@misc{5577, abstract = {Data on Austrian open access publication output at Emerald from 2013-2017 including data analysis.}, author = {Villányi, Márton}, keywords = {Publication analysis, Bibliography, Open Access}, publisher = {Institute of Science and Technology Austria}, title = {{Emerald Austrian Publications 2013-2017}}, doi = {10.15479/AT:ISTA:89}, year = {2018}, } @misc{5578, abstract = {Data on Austrian open access publication output at IOP from 2012-2015 including data analysis.}, author = {Villányi, Márton}, keywords = {Publication analysis, Bibliography, Open Access}, publisher = {Institute of Science and Technology Austria}, title = {{IOP Austrian Publications 2012-2015}}, doi = {10.15479/AT:ISTA:90}, year = {2018}, } @misc{5579, abstract = {Data on Austrian open access publication output at RSC from 2013-2017 including data analysis.}, author = {Villányi, Márton}, keywords = {Publication analysis, Bibliography, Open Access}, publisher = {Institute of Science and Technology Austria}, title = {{RSC Austrian Publications 2013-2017}}, doi = {10.15479/AT:ISTA:91}, year = {2018}, } @misc{5580, abstract = {Data on Austrian open access publication output at SAGE from 2013-2017 including data analysis.}, author = {Villányi, Márton}, keywords = {Publication analysis, Bibliography, Open Access}, publisher = {Institute of Science and Technology Austria}, title = {{SAGE Austrian Publications 2013-2017}}, doi = {10.15479/AT:ISTA:92}, year = {2018}, } @misc{5581, abstract = {Data on Austrian open access publication output at Springer from 2013-2016 including data analysis.}, author = {Villányi, Márton}, keywords = {Publication analysis, Bibliography, Open Access}, publisher = {Institute of Science and Technology Austria}, title = {{Springer Austrian Publications 2013-2016}}, doi = {10.15479/AT:ISTA:93}, year = {2018}, } @misc{5582, abstract = {Data on Austrian open access publication output at Taylor&Francis from 2013-2017 including data analysis.}, author = {Villányi, Márton}, keywords = {Publication analysis, Bibliography, Open Access}, publisher = {Institute of Science and Technology Austria}, title = {{Taylor&Francis Austrian Publications 2013-2017}}, doi = {10.15479/AT:ISTA:94}, year = {2018}, } @misc{5588, abstract = {Script to perform a simple exponential lifetime fit of a ROI on time stacks acquired with a FLIM X16 TCSPC detector (+example data)}, author = {Hauschild, Robert}, keywords = {FLIM, FRET, fluorescence lifetime imaging}, publisher = {Institute of Science and Technology Austria}, title = {{Fluorescence lifetime analysis of FLIM X16 TCSPC data}}, doi = {10.15479/AT:ISTA:0113}, year = {2018}, } @techreport{5686, author = {Danowski, Patrick}, pages = {5}, title = {{An Austrian proposal for the Classification of Open Access Tuples (COAT) - Distinguish different Open Access types beyond colors}}, doi = {10.5281/zenodo.1244154}, year = {2018}, } @misc{6459, author = {Petritsch, Barbara}, keywords = {Open Access, Publication Analysis}, location = {Graz, Austria}, publisher = {IST Austria}, title = {{Open Access at IST Austria 2009-2017}}, doi = {10.5281/zenodo.1410279}, year = {2018}, } @article{15, abstract = {Although much is known about the physiological framework of T cell motility, and numerous rate-limiting molecules have been identified through loss-of-function approaches, an integrated functional concept of T cell motility is lacking. Here, we used in vivo precision morphometry together with analysis of cytoskeletal dynamics in vitro to deconstruct the basic mechanisms of T cell migration within lymphatic organs. We show that the contributions of the integrin LFA-1 and the chemokine receptor CCR7 are complementary rather than positioned in a linear pathway, as they are during leukocyte extravasation from the blood vasculature. Our data demonstrate that CCR7 controls cortical actin flows, whereas integrins mediate substrate friction that is sufficient to drive locomotion in the absence of considerable surface adhesions and plasma membrane flux.}, author = {Hons, Miroslav and Kopf, Aglaja and Hauschild, Robert and Leithner, Alexander F and Gärtner, Florian R and Abe, Jun and Renkawitz, Jörg and Stein, Jens and Sixt, Michael K}, journal = {Nature Immunology}, number = {6}, pages = {606 -- 616}, publisher = {Nature Publishing Group}, title = {{Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells}}, doi = {10.1038/s41590-018-0109-z}, volume = {19}, year = {2018}, } @inbook{153, abstract = {Cells migrating in multicellular organisms steadily traverse complex three-dimensional (3D) environments. To decipher the underlying cell biology, current experimental setups either use simplified 2D, tissue-mimetic 3D (e.g., collagen matrices) or in vivo environments. While only in vivo experiments are truly physiological, they do not allow for precise manipulation of environmental parameters. 2D in vitro experiments do allow mechanical and chemical manipulations, but increasing evidence demonstrates substantial differences of migratory mechanisms in 2D and 3D. Here, we describe simple, robust, and versatile “pillar forests” to investigate cell migration in complex but fully controllable 3D environments. Pillar forests are polydimethylsiloxane-based setups, in which two closely adjacent surfaces are interconnected by arrays of micrometer-sized pillars. Changing the pillar shape, size, height and the inter-pillar distance precisely manipulates microenvironmental parameters (e.g., pore sizes, micro-geometry, micro-topology), while being easily combined with chemotactic cues, surface coatings, diverse cell types and advanced imaging techniques. Thus, pillar forests combine the advantages of 2D cell migration assays with the precise definition of 3D environmental parameters.}, author = {Renkawitz, Jörg and Reversat, Anne and Leithner, Alexander F and Merrin, Jack and Sixt, Michael K}, booktitle = {Methods in Cell Biology}, issn = {0091679X}, pages = {79 -- 91}, publisher = {Academic Press}, title = {{Micro-engineered “pillar forests” to study cell migration in complex but controlled 3D environments}}, doi = {10.1016/bs.mcb.2018.07.004}, volume = {147}, year = {2018}, } @article{437, abstract = {Dendritic cells (DCs) are sentinels of the adaptive immune system that reside in peripheral organs of mammals. Upon pathogen encounter, they undergo maturation and up-regulate the chemokine receptor CCR7 that guides them along gradients of its chemokine ligands CCL19 and 21 to the next draining lymph node. There, DCs present peripherally acquired antigen to naïve T cells, thereby triggering adaptive immunity.}, author = {Leithner, Alexander F and Renkawitz, Jörg and De Vries, Ingrid and Hauschild, Robert and Haecker, Hans and Sixt, Michael K}, journal = {European Journal of Immunology}, number = {6}, pages = {1074 -- 1077}, publisher = {Wiley-Blackwell}, title = {{Fast and efficient genetic engineering of hematopoietic precursor cells for the study of dendritic cell migration}}, doi = {10.1002/eji.201747358}, volume = {48}, year = {2018}, } @article{442, abstract = {The rapid auxin-triggered growth of the Arabidopsis hypocotyls involves the nuclear TIR1/AFB-Aux/IAA signaling and is accompanied by acidification of the apoplast and cell walls (Fendrych et al., 2016). Here, we describe in detail the method for analysis of the elongation and the TIR1/AFB-Aux/IAA-dependent auxin response in hypocotyl segments as well as the determination of relative values of the cell wall pH.}, author = {Li, Lanxin and Krens, Gabriel and Fendrych, Matyas and Friml, Jirí}, issn = {2331-8325}, journal = {Bio-protocol}, number = {1}, publisher = {Bio-protocol}, title = {{Real-time analysis of auxin response, cell wall pH and elongation in Arabidopsis thaliana Hypocotyls}}, doi = {10.21769/BioProtoc.2685}, volume = {8}, year = {2018}, } @article{1078, abstract = {One of the key questions in understanding plant development is how single cells behave in a larger context of the tissue. Therefore, it requires the observation of the whole organ with a high spatial- as well as temporal resolution over prolonged periods of time, which may cause photo-toxic effects. This protocol shows a plant sample preparation method for light-sheet microscopy, which is characterized by mounting the plant vertically on the surface of a gel. The plant is mounted in such a way that the roots are submerged in a liquid medium while the leaves remain in the air. In order to ensure photosynthetic activity of the plant, a custom-made lighting system illuminates the leaves. To keep the roots in darkness the water surface is covered with sheets of black plastic foil. This method allows long-term imaging of plant organ development in standardized conditions. }, author = {Von Wangenheim, Daniel and Hauschild, Robert and Friml, Jirí}, journal = {Journal of visualized experiments JoVE}, number = {119}, publisher = {Journal of Visualized Experiments}, title = {{Light sheet fluorescence microscopy of plant roots growing on the surface of a gel}}, doi = {10.3791/55044}, volume = {2017}, year = {2017}, } @article{807, abstract = {On January the 1st, 2016 a new agreement between 32 Austrian scientific libraries and the publisher Springer took its effect: this deal covers accessing the licensed content on the one hand, and publishing open access on the other hand. More than 1000 papers by Austrian authors were published open access at Springer in the first year alone. The working group "Springer Compact Evaluierung" made the data for these articles available via the platform OpenAPC and would like to use this opportunity to give a short account of what this publishing agreement actually entails and the working group intends to do.}, author = {Andrae, Magdalena and Villányi, Márton}, issn = {10222588}, journal = {Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare}, number = {2}, pages = {274 -- 280}, publisher = {VÖB}, title = {{Der Springer Compact-Deal – Ein erster Einblick in die Evaluierung einer Offsetting-Vereinbarung}}, doi = {10.31263/voebm.v70i2.1898}, volume = {70}, year = {2017}, } @article{825, abstract = {What data is needed about data? Describing the process to answer this question for the institutional data repository IST DataRep.}, author = {Petritsch, Barbara}, issn = {10222588}, journal = {Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen & Bibliothekare}, number = {2}, pages = {200 -- 207}, publisher = {VÖB}, title = {{Metadata for research data in practice}}, doi = {10.31263/voebm.v70i2.1678}, volume = {70}, year = {2017}, } @article{665, abstract = {The molecular mechanisms underlying phenotypic variation in isogenic bacterial populations remain poorly understood.We report that AcrAB-TolC, the main multidrug efflux pump of Escherichia coli, exhibits a strong partitioning bias for old cell poles by a segregation mechanism that is mediated by ternary AcrAB-TolC complex formation. Mother cells inheriting old poles are phenotypically distinct and display increased drug efflux activity relative to daughters. Consequently, we find systematic and long-lived growth differences between mother and daughter cells in the presence of subinhibitory drug concentrations. A simple model for biased partitioning predicts a population structure of long-lived and highly heterogeneous phenotypes. This straightforward mechanism of generating sustained growth rate differences at subinhibitory antibiotic concentrations has implications for understanding the emergence of multidrug resistance in bacteria.}, author = {Bergmiller, Tobias and Andersson, Anna M and Tomasek, Kathrin and Balleza, Enrique and Kiviet, Daniel and Hauschild, Robert and Tkacik, Gasper and Guet, Calin C}, issn = {00368075}, journal = {Science}, number = {6335}, pages = {311 -- 315}, publisher = {American Association for the Advancement of Science}, title = {{Biased partitioning of the multidrug efflux pump AcrAB TolC underlies long lived phenotypic heterogeneity}}, doi = {10.1126/science.aaf4762}, volume = {356}, year = {2017}, } @article{672, abstract = {Trafficking cells frequently transmigrate through epithelial and endothelial monolayers. How monolayers cooperate with the penetrating cells to support their transit is poorly understood. We studied dendritic cell (DC) entry into lymphatic capillaries as a model system for transendothelial migration. We find that the chemokine CCL21, which is the decisive guidance cue for intravasation, mainly localizes in the trans-Golgi network and intracellular vesicles of lymphatic endothelial cells. Upon DC transmigration, these Golgi deposits disperse and CCL21 becomes extracellularly enriched at the sites of endothelial cell-cell junctions. When we reconstitute the transmigration process in vitro, we find that secretion of CCL21-positive vesicles is triggered by a DC contact-induced calcium signal, and selective calcium chelation in lymphatic endothelium attenuates transmigration. Altogether, our data demonstrate a chemokine-mediated feedback between DCs and lymphatic endothelium, which facilitates transendothelial migration.}, author = {Vaahtomeri, Kari and Brown, Markus and Hauschild, Robert and De Vries, Ingrid and Leithner, Alexander F and Mehling, Matthias and Kaufmann, Walter and Sixt, Michael K}, issn = {22111247}, journal = {Cell Reports}, number = {5}, pages = {902 -- 909}, publisher = {Cell Press}, title = {{Locally triggered release of the chemokine CCL21 promotes dendritic cell transmigration across lymphatic endothelia}}, doi = {10.1016/j.celrep.2017.04.027}, volume = {19}, year = {2017}, } @article{674, abstract = {Navigation of cells along gradients of guidance cues is a determining step in many developmental and immunological processes. Gradients can either be soluble or immobilized to tissues as demonstrated for the haptotactic migration of dendritic cells (DCs) toward higher concentrations of immobilized chemokine CCL21. To elucidate how gradient characteristics govern cellular response patterns, we here introduce an in vitro system allowing to track migratory responses of DCs to precisely controlled immobilized gradients of CCL21. We find that haptotactic sensing depends on the absolute CCL21 concentration and local steepness of the gradient, consistent with a scenario where DC directionality is governed by the signal-to-noise ratio of CCL21 binding to the receptor CCR7. We find that the conditions for optimal DC guidance are perfectly provided by the CCL21 gradients we measure in vivo. Furthermore, we find that CCR7 signal termination by the G-protein-coupled receptor kinase 6 (GRK6) is crucial for haptotactic but dispensable for chemotactic CCL21 gradient sensing in vitro and confirm those observations in vivo. These findings suggest that stable, tissue-bound CCL21 gradients as sustainable “roads” ensure optimal guidance in vivo.}, author = {Schwarz, Jan and Bierbaum, Veronika and Vaahtomeri, Kari and Hauschild, Robert and Brown, Markus and De Vries, Ingrid and Leithner, Alexander F and Reversat, Anne and Merrin, Jack and Tarrant, Teresa and Bollenbach, Tobias and Sixt, Michael K}, issn = {09609822}, journal = {Current Biology}, number = {9}, pages = {1314 -- 1325}, publisher = {Cell Press}, title = {{Dendritic cells interpret haptotactic chemokine gradients in a manner governed by signal to noise ratio and dependent on GRK6}}, doi = {10.1016/j.cub.2017.04.004}, volume = {27}, year = {2017}, } @article{675, abstract = {We report the enhancement of infrared absorption of chemisorbed carbon monoxide on platinum in the gap of plasmonic nanoantennas. Our method is based on the self-assembled formation of platinum nanoislands on nanoscopic dipole antenna arrays manufactured via electron beam lithography. We employ systematic variations of the plasmonic antenna resonance to precisely couple to the molecular stretch vibration of carbon monoxide adsorbed on the platinum nanoislands. Ultimately, we reach more than 1500-fold infrared absorption enhancements, allowing for an ultrasensitive detection of a monolayer of chemisorbed carbon monoxide. The developed procedure can be adapted to other metal adsorbents and molecular species and could be utilized for coverage sensing in surface catalytic reactions. }, author = {Haase, Johannes and Bagiante, Salvatore and Sigg, Hans and Van Bokhoven, Jeroen}, journal = {Optics Letters}, number = {10}, pages = {1931 -- 1934}, publisher = {Optica Publishing Group}, title = {{Surface enhanced infrared absorption of chemisorbed carbon monoxide using plasmonic nanoantennas}}, doi = {10.1364/OL.42.001931}, volume = {42}, year = {2017}, }