@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         = {0091-679X},
  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{53,
  abstract     = {In 2013, a publication repository was implemented at IST Austria and 2015 after a thorough preparation phase a data repository was implemented - both based on the Open Source Software EPrints. In this text, designed as field report, we will reflect on our experiences with Open Source Software in general and specifically with EPrints regarding technical aspects but also regarding their characteristics of the user community. The second part is a pleading for including the end users in the process of implementation, adaption and evaluation.},
  author       = {Petritsch, Barbara and Porsche, Jana},
  journal      = {VÖB Mitteilungen},
  number       = {1},
  pages        = {199 -- 206},
  publisher    = {Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare},
  title        = {{IST PubRep and IST DataRep: the institutional repositories at IST Austria}},
  doi          = {10.31263/voebm.v71i1.1993},
  volume       = {71},
  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},
}

@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},
}

@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{163,
  abstract     = {For ultrafast fixation of biological samples to avoid artifacts, high-pressure freezing (HPF) followed by freeze substitution (FS) is preferred over chemical fixation at room temperature. After HPF, samples are maintained at low temperature during dehydration and fixation, while avoiding damaging recrystallization. This is a notoriously slow process. McDonald and Webb demonstrated, in 2011, that sample agitation during FS dramatically reduces the necessary time. Then, in 2015, we (H.G. and S.R.) introduced an agitation module into the cryochamber of an automated FS unit and demonstrated that the preparation of algae could be shortened from days to a couple of hours. We argued that variability in the processing, reproducibility, and safety issues are better addressed using automated FS units. For dissemination, we started low-cost manufacturing of agitation modules for two of the most widely used FS units, the Automatic Freeze Substitution Systems, AFS(1) and AFS2, from Leica Microsystems, using three dimensional (3D)-printing of the major components. To test them, several labs independently used the modules on a wide variety of specimens that had previously been processed by manual agitation, or without agitation. We demonstrate that automated processing with sample agitation saves time, increases flexibility with respect to sample requirements and protocols, and produces data of at least as good quality as other approaches.},
  author       = {Reipert, Siegfried and Goldammer, Helmuth and Richardson, Christine and Goldberg, Martin and Hawkins, Timothy and Hollergschwandtner, Elena and Kaufmann, Walter and Antreich, Sebastian and Stierhof, York},
  issn         = {0022-1554},
  journal      = {Journal of Histochemistry and Cytochemistry},
  number       = {12},
  pages        = {903--921},
  publisher    = {SAGE Publications},
  title        = {{Agitation modules: Flexible means to accelerate automated freeze substitution}},
  doi          = {10.1369/0022155418786698},
  volume       = {66},
  year         = {2018},
}

@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{5574,
  abstract     = {Comparison of Scopus' and publisher's data on Austrian publication output at IOP. },
  author       = {Villányi, Márton},
  keywords     = {Publication analysis, Bibliography, Open Access},
  publisher    = {Institute of Science and Technology Austria},
  title        = {{Data Check IOP Scopus vs. Publisher}},
  doi          = {10.15479/AT:ISTA:86},
  year         = {2018},
}

@phdthesis{278,
  abstract     = {Consortial subscription contracts regulate the digital access to publications between publishers and scientific libraries. However, since a couple of years the tendency towards a freely accessible publishing (Open Access) intensifies. As a consequence of this trend the contractual relationship between licensor and licensee is gradually changing as well: More and more contracts exercise influence on open access publishing. The present study attempts to compare Austrian examples of consortial licence contracts, which include components of open access. It describes the difference between pure subscription contracts and differing innovative deals including open access components. Thereby it becomes obvious that for the evaluation of this licence contracts new methods are needed. An essential new element of such analyses is the evaluation of the open access publication numbers. So this study tries to carry out such publication analyses for Austrian open access deals focusing on quantitative questions: How does the number of publications evolve? How does the open access share change? Publications reports of the publishers and database queries from Scopus form the data basis. The analysis of the data points out that differing approaches of contracts result in highly divergent results: Particular deals can prioritize a saving in costs or else the increase of the open access rate. It is to be assumed that within the following years further numerous open access deals will be negotiated. The finding of this study shall provide guidance.},
  author       = {Villányi, Márton},
  pages        = {94},
  publisher    = {Universität Wien},
  title        = {{Lizenzverträge mit Open-Access-Komponenten an österreichischen Bibliotheken}},
  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{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{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{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{5576,
  abstract     = {Comparison of Scopus' and FWF's data on Austrian publication output at T&F.},
  author       = {Villányi, Márton},
  keywords     = {Publication analysis, Bibliography, Open Access},
  publisher    = {Institute of Science and Technology Austria},
  title        = {{Data Check T&F Scopus vs. FWF}},
  doi          = {10.15479/AT:ISTA:88},
  year         = {2018},
}

@misc{5575,
  abstract     = {Comparison of Scopus' and FWF's data on Austrian publication output at RSC. },
  author       = {Villányi, Márton},
  keywords     = {Publication analysis, Bibliography, Open Access},
  publisher    = {Institute of Science and Technology Austria},
  title        = {{Data Check RSC Scopus vs. FWF}},
  doi          = {10.15479/AT:ISTA:87},
  year         = {2018},
}

@article{308,
  abstract     = {Migrating cells penetrate tissue barriers during development, inflammatory responses, and tumor metastasis. We study if migration in vivo in such three-dimensionally confined environments requires changes in the mechanical properties of the surrounding cells using embryonic Drosophila melanogaster hemocytes, also called macrophages, as a model. We find that macrophage invasion into the germband through transient separation of the apposing ectoderm and mesoderm requires cell deformations and reductions in apical tension in the ectoderm. Interestingly, the genetic pathway governing these mechanical shifts acts downstream of the only known tumor necrosis factor superfamily member in Drosophila, Eiger, and its receptor, Grindelwald. Eiger-Grindelwald signaling reduces levels of active Myosin in the germband ectodermal cortex through the localization of a Crumbs complex component, Patj (Pals-1-associated tight junction protein). We therefore elucidate a distinct molecular pathway that controls tissue tension and demonstrate the importance of such regulation for invasive migration in vivo.},
  author       = {Ratheesh, Aparna and Biebl, Julia and Smutny, Michael and Veselá, Jana and Papusheva, Ekaterina and Krens, Gabriel and Kaufmann, Walter and György, Attila and Casano, Alessandra M and Siekhaus, Daria E},
  journal      = {Developmental Cell},
  number       = {3},
  pages        = {331 -- 346},
  publisher    = {Elsevier},
  title        = {{Drosophila TNF modulates tissue tension in the embryo to facilitate macrophage invasive migration}},
  doi          = {10.1016/j.devcel.2018.04.002},
  volume       = {45},
  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{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},
}