan Turk

10.1021/acs.jmedchem.3c02351

Peptidases as a therapeutic target in anti-cancer management

Dr. Nežka Kavčič

10.3389/fphar.2024.1394018

New insights into interactions between mushroom aegerolysins and membrane lipids

Matija Hrovatin

10.3390/toxins16030143

Molecular and cellular processes underlying Unverricht-Lundborg disease—prospects for early interventions and a cure

Eva Žerovnik

10.37349/en.2024.00051

Modulation of Campylobacter jejuni adhesion to biotic model surfaces by fungal lectins and protease inhibitors

Katarina Karničar; Dušan Turk

10.3389/fcimb.2024.1391758

Mechanistic insights into CrCEP1 : a dual-function cysteine protease with endo- and transpeptidase activity

Marko Fonović

10.1016/j.ijbiomac.2024.132505

Lysosomal proteases and their inhibitors

Prof Vito Turk 44bff; Prof. Vito Turk; Veronika Stoka

10.3390/ijms251810070

Isolating primary tumor cells from the MMTV-PyMT mouse model and their use in developing an orthotopic mouse model of breast cancer

Andreja Kozak; Olga Vasiljeva; Georgy Mikhaylov

10.1007/978-1-0716-3714-2_6

Identification of acyl-protein thioesterase-1 as a polysorbate-degrading host cell protein in a monoclonal antibody formulation using activity-based protein profiling

Aleksander Krajnc

10.1016/j.xphs.2024.05.013

Exposure to specific fungal lectins during adhesionimpairs biofilm formation of Listeria on polystyrene

Tjaša Peternel; Katarina Karničar; Dr. Ajda Taler-Verčič; Dušan Turk

10.1111/1751-7915.70040

Cysteine cathepsins : from diagnosis to targeted therapy of cancer

Ana E. Rot; Matija Hrovatin; Boris Turk

10.1016/j.biochi.2024.09.001

Cathepsin L-mediated EGFR cleavage affects intracellular signalling pathways in cancer

Dr. Marija Grozdanić; Dr. Barbara Sobotič; Dr. Monika Biasizzo; Tilen Sever; Robert Vidmar; Dr. Matej Vizovišek; Boris Turk; Marko Fonović

10.1515/hsz-2023-0213

Antigenic determinants driving serogroup-specific antibody response to Neisseria meningitidis C, W, and Y capsular polysaccharides : insights for rational vaccine design

Katarina Karničar; Matej Novak; Aleksandra Usenik; Dušan Turk

10.1016/j.carbpol.2024.122349

An engineered M13 filamentous nanoparticle as an antigen carrier for a malignant melanoma immunotherapeutic strategy

Robert Vidmar; Marko Fonović

10.3390/v16020232

Using graphlet degree vectors to predict atomic displacement parameters in protein structures

Jure Pražnikar

10.1107/S2059798323009142

Time-resolved crystallography captures light-driven DNA repair

Dušan Turk

10.1126/science.adj4270

The role of cysteine protease cathepsins B, H, C, and X/Z in neurodegenerative diseases and cancer

Veronika Stoka; Olga Vasiljeva; Prof Vito Turk 44bff; Prof. Vito Turk

10.3390/ijms242115613

Stefin B inhibits NLRP3 inflammasome activation via AMPK/mTOR signalling

Mojca Trstenjak Prebanda; Dr. Monika Biasizzo; Boris Turk; Nataša Kopitar-Jerala

10.3390/cells12232731

Proteomic data and structure analysis combined reveal interplay of structural rigidity and flexibility on selectivity of cysteine cathepsins

Livija Tušar; Dr. Jure Loboda; Robert Vidmar; Dr. Matej Vizovišek; Marko Fonović; Boris Turk; Dušan Turk

10.1038/s42003-023-04772-8

Protein Condensates and Protein Aggregates: In Vitro, in the Cell, and In Silico

Eva Žerovnik

10.31083/j.fbl2808183

Origin and early diversification of the papain family of cysteine peptidases

Prof Vito Turk 44bff; Prof. Vito Turk

10.3390/ijms241411761

Investigation of osteoclast cathepsin K activity in osteoclastogenesis and bone loss using a set of chemical reagents

Dr. Matej Vizovišek; Boris Turk

10.1016/j.chembiol.2023.01.001

Food risk analysis : Towards a better understanding of “hazard” and “risk” in EU food legislation

Livija Tušar

10.3390/foods12152857

Engineered combinatorial cell device for wound healing and bone regeneration

Dr. Miha Butinar; Boris Turk

10.3389/fbioe.2023.1168330

Could gut microbiota composition be a useful indicator of a long-term dietary pattern?

Jure Pražnikar

10.3390/nu15092196

Cellular and humoral immune responsiveness to inactivated Leptospira interrogans in dogs vaccinated with a tetravalent Leptospira vaccine

Andreja Novak

10.1016/j.vaccine.2022.11.017

Calpeptin is a potent cathepsin inhibitor and drug candidate for SARS-CoV-2 infections

Dr. Jure Loboda; Katarina Karničar; Aleksandra Usenik; Nataša Lindič; Andreja Sekirnik; Dušan Turk

10.1038/s42003-023-05317-9

BCL7A is silenced by hypermethylation to promote acute myeloid leukemia

Ana E. Rot

10.1186/s40364-023-00472-x

Autophagy in protists and their hosts: When, how and why?

Boris Turk

10.1080/27694127.2022.2149211

Autophagy and the inflammasome

Dr. Monika Biasizzo; Nataša Kopitar-Jerala

10.1016/B978-0-323-91802-2.00011-6

Apoptotic cell death in disease-current understanding of the NCCD 2023

Boris Turk

10.1038/s41418-023-01153-w

Amyloid formation of Stefin B protein studied by infrared spectroscopy

Eva Žerovnik; Dr. Ajda Taler-Verčič

10.31083/j.fbl2803046

Amyloid fibrils of stefin B show anisotropic properties

Dr. Ajda Taler-Verčič; Eva Žerovnik

10.3390/ijms24043737

A new cathepsin D targeting drug delivery system based on Immunoliposomes functionalized with lipidated pepstatin A

Andreja Kozak; Georgy Mikhaylov; Boris Turk; Olga Vasiljeva

10.3390/pharmaceutics15102464

A bioluminescent-based probe for in vivo non-invasive monitoring of nicotinamide riboside uptake reveals a link between metastasis and NAD[sub]+ metabolism

Georgy Mikhaylov

10.1016/j.bios.2022.114826

Transcriptome and proteome analysis of innate immune responses to inactivated Leptospira and bivalent Leptospira vaccines in canine 030-D cells

Andreja Novak

10.1038/s41598-022-16457-z

The influence of heterochronic non-myeloablative bone marrow transplantation on the immune system, frailty, general health, and longevity of aged murine recipients

Dr. Janja Završnik

10.3390/biom12040595

Myeloid cell–derived proteases produce a proinflammatory form of IL-37 that signals via IL-36 receptor engagement

Boris Turk

10.1126/sciimmunol.ade5728

Late blight resistance conferred by Rpi-Smira2/R8 in potato genotypes in vitro depends on the genetic background

Marinka Horvat

10.3390/plants11101319

Kin discrimination modifies strain distribution, spatial segregation and incorporation of extracellular matrix polysaccharide mutants of Bacillus subtilis strains into mixed floating biofilms

Dr. Barbara Jerič Kokelj

10.1128/aem.00871-22

Interactome screening of C9orf72 dipeptide repeats reveals VCP sequestration and functional impairment by polyGA

Dr. Janja Božič

10.1093/brain/awab300

Coupling CRISPR interference with FACS enrichment : new approach in glycoengineering of CHO cell lines for therapeutic glycoprotein production

Aleksander Krajnc

10.1002/biot.202100499

Activation of canine, mouse and human TLR2 and TLR4 by inactivated leptospira vaccine strains

Andreja Novak

10.3389/fimmu.2022.823058

Cysteine cathepsins: a long and winding road towards clinics

Monika Biasizzo, Urban Javoršek, Eva Vidak, Miki Zarić, Boris Turk

10.1016/j.mam.2022.101150

Human stefin B: from its structure, folding, and aggregation to its function in health and disease

Eva Žerovnik

10.3389/fnmol.2022.1009976

Repozicioniranje zdravil : metformin in valprojska kislina za zdravljenje glioblastoma = Drug repurposing : metformin and valproic acid for glioblastoma treatment

Zala Žužek, Lara Bolčina, Ana Kump, Ivana Jovchevska

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Quantitative analysis of visual codewords of a protein distance matrix

Jure Pražnikar, Nuwan Attygalle

10.1371/journal.pone.0263566

A mini-TGA protein modulates gene expression through heterogeneous association with transcription factors

Špela Tomaž, Marko Petek, Tjaša Lukan, Karmen Pogačar, Katja Stare, Erica Teixeira Prates, Daniel A. Jacobson, Jan Zrimec, Gregor Bajc, Matej Butala, Maruša Pompe Novak, Ajda Taler-Verčič, Aleksandra Usenik, Dušan Turk, Anna Coll Rius, Kristina Gruden, et al.

10.1093/plphys/kiac579

Computational indicator approach for assessment of nanotoxicity of two-dimensional nanomaterials

Alexey A. Tsukanov, Boris Turk, Olga Vasiljeva, Sergey Psakhie

10.3390/nano12040650

Nonclinical efficacy and safety of CX-2029, an anti-CD71 probody–drug conjugate

Shweta Singhal, Olga Vasiljeva, et al.

10.1158/1535-7163.MCT-21-0193

Whole transcriptome expression array analysis of human colon fibroblasts culture treated with Helichrysum italicum supports its use in traditional medicine

Katja Kramberger, Darja Barlič-Maganja, Zala Jenko Pražnikar, Tadeja Režen, Damjana Rozman, Jure Pražnikar, Saša Kenig, et al.

10.1016/j.jep.2022.115505

Noninvasive method for determination of immobilized protein A

Rok Mravljak, Metka Stantič, Ožbej Bizjak, Aleš Podgornik

10.1016/j.chroma.2022.462976

Oleic acid protects endothelial cells from silica-coated superparamagnetic iron oxide nanoparticles (SPIONs)-induced oxidative stress and cell death

Neža Repar, Eva Jarc Jovičić, Ana Kump, Giovanni Birarda, Lisa Vaccari, Andreja Erman, Slavko Kralj, Sebastjan Nemec, Toni Petan, Damjana Drobne

10.3390/ijms23136972

Cocaprins, β-trefoil fold inhibitors of cysteine and aspartic proteases from coprinopsis cinerea

Miha Renko, Tanja Zupan, David F. Plaza, Stefanie S. Schmieder, Milica Perišić, Janko Kos, Dušan Turk, Markus Künzler, Jerica Sabotič

10.3390/ijms23094916

Implementation of food matrix effects into chemical food contaminant risk assessment

Ana-Andreea Cioca, Tomaž Langerholc, Livija Tušar

10.2903/j.efsa.2022.e200905

Antiviral activity of natural phenolic compounds in complex at an allosteric site of SARS-CoV-2 papain-like protease

Vasundara Srinivasan, Dušan Turk

10.1038/s42003-022-03737-7

Praluzatamab ravtansine, a CD166-Targeting antibody–drug conjugate, in patients with advanced solid tumors: an open-label phase I/II trial

Valentina Boni, Olga Vasiljeva

10.1158/1078-0432.CCR-21-3656

Evaluation of novel cathepsin-X inhibitors in vitro and in vivo and their ability to improve cathepsin-B-directed antitumor therapy

Ana Mitrović, Janja Završnik, Georgy Mikhaylov, Damijan Knez, Urša Pečar Fonović, Petra Matjan-Štefin, Miha Butinar, Stanislav Gobec, Boris Turk, Janko Kos

10.1007/s00018-021-04117-w

Circular RNA hsa_circ_0062682 binds to YBX1 and promotes oncogenesis in hepatocellular carcinoma

Rok Razpotnik, Robert Vidmar, Marko Fonović, Damjana Rozman, Tadeja Režen (avtor, korespondenčni avtor)

10.3390/cancers14184524

Theranostic applications of an ultra-sensitive T1 and T2 magnetic resonance contrast agent based on Cobalt ferrite spinel nanoparticles

Georgy Mikhaylov, Urška Mikac, Miha Butinar, Vito Turk, Boris Turk, Sergey Psakhie, Olga Vasiljeva

10.3390/cancers14164026

X-ray screening identifies active site and allosteric inhibitors of SARS-CoV-2 main protease

Katarina Karničar; Aleksandra Usenik; Dr. Jure Loboda; Dušan Turk

10.1126/science.abf7945

Vpliv pralnega praška na rast ječmena

Matija Hrovatin

Vpliv biofortifikacije semen vrtne kreše (Lepidium satvum L.) s cinkom na kaljivost in mineralno sestavo kalčkov

Matija Hrovatin

Viroporins vs. other pore-forming proteins : what lessons can we take

Eva Žerovnik

10.3389/fchem.2021.626059

Thyroxine hormones visualized by the cryo-EM structure of bovine thyroglobulin

Dušan Turk

10.1107/S2059798321011244

Synergy of the inhibitory action of polyphenols plus vitamin C on amyloid fibril formation : case study of human stefin B

Eva Žerovnik

10.3390/antiox10091471

Scaling laws of graphs of 3D protein structures

Jure Pražnikar

10.1142/S021972002050050X

Prediction of transmembrane regions, cholesterol, and ganglioside binding sites in amyloid-forming proteins indicate protential for amyloiy pore formation

Veronika Stoka; Eva Žerovnik

10.3389/fnmol.2021.619496

Prediction of transmembrane regions, cholesterol and ganglioside binding sites in amyloid-forming proteins indicate potential for amyloid pore formation

Veronika Stoka; Eva Žerovnik

10.3389/fnmol.2021.619496

On similarities and differences of HIV and SARS Cov-2 : open questions relevant for COVID-19 diseas

Eva Žerovnik

10.26502/jbb.2642-91280041

Novel ex vivo zymography approach for assessment of protease activity in tissues with activatable antibodies

Olga Vasiljeva

10.3390/ pharmaceutics13091390

Nanomaterials interaction with cell membranes : computer simulation studies

Olga Vasiljeva

Molecular basis of F-actin regulation and sarcomere assembly via myotilin

Prof. Brigita Lenarčič; retired

10.1371/journal.pbio.3001148

Modulated electro-hyperthermia induces a prominent local stress response and growth inhibition in mouse breast cancer isografts

Marko Fonović; Robert Vidmar

10.3390/cancers13071744

Metagenomic characterization of parental and production CHO cell lines for detection of adventitious viruses

Dr. Barbara Jerič Kokelj

10.1016/j.biologicals.2020.11.001

Immunotherapy of glioblastoma: current strategies and challenges in tumor model development

Nataša Kopitar-Jerala

10.3390/cells10020265

Identification of Desmoglein-2 as a novel target of Helicobacter pylori HtrA in epithelial cells

Robert Vidmar; Marko Fonović; Boris Turk

10.1186/s12964-021-00788-x

First-in-human study of the biodistribution and pharmacokinetics of [sup](89)Zr-CX-072, a novel immunopet tracer based on an anti-PD-L1 probody

Olga Vasiljeva

10.1158/1078-0432.CCR-21-0453

Feasibility of droplet digital PCR analysis of plasma cell-free DNA from kidney transplant patients

Dr. Barbara Jerič Kokelj

10.3389/fmed.2021.748668

Določitev spola na podlagi spolno dimorfnih amelogeninskih peptidov v človeški zobni sklenini

Marko Fonović

Cystatin C deficiency increases LPS-induced sepsis and NLRP3 inflammasome activation in mice

Dr. Monika Biasizzo; Mojca Trstenjak Prebanda; Dr. Janja Završnik; Boris Turk; Nataša Kopitar-Jerala

10.3390/cells10082071

Cryo-EM : a new dawn in thyroid biology

Dr. Ajda Taler-Verčič

10.1016/j.mce.2021.111309

Conditional PD-1/PD-L1 probody therapeutics induce comparable antitumor immunity but reduced systemic toxicity compared with traditional anti–PD-1/PD-L1 agents

Olga Vasiljeva

10.1158/2326-6066.CIR-21-0031

Application of lectin immobilized on polyHIPE monoliths for bioprocess monitoring of glycosylated proteins

Metka Stantič

10.1016/j.jchromb.2021.122731

Antitumor efficacy and reduced toxicity using an anti-CD137 Probody therapeutic

Olga Vasiljeva

10.1073/pnas.2025930118

Analyzing the role of proteases in breast cancer progression and metastasis using primary cells from transgenic oncomice

Olga Vasiljeva

10.1007/978-1-0716-1350-4_20

Mechanisms applied by protein inhibitors to inhibit cysteine proteases

TUŠAR, Livija, USENIK, Aleksandra, TURK, Boris, TURK, Dušan

10.3390/ijms22030997

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)

KLIONSKY, Daniel J., STOKA, Veronika, TURK, Boris, TURK, Vito, ŽEROVNIK, Eva, LIPOVŠEK DELAKORDA, Saška, et al.

10.1080/15548627.2020.1797280

Human cathepsin X/Z is a biologically active homodimer.

DOLENC Iztok, KLEMENČIČ Ivica, TURK Dušan, TALER-VERČIČ Ajda, TURK Boris, TURK Vito, STOKA Veronika

10.1016/j.bbapap.2020.140567

Altered expression of peroxiredoxins in mouse model of progressive myoclonus epilepsy upon LPS-induced neuroinflammation

TRSTENJAK-PREBANDA Mojca, MATJAN-ŠTEFIN Petra, TURK Boris, KOPITAR-JERALA Nataša

10.3390/antiox10030357

The tumor targeting performance of anti-CD166 Probody drug conjugate CX-2009 and its parental derivatives as monitored by [sup](89)Zr-immuno-PET in xenograft bearing mice

Olga Vasiljeva

10.7150/thno.44334

The structure of human thyroglobulin

Dr. Ajda Taler-Verčič; Dušan Turk

10.1038/s41586-020-1995-4

The structure of clostridioides difficile SecA2 atpase exposes regions responsible for differential target recognition of the SecA1 and SecA2-dependent systems

Nataša Lindič; Dr. Jure Loboda; Aleksandra Usenik; Robert Vidmar; Dušan Turk

10.3390/ijms21176153

The structure and function of paraoxonase-1 and its comparison to paraoxonase-2 and -3

Dr. Ajda Taler-Verčič

10.3390/molecules25245980

The effects of organophosphates in the early stages of human skeletal muscle regeneration

Dr. Katarina Pegan

The effect of three polyphenols and some other anti-oxidant substances on amyloid fibril formation by human cystatin C

Dr. Sara Pintar; Eva Žerovnik

10.1016/j.neuint.2020.104806

Statistics of a sharp GP2Y low-cost aerosol PM sensor output signals

Jure Pražnikar

10.3390/s20236707

Spatiotemporal proteomics uncovers cathepsin-dependent macrophage cell death during Salmonella infection

Nataša Kopitar-Jerala; Boris Turk

10.1038/s41564-020-0736-7

Obesity measures and dietary parameters as predictors of gut microbiota phyla in healthy individuals

Jure Pražnikar

10.3390/nu12092695

Monitoring protease activity in biological tissues using antibody prodrugs as sensing probes

Olga Vasiljeva

10.1038/s41598-020-62339-7

Intracellular cathepsin C levels determine sensitivity of cells to leucyl-leucine methyl ester-triggered apoptosis

Dr. Nežka Kavčič; Dr. Miha Butinar; Dr. Barbara Sobotič; Dr. Maruša Hafner Česen; Dr. Tina Zavašnik Bergant; Andreja Kozak; Boris Turk

10.1111/febs.15326

Interplay between NLRP3 inflammasome and autophagy

Dr. Monika Biasizzo; Nataša Kopitar-Jerala

10.3389/fimmu.2020.591803

Functional diversity of small nucleolar RNAs

Dr. Janja Božič

10.1093/nar/gkz1140

Epithelial-to-mesenchymal transition as the driver of changing carcinoma and glioblastoma microenvironment

Tilen Sever; Miki Zarić; Boris Turk

10.1016/j.bbamcr.2020.118782

Discovery and molecular characterisation of the first ambidensovirus in honey bees

Sabina Ott

10.14720/aas.2020.116.2.1832

Cysteine cathepsins as therapeutic targets in inflammatory diseases

Dr. Matej Vizovišek; Eva Vidak; Urban Javoršek; Georgy Mikhaylov; Andreja Kozak; Boris Turk

10.1080/14728222.2020.1746765

Current view on EpCAM structural biology

Prof. Brigita Lenarčič; retired

10.3390/cells9061361

Application of crumpled aluminumhydroxide nanostructures for cancertreatment

Georgy Mikhaylov; Prof Vito Turk 44bff; Prof. Vito Turk; Boris Turk; Olga Vasiljeva

Analysis of the RNA virome of basal hexapods

Sabina Ott

10.7717/peerj.8336

Analysis of miR-9-5p, miR-124-3p, miR-21-5p, miR-138-5p, and miR-1-3p in glioblastoma cell lines and extracellular vesicles

Ana Kump

10.3390/ijms21228491

A novel FRET peptide assay reveals efficient Helicobacter pylori HtrA inhibition through zinc and copper binding

Dr. Matej Vizovišek; Marko Fonović; Boris Turk

10.1038/s41598-020-67578-2

In vivo continuous three-dimensional magnetic resonance microscopy: a study of metamorphosis in Carniolan worker honey bees (Apis mellifera carnica)

MOHORIČ, Aleš, BOŽIČ, Janko, MRAK, Polona, TUŠAR, Kaja, CHENYUN, Lin, SEPE, Ana, MIKAC, Urška, MIKHAYLOV, Georgy, SERŠA, Igor

10.1242/jeb.225250

The structure of clostridioides difficile SecA2 atpase exposes regions responsible for differential target recognition of the SecA1 and SecA2-dependent systems

LINDIČ, Nataša, LOBODA, Jure, USENIK, Aleksandra, VIDMAR, Robert, TURK, Dušan

10.3390/ijms21249413

Time-dependent miRNA frofile during septic acute kidney injury in mice

TOD, Pál, RÓKA, Beáta, KAUCSÁR, Tamás, SZATMÁRI, Krisztina, VIZOVIŠEK, Matej, VIDMAR, Robert, FONOVIĆ, Marko, SZÉNÁSI, Gábor, HAMAR, Péter

10.3390/ijms21155316

The acute phase response is a prominent renal proteome change in sepsis in mice

RÓKA, Beáta, TOD, Pál, KAUCSÁR, Tamás, VIZOVIŠEK, Matej, VIDMAR, Robert, TURK, Boris, FONOVIĆ, Marko, SZÉNÁSI, Gábor, HAMAR, Péter

10.3390/ijms21010200

Proteolysis of gingival keratinocyte cell surface proteins by gingipains secreted from Porphyromonas gingivalis – proteomic insights into mechanisms behind tissue damage in the diseased gingiva.

KORENČAN, Katarina, VIZOVIŠEK, Matej, WONG, Alicia, LUBOS-KOZIEŁ, Joanna, FONOVIĆ, Marko, POTEMBA, Barbara, LAMONT, Richard J., POTEMPA, Jan, TURK, Boris

10.3389/fmicb.2020.00722

Domain sliding of two Staphylococcus aureus N-acetylglucosaminidases enables their substrate-binding prior to its catalysis

PINTAR, Sara, BORIŠEK, Jure, USENIK, Aleksandra, PERDIH, Andrej, TURK, Dušan

10.1038/s42003-020-0911-7

Probody therapeutic design of 89Zr-CX-072 promotes accumulation in PD-L1-expressing tumors Compared to normal murine lymphoid tissue

GIESEN, Danique, BROER, Linda N., LUB-DE HOOGE, Marjolijn N., POPOVA, Irina, HOWNG, Bruce, NGUYEN, Margaret, VASILJEVA, Olga, VRIES, Elisabeth G. de, POOL, Martin

10.1158/1078-0432.CCR-19-3137

Assessing autophagy in archived tissue or how to capture autophagic flux from a tissue snapshot

HUMBERT, Magali, ŽEROVNIK

10.3390/biology9030059

Insights into the maturation of pernisine, a subtilisin-like protease from the hyperthermophilic archaeon Aeropyrum pernix

BAHUN, Miha, ŠNAJDER, Marko, TURK, Dušan, POKLAR ULRIH, Nataša

10.1128/AEM.00971-20

Validation and quality assessment of macromolecular structures using complex network analysis

Jure Pražnikar; Dušan Turk

10.1038/s41598-019-38658-9

Upregulation of mitochondrial redox sensitive proteins in lps-treated stefin B-deficient macrophages

Mojca Trstenjak Prebanda; Dr. Janja Završnik; Boris Turk; Nataša Kopitar-Jerala

10.3390/cells8121476

The multifaceted roles of tumor-associated proteases and harnessing their activity for prodrug activation

Olga Vasiljeva

10.1515/hsz-2018-0451

The catalytic domain of cathepsin C (dipeptidyl-peptidase I) alone is a fully functional endoprotease

Prof. Brigita Lenarčič; retired

10.1016/j.pep.2019.01.009

The carboxypeptidase activity of cathepsin X is not controlled by endogenous inhibitors

Prof. Brigita Lenarčič; retired

10.17344/acsi.2018.4427

The alkyne moiety as a latent electrophile in irreversible covalent small molecule inhibitors of cathepsin K

Dr. Jure Loboda; Boris Turk; Dušan Turk

10.1021/jacs.8b11027

Structural elucidation

Livija Tušar

10.1016/B978-0-12-409547-2.10937-0

Stefin A-functionalized liposomes as a system for cathepsins S and L-targeted drug delivery

Andreja Kozak; Georgy Mikhaylov; Olga Vasiljeva; Boris Turk

10.1016/j.biochi.2019.05.018

Prolines affect the nucleation phase of amyloid fibrillation reaction; mutational analysis of human stefin B

Dr. Ajda Taler-Verčič; Dr. Vida Puizdar; retired; Veronika Stoka; Eva Žerovnik

10.1021/acschemneuro.8b00621

Possible mechanisms by which Stefin B could regulate proteostasis and oxidative stress

Eva Žerovnik

10.3390/cells8010070

Pore-forming protein complexes from Pleurotus mushrooms kill western corn rootworm and Colorado potato beetle through targeting membrane ceramide phosphoethanolamine

Miki Zarić

10.1038/s41598-019-41450-4

Nuclear RNA foci from C9ORF72 expansion mutation form paraspeckle-like bodies

Marko Fonović; Boris Turk

10.1242/jcs.224303

New coumarin- and phenoxazine-based fluorescent probes for live-cell STED nanoscopy

Matej Novak

10.1007/s00249-019-01354-7

Microscopy of crustacean cuticle : formation of a flexible extracellular matrix in moulting sea slaters Ligia pallasii

Dr. Urška Repnik

10.1017/S0025315418001017

Menadione-induced apoptosis in U937 cells involves Bid cleavage and stefin B degradation

Dr. Janja Božič; Dr. Katja Bidovec; Dr. Matej Vizovišek; Iztok Dolenc; Veronika Stoka

10.1002/jcb.28356

IQGAP-related protein IqgC suppresses Ras signaling during large-scale endocytosis

Dr. Matej Vizovišek; Marko Fonović; Boris Turk

10.1073/pnas.1810268116

Increased expression and altered subcellular distribution of cathepsin B in microglia induce cognitive impairment through oxidative stress and inflammatory response in mice

Veronika Stoka; Prof Vito Turk 44bff; Prof. Vito Turk

10.1111/acel.12856

Host cell-surface proteins as substrates of gingipains, the main proteases of Porphyromonas gingivalis

Katarina Hočevar; Boris Turk

10.1515/hsz-2018-0215

Feedback regulation of cathepsin C by the Propeptide dipeptides of Granzymes A and B

Dr. Janja Božič; Iztok Dolenc

10.17344/acsi.2019.5192

Degradomics in biomarker discovery

Dr. Marija Grozdanić; Robert Vidmar; Dr. Matej Vizovišek; Marko Fonović

10.1002/prca.201800138

Cysteine cathepsins in extracellular matrix remodeling: Extracellular matrix degradation and beyond : extracellular matrix degradation and beyond

Dr. Matej Vizovišek; Marko Fonović; Boris Turk

10.1016/j.matbio.2018.01.024

Cysteine cathepsins and their extracellular roles : shaping the microenvironment

Eva Vidak; Urban Javoršek; Dr. Matej Vizovišek; Boris Turk

10.3390/cells8030264

Comparative study of the differential cell death protecting effect of various ROS scavengers

Dr. Nežka Kavčič; Dr. Katarina Pegan; Boris Turk

10.1515/hsz-2017-0317

Characterization of legumain degradome confirms narrow cleavage specificity

Robert Vidmar; Dr. Matej Vizovišek; Dušan Turk; Boris Turk; Marko Fonović

10.17344/acsi.2018.4632

Characteristics, structure, and biological role of stefins (type-1 cystatins) of human, mammal, and parasite origin

Prof Vito Turk 44bff; Prof. Vito Turk; Dušan Turk; Iztok Dolenc; Veronika Stoka

10.17344/acsi.2018.4639

Bioluminescent-based imaging and quantification of glucose uptake in vivo

Georgy Mikhaylov

10.1038/s41592-019-0421-z

Vpliv nanodelcev paladija na razvoj kalic enokaličnic in dvokaličnic

Miki Zarić

Slovenija je uspešno zapravila znanstvene in razvojne priložnosti ter pristala na dnu EU - kako naprej

Prof Vito Turk 44bff; Prof. Vito Turk

Selective imaging of cathepsin L in breast cancer by fluorescent activity-based probes

Dr. Matej Vizovišek; Dušan Turk; Boris Turk

10.1039/c7sc04303a

Protease specificity : towards in vivo imaging applications and biomarker discovery

Dr. Matej Vizovišek; Robert Vidmar; Marko Fonović; Boris Turk

10.1016/j.tibs.2018.07.003

Molecular mechanisms of cell death : recommendations of the Nomenclature Committee on Cell Death 2018

Boris Turk

10.1038/s41418-017-0012-4

Lipid droplets induced by secreted phospholipase A[sub]2 and unsaturated fatty acids protect breast cancer cells from nutrient and lipotoxic stress = Eva Jarc ... [et al.]

Ana Kump

10.1016/j.bbalip.2017.12.006

Inhibition of the extrinsic or intrinsic coagulation pathway during pneumonia-derived sepsis

Andreja Novak

10.1152/ajplung.00014.2018

Inhibition of protein aggregation by several antioxidants

Eva Žerovnik

10.1155/2018/8613209

Host cell-surface proteins as substrates of gingipains, the main proteases of Porphyromonas gingivalis

Katarina Hočevar

10.1515/hsz-2018-0215

Glucosamine prevents polarization of cytotoxic granules in NK-92 cells by disturbing FOXO1/ERK/paxillin phosphorylation

Dr. Janja Božič; Veronika Stoka; Iztok Dolenc

10.1371/journal.pone.0200757

From oxidative stress damage to pathways, networks, and autophagy via microRNAs

Eva Žerovnik

10.1155/2018/4968321

EpCAM homo-oligomerization is not the basis for its role in cell-cell adhesion

Andrej Šali; Prof. Brigita Lenarčič; retired

10.1038/s41598-018-31482-7

EpCAM ectodomain EpEX is a ligand of EGFR that counteracts EGF-mediated epithelial-mesenchymal transition through modulation of phospho-ERK1/2 in head and neck cancers

Prof. Brigita Lenarčič; retired

10.1371/journal.pbio.2006624

Discovery of (phenylureido)piperidinyl benzamides as prospective inhibitors of bacterial autolysin E from Staphylococcus aureus

Dr. Sara Pintar; Dušan Turk

10.1080/14756366.2018.1493474

Crumpled aluminum hydroxide nanostructures as a microenvironment dysregulation agent for cancer treatment

Georgy Mikhaylov; Andreja Kozak; Prof Vito Turk 44bff; Prof. Vito Turk; Boris Turk; Olga Vasiljeva

10.1021/acs.nanolett.8b01592

Chimerism and gene therapy - lessons learned from non-conditioned murine bone marrow transplantation models

Dr. Janja Završnik

10.1111/ejh.13024

Application of fragment based virtual screening towards inhibition of bacterial N-acetyglucosaminidase

Dr. Sara Pintar; Dušan Turk

10.1080/1062936X.2018.1504116

A water-assisted catalytic mechanism in glycoside hydrolases demonstrated on the Staphylococcus aureus autolysin E

Dr. Sara Pintar; Dušan Turk

10.1021/acscatal.8b01064

Tumor necrosis factor-[alpha] induced apoptosis in U937 cells promotes cathepsin D-independent stefin B degradation

Dr. Katja Bidovec; Dr. Janja Božič; Iztok Dolenc; Boris Turk; Prof Vito Turk 44bff; Prof. Vito Turk; Veronika Stoka

10.1002/jcb.26152

The role of interferons in inflammation and inflammasome activation

Nataša Kopitar-Jerala

10.3389/fimmu.2017.00873

The mechanism behind the selection of two different cleavage sites in NAG-NAM polymers

Dr. Ajda Taler-Verčič; Dušan Turk

10.1107/S2052252517000367

The future of cysteine cathepsins in disease management

Dušan Turk; Boris Turk

10.1016/j.tips.2017.06.003

The CWB2 cell wall-anchoring module is revealed by the crystal structures of the Clostridium difficile cell wall proteins Cwp8 and Cwp6

Aleksandra Usenik; Nataša Lindič; Gregor Pretnar; Dušan Turk

10.1016/j.str.2016.12.018

Salivary tick cystatin OmC2 targets lysosomal cathepsins S and C in human dendritic cells

Dr. Tina Zavašnik Bergant; Robert Vidmar; Andreja Sekirnik; Marko Fonović; Boris Turk

10.3389/fcimb.2017.00288

Putative alternative functions of human stefin B (cystatin B) : binding to amyloid-beta, membranes, and copper

Eva Žerovnik

10.1002/jmr.2562

Protease cleavage site fingerprinting by label-free in-gel degradomics reveals pH-dependent specificity switch of legumain

Robert Vidmar; Dr. Matej Vizovišek; Dušan Turk; Boris Turk; Marko Fonović

10.15252/embj.201796750

Protean proteases : at the cutting edge of lung diseases

Boris Turk

10.1183/13993003.01200-2015

Proline residues as switches in conformational changes leading to amyloid fibril formation

Dr. Ajda Taler-Verčič; Veronika Stoka; Dušan Turk; Eva Žerovnik

10.3390/ijms18030549

Plasma effects on the bacteria Escherichia coli via two evaluation methods

Dr. Urška Repnik; Dr. Tina Zavašnik Bergant

10.1088/2058-6272/aa656b

Particulate matter time-series and Köppen-Geiger climate classes in North America and Europe

Jure Pražnikar

Odziv različnih sort pšenice na slanost

Tilen Sever

Non-invasive in vivo imaging of tumour-associated cathepsin B by a highly selective inhibitory DARPin

Dr. Janja Završnik; Dušan Turk; Olga Vasiljeva; Prof Vito Turk 44bff; Prof. Vito Turk; Boris Turk

10.7150/thno.19081

Lysosomes in programmed cell death pathways: from initiators to amplifiers

Dr. Nežka Kavčič; Dr. Katarina Pegan; Boris Turk

10.1515/hsz-2016-0252

Lipid droplet formation in HeLa cervical cancer cells depends on cell density and the concentration of exogenous unsaturated fatty acids

Ana Kump

10.17344/acsi.2016.2908

Highly sensitive and adaptable fluorescence-quenched pair discloses the substrate specificity profiles in diverse protease families

Dušan Turk; Boris Turk

10.1038/srep43135

Genotoxic evaluation of poly(anhydride) nanoparticles in the gastrointestinal tract of mice

Dr. Miha Butinar; Boris Turk

10.1016/j.ijpharm.2017.07.066

FPPS: Fast Profiling of Protease Specificity

Dr. Matej Vizovišek; Robert Vidmar; Marko Fonović

10.1007/978-1-4939-6850-3_13

Cystatin C deficiency suppresses tumor growth in a breast cancer model through decreased proliferation of tumor cells

Dr. Janja Završnik; Dr. Miha Butinar; Mojca Trstenjak Prebanda; Aleksander Krajnc; Robert Vidmar; Marko Fonović; Prof Vito Turk 44bff; Prof. Vito Turk; Boris Turk; Olga Vasiljeva

10.18632/oncotarget.17379

Conformational plasticity and evolutionary analysis of the myotilin tandem Ig domains

Prof. Brigita Lenarčič; retired

10.1038/s41598-017-03323-6

Co-chaperoning by amyloid-forming proteins: cystatins : cystatins vs. crystallins

Eva Žerovnik

10.1007/s00249-017-1214-x

Cleavable linkers in chemical proteomics application

Marko Fonović

10.1007/978-1-4939-6439-0_14

Cathepsin nanofiber substrates as potential agents for targeted drug delivery

Boris Turk

10.1016/j.jconrel.2016.11.028

Cathepsin K cleavage of SDF-1[alpha] inhibits its chemotactic activity towards glioblastoma stem-like cells

Prof. Brigita Lenarčič; retired

10.1016/j.bbamcr.2016.12.021

Boxes of model building and visualization

Dušan Turk

Variations in MHC class II antigen processing and presentation in health and disease

Prof Vito Turk; Prof. Vito Turk

10.1146/annurev-immunol-041015-055420

Timijanovo eterično olje kot naravni fungicid pri kalitvi pšenice

Tilen Sever

The use of lysosomotropic dyes to exclude lysosomal membrane permeabilization

Dr. Urška Repnik; Dr. Maruša Hafner Česen; Boris Turk

10.1101/pdb.prot087106

The death enzyme CP14 is a unique papain-like cysteine proteinase with a pronounced S2 subsite selectivity

Prof. Brigita Lenarčič; retired

10.1016/j.abb.2016.05.017

The CC domain structure from the wheat stem rust resistance protein Sr33 challenges paradigms for dimerization in plant NLR proteins

Dušan Turk

10.1073/pnas.1609922113

Studying lysosomal membrane permeabilization by analyzing the release of preloaded BSA-gold particles into the cytosol

Dr. Urška Repnik; Dr. Maruša Hafner Česen; Boris Turk

10.1101/pdb.prot087122

Structure and function of the nuclear pore complex cytoplasmic mRNA export platform

Andrej Šali

10.1016/j.cell.2016.10.028

Structure and calcium-binding studies of calmodulin-like domain of human non-muscle [alpha]-actinin-1

Prof. Brigita Lenarčič; retired

10.1038/srep27383

Strategies for assaying lysosomal membrane permeabilization

Dr. Urška Repnik; Dr. Maruša Hafner Česen; Boris Turk

10.1101/pdb.top077479

Slide-and-exchange mechanism for rapid and selective transport through the nuclear pore complex

Andrej Šali

10.1073/pnas.1522663113

Simple rules for passive diffusion through the nuclear pore complex

Andrej Šali

10.1083/jcb.201601004

Role of lysosomes in intracellular degradation

Dr. Maruša Hafner Česen; Veronika Stoka; Boris Turk

10.1016/B978-0-12-394447-4.10071-9

Recent developments in treating Alzheimer's disease

Eva Žerovnik; Nataša Kopitar-Jerala

10.4172/2161-0460.1000220

Particulate matter (PM10) patterns in Europe : an exploratoy data analysis using non-negative matrix factorization

Jure Pražnikar

10.1016/j.atmosenv.2016.03.005

Nicotiana benthamiana cathepsin B displays distinct enzymatic features which differ from its human relative and aleurain-like protease

Prof. Brigita Lenarčič; retired

10.1016/j.biochi.2015.06.017

Measuring cysteine cathepsin activity to detect lysosomal membrane permeabilization

Dr. Urška Repnik; Dr. Maruša Hafner Česen; Boris Turk

10.1101/pdb.prot087114

Lysosomal membrane permealibization in cell death

Dr. Urška Repnik; Boris Turk

Lysosomal cathepsins and their regulation in aging and neurodegeneration

Veronika Stoka; Prof Vito Turk 44bff; Prof. Vito Turk; Boris Turk

10.1016/j.arr.2016.04.010

Integrated omics approaches provide strategies for rapid erythromycin yield increase in Saccharopolyspora erythraea

Katarina Karničar; Robert Vidmar; Boris Turk; Marko Fonović

10.1186/s12934-016-0496-5

In vivo imaging of protease activity by Probody therapeutic activation

Olga Vasiljeva

10.1016/j.biochi.2015.11.003

Impact of salt reduction on the number of microorganisms and a sensory analysis for Kranjska sausages during their shelf-life

Livija Tušar

10.1515/agricultura-2017-0005

Identification of protease specificity by combining proteome-derived peptide libraries and quantitative proteomics

Boris Turk

10.1074/mcp.O115.056671

Guidelines for the use and interpretation of assays for monitoring autophagy

Veronika Stoka; Boris Turk; Prof Vito Turk 44bff; Prof. Vito Turk

10.1080/15548627.2015.1100356

FoXS, FoXSDock and MultiFoXS : single-state and multi-state structural modeling of proteins and their complexes based on SAXS profiles

Andrej Šali

10.1093/nar/gkw389

Exogenous Thyropin from p41 Invariant chain diminishes cysteine protease activity and affects IL-12 secretion during maturation of human dendritic cells

Dr. Tina Zavašnik Bergant

10.1371/journal.pone.0150815

Dissection of Francisella-Host cell interactions in dictyostelium discoideum

Dr. Urška Repnik

10.1128/AEM.02950-15

Designing Ga(III)-containing hydroxyapatite with antibacterial activity

Boris Turk

10.1039/C6RA23424K

Current trends and challenges in proteomic identification of protease substrates

Dr. Matej Vizovišek; Robert Vidmar; Marko Fonović; Boris Turk

10.1016/j.biochi.2015.10.017

Counter selection substrate library strategy for developing specific protease substrates and probes

Dušan Turk; Boris Turk

10.1016/j.chembiol.2016.05.020

Comparison of in silico tools for binding site prediction applied for structure-based design of autolysin inhibitors

Dušan Turk

10.1080/1062936X.2016.1217271

CIM [registered sign] monolith chromatography-enhanced ELISA Detection of proteins in Artists' paints : Ovalbumin as a case study

Marko Fonović

10.1016/j.microc.2016.02.004

Caught in the act : the crystal structure of cleaved cathepsin L bound to the active site of Cathepsin L

Dušan Turk

10.1002/1873-3468.12140

Cathepsin protease controls copper and cisplatin accumulation via cleavage of the Ctr1 metal-binding ectodomain

Boris Turk

10.1074/jbc.M116.731281

Antimetastatic potential in mice after gene therapy with plasmid AMEP

Dr. Janja Završnik; Boris Turk

An allosteric site enables fine-tuning of cathepsin K by diverse effectors

Prof. Brigita Lenarčič; retired

10.1002/1873-3468.12495

Adipose-derived stem cells respond to increased osmolarities

Dr. Janja Završnik

10.1371/journal.pone.0163870

A phosphotyrosine switch regulates organic cation transporters

Andrej Šali

10.1038/ncomms10880