[{"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"intvolume":"        27","publication_status":"published","publication_identifier":{"issn":["1054-1500"]},"month":"11","publist_id":"7358","abstract":[{"lang":"eng","text":"We investigate transient behaviors induced by magnetic fields on the dynamics of the flow of a ferrofluid in the gap between two concentric, independently rotating cylinders. Without applying any magnetic fields, we uncover emergence of flow states constituted by a combination of a localized spiral state (SPIl) in the top and bottom of the annulus and different multi-cell flow states (SPI2v, SPI3v) with toroidally closed vortices in the interior of the bulk (SPIl+2v = SPIl + SPI2v and SPIl+3v = SPIl + SPI3v). However, when a magnetic field is presented, we observe the transient behaviors between multi-cell states passing through two critical thresholds in a strength of an axial (transverse) magnetic field. Before the first critical threshold of a magnetic field strength, multi-stable states with different number of cells could be observed. After the first critical threshold, we find the transient behavior between the three- and two-cell flow states. For more strength of magnetic field or after the second critical threshold, we discover that multi-cell states are disappeared and a localized spiral state remains to be stimulated. The studied transient behavior could be understood by the investigation of various quantities including a modal kinetic energy, a mode amplitude of the radial velocity, wavenumber, angular momentum, and torque. In addition, the emergence of new flow states and the transient behavior between their states in ferrofluidic flows indicate that richer and potentially controllable dynamics through magnetic fields could be possible in ferrofluic flow."}],"date_created":"2018-12-11T11:46:37Z","quality_controlled":"1","year":"2017","citation":{"ista":"Altmeyer S, Do Y, Ryu S. 2017. Transient behavior between multi-cell flow states in ferrofluidic Taylor-Couette flow. Chaos. 27(11), 113112.","short":"S. Altmeyer, Y. Do, S. Ryu, Chaos 27 (2017).","apa":"Altmeyer, S., Do, Y., &#38; Ryu, S. (2017). Transient behavior between multi-cell flow states in ferrofluidic Taylor-Couette flow. <i>Chaos</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/1.5002771\">https://doi.org/10.1063/1.5002771</a>","mla":"Altmeyer, Sebastian, et al. “Transient Behavior between Multi-Cell Flow States in Ferrofluidic Taylor-Couette Flow.” <i>Chaos</i>, vol. 27, no. 11, 113112, AIP Publishing, 2017, doi:<a href=\"https://doi.org/10.1063/1.5002771\">10.1063/1.5002771</a>.","ama":"Altmeyer S, Do Y, Ryu S. Transient behavior between multi-cell flow states in ferrofluidic Taylor-Couette flow. <i>Chaos</i>. 2017;27(11). doi:<a href=\"https://doi.org/10.1063/1.5002771\">10.1063/1.5002771</a>","chicago":"Altmeyer, Sebastian, Younghae Do, and Soorok Ryu. “Transient Behavior between Multi-Cell Flow States in Ferrofluidic Taylor-Couette Flow.” <i>Chaos</i>. AIP Publishing, 2017. <a href=\"https://doi.org/10.1063/1.5002771\">https://doi.org/10.1063/1.5002771</a>.","ieee":"S. Altmeyer, Y. Do, and S. Ryu, “Transient behavior between multi-cell flow states in ferrofluidic Taylor-Couette flow,” <i>Chaos</i>, vol. 27, no. 11. AIP Publishing, 2017."},"type":"journal_article","publication":"Chaos","language":[{"iso":"eng"}],"department":[{"_id":"BjHo"}],"has_accepted_license":"1","scopus_import":"1","doi":"10.1063/1.5002771","ddc":["530"],"day":"01","author":[{"id":"2EE67FDC-F248-11E8-B48F-1D18A9856A87","last_name":"Altmeyer","full_name":"Altmeyer, Sebastian","orcid":"0000-0001-5964-0203","first_name":"Sebastian"},{"full_name":"Do, Younghae","last_name":"Do","first_name":"Younghae"},{"last_name":"Ryu","full_name":"Ryu, Soorok","first_name":"Soorok"}],"title":"Transient behavior between multi-cell flow states in ferrofluidic Taylor-Couette flow","date_updated":"2025-09-18T09:58:08Z","article_number":"113112","oa_version":"Published Version","volume":27,"file_date_updated":"2020-07-14T12:46:32Z","article_type":"original","date_published":"2017-11-01T00:00:00Z","_id":"463","publisher":"AIP Publishing","issue":"11","oa":1,"article_processing_charge":"No","status":"public","file":[{"file_size":7714020,"date_created":"2019-10-24T15:14:30Z","date_updated":"2020-07-14T12:46:32Z","relation":"main_file","file_name":"2017_Chaos_Altmeyer.pdf","file_id":"6970","checksum":"0731f9d416760c1062db258ca51f8bdc","access_level":"open_access","content_type":"application/pdf","creator":"dernst"}],"external_id":{"isi":["000416827300016"]}},{"isi":1,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","intvolume":"        36","publication_identifier":{"issn":["0730-0301"]},"publication_status":"published","month":"07","year":"2017","quality_controlled":"1","citation":{"chicago":"Jeschke, Stefan, and Chris Wojtan. “Water Wave Packets.” <i>ACM Transactions on Graphics</i>. ACM, 2017. <a href=\"https://doi.org/10.1145/3072959.3073678\">https://doi.org/10.1145/3072959.3073678</a>.","ieee":"S. Jeschke and C. Wojtan, “Water wave packets,” <i>ACM Transactions on Graphics</i>, vol. 36, no. 4. ACM, 2017.","ista":"Jeschke S, Wojtan C. 2017. Water wave packets. ACM Transactions on Graphics. 36(4), 103.","ama":"Jeschke S, Wojtan C. Water wave packets. <i>ACM Transactions on Graphics</i>. 2017;36(4). doi:<a href=\"https://doi.org/10.1145/3072959.3073678\">10.1145/3072959.3073678</a>","apa":"Jeschke, S., &#38; Wojtan, C. (2017). Water wave packets. <i>ACM Transactions on Graphics</i>. ACM. <a href=\"https://doi.org/10.1145/3072959.3073678\">https://doi.org/10.1145/3072959.3073678</a>","short":"S. Jeschke, C. Wojtan, ACM Transactions on Graphics 36 (2017).","mla":"Jeschke, Stefan, and Chris Wojtan. “Water Wave Packets.” <i>ACM Transactions on Graphics</i>, vol. 36, no. 4, 103, ACM, 2017, doi:<a href=\"https://doi.org/10.1145/3072959.3073678\">10.1145/3072959.3073678</a>."},"date_created":"2018-12-11T11:46:39Z","publist_id":"7350","abstract":[{"lang":"eng","text":"This paper presents a method for simulating water surface waves as a displacement field on a 2D domain. Our method relies on Lagrangian particles that carry packets of water wave energy; each packet carries information about an entire group of wave trains, as opposed to only a single wave crest. Our approach is unconditionally stable and can simulate high resolution geometric details. This approach also presents a straightforward interface for artistic control, because it is essentially a particle system with intuitive parameters like wavelength and amplitude. Our implementation parallelizes well and runs in real time for moderately challenging scenarios."}],"type":"journal_article","publication":"ACM Transactions on Graphics","acknowledged_ssus":[{"_id":"ScienComp"}],"department":[{"_id":"ChWo"}],"language":[{"iso":"eng"}],"author":[{"full_name":"Jeschke, Stefan","last_name":"Jeschke","id":"44D6411A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4330-8884","first_name":"Stefan"},{"orcid":"0000-0001-6646-5546","first_name":"Christopher J","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","full_name":"Wojtan, Christopher J","last_name":"Wojtan"}],"ddc":["006"],"day":"01","scopus_import":"1","doi":"10.1145/3072959.3073678","has_accepted_license":"1","ec_funded":1,"project":[{"name":"Big Splash: Efficient Simulation of Natural Phenomena at Extremely Large Scales","grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"date_updated":"2026-04-16T09:58:39Z","title":"Water wave packets","article_type":"original","file_date_updated":"2020-07-14T12:46:34Z","oa_version":"Published Version","volume":36,"article_number":"103","_id":"470","date_published":"2017-07-01T00:00:00Z","article_processing_charge":"Yes (in subscription journal)","issue":"4","oa":1,"publisher":"ACM","status":"public","external_id":{"isi":["000406432100071"]},"file":[{"file_size":13131683,"file_id":"7359","file_name":"wavepackets_final.pdf","relation":"main_file","date_created":"2020-01-24T09:32:35Z","date_updated":"2020-07-14T12:46:34Z","checksum":"82a3b2bfeee4ddef16ecc21675d1a48a","creator":"wojtan","access_level":"open_access","content_type":"application/pdf"}]},{"_id":"471","date_published":"2017-05-01T00:00:00Z","corr_author":"1","arxiv":1,"article_processing_charge":"No","oa":1,"issue":"2","publisher":"ACM","external_id":{"arxiv":["1504.05739"],"isi":["000405208400005"]},"status":"public","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"1234"}]},"department":[{"_id":"ToHe"}],"language":[{"iso":"eng"}],"author":[{"first_name":"Przemyslaw","last_name":"Daca","full_name":"Daca, Przemyslaw","id":"49351290-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000−0002−2985−7724","first_name":"Thomas A","full_name":"Henzinger, Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"id":"44CEF464-F248-11E8-B48F-1D18A9856A87","last_name":"Kretinsky","full_name":"Kretinsky, Jan","orcid":"0000-0002-8122-2881","first_name":"Jan"},{"last_name":"Petrov","full_name":"Petrov, Tatjana","id":"3D5811FC-F248-11E8-B48F-1D18A9856A87","first_name":"Tatjana","orcid":"0000-0002-9041-0905"}],"day":"01","scopus_import":"1","doi":"10.1145/3060139","ec_funded":1,"project":[{"_id":"25EE3708-B435-11E9-9278-68D0E5697425","grant_number":"267989","name":"Quantitative Reactive Modeling","call_identifier":"FP7"},{"call_identifier":"FWF","_id":"25F5A88A-B435-11E9-9278-68D0E5697425","grant_number":"S11402-N23","name":"Moderne Concurrency Paradigms"},{"name":"Formal methods for the design and analysis of complex systems","_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211","call_identifier":"FWF"},{"call_identifier":"FP7","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme"}],"date_updated":"2025-09-22T09:21:16Z","title":"Faster statistical model checking for unbounded temporal properties","volume":18,"oa_version":"Submitted Version","article_number":"12","month":"05","year":"2017","quality_controlled":"1","citation":{"ieee":"P. Daca, T. A. Henzinger, J. Kretinsky, and T. Petrov, “Faster statistical model checking for unbounded temporal properties,” <i>ACM Transactions on Computational Logic</i>, vol. 18, no. 2. ACM, 2017.","chicago":"Daca, Przemyslaw, Thomas A Henzinger, Jan Kretinsky, and Tatjana Petrov. “Faster Statistical Model Checking for Unbounded Temporal Properties.” <i>ACM Transactions on Computational Logic</i>. ACM, 2017. <a href=\"https://doi.org/10.1145/3060139\">https://doi.org/10.1145/3060139</a>.","ama":"Daca P, Henzinger TA, Kretinsky J, Petrov T. Faster statistical model checking for unbounded temporal properties. <i>ACM Transactions on Computational Logic</i>. 2017;18(2). doi:<a href=\"https://doi.org/10.1145/3060139\">10.1145/3060139</a>","apa":"Daca, P., Henzinger, T. A., Kretinsky, J., &#38; Petrov, T. (2017). Faster statistical model checking for unbounded temporal properties. <i>ACM Transactions on Computational Logic</i>. ACM. <a href=\"https://doi.org/10.1145/3060139\">https://doi.org/10.1145/3060139</a>","short":"P. Daca, T.A. Henzinger, J. Kretinsky, T. Petrov, ACM Transactions on Computational Logic 18 (2017).","mla":"Daca, Przemyslaw, et al. “Faster Statistical Model Checking for Unbounded Temporal Properties.” <i>ACM Transactions on Computational Logic</i>, vol. 18, no. 2, 12, ACM, 2017, doi:<a href=\"https://doi.org/10.1145/3060139\">10.1145/3060139</a>.","ista":"Daca P, Henzinger TA, Kretinsky J, Petrov T. 2017. Faster statistical model checking for unbounded temporal properties. ACM Transactions on Computational Logic. 18(2), 12."},"date_created":"2018-12-11T11:46:39Z","abstract":[{"text":"We present a new algorithm for the statistical model checking of Markov chains with respect to unbounded temporal properties, including full linear temporal logic. The main idea is that we monitor each simulation run on the fly, in order to detect quickly if a bottom strongly connected component is entered with high probability, in which case the simulation run can be terminated early. As a result, our simulation runs are often much shorter than required by termination bounds that are computed a priori for a desired level of confidence on a large state space. In comparison to previous algorithms for statistical model checking our method is not only faster in many cases but also requires less information about the system, namely, only the minimum transition probability that occurs in the Markov chain. In addition, our method can be generalised to unbounded quantitative properties such as mean-payoff bounds. ","lang":"eng"}],"publist_id":"7349","type":"journal_article","publication":"ACM Transactions on Computational Logic","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1504.05739"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"intvolume":"        18","publication_identifier":{"issn":["1529-3785"]},"publication_status":"published"},{"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","pubrep_id":"949","publication_status":"published","intvolume":"        26","month":"04","publication":"International Journal of Computational Geometry and Applications","type":"journal_article","page":"211 - 229","year":"2017","citation":{"ieee":"T. Biedl, S. Huber, and P. Palfrader, “Planar matchings for weighted straight skeletons,” <i>International Journal of Computational Geometry and Applications</i>, vol. 26, no. 3–4. World Scientific Publishing, pp. 211–229, 2017.","chicago":"Biedl, Therese, Stefan Huber, and Peter Palfrader. “Planar Matchings for Weighted Straight Skeletons.” <i>International Journal of Computational Geometry and Applications</i>. World Scientific Publishing, 2017. <a href=\"https://doi.org/10.1142/S0218195916600050\">https://doi.org/10.1142/S0218195916600050</a>.","ama":"Biedl T, Huber S, Palfrader P. Planar matchings for weighted straight skeletons. <i>International Journal of Computational Geometry and Applications</i>. 2017;26(3-4):211-229. doi:<a href=\"https://doi.org/10.1142/S0218195916600050\">10.1142/S0218195916600050</a>","short":"T. Biedl, S. Huber, P. Palfrader, International Journal of Computational Geometry and Applications 26 (2017) 211–229.","apa":"Biedl, T., Huber, S., &#38; Palfrader, P. (2017). Planar matchings for weighted straight skeletons. <i>International Journal of Computational Geometry and Applications</i>. World Scientific Publishing. <a href=\"https://doi.org/10.1142/S0218195916600050\">https://doi.org/10.1142/S0218195916600050</a>","mla":"Biedl, Therese, et al. “Planar Matchings for Weighted Straight Skeletons.” <i>International Journal of Computational Geometry and Applications</i>, vol. 26, no. 3–4, World Scientific Publishing, 2017, pp. 211–29, doi:<a href=\"https://doi.org/10.1142/S0218195916600050\">10.1142/S0218195916600050</a>.","ista":"Biedl T, Huber S, Palfrader P. 2017. Planar matchings for weighted straight skeletons. International Journal of Computational Geometry and Applications. 26(3–4), 211–229."},"quality_controlled":"1","date_created":"2018-12-11T11:46:43Z","abstract":[{"lang":"eng","text":"We introduce planar matchings on directed pseudo-line arrangements, which yield a planar set of pseudo-line segments such that only matching-partners are adjacent. By translating the planar matching problem into a corresponding stable roommates problem we show that such matchings always exist. Using our new framework, we establish, for the first time, a complete, rigorous definition of weighted straight skeletons, which are based on a so-called wavefront propagation process. We present a generalized and unified approach to treat structural changes in the wavefront that focuses on the restoration of weak planarity by finding planar matchings."}],"publist_id":"7338","author":[{"first_name":"Therese","full_name":"Biedl, Therese","last_name":"Biedl"},{"last_name":"Huber","full_name":"Huber, Stefan","id":"4700A070-F248-11E8-B48F-1D18A9856A87","first_name":"Stefan","orcid":"0000-0002-8871-5814"},{"first_name":"Peter","last_name":"Palfrader","full_name":"Palfrader, Peter"}],"ddc":["004","514","516"],"day":"13","scopus_import":1,"doi":"10.1142/S0218195916600050","has_accepted_license":"1","related_material":{"record":[{"relation":"earlier_version","id":"10892","status":"public"}]},"department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"file_date_updated":"2020-07-14T12:46:35Z","volume":26,"oa_version":"Published Version","date_updated":"2025-09-29T13:22:54Z","title":"Planar matchings for weighted straight skeletons","corr_author":"1","_id":"481","date_published":"2017-04-13T00:00:00Z","status":"public","file":[{"file_id":"4758","file_name":"IST-2018-949-v1+1_2016_huber_PLanar_matchings.pdf","date_updated":"2020-07-14T12:46:35Z","date_created":"2018-12-12T10:09:34Z","relation":"main_file","file_size":769296,"creator":"system","access_level":"open_access","content_type":"application/pdf","checksum":"f79e8558bfe4b368dfefeb8eec2e3a5e"}],"acknowledgement":"Supported by NSERC and the Ross and Muriel Cheriton Fellowship. Research supported by Austrian Science Fund (FWF): P25816-N15.","issue":"3-4","oa":1,"publisher":"World Scientific Publishing"},{"month":"07","_id":"485","date_published":"2017-07-01T00:00:00Z","conference":{"name":"NLO: Nonlinear Optics","location":"Waikoloa, HI, United States","end_date":"2017-07-21","start_date":"2017-07-17"},"type":"conference","status":"public","publication":"Optics InfoBase Conference Papers","article_processing_charge":"No","year":"2017","citation":{"chicago":"Rueda Sanchez, Alfredo R, Florian Sedlmeir, Michele Collodo, Ulrich Vogl, Birgit Stiller, Gerhard Schunk, Dmitry Strekalov, et al. “Single Sideband Microwave to Optical Photon Conversion-an-Electro-Optic-Realization.” In <i>Optics InfoBase Conference Papers</i>, Vol. F54. Optica Publishing Group, 2017. <a href=\"https://doi.org/10.1364/NLO.2017.NM3A.1\">https://doi.org/10.1364/NLO.2017.NM3A.1</a>.","ieee":"A. R. Rueda Sanchez <i>et al.</i>, “Single sideband microwave to optical photon conversion-an-electro-optic-realization,” in <i>Optics InfoBase Conference Papers</i>, Waikoloa, HI, United States, 2017, vol. F54.","ista":"Rueda Sanchez AR, Sedlmeir F, Collodo M, Vogl U, Stiller B, Schunk G, Strekalov D, Marquardt C, Fink JM, Painter O, Leuchs G, Schwefel H. 2017. Single sideband microwave to optical photon conversion-an-electro-optic-realization. Optics InfoBase Conference Papers. NLO: Nonlinear Optics vol. F54, NM3A.1.","short":"A.R. Rueda Sanchez, F. Sedlmeir, M. Collodo, U. Vogl, B. Stiller, G. Schunk, D. Strekalov, C. Marquardt, J.M. Fink, O. Painter, G. Leuchs, H. Schwefel, in:, Optics InfoBase Conference Papers, Optica Publishing Group, 2017.","mla":"Rueda Sanchez, Alfredo R., et al. “Single Sideband Microwave to Optical Photon Conversion-an-Electro-Optic-Realization.” <i>Optics InfoBase Conference Papers</i>, vol. F54, NM3A.1, Optica Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1364/NLO.2017.NM3A.1\">10.1364/NLO.2017.NM3A.1</a>.","apa":"Rueda Sanchez, A. R., Sedlmeir, F., Collodo, M., Vogl, U., Stiller, B., Schunk, G., … Schwefel, H. (2017). Single sideband microwave to optical photon conversion-an-electro-optic-realization. In <i>Optics InfoBase Conference Papers</i> (Vol. F54). Waikoloa, HI, United States: Optica Publishing Group. <a href=\"https://doi.org/10.1364/NLO.2017.NM3A.1\">https://doi.org/10.1364/NLO.2017.NM3A.1</a>","ama":"Rueda Sanchez AR, Sedlmeir F, Collodo M, et al. Single sideband microwave to optical photon conversion-an-electro-optic-realization. In: <i>Optics InfoBase Conference Papers</i>. Vol F54. Optica Publishing Group; 2017. doi:<a href=\"https://doi.org/10.1364/NLO.2017.NM3A.1\">10.1364/NLO.2017.NM3A.1</a>"},"quality_controlled":"1","date_created":"2018-12-11T11:46:44Z","publist_id":"7335","publisher":"Optica Publishing Group","abstract":[{"lang":"eng","text":"We present results on nonlinear electro-optical conversion of microwave radiation into the optical telecommunication band with more than 0.1% photon number conversion efficiency with MHz bandwidth, in a crystalline whispering gallery mode resonator"}],"author":[{"orcid":"0000-0001-6249-5860","first_name":"Alfredo R","id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","last_name":"Rueda Sanchez","full_name":"Rueda Sanchez, Alfredo R"},{"full_name":"Sedlmeir, Florian","last_name":"Sedlmeir","first_name":"Florian"},{"first_name":"Michele","full_name":"Collodo, Michele","last_name":"Collodo"},{"first_name":"Ulrich","last_name":"Vogl","full_name":"Vogl, Ulrich"},{"full_name":"Stiller, Birgit","last_name":"Stiller","first_name":"Birgit"},{"first_name":"Gerhard","full_name":"Schunk, Gerhard","last_name":"Schunk"},{"first_name":"Dmitry","full_name":"Strekalov, Dmitry","last_name":"Strekalov"},{"last_name":"Marquardt","full_name":"Marquardt, Christoph","first_name":"Christoph"},{"id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink","full_name":"Fink, Johannes M","first_name":"Johannes M","orcid":"0000-0001-8112-028X"},{"last_name":"Painter","full_name":"Painter, Oskar","first_name":"Oskar"},{"first_name":"Gerd","last_name":"Leuchs","full_name":"Leuchs, Gerd"},{"first_name":"Harald","full_name":"Schwefel, Harald","last_name":"Schwefel"}],"day":"01","doi":"10.1364/NLO.2017.NM3A.1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","department":[{"_id":"JoFi"}],"language":[{"iso":"eng"}],"publication_status":"published","volume":"F54","oa_version":"None","publication_identifier":{"isbn":["978-155752820-9"]},"article_number":"NM3A.1","date_updated":"2025-06-03T11:23:42Z","title":"Single sideband microwave to optical photon conversion-an-electro-optic-realization"},{"type":"journal_article","publication":"ACM Transactions on Graphics","year":"2017","citation":{"ista":"Elek O, Sumin D, Zhang R, Weyrich T, Myszkowski K, Bickel B, Wilkie A, Krivanek J. 2017. Scattering-aware texture reproduction for 3D printing. ACM Transactions on Graphics. 36(6), 241.","mla":"Elek, Oskar, et al. “Scattering-Aware Texture Reproduction for 3D Printing.” <i>ACM Transactions on Graphics</i>, vol. 36, no. 6, 241, ACM, 2017, doi:<a href=\"https://doi.org/10.1145/3130800.3130890\">10.1145/3130800.3130890</a>.","apa":"Elek, O., Sumin, D., Zhang, R., Weyrich, T., Myszkowski, K., Bickel, B., … Krivanek, J. (2017). Scattering-aware texture reproduction for 3D printing. <i>ACM Transactions on Graphics</i>. ACM. <a href=\"https://doi.org/10.1145/3130800.3130890\">https://doi.org/10.1145/3130800.3130890</a>","short":"O. Elek, D. Sumin, R. Zhang, T. Weyrich, K. Myszkowski, B. Bickel, A. Wilkie, J. Krivanek, ACM Transactions on Graphics 36 (2017).","ama":"Elek O, Sumin D, Zhang R, et al. Scattering-aware texture reproduction for 3D printing. <i>ACM Transactions on Graphics</i>. 2017;36(6). doi:<a href=\"https://doi.org/10.1145/3130800.3130890\">10.1145/3130800.3130890</a>","chicago":"Elek, Oskar, Denis Sumin, Ran Zhang, Tim Weyrich, Karol Myszkowski, Bernd Bickel, Alexander Wilkie, and Jaroslav Krivanek. “Scattering-Aware Texture Reproduction for 3D Printing.” <i>ACM Transactions on Graphics</i>. ACM, 2017. <a href=\"https://doi.org/10.1145/3130800.3130890\">https://doi.org/10.1145/3130800.3130890</a>.","ieee":"O. Elek <i>et al.</i>, “Scattering-aware texture reproduction for 3D printing,” <i>ACM Transactions on Graphics</i>, vol. 36, no. 6. ACM, 2017."},"quality_controlled":"1","publist_id":"7334","abstract":[{"text":"Color texture reproduction in 3D printing commonly ignores volumetric light transport (cross-talk) between surface points on a 3D print. Such light diffusion leads to significant blur of details and color bleeding, and is particularly severe for highly translucent resin-based print materials. Given their widely varying scattering properties, this cross-talk between surface points strongly depends on the internal structure of the volume surrounding each surface point. Existing scattering-aware methods use simplified models for light diffusion, and often accept the visual blur as an immutable property of the print medium. In contrast, our work counteracts heterogeneous scattering to obtain the impression of a crisp albedo texture on top of the 3D print, by optimizing for a fully volumetric material distribution that preserves the target appearance. Our method employs an efficient numerical optimizer on top of a general Monte-Carlo simulation of heterogeneous scattering, supported by a practical calibration procedure to obtain scattering parameters from a given set of printer materials. Despite the inherent translucency of the medium, we reproduce detailed surface textures on 3D prints. We evaluate our system using a commercial, five-tone 3D print process and compare against the printer’s native color texturing mode, demonstrating that our method preserves high-frequency features well without having to compromise on color gamut.","lang":"eng"}],"date_created":"2018-12-11T11:46:44Z","month":"11","publication_identifier":{"issn":["0730-0301"]},"publication_status":"published","intvolume":"        36","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","isi":1,"pubrep_id":"1052","file":[{"file_id":"4836","relation":"main_file","date_created":"2018-12-12T10:10:46Z","date_updated":"2020-07-14T12:46:35Z","file_name":"IST-2018-1052-v1+1_ElekSumin2017SGA.pdf","file_size":107349827,"content_type":"application/pdf","access_level":"open_access","creator":"system","checksum":"48386fa6956c3645fc89594dc898b147"},{"file_id":"7189","date_updated":"2020-07-14T12:46:35Z","date_created":"2019-12-16T14:48:57Z","relation":"main_file","file_name":"ElekSumin2017SGA_reduced_file_size.pdf","file_size":4683145,"content_type":"application/pdf","access_level":"open_access","creator":"bbickel","checksum":"21c89c28fb8d70f6602f752bf997aa0f"}],"status":"public","external_id":{"isi":["000417448700071"]},"oa":1,"issue":"6","article_processing_charge":"No","publisher":"ACM","_id":"486","date_published":"2017-11-20T00:00:00Z","file_date_updated":"2020-07-14T12:46:35Z","article_type":"original","article_number":"241","oa_version":"Submitted Version","volume":36,"project":[{"call_identifier":"H2020","grant_number":"642841","_id":"2508E324-B435-11E9-9278-68D0E5697425","name":"Distributed 3D Object Design"},{"call_identifier":"H2020","grant_number":"715767","_id":"24F9549A-B435-11E9-9278-68D0E5697425","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"}],"ec_funded":1,"title":"Scattering-aware texture reproduction for 3D printing","date_updated":"2026-04-16T10:06:19Z","ddc":["003","000","005"],"day":"20","author":[{"full_name":"Elek, Oskar","last_name":"Elek","first_name":"Oskar"},{"last_name":"Sumin","full_name":"Sumin, Denis","first_name":"Denis"},{"first_name":"Ran","orcid":"0000-0002-3808-281X","full_name":"Zhang, Ran","last_name":"Zhang","id":"4DDBCEB0-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Tim","last_name":"Weyrich","full_name":"Weyrich, Tim"},{"first_name":"Karol","last_name":"Myszkowski","full_name":"Myszkowski, Karol"},{"full_name":"Bickel, Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","first_name":"Bernd"},{"first_name":"Alexander","last_name":"Wilkie","full_name":"Wilkie, Alexander"},{"last_name":"Krivanek","full_name":"Krivanek, Jaroslav","first_name":"Jaroslav"}],"has_accepted_license":"1","scopus_import":"1","doi":"10.1145/3130800.3130890","department":[{"_id":"BeBi"}],"related_material":{"record":[{"id":"8386","status":"public","relation":"dissertation_contains"}]},"language":[{"iso":"eng"}]},{"conference":{"start_date":"2017-12-12","name":"CoNEXT: Conference on emerging Networking EXperiments and Technologies","location":"Incheon, South Korea","end_date":"2017-12-15"},"month":"11","publist_id":"7333","abstract":[{"text":"In this paper we study network architecture for unlicensed cellular networking for outdoor coverage in TV white spaces. The main technology proposed for TV white spaces is 802.11af, a Wi-Fi variant adapted for TV frequencies. However, 802.11af is originally designed for improved indoor propagation. We show that long links, typical for outdoor use, exacerbate known Wi-Fi issues, such as hidden and exposed terminal, and significantly reduce its efficiency. Instead, we propose CellFi, an alternative architecture based on LTE. LTE is designed for long-range coverage and throughput efficiency, but it is also designed to operate in tightly controlled and centrally managed networks. CellFi overcomes these problems by designing an LTE-compatible spectrum database component, mandatory for TV white space networking, and introducing an interference management component for distributed coordination. CellFi interference management is compatible with existing LTE mechanisms, requires no explicit communication between base stations, and is more efficient than CSMA for long links. We evaluate our design through extensive real world evaluation on of-the-shelf LTE equipment and simulations. We show that, compared to 802.11af, it increases coverage by 40% and reduces median flow completion times by 2.3x.","lang":"eng"}],"date_created":"2018-12-11T11:46:45Z","quality_controlled":"1","citation":{"ieee":"G. Baig, B. Radunovic, D.-A. Alistarh, M. Balkwill, T. Karagiannis, and L. Qiu, “Towards unlicensed cellular networks in TV white spaces,” in <i>Proceedings of the 2017 13th International Conference on emerging Networking EXperiments and Technologies</i>, Incheon, South Korea, 2017, pp. 2–14.","chicago":"Baig, Ghufran, Bozidar Radunovic, Dan-Adrian Alistarh, Matthew Balkwill, Thomas Karagiannis, and Lili Qiu. “Towards Unlicensed Cellular Networks in TV White Spaces.” In <i>Proceedings of the 2017 13th International Conference on Emerging Networking EXperiments and Technologies</i>, 2–14. ACM, 2017. <a href=\"https://doi.org/10.1145/3143361.3143367\">https://doi.org/10.1145/3143361.3143367</a>.","apa":"Baig, G., Radunovic, B., Alistarh, D.-A., Balkwill, M., Karagiannis, T., &#38; Qiu, L. (2017). Towards unlicensed cellular networks in TV white spaces. In <i>Proceedings of the 2017 13th International Conference on emerging Networking EXperiments and Technologies</i> (pp. 2–14). Incheon, South Korea: ACM. <a href=\"https://doi.org/10.1145/3143361.3143367\">https://doi.org/10.1145/3143361.3143367</a>","mla":"Baig, Ghufran, et al. “Towards Unlicensed Cellular Networks in TV White Spaces.” <i>Proceedings of the 2017 13th International Conference on Emerging Networking EXperiments and Technologies</i>, ACM, 2017, pp. 2–14, doi:<a href=\"https://doi.org/10.1145/3143361.3143367\">10.1145/3143361.3143367</a>.","short":"G. Baig, B. Radunovic, D.-A. Alistarh, M. Balkwill, T. Karagiannis, L. Qiu, in:, Proceedings of the 2017 13th International Conference on Emerging Networking EXperiments and Technologies, ACM, 2017, pp. 2–14.","ama":"Baig G, Radunovic B, Alistarh D-A, Balkwill M, Karagiannis T, Qiu L. Towards unlicensed cellular networks in TV white spaces. In: <i>Proceedings of the 2017 13th International Conference on Emerging Networking EXperiments and Technologies</i>. ACM; 2017:2-14. doi:<a href=\"https://doi.org/10.1145/3143361.3143367\">10.1145/3143361.3143367</a>","ista":"Baig G, Radunovic B, Alistarh D-A, Balkwill M, Karagiannis T, Qiu L. 2017. Towards unlicensed cellular networks in TV white spaces. Proceedings of the 2017 13th International Conference on emerging Networking EXperiments and Technologies. CoNEXT: Conference on emerging Networking EXperiments and Technologies, 2–14."},"year":"2017","page":"2 - 14","publication":"Proceedings of the 2017 13th International Conference on emerging Networking EXperiments and Technologies","type":"conference","isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_identifier":{"isbn":["978-145035422-6"]},"publication_status":"published","date_published":"2017-11-28T00:00:00Z","_id":"487","corr_author":"1","publisher":"ACM","article_processing_charge":"No","external_id":{"isi":["000526087500002"]},"status":"public","language":[{"iso":"eng"}],"department":[{"_id":"DaAl"}],"scopus_import":"1","doi":"10.1145/3143361.3143367","day":"28","author":[{"first_name":"Ghufran","full_name":"Baig, Ghufran","last_name":"Baig"},{"last_name":"Radunovic","full_name":"Radunovic, Bozidar","first_name":"Bozidar"},{"id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","full_name":"Alistarh, Dan-Adrian","last_name":"Alistarh","first_name":"Dan-Adrian","orcid":"0000-0003-3650-940X"},{"last_name":"Balkwill","full_name":"Balkwill, Matthew","first_name":"Matthew"},{"first_name":"Thomas","full_name":"Karagiannis, Thomas","last_name":"Karagiannis"},{"last_name":"Qiu","full_name":"Qiu, Lili","first_name":"Lili"}],"title":"Towards unlicensed cellular networks in TV white spaces","date_updated":"2025-09-18T09:50:43Z","oa_version":"None"},{"type":"journal_article","publication":"Scientific Reports","date_created":"2018-12-11T11:46:53Z","abstract":[{"text":"The fixation probability is the probability that a new mutant introduced in a homogeneous population eventually takes over the entire population. The fixation probability is a fundamental quantity of natural selection, and known to depend on the population structure. Amplifiers of natural selection are population structures which increase the fixation probability of advantageous mutants, as compared to the baseline case of well-mixed populations. In this work we focus on symmetric population structures represented as undirected graphs. In the regime of undirected graphs, the strongest amplifier known has been the Star graph, and the existence of undirected graphs with stronger amplification properties has remained open for over a decade. In this work we present the Comet and Comet-swarm families of undirected graphs. We show that for a range of fitness values of the mutants, the Comet and Cometswarm graphs have fixation probability strictly larger than the fixation probability of the Star graph, for fixed population size and at the limit of large populations, respectively. ","lang":"eng"}],"publist_id":"7307","citation":{"apa":"Pavlogiannis, A., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2017). Amplification on undirected population structures: Comets beat stars. <i>Scientific Reports</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41598-017-00107-w\">https://doi.org/10.1038/s41598-017-00107-w</a>","short":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Scientific Reports 7 (2017).","mla":"Pavlogiannis, Andreas, et al. “Amplification on Undirected Population Structures: Comets Beat Stars.” <i>Scientific Reports</i>, vol. 7, no. 1, 82, Nature Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1038/s41598-017-00107-w\">10.1038/s41598-017-00107-w</a>.","ama":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. Amplification on undirected population structures: Comets beat stars. <i>Scientific Reports</i>. 2017;7(1). doi:<a href=\"https://doi.org/10.1038/s41598-017-00107-w\">10.1038/s41598-017-00107-w</a>","ista":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2017. Amplification on undirected population structures: Comets beat stars. Scientific Reports. 7(1), 82.","ieee":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, “Amplification on undirected population structures: Comets beat stars,” <i>Scientific Reports</i>, vol. 7, no. 1. Nature Publishing Group, 2017.","chicago":"Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. “Amplification on Undirected Population Structures: Comets Beat Stars.” <i>Scientific Reports</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/s41598-017-00107-w\">https://doi.org/10.1038/s41598-017-00107-w</a>."},"quality_controlled":"1","year":"2017","month":"03","publication_status":"published","publication_identifier":{"issn":["2045-2322"]},"intvolume":"         7","isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"pubrep_id":"938","status":"public","external_id":{"isi":["000396867800013"]},"file":[{"file_id":"5357","date_created":"2018-12-12T10:18:35Z","relation":"main_file","date_updated":"2020-07-14T12:46:36Z","file_name":"IST-2018-938-v1+1_2017_Pavlogiannis_Amplification_on.pdf","file_size":1536783,"access_level":"open_access","content_type":"application/pdf","creator":"system","checksum":"7d05cbdd914e194a019c0f91fb64e9a8"}],"publisher":"Nature Publishing Group","article_processing_charge":"No","issue":"1","oa":1,"corr_author":"1","date_published":"2017-03-06T00:00:00Z","_id":"512","oa_version":"Published Version","volume":7,"article_number":"82","file_date_updated":"2020-07-14T12:46:36Z","title":"Amplification on undirected population structures: Comets beat stars","date_updated":"2025-09-18T09:50:10Z","ec_funded":1,"project":[{"_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF"},{"_id":"25863FF4-B435-11E9-9278-68D0E5697425","grant_number":"S11407","name":"Game Theory","call_identifier":"FWF"},{"call_identifier":"FP7","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications"}],"doi":"10.1038/s41598-017-00107-w","scopus_import":"1","has_accepted_license":"1","author":[{"orcid":"0000-0002-8943-0722","first_name":"Andreas","full_name":"Pavlogiannis, Andreas","last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Josef","orcid":"0000-0002-1097-9684","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","full_name":"Tkadlec, Josef","last_name":"Tkadlec"},{"first_name":"Krishnendu","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Nowak, Martin","last_name":"Nowak","first_name":"Martin"}],"ddc":["004"],"day":"06","language":[{"iso":"eng"}],"related_material":{"record":[{"status":"public","id":"5449","relation":"earlier_version"}]},"department":[{"_id":"KrCh"}]},{"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"publication_status":"published","intvolume":"         2","month":"04","type":"journal_article","publication":"Physical Review Fluids","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1704.02619"}],"quality_controlled":"1","year":"2017","citation":{"mla":"Klotz, Lukasz, et al. “Couette-Poiseuille Flow Experiment with Zero Mean Advection Velocity: Subcritical Transition to Turbulence.” <i>Physical Review Fluids</i>, vol. 2, no. 4, 043904, American Physical Society, 2017, doi:<a href=\"https://doi.org/10.1103/PhysRevFluids.2.043904\">10.1103/PhysRevFluids.2.043904</a>.","short":"L. Klotz, G.M. Lemoult, I. Frontczak, L. Tuckerman, J. Wesfreid, Physical Review Fluids 2 (2017).","apa":"Klotz, L., Lemoult, G. M., Frontczak, I., Tuckerman, L., &#38; Wesfreid, J. (2017). Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical transition to turbulence. <i>Physical Review Fluids</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevFluids.2.043904\">https://doi.org/10.1103/PhysRevFluids.2.043904</a>","ama":"Klotz L, Lemoult GM, Frontczak I, Tuckerman L, Wesfreid J. Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical transition to turbulence. <i>Physical Review Fluids</i>. 2017;2(4). doi:<a href=\"https://doi.org/10.1103/PhysRevFluids.2.043904\">10.1103/PhysRevFluids.2.043904</a>","ista":"Klotz L, Lemoult GM, Frontczak I, Tuckerman L, Wesfreid J. 2017. Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical transition to turbulence. Physical Review Fluids. 2(4), 043904.","ieee":"L. Klotz, G. M. Lemoult, I. Frontczak, L. Tuckerman, and J. Wesfreid, “Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical transition to turbulence,” <i>Physical Review Fluids</i>, vol. 2, no. 4. American Physical Society, 2017.","chicago":"Klotz, Lukasz, Grégoire M Lemoult, Idalia Frontczak, Laurette Tuckerman, and José Wesfreid. “Couette-Poiseuille Flow Experiment with Zero Mean Advection Velocity: Subcritical Transition to Turbulence.” <i>Physical Review Fluids</i>. American Physical Society, 2017. <a href=\"https://doi.org/10.1103/PhysRevFluids.2.043904\">https://doi.org/10.1103/PhysRevFluids.2.043904</a>."},"publist_id":"7306","abstract":[{"text":"We present an experimental setup that creates a shear flow with zero mean advection velocity achieved by counterbalancing the nonzero streamwise pressure gradient by moving boundaries, which generates plane Couette-Poiseuille flow. We obtain experimental results in the transitional regime for this flow. Using flow visualization, we characterize the subcritical transition to turbulence in Couette-Poiseuille flow and show the existence of turbulent spots generated by a permanent perturbation. Due to the zero mean advection velocity of the base profile, these turbulent structures are nearly stationary. We distinguish two regions of the turbulent spot: the active turbulent core, which is characterized by waviness of the streaks similar to traveling waves, and the surrounding region, which includes in addition the weak undisturbed streaks and oblique waves at the laminar-turbulent interface. We also study the dependence of the size of these two regions on Reynolds number. Finally, we show that the traveling waves move in the downstream (Poiseuille) direction.","lang":"eng"}],"date_created":"2018-12-11T11:46:54Z","day":"01","author":[{"orcid":"0000-0003-1740-7635","first_name":"Lukasz","id":"2C9AF1C2-F248-11E8-B48F-1D18A9856A87","last_name":"Klotz","full_name":"Klotz, Lukasz"},{"first_name":"Grégoire M","last_name":"Lemoult","full_name":"Lemoult, Grégoire M","id":"4787FE80-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Frontczak","full_name":"Frontczak, Idalia","first_name":"Idalia"},{"full_name":"Tuckerman, Laurette","last_name":"Tuckerman","first_name":"Laurette"},{"first_name":"José","full_name":"Wesfreid, José","last_name":"Wesfreid"}],"scopus_import":"1","doi":"10.1103/PhysRevFluids.2.043904","department":[{"_id":"BjHo"}],"language":[{"iso":"eng"}],"article_number":"043904","oa_version":"Preprint","volume":2,"title":"Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical transition to turbulence","date_updated":"2025-09-18T09:49:18Z","arxiv":1,"_id":"513","date_published":"2017-04-01T00:00:00Z","status":"public","external_id":{"isi":["000400249900003"],"arxiv":["1704.02619"]},"oa":1,"issue":"4","article_processing_charge":"No","publisher":"American Physical Society"},{"volume":8,"oa_version":"Published Version","article_number":"16032","file_date_updated":"2020-07-14T12:46:36Z","date_updated":"2025-09-18T09:48:43Z","title":"Activity dependent feedback inhibition may maintain head direction signals in mouse presubiculum","scopus_import":"1","doi":"10.1038/ncomms16032","has_accepted_license":"1","author":[{"first_name":"Jean","last_name":"Simonnet","full_name":"Simonnet, Jean"},{"full_name":"Nassar, Mérie","last_name":"Nassar","first_name":"Mérie"},{"last_name":"Stella","full_name":"Stella, Federico","id":"39AF1E74-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9439-3148","first_name":"Federico"},{"first_name":"Ivan","full_name":"Cohen, Ivan","last_name":"Cohen"},{"first_name":"Bertrand","last_name":"Mathon","full_name":"Mathon, Bertrand"},{"orcid":"0000-0001-7237-5109","first_name":"Charlotte","id":"3FC06552-F248-11E8-B48F-1D18A9856A87","full_name":"Boccara, Charlotte","last_name":"Boccara"},{"first_name":"Richard","last_name":"Miles","full_name":"Miles, Richard"},{"last_name":"Fricker","full_name":"Fricker, Desdemona","first_name":"Desdemona"}],"ddc":["571"],"day":"01","language":[{"iso":"eng"}],"department":[{"_id":"JoCs"}],"external_id":{"isi":["000405901100001"]},"status":"public","file":[{"content_type":"application/pdf","access_level":"open_access","creator":"system","checksum":"76d8a2b72a58e56adb410ec37dfa7eee","file_id":"5083","date_updated":"2020-07-14T12:46:36Z","relation":"main_file","date_created":"2018-12-12T10:14:31Z","file_name":"IST-2018-937-v1+1_2017_Stella_Activity_dependent.pdf","file_size":2948357}],"publisher":"Nature Publishing Group","article_processing_charge":"No","oa":1,"date_published":"2017-07-01T00:00:00Z","_id":"514","publication_identifier":{"issn":["2041-1723"]},"publication_status":"published","intvolume":"         8","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"pubrep_id":"937","type":"journal_article","publication":"Nature Communications","date_created":"2018-12-11T11:46:54Z","abstract":[{"lang":"eng","text":"Orientation in space is represented in specialized brain circuits. Persistent head direction signals are transmitted from anterior thalamus to the presubiculum, but the identity of the presubicular target neurons, their connectivity and function in local microcircuits are unknown. Here, we examine how thalamic afferents recruit presubicular principal neurons and Martinotti interneurons, and the ensuing synaptic interactions between these cells. Pyramidal neuron activation of Martinotti cells in superficial layers is strongly facilitating such that high-frequency head directional stimulation efficiently unmutes synaptic excitation. Martinotti-cell feedback plays a dual role: precisely timed spikes may not inhibit the firing of in-tune head direction cells, while exerting lateral inhibition. Autonomous attractor dynamics emerge from a modelled network implementing wiring motifs and timing sensitive synaptic interactions in the pyramidal - Martinotti-cell feedback loop. This inhibitory microcircuit is therefore tuned to refine and maintain head direction information in the presubiculum."}],"publist_id":"7305","citation":{"ieee":"J. Simonnet <i>et al.</i>, “Activity dependent feedback inhibition may maintain head direction signals in mouse presubiculum,” <i>Nature Communications</i>, vol. 8. Nature Publishing Group, 2017.","chicago":"Simonnet, Jean, Mérie Nassar, Federico Stella, Ivan Cohen, Bertrand Mathon, Charlotte N. Boccara, Richard Miles, and Desdemona Fricker. “Activity Dependent Feedback Inhibition May Maintain Head Direction Signals in Mouse Presubiculum.” <i>Nature Communications</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/ncomms16032\">https://doi.org/10.1038/ncomms16032</a>.","apa":"Simonnet, J., Nassar, M., Stella, F., Cohen, I., Mathon, B., Boccara, C. N., … Fricker, D. (2017). Activity dependent feedback inhibition may maintain head direction signals in mouse presubiculum. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncomms16032\">https://doi.org/10.1038/ncomms16032</a>","mla":"Simonnet, Jean, et al. “Activity Dependent Feedback Inhibition May Maintain Head Direction Signals in Mouse Presubiculum.” <i>Nature Communications</i>, vol. 8, 16032, Nature Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1038/ncomms16032\">10.1038/ncomms16032</a>.","short":"J. Simonnet, M. Nassar, F. Stella, I. Cohen, B. Mathon, C.N. Boccara, R. Miles, D. Fricker, Nature Communications 8 (2017).","ama":"Simonnet J, Nassar M, Stella F, et al. Activity dependent feedback inhibition may maintain head direction signals in mouse presubiculum. <i>Nature Communications</i>. 2017;8. doi:<a href=\"https://doi.org/10.1038/ncomms16032\">10.1038/ncomms16032</a>","ista":"Simonnet J, Nassar M, Stella F, Cohen I, Mathon B, Boccara CN, Miles R, Fricker D. 2017. Activity dependent feedback inhibition may maintain head direction signals in mouse presubiculum. Nature Communications. 8, 16032."},"quality_controlled":"1","year":"2017","month":"07"},{"corr_author":"1","date_published":"2017-10-05T00:00:00Z","_id":"515","status":"public","file":[{"checksum":"9bc7e8c41b43636dd7566289e511f096","creator":"lsazanov","access_level":"open_access","content_type":"application/pdf","file_size":4118385,"file_name":"29893_2_merged_1501257589_red.pdf","date_created":"2019-11-07T12:51:07Z","date_updated":"2020-07-14T12:46:36Z","relation":"main_file","file_id":"6993"}],"external_id":{"isi":["000412278000006"]},"publisher":"Nature Publishing Group","article_processing_charge":"No","oa":1,"issue":"10","scopus_import":"1","doi":"10.1038/nsmb.3460","has_accepted_license":"1","author":[{"orcid":"0000-0002-9864-3586","first_name":"James A","id":"322DA418-F248-11E8-B48F-1D18A9856A87","last_name":"Letts","full_name":"Letts, James A"},{"first_name":"Leonid A","orcid":"0000-0002-0977-7989","full_name":"Sazanov, Leonid A","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"}],"day":"05","ddc":["572"],"language":[{"iso":"eng"}],"department":[{"_id":"LeSa"}],"volume":24,"oa_version":"Submitted Version","article_type":"original","file_date_updated":"2020-07-14T12:46:36Z","date_updated":"2025-09-18T09:47:41Z","title":"Clarifying the supercomplex: The higher-order organization of the mitochondrial electron transport chain","ec_funded":1,"project":[{"call_identifier":"H2020","name":"Atomic Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes","grant_number":"701309","_id":"2590DB08-B435-11E9-9278-68D0E5697425"}],"month":"10","page":"800 - 808","type":"journal_article","publication":"Nature Structural and Molecular Biology","date_created":"2018-12-11T11:46:54Z","abstract":[{"lang":"eng","text":"The oxidative phosphorylation electron transport chain (OXPHOS-ETC) of the inner mitochondrial membrane is composed of five large protein complexes, named CI-CV. These complexes convert energy from the food we eat into ATP, a small molecule used to power a multitude of essential reactions throughout the cell. OXPHOS-ETC complexes are organized into supercomplexes (SCs) of defined stoichiometry: CI forms a supercomplex with CIII2 and CIV (SC I+III2+IV, known as the respirasome), as well as with CIII2 alone (SC I+III2). CIII2 forms a supercomplex with CIV (SC III2+IV) and CV forms dimers (CV2). Recent cryo-EM studies have revealed the structures of SC I+III2+IV and SC I+III2. Furthermore, recent work has shed light on the assembly and function of the SCs. Here we review and compare these recent studies and discuss how they have advanced our understanding of mitochondrial electron transport."}],"publist_id":"7304","citation":{"ama":"Letts JA, Sazanov LA. Clarifying the supercomplex: The higher-order organization of the mitochondrial electron transport chain. <i>Nature Structural and Molecular Biology</i>. 2017;24(10):800-808. doi:<a href=\"https://doi.org/10.1038/nsmb.3460\">10.1038/nsmb.3460</a>","mla":"Letts, James A., and Leonid A. Sazanov. “Clarifying the Supercomplex: The Higher-Order Organization of the Mitochondrial Electron Transport Chain.” <i>Nature Structural and Molecular Biology</i>, vol. 24, no. 10, Nature Publishing Group, 2017, pp. 800–08, doi:<a href=\"https://doi.org/10.1038/nsmb.3460\">10.1038/nsmb.3460</a>.","short":"J.A. Letts, L.A. Sazanov, Nature Structural and Molecular Biology 24 (2017) 800–808.","apa":"Letts, J. A., &#38; Sazanov, L. A. (2017). Clarifying the supercomplex: The higher-order organization of the mitochondrial electron transport chain. <i>Nature Structural and Molecular Biology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nsmb.3460\">https://doi.org/10.1038/nsmb.3460</a>","ista":"Letts JA, Sazanov LA. 2017. Clarifying the supercomplex: The higher-order organization of the mitochondrial electron transport chain. Nature Structural and Molecular Biology. 24(10), 800–808.","ieee":"J. A. Letts and L. A. Sazanov, “Clarifying the supercomplex: The higher-order organization of the mitochondrial electron transport chain,” <i>Nature Structural and Molecular Biology</i>, vol. 24, no. 10. Nature Publishing Group, pp. 800–808, 2017.","chicago":"Letts, James A, and Leonid A Sazanov. “Clarifying the Supercomplex: The Higher-Order Organization of the Mitochondrial Electron Transport Chain.” <i>Nature Structural and Molecular Biology</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/nsmb.3460\">https://doi.org/10.1038/nsmb.3460</a>."},"year":"2017","quality_controlled":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"publication_identifier":{"issn":["1545-9993"]},"publication_status":"published","intvolume":"        24"},{"issue":"3","article_processing_charge":"No","publisher":"American Chemical Society","pmid":1,"external_id":{"isi":["000397080300002"],"pmid":["27936615"]},"status":"public","_id":"520","date_published":"2017-03-17T00:00:00Z","date_updated":"2025-09-18T09:45:41Z","title":"Nonhierarchical flux regulation exposes the fitness burden associated with lactate production in Synechocystis sp. PCC6803","article_type":"letter_note","oa_version":"None","volume":6,"department":[{"_id":"ToBo"}],"language":[{"iso":"eng"}],"day":"17","author":[{"full_name":"Du, Wei","last_name":"Du","first_name":"Wei"},{"orcid":"0000-0001-8619-2223","first_name":"Andreas","id":"4677C796-F248-11E8-B48F-1D18A9856A87","full_name":"Angermayr, Andreas","last_name":"Angermayr"},{"first_name":"Joeri","full_name":"Jongbloets, Joeri","last_name":"Jongbloets"},{"last_name":"Molenaar","full_name":"Molenaar, Douwe","first_name":"Douwe"},{"last_name":"Bachmann","full_name":"Bachmann, Herwig","first_name":"Herwig"},{"last_name":"Hellingwerf","full_name":"Hellingwerf, Klaas","first_name":"Klaas"},{"last_name":"Branco Dos Santos","full_name":"Branco Dos Santos, Filipe","first_name":"Filipe"}],"doi":"10.1021/acssynbio.6b00235","scopus_import":"1","quality_controlled":"1","year":"2017","citation":{"ieee":"W. Du <i>et al.</i>, “Nonhierarchical flux regulation exposes the fitness burden associated with lactate production in Synechocystis sp. PCC6803,” <i>ACS Synthetic Biology</i>, vol. 6, no. 3. American Chemical Society, pp. 395–401, 2017.","chicago":"Du, Wei, Andreas Angermayr, Joeri Jongbloets, Douwe Molenaar, Herwig Bachmann, Klaas Hellingwerf, and Filipe Branco Dos Santos. “Nonhierarchical Flux Regulation Exposes the Fitness Burden Associated with Lactate Production in Synechocystis Sp. PCC6803.” <i>ACS Synthetic Biology</i>. American Chemical Society, 2017. <a href=\"https://doi.org/10.1021/acssynbio.6b00235\">https://doi.org/10.1021/acssynbio.6b00235</a>.","apa":"Du, W., Angermayr, A., Jongbloets, J., Molenaar, D., Bachmann, H., Hellingwerf, K., &#38; Branco Dos Santos, F. (2017). Nonhierarchical flux regulation exposes the fitness burden associated with lactate production in Synechocystis sp. PCC6803. <i>ACS Synthetic Biology</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acssynbio.6b00235\">https://doi.org/10.1021/acssynbio.6b00235</a>","mla":"Du, Wei, et al. “Nonhierarchical Flux Regulation Exposes the Fitness Burden Associated with Lactate Production in Synechocystis Sp. PCC6803.” <i>ACS Synthetic Biology</i>, vol. 6, no. 3, American Chemical Society, 2017, pp. 395–401, doi:<a href=\"https://doi.org/10.1021/acssynbio.6b00235\">10.1021/acssynbio.6b00235</a>.","short":"W. Du, A. Angermayr, J. Jongbloets, D. Molenaar, H. Bachmann, K. Hellingwerf, F. Branco Dos Santos, ACS Synthetic Biology 6 (2017) 395–401.","ama":"Du W, Angermayr A, Jongbloets J, et al. Nonhierarchical flux regulation exposes the fitness burden associated with lactate production in Synechocystis sp. PCC6803. <i>ACS Synthetic Biology</i>. 2017;6(3):395-401. doi:<a href=\"https://doi.org/10.1021/acssynbio.6b00235\">10.1021/acssynbio.6b00235</a>","ista":"Du W, Angermayr A, Jongbloets J, Molenaar D, Bachmann H, Hellingwerf K, Branco Dos Santos F. 2017. Nonhierarchical flux regulation exposes the fitness burden associated with lactate production in Synechocystis sp. PCC6803. ACS Synthetic Biology. 6(3), 395–401."},"abstract":[{"text":"Cyanobacteria are mostly engineered to be sustainable cell-factories by genetic manipulations alone. Here, by modulating the concentration of allosteric effectors, we focus on increasing product formation without further burdening the cells with increased expression of enzymes. Resorting to a novel 96-well microplate cultivation system for cyanobacteria, and using lactate-producing strains of Synechocystis PCC6803 expressing different l-lactate dehydrogenases (LDH), we titrated the effect of 2,5-anhydro-mannitol supplementation. The latter acts in cells as a nonmetabolizable analogue of fructose 1,6-bisphosphate, a known allosteric regulator of one of the tested LDHs. In this strain (SAA023), we achieved over 2-fold increase of lactate productivity. Furthermore, we observed that as carbon is increasingly deviated during growth toward product formation, there is an increased fixation rate in the population of spontaneous mutants harboring an impaired production pathway. This is a challenge in the development of green cell factories, which may be countered by the incorporation in biotechnological processes of strategies such as the one pioneered here.","lang":"eng"}],"publist_id":"7298","date_created":"2018-12-11T11:46:56Z","publication":"ACS Synthetic Biology","type":"journal_article","page":"395 - 401","month":"03","intvolume":"         6","publication_identifier":{"issn":["2161-5063"]},"publication_status":"published","isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345"},{"month":"01","publication":"Topology and its Applications","type":"journal_article","page":"45 - 57","main_file_link":[{"url":"https://arxiv.org/abs/1608.03954","open_access":"1"}],"citation":{"ama":"Austin K, Virk Z. Higson compactification and dimension raising. <i>Topology and its Applications</i>. 2017;215:45-57. doi:<a href=\"https://doi.org/10.1016/j.topol.2016.10.005\">10.1016/j.topol.2016.10.005</a>","mla":"Austin, Kyle, and Ziga Virk. “Higson Compactification and Dimension Raising.” <i>Topology and Its Applications</i>, vol. 215, Elsevier, 2017, pp. 45–57, doi:<a href=\"https://doi.org/10.1016/j.topol.2016.10.005\">10.1016/j.topol.2016.10.005</a>.","apa":"Austin, K., &#38; Virk, Z. (2017). Higson compactification and dimension raising. <i>Topology and Its Applications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.topol.2016.10.005\">https://doi.org/10.1016/j.topol.2016.10.005</a>","short":"K. Austin, Z. Virk, Topology and Its Applications 215 (2017) 45–57.","ista":"Austin K, Virk Z. 2017. Higson compactification and dimension raising. Topology and its Applications. 215, 45–57.","ieee":"K. Austin and Z. Virk, “Higson compactification and dimension raising,” <i>Topology and its Applications</i>, vol. 215. Elsevier, pp. 45–57, 2017.","chicago":"Austin, Kyle, and Ziga Virk. “Higson Compactification and Dimension Raising.” <i>Topology and Its Applications</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.topol.2016.10.005\">https://doi.org/10.1016/j.topol.2016.10.005</a>."},"quality_controlled":"1","year":"2017","date_created":"2018-12-11T11:46:56Z","publist_id":"7299","abstract":[{"text":"Let X and Y be proper metric spaces. We show that a coarsely n-to-1 map f:X→Y induces an n-to-1 map of Higson coronas. This viewpoint turns out to be successful in showing that the classical dimension raising theorems hold in large scale; that is, if f:X→Y is a coarsely n-to-1 map between proper metric spaces X and Y then asdim(Y)≤asdim(X)+n−1. Furthermore we introduce coarsely open coarsely n-to-1 maps, which include the natural quotient maps via a finite group action, and prove that they preserve the asymptotic dimension.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"publication_identifier":{"issn":["0166-8641"]},"publication_status":"published","intvolume":"       215","corr_author":"1","arxiv":1,"_id":"521","date_published":"2017-01-01T00:00:00Z","external_id":{"arxiv":["1608.03954"],"isi":["000390501400005"]},"status":"public","article_processing_charge":"No","oa":1,"publisher":"Elsevier","author":[{"last_name":"Austin","full_name":"Austin, Kyle","first_name":"Kyle"},{"first_name":"Ziga","last_name":"Virk","full_name":"Virk, Ziga","id":"2E36B656-F248-11E8-B48F-1D18A9856A87"}],"day":"01","scopus_import":"1","doi":"10.1016/j.topol.2016.10.005","department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"volume":215,"oa_version":"Submitted Version","date_updated":"2025-09-18T09:47:04Z","title":"Higson compactification and dimension raising"},{"isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","intvolume":"        58","publication_identifier":{"issn":["01795376"]},"publication_status":"published","month":"06","date_created":"2018-12-11T11:47:01Z","publist_id":"7283","abstract":[{"lang":"eng","text":"We investigate the complexity of finding an embedded non-orientable surface of Euler genus g in a triangulated 3-manifold. This problem occurs both as a natural question in low-dimensional topology, and as a first non-trivial instance of embeddability of complexes into 3-manifolds. We prove that the problem is NP-hard, thus adding to the relatively few hardness results that are currently known in 3-manifold topology. In addition, we show that the problem lies in NP when the Euler genus g is odd, and we give an explicit algorithm in this case."}],"citation":{"ista":"Burton B, de Mesmay AN, Wagner U. 2017. Finding non-orientable surfaces in 3-Manifolds. Discrete &#38; Computational Geometry. 58(4), 871–888.","ama":"Burton B, de Mesmay AN, Wagner U. Finding non-orientable surfaces in 3-Manifolds. <i>Discrete &#38; Computational Geometry</i>. 2017;58(4):871-888. doi:<a href=\"https://doi.org/10.1007/s00454-017-9900-0\">10.1007/s00454-017-9900-0</a>","mla":"Burton, Benjamin, et al. “Finding Non-Orientable Surfaces in 3-Manifolds.” <i>Discrete &#38; Computational Geometry</i>, vol. 58, no. 4, Springer, 2017, pp. 871–88, doi:<a href=\"https://doi.org/10.1007/s00454-017-9900-0\">10.1007/s00454-017-9900-0</a>.","short":"B. Burton, A.N. de Mesmay, U. Wagner, Discrete &#38; Computational Geometry 58 (2017) 871–888.","apa":"Burton, B., de Mesmay, A. N., &#38; Wagner, U. (2017). Finding non-orientable surfaces in 3-Manifolds. <i>Discrete &#38; Computational Geometry</i>. Springer. <a href=\"https://doi.org/10.1007/s00454-017-9900-0\">https://doi.org/10.1007/s00454-017-9900-0</a>","chicago":"Burton, Benjamin, Arnaud N de Mesmay, and Uli Wagner. “Finding Non-Orientable Surfaces in 3-Manifolds.” <i>Discrete &#38; Computational Geometry</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s00454-017-9900-0\">https://doi.org/10.1007/s00454-017-9900-0</a>.","ieee":"B. Burton, A. N. de Mesmay, and U. Wagner, “Finding non-orientable surfaces in 3-Manifolds,” <i>Discrete &#38; Computational Geometry</i>, vol. 58, no. 4. Springer, pp. 871–888, 2017."},"year":"2017","quality_controlled":"1","page":"871 - 888","main_file_link":[{"url":"https://arxiv.org/abs/1602.07907","open_access":"1"}],"publication":"Discrete & Computational Geometry","type":"journal_article","language":[{"iso":"eng"}],"related_material":{"record":[{"relation":"earlier_version","id":"1379","status":"public"}]},"department":[{"_id":"UlWa"}],"scopus_import":"1","doi":"10.1007/s00454-017-9900-0","author":[{"first_name":"Benjamin","full_name":"Burton, Benjamin","last_name":"Burton"},{"first_name":"Arnaud N","id":"3DB2F25C-F248-11E8-B48F-1D18A9856A87","full_name":"De Mesmay, Arnaud N","last_name":"De Mesmay"},{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","full_name":"Wagner, Uli","last_name":"Wagner","orcid":"0000-0002-1494-0568","first_name":"Uli"}],"day":"09","date_updated":"2025-09-18T09:45:02Z","title":"Finding non-orientable surfaces in 3-Manifolds","volume":58,"oa_version":"Preprint","article_type":"original","date_published":"2017-06-09T00:00:00Z","_id":"534","arxiv":1,"corr_author":"1","publisher":"Springer","article_processing_charge":"No","issue":"4","oa":1,"external_id":{"isi":["000413958900006"],"arxiv":["1602.07907"]},"status":"public"},{"oa_version":"Published Version","volume":129,"file_date_updated":"2020-07-14T12:46:39Z","title":"Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen","date_updated":"2024-10-09T20:58:07Z","project":[{"call_identifier":"FP7","name":"Microbial Ion Channels for Synthetic Neurobiology","grant_number":"303564","_id":"25548C20-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"Molecular Drug Targets","grant_number":"W1232-B24","_id":"255A6082-B435-11E9-9278-68D0E5697425"}],"ec_funded":1,"doi":"10.1002/ange.201611998","has_accepted_license":"1","author":[{"full_name":"Kainrath, Stephanie","last_name":"Kainrath","id":"32CFBA64-F248-11E8-B48F-1D18A9856A87","first_name":"Stephanie"},{"first_name":"Manuela","last_name":"Stadler","full_name":"Stadler, Manuela"},{"orcid":"0000-0002-7218-7738","first_name":"Eva","id":"3FEE232A-F248-11E8-B48F-1D18A9856A87","full_name":"Gschaider-Reichhart, Eva","last_name":"Gschaider-Reichhart"},{"first_name":"Martin","last_name":"Distel","full_name":"Distel, Martin"},{"first_name":"Harald L","orcid":"0000-0002-8023-9315","last_name":"Janovjak","full_name":"Janovjak, Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87"}],"day":"20","ddc":["571"],"language":[{"iso":"eng"}],"department":[{"_id":"CaGu"},{"_id":"HaJa"}],"status":"public","file":[{"creator":"system","access_level":"open_access","content_type":"application/pdf","checksum":"d66fee867e7cdbfa3fe276c2fb0778bb","file_id":"5007","file_name":"IST-2018-932-v1+1_Kainrath_et_al-2017-Angewandte_Chemie.pdf","date_created":"2018-12-12T10:13:24Z","relation":"main_file","date_updated":"2020-07-14T12:46:39Z","file_size":1668557}],"publisher":"Wiley","issue":"16","oa":1,"corr_author":"1","date_published":"2017-05-20T00:00:00Z","_id":"538","publication_status":"published","intvolume":"       129","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"pubrep_id":"932","page":"4679 - 4682","publication":"Angewandte Chemie","type":"journal_article","date_created":"2018-12-11T11:47:02Z","abstract":[{"lang":"ger","text":"Optogenetik und Photopharmakologie ermöglichen präzise räumliche und zeitliche Kontrolle von Proteinwechselwirkung und -funktion in Zellen und Tieren. Optogenetische Methoden, die auf grünes Licht ansprechen und zum Trennen von Proteinkomplexen geeignet sind, sind nichtweitläufig verfügbar, würden jedoch mehrfarbige Experimente zur Beantwortung von biologischen Fragestellungen ermöglichen. Hier demonstrieren wir die Verwendung von Cobalamin(Vitamin B12)-bindenden Domänen von bakteriellen CarH-Transkriptionsfaktoren zur Grünlicht-induzierten Dissoziation von Rezeptoren. Fusioniert mit dem Fibroblasten-W achstumsfaktor-Rezeptor 1 führten diese im Dunkeln in kultivierten Zellen zu Signalaktivität durch Oligomerisierung, welche durch Beleuchten umgehend aufgehoben wurde. In Zebrafischembryonen, die einen derartigen Rezeptor exprimieren, ermöglichte grünes Licht die Kontrolle über abnormale Signalaktivität während der Embryonalentwicklung. "}],"publist_id":"7279","year":"2017","quality_controlled":"1","citation":{"ista":"Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. 2017. Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte Chemie. 129(16), 4679–4682.","ama":"Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. <i>Angewandte Chemie</i>. 2017;129(16):4679-4682. doi:<a href=\"https://doi.org/10.1002/ange.201611998\">10.1002/ange.201611998</a>","apa":"Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., &#38; Janovjak, H. L. (2017). Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. <i>Angewandte Chemie</i>. Wiley. <a href=\"https://doi.org/10.1002/ange.201611998\">https://doi.org/10.1002/ange.201611998</a>","short":"S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak, Angewandte Chemie 129 (2017) 4679–4682.","mla":"Kainrath, Stephanie, et al. “Grünlicht-Induzierte Rezeptorinaktivierung Durch Cobalamin-Bindende Domänen.” <i>Angewandte Chemie</i>, vol. 129, no. 16, Wiley, 2017, pp. 4679–82, doi:<a href=\"https://doi.org/10.1002/ange.201611998\">10.1002/ange.201611998</a>.","chicago":"Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel, and Harald L Janovjak. “Grünlicht-Induzierte Rezeptorinaktivierung Durch Cobalamin-Bindende Domänen.” <i>Angewandte Chemie</i>. Wiley, 2017. <a href=\"https://doi.org/10.1002/ange.201611998\">https://doi.org/10.1002/ange.201611998</a>.","ieee":"S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, and H. L. Janovjak, “Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen,” <i>Angewandte Chemie</i>, vol. 129, no. 16. Wiley, pp. 4679–4682, 2017."},"month":"05"},{"publication_identifier":{"issn":["1553-7366"]},"publication_status":"published","intvolume":"        13","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"pubrep_id":"931","type":"journal_article","publication":"PLoS Pathogens","citation":{"ieee":"K. Khamina <i>et al.</i>, “Characterization of host proteins interacting with the lymphocytic choriomeningitis virus L protein,” <i>PLoS Pathogens</i>, vol. 13, no. 12. Public Library of Science, 2017.","chicago":"Khamina, Kseniya, Alexander Lercher, Michael Caldera, Christopher Schliehe, Bojan Vilagos, Mehmet Sahin, Lindsay Kosack, et al. “Characterization of Host Proteins Interacting with the Lymphocytic Choriomeningitis Virus L Protein.” <i>PLoS Pathogens</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.ppat.1006758\">https://doi.org/10.1371/journal.ppat.1006758</a>.","short":"K. Khamina, A. Lercher, M. Caldera, C. Schliehe, B. Vilagos, M. Sahin, L. Kosack, A. Bhattacharya, P. Májek, A. Stukalov, R. Sacco, L. James, D. Pinschewer, K. Bennett, J. Menche, A. Bergthaler, PLoS Pathogens 13 (2017).","apa":"Khamina, K., Lercher, A., Caldera, M., Schliehe, C., Vilagos, B., Sahin, M., … Bergthaler, A. (2017). Characterization of host proteins interacting with the lymphocytic choriomeningitis virus L protein. <i>PLoS Pathogens</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.ppat.1006758\">https://doi.org/10.1371/journal.ppat.1006758</a>","mla":"Khamina, Kseniya, et al. “Characterization of Host Proteins Interacting with the Lymphocytic Choriomeningitis Virus L Protein.” <i>PLoS Pathogens</i>, vol. 13, no. 12, e1006758, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.ppat.1006758\">10.1371/journal.ppat.1006758</a>.","ama":"Khamina K, Lercher A, Caldera M, et al. Characterization of host proteins interacting with the lymphocytic choriomeningitis virus L protein. <i>PLoS Pathogens</i>. 2017;13(12). doi:<a href=\"https://doi.org/10.1371/journal.ppat.1006758\">10.1371/journal.ppat.1006758</a>","ista":"Khamina K, Lercher A, Caldera M, Schliehe C, Vilagos B, Sahin M, Kosack L, Bhattacharya A, Májek P, Stukalov A, Sacco R, James L, Pinschewer D, Bennett K, Menche J, Bergthaler A. 2017. Characterization of host proteins interacting with the lymphocytic choriomeningitis virus L protein. PLoS Pathogens. 13(12), e1006758."},"quality_controlled":"1","year":"2017","date_created":"2018-12-11T11:47:03Z","abstract":[{"lang":"eng","text":"RNA-dependent RNA polymerases (RdRps) play a key role in the life cycle of RNA viruses and impact their immunobiology. The arenavirus lymphocytic choriomeningitis virus (LCMV) strain Clone 13 provides a benchmark model for studying chronic infection. A major genetic determinant for its ability to persist maps to a single amino acid exchange in the viral L protein, which exhibits RdRp activity, yet its functional consequences remain elusive. To unravel the L protein interactions with the host proteome, we engineered infectious L protein-tagged LCMV virions by reverse genetics. A subsequent mass-spectrometric analysis of L protein pulldowns from infected human cells revealed a comprehensive network of interacting host proteins. The obtained LCMV L protein interactome was bioinformatically integrated with known host protein interactors of RdRps from other RNA viruses, emphasizing interconnected modules of human proteins. Functional characterization of selected interactors highlighted proviral (DDX3X) as well as antiviral (NKRF, TRIM21) host factors. To corroborate these findings, we infected Trim21-/-mice with LCMV and found impaired virus control in chronic infection. These results provide insights into the complex interactions of the arenavirus LCMV and other viral RdRps with the host proteome and contribute to a better molecular understanding of how chronic viruses interact with their host."}],"publist_id":"7276","month":"12","file_date_updated":"2020-07-14T12:46:44Z","oa_version":"Published Version","volume":13,"article_number":"e1006758","date_updated":"2025-09-18T09:43:05Z","title":"Characterization of host proteins interacting with the lymphocytic choriomeningitis virus L protein","author":[{"first_name":"Kseniya","last_name":"Khamina","full_name":"Khamina, Kseniya"},{"first_name":"Alexander","last_name":"Lercher","full_name":"Lercher, Alexander"},{"first_name":"Michael","last_name":"Caldera","full_name":"Caldera, Michael"},{"last_name":"Schliehe","full_name":"Schliehe, Christopher","first_name":"Christopher"},{"last_name":"Vilagos","full_name":"Vilagos, Bojan","first_name":"Bojan"},{"first_name":"Mehmet","last_name":"Sahin","full_name":"Sahin, Mehmet"},{"first_name":"Lindsay","full_name":"Kosack, Lindsay","last_name":"Kosack"},{"first_name":"Anannya","last_name":"Bhattacharya","full_name":"Bhattacharya, Anannya"},{"first_name":"Peter","last_name":"Májek","full_name":"Májek, Peter"},{"last_name":"Stukalov","full_name":"Stukalov, Alexey","first_name":"Alexey"},{"full_name":"Sacco, Roberto","last_name":"Sacco","id":"42C9F57E-F248-11E8-B48F-1D18A9856A87","first_name":"Roberto"},{"last_name":"James","full_name":"James, Leo","first_name":"Leo"},{"first_name":"Daniel","last_name":"Pinschewer","full_name":"Pinschewer, Daniel"},{"full_name":"Bennett, Keiryn","last_name":"Bennett","first_name":"Keiryn"},{"first_name":"Jörg","last_name":"Menche","full_name":"Menche, Jörg"},{"first_name":"Andreas","full_name":"Bergthaler, Andreas","last_name":"Bergthaler"}],"day":"01","ddc":["576","616"],"doi":"10.1371/journal.ppat.1006758","scopus_import":"1","has_accepted_license":"1","department":[{"_id":"GaNo"}],"language":[{"iso":"eng"}],"file":[{"file_size":4106772,"file_id":"4944","file_name":"IST-2018-931-v1+1_journal.ppat.1006758.pdf","date_updated":"2020-07-14T12:46:44Z","date_created":"2018-12-12T10:12:26Z","relation":"main_file","checksum":"1aa20f19a1e90664fadce6e7d5284fdc","creator":"system","content_type":"application/pdf","access_level":"open_access"}],"status":"public","external_id":{"isi":["000419019800019"]},"article_processing_charge":"No","oa":1,"issue":"12","publisher":"Public Library of Science","_id":"540","date_published":"2017-12-01T00:00:00Z"},{"type":"journal_article","publication":"PLoS Genetics","abstract":[{"text":"While we have good understanding of bacterial metabolism at the population level, we know little about the metabolic behavior of individual cells: do single cells in clonal populations sometimes specialize on different metabolic pathways? Such metabolic specialization could be driven by stochastic gene expression and could provide individual cells with growth benefits of specialization. We measured the degree of phenotypic specialization in two parallel metabolic pathways, the assimilation of glucose and arabinose. We grew Escherichia coli in chemostats, and used isotope-labeled sugars in combination with nanometer-scale secondary ion mass spectrometry and mathematical modeling to quantify sugar assimilation at the single-cell level. We found large variation in metabolic activities between single cells, both in absolute assimilation and in the degree to which individual cells specialize in the assimilation of different sugars. Analysis of transcriptional reporters indicated that this variation was at least partially based on cell-to-cell variation in gene expression. Metabolic differences between cells in clonal populations could potentially reduce metabolic incompatibilities between different pathways, and increase the rate at which parallel reactions can be performed.","lang":"eng"}],"publist_id":"7275","date_created":"2018-12-11T11:47:04Z","quality_controlled":"1","year":"2017","citation":{"ista":"Nikolic N, Schreiber F, Dal Co A, Kiviet D, Bergmiller T, Littmann S, Kuypers M, Ackermann M. 2017. Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations. PLoS Genetics. 13(12), e1007122.","apa":"Nikolic, N., Schreiber, F., Dal Co, A., Kiviet, D., Bergmiller, T., Littmann, S., … Ackermann, M. (2017). Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1007122\">https://doi.org/10.1371/journal.pgen.1007122</a>","mla":"Nikolic, Nela, et al. “Cell-to-Cell Variation and Specialization in Sugar Metabolism in Clonal Bacterial Populations.” <i>PLoS Genetics</i>, vol. 13, no. 12, e1007122, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1007122\">10.1371/journal.pgen.1007122</a>.","short":"N. Nikolic, F. Schreiber, A. Dal Co, D. Kiviet, T. Bergmiller, S. Littmann, M. Kuypers, M. Ackermann, PLoS Genetics 13 (2017).","ama":"Nikolic N, Schreiber F, Dal Co A, et al. Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations. <i>PLoS Genetics</i>. 2017;13(12). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1007122\">10.1371/journal.pgen.1007122</a>","chicago":"Nikolic, Nela, Frank Schreiber, Alma Dal Co, Daniel Kiviet, Tobias Bergmiller, Sten Littmann, Marcel Kuypers, and Martin Ackermann. “Cell-to-Cell Variation and Specialization in Sugar Metabolism in Clonal Bacterial Populations.” <i>PLoS Genetics</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.pgen.1007122\">https://doi.org/10.1371/journal.pgen.1007122</a>.","ieee":"N. Nikolic <i>et al.</i>, “Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations,” <i>PLoS Genetics</i>, vol. 13, no. 12. Public Library of Science, 2017."},"month":"12","publication_identifier":{"issn":["1553-7390"]},"publication_status":"published","intvolume":"        13","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"pubrep_id":"959","external_id":{"isi":["000419103000015"]},"file":[{"file_id":"5088","file_name":"IST-2018-959-v1+1_2017_Nikolic_Cell-to-cell.pdf","relation":"main_file","date_updated":"2020-07-14T12:46:46Z","date_created":"2018-12-12T10:14:35Z","file_size":1308475,"creator":"system","content_type":"application/pdf","access_level":"open_access","checksum":"22426d9382f21554bad5fa5967afcfd0"}],"status":"public","publisher":"Public Library of Science","oa":1,"issue":"12","article_processing_charge":"No","corr_author":"1","date_published":"2017-12-18T00:00:00Z","_id":"541","article_number":"e1007122","oa_version":"Published Version","volume":13,"file_date_updated":"2020-07-14T12:46:46Z","title":"Cell-to-cell variation and specialization in sugar metabolism in clonal bacterial populations","date_updated":"2025-09-18T09:42:09Z","project":[{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"}],"ec_funded":1,"has_accepted_license":"1","doi":"10.1371/journal.pgen.1007122","scopus_import":"1","ddc":["576","579"],"day":"18","author":[{"orcid":"0000-0001-9068-6090","first_name":"Nela","id":"42D9CABC-F248-11E8-B48F-1D18A9856A87","full_name":"Nikolic, Nela","last_name":"Nikolic"},{"full_name":"Schreiber, Frank","last_name":"Schreiber","first_name":"Frank"},{"first_name":"Alma","last_name":"Dal Co","full_name":"Dal Co, Alma"},{"first_name":"Daniel","full_name":"Kiviet, Daniel","last_name":"Kiviet"},{"orcid":"0000-0001-5396-4346","first_name":"Tobias","id":"2C471CFA-F248-11E8-B48F-1D18A9856A87","full_name":"Bergmiller, Tobias","last_name":"Bergmiller"},{"full_name":"Littmann, Sten","last_name":"Littmann","first_name":"Sten"},{"last_name":"Kuypers","full_name":"Kuypers, Marcel","first_name":"Marcel"},{"full_name":"Ackermann, Martin","last_name":"Ackermann","first_name":"Martin"}],"language":[{"iso":"eng"}],"department":[{"_id":"CaGu"}],"related_material":{"record":[{"relation":"research_data","id":"9844","status":"public"},{"status":"public","id":"9845","relation":"research_data"},{"status":"public","id":"9846","relation":"research_data"}]}},{"status":"public","file":[{"checksum":"e1f05e5850dfd9f9434d2d373ca61941","creator":"system","content_type":"application/pdf","access_level":"open_access","file_size":7443683,"file_id":"4969","file_name":"IST-2018-929-v1+1_56106.pdf","date_created":"2018-12-12T10:12:49Z","date_updated":"2020-07-14T12:46:58Z","relation":"main_file"}],"oa":1,"series_title":"Plant Engineering","article_processing_charge":"No","publisher":"IntechOpen","_id":"545","date_published":"2017-11-17T00:00:00Z","file_date_updated":"2020-07-14T12:46:58Z","oa_version":"Published Version","project":[{"name":"Polarity and subcellular dynamics in plants","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"ec_funded":1,"date_updated":"2025-09-22T08:43:49Z","title":"Vascular tissue development and regeneration in the model plant arabidopsis","day":"17","ddc":["581"],"author":[{"last_name":"Mazur","full_name":"Mazur, Ewa","first_name":"Ewa"},{"orcid":"0000-0002-8302-7596","first_name":"Jirí","last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"has_accepted_license":"1","doi":"10.5772/intechopen.69712","department":[{"_id":"JiFr"}],"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"1274"}]},"language":[{"iso":"eng"}],"type":"book_chapter","publication":"Plant Engineering","page":"113 - 140","citation":{"ieee":"E. Mazur and J. Friml, “Vascular tissue development and regeneration in the model plant arabidopsis,” in <i>Plant Engineering</i>, S. Jurić, Ed. IntechOpen, 2017, pp. 113–140.","chicago":"Mazur, Ewa, and Jiří Friml. “Vascular Tissue Development and Regeneration in the Model Plant Arabidopsis.” In <i>Plant Engineering</i>, edited by Snježana Jurić, 113–40. Plant Engineering. IntechOpen, 2017. <a href=\"https://doi.org/10.5772/intechopen.69712\">https://doi.org/10.5772/intechopen.69712</a>.","ama":"Mazur E, Friml J. Vascular tissue development and regeneration in the model plant arabidopsis. In: Jurić S, ed. <i>Plant Engineering</i>. Plant Engineering. IntechOpen; 2017:113-140. doi:<a href=\"https://doi.org/10.5772/intechopen.69712\">10.5772/intechopen.69712</a>","mla":"Mazur, Ewa, and Jiří Friml. “Vascular Tissue Development and Regeneration in the Model Plant Arabidopsis.” <i>Plant Engineering</i>, edited by Snježana Jurić, IntechOpen, 2017, pp. 113–40, doi:<a href=\"https://doi.org/10.5772/intechopen.69712\">10.5772/intechopen.69712</a>.","apa":"Mazur, E., &#38; Friml, J. (2017). Vascular tissue development and regeneration in the model plant arabidopsis. In S. Jurić (Ed.), <i>Plant Engineering</i> (pp. 113–140). IntechOpen. <a href=\"https://doi.org/10.5772/intechopen.69712\">https://doi.org/10.5772/intechopen.69712</a>","short":"E. Mazur, J. Friml, in:, S. Jurić (Ed.), Plant Engineering, IntechOpen, 2017, pp. 113–140.","ista":"Mazur E, Friml J. 2017.Vascular tissue development and regeneration in the model plant arabidopsis. In: Plant Engineering. Agricultural and Biological Sciences, , 113–140."},"year":"2017","quality_controlled":"1","abstract":[{"lang":"eng","text":"Development of vascular tissue is a remarkable example of intercellular communication and coordinated development involving hormonal signaling and tissue polarity. Thus far, studies on vascular patterning and regeneration have been conducted mainly in trees—woody plants—with a well-developed layer of vascular cambium and secondary tissues. Trees are difficult to use as genetic models, i.e., due to long generation time, unstable environmental conditions, and lack of available mutants and transgenic lines. Therefore, the use of the main genetic model plant Arabidopsis thaliana (L.) Heynh., with a wealth of available marker and transgenic lines, provides a unique opportunity to address molecular mechanism of vascular tissue formation and regeneration. With specific treatments, the tiny weed Arabidopsis can serve as a model to understand the growth of mighty trees and interconnect a tree physiology with molecular genetics and cell biology of Arabidopsis."}],"publist_id":"7269","date_created":"2018-12-11T11:47:05Z","month":"11","publication_status":"published","alternative_title":["Agricultural and Biological Sciences"],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"editor":[{"full_name":"Jurić, Snježana","last_name":"Jurić","first_name":"Snježana"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pubrep_id":"929"},{"title":"Implementing the institutional data repository IST DataRep","date_updated":"2025-07-10T11:52:50Z","oa_version":"Published Version","publication_status":"published","file_date_updated":"2020-07-14T12:46:59Z","language":[{"iso":"eng"}],"pubrep_id":"724","department":[{"_id":"E-Lib"}],"has_accepted_license":"1","OA_type":"gold","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["020"],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"26","author":[{"first_name":"Barbara","orcid":"0000-0003-2724-4614","id":"406048EC-F248-11E8-B48F-1D18A9856A87","full_name":"Petritsch, Barbara","last_name":"Petritsch"}],"abstract":[{"lang":"eng","text":"In this report the implementation of the institutional data repository IST DataRep at IST Austria will be covered: Starting with the research phase when requirements for a repository were established, the procedure of choosing a repository-software and its customization based on the results of user-testings will be discussed. Followed by reflections on the marketing strategies in regard of impact, and at the end sharing some experiences of one year operating IST DataRep."}],"publisher":"Institute of Science and Technology Austria","date_created":"2018-12-12T11:39:24Z","year":"2017","citation":{"ista":"Petritsch B. 2017. Implementing the institutional data repository IST DataRep, Institute of Science and Technology Austria,p.","short":"B. Petritsch, Implementing the Institutional Data Repository IST DataRep, Institute of Science and Technology Austria, 2017.","mla":"Petritsch, Barbara. <i>Implementing the Institutional Data Repository IST DataRep</i>. Institute of Science and Technology Austria, 2017.","apa":"Petritsch, B. (2017). <i>Implementing the institutional data repository IST DataRep</i>. Institute of Science and Technology Austria.","ama":"Petritsch B. <i>Implementing the Institutional Data Repository IST DataRep</i>. Institute of Science and Technology Austria; 2017.","chicago":"Petritsch, Barbara. <i>Implementing the Institutional Data Repository IST DataRep</i>. Institute of Science and Technology Austria, 2017.","ieee":"B. Petritsch, <i>Implementing the institutional data repository IST DataRep</i>. Institute of Science and Technology Austria, 2017."},"oa":1,"article_processing_charge":"No","file":[{"file_size":3460985,"file_id":"5483","file_name":"IST-2017-724-v1+1_DataRep_Project_Report_2017.pdf","date_updated":"2020-07-14T12:46:59Z","date_created":"2018-12-12T11:53:22Z","relation":"main_file","checksum":"6321792dcfa82bf490f17615a9b22355","creator":"system","access_level":"open_access","content_type":"application/pdf"}],"type":"report","status":"public","date_published":"2017-06-26T00:00:00Z","OA_place":"publisher","_id":"5450","month":"06","corr_author":"1"},{"month":"10","year":"2017","citation":{"ama":"Chatterjee K, Choudhary B, Pavlogiannis A. <i>Optimal Dyck Reachability for Data-Dependence and Alias Analysis</i>. IST Austria; 2017. doi:<a href=\"https://doi.org/10.15479/AT:IST-2017-870-v1-1\">10.15479/AT:IST-2017-870-v1-1</a>","short":"K. Chatterjee, B. Choudhary, A. Pavlogiannis, Optimal Dyck Reachability for Data-Dependence and Alias Analysis, IST Austria, 2017.","mla":"Chatterjee, Krishnendu, et al. <i>Optimal Dyck Reachability for Data-Dependence and Alias Analysis</i>. IST Austria, 2017, doi:<a href=\"https://doi.org/10.15479/AT:IST-2017-870-v1-1\">10.15479/AT:IST-2017-870-v1-1</a>.","apa":"Chatterjee, K., Choudhary, B., &#38; Pavlogiannis, A. (2017). <i>Optimal Dyck reachability for data-dependence and alias analysis</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2017-870-v1-1\">https://doi.org/10.15479/AT:IST-2017-870-v1-1</a>","ista":"Chatterjee K, Choudhary B, Pavlogiannis A. 2017. Optimal Dyck reachability for data-dependence and alias analysis, IST Austria, 37p.","ieee":"K. Chatterjee, B. Choudhary, and A. Pavlogiannis, <i>Optimal Dyck reachability for data-dependence and alias analysis</i>. IST Austria, 2017.","chicago":"Chatterjee, Krishnendu, Bhavya Choudhary, and Andreas Pavlogiannis. <i>Optimal Dyck Reachability for Data-Dependence and Alias Analysis</i>. IST Austria, 2017. <a href=\"https://doi.org/10.15479/AT:IST-2017-870-v1-1\">https://doi.org/10.15479/AT:IST-2017-870-v1-1</a>."},"abstract":[{"lang":"eng","text":"A fundamental algorithmic problem at the heart of static analysis is Dyck reachability. The input is a graphwhere the edges are labeled with different types of opening and closing parentheses, and the reachabilityinformation is computed via paths whose parentheses are properly matched. We present new results for Dyckreachability problems with applications to alias analysis and data-dependence analysis. Our main contributions,that include improved upper bounds as well as lower bounds that establish optimality guarantees, are asfollows:First, we consider Dyck reachability on bidirected graphs, which is the standard way of performing field-sensitive points-to analysis. Given a bidirected graph withnnodes andmedges, we present: (i) an algorithmwith worst-case running timeO(m+n·α(n)), whereα(n)is the inverse Ackermann function, improving thepreviously knownO(n2)time bound; (ii) a matching lower bound that shows that our algorithm is optimalwrt to worst-case complexity; and (iii) an optimal average-case upper bound ofO(m)time, improving thepreviously knownO(m·logn)bound.Second, we consider the problem of context-sensitive data-dependence analysis, where the task is to obtainanalysis summaries of library code in the presence of callbacks. Our algorithm preprocesses libraries in almostlinear time, after which the contribution of the library in the complexity of the client analysis is only linear,and only wrt the number of call sites.Third, we prove that combinatorial algorithms for Dyck reachability on general graphs with truly sub-cubic bounds cannot be obtained without obtaining sub-cubic combinatorial algorithms for Boolean MatrixMultiplication, which is a long-standing open problem. Thus we establish that the existing combinatorialalgorithms for Dyck reachability are (conditionally) optimal for general graphs. We also show that the samehardness holds for graphs of constant treewidth.Finally, we provide a prototype implementation of our algorithms for both alias analysis and data-dependenceanalysis. Our experimental evaluation demonstrates that the new algorithms significantly outperform allexisting methods on the two problems, over real-world benchmarks."}],"date_created":"2018-12-12T11:39:26Z","type":"technical_report","page":"37","pubrep_id":"870","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","alternative_title":["IST Austria Technical Report"],"publication_status":"published","publication_identifier":{"issn":["2664-1690"]},"_id":"5455","date_published":"2017-10-23T00:00:00Z","oa":1,"article_processing_charge":"No","publisher":"IST Austria","status":"public","file":[{"file_name":"IST-2017-870-v1+1_main.pdf","date_updated":"2020-07-14T12:46:59Z","date_created":"2018-12-12T11:54:02Z","relation":"main_file","file_id":"5524","file_size":960491,"creator":"system","access_level":"open_access","content_type":"application/pdf","checksum":"177a84a46e3ac17e87b31534ad16a4c9"}],"department":[{"_id":"KrCh"}],"related_material":{"record":[{"status":"public","id":"10416","relation":"later_version"}]},"language":[{"iso":"eng"}],"ddc":["000"],"day":"23","author":[{"first_name":"Krishnendu","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Choudhary","full_name":"Choudhary, Bhavya","first_name":"Bhavya"},{"orcid":"0000-0002-8943-0722","first_name":"Andreas","full_name":"Pavlogiannis, Andreas","last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87"}],"has_accepted_license":"1","doi":"10.15479/AT:IST-2017-870-v1-1","title":"Optimal Dyck reachability for data-dependence and alias analysis","date_updated":"2025-04-15T08:12:18Z","file_date_updated":"2020-07-14T12:46:59Z","oa_version":"Published Version"}]