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2022

PRAZNIK, Arne, FINK, Tina, FRANKO, Nik, LONZARIĆ, Jan, BENČINA, Mojca, JERALA, Nina, PLAPER, Tjaša, ROŠKAR, Simona, JERALA, Roman. Regulation of protein secretion through chemical regulation of endoplasmic reticulum retention signal cleavage. Nature Communications. 13, Article number: 1323 (2022). 10.1038/s41467-022-28971-9.

Linder, Johannes, La Fleur, Alyssa, Chen, Zibo, LJUBETIČ, AJASJA, Baker, David C., Kannan, Sreeram, Seelig, Georg. Interpreting neural networks for biological sequences by learning stochastic masks. Nature machine intelligence. 2022, vol. 4, p. 41-54, DOI: 10.1038/s42256-021-00428-6.

Hunt, Andrew C., Case, James Brett, Park, Young-Jun, Cao, Longxing, Wu, Kejia, Walls, Alexandra C., Liu, Zhuoming, Bowen, John E., Yeh, Hsien-Wei, Saini, Shally, Helms, Louisa, Zhao, Yan Ting, Hsiang, Tien-Ying, Starr, Tyler N., Goreshnik, Inna, Kozodoy, Lisa, Carter, Lauren, Ravichandran, Rashmi, Green, Lydia B., Matochko, Wadim L., Thomson, Christy A., Vögeli, Bastian, Krüger, Antje, Vanblargan, Laura A., Chen, Rita E., Ying, Baoling, Bailey, Adam L., Kafai, Natasha M., Boyken, Scott E., LJUBETIČ, AJASJA, et al., Multivalent designed proteins neutralize SARS-CoV-2 variants of concern and confer protection against infection in mice. Science translational medicine. 2022, p. 1-22, DOI: 10.1126/scitranslmed.abn1252.

AVBELJ, Monika, HAFNER BRATKOVIČ, Iva, LAINŠČEK, Duško, MANČEK KEBER, Mateja, PETERNELJ, Tina Tinkara, PANTER, Gabriela, Treon, Steven P., Gole, Boris, Potočnik, Uroš, JERALA, Roman. Cleavage-mediated regulation of Myd88 signaling by inflammasome-activated caspase-1. Frontiers in immunology. 2022, 12, 1-14, DOI: 10.3389/fimmu.2021.790258.

FINK, Tina, JERALA, Roman. Designed protease-based signaling networks. Current Opinion in Chemical Biology. 2022, 68: 102146, doi: 10.1016/j.cbpa.2022.102146.

HAFNER BRATKOVIČ, Iva. NLRP3 is its own gatekeeper: a group hug of NLRP3 monomers controls inflammation. Trends in biochemical sciences. 2022, p. 1-3, doi: 10.1016/j.tibs.2022.03.014.

Dave, Dhwanit, Massarano, Tlalit, Katzir, Itai, STRMŠEK, Žiga, LJUBETIČ, Ajasja, Sementa, Deborah. EMBO beyond biology : connecting peptide, protein, and DNA design with systems chemistry. Chem. 2022, vol. 8, p. 319-324, DOI: 10.1016/j.chempr.2021.12.021.

2021

AUPIČ, Jana, STRMŠEK, Žiga, LAPENTA, Fabio, Pahovnik, David, Pisanski, Tomaž, DROBNAK, Igor, LJUBETIČ, Ajasja, JERALA, Roman. Designed folding pathway of modular coiled-coil-based proteins. Nature communications. 2021, 12, 1-12. DOI: 10.1038/s41467-021-21185-5.

LAPENTA Fabio, AUPIČ Jana, VEZZOLI Marco, STRMŠEK Žiga, Da Vela Stefano, Svergun Dmitri, Carazo Jose Maria, Melero, Roberto, JERALA Roman. Self-assembly and regulation of protein cages from pre-organised coiled-coil modules. Nature Communications. 2021, 12(1):939. doi: 10.1038/s41467-021-21184-6.

Evavold, Charles L., HAFNER BRATKOVIČ, Iva, Devant, Pascal, Dʼandrea, Jasmin M., Ngwa, Elsy M., BORŠIĆ, Elvira, Doench, John G., Lafleur, Martin W., Sharpe, Arlene H., Thiagarajah, Jay R., Kagan, Jonathan C. Control of gasdermin D oligomerization and pyroptosis by the Ragulator-Rag-mTORC1 pathway. Cell. 2021, 184, 4495-4511, DOI: 10.1016/j.cell.2021.06.028.

PLAPER, Tjaša, AUPIČ, Jana, DEKLEVA, Petra, LAPENTA, Fabio, MANČEK KEBER, Mateja, JERALA, Roman, BENČINA, Mojca. Coiled-coil heterodimers with increased stability for cellular regulation and sensing SARS-CoV-2 spike protein-mediated cell fusion. Scientific reports. 2021, 11, 9136, 1-16, DOI: 10.1038/s41598-021-88315-3.

LAINŠČEK, Duško, FINK, Tina, FORSTNERIČ, Vida, HAFNER BRATKOVIČ, Iva, OREHEK, Sara, STRMŠEK, Žiga, MANČEK KEBER, Mateja, PEČAN, Peter, ESIH, Hana, MALENŠEK, Špela, AUPIČ, Jana, DEKLEVA, Petra, PLAPER, Tjaša, VIDMAR, Sara, KADUNC, Lucija, BENČINA, Mojca, OMERSA, Neža, ANDERLUH, Gregor, Pojer, Florence, Lau, Kelvin, Hacker, David, Correia, Bruno E., Peterhoff, David, Wagner, Ralf, Bergant, Valter, Herrmann, Alexander, Pichlmair, Andreas, JERALA, Roman. A nanoscaffolded spike-RBD vaccine provides protection against SARS-CoV-2 with minimal anti-scaffold response. Vaccines. 2021, 9, 43:1-21. DOI: 10.3390/vaccines9050431.

MAJERLE Andreja, HADŽI San, AUPIČ Jana, SATLER Tadej, LAPENTA Fabio, STRMŠEK Žiga, Lah Jurij, Loris Remy, JERALA Roman. A nanobody toolbox targeting dimeric coiled-coil modules for functionalization of designed protein origami structures. The Proceedings of the National Academy of Sciences. 2021; 118(17):e2021899118. doi: 10.1073/pnas.2021899118.

MANČEK KEBER, Mateja, HAFNER BRATKOVIČ, Iva, LAINŠČEK, Duško, BENČINA, Mojca, GOVEDNIK, Tea, OREHEK, Sara, PLAPER, Tjaša, JAZBEC, Vid, Bergant, Valter, Grass, Vincent, Pichlmair, Andreas, JERALA, Roman. Disruption of disulfides within RBD of SARS-CoV-2 spike protein prevents fusion and represents a target for viral entry inhibition by registered drugs. The FASEB journal. 2021, 35, e21651, 1-14. DOI: 10.1096/fj.202100560R.

BOŽIČ ABRAM, Sabina, GRADIŠAR, Helena, AUPIČ, Jana, Round, Adam R., JERALA, Roman. Triangular in vivo self-assembling coiled-coil protein origami. ACS chemical biology. 2021, 16, 310-315. DOI: 10.1021/acschembio.0c00812.

RAJH, Eva, ŠKET, Tina, PRAZNIK, Arne, SUŠJAN, Petra, Šmid, Alenka, Urbančič, Dunja, Mlinarič-Raščan, Irena, Kogovšek, Polona, Demšar, Tina, Milavec, Mojca, Prosenc, Katarina, Jensterle, Žiga, Zidarn, Mihaela, Tomič, Viktorija, Turel, Gabriele, Lejko-Zupanc, Tatjana, JERALA, Roman, BENČINA, Mojca. Robust saliva-based RNA extraction-free one-step nucleic acid amplification test for mass SARS-CoV-2 monitoring. Molecules. 2021, 26, 1-19, DOI: 10.3390/molecules26216617.

VERBIČ, Anže, PRAZNIK, Arne, JERALA, Roman. A guide to the design of synthetic gene networks in mammalian cells. FEBS journal. 2021, vol. 288, p. 5265-5288, DOI: 10.1111/febs.15652.

Koehler Leman, Julia, LJUBETIČ, AJASJA, et al. Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks. Nature communications. 2021, vol. 12, p. 1-15, DOI: 10.1038/s41467-021-27222-7.

Tapia-Abellán, Ana, Angosto-Bazarra, Diego, Alarcón-Vila, Cristina, Baños, María C., HAFNER BRATKOVIČ, Iva, Oliva, Baldomero, Pelegrin, Pablo. Sensing low intracellular potassium by NLRP3 results in a stable open structure that promotes inflammasome activation. Science advances. 2021, 7, eabf4468, 1-16. DOI: 10.1126/sciadv.abf4468.

Dragin Jerman, Urška, Višnjar, Tanja, HAFNER BRATKOVIČ, Iva, Resnik, Nataša, Pavlin, Mojca, Veranič, Peter, Erdani-Kreft, Mateja. Attachment of cancer urothelial cells to the bladder epithelium occurs on uroplakin-negative cells and is mediated by desmosomal and not by classical cadherins. International journal of molecular sciences. 2021, 22, 1-18, DOI: 10.3390/ijms22115565.

Holger, Heine, Adanitsch, Florian, PETERNELJ, Tina Tinkara, Haegman, Mira, Kasper, Christoph, Ittig, Simon, Beyaert, Rudi, JERALA, Roman, Zamyatina, Alla. Tailored modulation of cellular pro-inflammatory responses with disaccharide lipid a mimetics. Frontiers in immunology. 2021, 12, 1-23, DOI: 10.3389/fimmu.2021.631797.

Jan, Zala, Drab, Mitja, Drobne, Damjana, Bedina Zavec, Apolonija, BENČINA, Mojca, Drašler, Barbara, Hočevar, Matej, Krek, Judita Lea, Pađen, Ljubiša, Pajnič, Manca, Repar, Neža, Šimunič, Boštjan, Štukelj, Roman, Kralj-Iglič, Veronika. Decrease in cellular nanovesicles concentration in blood of athletes more than 15 hours after marathon. International journal of nanomedicine. 2021, 16, 443-456, DOI: 10.2147/IJN.S282200.

Paveljšek, Diana, IVIČAK-KOCJAN, Karolina, Treven, Primož, BENČINA, Mojca, JERALA, Roman, Rogelj, Irena. Distinctive probiotic features share common TLR2-dependent signalling in intestinal epithelial cells. Cellular microbiology. 2021, 23, e13264, 1-12, DOI: 10.1111/cmi.13264.

Qu Jin-Huan, Leirs Karen, Escudero Remei, STRMŠEK Žiga, JERALA Roman, Spasic Dragana, Lammertyn Jeroen. Novel Regeneration Approach for Creating Reusable FO-SPR Probes with NTA Surface Chemistry. Nanomaterials. 2021 11(1):186. doi: 10.3390/nano11010186.

2020

LEBAR, Tina, LAINŠČEK, Duško, MERLJAK, Estera, AUPIČ, Jana, JERALA, Roman. A tunable orthogonal coiled-coil interaction toolbox for engineering mammalian cells. Nature chemical biology, 2020, 16, 513-519, doi: 10.1038/s41589-019-0443-y.

Segal, E., Zhang, F., Lin, X. et al. Building an international consortium for tracking coronavirus health status. Nature Medicine, 2000, 261161–1165. 10.1038/s41591-020-0929-x.

HA, Van Thai, LAINŠČEK, Duško,Gesslbauer, Bernd, Jarc Jovičić, Eva, Hyötyläinen, Tuulia, Ilc, Nejc, Lakota, Katja, Tomšič, Matija, Van De Loo, Fons A. J., Bochkov, Valery, Petan, Toni, JERALA, Roman, MANČEK KEBER, Mateja. Synergy between 15-lipoxygenase and secreted PLA2 promotes inflammation by formation of TLR4 agonists from extracellular vesicles. The Proceedings of the National Academy of Sciences. 2020, 117, 25679-25689. DOI: 10.1073/pnas.2005111117.

SUŠJAN, Petra, LAINŠČEK, Duško, STRMŠEK, Žiga, Hodnik, Vesna, ANDERLUH, Gregor, HAFNER BRATKOVIČ, Iva. Selective inhibition of NLRP3 inflammasome by designed peptide originating from ASC. The FASEB Journal. 2020, 34, 11068-11086. DOI: 10.1096/fj.201902938RR.

SUŠJAN, Petra, BENČINA, Mojca, HAFNER BRATKOVIČ, Iva. Differential effect of extracellular acidic environment on IL-1β released from human and mouse phagocytes. International journal of molecular sciences. 2020, 21, 7229:1-16. DOI: 10.3390/ijms21197229.

LAPENTA, Fabio, JERALA, Roman. Design of novel protein building modules and modular architectures. Current opinion in structural biology. 2020, 63, 90-96. DOI: 10.1016/j.sbi.2020.04.006.

MANČEK KEBER, Mateja, Ribić, Rosana, Chain, Fernando, Sinnaeve, Davy, Martins, José C., JERALA, Roman, Tomić, Srđanka, Fehér, Krisztina. Adamantane containing peptidoglycan fragments enhance RANTES and IL-6 production in lipopolysaccharide-induced macrophages. Molecules. 2020, 25:3707, 1-10. DOI: 10.3390/molecules25163707.

MEŠKO, Maja, LEBAR, Tina, DEKLEVA, Petra, JERALA, Roman, BENČINA, Mojca. Engineering and rewiring of a calcium-dependent signaling pathway. ACS synthetic biology. 2020, 9, 2055-2063. DOI: 10.1021/acssynbio.0c00133.

PEČAN, Peter, Hambalkó, Szabolcs, HA, Van Thai, Nagy, Csilla Terézia, Pelyhe, Csilla, LAINŠČEK, Duško, Kenyeres, Bence, Brenner, Gábor, Görbe, Anikó, Kittel, Ágnes, Bartekova, Monika, Ferdinandy, Péter, MANČEK KEBER, Mateja, Giricz, Zoltán. Calcium ionophore-induced extracellular vesicles mediate cytoprotection against simulated ischemia/reperfusion injury in cardiomyocyte-derived cell lines by inducing heme oxygenase 1. International journal of molecular sciences. 2020, 21, 7687: 1-17. DOI: 10.3390/ijms21207687.

FINK, Tina, STEVOVIĆ, Bojana, Verwaal, René, Roubos, Johannes A., GABER, Rok, BENČINA, Mojca, JERALA, Roman, GRADIŠAR, Helena. Metabolic enzyme clustering by coiled coils improves the biosynthesis of resveratrol and mevalonate. AMB express 2020, 10:97, 1-10. DOI: 10.1186/s13568-020-01031-5.

VERBIČ, Anže, PRAZNIK, Arne, JERALA, Roman. A guide to the design of synthetic gene networks in mammalian cells. FEBS Journal. 2020, DOI: 10.1111/febs.15652.

KADUNC, Lucija, SVETLIČIČ, Maja, FORSTNERIČ, Vida, HAFNER BRATKOVIČ, Iva, JERALA, Roman. Increased gene translation stringency in mammalian cells by nonsense suppression at multiple permissive sites with a single noncanonical amino acid. FEBS Letters 2020, 594, 2452-2461., DOI: 10.1002/1873-3468.13810.

ZHOU, Weijun, ŠMIDLEHNER, Tamara, JERALA, Roman. Synthetic biology principles for the design of protein with novel structures and functions. FEBS Letters. 2020, 594, 2199-2212. DOI: 10.1002/1873-3468.13796.

Boldridge, W. Clifford, LJUBETIČ, Ajasja, Kim, Hwangbeom, Lubock, Nathan, Szilágyi, Dániel, Lee, Jonathan, Brodnik, Andrej, JERALA, Roman, Kosuri, Sriram. A Multiplexed Bacterial Two-Hybrid for Rapid Characterization of Protein-Protein Interactions and Iterative Protein Design. bioRxiv 2020.11.12.377184; doi: 10.1101/2020.11.12.377184.

Evavold, Charles L., HAFNER-BRATKOVIČ, Iva, Kagan, Jonathan C. Downstream of gasdermin D cleavage, a Ragulator-Rag-mTORC1 pathway promotes pore formation and pyroptosis. bioRxiv 2020.11.02.362517; doi: 10.1101/2020.11.02.362517.

PLAPER, Tjaša, AUPIČ, Jana, DEKLEVA, Petra, LAPENTA, Fabio, MANČEK KEBER, Mateja, JERALA, Roman, BENČINA, Mojca. Coiled-coil heterodimers with increased stability for cellular regulation and sensing SARS-CoV-2 spike protein-mediated cell fusion. bioRxiv 2020.12.10.419440; doi: 10.1101/2020.12.10.419440.

Lojk, Jasna, Babič, Lea, SUŠJAN, Petra, Bregar, Vladimir Boštjan, Pavlin, Mojca, HAFNER BRATKOVIČ, Iva, Veranič, Peter. Analysis of the direct and indirect effects of nanoparticle exposure on microglial and neuronal cells in vitro. International journal of molecular sciences. 2020, 21, 1-15. DOI: 10.3390/ijms21197030.

Ribić, Rosana, MANČEK KEBER, Mateja, Chain, Fernando, Sinnaeve, Davy, Martins, José C., JERALA, Roman, Tomić, Srđanka, Fehér, Krisztina. Targeted delivery of adamantylated peptidoglycan immunomodulators in lipid nanocarriers : NMR shows that cargo fragments are available on the surface. The journal of physical chemistry. B, Condensed matter, materials, surfaces, interfaces & biophysical. 2020, 124, 4132-4145. DOI: 10.1021/acs.jpcb.0c00029.

Scalvini, Barbara, Sheikhhassani, Vahid, Woodard, Jaie, AUPIČ, Jana, Dame, Remus T., JERALA, Roman, Mashaghi, Alireza. Topology of folded molecular chains : from single biomolecules to engineered origami. Trends in chemistry. 2020, 2, 609-622. DOI: 10.1016/j.trechm.2020.04.009.

Vrancken, Jeroen P.M., AUPIČ, Jana, Addy, Christine, JERALA, Roman, Tame, Jeremy R.H., Voet, Arnout R.D. Molecular assemblies built with the artificial protein Pizza. Journal of structural biology. 2020, 4:100027, 1-9. DOI: 10.1016/j.yjsbx.2020.100027.

2019

FINK, Tina, LONZARIĆ, Jan, PRAZNIK, Arne, PLAPER, Tjaša, MERLJAK, Estera, LEBEN, Katja, JERALA, Nina, LEBAR, Tina, STRMŠEK, Žiga, LAPENTA, Fabio, BENČINA, Mojca, JERALA, Roman. Design of fast proteolysis-based signaling and logic circuits in mammalian cells. Nature chemical biology. 2019, 15, 115-122, DOI: 10.1038/s41589-018-0181-6.

LEBAR, Tina, VERBIČ, Anže, LJUBETIČ, Ajasja, JERALA, Roman. Polarized displacement by transcription activator-like effectors for regulatory circuits. Nature chemical biology, 2019, 15, 80-87, doi: 10.1038/s41589-018-0163-8.

FORSTNERIČ, Vida, OVEN, Irena, Ogorevc, Jernej, LAINŠČEK, Duško, PRAZNIK, Arne, LEBAR, Tina, JERALA, Roman, HORVAT, Simon. CRISPRa-mediated FOXP3 gene upregulation in mammalian cells. Cell & bioscience. 2019, 9, 93, 1-12, DOI: 10.1186/s13578-019-0357-0.

GOLOB URBANC, Anja, Rajčević, Uroš, STRMŠEK, Žiga, JERALA, Roman. Design of split superantigen fusion proteins for cancer immunotherapy. The Journal of biological chemistry. 2019, 294, 6294-6305, DOI: 10.1074/jbc.RA118.006742.

MAJERLE, Andreja, Schmieden, Dominik T., JERALA, Roman, Meyer, Anne S. Synthetic biology for multiscale designed biomimetic assemblies : from designed self-assembling biopolymers to bacterial bioprinting. Biochemistry. 2019, 58, 2095-2104, DOI: 10.1021/acs.biochem.8b00922.

Biedma, Marina, Cayet, D. Tabareau Julien, Rossi Andrés H., IVIČAK KOCJAN Karolina, Moreno Griselda, Errea Agustina, Soulard Daphnée, Parisi Gustavo, Jerala Roman, Berguer Paula, Rumbo Martin, Sirard, Jean Claude. Recombinant flagellins with deletions in domains D1, D2, and D3: Characterization as novel immunoadjuvants. Vaccine, 2019, 37, 652-663. Link, doi:  10.1016/j.vaccine.2018.12.009

Dukarić, Maša, Errami, Hassan, JERALA, Roman, Lebar, Tina, Romanovski, Valery, Tóth, János, Weber, Andreas. On three genetic repressilator topologies. Reaction kinetics, mechanisms and catalysis, 2019, 1-28, doi: 10.1007/s11144-018-1519-5.

Štimac, Adela, Tokić, Matea, LJUBETIČ, AJASJA, Vuletić, Tomislav, Šekutor, Marina, Požar, Josip, Leko, Katarina, Hanževački, Marko, Frkanec, Leo, Frkanec, Ruža. Functional self-assembled nanovesicles based on β−cyclodextrin, liposomes and adamantyl guanidines as potential nonviral gene delivery vectors. Organic and Biomolecular Chemistry. 2019, vol. 17, p. 4640-4651, DOI: 10.1039/C9OB00488B.

2018

FINK, Tina, LONZARIĆ, Jan, PRAZNIK, Arne, PLAPER, Tjaša, MERLJAK, Estera, LEBEN, Katja, JERALA, Nina, LEBAR, Tina, STRMŠEK, Žiga, LAPENTA, Fabio, BENČINA, Mojca, JERALA, Roman. Design of fast proteolysis-based signaling and logic circuits in mammalian cells. Nature chemical biology, 2018, 1-17, doi: 10.1038/s41589-018-0181-6.

HAFNER BRATKOVIČ, Iva, SUŠJAN, Petra, LAINŠČEK, Duško, TAPIA-ABELLÁN, Ana, CEROVIĆ, Kosta, KADUNC, Lucija, ANGOSTO-BAZARRA, Diego, PELEGRIN, Pablo, JERALA, Roman. NLRP3 lacking the leucine-rich repeat domain can be fully activated via the canonical inflammasome pathway. Nature communications, 2018, 9, 5182, 1-18, doi: 10.1038/s41467-018-07573-4.

MANČEK KEBER, Mateja, LAINŠČEK, Duško, BENČINA, Mojca, Chen, Jiaji G., Romih, Rok, Hunter, Zachary R., Treon, Steven P., JERALA, Roman. Extracellular vesicle-mediated transfer of constitutively active MyD88L265P engages MyD88wt and activates signaling. Blood, 2018, 1-29, doi: 10.1182/blood-2017-09-805499.

AUPIČ, Jana, LAPENTA, Fabio, JERALA, Roman. SwitCCh: metal-site design for controlling the assembly of a coiled-coil homodimer. ChemBioChem, 2018, [1-7], doi: 10.1002/cbic.201800578.

LAPENTA, Fabio, AUPIČ, Jana, STRMŠEK, Žiga, JERALA, Roman. Coiled coil protein origami : from modular design principles towards biotechnological applications. Chemical Society reviews, 2018, 47, 3530-3542, doi: 10.1039/C7CS00822H.

Ulijn, Rein V., JERALA, Roman. Peptide and protein nanotechnology into the 2020s : beyond biology. Chemical Society reviews, 2018, 47, 3391-3394, doi: 10.1039/C8CS90055H.

HAFNER BRATKOVIČ, Iva, Pelegrin, Pablo. Ion homeostasis and ion channels in NLRP3 inflammasome activation and regulation. Current opinion in immunology, 2018, 52, 8-17, doi: 10.1016/j.coi.2018.03.010.

LAINŠČEK, Duško, KADUNC, Lucija, MANČEK KEBER, Mateja, HAFNER BRATKOVIČ, Iva, ROMIH, Rok, JERALA, Roman. Delivery of an artificial transcription regulator dCas9-VPR by extracellular vesicles for therapeutic gene activation. ACS synthetic biology, 2018, 7, 2715-2725, doi: 10.1021/acssynbio.8b00192.

AVBELJ, Monika, PANTER, Gabriela, JERALA, Roman. The role of N-terminal segment and membrane association in MyD88-mediated signaling. Biochemical and biophysical research communications. 2018; 495: 878-883, doi: 10.1016/j.bbrc.2017.11.099.

IVIČAK-KOCJAN, Karolina, FORSTNERIČ, Vida, PANTER, Gabriela, JERALA, Roman, BENČINA, Mojca. Extension and refinement of the recognition motif for Toll-like receptor 5 activation by flagellin. Journal of leukocyte biology, 2018, doi: 10.1002/JLB.3VMA0118-035R.

ANDREJC, Darjan, LEGIŠA, Matic. Kallikrein-related peptidase 6 can cleave human-muscle-type 6-phosphofructo-1-kinase into highly active shorter fragments. Biochimica et biophysica acta, Proteins and proteomics, 2018, 1866, 602-607, doi: 10.1016/j.bbapap.2018.03.005.

LONZARIĆ, Jan, FINK, Tina, JERALA, Roman. Design and applications of synthetic information processing circuits in mammalian cells. In: Ryadnov, Maxim, Brunsveld, Luc, Suga, Hiroaki (ed.): Synthetic Biology: Volume 2, 2018, p. 1-34, doi: 10.1039/9781782622789-00001

HAFNER BRATKOVIČ, Iva. Enigmatična vloga inflamasomov v zdravju in bolezni = Elusive role of inflammasomes in health and disease. V: ŠMRK 2018 - zbornik, Medicinski razgledi, Supplement, letn. 57, 1. Ljubljana: Medicinski razgledi. 2018, 11-17.

Facchini, Fabio A., Zaffaroni, Lenny, Minotti, Alberto, Rapisarda, Silvia, Calabrese, Valentina, Forcella, Matilde, Fusi, Paola, Airoldi, Cristina, Ciaramelli, Carlotta, Billod, Jean-Marc, Schromm, Andra B., Braun, Harald, Palmer, Charys, Beyaert, Rudi, LAPENTA, FABIO, JERALA, ROMAN, Pirianov, Grisha, Martín-Santamaría, Sonsoles, Peri, Francesco. Structure-activity relationship in monosaccharide-based toll-like receptor 4 (TLR4) antagonists. Journal of medicinal chemistry, 2018, 61, 2895-2909, doi: 10.1021/acs.jmedchem.7b01803.

Gaber, Aljaž, Kim, Seung Joong, Kaake, Robyn M., BENČINA, MOJCA, Krogan, Nevan J., Šali, Andrej, Pavšič, Miha, Lenarčič, Brigita. EpCAM homo-oligomerization is not the basis for its role in cell-cell adhesion. Scientific reports, 2018, 8, 1-16, doi: 10.1038/s41598-018-31482-7.

Murovec, Jana, Guček, Katja, Bohanec, Borut, AVBELJ, Monika, JERALA, Roman. DNA-free genome editing of Brassica oleracea and B. rapa protoplasts using CRISPR-Cas9 ribonucleoprotein complexes. Frontiers in plant science, 2018, art. 1594, 9, 1-9, doi: 10.3389/fpls.2018.01594.

Onódi, Zsófia , Pelyhe, Csilla, Nagy, Csilla Terézia, Brenner, Gábor B., Almási, Laura, Kittel, Ágnes, MANČEK KEBER, MATEJA, Ferdinandy, Péter, Buzás, Edit I., Giricz, Zoltán. Isolation of high-purity extracellular vesicles by the combination of iodixanol density gradient ultracentrifugation and bind-elute chromatography from blood plasma. Frontiers in Physiology, 2018, 9, 1479, doi: 10.3389/fphys.2018.01479

Paveljšek, Diana, Juvan, Peter, Košir, Rok, Rozman, Damjana, Hacin, Biljana, IVIČAK-KOCJAN, Karolina, Rogelj, Irena. Lactobacillus fermentum L930BB and Bifidobacterium animalis subsp. animalis IM386 initiate signalling pathways involved in intestinal epithelial barrier protection. Beneficial microbes, 2018, 9, 515-525, doi: 10.3920/BM2017.0107.

2017

LJUBETIČ, Ajasja, LAPENTA, Fabio, GRADIŠAR, Helena, DROBNAK, Igor, AUPIČ, Jana, STRMŠEK, Žiga, LAINŠČEK, Duško, HAFNER BRATKOVIČ, Iva, MAJERLE, Andreja, KRIVEC, Nuša, BENČINA, Mojca, PISANSKI, Tomaž, ĆIRKOVIĆ-VELIČKOVIĆ, Tanja, ROUND, Adam, CARAZO, José María, MELERO, Roberto, JERALA, Roman. Design of coiled-coil protein-origami cages that self-assemble in vitro and in vivoNature biotechnology, 2017, 35, 1094-1101. article, doi: 10.1038/nbt.3994.

POHAR, Jelka, LAINŠČEK, Duško, IVIČAK-KOCJAN, Karolina, CAJNKO, Miša Mojca, JERALA, Roman, BENČINA, Mojca. Short single-stranded DNA degradation products augment the activation of Toll-like receptor 9. Nature communications, 2017, 8: 1-13. link, doi: 10.1038/ncomms15363.

POHAR, Jelka, LAINŠČEK, Duško, KUNŠEK, Ana, CAJNKO, Miša Mojca, JERALA, Roman, BENČINA, Mojca. Phosphodiester backbone of the CpG motif within immunostimulatory oligodeoxynucleotides augments activation of Toll-like receptor 9. Scientific reports, 2017, 7, p. 1-11, doi: 10.1038/s41598-017-15178-y.

DROBNAK, Igor, GRADIŠAR, Helena, LJUBETIČ, Ajasja, MERLJAK, Estera, JERALA, Roman. Modulation of coiled-coil dimer stability through surface residues while preserving pairing specificity. Journal of the American Chemical Society, 2017, 139: 8229-36, doi: 10.1021/jacs.7b01690.

POHAR, Jelka, YAMAMOTO, Chikako, FUKUI, Ryutaro, CAJNKO, Miša Mojca, MIYAKE, Kensuke, JERALA, Roman, BENČINA, Mojca. Selectivity of human TLR9 for double CpG motifs and implications for the recognition of genomic DNA. The journal of immunology, 2017, 198: 2093-104, doi: 10.4049/jimmunol.1600757.

SMOLE, Anže, LAINŠČEK, Duško, BEZELJAK, Urban, HORVAT, Simon, JERALA, Roman. A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation. Molecular therapy, 2017, 25: 102-19, doi: 10.1016/j.ymthe.2016.10.005.

LJUBETIČ, Ajasja, GRADIŠAR, Helena, JERALA, Roman. Advances in design of protein folds and assemblies. Current opinion in chemical biology. 2017,40: 65-71, doi: 10.1016/j.cbpa.2017.06.020.

FORSTNERIČ, Vida, IVIČAK-KOCJAN, Karolina, PLAPER, Tjaša, JERALA, Roman, BENČINA, Mojca. The role of the C-terminal D0 domain of flagellin in activation of Toll like receptor 5. PLOS pathogens, 2017, 13, p. 1-20, doi: 10.1371/journal.ppat.1006574.

PIRHER, Nina, POHAR, Jelka, MANČEK KEBER, Mateja, BENČINA, Mojca, JERALA, Roman. Activation of cell membrane-localized Toll-like receptor 3 by siRNA. Immunology letters. 2017, 1-9, doi: 10.1016/j.imlet.2017.03.019.

SUŠJAN Petra, ROŠKAR Samo, HAFNER-BRATKOVIČ Iva. The mechanism of NLRP3 inflammasome initiation: Trimerization but not dimerization of the NLRP3 pyrin domain induces robust activation of IL-1β. Biochemical and biophysical research communications. 2017; 483(2): 823-28, doi: 10.1016/j.bbrc.2017.01.008.

HAFNER BRATKOVIČ, Iva. The NLRC4 inflammasome: the pieces of the puzzle are falling into place. Inflammasome, 2017, 3(1): 10-23, doi: 10.1515/infl-2017-0002.

HAFNER BRATKOVIČ, Iva. Prions, prionoid complexes and amyloids: the bad, the good and something in between. Swiss medical weekly, 2017, 147: 1-13, doi: 10.4414/smw.2017.14424.

LAINŠČEK Duško, LEBAR Tina, JERALA Roman. Transcription activator-like effector-mediated regulation of gene expression based on the inducible packaging and delivery via designed extracellular vesicles. Biochemical and biophysical research communications. 2017; 484(1): 15-20, doi: 10.1016/j.bbrc.2017.01.090.

ANDREJC, DARJAN, Možir, Alenka, LEGIŠA, MATIC. Effect of the cancer specific shorter form of human 6-phosphofructo-1-kinase on the metabolism of the yeast Saccharomyces cerevisiae. BMC biotechnology, 2017, 17, p. 1-13, doi: 10.1186/s12896-017-0362-5.

LOJK, Jasna, STROJAN, Klemen, MIŠ, Katarina, BREGAR, Vladimir Boštjan, HAFNER BRATKOVIČ, Iva, BIZJAK, Maruša, PIRKMAJER, Sergej, PAVLIN, Mojca. Cell stress response to two different types of polymer coated cobalt ferrite nanoparticles. Toxicology letters, 2017, 270, p. 108-118, doi: 10.1016/j.toxlet.2017.02.010.

Cocco, Mattia, Pellegrini, Carolina, Martínez-Banaclocha, Helios, Giorgis, Marta, Marini, Elisabetta, Costale, Annalisa, Miglio, Gianluca, Fornai, Matteo, Antonioli, Luca, López-Castejón, Gloria, Tapia-Abellán, Ana, Angosto, Diego, HAFNER BRATKOVIČ, IVA, Regazzoni, Luca, Blandizzi, Corrado, Pelegrin, Pablo, Bertinaria, Massimo. Development of an acrylate derivative targeting the NLRP3 inflammasome for the treatment of inflammatory bowel disease. Journal of medicinal chemistry, 2017, 60, p. 3656-3671, doi: 10.1021/acs.jmedchem.6b01624.

2016

KOČAR, Vid, SCHREK, John S., ČERU, Slavko, GRADIŠAR, Helena, BAŠIČ, Nino, PISANSKI, Tomaž, DOYE, Jonathan P.K., JERALA, Roman. Design principles for rapid folding of knotted DNA nanostructures. Nature Communications. 2016, vol. 7, p. 1-8, doi: 10.1038/ncomms10803.

AUPIČ, Jana, LAPENTA, Fabio, STRMŠEK, Žiga, JERALA, Roman. Towards designing new nano-scale protein architectures. Essays in Biochemistry, 2016, vol. 60, p. 315-324, doi: 10.1042/EBC20160018.

FORSTNERIČ, Vida, IVIČAK-KOCJAN, Karolina, LJUBETIČ, Ajasja, JERALA, Roman, BENČINA, Mojca. Distinctive recognition of flagellin by human and mouse toll-like receptor 5. PloS one, 2016, vol. 11, e0158894-1-e00158894-18, doi: 10.1371/journal.pone.0158894.

LEBAR, Tina, JERALA, Roman. Benchmarking of TALE- and CRISPR/dCas9-based transcriptional regulators in mammalian cells for the construction of synthetic genetic circuits. ACS synthetic biology, 2016, vol. 5, p. 1050-1058, doi: 10.1021/acssynbio.5b00259.

LJUBETIČ, Ajasja, DROBNAK, Igor, GRADIŠAR, Helena, JERALA, Roman. Designing the structure and folding pathway of modular topological bionanostructures. Chemical communications, 2016, p. [1-10], doi: http://dx.doi.org/10.1039/C6CC00421K.

LONZARIĆ, Jan, LEBAR, Tina, MAJERLE, Andreja, MANČEK KEBER, Mateja, JERALA, Roman. Locked and proteolysis-based transcription activator-like effector (TALE) regulation. Nucleic acids research, 2016, p. 1-11, doi.

VAŠL , Jožica, OBLAK, Alja, PETERNELJ, Tina T., KLETT, Javier, MARTÍN-SANTAMARÍA, Sonsoles, GIOANNINI, Theresa L., WEISS, Jerrold P., JERALA, Roman. Molecular basis of the functional differences between soluble human versus murine MD-2: role of Val135 in transfer of lipopolysaccharide from CD14 to MD-2. The Journal of Immunology, 2016, p. 1-10, doi.

ZORMAN, Jernej, SUŠJAN, Petra, HAFNER BRATKOVIČ, Iva. Shikonin suppresses NLRP3 and AIM2 inflammasomes by direct inhibition of caspase-1. PloS one, 2016, vol. 11, p. e0159826-1-e0159826-17, doi: 10.1371/journal.pone.0159826.

BOŽIČ ABRAM, Sabina, AUPIČ, Jana, DRAŽIĆ, Goran, GRADIŠAR, Helena, JERALA, Roman. Coiled-coil forming peptides for the induction of silver nanoparticles. Biochemical and biophysical research communications, 2016, vol. 472, p. 566-571, doi.

DROBNAK, Igor, LJUBETIČ, Ajasja, GRADIŠAR, Helena, PISANSKI, Tomaž, JERALA, Roman. Designed protein origami. In: CORTAJARENA, Aitziber L. (ed.). Protein-based engineered nanostructures, (Advances in experimental medicine and biology, vol. 940). Springer, 2016, p. 7-27. doi: 10.1007/978-3-319-39196-0_2.

MORTON, Nicholas M., et al., Genetic identification of thiosulfate sulfurtransferase as an adipocyte-expressed antidiabetic target in mice selected for leanness. Nature medicine, 2016, vol. 22, p. 771-779. full text, doi: 10.1038/nm.4115.

BELTRAM, Jasmina, MORTON, Nicholas M., KUNEJ, Tanja, HORVAT, Simon. Construction of an integrative regulatory element and variation map of the murine Tst locus. BMC genetics, 2016, vol. 17, p. 1-13, doi: 10.1186/s12863-016-0381-6.

CIARAMELLI, Carlotta, CALABRESE, Valentina, SESTITO, Stefania E., PÉREZ-REGIDOR, Lucia, KLETT, Javier, OBLAK, Alja, JERALA, Roman, PIAZZA, Matteo, MARTÍN-SANTAMARÍA, Sonsoles, PERI, Francesco. Glycolipid-based TLR4 modulators and fluorescent probes : rational design, synthesis and biological properties. Chemical biology & drug design, 2016, vol. 88, p. 217-229, doi: 10.1111/cbdd.12749.

KOVAČ, Jernej, ŠUTUŠ TEMOVSKI, Tamara, ROZMARIČ, Tomaž, HORVAT, Simon, BELTRAM, Jasmina, TREBUŠAK PODKRAJŠEK, Katarina, BATTELINO, Tadej, KOTNIK, Primož. DEPTOR promoter genetic variants and insulin resistance in obese children and adolescents. Pediatric diabetes, 2016, p. 1-7. link, doi: 10.1111/pedi.12371.

KOVAČ, Valerija, HAFNER BRATKOVIČ, Iva, ČURIN-ŠERBEC, Vladka. Anchorless forms of prion protein - Impact of truncation on structure destabilization and prion protein conversion. Biochemical and biophysical research communications, 2016, vol. 481, p. 1-6, doi: 10.1016/j.bbrc.2016.11.036.

2015

MANČEK KEBER, Mateja, Frank Bertoncelj, Mojca, HAFNER BRATKOVIČ, Iva, SMOLE, Anže, ZORKO, Mateja, PIRHER, Nina, Hayer, Silvia, Kralj Iglič, Veronika, Rozman, Blaž, Ilc, Nejc, Horvat, Simon, JERALA, Roman. Toll-like receptor 4 senses oxidative stress mediated by the oxidation of phospholipids in extracellular vesicles. Science Signaling, 2015, 8, p. 1-12, doi: 10.1126/scisignal.2005860

POHAR, Jelka, KUŽNIK, Alenka, JERALA, Roman, BENČINA, Mojca. Minimal sequence requirements for oligodeoxyribonucleotides activating human TLR9. The journal of immunology, 2015, vol. 194, p. 3901-3908, doihttps://doi.org/10.4049/jimmunol.1402755.  

POHAR, Jelka, LAINŠČEK, Duško, FUKUI, Ryutaro, YAMAMOTO, Chikako, MIYAKE, Kensuke, JERALA, Roman, BENČINA, Mojca. Species-specific minimal sequence motif for oligodeoxyribonucleotides activating mouse TLR9. The journal of immunology, 2015, vol. 195, p. 4396-4405, doihttps://doi.org/10.4049/jimmunol.1500600.

BINDER, Ulrike, BENČINA, Mojca, FIZIL, Ádám, BATTA, Gyula, CHHILLAR, Anil K., MARX, Florentine. Protein kinase A signaling and calcium ions are major players in PAF mediated toxicity against Aspergillus nigerFEBS letters, 2015, 589, p. 1266-1271, doi.

CAJNKO, Miša Mojca, MARUŠIČ, Maja, KISOVEC, Matic, ROJKO, Nejc, BENČINA, Mojca, CASERMAN, Simon, ANDERLUH, Gregor. Listeriolysin O affects the permeability of Caco-2 monolayer in a pore-dependent and Ca2+-independent manner. PloS one, 2015, 10, p. 1-21, e0130471, doi.

DI LORENZO, Flaviana, KUBIK, Łukasz, OBLAK, Alja, LORÈ, Nicola Ivan, CIGANA, Cristina, LANZETTA, Rosa, PARRILLI, Michelangelo, HAMAD, Mohamad A., DE SOYZA, Anthony, SILIPO, Alba, JERALA, Roman, BRAGONZI, Alessandra, VALVANO, Miguel A., MARTÍN-SANTAMARÍA, Sonsoles, MOLINARO, Antonio. Activation of human TLR4/MD-2 by hypoacylated lipopolysaccharide from a clinical isolate of Burkholderia cenocepaciaThe Journal of Biological Chemistry, 2015, vol. 290, p. 21305-21319, doi.

HADŽI, San, ONDRAČKA, Andrej, JERALA, Roman, HAFNER BRATKOVIČ, Iva. Pathological mutations H187R and E196K facilitate subdomain separation and prion protein conversion by destabilization of the native structure. The FASEB journal, 2015, vol. 29, p. 882-893, doi.

KOČAR, Vid, BOŽIČ ABRAM, Sabina, DOLES, Tibor, BAŠIĆ, Nino, GRADIŠAR, Helena, PISANSKI, Tomaž, JERALA, Roman. TOPOFOLD : the designed modular biomolecular folds : polypeptide-based molecular origami nanostructures following the footsteps of DNA. Wiley interdisciplinary reviews, Nanomedicine and nanobiotechnology, 2015, vol. 7, p. 218-237, doi.

MAJERLE, Andreja, GABER, Rok, BENČINA, Mojca, JERALA, Roman. Function-based mutation-resistant synthetic signaling device activated by HIV-1 proteolysis. ACS synthetic biology, 2015, 4, p. 667-672, doi.

MANČEK KEBER, Mateja, JERALA, Roman. Postulates for validating TLR4 agonists. European Journal of Immunology, 2015, vol. 45, p. 356-370, doi.

MOLINARO, Antonio, HOLST, Otto, DI LORENZO, Flaviana, CALLAGHAN, Maire, NURISSO, Alessandra, D'ERRICO, Gerardino, ZAMYATINA, Alla, PERI, Francesco, BERISIO, Rita, JERALA, Roman, JIMÉNEZ-BARBERO, Jesús, SILIPO, Alba, MARTÍN-SANTAMARÍA, Sonsoles. Chemistry of lipid A : at the heart of innate immunity. Chemistry, 2015, vol. 21, p. 500-519, doi.

OBLAK, Alja, JERALA, Roman. The molecular mechanism of species-specific recognition of lipopolysaccharides by the MD-2/TLR4 receptor complex. Molecular Immunology, 2015, 134-142, doi.

OBLAK, Alja, POHAR, Jelka, JERALA, Roman. MD-2 determinants of nickel and cobalt-mediated activation of human TLR4. PloS one, 2015, 10, p. 1-15, e0120583, doi.

YÁÑEZ-MÓ, María, SILJANDER, Pia R.-M., ANDREU, Zoraida, BEDINA ZAVEC, Apolonija, BORRÀS, Francesc E., BUZAS, Edit I., BUZAS, Krisztina, CASAL, Enriqueta, CAPPELLO, Francesco, CARVALHO, Joana, KRALJ-IGLIČ, Veronika, MANČEK KEBER, Mateja, et al. Biological properties of extracellular vesicles and their physiological functions. Journal of extracellular vesicles, doi10.3402/jev.v4.27066.

2014

AVBELJ, Monika, WOLZ, Olaf-Oliver, FEKONJA, Ota, BENČINA, Mojca, REPIČ, Matej, MAVRI, Janez, KRÜGER, Jens, SCHÄRFE, Charlotta, DELMIRO-GARCIA, Magno, PANTER, Gabriela, KOHLBACHER, Oliver, WEBER, Alexander N.R., JERALA, Roman. Activation of lymphoma-associated MyD88 mutations via allostery-induced TIR domain oligomerization, Blood, 2014, vol. 124, p. 3896-3904. doi: 10.1182/blood-2014-05-573188

GABER, Rok, LEBAR, Tina, MAJERLE, Andreja, ŠTER, Branko, DOBNIKAR, Andrej, BENČINA, Mojca, JERALA, Roman. Designable DNA-binding domains enable construction of logic circuits in mammalian cells. Nature chemical biology, 2014, vol. 10, no. 3, p. 203-208, doi:10.1038/nchembio.1433.

LEBAR, Tina, BEZELJAK, Urban, GOLOB, Anja, JERALA, Miha, KADUNC, Lucija, PIRŠ, Boštjan, STRAŽAR, Martin, VUČKO, Dušan, ZUPANČIČ, Uroš, BENČINA, Mojca, FORSTNERIČ, Vida, GABER, Rok, LONZARIĆ, Jan, MAJERLE, Andreja, OBLAK, Alja, SMOLE, Anže, JERALA, Roman. A bistable genetic switch based on designable DNA-binding domains. Nature communications, 2014, vol. 5, str. 1-13, 5007, doi: 10.1038/ncomms6007.

ADANITSCH, Florian, ITTIG, Simon, STÖCKL, Johannes, OBLAK, Alja, HAEGMAN, Mira, JERALA, Roman, BEYAERT, Rudi, KOSMA, Paul, ZAMYATINA, Alla. Development of αGlcN(1↔1)αMan-based Lipid A mimetics as a novel class of potent Toll-like Receptor 4 agonists. Journal of medicinal chemistry, 2014, vol. 57, p. 8056-8071. doi: 10.1021/jm500946r.

CIGHETTI, Roberto, JERALA, Roman, et al. Modulation of CD14 and TLR4-MD-2 activities by a synthetic lipid a mimetic. ChemBioChem, 2014, vol. 15, p. 250-258. doi: 10.1002/cbic.201300588.

GRADIŠAR, Helena, JERALA, Roman. Self-assembled bionanostructures: proteins following the lead of DNA nanostructures. Journal of nanobiotechnology, 2014, vol. 12, iss. 1, p. 1-9, art. 4. doi: 10.1186/1477-3155-12-4.

KOČAR, Vid, BOŽIČ ABRAM, Sabina, DOLES, Tibor, BAŠIĆ, Nino, GRADIŠAR, Helena, PISANSKI, Tomaž, JERALA, Roman. TOPOFOLD: the designed modular biomolecular folds: polypeptide-based molecular origami nanostructures following the footsteps of DNA. Wiley interdisciplinary reviews, Nanomedicine and nanobiotechnology, 2014, vol. 6, iss. 5. doi: 10.1002/wnan.1289.

MANČEK KEBER, Mateja. Inflammation-mediating proteases: structure, function in (patho)physiology and inhibition. Protein peptide letters, 2014, 21, 1209-1229. doi: 10.2174/0929866521666140819123932.

OBLAK, Alja, JERALA, Roman. Species-specific activation of TLR4 by hypoacylated endotoxins governed by residues 82 and 122 of MD-2. PloS one, 2014, vol. 9, p. 1-11, e107520.

OBLAK, Alja, JERALA, Roman. The molecular mechanism of species-specific recognition of lipopolysaccharides by the MD-2/TLR4 receptor complex. Molecular Immunology, 2014, p. 1-9. doi: 10.1016/j.molimm.2014.06.034.

PAPAGIANNI, Maria, LEGIŠA, Matic. Increased mannitol production in Lactobacillus reuteri ATCC 55730 production strain with a modified 6-phosphofructo-1-kinase. Journal of biotechnology, 2014, vol. 181, p. 20-26.

POHAR, Jelka, PIRHER, Nina, BENČINA, Mojca, MANČEK KEBER, Mateja, JERALA, Roman. The ectodomain of TLR3 receptor is required for its plasma membrane translocation. PloS one, 2014, vol. 9, iss. 3, p. 1-11, e92391. doi: 10.1371/journal.pone.0092391.

RESMAN, Nuša, OBLAK, Alja, GIOANNINI, Theresa L., WEISS, Jerrold P., JERALA, Roman. Tetraacylated lipid A and paclitaxel-selective activation of TLR4/MD-2 conferred through hydrophobic interactions. The journal of immunology, 2014, vol. 192, no. 4, p. 1887-1895, doi: 10.4049/jimmunol.1302119.

RODRIGUEZ LAVADO, Julio, SESTITO, Stefania Enza, CIGHETTI, Roberto, AGUILAR MONCAYO, Eva, OBLAK, Alja, LAINŠČEK, Duško, JIMÉNEZ BLANCO, José Luis, GARCÍA FERNÁNDEZ, José Manuel, ORTIZ MELLET, Carmen, JERALA, Roman, CALABRESE, Valentina, PERI, Francesco. Trehalose- and glucose-derived glycoamphiphiles: small-molecule and nanoparticle Toll-like Receptor 4 (TLR4) modulators. Journal of medicinal chemistry, 2014, 57 (21), pp. 9105–9123 doi: 10.1021/jm501182w.

VALKONEN, Mari, PENTTILÄ, Merja, BENČINA, Mojca. Intracellular pH responses in the industrially important fungus Trichoderma reeseiFungal genetics and biology, 2014, vol. 70, p. 86-93. doi: 10.1016/j.fgb.2014.07.004.

ZELNIKAR, Mojca, BENČINA, Mojca, JERALA, Roman, MANČEK KEBER, Mateja. Vanadate from air pollutant inhibits Hrs-dependent endosome fusion and augments responsiveness to Toll-like receptors. PloS one, 2014, vol. 9, iss. 6, p. 1-8, e99287.

ZWEYTICK, Dagmar, JAPELJ, Boštjan, MILEYKOVSKAYA, Eugenia, ZORKO, Mateja, DOWHAN, William, BLONDELLE, Sylvie E., RIEDL, Sabrina, JERALA, Roman, LOHNER, Karl. N-acylated peptides derived from human lactoferricin perturb organization of cardiolipin and phosphatidylethanolamine in cell membranes and induce defects in Escherichia coli cell division. PloS one, 2014, vol. 9, iss. 3, p. 1-12, e90228. doi: 10.1371/ journal.pone.0090228.

2013

GRADIŠAR, Helena, BOŽIČ ABRAM, Sabina, DOLES, Tibor, VENGUST, Damjan, HAFNER BRATKOVIČ, Iva, MERTELJ, Alenka, WEBB, Ben, ŠALI, Andrej, KLAVŽAR, Sandi, JERALA, Roman. Design of a single-chain polypeptide tetrahedron assembled from coiled-coil segments. Nature chemical biology, 2013, vol. 9, issue 6, p. 362-366, doi: 10.1038/nCHeMBIO.1248.

ARTNER, Daniel, OBLAK, Alja, ITTIG, Simon, GARATE, Jose Antonio, HORVAT, Simon, ARRIEUMERLOU, Cécile, HOFINGER, Andreas, OOSTENBRINK, Chris, JERALA, Roman, KOSMA, Paul, ZAMYATINA, Alla. Conformationally constrained lipid A mimetics for exploration of structural basis of TLR4/MD-2 activation by lipopolysaccharide. ACS chemical biology, 2013, vol. 8, iss. 11, p. 2423-2432, doi: 10.1021/cb4003199.

BENČINA, Mojca. Illumination of the spatial order of intracellular pH by genetically encoded pH-sensitive sensors. Sensors, 2013, vol. 13, iss. 12, str. 16736-16758, doi: 10.3390/s131216736.

BOŽIČ ABRAM, Sabina, DOLES, Tibor, GRADIŠAR, Helena, JERALA, Roman. New designed protein assemblies. Current opinion in chemical biology, 2013, vol. 17, issue 6, p. 940-945. doi: 10.1016/j.cbpa.2013.10.014.

ČRNIGOJ, Miha, PODLESEK, Zdravko, ZORKO, Mateja, JERALA, Roman, ANDERLUH, Gregor, POKLAR ULRIH, Nataša. Interactions of archaeal chromatin proteins Alba1 and Alba2 with nucleic acids. PloS one, 2013, vol. 8, no. 2, p. 1-12, e58237, doi: 10.1371/journal.pone.0058237.

GABER, Rok, MAJERLE, Andreja, JERALA, Roman, BENČINA, Mojca. Noninvasive high-throughput single-cell analysis of HIV protease activity using ratiometric flow cytometry. Sensors, 2013, vol. 13, iss. 12, p. 16330-16346, doi: 10.3390/s131216330.

IVIČAK-KOCJAN, Karolina, PANTER, Gabriela, BENČINA, Mojca, JERALA, Roman. Determination of the physiological 2:2 TLR5:flagellin activation stoichiometry revealed by the activity of a fusion receptor. Biochemical and biophysical research communications, 2013, vol. 435, issue 1, p. 40-45, doi: 10.1016/j.bbrc.2013.04.030.

NADRAH, Peter, MAVER, Uroš, JEMEC, Anita, TIŠLER, Tatjana, BELE, Marjan, DRAŽIĆ, Goran, BENČINA, Mojca, PINTAR, Albin, PLANINŠEK, Odon, GABERŠČEK, Miran. Hindered disulfide bonds to regulate release rate of model drug from mesoporous silica. ACS applied materials & interfaces, 2013, vol. 5, issue 9, p. 3908-3915, doi: 10.1021/am400604d.

POHAR, Jelka, PIRHER, Nina, BENČINA, Mojca, MANČEK KEBER, Mateja, JERALA, Roman. The role of UNC93B1 protein in surface localization of TLR3 receptor and in cell priming to nucleic acid agonists. The Journal of biological chemistry, 2013, vol. 288, issue 1, p. 442-454. doi: 10.1074/jbc.M112.413922.

SMOLE, Anže, KUŽNIK, Alenka, OBLAK, Alja, PIRHER, Nina, JERALA, Roman. Delivery system for the enhanced efficiency of immunostimulatory nucleic acids. Innate immunity, 2013, vol. 19, no. 1, p. 53-65, doi: 10.1177/1753425912450346.

VALKONEN, Mari, MOJZITA, Dominik, PENTTILÄ, Merja, BENČINA, Mojca. Non-invasive high-throughput single-cell analysis of the intracellular pH of yeast by ratiometric flow cytometry. Applied and environmental microbiology, 2013, vol. 79, no. 23, str. 7179-7187, doi: 10.1128/AEM.02515-13.

VERDEL, Nada, KRŽAN, Andrej, BENČINA, Mojca, ŽIGON, Majda. Determination of the interactions between Zn [sup] 2+ and water soluble polymer ligands with potential use in controlled drug delivery. Acta chimica slovenica, 2013, vol. 60, no. 3, p. 651-659.

2012

BAGAR, Tanja, BENČINA, Mojca. Antiarrhythmic drug amiodarone displays antifungal activity, induces irregularcalcium response and intracellular acidification of "Aspergillus niger" - Amiodarone targets calcium and pH homeostasis of "A. niger". Fungal genetics and biology, ISSN 1096-0937, 2012, vol. 49, iss. 10, p. 779-791, article, doi: 10.1016/j.fgb.2012.07.007.

BRVAR, Matjaž, PERDIH, Andrej, HODNIK, Vesna, RENKO, Miha, ANDERLUH, Gregor, JERALA, Roman, ŠOLMAJER, Tomaž. In silico discovery and biophysical evaluation of novel 5-(2-hydroxybenzylidene) rhodanine inhibitors of DNA gyrase B. Bioorganic & Medicinal Chemistry, ISSN 0968-0896. [Print ed.], 2012, vol. 20, iss. 8, p. 2572-2580. article.

CONDE-ALVAREZ, Raquel, ARCE-GORVEL, Vilma, IRIARTE, Maite, MANČEK KEBER, Mateja, BARQUERO-CALVO, Elias, PALACIOS-CHAVES, Leyre, CHACON-DIAZ, Carlos, CHAVES-OLARTE, Esteban, MARTIROSYAN, Anna, VON BARGEN, Kristine, GRILLÓ, María-Jesús, JERALA, Roman, BRANDENBURG, Klaus, LLOBET, Enrique, BENGOECHEA, José A., MORENO, Edgardo, MORIYON, Ignacio, GORVEL, Jean-Pierre. The lipopolysaccharide core of "Brucella abortus" acts as a shield against innate immunity recognition. PLOS pathogens, ISSN 1553-7366, 2012, vol. 8, iss. 5, p. e1002675-1-e1002675-14. free article.

CONRADO, Robert J., LEBAR, Tina, TURNŠEK, Jernej, TOMŠIČ, Nejc, AVBELJ, Monika, GABER, Rok, KOPRIVNJAK, Tomaž, MORI, Jerneja, GLAVNIK, Vesna, VOVK, Irena, BENČINA, Mojca, HODNIK, Vesna, ANDERLUH, Gregor, JERALA, Roman, et al. DNA-guided assembly of biosynthetic pathways promotes improved catalytic efficiency. Nucleic acids research, ISSN 0305-1048, 2012, vol. 40, no. 4, p. 1879-1889, free article, doi: 10.1093/nar/gkr888.

DOLES, Tibor, BOŽIČ ABRAM, Sabina, GRADIŠAR, Helena, JERALA, Roman. Functional self-assembling polypeptide bionanomaterials. In: CASS, Tony (ed.). Bionanotechnology III : from biomolecular assembly to applications : Robinson College, Cambridge, U.K., 4-6 January 2012. London: Biochemical Society, 2012, vol. 40, no. 4, p. 629-634, article, doi: 10.1042/BST20120025.

DUŠANIĆ, Daliborka, BENČINA, Dušan, OVEN, Irena, CIZELJ, Ivanka, BENČINA, Mojca, NARAT, Mojca. Mycoplasma synoviae induces upregulation of apoptotic genes, secretion of nitric oxide and appearance of an apoptotic phenotype in infected chicken chondrocytes. Veterinary research, ISSN 1297-9716, 2012, vol. 43, no. 7, p. 1-14. free article, doi: 10.1186/1297-9716-43-7.

FEKONJA, Ota, AVBELJ, Monika, JERALA, Roman. Suppression of TLR signaling by targeting TIR domain-containing proteins. Current protein and peptide science, ISSN 1389-2037, 2012, vol. 13, no. 8, p. 776-788, article, doi: 10.2174/138920312804871148.

FEKONJA, Ota, BENČINA, Mojca, JERALA, Roman. Toll/interleukin-1 receptor domain dimers as the platform for activation and enhanced inhibition of Toll-like receptor signaling. The Journal of biological chemistry, ISSN 0021-9258, 2012, vol. 287, no. 37, p. 30993-31002. article, doi: 10.1074/jbc.M112.376186.

HAFNER BRATKOVIČ, Iva, BENČINA, Mojca, FITZGERALD, Katherine A., GOLENBOCK, Douglas, JERALA, Roman. NLRP3 inflammasome activation in macrophage cell lines by prion protein fibrils as the source of IL-1[beta] and neuronal toxicity. Cellular and molecular life sciences, ISSN 1420-682X, 2012, vol. 69, iss. 24, p. 4215-4228, article, doi: 10.1007/s00018-012-1140-0.

LAPLANTE, Mathieu, HORVAT, Simon, FESTUCCIA, William T., BIRSOY, Kivanc, PREVORŠEK, Zala, EFEYAN, Alejo, SABATINI, David M. DEPTOR cell-autonomously promotes adipogenesis, and its expression is associated with obesity. Cell metabolism, ISSN 1550-4131, 2012, vol. 16, no. 2, p. 202-212. article, doi: 10.1016/j.cmet.2012.07.008.

MANČEK KEBER, Mateja, BENČINA, Mojca, JAPELJ, Boštjan, PANTER, Gabriela, ANDRÄ, Jörg, BRANDENBURG, Klaus, TRIANTAFILOU, Martha, TRIANTAFILOU, Kathy, JERALA, Roman. MARCKS as a negative regulator of lipopolysaccharide signaling. The journal of immunology, ISSN 0022-1767, 2012, vol. 188, no. 8, p. 3893-3902. article, doi: 10.4049/jimmunol.1003605.

MORI, Jerneja, VRANAC, Tanja, SMREKAR, Boštjan, ČERNILEC, Maja, ČURIN-ŠERBEC, Vladka, HORVAT, Simon, IHAN, Alojz, BENČINA, Mojca, JERALA, Roman. Chimeric flagellin as the self-adjuvanting antigen for the activation of immune response against Helicobacter pylori. Vaccine, ISSN 0264-410X. 2012, vol. 30, issue 40, p. 5856-5863. article, doi: 10.1016/j.vaccine.2012.07.011.

ŠTER, Branko, GABER, Rok, AVBELJ, Monika, JERALA, Roman, DOBNIKAR, Andrej. Design of information processing in cells using artificial gene repressors. Przeglęad Elektrotechniczny, ISSN 0033-2097, 2012, no. 2, p. 105-109, free article.

TOIVARI, Mervi, NYGÅRD, Yvonne, KUMPULA, Esa-Pekka, VEHKOMÄKI, Maija-Leena, BENČINA, Mojca, VALKONEN, Mari, MAAHEIMO, Hannu, ANDBERG, Martina, KOIVULA, Anu, RUOHONEN, Laura, PENTTILÄ, Merja, WIEBE, Marilyn G. Metabolic engineering of Saccharomyces cerevisiae for bioconversion of D-xylose to D-xylonate. Metabolic engineering, ISSN 1096-7176, 2012, vol. 14, iss. 4, p. 427-436, article, doi: 10.1016/j.ymben.2012.03.002.

2011

AVBELJ, Matevž, HAFNER BRATKOVIČ, Iva, JERALA, Roman. Introduction of glutamines into the B2-H2 loop promotes prion protein conversion. Biochemical and biophysical research communications, ISSN 0006-291X, 2011, vol. 413, issue 3, p. 521-526, article, doi: 10.1016/j.bbrc.2011.08.125.

AVBELJ, Monika, HORVAT, Simon, JERALA, Roman. The role of intermediary domain of MyD88 in cell activation and therapeutic inhibition of TLRs. The journal of immunology, ISSN 0022-1767, 2011, vol. 187, no. 5, p. 2394-2404. article, doi: 10.4049/jimmunol.1100515.

BINDER, Ulrike, BENČINA, Mojca, EIGENTLER, Andrea, MEYER, Vera, MARX, Florentine. The Aspergillus giganteus antifungal protein AFP [sub] NN5353 activates the cell wall integrity pathway and perturbs calcium homeostasis. BMC microbiology, ISSN 1471-2180, 2011, vol. 11, article no. 209, p. 1-13, free article, doi: 10.1186/1471-2180-11-209.

GRADIŠAR, Helena, JERALA, Roman. De novo design of orthogonal peptide pairs forming parallel coiled-coil heterodimers. Journal of peptide science, ISSN 1075-2617, 2011, vol. 17, no. 2, p. 100-106, article.

HAFNER BRATKOVIČ, Iva, BESTER, Romina, PRISTOVŠEK, Primož, GAEDTKE, Lars, VERANIČ, Peter, GAŠPERŠIČ, Jernej, MANČEK KEBER, Mateja, AVBELJ, Matevž, POLYMENIDOU, Magdalini, JULIUS, Christian, AGUZZI, Adriano, VORBERG, Ina, JERALA, Roman. Globular domain of the prion protein needs to be unlocked by domain swapping to support prion protein conversion. The Journal of biological chemistry, ISSN 0021-9258, 2011, vol. 286, no. 14, p. 12149-12156, article, doi: 10.1074/jbc.M110.213926.

HAFNER BRATKOVIČ, Iva, GAEDTKE, Lars, ONDRAČKA, Andrej, VERANIČ, Peter, VORBERG, Ina, JERALA, Roman. Effect of hydrophobic mutations in the H2-H3 subdomain of prion protein on stability and conversion In Vitro and In Vivo. PloS one, ISSN 1932-6203, sep. 2011, vol. 6, iss. 9, p. e24238-1-e24238-9, free article, doi: 10.1371/journal.pone.0024238.

HAFNER BRATKOVIČ, Iva, JERALA, Roman. Disulfide mapping reveals the domain swapping as the crucial process of the structural conversion of prion protein. Prion, ISSN 1933-6896. [Print ed.], 2011, vol. 5, no. 2, p. 1-4, free article.

JERALA, Miha, JERALA, Roman, HAFNER BRATKOVIČ, Iva. A DNA origami of Slovenia in nano dimensions. Acta chimica slovenica, ISSN 1318-0207. [Printed ed.], 2011, no. 1, vol. 58, p. 181-184, article.

KOPRIVNJAK, Tomaž, PESCHEL, Andreas. Bacterial resistance mechanisms against host defense peptides. Cellular and Molecular Life Sciences, 2011, vol. 68, iss. 13, p. 2243-2254. article, doi: 10.1007/s00018-011-0716-4.

KUŽNIK, Alenka, BENČINA, Mojca, ŠVAJGER, Urban, JERAS, Matjaž, ROZMAN, Blaž, JERALA, Roman. Mechanism of endosomal TLR inhibition by antimalarial drugs and imidazoquinolines. The journal of immunology, ISSN 0022-1767, Apr. 2011, vol. 186, no. 8, p. 4794-8408, article, doi: 10.4049/jimmunol.1000702.

MAJERLE, Andreja, PRISTOVŠEK, Primož, MANČEK KEBER, Mateja, JERALA, Roman. Interaction of the HIV-1 GP120 V3 loop with bacterial lipopolysaccharide : a pattern recognition inhibition. The Journal of biological chemistry, ISSN 0021-9258, 2011, vol. 286, issue 29, p. 26228-26237, article, doi: 10.1074/jbc.M111.220434.

OBLAK, Alja, JERALA, Roman. Toll-like receptor 4 activation in cancer progression and therapy. Clinical & developmental immunology, ISSN 1740-2522, 2011, p. [1-12]. article, doi: 10.1155/2011/609579.

PANTER, Gabriela, JERALA, Roman. Ectodomain of the toll-like receptor 4 prevents constitutive receptor activation. The Journal of biological chemistry, ISSN 0021-9258, 2011, vol. 286, no. 26, p. 23334-23344, article, doi: 10.1074/jbc.M110.205419.

SANCHEZ-GOMEZ, Susana, JAPELJ, Boštjan, JERALA, Roman, MORIYON, Ignacio, FERNÁNDEZ ALONSO, Mirian, LEIVA, Jose, BLONDELLE, Sylvie E., ANDRÄ, Jörg, BRANDENBURG, Klaus, LOHNER, Karl, TEJADA DE GARAIZÁBAL, Guillermo Martinez de. Structural features governing the activity of lactoferricin-derived peptides that act in synergy with antibiotics against Pseudomonas aeruginosa In Vitro and In Vivo. Antimicrobial agents and chemotherapy, ISSN 0066-4804, 2011, vol. 55, no. 1, p. 218-228, article, doi: 10.1128/AAC.00904-10.

ŠMERC, Andreja, SODJA, Eva, LEGIŠA, Matic. Posttranslational modification of 6-phosphofructo-1-kinase as an important feature of cancer metabolism. PloS one, ISSN 1932-6203, May 2011, vol. 6, iss. 5, 12 str. free article.

ŠTER, Branko, AVBELJ, Monika, JERALA, Roman, DOBNIKAR, Andrej. On the origin and features of an evolved Boolean model for subcellular signal transduction systems. In: DOBNIKAR, Andrej (ed.), LOTRIČ, Uroš (ed.), ŠTER, Branko (ed.). Adaptive and natural computing algorithms : 10th international conference, ICANNGA 2011, Ljubljana, Slovenia, April 14-16, 2011 : proceedings, (Lecture notes in computer science, ISSN 0302-9743, 6593; 6594). Heidelberg [etc.]: Springer, cop. 2011, part 2, p. 383-392, article.

ŠUŠTAR, Vid, BEDINA ZAVEC, Apolonija, ŠTUKELJ, Roman, FRANK, Mojca, BOBOJEVIĆ, Goran, JANŠA, Rado, OGOREVC, Eva, KRULJC, Peter, MAM, Keriya, ŠIMUNIČ, Boštjan, MANČEK KEBER, Mateja, JERALA, Roman, ROZMAN, Blaž, VERANIČ, Peter, HÄGERSTRAND, Henry, KRALJ-IGLIČ, Veronika. Nanoparticles isolated from blood : a reflection of vesiculability of blood cells during the isolation process. International journal of nanomedicine, ISSN 1178-2013. [Online ed.], 2011, vol. 6, p. 2737-2748. article, doi: org/10.2147/IJN.S24537.

ZWEYTICK, Dagmar, DEUTSCH, Günter, ANDRÄ, Jörg, BLONDELLE, Sylvie E., VOLLMER, Ekkehard, JERALA, Roman, LOHNER, Karl. Studies on lactoferricin derived E. coli membrane active peptides reveal differences in the mechanism of N-acylated versus non-acylated peptides. The Journal of biological chemistry, ISSN 0021-9258, 2011, vol. 286, no. 24, p. 21266-21276, article, doi: 10.1074/jbc.M110.195412.

2010

ČERU, Slavko, KONJAR, Špela, MAHER, Katarina, REPNIK, Urška, KRIŽAJ, Igor, BENČINA, Mojca, RENKO, Miha, NEPVEU, Alain, ŽEROVNIK, Eva, TURK, Boris, KOPITAR-JERALA, Nataša. Stefin B interacts with histones and cathepsin L in the nucleus. The Journal of biological chemistry, ISSN 0021-9258, 2010, vol. 285, no. 13, p. 10078-10086, article, doi: 10.1074/jbc.M109.034793

DOWDELLS, C., JONES, R. L., MATTEY, Michael, BENČINA, Mojca, LEGIŠA, Matic, MOUSDALE, David M. Gluconic acid production by Aspergillus terreus. Letters in applied microbiology, ISSN 0266-8254, 2010, vol. 51, issue 3, p. 252-257, article, doi: 10.1111/j.1472-765X.2010.02890.x.

GAŠPERŠIČ, Jernej, HAFNER BRATKOVIČ, Iva, STEPHAN, Michel, VERANIČ, Peter, BENČINA, Mojca, VORBERG, Ina, JERALA, Roman. Tetracysteine-tagged prion protein allows discrimination between the native and converted forms. FEBS journal, ISSN 1742-464X, 2010, vol. 277, no. 9, p. 2038-2050, article, doi: 10.1111/j.1742-4658.2010.07619.x.

KUŽNIK, Alenka, PANTER, Gabriela, JERALA, Roman. Recognition of Nucleic Acids by Toll-Like Receptors and Development of Immunomodulatory Drugs. Current Medicinal Chemistry. 2010. iss. 18, vol. 17, pp. 1899-1914. article

MOHORČIČ, Martina, JERMAN, Ivan, ZORKO, Mateja, BUTINAR, Lorena, OREL, Boris, JERALA, Roman, FRIEDRICH, Jožica. Surface with antimicrobial activity obtained through silane coating with covalently bound polymyxin B. Journal of materials science. Materials in medicine, ISSN 0957-4530, 2010, vol. 21, issue 10, p. 2775-2782. article, doi: 10.1007/s10856-010-4136-z.

SABAINI, Maria B., ZINNI, Maria A., MOHORČIČ, Martina, FRIEDRICH, Jožefa, IRIBARREN, Adolfo M., IGLESIAS, Luise E. Enzymatic regioselective and complete deacetylation of two arabinonucleosides. Journal of Molecular Catalysis B: Enzymatic. 2010, iss. 3-4, vol. 62, pp. 225-229, article, DOI: 10.1016/j.molcatb.2009.10.011.

TEVŽ, Gregor, BENČINA, Mojca, LEGIŠA, Matic. Enhancing itaconic acid production by Aspergillus terreus. Applied microbiology and biotechnology, ISSN 0175-7598, 2010, vol. 87, p. 1657-1664, article, doi: 10.1007/s00253-010-2642-z.

USENIK, Aleksandra, LEGIŠA, Matic. Evolution of allosteric citrate bindings sites on 6-phosphofructo-1-kinase : evolution of 6-phosphofructo-1-kinase. PloS one, ISSN 1932-6203, 2010, vol. 5, iss. 11, 8, article, doi: 10.1371/journal.pone.0015447.

Starejše objave

WORTMAN, Jennifer Russo, BENČINA, Mojca, KRAŠEVEC, Nada, et al. The 2008 update of the Aspergillus nidulans genome annotation : a community effort. Fungal genetics and biology, ISSN 1087-1845, 2009, issue 1, vol. 46, str. S2-S13, doi: 10.1016/j.fgb.2008.12.003. [COBISS.SI-ID 4069402]

BENČINA, Mojca, BAGAR, Tanja, LAH, Ljerka, KRAŠEVEC, Nada. A comparative genomic analysis of calcium and proton signaling/homeostasis in Aspergillus species. Fungal genetics and biology, ISSN 1087-1845, 2009, vol. 46, issue 1, str. S93-S104. [COBISS.SI-ID 4000538]

CAPUDER, Maja, ŠOLAR, Tina, BENČINA, Mojca, LEGIŠA, Matic. Highly active, citrate inhibition resistant form of Aspergillus niger 6-phosphofructo-1-kinase encoded by a modified pfkA gene. In: Industrial biotechnology: Current status and future development for the sustainability of human society : [proceeding of] 13th International Biotechnology Symposium and exhibition [also] IBS 2008, Dalian, China, 12-17 October 2008, (Journal of biotechnology, ISSN 0168-1656, Vol. 144, iss. 1, 2009). Amsterdam: Elsevier, 2009, str. 51-57. [COBISS.SI-ID 4143642]

BAGAR, Tanja, ALTENBACH, Kirsten, READ, Nick Duncan, BENČINA, Mojca. Live-cell imaging and measurement of intracellular pH in filamentous fungi using a genetically encoded ratiometric probe. Eukaryotic cell, ISSN 1535-9778. [Print ed.], 2009, vol. 8, no. 5, str. 703-712. [COBISS.SI-ID 4115738]

TREEBY, Mireille, VAŠL, Jožica, OTA, Peter, FRIEDRICH, Jožica, JERALA, Roman. Different functional role of domain boundaries of Toll-like receptor 4. Biochemical and biophysical research communications, ISSN 0006-291X, 2009, vol. 381, no. 1, p. 65-69. [COBISS.SI-ID 4118298]

ZORKO, Mateja, JAPELJ, Boštjan, HAFNER BRATKOVIČ, Iva, JERALA, Roman. Expression, purification and structural studies of a short antimicrobial peptide. Biochimica et biophysica acta, Biomembranes, ISSN 0005-2736. [Print ed.], 2009, vol. 1788, no. 2, p. 314-323, doi: 10.1016/j.bbamem.2008.10.015. [COBISS.SI-ID 4071962]

MOHORČIČ, Martina, BENČINA, Mojca, FRIEDRICH, Jožica, JERALA, Roman. Expression of soluble versatile peroxidase of Bjerkandera adusta in Escherichia coli. Bioresource technology, ISSN 0960-8524. [Print ed.], 2009, issue 2, vol. 100, p. 851-858. doi: 10.1016/j. biortech.2008.07.005. [COBISS.SI-ID 3979034]

PANTER, Gabriela, KUŽNIK, Alenka, JERALA, Roman. Therapeutic applications of nucleic acids as ligands for toll-like receptors. Current opinion in molecular therapeutics, ISSN 1464-8431, 2009, vol. 11, no. 2, p. 133-145. [COBISS.SI-ID 4121114]

MOŠKON, Miha, AVBELJ, Monika, JERALA, Roman, ZIMIC, Nikolaj, MRAZ, Miha. Model realizacije funkcionalnosti RS-pomnilne celice v biološkem sistemu = A model of the RS memory-cell realization in biological systems. Elektrotehniški vestnik, ISSN 0013-5852. [Slovenska tiskana izd.], 2009, letn. 76, št. 4, p. 223-228, ilustr. [COBISS.SI-ID 7445332]

RESMAN, Nuša, VAŠL, Jožica, OBLAK, Alja, PRISTOVŠEK, Primož, GIOANNINI, Theresa L., WEISS, Jerrold P., JERALA, Roman. Essential roles of hydrophobic residues in both MD-2 and toll-like receptor 4 in activation by endotoxin. The Journal of biological chemistry, ISSN 0021-9258, 2009, issue 22, vol. 284, p. 15052-15060. doi: 10.1074/jbc.M901429200. [COBISS.SI-ID 4120602]

MANČEK KEBER, Mateja, GRADIŠAR, Helena, INIGO PESTANA, Melania, TEJADA DE GARAIZÁBAL, Guillermo Martinez de, JERALA, Roman. Free thiol group of MD-2 as the target for inhibition of the lipopolysaccharide-induced cell activation. The Journal of biological chemistry, ISSN 0021-9258, 2009, vol. 284, no. 29, p. 19493-19500. [COBISS.SI-ID 4173082]

VAŠL, Jožica, OBLAK, Alja, GIOANNINI, Theresa L., WEISS, Jerrold P., JERALA, Roman. Novel roles of lysines 122, 125, and 58 in functional differences between human and murine MD-2. The journal of immunology, ISSN 0022-1767, 2009, issue 8, vol. 183, p. 5138-5145, doi: 10.4049/jimmunol.0901544. [COBISS.SI-ID 4227098]

BARQUERO-CALVO, Elias, CONDE-ALVAREZ, Raquel, CHACON-DIAZ, Carlos, QUESADA-LOBO, Lucia, MARTIROSYAN, Anna, GUZMAN-VERRI, Caterina, IRIARTE, Maite, MANČEK KEBER, Mateja, JERALA, Roman, GORVEL, Jean Pierre, MORIYON, Ignacio, MORENO, Edgardo, CHAVES-OLARTE, Esteban. The differential interaction of Brucella and Ochrobactrum with innate immunity reveals traits related to the evolution of stealthy pathogens. PloS one, ISSN 1932-6203, 2009, vol. 4, no. 6, p. e5893-1-e5893-17. link [COBISS.SI-ID 4172826]

FRANK, Mojca, MANČEK KEBER, Mateja, KRŽAN, Mojca, SODIN-ŠEMRL, Snežna, JERALA, Roman, IGLIČ, Aleš, ROZMAN, Blaž, KRALJ-IGLIČ, Veronika. Prevention of microvesiculation by adhesion of buds to the mother cell membrane - A possible anticoagulant effect of healthy donor plasma. Autoimmunity reviews, ISSN 1568-9972, 2008, letn. 7, št. 3, p. 240-245. [COBISS.SI-ID 23693785]

SANCHEZ-GOMEZ, Susana, LAMATA, Marta, LEIVA, Jose, BLONDELLE, Sylvie E., JERALA, Roman, ANDRÄ, Jörg, BRANDENBURG, Klaus, LOHNER, Karl, MORIYON, Ignacio, TEJADA DE GARAIZÁBAL, Guillermo Martinez de. Comparative analysis of selected methods for the assessment of antimicrobial and membrane-permeabilizing activity : a case study for lactoferricin derived peptides. BMC microbiology, ISSN 1471-2180, 11 November 2008, vol. 8, p. 1-9. http://www.biomedcentral.com. [COBISS.SI-ID 4081178]

RESMAN, Nuša, GRADIŠAR, Helena, VAŠL, Jožica, MANČEK KEBER, Mateja, PRISTOVŠEK, Primož, JERALA, Roman. Taxanes inhibit human TLR4 signaling by binding to MD-2. FEBS letters, ISSN 0014-5793. [Print ed.], 2008, vol. 582, no. 28, p. 3929-3934. [COBISS.SI-ID 4065818]

ZORKO, Mateja, JERALA, Roman. Alexidine and chlorhexidine bind to lipopolysaccharide and lipoteichoic acid and prevent cell activation by antibiotics. Journal of antimicrobial chemotherapy, ISSN 0305-7453, 2008, issue 4, vol. 62, p. 730-737. http://jac.oxfordjournals. org/cgi/content/abstract/dkn270v1?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=&fulltext=jerala&searchid=1&FIRSTINDEX=0&resourcetype=HWCIT, doi: 10.1093/jac/dkn270. [COBISS.SI-ID 3979290]

VAŠL, Jožica, PROHINAR, Polonca, GIOANNINI, Theresa L., WEISS, Jerrold P., JERALA, Roman. Functional activity of MD-2 polymorphic variant is significantly different in soluble and TLR4-bound forms : decreased endotoxin binding by G56R MD-2 and its rescue by TLR4 ectodomain. The journal of immunology, ISSN 0022-1767, 2008, vol. 180, no. 9, p. 6107-6115. [COBISS.SI-ID 3905562]

HAFNER BRATKOVIČ, Iva, GAŠPERŠIČ, Jernej, ŠMID, Lojze, BRESJANAC, Mara, JERALA, Roman. Curcumin binds to the [alpha]-helical intermediate and to the amyloid form of prion protein - a new mechanism for the inhibition of PrP[sup](Sc) accumulation. Journal of neurochemistry, ISSN 0022-3042, 2008, vol. 104, no. 6, p. 1553-1564, doi: 10.1111/j.1471-4159.2007.05105.x. [COBISS.SI-ID 3896346]

PIRHER, Nina, IVIČAK, Karolina, POHAR, Jelka, BENČINA, Mojca, JERALA, Roman. A second binding site for double-stranded RNA in TLR3 and consequences for interferon activation. Nature structural & molecular biology, ISSN 1545-9985. Online ed., 2008, vol. 15, no. 7, p. 761-763, doi: 10.1038/nsmb.1443. [COBISS.SI-ID 3954714]

POLYMENIDOU, Magdalini, MOOS, Rita, SCOTT, Mike, SIGURDSON, Christina, SHI, Yong-zhong, YAJIMA, Bill, HAFNER BRATKOVIČ, Iva, JERALA, Roman, HORNEMANN, Simone, WÜTHRICH, Kurt, BELLON, Anne, VEY, Martin, GREY, Graciela, JAMES, Michael N. G., KAV, Nat, AGUZZI, Adriano. The POM monoclonals : a comprehensive set of antibodies to non-overlapping prion protein epitopes. PloS one, ISSN 1932-6203, 2008, vol. 3, no. 12, p. e3872-1-e3872-17. http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0003872. [COBISS.SI-ID 4096794]

JERALA, Roman. Synthetic lipopeptides : a novel calss of anti-infectives. Expert opinion on investigational drugs, ISSN 1354-3784, 2007, vol. 16, no. 8, p. 1159-1169. [COBISS.SI-ID 3760666]

JERALA, Roman. Structural biology of the LPS recognition. International journal of medical microbiology, ISSN 1438-4221, 2007, vol. 297, no. 5, p. 353-363. [COBISS.SI-ID 3759898]

GRADIŠAR, Helena, MANČEK KEBER, Mateja, PRISTOVŠEK, Primož, JERALA, Roman. MD-2 as the target of curcumin in the inhibition of response to LPS. Journal of leukocyte biology, ISSN 0741-5400, 2007, vol. 82, no. 4, p. 968-974. [COBISS.SI-ID 3732762]

GRADIŠAR, Helena, PRISTOVŠEK, Primož, PLAPER, Andreja, JERALA, Roman. Green tea catechins inhibit bacterial DNA gyrase by interaction with its ATP binding site. Journal of medicinal chemistry, ISSN 0022-2623, 2007, vol. 50, no. 2, p. 264-271. [COBISS.SI-ID 3623450]

JAPELJ, Boštjan, ZORKO, Mateja, MAJERLE, Andreja, PRISTOVŠEK, Primož, SANCHEZ-GOMEZ, Susana, TEJADA DE GARAIZÁBAL, Guillermo Martinez de, MORIYON, Ignacio, BLONDELLE, Sylvie E., BRANDENBURG, Klaus, ANDRÄ, Jörg, LOHNER, Karl, JERALA, Roman. The acyl group as the central element of the structural organization of antimicrobial lipopeptide. Journal of the American Chemical Society, ISSN 0002-7863, 2007, vol. 129, no. 5, p. 1022-1023. [COBISS.SI-ID 3635994]

ZWEYTICK, Dagmar, PABST, Georg, ABUJA, Peter M., JILEK, Alexander, BLONDELLE, Sylvie E., ANDRÄ, Jörg, JERALA, Roman, MONREAL, Daniel, TEJADA DE GARAIZÁBAL, Guillermo Martinez de, LOHNER, Karl. Influence of N-acylation of a peptide derived from human lactoferricin on membrane selectivity. Biochimica et biophysica acta, Biomembranes, ISSN 0005-2736. [Print ed.], 2006, vol. 1758, no. 9, p. 1426-1435. [COBISS.SI-ID 3484698]

MANČEK KEBER, Mateja, JERALA, Roman. Structural similarity between the hydrophobic fluorescent probe and lipid A as a ligand of MD-2. The FASEB journal, ISSN 0892-6638, 2006, vol. 20, no. 11, p. 1836-1842. [COBISS.SI-ID 3476506]

ZORKO, Mateja, MAJERLE, Andreja, ŠARLAH, David, MANČEK KEBER, Mateja, MOHAR, Barbara, JERALA, Roman. Combination of antimicrobial and endotoxin neutralizing activity of novel oleoylamines. Antimicrobial agents and chemotherapy, ISSN 0066-4804, 2005, vol. 49, p. 2307-2313. [COBISS.SI-ID 3224346]

GRADIŠAR, Helena, FRIEDRICH, Jožica, KRIŽAJ, Igor, JERALA, Roman. Similarities and specificities of fungal keratinolytic proteases : keratinases of Paecilomyces marquandii and Doratomyces microsporus in comparison to some known proteases. Applied and environmental microbiology, ISSN 0099-2240, 2005, vol. 71, no.7, p. 3420-3426. [COBISS.SI-ID 3234586]

ANDRÄ, Jörg, LOHNER, Karl, BLONDELLE, Sylvie E., JERALA, Roman, MORIYON, Ignacio, KOCH, Michel H. J., GARIDEL, Patrick, BRANDENBURG, Klaus. Enhancement of endotoxin neutralization by coupling of a C12-alkyl chain to a lactoferricin-derived peptide. Biochemical journal, ISSN 0264-6021, 2005, vol. 385, part 1, p. 135-143. [COBISS.SI-ID 3182106]

OBLAK, Marko, GOLIČ GRDADOLNIK, Simona, KOTNIK, Miha, JERALA, Roman, FILIPIČ, Metka, ŠOLMAJER, Tomaž. In silico fragment-based discovery of indolin-2-one analogues as potent DNA gyrase inhibitors. Bioorganic & Medicinal Chemistry Letters, ISSN 0960-894X. [Print ed.], 2005, vol. 15, no. 23, p. 5207-5210. [COBISS.SI-ID 3372826]

JAPELJ, Boštjan, PRISTOVŠEK, Primož, MAJERLE, Andreja, JERALA, Roman. Structural origin of endotoxin neutralization and antimicrobial activity of a lactoferrin-based peptide. The Journal of biological chemistry, ISSN 0021-9258, 2005, vol. 280, no. 17, p. 16955-16961. [COBISS.SI-ID 3224090]

MANČEK KEBER, Mateja, GRADIŠAR, Helena, JERALA, Roman. MD-2 and Der p 2 - a tale of two cousins or distant relatives?. Journal of endotoxin research, ISSN 0968-0519, 2005, vol. 11, no. 3, p. 186-192. [COBISS.SI-ID 3234842]

ŽIVEC, Petra, ZUPANČIČ, Tatjana, PIHLAR, Boris, JERALA, Roman, KOLITSCH, Uwe, PLAPER, Andreja, TUREL, Iztok. Mixed-valence Cu(II)/Cu(I) complex of quinolone ciprofloxacin isolated by a hydrothermal reaction in the presence of L-histidine: comparison of biological activities of various copper-ciprofloxacin compounds. Journal of inorganic biochemistry, ISSN 0162-0134. [Print ed.], 2005, vol. 99, no. 2, p. 432-442. [COBISS.SI-ID 1668977]

VAŠL, Jožica, PANTER, Gabriela, BENČINA, Mojca, JERALA, Roman. Preparation of chimeric genes without subcloning. Biotechniques, ISSN 0736-6205, 2004, vol. 37, no. 5, p. 726-728. [COBISS.SI-ID 3117850]

JERALA, Roman, PORRO, Massimo. Endotoxin neutralizing peptides. Current topics in medicinal chemistry, ISSN 1568-0266, 2004, vol. 4, no. 11, p. 1173-1184. [COBISS.SI-ID 3071258]

ANDRÄ, Jörg, GARIDEL, Patrick, MAJERLE, Andreja, JERALA, Roman, RIDGE, Richard, PAUS, Erik, NOVITSKY, Tom, KOCH, Michel H. J., BRANDENBURG, Klaus. Biophysical characterization of the interaction of Limulus polyphemus endotoxin neutralizing protein with lipopolysaccharide. European journal of biochemistry, ISSN 0014-2956, 2004, vol. 271, no. 10, p. 2037-2046. [COBISS.SI-ID 3021594]

ČURIN-ŠERBEC, Vladka, BRESJANAC, Mara, POPOVIĆ, Mara, PRETNAR-HARTMAN, Katrina, GALVANI, Vesna, RUPREHT, Ruth, ČERNILEC, Maja, VRANAC, Tanja, HAFNER, Iva, JERALA, Roman. Monoclonal antibody against a peptide of human prion protein discriminates between Creutzfeldt-Jacob's disease-affected and normal brain tissue. The Journal of biological chemistry, ISSN 0021-9258, 2004, vol. 279, no. 5, p. 3694-3698. [COBISS.SI-ID 2939930]

GRUBER, Anton, MANČEK KEBER, Mateja, WAGNER, Hermann, KIRSCHNING, Carsten J., JERALA, Roman. Structural model of MD-2 and functional role of its basic amino acid clusters involved in cellular lipopolysaccharide recognition. The Journal of biological chemistry, ISSN 0021-9258, 2004, vol. 279, no. 27, p. 28475-28482. [COBISS.SI-ID 3073306]

JAPELJ, Boštjan, WALTHO, J., JERALA, Roman. Comparison of backbone dynamics of monomeric and domain-swapped stefin A. Proteins, ISSN 0887-3585. [Print ed.], 2004, vol. 54, no. 3, p. 500-512. [COBISS.SI-ID 2968090]

MAJERLE, Andreja, JERALA, Roman. Protein inhibitors form complexes with procathepsin L and augment cleavage of the propeptide. Archives of biochemistry and biophysics, ISSN 0003-9861, 2003, vol. 417, no. 1, p. 53-58. [COBISS.SI-ID 2872090]

PLAPER, Andreja, GOLOB, Mojca, HAFNER, Iva, OBLAK, Marko, ŠOLMAJER, Tomaž, JERALA, Roman. Characterization of quercetin binding site on DNA gyrase. Biochemical and biophysical research communications, ISSN 0006-291X, 2003, vol. 306, p. 530-536. [COBISS.SI-ID 2835994]

MAJERLE, Andreja, KIDRIČ, Jurka, JERALA, Roman. Enhancement of antibacterial and lipopolysaccharide binding activities of a human lactoferrin peptide fragment by the addition of acyl chain. Journal of antimicrobial chemotherapy, ISSN 0305-7453, 2003, vol. 51, no. 5, p. 1159-1165. [COBISS.SI-ID 2812954]

MANČEK KEBER, Mateja, PRISTOVŠEK, Primož, JERALA, Roman. Identification of LPS-binding peptide fragment of MD-2, a toll-receptor accessory protein. Biochemical and biophysical research communications, ISSN 0006-291X, April 2002, vol. 292, no. 4, p. 880-885. [COBISS.SI-ID 2594330]

MAJERLE, Andreja, KIDRIČ, Jurka, JERALA, Roman. Production of stable isotope enriched antimicrobial peptides in Escherichia coli: an application to the production of a [sup](15)N-enriched fragment of lactoferrin. Journal of biomolecular NMR, ISSN 0925-2738, 2000, vol. 18, p. 145-151. [COBISS.SI-ID 2240538]

MAJERLE, Andreja, KIDRIČ, Jurka, JERALA, Roman. Expression and refolding of functional fragments of the human lipopolysaccharide receptor CD14 in Escherichia coli and Pichia pastoris. Protein expression and purification, ISSN 1046-5928, 1999, vol. 17, p. 96-104. [COBISS.SI-ID 1967130]

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