[{"scopus_import":"1","article_processing_charge":"No","month":"05","day":"10","page":"991 - 999","quality_controlled":"1","main_file_link":[{"url":"https://dl.acm.org/citation.cfm?id=3045003","open_access":"1"}],"citation":{"ieee":"A. Pentina and C. Lampert, “A PAC-Bayesian bound for Lifelong Learning,” presented at the ICML: International Conference on Machine Learning, Beijing, China, 2014, vol. 32, pp. 991–999.","apa":"Pentina, A., & Lampert, C. (2014). A PAC-Bayesian bound for Lifelong Learning (Vol. 32, pp. 991–999). Presented at the ICML: International Conference on Machine Learning, Beijing, China: ML Research Press.","ista":"Pentina A, Lampert C. 2014. A PAC-Bayesian bound for Lifelong Learning. ICML: International Conference on Machine Learning vol. 32, 991–999.","ama":"Pentina A, Lampert C. A PAC-Bayesian bound for Lifelong Learning. In: Vol 32. ML Research Press; 2014:991-999.","chicago":"Pentina, Anastasia, and Christoph Lampert. “A PAC-Bayesian Bound for Lifelong Learning,” 32:991–99. ML Research Press, 2014.","short":"A. Pentina, C. Lampert, in:, ML Research Press, 2014, pp. 991–999.","mla":"Pentina, Anastasia, and Christoph Lampert. A PAC-Bayesian Bound for Lifelong Learning. Vol. 32, ML Research Press, 2014, pp. 991–99."},"oa":1,"language":[{"iso":"eng"}],"date_published":"2014-05-10T00:00:00Z","conference":{"name":"ICML: International Conference on Machine Learning","end_date":"2014-06-26","start_date":"2014-06-21","location":"Beijing, China"},"type":"conference","publist_id":"4844","abstract":[{"text":"Transfer learning has received a lot of attention in the machine learning community over the last years, and several effective algorithms have been developed. However, relatively little is known about their theoretical properties, especially in the setting of lifelong learning, where the goal is to transfer information to tasks for which no data have been observed so far. In this work we study lifelong learning from a theoretical perspective. Our main result is a PAC-Bayesian generalization bound that offers a unified view on existing paradigms for transfer learning, such as the transfer of parameters or the transfer of low-dimensional representations. We also use the bound to derive two principled lifelong learning algorithms, and we show that these yield results comparable with existing methods.","lang":"eng"}],"intvolume":" 32","publisher":"ML Research Press","department":[{"_id":"ChLa"}],"title":"A PAC-Bayesian bound for Lifelong Learning","publication_status":"published","status":"public","_id":"2160","year":"2014","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","volume":32,"date_updated":"2023-10-17T11:54:24Z","date_created":"2018-12-11T11:56:03Z","author":[{"full_name":"Pentina, Anastasia","id":"42E87FC6-F248-11E8-B48F-1D18A9856A87","first_name":"Anastasia","last_name":"Pentina"},{"id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","first_name":"Christoph","last_name":"Lampert","full_name":"Lampert, Christoph"}]},{"oa_version":"None","date_updated":"2023-10-17T12:16:58Z","date_created":"2018-12-11T11:51:49Z","related_material":{"record":[{"id":"2282","status":"public","relation":"part_of_dissertation"},{"id":"2950","status":"public","relation":"part_of_dissertation"},{"id":"3373","status":"public","relation":"part_of_dissertation"}]},"author":[{"id":"3ECECA3A-F248-11E8-B48F-1D18A9856A87","last_name":"Behrndt","first_name":"Martin","full_name":"Behrndt, Martin"}],"department":[{"_id":"CaHe"}],"publisher":"IST Austria","title":"Forces driving epithelial spreading in zebrafish epiboly","status":"public","publication_status":"published","year":"2014","_id":"1403","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"5804","abstract":[{"lang":"eng","text":"A variety of developmental and disease related processes depend on epithelial cell sheet spreading. In order to gain insight into the biophysical mechanism(s) underlying the tissue morphogenesis we studied the spreading of an epithelium during the early development of the zebrafish embryo. In zebrafish epiboly the enveloping cell layer (EVL), a simple squamous epithelium, spreads over the yolk cell to completely engulf it at the end of gastrulation. Previous studies have proposed that an actomyosin ring forming within the yolk syncytial layer (YSL) acts as purse string that through constriction along its circumference pulls on the margin of the EVL. Direct biophysical evidence for this hypothesis has however been missing. The aim of the thesis was to understand how the actomyosin ring may generate pulling forces onto the EVL and what cellular mechanism(s) may facilitate the spreading of the epithelium. Using laser ablation to measure cortical tension within the actomyosin ring we found an anisotropic tension distribution, which was highest along the circumference of the ring. However the low degree of anisotropy was incompatible with the actomyosin ring functioning as a purse string only. Additionally, we observed retrograde cortical flow from vegetal parts of the ring into the EVL margin. Interpreting the experimental data using a theoretical distribution that models the tissues as active viscous gels led us to proposen that the actomyosin ring has a twofold contribution to EVL epiboly. It not only acts as a purse string through constriction along its circumference, but in addition constriction along the width of the ring generates pulling forces through friction-resisted cortical flow. Moreover, when rendering the purse string mechanism unproductive EVL epiboly proceeded normally indicating that the flow-friction mechanism is sufficient to drive the process. Aiming to understand what cellular mechanism(s) may facilitate the spreading of the epithelium we found that tension-oriented EVL cell divisions limit tissue anisotropy by releasing tension along the division axis and promote epithelial spreading. Notably, EVL cells undergo ectopic cell fusion in conditions in which oriented-cell division is impaired or the epithelium is mechanically challenged. Taken together our study of EVL epiboly suggests a novel mechanism of force generation for actomyosin rings through friction-resisted cortical flow and highlights the importance of tension-oriented cell divisions in epithelial morphogenesis."}],"alternative_title":["IST Austria Thesis"],"type":"dissertation","language":[{"iso":"eng"}],"supervisor":[{"full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"acknowledged_ssus":[{"_id":"SSU"}],"date_published":"2014-08-01T00:00:00Z","page":"91","citation":{"short":"M. Behrndt, Forces Driving Epithelial Spreading in Zebrafish Epiboly, IST Austria, 2014.","mla":"Behrndt, Martin. Forces Driving Epithelial Spreading in Zebrafish Epiboly. IST Austria, 2014.","chicago":"Behrndt, Martin. “Forces Driving Epithelial Spreading in Zebrafish Epiboly.” IST Austria, 2014.","ama":"Behrndt M. Forces driving epithelial spreading in zebrafish epiboly. 2014.","apa":"Behrndt, M. (2014). Forces driving epithelial spreading in zebrafish epiboly. IST Austria.","ieee":"M. Behrndt, “Forces driving epithelial spreading in zebrafish epiboly,” IST Austria, 2014.","ista":"Behrndt M. 2014. Forces driving epithelial spreading in zebrafish epiboly. IST Austria."},"day":"01","month":"08"},{"alternative_title":["Rundgespräche der Kommission für Ökologie"],"type":"book_chapter","publist_id":"5207","abstract":[{"lang":"ger","text":"Im Rahmen meiner Arbeit mit der kollektiven Krankheitsabwehr in Ameisengesellschaften interessiert mich vor allem, wie sich die Kolonien als Ganzes gegen Krankheiten wehren können. Warum ist dieses Thema der Krankheitsdynamik in Gruppen so wichtig? Ein Vergleich von solitär lebenden Individuen mit Individuen, die in sozialen Gruppen zusammenleben, zeigt die Kosten und die Vorteile des Gruppenlebens: Einerseits haben Individuen in sozialen Gruppen aufgrund der hohen Dichte, in der die Tiere zusammenleben, den hohen Interaktionsraten, die sie miteinander haben, und der engen Verwandtschaft, die sie verbindet, ein höheres Ansteckungsrisiko. Andererseits kann die individuelle Krankheitsabwehr durch die kollektive Abwehr in den Gruppen ergänzt werden."}],"intvolume":" 43","department":[{"_id":"SyCr"}],"publisher":"Verlag Dr. Friedrich Pfeil","title":"Soziale Immunität: Wie sich der Staat gegen Pathogene wehrt Bayerische Akademie der Wissenschaften","status":"public","publication_status":"published","_id":"1888","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2014","oa_version":"None","volume":43,"date_created":"2018-12-11T11:54:33Z","date_updated":"2023-10-17T12:28:45Z","author":[{"full_name":"Cremer, Sylvia","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","last_name":"Cremer","first_name":"Sylvia"}],"publication_identifier":{"issn":["2366-2875"]},"article_processing_charge":"No","day":"01","month":"01","page":"65 - 72","quality_controlled":"1","citation":{"ama":"Cremer S. Soziale Immunität: Wie sich der Staat gegen Pathogene wehrt Bayerische Akademie der Wissenschaften. In: Soziale Insekten in Einer Sich Wandelnden Welt. Vol 43. Verlag Dr. Friedrich Pfeil; 2014:65-72.","ista":"Cremer S. 2014.Soziale Immunität: Wie sich der Staat gegen Pathogene wehrt Bayerische Akademie der Wissenschaften. In: Soziale Insekten in einer sich wandelnden Welt. Rundgespräche der Kommission für Ökologie, vol. 43, 65–72.","apa":"Cremer, S. (2014). Soziale Immunität: Wie sich der Staat gegen Pathogene wehrt Bayerische Akademie der Wissenschaften. In Soziale Insekten in einer sich wandelnden Welt (Vol. 43, pp. 65–72). Verlag Dr. Friedrich Pfeil.","ieee":"S. Cremer, “Soziale Immunität: Wie sich der Staat gegen Pathogene wehrt Bayerische Akademie der Wissenschaften,” in Soziale Insekten in einer sich wandelnden Welt, vol. 43, Verlag Dr. Friedrich Pfeil, 2014, pp. 65–72.","mla":"Cremer, Sylvia. “Soziale Immunität: Wie Sich Der Staat Gegen Pathogene Wehrt Bayerische Akademie Der Wissenschaften.” Soziale Insekten in Einer Sich Wandelnden Welt, vol. 43, Verlag Dr. Friedrich Pfeil, 2014, pp. 65–72.","short":"S. Cremer, in:, Soziale Insekten in Einer Sich Wandelnden Welt, Verlag Dr. Friedrich Pfeil, 2014, pp. 65–72.","chicago":"Cremer, Sylvia. “Soziale Immunität: Wie Sich Der Staat Gegen Pathogene Wehrt Bayerische Akademie Der Wissenschaften.” In Soziale Insekten in Einer Sich Wandelnden Welt, 43:65–72. Verlag Dr. Friedrich Pfeil, 2014."},"publication":"Soziale Insekten in einer sich wandelnden Welt","language":[{"iso":"eng"}],"date_published":"2014-01-01T00:00:00Z"},{"abstract":[{"lang":"eng","text":"The classical sphere packing problem asks for the best (infinite) arrangement of non-overlapping unit balls which cover as much space as possible. We define a generalized version of the problem, where we allow each ball a limited amount of overlap with other balls. We study two natural choices of overlap measures and obtain the optimal lattice packings in a parameterized family of lattices which contains the FCC, BCC, and integer lattice."}],"publist_id":"5064","article_number":"1401.0468","type":"preprint","author":[{"id":"41B58C0C-F248-11E8-B48F-1D18A9856A87","last_name":"Iglesias Ham","first_name":"Mabel","full_name":"Iglesias Ham, Mabel"},{"full_name":"Kerber, Michael","first_name":"Michael","last_name":"Kerber","orcid":"0000-0002-8030-9299"},{"full_name":"Uhler, Caroline","orcid":"0000-0002-7008-0216","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","last_name":"Uhler","first_name":"Caroline"}],"date_created":"2018-12-11T11:55:12Z","date_updated":"2023-10-18T08:06:45Z","oa_version":"Submitted Version","acknowledgement":"We thank Herbert Edelsbrunner for his valuable discussions and ideas on the topic of this paper. The second author has been supported by the Max Planck Center for Visual Computing and Communication","_id":"2012","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2014","publication_status":"submitted","status":"public","title":"Sphere packing with limited overlap","department":[{"_id":"HeEd"},{"_id":"CaUh"}],"month":"01","day":"01","article_processing_charge":"No","date_published":"2014-01-01T00:00:00Z","doi":"10.48550/arXiv.1401.0468","language":[{"iso":"eng"}],"publication":"arXiv","citation":{"ieee":"M. Iglesias Ham, M. Kerber, and C. Uhler, “Sphere packing with limited overlap,” arXiv. .","apa":"Iglesias Ham, M., Kerber, M., & Uhler, C. (n.d.). Sphere packing with limited overlap. arXiv. https://doi.org/10.48550/arXiv.1401.0468","ista":"Iglesias Ham M, Kerber M, Uhler C. Sphere packing with limited overlap. arXiv, 1401.0468.","ama":"Iglesias Ham M, Kerber M, Uhler C. Sphere packing with limited overlap. arXiv. doi:10.48550/arXiv.1401.0468","chicago":"Iglesias Ham, Mabel, Michael Kerber, and Caroline Uhler. “Sphere Packing with Limited Overlap.” ArXiv, n.d. https://doi.org/10.48550/arXiv.1401.0468.","short":"M. Iglesias Ham, M. Kerber, C. Uhler, ArXiv (n.d.).","mla":"Iglesias Ham, Mabel, et al. “Sphere Packing with Limited Overlap.” ArXiv, 1401.0468, doi:10.48550/arXiv.1401.0468."},"oa":1,"main_file_link":[{"url":"http://cccg.ca/proceedings/2014/papers/paper23.pdf","open_access":"1"}],"external_id":{"arxiv":["1401.0468"]}},{"article_processing_charge":"No","day":"17","scopus_import":"1","date_published":"2014-11-17T00:00:00Z","page":"12949-12954","article_type":"original","citation":{"chicago":"Stahl, Evi, Thomas Martin, Florian M Praetorius, and Hendrik Dietz. “Facile and Scalable Preparation of Pure and Dense DNA Origami Solutions.” Angewandte Chemie International Edition. Wiley, 2014. https://doi.org/10.1002/ange.201405991.","short":"E. Stahl, T. Martin, F.M. Praetorius, H. Dietz, Angewandte Chemie International Edition 126 (2014) 12949–12954.","mla":"Stahl, Evi, et al. “Facile and Scalable Preparation of Pure and Dense DNA Origami Solutions.” Angewandte Chemie International Edition, vol. 126, no. 47, Wiley, 2014, pp. 12949–54, doi:10.1002/ange.201405991.","apa":"Stahl, E., Martin, T., Praetorius, F. M., & Dietz, H. (2014). Facile and scalable preparation of pure and dense DNA origami solutions. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/ange.201405991","ieee":"E. Stahl, T. Martin, F. M. Praetorius, and H. Dietz, “Facile and scalable preparation of pure and dense DNA origami solutions,” Angewandte Chemie International Edition, vol. 126, no. 47. Wiley, pp. 12949–12954, 2014.","ista":"Stahl E, Martin T, Praetorius FM, Dietz H. 2014. Facile and scalable preparation of pure and dense DNA origami solutions. Angewandte Chemie International Edition. 126(47), 12949–12954.","ama":"Stahl E, Martin T, Praetorius FM, Dietz H. Facile and scalable preparation of pure and dense DNA origami solutions. Angewandte Chemie International Edition. 2014;126(47):12949-12954. doi:10.1002/ange.201405991"},"publication":"Angewandte Chemie International Edition","issue":"47","abstract":[{"text":"DNA has become a prime material for assembling complex three-dimensional objects that promise utility in various areas of application. However, achieving user-defined goals with DNA objects has been hampered by the difficulty to prepare them at arbitrary concentrations and in user-defined solution conditions. Here, we describe a method that solves this problem. The method is based on poly(ethylene glycol)-induced depletion of species with high molecular weight. We demonstrate that our method is applicable to a wide spectrum of DNA shapes and that it achieves excellent recovery yields of target objects up to 97 %, while providing efficient separation from non-integrated DNA strands. DNA objects may be prepared at concentrations up to the limit of solubility, including the possibility for bringing DNA objects into a solid phase. Due to the fidelity and simplicity of our method we anticipate that it will help to catalyze the development of new types of applications that use self-assembled DNA objects.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","intvolume":" 126","status":"public","title":"Facile and scalable preparation of pure and dense DNA origami solutions","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14301","publication_identifier":{"issn":["1433-7851"],"eissn":["1521-3773"]},"month":"11","language":[{"iso":"eng"}],"doi":"10.1002/ange.201405991","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1002/ange.201405991","open_access":"1"}],"oa":1,"external_id":{"pmid":["25346175"]},"extern":"1","volume":126,"date_updated":"2023-11-07T12:14:30Z","date_created":"2023-09-06T12:51:14Z","author":[{"last_name":"Stahl","first_name":"Evi","full_name":"Stahl, Evi"},{"full_name":"Martin, Thomas","last_name":"Martin","first_name":"Thomas"},{"full_name":"Praetorius, Florian M","last_name":"Praetorius","first_name":"Florian M","id":"dfec9381-4341-11ee-8fd8-faa02bba7d62"},{"full_name":"Dietz, Hendrik","last_name":"Dietz","first_name":"Hendrik"}],"publisher":"Wiley","publication_status":"published","pmid":1,"year":"2014"},{"doi":"10.1016/j.conb.2014.06.006","date_published":"2014-10-01T00:00:00Z","language":[{"iso":"eng"}],"citation":{"apa":"Sweeney, L. B., & Kelley, D. B. (2014). Harnessing vocal patterns for social communication. Current Opinion in Neurobiology. Elsevier. https://doi.org/10.1016/j.conb.2014.06.006","ieee":"L. B. Sweeney and D. B. Kelley, “Harnessing vocal patterns for social communication,” Current Opinion in Neurobiology, vol. 28, no. 10. Elsevier, pp. 34–41, 2014.","ista":"Sweeney LB, Kelley DB. 2014. Harnessing vocal patterns for social communication. Current Opinion in Neurobiology. 28(10), 34–41.","ama":"Sweeney LB, Kelley DB. Harnessing vocal patterns for social communication. Current Opinion in Neurobiology. 2014;28(10):34-41. doi:10.1016/j.conb.2014.06.006","chicago":"Sweeney, Lora B., and Darcy B Kelley. “Harnessing Vocal Patterns for Social Communication.” Current Opinion in Neurobiology. Elsevier, 2014. https://doi.org/10.1016/j.conb.2014.06.006.","short":"L.B. Sweeney, D.B. Kelley, Current Opinion in Neurobiology 28 (2014) 34–41.","mla":"Sweeney, Lora B., and Darcy B. Kelley. “Harnessing Vocal Patterns for Social Communication.” Current Opinion in Neurobiology, vol. 28, no. 10, Elsevier, 2014, pp. 34–41, doi:10.1016/j.conb.2014.06.006."},"publication":"Current Opinion in Neurobiology","page":"34-41","quality_controlled":"1","article_type":"original","publication_identifier":{"issn":["0959-4388"]},"article_processing_charge":"No","month":"10","day":"01","author":[{"id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","orcid":"0000-0001-9242-5601","first_name":"Lora Beatrice Jaeger","last_name":"Sweeney","full_name":"Sweeney, Lora Beatrice Jaeger"},{"last_name":"Kelley","first_name":"Darcy B","full_name":"Kelley, Darcy B"}],"volume":28,"oa_version":"None","date_created":"2020-04-30T10:35:39Z","date_updated":"2024-01-31T10:14:08Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"7699","year":"2014","publisher":"Elsevier","intvolume":" 28","title":"Harnessing vocal patterns for social communication","publication_status":"published","status":"public","issue":"10","extern":"1","type":"journal_article"},{"intvolume":" 104","title":"On the mass concentration for Bose-Einstein condensates with attractive interactions","status":"public","_id":"2281","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Preprint","type":"journal_article","issue":"2","abstract":[{"lang":"eng","text":"We consider two-dimensional Bose-Einstein condensates with attractive interaction, described by the Gross-Pitaevskii functional. Minimizers of this functional exist only if the interaction strength a satisfies {Mathematical expression}, where Q is the unique positive radial solution of {Mathematical expression} in {Mathematical expression}. We present a detailed analysis of the behavior of minimizers as a approaches a*, where all the mass concentrates at a global minimum of the trapping potential."}],"page":"141 - 156","article_type":"original","citation":{"apa":"Guo, Y., & Seiringer, R. (2014). On the mass concentration for Bose-Einstein condensates with attractive interactions. Letters in Mathematical Physics. Springer. https://doi.org/10.1007/s11005-013-0667-9","ieee":"Y. Guo and R. Seiringer, “On the mass concentration for Bose-Einstein condensates with attractive interactions,” Letters in Mathematical Physics, vol. 104, no. 2. Springer, pp. 141–156, 2014.","ista":"Guo Y, Seiringer R. 2014. On the mass concentration for Bose-Einstein condensates with attractive interactions. Letters in Mathematical Physics. 104(2), 141–156.","ama":"Guo Y, Seiringer R. On the mass concentration for Bose-Einstein condensates with attractive interactions. Letters in Mathematical Physics. 2014;104(2):141-156. doi:10.1007/s11005-013-0667-9","chicago":"Guo, Yujin, and Robert Seiringer. “On the Mass Concentration for Bose-Einstein Condensates with Attractive Interactions.” Letters in Mathematical Physics. Springer, 2014. https://doi.org/10.1007/s11005-013-0667-9.","short":"Y. Guo, R. Seiringer, Letters in Mathematical Physics 104 (2014) 141–156.","mla":"Guo, Yujin, and Robert Seiringer. “On the Mass Concentration for Bose-Einstein Condensates with Attractive Interactions.” Letters in Mathematical Physics, vol. 104, no. 2, Springer, 2014, pp. 141–56, doi:10.1007/s11005-013-0667-9."},"publication":"Letters in Mathematical Physics","date_published":"2014-02-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","publisher":"Springer","department":[{"_id":"RoSe"}],"publication_status":"published","year":"2014","volume":104,"date_updated":"2024-02-14T12:19:42Z","date_created":"2018-12-11T11:56:44Z","author":[{"first_name":"Yujin","last_name":"Guo","full_name":"Guo, Yujin"},{"full_name":"Seiringer, Robert","first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521"}],"publist_id":"4653","quality_controlled":"1","external_id":{"arxiv":["1301.5682"]},"main_file_link":[{"url":"http://arxiv.org/abs/1301.5682","open_access":"1"}],"oa":1,"language":[{"iso":"eng"}],"doi":"10.1007/s11005-013-0667-9","month":"02"},{"scopus_import":1,"day":"02","has_accepted_license":"1","publication":"PLoS Computational Biology","citation":{"ieee":"G. Tkačik, O. Marre, D. Amodei, E. Schneidman, W. Bialek, and M. Berry, “Searching for collective behavior in a large network of sensory neurons,” PLoS Computational Biology, vol. 10, no. 1. Public Library of Science, 2014.","apa":"Tkačik, G., Marre, O., Amodei, D., Schneidman, E., Bialek, W., & Berry, M. (2014). Searching for collective behavior in a large network of sensory neurons. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1003408","ista":"Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry M. 2014. Searching for collective behavior in a large network of sensory neurons. PLoS Computational Biology. 10(1), e1003408.","ama":"Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry M. Searching for collective behavior in a large network of sensory neurons. PLoS Computational Biology. 2014;10(1). doi:10.1371/journal.pcbi.1003408","chicago":"Tkačik, Gašper, Olivier Marre, Dario Amodei, Elad Schneidman, William Bialek, and Michael Berry. “Searching for Collective Behavior in a Large Network of Sensory Neurons.” PLoS Computational Biology. Public Library of Science, 2014. https://doi.org/10.1371/journal.pcbi.1003408.","short":"G. Tkačik, O. Marre, D. Amodei, E. Schneidman, W. Bialek, M. Berry, PLoS Computational Biology 10 (2014).","mla":"Tkačik, Gašper, et al. “Searching for Collective Behavior in a Large Network of Sensory Neurons.” PLoS Computational Biology, vol. 10, no. 1, e1003408, Public Library of Science, 2014, doi:10.1371/journal.pcbi.1003408."},"date_published":"2014-01-02T00:00:00Z","type":"journal_article","abstract":[{"text":"Maximum entropy models are the least structured probability distributions that exactly reproduce a chosen set of statistics measured in an interacting network. Here we use this principle to construct probabilistic models which describe the correlated spiking activity of populations of up to 120 neurons in the salamander retina as it responds to natural movies. Already in groups as small as 10 neurons, interactions between spikes can no longer be regarded as small perturbations in an otherwise independent system; for 40 or more neurons pairwise interactions need to be supplemented by a global interaction that controls the distribution of synchrony in the population. Here we show that such “K-pairwise” models—being systematic extensions of the previously used pairwise Ising models—provide an excellent account of the data. We explore the properties of the neural vocabulary by: 1) estimating its entropy, which constrains the population's capacity to represent visual information; 2) classifying activity patterns into a small set of metastable collective modes; 3) showing that the neural codeword ensembles are extremely inhomogenous; 4) demonstrating that the state of individual neurons is highly predictable from the rest of the population, allowing the capacity for error correction.","lang":"eng"}],"issue":"1","title":"Searching for collective behavior in a large network of sensory neurons","ddc":["570"],"status":"public","intvolume":" 10","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"2257","file":[{"file_name":"IST-2016-436-v1+1_journal.pcbi.1003408.pdf","access_level":"open_access","creator":"system","file_size":2194790,"content_type":"application/pdf","file_id":"4965","relation":"main_file","date_updated":"2020-07-14T12:45:35Z","date_created":"2018-12-12T10:12:46Z","checksum":"c720222c5e924a4acb17f23b9381a6ca"}],"oa_version":"Published Version","pubrep_id":"436","month":"01","publication_identifier":{"issn":["1553734X"]},"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"main_file_link":[{"open_access":"1","url":"http://repository.ist.ac.at/id/eprint/436"}],"language":[{"iso":"eng"}],"doi":"10.1371/journal.pcbi.1003408","article_number":"e1003408","file_date_updated":"2020-07-14T12:45:35Z","publist_id":"4689","publication_status":"published","publisher":"Public Library of Science","department":[{"_id":"GaTk"}],"acknowledgement":"\r\n\r\n\r\n\r\nThis work was funded by NSF grant IIS-0613435, NSF grant PHY-0957573, NSF grant CCF-0939370, NIH grant R01 EY14196, NIH grant P50 GM071508, the Fannie and John Hertz Foundation, the Swartz Foundation, the WM Keck Foundation, ANR Optima and the French State program “Investissements d'Avenir” [LIFESENSES: ANR-10-LABX-65], and the Austrian Research Foundation FWF P25651.","year":"2014","date_created":"2018-12-11T11:56:36Z","date_updated":"2024-02-21T13:46:14Z","volume":10,"author":[{"full_name":"Tkacik, Gasper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkacik","first_name":"Gasper"},{"full_name":"Marre, Olivier","last_name":"Marre","first_name":"Olivier"},{"full_name":"Amodei, Dario","first_name":"Dario","last_name":"Amodei"},{"full_name":"Schneidman, Elad","first_name":"Elad","last_name":"Schneidman"},{"last_name":"Bialek","first_name":"William","full_name":"Bialek, William"},{"full_name":"Berry, Michael","last_name":"Berry","first_name":"Michael"}],"related_material":{"record":[{"id":"5562","relation":"popular_science","status":"public"}]}},{"date_published":"2014-06-10T00:00:00Z","page":"7199-7204","article_type":"letter_note","citation":{"short":"W. Guan, A.K. Michael, M.L. McIntosh, L. Koren-Selfridge, J.P. Scott, T.B. Clark, The Journal of Organic Chemistry 79 (2014) 7199–7204.","mla":"Guan, Weiye, et al. “Stereoselective Formation of Trisubstituted Vinyl Boronate Esters by the Acid-Mediated Elimination of α-Hydroxyboronate Esters.” The Journal of Organic Chemistry, vol. 79, no. 15, American Chemical Society, 2014, pp. 7199–204, doi:10.1021/jo500773t.","chicago":"Guan, Weiye, Alicia K. Michael, Melissa L. McIntosh, Liza Koren-Selfridge, John P. Scott, and Timothy B. Clark. “Stereoselective Formation of Trisubstituted Vinyl Boronate Esters by the Acid-Mediated Elimination of α-Hydroxyboronate Esters.” The Journal of Organic Chemistry. American Chemical Society, 2014. https://doi.org/10.1021/jo500773t.","ama":"Guan W, Michael AK, McIntosh ML, Koren-Selfridge L, Scott JP, Clark TB. Stereoselective formation of trisubstituted vinyl boronate esters by the acid-mediated elimination of α-hydroxyboronate esters. The Journal of Organic Chemistry. 2014;79(15):7199-7204. doi:10.1021/jo500773t","ieee":"W. Guan, A. K. Michael, M. L. McIntosh, L. Koren-Selfridge, J. P. Scott, and T. B. Clark, “Stereoselective formation of trisubstituted vinyl boronate esters by the acid-mediated elimination of α-hydroxyboronate esters,” The Journal of Organic Chemistry, vol. 79, no. 15. American Chemical Society, pp. 7199–7204, 2014.","apa":"Guan, W., Michael, A. K., McIntosh, M. L., Koren-Selfridge, L., Scott, J. P., & Clark, T. B. (2014). Stereoselective formation of trisubstituted vinyl boronate esters by the acid-mediated elimination of α-hydroxyboronate esters. The Journal of Organic Chemistry. American Chemical Society. https://doi.org/10.1021/jo500773t","ista":"Guan W, Michael AK, McIntosh ML, Koren-Selfridge L, Scott JP, Clark TB. 2014. Stereoselective formation of trisubstituted vinyl boronate esters by the acid-mediated elimination of α-hydroxyboronate esters. The Journal of Organic Chemistry. 79(15), 7199–7204."},"publication":"The Journal of Organic Chemistry","article_processing_charge":"No","day":"10","keyword":["Organic Chemistry"],"scopus_import":"1","oa_version":"Published Version","intvolume":" 79","status":"public","title":"Stereoselective formation of trisubstituted vinyl boronate esters by the acid-mediated elimination of α-hydroxyboronate esters","_id":"15161","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"15","abstract":[{"lang":"eng","text":"The copper-catalyzed diboration of ketones followed by an acid-catalyzed elimination leads to the formation of 1,1-disubstituted and trisubstituted vinyl boronate esters with moderate to good yields and selectivity. Addition of tosic acid to the crude diboration products provides the corresponding vinyl boronate esters upon elimination. The trisubstituted vinyl boronate esters are formed as the (Z)-olefin isomer, which was established by subjecting the products to a Suzuki–Miyaura coupling reaction to obtain alkenes of known geometry."}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1021/jo500773t","quality_controlled":"1","oa":1,"main_file_link":[{"url":"https://doi.org/10.1021/jo500773t","open_access":"1"}],"publication_identifier":{"eissn":["1520-6904"],"issn":["0022-3263"]},"month":"06","volume":79,"date_created":"2024-03-21T07:58:31Z","date_updated":"2024-03-25T11:50:01Z","author":[{"full_name":"Guan, Weiye","last_name":"Guan","first_name":"Weiye"},{"full_name":"Michael, Alicia Kathleen","id":"6437c950-2a03-11ee-914d-d6476dd7b75c","first_name":"Alicia Kathleen","last_name":"Michael"},{"first_name":"Melissa L.","last_name":"McIntosh","full_name":"McIntosh, Melissa L."},{"full_name":"Koren-Selfridge, Liza","last_name":"Koren-Selfridge","first_name":"Liza"},{"full_name":"Scott, John P.","last_name":"Scott","first_name":"John P."},{"full_name":"Clark, Timothy B.","last_name":"Clark","first_name":"Timothy B."}],"publisher":"American Chemical Society","publication_status":"published","year":"2014","extern":"1"},{"month":"11","doi":"10.1016/j.cois.2014.09.001","language":[{"iso":"eng"}],"project":[{"call_identifier":"FP7","name":"Social Vaccination in Ant Colonies: from Individual Mechanisms to Society Effects","grant_number":"243071","_id":"25DC711C-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","publist_id":"5080","ec_funded":1,"related_material":{"record":[{"id":"6383","relation":"dissertation_contains"},{"id":"6435","relation":"dissertation_contains","status":"public"}]},"author":[{"last_name":"Stroeymeyt","first_name":"Nathalie","full_name":"Stroeymeyt, Nathalie"},{"full_name":"Casillas Perez, Barbara E","id":"351ED2AA-F248-11E8-B48F-1D18A9856A87","last_name":"Casillas Perez","first_name":"Barbara E"},{"last_name":"Cremer","first_name":"Sylvia","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","full_name":"Cremer, Sylvia"}],"volume":5,"date_updated":"2024-03-28T23:30:05Z","date_created":"2018-12-11T11:55:08Z","year":"2014","publisher":"Elsevier","department":[{"_id":"SyCr"}],"publication_status":"published","day":"01","scopus_import":1,"date_published":"2014-11-01T00:00:00Z","citation":{"chicago":"Stroeymeyt, Nathalie, Barbara E Casillas Perez, and Sylvia Cremer. “Organisational Immunity in Social Insects.” Current Opinion in Insect Science. Elsevier, 2014. https://doi.org/10.1016/j.cois.2014.09.001.","short":"N. Stroeymeyt, B.E. Casillas Perez, S. Cremer, Current Opinion in Insect Science 5 (2014) 1–15.","mla":"Stroeymeyt, Nathalie, et al. “Organisational Immunity in Social Insects.” Current Opinion in Insect Science, vol. 5, no. 1, Elsevier, 2014, pp. 1–15, doi:10.1016/j.cois.2014.09.001.","ieee":"N. Stroeymeyt, B. E. Casillas Perez, and S. Cremer, “Organisational immunity in social insects,” Current Opinion in Insect Science, vol. 5, no. 1. Elsevier, pp. 1–15, 2014.","apa":"Stroeymeyt, N., Casillas Perez, B. E., & Cremer, S. (2014). Organisational immunity in social insects. Current Opinion in Insect Science. Elsevier. https://doi.org/10.1016/j.cois.2014.09.001","ista":"Stroeymeyt N, Casillas Perez BE, Cremer S. 2014. Organisational immunity in social insects. Current Opinion in Insect Science. 5(1), 1–15.","ama":"Stroeymeyt N, Casillas Perez BE, Cremer S. Organisational immunity in social insects. Current Opinion in Insect Science. 2014;5(1):1-15. doi:10.1016/j.cois.2014.09.001"},"publication":"Current Opinion in Insect Science","page":"1 - 15","issue":"1","abstract":[{"lang":"eng","text":"Selection for disease control is believed to have contributed to shape the organisation of insect societies — leading to interaction patterns that mitigate disease transmission risk within colonies, conferring them ‘organisational immunity’. Recent studies combining epidemiological models with social network analysis have identified general properties of interaction networks that may hinder propagation of infection within groups. These can be prophylactic and/or induced upon pathogen exposure. Here we review empirical evidence for these two types of organisational immunity in social insects and describe the individual-level behaviours that underlie it. We highlight areas requiring further investigation, and emphasise the need for tighter links between theory and empirical research and between individual-level and collective-level analyses."}],"type":"journal_article","oa_version":"None","_id":"1999","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 5","status":"public","title":"Organisational immunity in social insects"},{"oa_version":"Preprint","intvolume":" 111","title":"Living clusters and crystals from low-density suspensions of active colloids","status":"public","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"10384","issue":"24","abstract":[{"lang":"eng","text":"Recent studies aimed at investigating artificial analogs of bacterial colonies have shown that low-density suspensions of self-propelled particles confined in two dimensions can assemble into finite aggregates that merge and split, but have a typical size that remains constant (living clusters). In this Letter, we address the problem of the formation of living clusters and crystals of active particles in three dimensions. We study two systems: self-propelled particles interacting via a generic attractive potential and colloids that can move toward each other as a result of active agents (e.g., by molecular motors). In both cases, fluidlike “living” clusters form. We explain this general feature in terms of the balance between active forces and regression to thermodynamic equilibrium. This balance can be quantified in terms of a dimensionless number that allows us to collapse the observed clustering behavior onto a universal curve. We also discuss how active motion affects the kinetics of crystal formation."}],"type":"journal_article","date_published":"2013-12-11T00:00:00Z","article_type":"original","citation":{"short":"B.M. Mognetti, A. Šarić, S. Angioletti-Uberti, A. Cacciuto, C. Valeriani, D. Frenkel, Physical Review Letters 111 (2013).","mla":"Mognetti, B. M., et al. “Living Clusters and Crystals from Low-Density Suspensions of Active Colloids.” Physical Review Letters, vol. 111, no. 24, 245702, American Physical Society, 2013, doi:10.1103/physrevlett.111.245702.","chicago":"Mognetti, B. M., Anđela Šarić, S. Angioletti-Uberti, A. Cacciuto, C. Valeriani, and D. Frenkel. “Living Clusters and Crystals from Low-Density Suspensions of Active Colloids.” Physical Review Letters. American Physical Society, 2013. https://doi.org/10.1103/physrevlett.111.245702.","ama":"Mognetti BM, Šarić A, Angioletti-Uberti S, Cacciuto A, Valeriani C, Frenkel D. Living clusters and crystals from low-density suspensions of active colloids. Physical Review Letters. 2013;111(24). doi:10.1103/physrevlett.111.245702","apa":"Mognetti, B. M., Šarić, A., Angioletti-Uberti, S., Cacciuto, A., Valeriani, C., & Frenkel, D. (2013). Living clusters and crystals from low-density suspensions of active colloids. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.111.245702","ieee":"B. M. Mognetti, A. Šarić, S. Angioletti-Uberti, A. Cacciuto, C. Valeriani, and D. Frenkel, “Living clusters and crystals from low-density suspensions of active colloids,” Physical Review Letters, vol. 111, no. 24. American Physical Society, 2013.","ista":"Mognetti BM, Šarić A, Angioletti-Uberti S, Cacciuto A, Valeriani C, Frenkel D. 2013. Living clusters and crystals from low-density suspensions of active colloids. Physical Review Letters. 111(24), 245702."},"publication":"Physical Review Letters","article_processing_charge":"No","day":"11","keyword":["general physics and astronomy"],"scopus_import":"1","volume":111,"date_created":"2021-11-29T13:29:31Z","date_updated":"2021-11-29T14:05:19Z","author":[{"full_name":"Mognetti, B. M.","first_name":"B. M.","last_name":"Mognetti"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","first_name":"Anđela","last_name":"Šarić","full_name":"Šarić, Anđela"},{"full_name":"Angioletti-Uberti, S.","first_name":"S.","last_name":"Angioletti-Uberti"},{"full_name":"Cacciuto, A.","first_name":"A.","last_name":"Cacciuto"},{"last_name":"Valeriani","first_name":"C.","full_name":"Valeriani, C."},{"last_name":"Frenkel","first_name":"D.","full_name":"Frenkel, D."}],"publisher":"American Physical Society","publication_status":"published","pmid":1,"year":"2013","acknowledgement":"This work was supported by the ERC Advanced Grant 227758, the National Science Foundation under Career Grant No. DMR-0846426, the Wolfson Merit Award 2007/R3 of the Royal Society of London and the EPSRC Programme Grant EP/I001352/1. BMM acknowledge T. Curk and A. Ballard for useful discussions. C. V. acknowledges financial support from a Juan de la Cierva Fellowship, from the Marie Curie Integration Grant PCIG-GA-2011-303941 ANISOKINEQ, and from the National Project FIS2010- 16159. S. A-U acknowledges support from the Alexander von Humboldt Foundation.","extern":"1","article_number":"245702","language":[{"iso":"eng"}],"doi":"10.1103/physrevlett.111.245702","quality_controlled":"1","oa":1,"external_id":{"arxiv":["1311.4681"],"pmid":["24483677"]},"main_file_link":[{"url":"https://arxiv.org/abs/1311.4681","open_access":"1"}],"publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"month":"12"},{"author":[{"full_name":"Šarić, Anđela","orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","last_name":"Šarić","first_name":"Anđela"},{"full_name":"Cacciuto, Angelo","last_name":"Cacciuto","first_name":"Angelo"}],"date_created":"2021-11-29T14:06:32Z","date_updated":"2021-11-29T14:29:31Z","volume":9,"year":"2013","acknowledgement":"This work was supported by the National Science Foundation under Career Grant No. DMR 0846426. The authors thank J. C. Pàmies for many fruitful discussions on the subject.","publication_status":"published","publisher":"Royal Society of Chemistry","extern":"1","article_number":"6677","doi":"10.1039/c3sm50188d","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://pubs.rsc.org/en/content/articlehtml/2013/sm/c3sm50188d"}],"quality_controlled":"1","month":"05","publication_identifier":{"issn":["1744-683X"],"eissn":["1744-6848"]},"oa_version":"None","_id":"10386","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","status":"public","title":"Self-assembly of nanoparticles adsorbed on fluid and elastic membranes","intvolume":" 9","abstract":[{"text":"In this paper we review recent numerical and theoretical developments of particle self-assembly on fluid and elastic membranes and compare them to available experimental realizations. We discuss the problem and its applications in biology and materials science, and give an overview of numerical models and strategies to study these systems across all length-scales. As this is a very broad field, this review focuses exclusively on surface-driven aggregation of nanoparticles that are at least one order of magnitude larger than the surface thickness and are adsorbed onto it. In this regime, all chemical details of the surface can be ignored in favor of a coarse-grained representation, and the collective behavior of many particles can be monitored and analyzed. We review the existing literature on how the mechanical properties and the geometry of the surface affect the structure of the particle aggregates and how these can drive shape deformation on the surface.","lang":"eng"}],"issue":"29","type":"journal_article","date_published":"2013-05-03T00:00:00Z","publication":"Soft Matter","citation":{"chicago":"Šarić, Anđela, and Angelo Cacciuto. “Self-Assembly of Nanoparticles Adsorbed on Fluid and Elastic Membranes.” Soft Matter. Royal Society of Chemistry, 2013. https://doi.org/10.1039/c3sm50188d.","short":"A. Šarić, A. Cacciuto, Soft Matter 9 (2013).","mla":"Šarić, Anđela, and Angelo Cacciuto. “Self-Assembly of Nanoparticles Adsorbed on Fluid and Elastic Membranes.” Soft Matter, vol. 9, no. 29, 6677, Royal Society of Chemistry, 2013, doi:10.1039/c3sm50188d.","ieee":"A. Šarić and A. Cacciuto, “Self-assembly of nanoparticles adsorbed on fluid and elastic membranes,” Soft Matter, vol. 9, no. 29. Royal Society of Chemistry, 2013.","apa":"Šarić, A., & Cacciuto, A. (2013). Self-assembly of nanoparticles adsorbed on fluid and elastic membranes. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c3sm50188d","ista":"Šarić A, Cacciuto A. 2013. Self-assembly of nanoparticles adsorbed on fluid and elastic membranes. Soft Matter. 9(29), 6677.","ama":"Šarić A, Cacciuto A. Self-assembly of nanoparticles adsorbed on fluid and elastic membranes. Soft Matter. 2013;9(29). doi:10.1039/c3sm50188d"},"article_type":"original","day":"03","article_processing_charge":"No","scopus_import":"1","keyword":["condensed matter physics","general chemistry"]},{"article_processing_charge":"No","day":"08","scopus_import":"1","keyword":["condensed matter physics","general chemistry"],"date_published":"2013-08-08T00:00:00Z","citation":{"short":"J.A. Napoli, A. Šarić, A. Cacciuto, Soft Matter 9 (2013) 8881–8886.","mla":"Napoli, Joseph A., et al. “Collapsing Nanoparticle-Laden Nanotubes.” Soft Matter, vol. 9, no. 37, Royal Society of Chemistry, 2013, pp. 8881–86, doi:10.1039/c3sm51495a.","chicago":"Napoli, Joseph A., Anđela Šarić, and Angelo Cacciuto. “Collapsing Nanoparticle-Laden Nanotubes.” Soft Matter. Royal Society of Chemistry, 2013. https://doi.org/10.1039/c3sm51495a.","ama":"Napoli JA, Šarić A, Cacciuto A. Collapsing nanoparticle-laden nanotubes. Soft Matter. 2013;9(37):8881-8886. doi:10.1039/c3sm51495a","apa":"Napoli, J. A., Šarić, A., & Cacciuto, A. (2013). Collapsing nanoparticle-laden nanotubes. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c3sm51495a","ieee":"J. A. Napoli, A. Šarić, and A. Cacciuto, “Collapsing nanoparticle-laden nanotubes,” Soft Matter, vol. 9, no. 37. Royal Society of Chemistry, pp. 8881–8886, 2013.","ista":"Napoli JA, Šarić A, Cacciuto A. 2013. Collapsing nanoparticle-laden nanotubes. Soft Matter. 9(37), 8881–8886."},"publication":"Soft Matter","page":"8881-8886","article_type":"original","issue":"37","abstract":[{"text":"We show how self-assembly of sticky nanoparticles can drive radial collapse of thin-walled nanotubes. Using numerical simulations, we study the transition as a function of the geometric and elastic parameters of the nanotube and the binding strength of the nanoparticles. We find that it is possible to derive a simple scaling law relating all these parameters, and estimate bounds for the onset conditions leading to the collapse of the nanotube. We also study the reverse process – the nanoparticle release from the folded state – and find that the stability of the collapsed state can be greatly improved by increasing the bending rigidity of the nanotubes. Our results suggest ways to strengthen the mechanical properties of nanotubes, but also indicate that the control of nanoparticle self-assembly on these nanotubes can lead to nanoparticle-laden responsive materials.","lang":"eng"}],"type":"journal_article","oa_version":"None","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"10385","intvolume":" 9","status":"public","title":"Collapsing nanoparticle-laden nanotubes","publication_identifier":{"issn":["1744-683X"],"eissn":["1744-6848"]},"month":"08","doi":"10.1039/c3sm51495a","language":[{"iso":"eng"}],"quality_controlled":"1","extern":"1","author":[{"full_name":"Napoli, Joseph A.","first_name":"Joseph A.","last_name":"Napoli"},{"last_name":"Šarić","first_name":"Anđela","orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela"},{"full_name":"Cacciuto, Angelo","first_name":"Angelo","last_name":"Cacciuto"}],"volume":9,"date_updated":"2021-11-29T14:05:23Z","date_created":"2021-11-29T13:31:24Z","year":"2013","acknowledgement":"This work was supported by the National Science Foundation under Career Grant no. DMR-0846426.","publisher":"Royal Society of Chemistry","publication_status":"published"},{"article_type":"original","citation":{"chicago":"Schlögl, Alois, Peter M Jonas, C. Schmidt-Hieber, and S. J. Guzman. “Stimfit: A Fast Visualization and Analysis Environment for Cellular Neurophysiology.” Biomedical Engineering / Biomedizinische Technik. De Gruyter, 2013. https://doi.org/10.1515/bmt-2013-4181.","mla":"Schlögl, Alois, et al. “Stimfit: A Fast Visualization and Analysis Environment for Cellular Neurophysiology.” Biomedical Engineering / Biomedizinische Technik, vol. 58, no. SI-1-Track-G, 000010151520134181, De Gruyter, 2013, doi:10.1515/bmt-2013-4181.","short":"A. Schlögl, P.M. Jonas, C. Schmidt-Hieber, S.J. Guzman, Biomedical Engineering / Biomedizinische Technik 58 (2013).","ista":"Schlögl A, Jonas PM, Schmidt-Hieber C, Guzman SJ. 2013. Stimfit: A fast visualization and analysis environment for cellular neurophysiology. Biomedical Engineering / Biomedizinische Technik. 58(SI-1-Track-G), 000010151520134181.","apa":"Schlögl, A., Jonas, P. M., Schmidt-Hieber, C., & Guzman, S. J. (2013). Stimfit: A fast visualization and analysis environment for cellular neurophysiology. Biomedical Engineering / Biomedizinische Technik. Graz, Austria: De Gruyter. https://doi.org/10.1515/bmt-2013-4181","ieee":"A. Schlögl, P. M. Jonas, C. Schmidt-Hieber, and S. J. Guzman, “Stimfit: A fast visualization and analysis environment for cellular neurophysiology,” Biomedical Engineering / Biomedizinische Technik, vol. 58, no. SI-1-Track-G. De Gruyter, 2013.","ama":"Schlögl A, Jonas PM, Schmidt-Hieber C, Guzman SJ. Stimfit: A fast visualization and analysis environment for cellular neurophysiology. Biomedical Engineering / Biomedizinische Technik. 2013;58(SI-1-Track-G). doi:10.1515/bmt-2013-4181"},"publication":"Biomedical Engineering / Biomedizinische Technik","date_published":"2013-08-01T00:00:00Z","keyword":["biomedical engineering","data analysis","free software"],"article_processing_charge":"No","has_accepted_license":"1","day":"01","intvolume":" 58","status":"public","ddc":["005","610"],"title":"Stimfit: A fast visualization and analysis environment for cellular neurophysiology","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"10396","file":[{"relation":"main_file","file_id":"10397","date_updated":"2021-12-01T14:38:08Z","date_created":"2021-12-01T14:38:08Z","checksum":"cdfc5339b530a25d6079f7223f0b1f16","success":1,"file_name":"Schloegl_Abstract-BMT2013.pdf","access_level":"open_access","file_size":149825,"content_type":"application/pdf","creator":"schloegl"}],"oa_version":"Submitted Version","type":"journal_article","issue":"SI-1-Track-G","abstract":[{"text":"Stimfit is a free cross-platform software package for viewing and analyzing electrophysiological data. It supports most standard file types for cellular neurophysiology and other biomedical formats. Its analysis algorithms have been used and validated in several experimental laboratories. Its embedded Python scripting interface makes Stimfit highly extensible and customizable.","lang":"eng"}],"quality_controlled":"1","oa":1,"external_id":{"pmid":["24042795"]},"language":[{"iso":"eng"}],"doi":"10.1515/bmt-2013-4181","conference":{"name":"BMT: Biomedizinische Technik ","end_date":"2013-09-21","start_date":"2013-09-19","location":"Graz, Austria"},"publication_identifier":{"eissn":["1862-278X"],"issn":["0013-5585"]},"month":"08","department":[{"_id":"PeJo"}],"publisher":"De Gruyter","publication_status":"published","pmid":1,"year":"2013","volume":58,"date_updated":"2021-12-02T12:51:12Z","date_created":"2021-12-01T14:35:35Z","author":[{"full_name":"Schlögl, Alois","first_name":"Alois","last_name":"Schlögl","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5621-8100"},{"full_name":"Jonas, Peter M","last_name":"Jonas","first_name":"Peter M","orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Schmidt-Hieber","first_name":"C.","full_name":"Schmidt-Hieber, C."},{"first_name":"S. J.","last_name":"Guzman","full_name":"Guzman, S. J."}],"article_number":"000010151520134181","file_date_updated":"2021-12-01T14:38:08Z"},{"intvolume":" 58","status":"public","title":"Cantilever micro-susceptometry of mesoscopic Bi2212 samples","_id":"10749","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","alternative_title":["Bulletin of the American Physical Society"],"type":"conference","issue":"1","abstract":[{"lang":"eng","text":"Fluxoid quantization provides a direct means to study phase coherence. In cuprate superconductors, there have been observations which suggest that phase coherent superconducting fluctuations may persist at temperatures significantly above Tc. The focus of this work is to study the vortex states in mesoscopic cuprate superconducting samples to directly probe phase coherence over a wide range of temperatures. We present cantilever torque susceptometry measurements of micron and sub-micron size Bi2212 rings and disks. The high sensitivity of this technique allowed observation of transitions between different fluxoid states of a single ring, and the discrete vortex states of micron size disks. The dependence of magnetic susceptibility on diameter and wall thickness of the ring was investigated. Measurements were made at different values of the in-plane magnetic field, and over a wide range of temperatures."}],"citation":{"chicago":"Polshyn, Hryhoriy, Raffi Budakian, and Genda Gu. “Cantilever Micro-Susceptometry of Mesoscopic Bi2212 Samples.” In APS March Meeting 2013, Vol. 58. American Physical Society, 2013.","mla":"Polshyn, Hryhoriy, et al. “Cantilever Micro-Susceptometry of Mesoscopic Bi2212 Samples.” APS March Meeting 2013, vol. 58, no. 1, N36.00001, American Physical Society, 2013.","short":"H. Polshyn, R. Budakian, G. Gu, in:, APS March Meeting 2013, American Physical Society, 2013.","ista":"Polshyn H, Budakian R, Gu G. 2013. Cantilever micro-susceptometry of mesoscopic Bi2212 samples. APS March Meeting 2013. APS: American Physical Society, Bulletin of the American Physical Society, vol. 58, N36.00001.","apa":"Polshyn, H., Budakian, R., & Gu, G. (2013). Cantilever micro-susceptometry of mesoscopic Bi2212 samples. In APS March Meeting 2013 (Vol. 58). Baltimore, MD, United States: American Physical Society.","ieee":"H. Polshyn, R. Budakian, and G. Gu, “Cantilever micro-susceptometry of mesoscopic Bi2212 samples,” in APS March Meeting 2013, Baltimore, MD, United States, 2013, vol. 58, no. 1.","ama":"Polshyn H, Budakian R, Gu G. Cantilever micro-susceptometry of mesoscopic Bi2212 samples. In: APS March Meeting 2013. Vol 58. American Physical Society; 2013."},"publication":"APS March Meeting 2013","date_published":"2013-03-01T00:00:00Z","article_processing_charge":"No","day":"01","publisher":"American Physical Society","publication_status":"published","acknowledgement":"This work was supported by the Center for Emergent Superconductivity, an Energy Frontier Research Center funded by the US DOE, Office of Science.","year":"2013","volume":58,"date_updated":"2022-02-08T10:48:06Z","date_created":"2022-02-08T10:34:29Z","author":[{"full_name":"Polshyn, Hryhoriy","last_name":"Polshyn","first_name":"Hryhoriy","orcid":"0000-0001-8223-8896","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48"},{"full_name":"Budakian, Raffi","first_name":"Raffi","last_name":"Budakian"},{"full_name":"Gu, Genda","first_name":"Genda","last_name":"Gu"}],"article_number":"N36.00001","extern":"1","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://meetings.aps.org/Meeting/MAR13/Event/186873"}],"oa":1,"language":[{"iso":"eng"}],"conference":{"name":"APS: American Physical Society","location":"Baltimore, MD, United States","start_date":"2013-03-18","end_date":"2013-03-22"},"publication_identifier":{"issn":["0003-0503"]},"month":"03"},{"type":"journal_article","abstract":[{"lang":"eng","text":"Due to their sessile lifestyles, plants need to deal with the limitations and stresses imposed by the changing environment. Plants cope with these by a remarkable developmental flexibility, which is embedded in their strategy to survive. Plants can adjust their size, shape and number of organs, bend according to gravity and light, and regenerate tissues that were damaged, utilizing a coordinating, intercellular signal, the plant hormone, auxin. Another versatile signal is the cation, Ca2+, which is a crucial second messenger for many rapid cellular processes during responses to a wide range of endogenous and environmental signals, such as hormones, light, drought stress and others. Auxin is a good candidate for one of these Ca2+-activating signals. However, the role of auxin-induced Ca2+ signaling is poorly understood. Here, we will provide an overview of possible developmental and physiological roles, as well as mechanisms underlying the interconnection of Ca2+ and auxin signaling. "}],"issue":"4","status":"public","title":"Calcium: The missing link in auxin action","ddc":["580"],"intvolume":" 2","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"10895","oa_version":"Published Version","file":[{"file_name":"2013_Plants_Vanneste.pdf","access_level":"open_access","file_size":670188,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"10916","date_updated":"2022-03-21T12:12:56Z","date_created":"2022-03-21T12:12:56Z","checksum":"fb4ff2e820e344e253c9197544610be6","success":1}],"keyword":["Plant Science","Ecology","Ecology","Evolution","Behavior and Systematics"],"scopus_import":"1","day":"21","article_processing_charge":"No","has_accepted_license":"1","article_type":"original","page":"650-675","publication":"Plants","citation":{"short":"S. Vanneste, J. Friml, Plants 2 (2013) 650–675.","mla":"Vanneste, Steffen, and Jiří Friml. “Calcium: The Missing Link in Auxin Action.” Plants, vol. 2, no. 4, MDPI, 2013, pp. 650–75, doi:10.3390/plants2040650.","chicago":"Vanneste, Steffen, and Jiří Friml. “Calcium: The Missing Link in Auxin Action.” Plants. MDPI, 2013. https://doi.org/10.3390/plants2040650.","ama":"Vanneste S, Friml J. Calcium: The missing link in auxin action. Plants. 2013;2(4):650-675. doi:10.3390/plants2040650","apa":"Vanneste, S., & Friml, J. (2013). Calcium: The missing link in auxin action. Plants. MDPI. https://doi.org/10.3390/plants2040650","ieee":"S. Vanneste and J. Friml, “Calcium: The missing link in auxin action,” Plants, vol. 2, no. 4. MDPI, pp. 650–675, 2013.","ista":"Vanneste S, Friml J. 2013. Calcium: The missing link in auxin action. Plants. 2(4), 650–675."},"date_published":"2013-10-21T00:00:00Z","file_date_updated":"2022-03-21T12:12:56Z","publication_status":"published","publisher":"MDPI","department":[{"_id":"JiFr"}],"year":"2013","pmid":1,"date_created":"2022-03-21T07:13:49Z","date_updated":"2022-03-21T12:15:29Z","volume":2,"author":[{"first_name":"Steffen","last_name":"Vanneste","full_name":"Vanneste, Steffen"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"month":"10","publication_identifier":{"issn":["2223-7747"]},"quality_controlled":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","short":"CC BY (3.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["27137397"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.3390/plants2040650"},{"issue":"5","abstract":[{"lang":"eng","text":"A prominent remedy to multicore scalability issues in concurrent data structure implementations is to relax the sequential specification of the data structure. We present distributed queues (DQ), a new family of relaxed concurrent queue implementations. DQs implement relaxed queues with linearizable emptiness check and either configurable or bounded out-of-order behavior or pool behavior. Our experiments show that DQs outperform and outscale in micro- and macrobenchmarks all strict and relaxed queue as well as pool implementations that we considered."}],"type":"conference","article_number":"17","oa_version":"None","date_updated":"2022-06-21T08:01:19Z","date_created":"2022-03-21T07:33:22Z","author":[{"first_name":"Andreas","last_name":"Haas","full_name":"Haas, Andreas"},{"full_name":"Lippautz, Michael","last_name":"Lippautz","first_name":"Michael"},{"last_name":"Henzinger","first_name":"Thomas A","orcid":"0000-0002-2985-7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A"},{"first_name":"Hannes","last_name":"Payer","full_name":"Payer, Hannes"},{"first_name":"Ana","last_name":"Sokolova","full_name":"Sokolova, Ana"},{"last_name":"Kirsch","first_name":"Christoph M.","full_name":"Kirsch, Christoph M."},{"last_name":"Sezgin","first_name":"Ali","id":"4C7638DA-F248-11E8-B48F-1D18A9856A87","full_name":"Sezgin, Ali"}],"department":[{"_id":"ToHe"}],"publisher":"ACM Press","status":"public","title":"Distributed queues in shared memory: Multicore performance and scalability through quantitative relaxation","publication_status":"published","year":"2013","_id":"10898","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"isbn":["978-145032053-5"]},"article_processing_charge":"No","day":"01","month":"05","scopus_import":"1","language":[{"iso":"eng"}],"date_published":"2013-05-01T00:00:00Z","doi":"10.1145/2482767.2482789","conference":{"name":"CF: Conference on Computing Frontiers","location":"Ischia, Italy","start_date":"2013-05-14","end_date":"2013-05-16"},"quality_controlled":"1","citation":{"ieee":"A. Haas et al., “Distributed queues in shared memory: Multicore performance and scalability through quantitative relaxation,” in Proceedings of the ACM International Conference on Computing Frontiers - CF ’13, Ischia, Italy, 2013, no. 5.","apa":"Haas, A., Lippautz, M., Henzinger, T. A., Payer, H., Sokolova, A., Kirsch, C. M., & Sezgin, A. (2013). Distributed queues in shared memory: Multicore performance and scalability through quantitative relaxation. In Proceedings of the ACM International Conference on Computing Frontiers - CF ’13. Ischia, Italy: ACM Press. https://doi.org/10.1145/2482767.2482789","ista":"Haas A, Lippautz M, Henzinger TA, Payer H, Sokolova A, Kirsch CM, Sezgin A. 2013. Distributed queues in shared memory: Multicore performance and scalability through quantitative relaxation. Proceedings of the ACM International Conference on Computing Frontiers - CF ’13. CF: Conference on Computing Frontiers, 17.","ama":"Haas A, Lippautz M, Henzinger TA, et al. Distributed queues in shared memory: Multicore performance and scalability through quantitative relaxation. In: Proceedings of the ACM International Conference on Computing Frontiers - CF ’13. ACM Press; 2013. doi:10.1145/2482767.2482789","chicago":"Haas, Andreas, Michael Lippautz, Thomas A Henzinger, Hannes Payer, Ana Sokolova, Christoph M. Kirsch, and Ali Sezgin. “Distributed Queues in Shared Memory: Multicore Performance and Scalability through Quantitative Relaxation.” In Proceedings of the ACM International Conference on Computing Frontiers - CF ’13. ACM Press, 2013. https://doi.org/10.1145/2482767.2482789.","short":"A. Haas, M. Lippautz, T.A. Henzinger, H. Payer, A. Sokolova, C.M. Kirsch, A. Sezgin, in:, Proceedings of the ACM International Conference on Computing Frontiers - CF ’13, ACM Press, 2013.","mla":"Haas, Andreas, et al. “Distributed Queues in Shared Memory: Multicore Performance and Scalability through Quantitative Relaxation.” Proceedings of the ACM International Conference on Computing Frontiers - CF ’13, no. 5, 17, ACM Press, 2013, doi:10.1145/2482767.2482789."},"publication":"Proceedings of the ACM International Conference on Computing Frontiers - CF '13"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"10899","year":"2013","department":[{"_id":"NiBa"}],"publisher":"Elsevier","title":"Differentiation","status":"public","publication_status":"published","edition":"2","author":[{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","first_name":"Nicholas H","last_name":"Barton","full_name":"Barton, Nicholas H"}],"oa_version":"None","date_updated":"2022-06-20T09:18:06Z","date_created":"2022-03-21T07:46:22Z","type":"book_chapter","citation":{"ama":"Barton NH. Differentiation. In: Encyclopedia of Biodiversity. 2nd ed. Elsevier; 2013:508-515. doi:10.1016/b978-0-12-384719-5.00031-9","ista":"Barton NH. 2013.Differentiation. In: Encyclopedia of Biodiversity. , 508–515.","apa":"Barton, N. H. (2013). Differentiation. In Encyclopedia of Biodiversity (2nd ed., pp. 508–515). Elsevier. https://doi.org/10.1016/b978-0-12-384719-5.00031-9","ieee":"N. H. Barton, “Differentiation,” in Encyclopedia of Biodiversity, 2nd ed., Elsevier, 2013, pp. 508–515.","mla":"Barton, Nicholas H. “Differentiation.” Encyclopedia of Biodiversity, 2nd ed., Elsevier, 2013, pp. 508–15, doi:10.1016/b978-0-12-384719-5.00031-9.","short":"N.H. Barton, in:, Encyclopedia of Biodiversity, 2nd ed., Elsevier, 2013, pp. 508–515.","chicago":"Barton, Nicholas H. “Differentiation.” In Encyclopedia of Biodiversity, 2nd ed., 508–15. Elsevier, 2013. https://doi.org/10.1016/b978-0-12-384719-5.00031-9."},"publication":"Encyclopedia of Biodiversity","page":"508-515","quality_controlled":"1","doi":"10.1016/b978-0-12-384719-5.00031-9","date_published":"2013-01-01T00:00:00Z","language":[{"iso":"eng"}],"scopus_import":"1","keyword":["Adaptive landscape","Cline","Coalescent process","Gene flow","Hybrid zone","Local adaptation","Natural selection","Neutral theory","Population structure","Speciation"],"article_processing_charge":"No","publication_identifier":{"isbn":["978-0-12-384720-1"]},"day":"01","month":"01"},{"date_published":"2013-02-28T00:00:00Z","article_type":"original","citation":{"ama":"Liang Y, Franks TM, Marchetto MC, Gage FH, Hetzer M. Dynamic association of NUP98 with the human genome. PLoS Genetics. 2013;9(2). doi:10.1371/journal.pgen.1003308","ieee":"Y. Liang, T. M. Franks, M. C. Marchetto, F. H. Gage, and M. Hetzer, “Dynamic association of NUP98 with the human genome,” PLoS Genetics, vol. 9, no. 2. Public Library of Science, 2013.","apa":"Liang, Y., Franks, T. M., Marchetto, M. C., Gage, F. H., & Hetzer, M. (2013). Dynamic association of NUP98 with the human genome. PLoS Genetics. Public Library of Science. https://doi.org/10.1371/journal.pgen.1003308","ista":"Liang Y, Franks TM, Marchetto MC, Gage FH, Hetzer M. 2013. Dynamic association of NUP98 with the human genome. PLoS Genetics. 9(2), e1003308.","short":"Y. Liang, T.M. Franks, M.C. Marchetto, F.H. Gage, M. Hetzer, PLoS Genetics 9 (2013).","mla":"Liang, Yun, et al. “Dynamic Association of NUP98 with the Human Genome.” PLoS Genetics, vol. 9, no. 2, e1003308, Public Library of Science, 2013, doi:10.1371/journal.pgen.1003308.","chicago":"Liang, Yun, Tobias M. Franks, Maria C. Marchetto, Fred H. Gage, and Martin Hetzer. “Dynamic Association of NUP98 with the Human Genome.” PLoS Genetics. Public Library of Science, 2013. https://doi.org/10.1371/journal.pgen.1003308."},"publication":"PLoS Genetics","article_processing_charge":"No","day":"28","keyword":["Cancer Research","Genetics (clinical)","Genetics","Molecular Biology","Ecology","Evolution","Behavior and Systematics"],"scopus_import":"1","oa_version":"Published Version","intvolume":" 9","title":"Dynamic association of NUP98 with the human genome","status":"public","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","_id":"11086","issue":"2","abstract":[{"lang":"eng","text":"Faithful execution of developmental gene expression programs occurs at multiple levels and involves many different components such as transcription factors, histone-modification enzymes, and mRNA processing proteins. Recent evidence suggests that nucleoporins, well known components that control nucleo-cytoplasmic trafficking, have wide-ranging functions in developmental gene regulation that potentially extend beyond their role in nuclear transport. Whether the unexpected role of nuclear pore proteins in transcription regulation, which initially has been described in fungi and flies, also applies to human cells is unknown. Here we show at a genome-wide level that the nuclear pore protein NUP98 associates with developmentally regulated genes active during human embryonic stem cell differentiation. Overexpression of a dominant negative fragment of NUP98 levels decreases expression levels of NUP98-bound genes. In addition, we identify two modes of developmental gene regulation by NUP98 that are differentiated by the spatial localization of NUP98 target genes. Genes in the initial stage of developmental induction can associate with NUP98 that is embedded in the nuclear pores at the nuclear periphery. Alternatively, genes that are highly induced can interact with NUP98 in the nuclear interior, away from the nuclear pores. This work demonstrates for the first time that NUP98 dynamically associates with the human genome during differentiation, revealing a role of a nuclear pore protein in regulating developmental gene expression programs."}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1371/journal.pgen.1003308","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1371/journal.pgen.1003308"}],"external_id":{"pmid":["23468646"]},"oa":1,"publication_identifier":{"issn":["1553-7404"]},"month":"02","volume":9,"date_updated":"2022-07-18T08:45:58Z","date_created":"2022-04-07T07:50:59Z","author":[{"full_name":"Liang, Yun","last_name":"Liang","first_name":"Yun"},{"full_name":"Franks, Tobias M.","last_name":"Franks","first_name":"Tobias M."},{"first_name":"Maria C.","last_name":"Marchetto","full_name":"Marchetto, Maria C."},{"full_name":"Gage, Fred H.","last_name":"Gage","first_name":"Fred H."},{"full_name":"HETZER, Martin W","last_name":"HETZER","first_name":"Martin W","orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed"}],"publisher":"Public Library of Science","publication_status":"published","pmid":1,"year":"2013","extern":"1","article_number":"e1003308"},{"date_published":"2013-08-29T00:00:00Z","citation":{"chicago":"Toyama, Brandon H., Jeffrey N. Savas, Sung Kyu Park, Michael S. Harris, Nicholas T. Ingolia, John R. Yates, and Martin Hetzer. “Identification of Long-Lived Proteins Reveals Exceptional Stability of Essential Cellular Structures.” Cell. Elsevier, 2013. https://doi.org/10.1016/j.cell.2013.07.037.","mla":"Toyama, Brandon H., et al. “Identification of Long-Lived Proteins Reveals Exceptional Stability of Essential Cellular Structures.” Cell, vol. 154, no. 5, Elsevier, 2013, pp. 971–82, doi:10.1016/j.cell.2013.07.037.","short":"B.H. Toyama, J.N. Savas, S.K. Park, M.S. Harris, N.T. Ingolia, J.R. Yates, M. Hetzer, Cell 154 (2013) 971–982.","ista":"Toyama BH, Savas JN, Park SK, Harris MS, Ingolia NT, Yates JR, Hetzer M. 2013. Identification of long-lived proteins reveals exceptional stability of essential cellular structures. Cell. 154(5), 971–982.","apa":"Toyama, B. H., Savas, J. N., Park, S. K., Harris, M. S., Ingolia, N. T., Yates, J. R., & Hetzer, M. (2013). Identification of long-lived proteins reveals exceptional stability of essential cellular structures. Cell. Elsevier. https://doi.org/10.1016/j.cell.2013.07.037","ieee":"B. H. Toyama et al., “Identification of long-lived proteins reveals exceptional stability of essential cellular structures,” Cell, vol. 154, no. 5. Elsevier, pp. 971–982, 2013.","ama":"Toyama BH, Savas JN, Park SK, et al. Identification of long-lived proteins reveals exceptional stability of essential cellular structures. Cell. 2013;154(5):971-982. doi:10.1016/j.cell.2013.07.037"},"publication":"Cell","page":"971-982","article_type":"original","article_processing_charge":"No","day":"29","scopus_import":"1","keyword":["General Biochemistry","Genetics and Molecular Biology"],"oa_version":"Published Version","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","_id":"11087","intvolume":" 154","title":"Identification of long-lived proteins reveals exceptional stability of essential cellular structures","status":"public","issue":"5","abstract":[{"lang":"eng","text":"Intracellular proteins with long lifespans have recently been linked to age-dependent defects, ranging from decreased fertility to the functional decline of neurons. Why long-lived proteins exist in metabolically active cellular environments and how they are maintained over time remains poorly understood. Here, we provide a system-wide identification of proteins with exceptional lifespans in the rat brain. These proteins are inefficiently replenished despite being translated robustly throughout adulthood. Using nucleoporins as a paradigm for long-term protein persistence, we found that nuclear pore complexes (NPCs) are maintained over a cell’s life through slow but finite exchange of even its most stable subcomplexes. This maintenance is limited, however, as some nucleoporin levels decrease during aging, providing a rationale for the previously observed age-dependent deterioration of NPC function. Our identification of a long-lived proteome reveals cellular components that are at increased risk for damage accumulation, linking long-term protein persistence to the cellular aging process."}],"type":"journal_article","doi":"10.1016/j.cell.2013.07.037","language":[{"iso":"eng"}],"external_id":{"pmid":["23993091"]},"main_file_link":[{"url":"https://doi.org/10.1016/j.cell.2013.07.037","open_access":"1"}],"oa":1,"quality_controlled":"1","publication_identifier":{"issn":["0092-8674"]},"month":"08","author":[{"last_name":"Toyama","first_name":"Brandon H.","full_name":"Toyama, Brandon H."},{"full_name":"Savas, Jeffrey N.","last_name":"Savas","first_name":"Jeffrey N."},{"full_name":"Park, Sung Kyu","last_name":"Park","first_name":"Sung Kyu"},{"last_name":"Harris","first_name":"Michael S.","full_name":"Harris, Michael S."},{"full_name":"Ingolia, Nicholas T.","last_name":"Ingolia","first_name":"Nicholas T."},{"first_name":"John R.","last_name":"Yates","full_name":"Yates, John R."},{"full_name":"HETZER, Martin W","orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","first_name":"Martin W"}],"volume":154,"date_created":"2022-04-07T07:51:08Z","date_updated":"2022-07-18T08:50:47Z","pmid":1,"year":"2013","publisher":"Elsevier","publication_status":"published","extern":"1"},{"publication_identifier":{"issn":["0092-8674"]},"month":"07","doi":"10.1016/j.cell.2013.06.007","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cell.2013.06.007"}],"external_id":{"pmid":["23827674"]},"oa":1,"quality_controlled":"1","extern":"1","author":[{"full_name":"Hatch, Emily M.","last_name":"Hatch","first_name":"Emily M."},{"full_name":"Fischer, Andrew H.","first_name":"Andrew H.","last_name":"Fischer"},{"first_name":"Thomas J.","last_name":"Deerinck","full_name":"Deerinck, Thomas J."},{"last_name":"HETZER","first_name":"Martin W","orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W"}],"volume":154,"date_updated":"2022-07-18T08:45:47Z","date_created":"2022-04-07T07:50:51Z","pmid":1,"year":"2013","publisher":"Elsevier","publication_status":"published","article_processing_charge":"No","day":"03","scopus_import":"1","keyword":["General Biochemistry","Genetics and Molecular Biology"],"date_published":"2013-07-03T00:00:00Z","citation":{"short":"E.M. Hatch, A.H. Fischer, T.J. Deerinck, M. Hetzer, Cell 154 (2013) 47–60.","mla":"Hatch, Emily M., et al. “Catastrophic Nuclear Envelope Collapse in Cancer Cell Micronuclei.” Cell, vol. 154, no. 1, Elsevier, 2013, pp. 47–60, doi:10.1016/j.cell.2013.06.007.","chicago":"Hatch, Emily M., Andrew H. Fischer, Thomas J. Deerinck, and Martin Hetzer. “Catastrophic Nuclear Envelope Collapse in Cancer Cell Micronuclei.” Cell. Elsevier, 2013. https://doi.org/10.1016/j.cell.2013.06.007.","ama":"Hatch EM, Fischer AH, Deerinck TJ, Hetzer M. Catastrophic nuclear envelope collapse in cancer cell micronuclei. Cell. 2013;154(1):47-60. doi:10.1016/j.cell.2013.06.007","ieee":"E. M. Hatch, A. H. Fischer, T. J. Deerinck, and M. Hetzer, “Catastrophic nuclear envelope collapse in cancer cell micronuclei,” Cell, vol. 154, no. 1. Elsevier, pp. 47–60, 2013.","apa":"Hatch, E. M., Fischer, A. H., Deerinck, T. J., & Hetzer, M. (2013). Catastrophic nuclear envelope collapse in cancer cell micronuclei. Cell. Elsevier. https://doi.org/10.1016/j.cell.2013.06.007","ista":"Hatch EM, Fischer AH, Deerinck TJ, Hetzer M. 2013. Catastrophic nuclear envelope collapse in cancer cell micronuclei. Cell. 154(1), 47–60."},"publication":"Cell","page":"47-60","article_type":"original","issue":"1","abstract":[{"lang":"eng","text":"During mitotic exit, missegregated chromosomes can recruit their own nuclear envelope (NE) to form micronuclei (MN). MN have reduced functioning compared to primary nuclei in the same cell, although the two compartments appear to be structurally comparable. Here we show that over 60% of MN undergo an irreversible loss of compartmentalization during interphase due to NE collapse. This disruption of the MN, which is induced by defects in nuclear lamina assembly, drastically reduces nuclear functions and can trigger massive DNA damage. MN disruption is associated with chromatin compaction and invasion of endoplasmic reticulum (ER) tubules into the chromatin. We identified disrupted MN in both major subtypes of human non-small-cell lung cancer, suggesting that disrupted MN could be a useful objective biomarker for genomic instability in solid tumors. Our study shows that NE collapse is a key event underlying MN dysfunction and establishes a link between aberrant NE organization and aneuploidy."}],"type":"journal_article","oa_version":"Published Version","_id":"11085","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","intvolume":" 154","title":"Catastrophic nuclear envelope collapse in cancer cell micronuclei","status":"public"},{"publication_identifier":{"issn":["0006-3495"]},"month":"04","external_id":{"pmid":["23601312"]},"main_file_link":[{"url":"https://doi.org/10.1016/j.bpj.2013.01.049","open_access":"1"}],"oa":1,"quality_controlled":"1","doi":"10.1016/j.bpj.2013.01.049","language":[{"iso":"eng"}],"extern":"1","pmid":1,"year":"2013","publisher":"Elsevier","publication_status":"published","author":[{"last_name":"Regner","first_name":"Benjamin M.","full_name":"Regner, Benjamin M."},{"full_name":"Vučinić, Dejan","last_name":"Vučinić","first_name":"Dejan"},{"first_name":"Cristina","last_name":"Domnisoru","full_name":"Domnisoru, Cristina"},{"last_name":"Bartol","first_name":"Thomas M.","full_name":"Bartol, Thomas M."},{"first_name":"Martin W","last_name":"HETZER","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W"},{"last_name":"Tartakovsky","first_name":"Daniel M.","full_name":"Tartakovsky, Daniel M."},{"full_name":"Sejnowski, Terrence J.","first_name":"Terrence J.","last_name":"Sejnowski"}],"volume":104,"date_updated":"2022-07-18T08:51:01Z","date_created":"2022-04-07T07:51:26Z","scopus_import":"1","keyword":["Biophysics"],"article_processing_charge":"No","day":"16","citation":{"chicago":"Regner, Benjamin M., Dejan Vučinić, Cristina Domnisoru, Thomas M. Bartol, Martin Hetzer, Daniel M. Tartakovsky, and Terrence J. Sejnowski. “Anomalous Diffusion of Single Particles in Cytoplasm.” Biophysical Journal. Elsevier, 2013. https://doi.org/10.1016/j.bpj.2013.01.049.","mla":"Regner, Benjamin M., et al. “Anomalous Diffusion of Single Particles in Cytoplasm.” Biophysical Journal, vol. 104, no. 8, Elsevier, 2013, pp. 1652–60, doi:10.1016/j.bpj.2013.01.049.","short":"B.M. Regner, D. Vučinić, C. Domnisoru, T.M. Bartol, M. Hetzer, D.M. Tartakovsky, T.J. Sejnowski, Biophysical Journal 104 (2013) 1652–1660.","ista":"Regner BM, Vučinić D, Domnisoru C, Bartol TM, Hetzer M, Tartakovsky DM, Sejnowski TJ. 2013. Anomalous diffusion of single particles in cytoplasm. Biophysical Journal. 104(8), 1652–1660.","apa":"Regner, B. M., Vučinić, D., Domnisoru, C., Bartol, T. M., Hetzer, M., Tartakovsky, D. M., & Sejnowski, T. J. (2013). Anomalous diffusion of single particles in cytoplasm. Biophysical Journal. Elsevier. https://doi.org/10.1016/j.bpj.2013.01.049","ieee":"B. M. Regner et al., “Anomalous diffusion of single particles in cytoplasm,” Biophysical Journal, vol. 104, no. 8. Elsevier, pp. 1652–1660, 2013.","ama":"Regner BM, Vučinić D, Domnisoru C, et al. Anomalous diffusion of single particles in cytoplasm. Biophysical Journal. 2013;104(8):1652-1660. doi:10.1016/j.bpj.2013.01.049"},"publication":"Biophysical Journal","page":"1652-1660","article_type":"original","date_published":"2013-04-16T00:00:00Z","type":"journal_article","issue":"8","abstract":[{"lang":"eng","text":"The crowded intracellular environment poses a formidable challenge to experimental and theoretical analyses of intracellular transport mechanisms. Our measurements of single-particle trajectories in cytoplasm and their random-walk interpretations elucidate two of these mechanisms: molecular diffusion in crowded environments and cytoskeletal transport along microtubules. We employed acousto-optic deflector microscopy to map out the three-dimensional trajectories of microspheres migrating in the cytosolic fraction of a cellular extract. Classical Brownian motion (BM), continuous time random walk, and fractional BM were alternatively used to represent these trajectories. The comparison of the experimental and numerical data demonstrates that cytoskeletal transport along microtubules and diffusion in the cytosolic fraction exhibit anomalous (nonFickian) behavior and posses statistically distinct signatures. Among the three random-walk models used, continuous time random walk provides the best representation of diffusion, whereas microtubular transport is accurately modeled with fractional BM."}],"_id":"11088","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","intvolume":" 104","status":"public","title":"Anomalous diffusion of single particles in cytoplasm","oa_version":"Published Version"},{"issue":"3","abstract":[{"lang":"eng","text":"Nuclear pore complex (NPC) proteins are known for their critical roles in regulating nucleocytoplasmic traffic of macromolecules across the nuclear envelope. However, recent findings suggest that some nucleoporins (Nups), including Nup98, have additional functions in developmental gene regulation. Nup98, which exhibits transcription-dependent mobility at the NPC but can also bind chromatin away from the nuclear envelope, is frequently involved in chromosomal translocations in a subset of patients suffering from acute myeloid leukemia (AML). A common paradigm suggests that Nup98 translocations cause aberrant transcription when they are recuited to aberrant genomic loci. Importantly, this model fails to account for the potential loss of wild type (WT) Nup98 function in the presence of Nup98 translocation mutants. Here we examine how the cell might regulate Nup98 nucleoplasmic protein levels to control transcription in healthy cells. In addition, we discuss the possibility that dominant negative Nup98 fusion proteins disrupt the transcriptional activity of WT Nup98 in the nucleoplasm to drive AML."}],"type":"journal_article","oa_version":"None","_id":"11083","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","intvolume":" 23","title":"The role of Nup98 in transcription regulation in healthy and diseased cells","status":"public","article_processing_charge":"No","day":"01","scopus_import":"1","keyword":["Cell Biology"],"date_published":"2013-03-01T00:00:00Z","citation":{"ama":"Franks TM, Hetzer M. The role of Nup98 in transcription regulation in healthy and diseased cells. Trends in Cell Biology. 2013;23(3):112-117. doi:10.1016/j.tcb.2012.10.013","ista":"Franks TM, Hetzer M. 2013. The role of Nup98 in transcription regulation in healthy and diseased cells. Trends in Cell Biology. 23(3), 112–117.","ieee":"T. M. Franks and M. Hetzer, “The role of Nup98 in transcription regulation in healthy and diseased cells,” Trends in Cell Biology, vol. 23, no. 3. Elsevier, pp. 112–117, 2013.","apa":"Franks, T. M., & Hetzer, M. (2013). The role of Nup98 in transcription regulation in healthy and diseased cells. Trends in Cell Biology. Elsevier. https://doi.org/10.1016/j.tcb.2012.10.013","mla":"Franks, Tobias M., and Martin Hetzer. “The Role of Nup98 in Transcription Regulation in Healthy and Diseased Cells.” Trends in Cell Biology, vol. 23, no. 3, Elsevier, 2013, pp. 112–17, doi:10.1016/j.tcb.2012.10.013.","short":"T.M. Franks, M. Hetzer, Trends in Cell Biology 23 (2013) 112–117.","chicago":"Franks, Tobias M., and Martin Hetzer. “The Role of Nup98 in Transcription Regulation in Healthy and Diseased Cells.” Trends in Cell Biology. Elsevier, 2013. https://doi.org/10.1016/j.tcb.2012.10.013."},"publication":"Trends in Cell Biology","page":"112-117","article_type":"letter_note","extern":"1","author":[{"full_name":"Franks, Tobias M.","first_name":"Tobias M.","last_name":"Franks"},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","orcid":"0000-0002-2111-992X","first_name":"Martin W","last_name":"HETZER","full_name":"HETZER, Martin W"}],"volume":23,"date_updated":"2022-07-18T08:45:34Z","date_created":"2022-04-07T07:50:33Z","pmid":1,"year":"2013","publisher":"Elsevier","publication_status":"published","publication_identifier":{"issn":["0962-8924"]},"month":"03","doi":"10.1016/j.tcb.2012.10.013","language":[{"iso":"eng"}],"external_id":{"pmid":["23246429"]},"quality_controlled":"1"},{"scopus_import":"1","keyword":["Cell Biology","Molecular Biology"],"day":"01","article_processing_charge":"No","publication":"Nature Reviews Molecular Cell Biology","citation":{"ama":"Toyama BH, Hetzer M. Protein homeostasis: Live long, won’t prosper. Nature Reviews Molecular Cell Biology. 2013;14:55-61. doi:10.1038/nrm3496","ieee":"B. H. Toyama and M. Hetzer, “Protein homeostasis: Live long, won’t prosper,” Nature Reviews Molecular Cell Biology, vol. 14. Springer Nature, pp. 55–61, 2013.","apa":"Toyama, B. H., & Hetzer, M. (2013). Protein homeostasis: Live long, won’t prosper. Nature Reviews Molecular Cell Biology. Springer Nature. https://doi.org/10.1038/nrm3496","ista":"Toyama BH, Hetzer M. 2013. Protein homeostasis: Live long, won’t prosper. Nature Reviews Molecular Cell Biology. 14, 55–61.","short":"B.H. Toyama, M. Hetzer, Nature Reviews Molecular Cell Biology 14 (2013) 55–61.","mla":"Toyama, Brandon H., and Martin Hetzer. “Protein Homeostasis: Live Long, Won’t Prosper.” Nature Reviews Molecular Cell Biology, vol. 14, Springer Nature, 2013, pp. 55–61, doi:10.1038/nrm3496.","chicago":"Toyama, Brandon H., and Martin Hetzer. “Protein Homeostasis: Live Long, Won’t Prosper.” Nature Reviews Molecular Cell Biology. Springer Nature, 2013. https://doi.org/10.1038/nrm3496."},"article_type":"original","page":"55-61","date_published":"2013-01-01T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Protein turnover is an effective way of maintaining a functional proteome, as old and potentially damaged polypeptides are destroyed and replaced by newly synthesized copies. An increasing number of intracellular proteins, however, have been identified that evade this turnover process and instead are maintained over a cell's lifetime. This diverse group of long-lived proteins might be particularly prone to accumulation of damage and thus have a crucial role in the functional deterioration of key regulatory processes during ageing."}],"_id":"11084","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","status":"public","title":"Protein homeostasis: Live long, won't prosper","intvolume":" 14","oa_version":"None","month":"01","publication_identifier":{"issn":["1471-0072","1471-0080"]},"external_id":{"pmid":["23258296"]},"quality_controlled":"1","doi":"10.1038/nrm3496","language":[{"iso":"eng"}],"extern":"1","year":"2013","pmid":1,"publication_status":"published","publisher":"Springer Nature","author":[{"first_name":"Brandon H.","last_name":"Toyama","full_name":"Toyama, Brandon H."},{"orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","first_name":"Martin W","full_name":"HETZER, Martin W"}],"date_updated":"2022-07-18T08:37:53Z","date_created":"2022-04-07T07:50:43Z","volume":14},{"extern":"1","abstract":[{"lang":"eng","text":"We present the design and performance characterization of a new experimental technique for measuring individual particle charges in large ensembles of macroscopic grains. The measurement principle is qualitatively similar to that used in determining the elementary charge by Millikan in that it follows individual particle trajectories. However, by taking advantage of new technology we are able to work with macroscopic grains and achieve several orders of magnitude better resolution in charge to mass ratios. By observing freely falling grains accelerated in a horizontal electric field with a co-falling, high-speed video camera, we dramatically increase particle tracking time and measurement precision. Keeping the granular medium under vacuum, we eliminate air drag, leaving the electrostatic force as the primary source of particle accelerations in the co-moving frame. Because the technique is based on direct imaging, we can distinguish between different particle types during the experiment, opening up the possibility of studying charge transfer processes between different particle species. For the ∼300 μm diameter grains reported here, we achieve an average acceleration resolution of ∼0.008 m/s2, a force resolution of ∼500 pN, and a median charge resolution ∼6× 104 elementary charges per grain (corresponding to surface charge densities ∼1 elementary charges per μm2). The primary source of error is indeterminacy in the grain mass, but with higher resolution cameras and better optics this can be further improved. The high degree of resolution and the ability to visually identify particles of different species or sizes with direct imaging make this a powerful new tool to characterize charging processes in granular media."}],"issue":"2","publist_id":"7939","article_number":"025104","type":"journal_article","date_created":"2018-12-11T11:44:42Z","date_updated":"2021-01-12T06:48:39Z","oa_version":"None","volume":84,"author":[{"full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2299-3176","first_name":"Scott R","last_name":"Waitukaitis"},{"full_name":"Jaeger, Heinrich","first_name":"Heinrich","last_name":"Jaeger"}],"publication_status":"published","status":"public","title":"In situ granular charge measurement by free-fall videography","intvolume":" 84","publisher":"AIP","year":"2013","_id":"115","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","acknowledgement":"This work was supported financially by the National Science Foundation (NSF) through its Materials Research Science and Engineering Center (MRSEC) program (DMR-0820054) and by the US Army Research Office through Grant No. W911NF-12-1-0182. S.R.W. acknowledges support from a University of Chicago Millikan Fellowship.","month":"02","day":"07","language":[{"iso":"eng"}],"date_published":"2013-02-07T00:00:00Z","doi":"10.1063/1.4789496","quality_controlled":"1","publication":"Review of Scientific Instruments","citation":{"ama":"Waitukaitis SR, Jaeger H. In situ granular charge measurement by free-fall videography. Review of Scientific Instruments. 2013;84(2). doi:10.1063/1.4789496","ista":"Waitukaitis SR, Jaeger H. 2013. In situ granular charge measurement by free-fall videography. Review of Scientific Instruments. 84(2), 025104.","apa":"Waitukaitis, S. R., & Jaeger, H. (2013). In situ granular charge measurement by free-fall videography. Review of Scientific Instruments. AIP. https://doi.org/10.1063/1.4789496","ieee":"S. R. Waitukaitis and H. Jaeger, “In situ granular charge measurement by free-fall videography,” Review of Scientific Instruments, vol. 84, no. 2. AIP, 2013.","mla":"Waitukaitis, Scott R., and Heinrich Jaeger. “In Situ Granular Charge Measurement by Free-Fall Videography.” Review of Scientific Instruments, vol. 84, no. 2, 025104, AIP, 2013, doi:10.1063/1.4789496.","short":"S.R. Waitukaitis, H. Jaeger, Review of Scientific Instruments 84 (2013).","chicago":"Waitukaitis, Scott R, and Heinrich Jaeger. “In Situ Granular Charge Measurement by Free-Fall Videography.” Review of Scientific Instruments. AIP, 2013. https://doi.org/10.1063/1.4789496."}},{"publication_status":"published","publisher":"IOP Publishing","year":"2013","acknowledgement":"We thank the referee for many helpful comments and suggestions which greatly improved the clarity and quality of this work. D.S. acknowledges financial support from the Netherlands Organisation for Scientific research (NWO) through a Veni fellowship and also funding from the European Community Seventh Framework Programme (FP7/2007-2013) under grant agreement number RG226604 (OPTICON) which allowed access to CFHT time (proposals: 11BO29 & 12AO19). A.M.S. gratefully acknowledges an STFC Advanced Fellowship through grant number ST/H005234/1. I.R.S., J.P.S., and R.G.B. acknowledge support from the UK Science and Technology Facilities Council (STFC) under ST/I001573/1. I.R.S. acknowledges STFC (ST/J001422/1), the ERC Advanced Investigator program DUSTYGAL and a Royal Society/Wolfson Merit Award. P.N.B. acknowledges support from STFC. R.M.S. acknowledges support from the grant ST/1001573/1. The data presented here are based on observations with the KMOS spectrograph on the ESO/VLT under program 60.A-9460 and can be accessed through the ESO data archive. The authors also wish to acknowledge the help from Michael Hilker in preparing the KMOS observations.","date_updated":"2022-08-18T10:43:07Z","date_created":"2022-07-07T09:14:48Z","volume":779,"author":[{"full_name":"Sobral, D.","first_name":"D.","last_name":"Sobral"},{"last_name":"Swinbank","first_name":"A. M.","full_name":"Swinbank, A. M."},{"full_name":"Stott, J. P.","first_name":"J. P.","last_name":"Stott"},{"full_name":"Matthee, Jorryt J","first_name":"Jorryt J","last_name":"Matthee","id":"7439a258-f3c0-11ec-9501-9df22fe06720","orcid":"0000-0003-2871-127X"},{"full_name":"Bower, R. G.","last_name":"Bower","first_name":"R. G."},{"full_name":"Smail, Ian","last_name":"Smail","first_name":"Ian"},{"full_name":"Best, P.","last_name":"Best","first_name":"P."},{"last_name":"Geach","first_name":"J. E.","full_name":"Geach, J. E."},{"full_name":"Sharples, R. M.","last_name":"Sharples","first_name":"R. M."}],"article_number":"139","extern":"1","quality_controlled":"1","external_id":{"arxiv":["1310.3822"]},"oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1310.3822","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1088/0004-637x/779/2/139","month":"12","publication_identifier":{"issn":["0004-637X"],"eissn":["1538-4357"]},"title":"The dynamics of z=0.8 H-alpha-selected star-forming galaxies from KMOS/CF-HiZELS","status":"public","intvolume":" 779","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"11520","oa_version":"Preprint","type":"journal_article","abstract":[{"text":"We present the spatially resolved Hα dynamics of 16 star-forming galaxies at z ∼ 0.81 using the new KMOS multi-object integral field spectrograph on the ESO Very Large Telescope. These galaxies, selected using 1.18 μm narrowband imaging from the 10 deg2 CFHT-HiZELS survey of the SA 22 hr field, are found in a ∼4 Mpc overdensity of Hα emitters and likely reside in a group/intermediate environment, but not a cluster. We confirm and identify a rich group of star-forming galaxies at z = 0.813 ± 0.003, with 13 galaxies within 1000 km s−1 of each other, and seven within a diameter of 3 Mpc. All of our galaxies are “typical” star-forming galaxies at their redshift, 0.8 ± 0.4 SFR$^*_{z = 0.8}$, spanning a range of specific star formation rates (sSFRs) of 0.2–1.1 Gyr−1 and have a median metallicity very close to solar of 12 + log(O/H) = 8.62 ± 0.06. We measure the spatially resolved Hα dynamics of the galaxies in our sample and show that 13 out of 16 galaxies can be described by rotating disks and use the data to derive inclination corrected rotation speeds of 50–275 km s−1. The fraction of disks within our sample is 75% ± 8%, consistent with previous results based on Hubble Space Telescope morphologies of Hα-selected galaxies at z ∼ 1 and confirming that disks dominate the SFR density at z ∼ 1. Our Hα galaxies are well fitted by the z ∼ 1–2 Tully–Fisher (TF) relation, confirming the evolution seen in the zero point. Apart from having, on average, higher stellar masses and lower sSFRs, our group galaxies at z = 0.81 present the same mass–metallicity and TF relation as z ∼ 1 field galaxies and are all disk galaxies.","lang":"eng"}],"issue":"2","article_type":"original","publication":"The Astrophysical Journal","citation":{"ista":"Sobral D, Swinbank AM, Stott JP, Matthee JJ, Bower RG, Smail I, Best P, Geach JE, Sharples RM. 2013. The dynamics of z=0.8 H-alpha-selected star-forming galaxies from KMOS/CF-HiZELS. The Astrophysical Journal. 779(2), 139.","ieee":"D. Sobral et al., “The dynamics of z=0.8 H-alpha-selected star-forming galaxies from KMOS/CF-HiZELS,” The Astrophysical Journal, vol. 779, no. 2. IOP Publishing, 2013.","apa":"Sobral, D., Swinbank, A. M., Stott, J. P., Matthee, J. J., Bower, R. G., Smail, I., … Sharples, R. M. (2013). The dynamics of z=0.8 H-alpha-selected star-forming galaxies from KMOS/CF-HiZELS. The Astrophysical Journal. IOP Publishing. https://doi.org/10.1088/0004-637x/779/2/139","ama":"Sobral D, Swinbank AM, Stott JP, et al. The dynamics of z=0.8 H-alpha-selected star-forming galaxies from KMOS/CF-HiZELS. The Astrophysical Journal. 2013;779(2). doi:10.1088/0004-637x/779/2/139","chicago":"Sobral, D., A. M. Swinbank, J. P. Stott, Jorryt J Matthee, R. G. Bower, Ian Smail, P. Best, J. E. Geach, and R. M. Sharples. “The Dynamics of Z=0.8 H-Alpha-Selected Star-Forming Galaxies from KMOS/CF-HiZELS.” The Astrophysical Journal. IOP Publishing, 2013. https://doi.org/10.1088/0004-637x/779/2/139.","mla":"Sobral, D., et al. “The Dynamics of Z=0.8 H-Alpha-Selected Star-Forming Galaxies from KMOS/CF-HiZELS.” The Astrophysical Journal, vol. 779, no. 2, 139, IOP Publishing, 2013, doi:10.1088/0004-637x/779/2/139.","short":"D. Sobral, A.M. Swinbank, J.P. Stott, J.J. Matthee, R.G. Bower, I. Smail, P. Best, J.E. Geach, R.M. Sharples, The Astrophysical Journal 779 (2013)."},"date_published":"2013-12-03T00:00:00Z","keyword":["Space and Planetary Science","Astronomy and Astrophysics","galaxies: evolution – galaxies","high-redshift – galaxies","starburst"],"scopus_import":"1","day":"03","article_processing_charge":"No"},{"oa_version":"None","volume":102,"date_created":"2018-12-11T11:44:43Z","date_updated":"2021-01-12T06:48:44Z","author":[{"id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2299-3176","first_name":"Scott R","last_name":"Waitukaitis","full_name":"Waitukaitis, Scott R"},{"full_name":"Roth, Leah","last_name":"Roth","first_name":"Leah"},{"first_name":"Vincenzo","last_name":"Vitelli","full_name":"Vitelli, Vincenzo"},{"last_name":"Jaeger","first_name":"Heinrich","full_name":"Jaeger, Heinrich"}],"intvolume":" 102","publisher":"Elsevier","status":"public","title":"Dynamic jamming fronts","publication_status":"published","_id":"116","acknowledgement":"This work was supported by the National Science Foundation (NSF) through its Materials Research Science and Engineering program (DMR-0820054). SRW was supported by the U.S. Department of Energy, Office of Basic Energy Sciences, Division of Materials Sciences and Engineering under Award DE-FG02-03ER46088. LKR acknowledges support through the NSF Research Experience for Undergraduates program.","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","year":"2013","extern":"1","issue":"4","publist_id":"7938","abstract":[{"lang":"eng","text":"We describe a model experiment for dynamic jamming: a two-dimensional collection of initially unjammed disks that are forced into the jammed state by uniaxial compression via a rake. This leads to a stable densification front that travels ahead of the rake, leaving regions behind it jammed. Using disk conservation in conjunction with an upper limit to the packing fraction at jamming onset, we predict the front speed as a function of packing fraction and rake speed. However, we find that the jamming front has a finite width, a feature that cannot be explained by disk conservation alone. This width appears to diverge on approach to jamming, which suggests that it may be related to growing lengthscales encountered in other jamming studies."}],"type":"journal_article","article_number":"44001","language":[{"iso":"eng"}],"date_published":"2013-05-24T00:00:00Z","doi":"10.1209/0295-5075/102/44001","quality_controlled":"1","citation":{"ama":"Waitukaitis SR, Roth L, Vitelli V, Jaeger H. Dynamic jamming fronts. EPL. 2013;102(4). doi:10.1209/0295-5075/102/44001","ieee":"S. R. Waitukaitis, L. Roth, V. Vitelli, and H. Jaeger, “Dynamic jamming fronts,” EPL, vol. 102, no. 4. Elsevier, 2013.","apa":"Waitukaitis, S. R., Roth, L., Vitelli, V., & Jaeger, H. (2013). Dynamic jamming fronts. EPL. Elsevier. https://doi.org/10.1209/0295-5075/102/44001","ista":"Waitukaitis SR, Roth L, Vitelli V, Jaeger H. 2013. Dynamic jamming fronts. EPL. 102(4), 44001.","short":"S.R. Waitukaitis, L. Roth, V. Vitelli, H. Jaeger, EPL 102 (2013).","mla":"Waitukaitis, Scott R., et al. “Dynamic Jamming Fronts.” EPL, vol. 102, no. 4, 44001, Elsevier, 2013, doi:10.1209/0295-5075/102/44001.","chicago":"Waitukaitis, Scott R, Leah Roth, Vincenzo Vitelli, and Heinrich Jaeger. “Dynamic Jamming Fronts.” EPL. Elsevier, 2013. https://doi.org/10.1209/0295-5075/102/44001."},"publication":"EPL","day":"24","month":"05"},{"month":"03","publication_identifier":{"eissn":["1559-114X"],"issn":["1559-1131"]},"quality_controlled":"1","doi":"10.1145/2435215.2435218","language":[{"iso":"eng"}],"article_number":"3","extern":"1","year":"2013","publication_status":"published","publisher":"Association for Computing Machinery","author":[{"full_name":"Baykan, Eda","last_name":"Baykan","first_name":"Eda"},{"first_name":"Ingmar","last_name":"Weber","full_name":"Weber, Ingmar"},{"first_name":"Monika H","last_name":"Henzinger","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","full_name":"Henzinger, Monika H"}],"date_updated":"2022-09-12T08:51:57Z","date_created":"2022-07-27T12:50:18Z","volume":7,"scopus_import":"1","keyword":["Computer Networks and Communications"],"day":"01","article_processing_charge":"No","publication":"ACM Transactions on the Web","citation":{"ieee":"E. Baykan, I. Weber, and M. H. Henzinger, “A comprehensive study of techniques for URL-based web page language classification,” ACM Transactions on the Web, vol. 7, no. 1. Association for Computing Machinery, 2013.","apa":"Baykan, E., Weber, I., & Henzinger, M. H. (2013). A comprehensive study of techniques for URL-based web page language classification. ACM Transactions on the Web. Association for Computing Machinery. https://doi.org/10.1145/2435215.2435218","ista":"Baykan E, Weber I, Henzinger MH. 2013. A comprehensive study of techniques for URL-based web page language classification. ACM Transactions on the Web. 7(1), 3.","ama":"Baykan E, Weber I, Henzinger MH. A comprehensive study of techniques for URL-based web page language classification. ACM Transactions on the Web. 2013;7(1). doi:10.1145/2435215.2435218","chicago":"Baykan, Eda, Ingmar Weber, and Monika H Henzinger. “A Comprehensive Study of Techniques for URL-Based Web Page Language Classification.” ACM Transactions on the Web. Association for Computing Machinery, 2013. https://doi.org/10.1145/2435215.2435218.","short":"E. Baykan, I. Weber, M.H. Henzinger, ACM Transactions on the Web 7 (2013).","mla":"Baykan, Eda, et al. “A Comprehensive Study of Techniques for URL-Based Web Page Language Classification.” ACM Transactions on the Web, vol. 7, no. 1, 3, Association for Computing Machinery, 2013, doi:10.1145/2435215.2435218."},"article_type":"original","date_published":"2013-03-01T00:00:00Z","type":"journal_article","abstract":[{"text":"Given only the URL of a Web page, can we identify its language? In this article we examine this question. URL-based language classification is useful when the content of the Web page is not available or downloading the content is a waste of bandwidth and time.\r\nWe built URL-based language classifiers for English, German, French, Spanish, and Italian by applying a variety of algorithms and features. As algorithms we used machine learning algorithms which are widely applied for text classification and state-of-art algorithms for language identification of text. As features we used words, various sized n-grams, and custom-made features (our novel feature set). We compared our approaches with two baseline methods, namely classification by country code top-level domains and classification by IP addresses of the hosting Web servers.\r\n\r\nWe trained and tested our classifiers in a 10-fold cross-validation setup on a dataset obtained from the Open Directory Project and from querying a commercial search engine. We obtained the lowest F1-measure for English (94) and the highest F1-measure for German (98) with the best performing classifiers.\r\n\r\nWe also evaluated the performance of our methods: (i) on a set of Web pages written in Adobe Flash and (ii) as part of a language-focused crawler. In the first case, the content of the Web page is hard to extract and in the second page downloading pages of the “wrong” language constitutes a waste of bandwidth. In both settings the best classifiers have a high accuracy with an F1-measure between 95 (for English) and 98 (for Italian) for the Adobe Flash pages and a precision between 90 (for Italian) and 97 (for French) for the language-focused crawler.","lang":"eng"}],"issue":"1","_id":"11671","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"A comprehensive study of techniques for URL-based web page language classification","status":"public","intvolume":" 7","oa_version":"None"},{"type":"conference","extern":"1","publist_id":"7937","abstract":[{"lang":"eng","text":"The packing arrangement of individual particles inside a granular material and the resulting response to applied stresses depend critically on particle-particle interactions. One aspect that recently received attention are nanoscale surface features of particles, which play an important role in determining the strength of cohesive van der Waals and capillary interactions and also affect tribo-charging of grains. We describe experiments on freely falling granular streams that can detect the contributions from all three of these forces. We show that it is possible to measure the charge of individual grains and build up distributions that are detailed enough to provide stringent tests of tribo-charging models currently available. A second aspect concerns particle shape. In this case steric interactions become important and new types of aggregate behavior can be expected when non-convex particle shapes are considered that can interlock or entangle. However, a general connection between the mechanical response of a granular material and the constituents\\' shape remains unknown. This has made it infeasible to tackle the "inverse packing problem", namely to start from a given, desired behavior for the aggregate as a whole and then find the particle shape the produces it. We discuss a new approach, using concepts rooted in artificial evolution that provides a way to solve this inverse problem. This approach facilitates exploring the role of arbitrary particle geometry in jammed systems and invites the discovery and design of granular matter with optimized properties."}],"intvolume":" 1542","publisher":"AIP","publication_status":"published","status":"public","title":"From nanoscale cohesion to macroscale entanglement: opportunities for designing granular aggregate behaviour by tailoring grain shape and interactions","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"117","year":"2013","acknowledgement":"This work was supported by the NSF MRSEC program under DMR-0820054. Additional support came from the US Army Research Office through W911NF-12-1-0182.","oa_version":"None","volume":1542,"date_updated":"2021-01-12T06:48:49Z","date_created":"2018-12-11T11:44:43Z","author":[{"last_name":"Jaeger","first_name":"Heinrich","full_name":"Jaeger, Heinrich"},{"full_name":"Miskin, Marc","first_name":"Marc","last_name":"Miskin"},{"full_name":"Waitukaitis, Scott R","first_name":"Scott R","last_name":"Waitukaitis","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2299-3176"}],"month":"06","day":"01","page":"3 - 6","quality_controlled":"1","citation":{"ama":"Jaeger H, Miskin M, Waitukaitis SR. From nanoscale cohesion to macroscale entanglement: opportunities for designing granular aggregate behaviour by tailoring grain shape and interactions. In: AIP Conference Proceedings. Vol 1542. AIP; 2013:3-6. doi:10.1063/1.4811858","ista":"Jaeger H, Miskin M, Waitukaitis SR. 2013. From nanoscale cohesion to macroscale entanglement: opportunities for designing granular aggregate behaviour by tailoring grain shape and interactions. AIP Conference Proceedings. Powders and Grains vol. 1542, 3–6.","ieee":"H. Jaeger, M. Miskin, and S. R. Waitukaitis, “From nanoscale cohesion to macroscale entanglement: opportunities for designing granular aggregate behaviour by tailoring grain shape and interactions,” in AIP Conference Proceedings, Sydney, Australia, 2013, vol. 1542, pp. 3–6.","apa":"Jaeger, H., Miskin, M., & Waitukaitis, S. R. (2013). From nanoscale cohesion to macroscale entanglement: opportunities for designing granular aggregate behaviour by tailoring grain shape and interactions. In AIP Conference Proceedings (Vol. 1542, pp. 3–6). Sydney, Australia: AIP. https://doi.org/10.1063/1.4811858","mla":"Jaeger, Heinrich, et al. “From Nanoscale Cohesion to Macroscale Entanglement: Opportunities for Designing Granular Aggregate Behaviour by Tailoring Grain Shape and Interactions.” AIP Conference Proceedings, vol. 1542, AIP, 2013, pp. 3–6, doi:10.1063/1.4811858.","short":"H. Jaeger, M. Miskin, S.R. Waitukaitis, in:, AIP Conference Proceedings, AIP, 2013, pp. 3–6.","chicago":"Jaeger, Heinrich, Marc Miskin, and Scott R Waitukaitis. “From Nanoscale Cohesion to Macroscale Entanglement: Opportunities for Designing Granular Aggregate Behaviour by Tailoring Grain Shape and Interactions.” In AIP Conference Proceedings, 1542:3–6. AIP, 2013. https://doi.org/10.1063/1.4811858."},"publication":" AIP Conference Proceedings","language":[{"iso":"eng"}],"doi":"10.1063/1.4811858","date_published":"2013-06-01T00:00:00Z","conference":{"end_date":"2013-07-12","location":"Sydney, Australia","start_date":"2013-07-08","name":"Powders and Grains"}},{"month":"02","publication_identifier":{"issn":["0020-0190"]},"external_id":{"arxiv":["0912.1934"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/0912.1934"}],"oa":1,"quality_controlled":"1","doi":"10.1016/j.ipl.2012.11.006","language":[{"iso":"eng"}],"extern":"1","year":"2013","publication_status":"published","publisher":"Elsevier","author":[{"full_name":"Dütting, Paul","last_name":"Dütting","first_name":"Paul"},{"id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","first_name":"Monika H","last_name":"Henzinger","full_name":"Henzinger, Monika H"},{"last_name":"Weber","first_name":"Ingmar","full_name":"Weber, Ingmar"}],"date_created":"2022-08-08T11:29:08Z","date_updated":"2022-09-12T09:36:15Z","volume":113,"scopus_import":"1","day":"15","article_processing_charge":"No","publication":"Information Processing Letters","citation":{"mla":"Dütting, Paul, et al. “Sponsored Search, Market Equilibria, and the Hungarian Method.” Information Processing Letters, vol. 113, no. 3, Elsevier, 2013, pp. 67–73, doi:10.1016/j.ipl.2012.11.006.","short":"P. Dütting, M.H. Henzinger, I. Weber, Information Processing Letters 113 (2013) 67–73.","chicago":"Dütting, Paul, Monika H Henzinger, and Ingmar Weber. “Sponsored Search, Market Equilibria, and the Hungarian Method.” Information Processing Letters. Elsevier, 2013. https://doi.org/10.1016/j.ipl.2012.11.006.","ama":"Dütting P, Henzinger MH, Weber I. Sponsored search, market equilibria, and the Hungarian Method. Information Processing Letters. 2013;113(3):67-73. doi:10.1016/j.ipl.2012.11.006","ista":"Dütting P, Henzinger MH, Weber I. 2013. Sponsored search, market equilibria, and the Hungarian Method. Information Processing Letters. 113(3), 67–73.","ieee":"P. Dütting, M. H. Henzinger, and I. Weber, “Sponsored search, market equilibria, and the Hungarian Method,” Information Processing Letters, vol. 113, no. 3. Elsevier, pp. 67–73, 2013.","apa":"Dütting, P., Henzinger, M. H., & Weber, I. (2013). Sponsored search, market equilibria, and the Hungarian Method. Information Processing Letters. Elsevier. https://doi.org/10.1016/j.ipl.2012.11.006"},"article_type":"original","page":"67-73","date_published":"2013-02-15T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Matching markets play a prominent role in economic theory. A prime example of such a market is the sponsored search market. Here, as in other markets of that kind, market equilibria correspond to feasible, envy free, and bidder optimal outcomes. For settings without budgets such an outcome always exists and can be computed in polynomial-time by the so-called Hungarian Method. Moreover, every mechanism that computes such an outcome is incentive compatible. We show that the Hungarian Method can be modified so that it finds a feasible, envy free, and bidder optimal outcome for settings with budgets. We also show that in settings with budgets no mechanism that computes such an outcome can be incentive compatible for all inputs. For inputs in general position, however, the presented mechanism—as any other mechanism that computes such an outcome for settings with budgets—is incentive compatible."}],"issue":"3","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"11759","status":"public","title":"Sponsored search, market equilibria, and the Hungarian Method","intvolume":" 113","oa_version":"Preprint"},{"publication_identifier":{"isbn":["9783642392115"],"issn":["1611-3349"]},"month":"07","external_id":{"arxiv":["1512.08147"]},"main_file_link":[{"url":"https://arxiv.org/abs/1512.08147","open_access":"1"}],"oa":1,"quality_controlled":"1","doi":"10.1007/978-3-642-39212-2_53","conference":{"end_date":"2013-07-12","location":"Riga, Latvia","start_date":"2013-07-08","name":"ICALP: International Colloquium on Automata, Languages, and Programming"},"language":[{"iso":"eng"}],"extern":"1","year":"2013","publisher":"Springer Nature","publication_status":"published","related_material":{"record":[{"id":"11793","status":"public","relation":"later_version"}]},"author":[{"id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","first_name":"Monika H","last_name":"Henzinger","full_name":"Henzinger, Monika H"},{"full_name":"Krinninger, Sebastian","first_name":"Sebastian","last_name":"Krinninger"},{"last_name":"Nanongkai","first_name":"Danupon","full_name":"Nanongkai, Danupon"}],"volume":7966,"date_created":"2022-08-11T11:25:13Z","date_updated":"2023-02-21T16:28:26Z","scopus_import":"1","article_processing_charge":"No","day":"01","citation":{"short":"M.H. Henzinger, S. Krinninger, D. Nanongkai, in:, 40th International Colloquium on Automata, Languages, and Programming, Springer Nature, 2013, pp. 607–619.","mla":"Henzinger, Monika H., et al. “Sublinear-Time Maintenance of Breadth-First Spanning Tree in Partially Dynamic Networks.” 40th International Colloquium on Automata, Languages, and Programming, vol. 7966, Springer Nature, 2013, pp. 607–619, doi:10.1007/978-3-642-39212-2_53.","chicago":"Henzinger, Monika H, Sebastian Krinninger, and Danupon Nanongkai. “Sublinear-Time Maintenance of Breadth-First Spanning Tree in Partially Dynamic Networks.” In 40th International Colloquium on Automata, Languages, and Programming, 7966:607–619. Springer Nature, 2013. https://doi.org/10.1007/978-3-642-39212-2_53.","ama":"Henzinger MH, Krinninger S, Nanongkai D. Sublinear-time maintenance of breadth-first spanning tree in partially dynamic networks. In: 40th International Colloquium on Automata, Languages, and Programming. Vol 7966. Springer Nature; 2013:607–619. doi:10.1007/978-3-642-39212-2_53","ieee":"M. H. Henzinger, S. Krinninger, and D. Nanongkai, “Sublinear-time maintenance of breadth-first spanning tree in partially dynamic networks,” in 40th International Colloquium on Automata, Languages, and Programming, Riga, Latvia, 2013, vol. 7966, pp. 607–619.","apa":"Henzinger, M. H., Krinninger, S., & Nanongkai, D. (2013). Sublinear-time maintenance of breadth-first spanning tree in partially dynamic networks. In 40th International Colloquium on Automata, Languages, and Programming (Vol. 7966, pp. 607–619). Riga, Latvia: Springer Nature. https://doi.org/10.1007/978-3-642-39212-2_53","ista":"Henzinger MH, Krinninger S, Nanongkai D. 2013. Sublinear-time maintenance of breadth-first spanning tree in partially dynamic networks. 40th International Colloquium on Automata, Languages, and Programming. ICALP: International Colloquium on Automata, Languages, and Programming, LNCS, vol. 7966, 607–619."},"publication":"40th International Colloquium on Automata, Languages, and Programming","page":"607–619","date_published":"2013-07-01T00:00:00Z","type":"conference","alternative_title":["LNCS"],"abstract":[{"lang":"eng","text":"We study the problem of maintaining a breadth-first spanning tree (BFS tree) in partially dynamic distributed networks modeling a sequence of either failures or additions of communication links (but not both). We show (1 + ε)-approximation algorithms whose amortized time (over some number of link changes) is sublinear in D, the maximum diameter of the network. This breaks the Θ(D) time bound of recomputing “from scratch”.\r\n\r\nOur technique also leads to a (1 + ε)-approximate incremental algorithm for single-source shortest paths (SSSP) in the sequential (usual RAM) model. Prior to our work, the state of the art was the classic exact algorithm of [9] that is optimal under some assumptions [27]. Our result is the first to show that, in the incremental setting, this bound can be beaten in certain cases if a small approximation is allowed."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"11793","intvolume":" 7966","status":"public","title":"Sublinear-time maintenance of breadth-first spanning tree in partially dynamic networks","oa_version":"Preprint"},{"quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/1310.3153","open_access":"1"}],"external_id":{"arxiv":["1310.3153"]},"oa":1,"language":[{"iso":"eng"}],"conference":{"location":"Cambridge, MA, USA","start_date":"2013-12-01","end_date":"2013-12-14","name":"WINE: International Conference on Web and Internet Economics"},"doi":"10.1007/978-3-642-45046-4_13","month":"12","publication_identifier":{"isbn":["9783642450457"],"issn":["1611-3349"]},"publication_status":"published","publisher":"Springer Nature","year":"2013","date_updated":"2023-02-13T11:20:42Z","date_created":"2022-08-11T11:05:14Z","volume":8289,"author":[{"full_name":"Dütting, Paul","first_name":"Paul","last_name":"Dütting"},{"full_name":"Henzinger, Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","first_name":"Monika H","last_name":"Henzinger"},{"full_name":"Starnberger, Martin","first_name":"Martin","last_name":"Starnberger"}],"extern":"1","page":"146–159","publication":"9th International Conference on Web and Internet Economics","citation":{"chicago":"Dütting, Paul, Monika H Henzinger, and Martin Starnberger. “Valuation Compressions in VCG-Based Combinatorial Auctions.” In 9th International Conference on Web and Internet Economics, 8289:146–159. Springer Nature, 2013. https://doi.org/10.1007/978-3-642-45046-4_13.","short":"P. Dütting, M.H. Henzinger, M. Starnberger, in:, 9th International Conference on Web and Internet Economics, Springer Nature, 2013, pp. 146–159.","mla":"Dütting, Paul, et al. “Valuation Compressions in VCG-Based Combinatorial Auctions.” 9th International Conference on Web and Internet Economics, vol. 8289, Springer Nature, 2013, pp. 146–159, doi:10.1007/978-3-642-45046-4_13.","ieee":"P. Dütting, M. H. Henzinger, and M. Starnberger, “Valuation compressions in VCG-based combinatorial auctions,” in 9th International Conference on Web and Internet Economics, Cambridge, MA, USA, 2013, vol. 8289, pp. 146–159.","apa":"Dütting, P., Henzinger, M. H., & Starnberger, M. (2013). Valuation compressions in VCG-based combinatorial auctions. In 9th International Conference on Web and Internet Economics (Vol. 8289, pp. 146–159). Cambridge, MA, USA: Springer Nature. https://doi.org/10.1007/978-3-642-45046-4_13","ista":"Dütting P, Henzinger MH, Starnberger M. 2013. Valuation compressions in VCG-based combinatorial auctions. 9th International Conference on Web and Internet Economics. WINE: International Conference on Web and Internet Economics, LNCS, vol. 8289, 146–159.","ama":"Dütting P, Henzinger MH, Starnberger M. Valuation compressions in VCG-based combinatorial auctions. In: 9th International Conference on Web and Internet Economics. Vol 8289. Springer Nature; 2013:146–159. doi:10.1007/978-3-642-45046-4_13"},"date_published":"2013-12-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No","status":"public","title":"Valuation compressions in VCG-based combinatorial auctions","intvolume":" 8289","_id":"11791","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Preprint","alternative_title":["LNCS"],"type":"conference","abstract":[{"text":"The focus of classic mechanism design has been on truthful direct-revelation mechanisms. In the context of combinatorial auctions the truthful direct-revelation mechanism that maximizes social welfare is the VCG mechanism. For many valuation spaces computing the allocation and payments of the VCG mechanism, however, is a computationally hard problem. We thus study the performance of the VCG mechanism when bidders are forced to choose bids from a subspace of the valuation space for which the VCG outcome can be computed efficiently. We prove improved upper bounds on the welfare loss for restrictions to additive bids and upper and lower bounds for restrictions to non-additive bids. These bounds show that the welfare loss increases in expressiveness. All our bounds apply to equilibrium concepts that can be computed in polynomial time as well as to learning outcomes.","lang":"eng"}]},{"oa_version":"Preprint","intvolume":" 8125","status":"public","title":"Maximizing a submodular function with viability constraints","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"11792","abstract":[{"lang":"eng","text":"We study the problem of maximizing a monotone submodular function with viability constraints. This problem originates from computational biology, where we are given a phylogenetic tree over a set of species and a directed graph, the so-called food web, encoding viability constraints between these species. These food webs usually have constant depth. The goal is to select a subset of k species that satisfies the viability constraints and has maximal phylogenetic diversity. As this problem is known to be NP-hard, we investigate approximation algorithm. We present the first constant factor approximation algorithm if the depth is constant. Its approximation ratio is (1−1𝑒√). This algorithm not only applies to phylogenetic trees with viability constraints but for arbitrary monotone submodular set functions with viability constraints. Second, we show that there is no (1 − 1/e + ε)-approximation algorithm for our problem setting (even for additive functions) and that there is no approximation algorithm for a slight extension of this setting."}],"alternative_title":["LNCS"],"type":"conference","date_published":"2013-09-01T00:00:00Z","page":"409 - 420","citation":{"chicago":"Dvořák, Wolfgang, Monika H Henzinger, and David P. Williamson. “Maximizing a Submodular Function with Viability Constraints.” In 21st Annual European Symposium on Algorithms, 8125:409–20. Springer Nature, 2013. https://doi.org/10.1007/978-3-642-40450-4_35.","short":"W. Dvořák, M.H. Henzinger, D.P. Williamson, in:, 21st Annual European Symposium on Algorithms, Springer Nature, 2013, pp. 409–420.","mla":"Dvořák, Wolfgang, et al. “Maximizing a Submodular Function with Viability Constraints.” 21st Annual European Symposium on Algorithms, vol. 8125, Springer Nature, 2013, pp. 409–20, doi:10.1007/978-3-642-40450-4_35.","ieee":"W. Dvořák, M. H. Henzinger, and D. P. Williamson, “Maximizing a submodular function with viability constraints,” in 21st Annual European Symposium on Algorithms, Sophia Antipolis, France, 2013, vol. 8125, pp. 409–420.","apa":"Dvořák, W., Henzinger, M. H., & Williamson, D. P. (2013). Maximizing a submodular function with viability constraints. In 21st Annual European Symposium on Algorithms (Vol. 8125, pp. 409–420). Sophia Antipolis, France: Springer Nature. https://doi.org/10.1007/978-3-642-40450-4_35","ista":"Dvořák W, Henzinger MH, Williamson DP. 2013. Maximizing a submodular function with viability constraints. 21st Annual European Symposium on Algorithms. ESA: European Symposium on Algorithms, LNCS, vol. 8125, 409–420.","ama":"Dvořák W, Henzinger MH, Williamson DP. Maximizing a submodular function with viability constraints. In: 21st Annual European Symposium on Algorithms. Vol 8125. Springer Nature; 2013:409-420. doi:10.1007/978-3-642-40450-4_35"},"publication":"21st Annual European Symposium on Algorithms","article_processing_charge":"No","day":"01","scopus_import":"1","volume":8125,"date_updated":"2023-02-21T16:28:24Z","date_created":"2022-08-11T11:18:19Z","related_material":{"record":[{"id":"11792","relation":"later_version","status":"public"}]},"author":[{"last_name":"Dvořák","first_name":"Wolfgang","full_name":"Dvořák, Wolfgang"},{"orcid":"0000-0002-5008-6530","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","last_name":"Henzinger","first_name":"Monika H","full_name":"Henzinger, Monika H"},{"full_name":"Williamson, David P.","last_name":"Williamson","first_name":"David P."}],"publisher":"Springer Nature","publication_status":"published","year":"2013","extern":"1","language":[{"iso":"eng"}],"doi":"10.1007/978-3-642-40450-4_35","conference":{"name":"ESA: European Symposium on Algorithms","start_date":"2013-09-02","location":"Sophia Antipolis, France","end_date":"2013-09-04"},"quality_controlled":"1","oa":1,"external_id":{"arxiv":["1611.05753"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1611.05753"}],"publication_identifier":{"isbn":["9783642404498"],"issn":["1611-3349"]},"month":"09"},{"extern":"1","abstract":[{"lang":"eng","text":"We study dynamic (1 + ϵ)-approximation algorithms for the all-pairs shortest paths problem in unweighted undirected n-node m-edge graphs under edge deletions. The fastest algorithm for this problem is a randomized algorithm with a total update time of Ȏ(mn) and constant query time by Roditty and Zwick (FOCS 2004). The fastest deterministic algorithm is from a 1981 paper by Even and Shiloach (JACM 1981); it has a total update time of O(mn 2 ) and constant query time. We improve these results as follows: (1) We present an algorithm with a total update time of Ȏ(n 5/2 ) and constant query time that has an additive error of two in addition to the 1 + ϵ multiplicative error. This beats the previous Ȏ(mn) time when m = Ω(n 3/2 ). Note that the additive error is unavoidable since, even in the static case, an O(n 3-δ )-time (a so-called truly sub cubic) combinatorial algorithm with 1 + ϵ multiplicative error cannot have an additive error less than 2 - ϵ, unless we make a major breakthrough for Boolean matrix multiplication (Dor, Halperin and Zwick FOCS 1996) and many other long-standing problems (Vassilevska Williams and Williams FOCS 2010). The algorithm can also be turned into a (2 + ϵ)-approximation algorithm (without an additive error) with the same time guarantees, improving the recent (3 + ϵ)-approximation algorithm with Ȏ(n 5/2+O(1√(log n)) ) running time of Bernstein and Roditty (SODA 2011) in terms of both approximation and time guarantees. (2) We present a deterministic algorithm with a total update time of Ȏ(mn) and a query time of O(log log n). The algorithm has a multiplicative error of 1 + ϵ and gives the first improved deterministic algorithm since 1981. It also answers an open question raised by Bernstein in his STOC 2013 paper. In order to achieve our results, we introduce two new techniques: (1) A lazy Even-Shiloach tree algorithm which maintains a bounded-distance shortest-paths tree on a certain type of emulator called locally persevering emulator. (2) A derandomization technique based on moving Even-Shiloach trees as a way to derandomize the standard random set argument. These techniques might be of independent interest."}],"type":"conference","oa_version":"Preprint","date_created":"2022-08-16T08:22:37Z","date_updated":"2023-02-17T09:56:04Z","author":[{"last_name":"Henzinger","first_name":"Monika H","orcid":"0000-0002-5008-6530","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","full_name":"Henzinger, Monika H"},{"last_name":"Krinninger","first_name":"Sebastian","full_name":"Krinninger, Sebastian"},{"last_name":"Nanongkai","first_name":"Danupon","full_name":"Nanongkai, Danupon"}],"publisher":"Institute of Electrical and Electronics Engineers","publication_status":"published","title":"Dynamic approximate all-pairs shortest paths: Breaking the O(mn) barrier and derandomization","status":"public","_id":"11856","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2013","publication_identifier":{"eisbn":["978-0-7695-5135-7"],"issn":["0272-5428"]},"article_processing_charge":"No","day":"01","month":"10","scopus_import":"1","language":[{"iso":"eng"}],"date_published":"2013-10-01T00:00:00Z","doi":"10.1109/focs.2013.64","conference":{"name":"FOCS: Symposium on Foundations of Computer Science","end_date":"2013-10-29","start_date":"2013-10-26","location":"Berkeley, CA, United States"},"page":"538-547","quality_controlled":"1","external_id":{"arxiv":["1308.0776"]},"citation":{"ama":"Henzinger MH, Krinninger S, Nanongkai D. Dynamic approximate all-pairs shortest paths: Breaking the O(mn) barrier and derandomization. In: 54th Annual Symposium on Foundations of Computer Science. Institute of Electrical and Electronics Engineers; 2013:538-547. doi:10.1109/focs.2013.64","ieee":"M. H. Henzinger, S. Krinninger, and D. Nanongkai, “Dynamic approximate all-pairs shortest paths: Breaking the O(mn) barrier and derandomization,” in 54th Annual Symposium on Foundations of Computer Science, Berkeley, CA, United States, 2013, pp. 538–547.","apa":"Henzinger, M. H., Krinninger, S., & Nanongkai, D. (2013). Dynamic approximate all-pairs shortest paths: Breaking the O(mn) barrier and derandomization. In 54th Annual Symposium on Foundations of Computer Science (pp. 538–547). Berkeley, CA, United States: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/focs.2013.64","ista":"Henzinger MH, Krinninger S, Nanongkai D. 2013. Dynamic approximate all-pairs shortest paths: Breaking the O(mn) barrier and derandomization. 54th Annual Symposium on Foundations of Computer Science. FOCS: Symposium on Foundations of Computer Science, 538–547.","short":"M.H. Henzinger, S. Krinninger, D. Nanongkai, in:, 54th Annual Symposium on Foundations of Computer Science, Institute of Electrical and Electronics Engineers, 2013, pp. 538–547.","mla":"Henzinger, Monika H., et al. “Dynamic Approximate All-Pairs Shortest Paths: Breaking the O(Mn) Barrier and Derandomization.” 54th Annual Symposium on Foundations of Computer Science, Institute of Electrical and Electronics Engineers, 2013, pp. 538–47, doi:10.1109/focs.2013.64.","chicago":"Henzinger, Monika H, Sebastian Krinninger, and Danupon Nanongkai. “Dynamic Approximate All-Pairs Shortest Paths: Breaking the O(Mn) Barrier and Derandomization.” In 54th Annual Symposium on Foundations of Computer Science, 538–47. Institute of Electrical and Electronics Engineers, 2013. https://doi.org/10.1109/focs.2013.64."},"oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1308.0776","open_access":"1"}],"publication":"54th Annual Symposium on Foundations of Computer Science"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"11902","status":"public","title":"Bidder optimal assignments for general utilities","intvolume":" 478","oa_version":"None","type":"journal_article","abstract":[{"lang":"eng","text":"We study the problem of matching bidders to items where each bidder i has general, strictly monotonic utility functions ui,j(pj) expressing his utility of being matched to item j at price pj. For this setting we prove that a bidder optimal outcome always exists, even when the utility functions are non-linear and non-continuous. We give sufficient conditions under\r\nwhich every mechanism that finds a bidder optimal outcome is incentive compatible. We also give a mechanism that finds a bidder optimal outcome if the conditions for incentive compatibility are satisfied. The running time of this mechanism is exponential in the number of items, but polynomial in the number of bidders."}],"issue":"3","publication":"Theoretical Computer Science","citation":{"ieee":"P. Dütting, M. H. Henzinger, and I. Weber, “Bidder optimal assignments for general utilities,” Theoretical Computer Science, vol. 478, no. 3. Elsevier, pp. 22–32, 2013.","apa":"Dütting, P., Henzinger, M. H., & Weber, I. (2013). Bidder optimal assignments for general utilities. Theoretical Computer Science. Elsevier. https://doi.org/10.1016/j.tcs.2013.01.030","ista":"Dütting P, Henzinger MH, Weber I. 2013. Bidder optimal assignments for general utilities. Theoretical Computer Science. 478(3), 22–32.","ama":"Dütting P, Henzinger MH, Weber I. Bidder optimal assignments for general utilities. Theoretical Computer Science. 2013;478(3):22-32. doi:10.1016/j.tcs.2013.01.030","chicago":"Dütting, Paul, Monika H Henzinger, and Ingmar Weber. “Bidder Optimal Assignments for General Utilities.” Theoretical Computer Science. Elsevier, 2013. https://doi.org/10.1016/j.tcs.2013.01.030.","short":"P. Dütting, M.H. Henzinger, I. Weber, Theoretical Computer Science 478 (2013) 22–32.","mla":"Dütting, Paul, et al. “Bidder Optimal Assignments for General Utilities.” Theoretical Computer Science, vol. 478, no. 3, Elsevier, 2013, pp. 22–32, doi:10.1016/j.tcs.2013.01.030."},"article_type":"original","page":"22-32","date_published":"2013-03-25T00:00:00Z","scopus_import":"1","day":"25","article_processing_charge":"No","year":"2013","publication_status":"published","publisher":"Elsevier","author":[{"last_name":"Dütting","first_name":"Paul","full_name":"Dütting, Paul"},{"full_name":"Henzinger, Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","first_name":"Monika H","last_name":"Henzinger"},{"first_name":"Ingmar","last_name":"Weber","full_name":"Weber, Ingmar"}],"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"11799"}]},"date_created":"2022-08-17T11:11:04Z","date_updated":"2023-02-21T16:28:41Z","volume":478,"extern":"1","quality_controlled":"1","doi":"10.1016/j.tcs.2013.01.030","language":[{"iso":"eng"}],"month":"03","publication_identifier":{"issn":["0304-3975"]}},{"publication":"Angewandte Chemie International Edition","citation":{"ama":"Pieber B, Martinez ST, Cantillo D, Kappe CO. In situ generation of diimide from hydrazine and oxygen: Continuous-flow transfer hydrogenation of olefins. Angewandte Chemie International Edition. 2013;52(39):10241-10244. doi:10.1002/anie.201303528","apa":"Pieber, B., Martinez, S. T., Cantillo, D., & Kappe, C. O. (2013). In situ generation of diimide from hydrazine and oxygen: Continuous-flow transfer hydrogenation of olefins. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.201303528","ieee":"B. Pieber, S. T. Martinez, D. Cantillo, and C. O. Kappe, “In situ generation of diimide from hydrazine and oxygen: Continuous-flow transfer hydrogenation of olefins,” Angewandte Chemie International Edition, vol. 52, no. 39. Wiley, pp. 10241–10244, 2013.","ista":"Pieber B, Martinez ST, Cantillo D, Kappe CO. 2013. In situ generation of diimide from hydrazine and oxygen: Continuous-flow transfer hydrogenation of olefins. Angewandte Chemie International Edition. 52(39), 10241–10244.","short":"B. Pieber, S.T. Martinez, D. Cantillo, C.O. Kappe, Angewandte Chemie International Edition 52 (2013) 10241–10244.","mla":"Pieber, Bartholomäus, et al. “In Situ Generation of Diimide from Hydrazine and Oxygen: Continuous-Flow Transfer Hydrogenation of Olefins.” Angewandte Chemie International Edition, vol. 52, no. 39, Wiley, 2013, pp. 10241–44, doi:10.1002/anie.201303528.","chicago":"Pieber, Bartholomäus, Sabrina Teixeira Martinez, David Cantillo, and C. Oliver Kappe. “In Situ Generation of Diimide from Hydrazine and Oxygen: Continuous-Flow Transfer Hydrogenation of Olefins.” Angewandte Chemie International Edition. Wiley, 2013. https://doi.org/10.1002/anie.201303528."},"article_type":"letter_note","quality_controlled":"1","page":"10241-10244","date_published":"2013-09-23T00:00:00Z","doi":"10.1002/anie.201303528","language":[{"iso":"eng"}],"scopus_import":"1","day":"23","month":"09","article_processing_charge":"No","publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"_id":"11959","year":"2013","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"In situ generation of diimide from hydrazine and oxygen: Continuous-flow transfer hydrogenation of olefins","publication_status":"published","intvolume":" 52","publisher":"Wiley","author":[{"orcid":"0000-0001-8689-388X","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","last_name":"Pieber","first_name":"Bartholomäus","full_name":"Pieber, Bartholomäus"},{"last_name":"Martinez","first_name":"Sabrina Teixeira","full_name":"Martinez, Sabrina Teixeira"},{"first_name":"David","last_name":"Cantillo","full_name":"Cantillo, David"},{"first_name":"C. Oliver","last_name":"Kappe","full_name":"Kappe, C. Oliver"}],"date_updated":"2023-02-21T10:09:21Z","date_created":"2022-08-24T11:01:47Z","volume":52,"oa_version":"None","type":"journal_article","abstract":[{"text":"No catalyst required! A highly efficient, catalyst-free process to generate diimide in situ from hydrazine monohydrate and molecular oxygen for the selective reduction of alkenes has been developed. The use of a gas–liquid segmented flow system allowed safe operating conditions and dramatically enhanced this atom-economical reaction, resulting in short processing times.","lang":"eng"}],"issue":"39","extern":"1"},{"publication_status":"published","status":"public","title":"Microwave effects in organic synthesis: Myth or reality?","intvolume":" 52","publisher":"Wiley","_id":"11960","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2013","date_updated":"2023-02-21T10:09:26Z","date_created":"2022-08-24T11:05:04Z","oa_version":"None","volume":52,"author":[{"first_name":"C. Oliver","last_name":"Kappe","full_name":"Kappe, C. Oliver"},{"orcid":"0000-0001-8689-388X","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","last_name":"Pieber","first_name":"Bartholomäus","full_name":"Pieber, Bartholomäus"},{"first_name":"Doris","last_name":"Dallinger","full_name":"Dallinger, Doris"}],"type":"journal_article","extern":"1","abstract":[{"lang":"eng","text":"It's not magic! The effects observed in microwave-irradiated chemical transformations can in most cases be rationalized by purely bulk thermal phenomena associated with rapid heating to elevated temperatures. As discussed in this Essay, the existence of so-called nonthermal or specific microwave effects is highly doubtful."}],"issue":"4","article_type":"letter_note","quality_controlled":"1","page":"1088-1094","publication":"Angewandte Chemie International Edition","citation":{"chicago":"Kappe, C. Oliver, Bartholomäus Pieber, and Doris Dallinger. “Microwave Effects in Organic Synthesis: Myth or Reality?” Angewandte Chemie International Edition. Wiley, 2013. https://doi.org/10.1002/anie.201204103.","short":"C.O. Kappe, B. Pieber, D. Dallinger, Angewandte Chemie International Edition 52 (2013) 1088–1094.","mla":"Kappe, C. Oliver, et al. “Microwave Effects in Organic Synthesis: Myth or Reality?” Angewandte Chemie International Edition, vol. 52, no. 4, Wiley, 2013, pp. 1088–94, doi:10.1002/anie.201204103.","apa":"Kappe, C. O., Pieber, B., & Dallinger, D. (2013). Microwave effects in organic synthesis: Myth or reality? Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.201204103","ieee":"C. O. Kappe, B. Pieber, and D. Dallinger, “Microwave effects in organic synthesis: Myth or reality?,” Angewandte Chemie International Edition, vol. 52, no. 4. Wiley, pp. 1088–1094, 2013.","ista":"Kappe CO, Pieber B, Dallinger D. 2013. Microwave effects in organic synthesis: Myth or reality? Angewandte Chemie International Edition. 52(4), 1088–1094.","ama":"Kappe CO, Pieber B, Dallinger D. Microwave effects in organic synthesis: Myth or reality? Angewandte Chemie International Edition. 2013;52(4):1088-1094. doi:10.1002/anie.201204103"},"language":[{"iso":"eng"}],"date_published":"2013-01-21T00:00:00Z","doi":"10.1002/anie.201204103","scopus_import":"1","day":"21","month":"01","article_processing_charge":"No","publication_identifier":{"issn":["1433-7851"],"eissn":["1521-3773"]}},{"doi":"10.1039/c2gc36896j","date_published":"2013-02-01T00:00:00Z","language":[{"iso":"eng"}],"publication":"Green Chemistry","citation":{"ista":"Pieber B, Kappe CO. 2013. Direct aerobic oxidation of 2-benzylpyridines in a gas-liquid continuous-flow regime using propylene carbonate as a solvent. Green Chemistry. 15(2), 320–324.","apa":"Pieber, B., & Kappe, C. O. (2013). Direct aerobic oxidation of 2-benzylpyridines in a gas-liquid continuous-flow regime using propylene carbonate as a solvent. Green Chemistry. Royal Society of Chemistry. https://doi.org/10.1039/c2gc36896j","ieee":"B. Pieber and C. O. Kappe, “Direct aerobic oxidation of 2-benzylpyridines in a gas-liquid continuous-flow regime using propylene carbonate as a solvent,” Green Chemistry, vol. 15, no. 2. Royal Society of Chemistry, pp. 320–324, 2013.","ama":"Pieber B, Kappe CO. Direct aerobic oxidation of 2-benzylpyridines in a gas-liquid continuous-flow regime using propylene carbonate as a solvent. Green Chemistry. 2013;15(2):320-324. doi:10.1039/c2gc36896j","chicago":"Pieber, Bartholomäus, and C. Oliver Kappe. “Direct Aerobic Oxidation of 2-Benzylpyridines in a Gas-Liquid Continuous-Flow Regime Using Propylene Carbonate as a Solvent.” Green Chemistry. Royal Society of Chemistry, 2013. https://doi.org/10.1039/c2gc36896j.","mla":"Pieber, Bartholomäus, and C. Oliver Kappe. “Direct Aerobic Oxidation of 2-Benzylpyridines in a Gas-Liquid Continuous-Flow Regime Using Propylene Carbonate as a Solvent.” Green Chemistry, vol. 15, no. 2, Royal Society of Chemistry, 2013, pp. 320–24, doi:10.1039/c2gc36896j.","short":"B. Pieber, C.O. Kappe, Green Chemistry 15 (2013) 320–324."},"article_type":"letter_note","quality_controlled":"1","page":"320-324","day":"01","month":"02","article_processing_charge":"No","publication_identifier":{"eissn":["1463-9270"],"issn":["1463-9262"]},"scopus_import":"1","author":[{"full_name":"Pieber, Bartholomäus","first_name":"Bartholomäus","last_name":"Pieber","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","orcid":"0000-0001-8689-388X"},{"full_name":"Kappe, C. Oliver","first_name":"C. Oliver","last_name":"Kappe"}],"date_created":"2022-08-25T10:29:21Z","date_updated":"2023-02-21T10:09:54Z","oa_version":"None","volume":15,"_id":"11973","year":"2013","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","status":"public","title":"Direct aerobic oxidation of 2-benzylpyridines in a gas-liquid continuous-flow regime using propylene carbonate as a solvent","intvolume":" 15","publisher":"Royal Society of Chemistry","abstract":[{"text":"The use of high-temperature/pressure gas–liquid continuous flow conditions dramatically enhances the iron-catalyzed aerobic oxidation of 2-benzylpyridines to their corresponding ketones. Pressurized air serves as a readily available oxygen source and propylene carbonate as a green solvent in this radically intensified preparation of synthetically valuable 2-aroylpyridines.","lang":"eng"}],"issue":"2","extern":"1","type":"journal_article"},{"_id":"12642","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Suitability of a constant air temperature lapse rate over an Alpine glacier: Testing the Greuell and Böhm model as an alternative","status":"public","intvolume":" 54","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"Near-surface air temperature, typically measured at a height of 2 m, is the most important control on the energy exchange and the melt rate at a snow or ice surface. It is distributed in a simplistic manner in most glacier melt models by using constant linear lapse rates, which poorly represent the actual spatial and temporal variability of air temperature. In this paper, we test a simple thermodynamic model proposed by Greuell and Böhm in 1998 as an alternative, using a new dataset of air temperature measurements from along the flowline of Haut Glacier d’Arolla, Switzerland. The unmodified model performs little better than assuming a constant linear lapse rate. When modified to allow the ratio of the boundary layer height to the bulk heat transfer coefficient to vary along the flowline, the model matches measured air temperatures better, and a further reduction of the root-mean-square error is obtained, although there is still considerable scope for improvement. The modified model is shown to perform best under conditions favourable to the development of katabatic winds – few clouds, positive ambient air temperature, limited influence of synoptic or valley winds and a long fetch – but its performance is poor under cloudy conditions.","lang":"eng"}],"issue":"63","publication":"Annals of Glaciology","citation":{"mla":"Petersen, Lene, et al. “Suitability of a Constant Air Temperature Lapse Rate over an Alpine Glacier: Testing the Greuell and Böhm Model as an Alternative.” Annals of Glaciology, vol. 54, no. 63, International Glaciological Society, 2013, pp. 120–30, doi:10.3189/2013aog63a477.","short":"L. Petersen, F. Pellicciotti, I. Juszak, M. Carenzo, B. Brock, Annals of Glaciology 54 (2013) 120–130.","chicago":"Petersen, Lene, Francesca Pellicciotti, Inge Juszak, Marco Carenzo, and Ben Brock. “Suitability of a Constant Air Temperature Lapse Rate over an Alpine Glacier: Testing the Greuell and Böhm Model as an Alternative.” Annals of Glaciology. International Glaciological Society, 2013. https://doi.org/10.3189/2013aog63a477.","ama":"Petersen L, Pellicciotti F, Juszak I, Carenzo M, Brock B. Suitability of a constant air temperature lapse rate over an Alpine glacier: Testing the Greuell and Böhm model as an alternative. Annals of Glaciology. 2013;54(63):120-130. doi:10.3189/2013aog63a477","ista":"Petersen L, Pellicciotti F, Juszak I, Carenzo M, Brock B. 2013. Suitability of a constant air temperature lapse rate over an Alpine glacier: Testing the Greuell and Böhm model as an alternative. Annals of Glaciology. 54(63), 120–130.","ieee":"L. Petersen, F. Pellicciotti, I. Juszak, M. Carenzo, and B. Brock, “Suitability of a constant air temperature lapse rate over an Alpine glacier: Testing the Greuell and Böhm model as an alternative,” Annals of Glaciology, vol. 54, no. 63. International Glaciological Society, pp. 120–130, 2013.","apa":"Petersen, L., Pellicciotti, F., Juszak, I., Carenzo, M., & Brock, B. (2013). Suitability of a constant air temperature lapse rate over an Alpine glacier: Testing the Greuell and Böhm model as an alternative. Annals of Glaciology. International Glaciological Society. https://doi.org/10.3189/2013aog63a477"},"article_type":"original","page":"120-130","date_published":"2013-08-01T00:00:00Z","scopus_import":"1","keyword":["Earth-Surface Processes"],"day":"01","article_processing_charge":"No","year":"2013","publication_status":"published","publisher":"International Glaciological Society","author":[{"last_name":"Petersen","first_name":"Lene","full_name":"Petersen, Lene"},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca"},{"full_name":"Juszak, Inge","first_name":"Inge","last_name":"Juszak"},{"full_name":"Carenzo, Marco","first_name":"Marco","last_name":"Carenzo"},{"full_name":"Brock, Ben","last_name":"Brock","first_name":"Ben"}],"date_created":"2023-02-20T08:17:29Z","date_updated":"2023-02-21T10:18:24Z","volume":54,"extern":"1","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.3189/2013aog63a477"}],"quality_controlled":"1","doi":"10.3189/2013aog63a477","language":[{"iso":"eng"}],"month":"08","publication_identifier":{"issn":["0260-3055"],"eissn":["1727-5644"]}},{"oa_version":"Published Version","intvolume":" 118","title":"A comparison of parameterizations of incoming longwave radiation over melting glaciers: Model robustness and seasonal variability","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12643","issue":"8","abstract":[{"lang":"eng","text":"Parameterizations of incoming longwave radiation are increasingly receiving attention for both low and high elevation glacierized sites. In this paper, we test 13 clear-sky parameterizations combined with seven cloud corrections for all-sky atmospheric emissivity at one location on Haut Glacier d'Arolla. We also analyze the four seasons separately and conduct a cross-validation to test the parameters’ robustness. The best parameterization is the one by Dilley and O'Brien, B for clear-sky conditions combined with Unsworth and Monteith cloud correction. This model is also the most robust when tested in cross-validation. When validated at different sites in the southern Alps of Switzerland and north-western Italian Alps, all parameterizations show a substantial decrease in performance, except for one site, thus suggesting that it is important to recalibrate parameterizations of incoming longwave radiation for different locations. We argue that this is due to differences in the structure of the atmosphere at the sites. We also quantify the effect that the incoming longwave radiation parameterizations have on energy-balance melt modeling, and show that recalibration of model parameters is needed. Using parameters from other sites leads to a significant underestimation of melt and to an error that is larger than that associated with using different parameterizations. Once recalibrated, however, the parameters of most models seem to be stable over seasons and years at the location on Haut Glacier d'Arolla."}],"type":"journal_article","date_published":"2013-04-27T00:00:00Z","page":"3066-3084","article_type":"original","citation":{"ama":"Juszak I, Pellicciotti F. A comparison of parameterizations of incoming longwave radiation over melting glaciers: Model robustness and seasonal variability. Journal of Geophysical Research: Atmospheres. 2013;118(8):3066-3084. doi:10.1002/jgrd.50277","ista":"Juszak I, Pellicciotti F. 2013. A comparison of parameterizations of incoming longwave radiation over melting glaciers: Model robustness and seasonal variability. Journal of Geophysical Research: Atmospheres. 118(8), 3066–3084.","apa":"Juszak, I., & Pellicciotti, F. (2013). A comparison of parameterizations of incoming longwave radiation over melting glaciers: Model robustness and seasonal variability. Journal of Geophysical Research: Atmospheres. American Geophysical Union. https://doi.org/10.1002/jgrd.50277","ieee":"I. Juszak and F. Pellicciotti, “A comparison of parameterizations of incoming longwave radiation over melting glaciers: Model robustness and seasonal variability,” Journal of Geophysical Research: Atmospheres, vol. 118, no. 8. American Geophysical Union, pp. 3066–3084, 2013.","mla":"Juszak, I., and Francesca Pellicciotti. “A Comparison of Parameterizations of Incoming Longwave Radiation over Melting Glaciers: Model Robustness and Seasonal Variability.” Journal of Geophysical Research: Atmospheres, vol. 118, no. 8, American Geophysical Union, 2013, pp. 3066–84, doi:10.1002/jgrd.50277.","short":"I. Juszak, F. Pellicciotti, Journal of Geophysical Research: Atmospheres 118 (2013) 3066–3084.","chicago":"Juszak, I., and Francesca Pellicciotti. “A Comparison of Parameterizations of Incoming Longwave Radiation over Melting Glaciers: Model Robustness and Seasonal Variability.” Journal of Geophysical Research: Atmospheres. American Geophysical Union, 2013. https://doi.org/10.1002/jgrd.50277."},"publication":"Journal of Geophysical Research: Atmospheres","article_processing_charge":"No","day":"27","keyword":["Space and Planetary Science","Earth and Planetary Sciences (miscellaneous)","Atmospheric Science","Geophysics"],"scopus_import":"1","volume":118,"date_created":"2023-02-20T08:17:34Z","date_updated":"2023-02-21T10:10:46Z","author":[{"full_name":"Juszak, I.","last_name":"Juszak","first_name":"I."},{"full_name":"Pellicciotti, Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","last_name":"Pellicciotti","first_name":"Francesca"}],"publisher":"American Geophysical Union","publication_status":"published","year":"2013","extern":"1","language":[{"iso":"eng"}],"doi":"10.1002/jgrd.50277","quality_controlled":"1","oa":1,"main_file_link":[{"url":"https://doi.org/10.1002/jgrd.50277","open_access":"1"}],"publication_identifier":{"issn":["2169-897X"]},"month":"04"},{"type":"journal_article","abstract":[{"lang":"eng","text":"Greater Himalayan glaciers are retreating and losing mass at rates comparable to glaciers in other regions of the world1,2,3,4,5. Assessments of future changes and their associated hydrological impacts are scarce, oversimplify glacier dynamics or include a limited number of climate models6,7,8,9. Here, we use results from the latest ensemble of climate models in combination with a high-resolution glacio-hydrological model to assess the hydrological impact of climate change on two climatically contrasting watersheds in the Greater Himalaya, the Baltoro and Langtang watersheds that drain into the Indus and Ganges rivers, respectively. We show that the largest uncertainty in future runoff is a result of variations in projected precipitation between climate models. In both watersheds, strong, but highly variable, increases in future runoff are projected and, despite the different characteristics of the watersheds, their responses are surprisingly similar. In both cases, glaciers will recede but net glacier melt runoff is on a rising limb at least until 2050. In combination with a positive change in precipitation, water availability during this century is not likely to decline. We conclude that river basins that depend on monsoon rains and glacier melt will continue to sustain the increasing water demands expected in these areas10."}],"issue":"9","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12640","status":"public","title":"Rising river flows throughout the twenty-first century in two Himalayan glacierized watersheds","intvolume":" 6","oa_version":"None","scopus_import":"1","keyword":["General Earth and Planetary Sciences"],"day":"13","article_processing_charge":"No","publication":"Nature Geoscience","citation":{"chicago":"Immerzeel, W. W., Francesca Pellicciotti, and M. F. P. Bierkens. “Rising River Flows throughout the Twenty-First Century in Two Himalayan Glacierized Watersheds.” Nature Geoscience. Springer Nature, 2013. https://doi.org/10.1038/ngeo1896.","short":"W.W. Immerzeel, F. Pellicciotti, M.F.P. Bierkens, Nature Geoscience 6 (2013) 742–745.","mla":"Immerzeel, W. W., et al. “Rising River Flows throughout the Twenty-First Century in Two Himalayan Glacierized Watersheds.” Nature Geoscience, vol. 6, no. 9, Springer Nature, 2013, pp. 742–45, doi:10.1038/ngeo1896.","ieee":"W. W. Immerzeel, F. Pellicciotti, and M. F. P. Bierkens, “Rising river flows throughout the twenty-first century in two Himalayan glacierized watersheds,” Nature Geoscience, vol. 6, no. 9. Springer Nature, pp. 742–745, 2013.","apa":"Immerzeel, W. W., Pellicciotti, F., & Bierkens, M. F. P. (2013). Rising river flows throughout the twenty-first century in two Himalayan glacierized watersheds. Nature Geoscience. Springer Nature. https://doi.org/10.1038/ngeo1896","ista":"Immerzeel WW, Pellicciotti F, Bierkens MFP. 2013. Rising river flows throughout the twenty-first century in two Himalayan glacierized watersheds. Nature Geoscience. 6(9), 742–745.","ama":"Immerzeel WW, Pellicciotti F, Bierkens MFP. Rising river flows throughout the twenty-first century in two Himalayan glacierized watersheds. Nature Geoscience. 2013;6(9):742-745. doi:10.1038/ngeo1896"},"article_type":"letter_note","page":"742-745","date_published":"2013-09-13T00:00:00Z","extern":"1","year":"2013","publication_status":"published","publisher":"Springer Nature","author":[{"full_name":"Immerzeel, W. W.","first_name":"W. W.","last_name":"Immerzeel"},{"last_name":"Pellicciotti","first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","full_name":"Pellicciotti, Francesca"},{"first_name":"M. F. P.","last_name":"Bierkens","full_name":"Bierkens, M. F. P."}],"date_created":"2023-02-20T08:17:17Z","date_updated":"2023-02-21T10:46:37Z","volume":6,"month":"09","publication_identifier":{"eissn":["1752-0908"],"issn":["1752-0894"]},"quality_controlled":"1","doi":"10.1038/ngeo1896","language":[{"iso":"eng"}]},{"date_published":"2013-08-01T00:00:00Z","publication":"Annals of Glaciology","citation":{"ieee":"M. Heynen, F. Pellicciotti, and M. Carenzo, “Parameter sensitivity of a distributed enhanced temperature-index melt model,” Annals of Glaciology, vol. 54, no. 63. International Glaciological Society, pp. 311–321, 2013.","apa":"Heynen, M., Pellicciotti, F., & Carenzo, M. (2013). Parameter sensitivity of a distributed enhanced temperature-index melt model. Annals of Glaciology. International Glaciological Society. https://doi.org/10.3189/2013aog63a537","ista":"Heynen M, Pellicciotti F, Carenzo M. 2013. Parameter sensitivity of a distributed enhanced temperature-index melt model. Annals of Glaciology. 54(63), 311–321.","ama":"Heynen M, Pellicciotti F, Carenzo M. Parameter sensitivity of a distributed enhanced temperature-index melt model. Annals of Glaciology. 2013;54(63):311-321. doi:10.3189/2013aog63a537","chicago":"Heynen, Martin, Francesca Pellicciotti, and Marco Carenzo. “Parameter Sensitivity of a Distributed Enhanced Temperature-Index Melt Model.” Annals of Glaciology. International Glaciological Society, 2013. https://doi.org/10.3189/2013aog63a537.","short":"M. Heynen, F. Pellicciotti, M. Carenzo, Annals of Glaciology 54 (2013) 311–321.","mla":"Heynen, Martin, et al. “Parameter Sensitivity of a Distributed Enhanced Temperature-Index Melt Model.” Annals of Glaciology, vol. 54, no. 63, International Glaciological Society, 2013, pp. 311–21, doi:10.3189/2013aog63a537."},"article_type":"original","page":"311-321","day":"01","article_processing_charge":"No","scopus_import":"1","oa_version":"Published Version","_id":"12641","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Parameter sensitivity of a distributed enhanced temperature-index melt model","intvolume":" 54","abstract":[{"text":"We investigate the sensitivity of a distributed enhanced temperature-index (ETI) melt model, in order to understand which parameters have the largest influence on model outputs and thus need to be accurately known. We use melt and meteorological data from two Alpine glaciers and one glacier in the Andes of Chile. Sensitivity analysis is conducted in a systematic way in terms of parameters and the different conditions (day, night, clear-sky, overcast), melt seasons and glaciers examined. The sensitivity of total melt to changes in individual parameters is calculated using a local method around the optimal value of the parameters. We verify that the parameters are optimal at the distributed scale and assess the model uncertainty induced by uncertainty in the parameters using a Monte Carlo technique. Model sensitivity to parameters is consistent across melt seasons, glaciers, different conditions and the daily statistics examined. The parameters to which the model is most sensitive are the shortwave-radiation factor, the temperature lapse rate for extrapolation of air temperature, the albedo parameters, the temperature threshold and the cloud transmittance factor parameters. A parameter uncertainty of 5% results in a model uncertainty of 5.6% of mean melt on Haut Glacier d’Arolla, Switzerland.","lang":"eng"}],"issue":"63","type":"journal_article","doi":"10.3189/2013aog63a537","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.3189/2013aog63a537","open_access":"1"}],"oa":1,"quality_controlled":"1","month":"08","publication_identifier":{"issn":["0260-3055"],"eissn":["1727-5644"]},"author":[{"full_name":"Heynen, Martin","last_name":"Heynen","first_name":"Martin"},{"last_name":"Pellicciotti","first_name":"Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","full_name":"Pellicciotti, Francesca"},{"last_name":"Carenzo","first_name":"Marco","full_name":"Carenzo, Marco"}],"date_created":"2023-02-20T08:17:21Z","date_updated":"2023-02-21T10:43:42Z","volume":54,"year":"2013","publication_status":"published","publisher":"International Glaciological Society","extern":"1"},{"day":"01","month":"01","doi":"10.1523/JNEUROSCI.0340-13.2013","date_published":"2013-01-01T00:00:00Z","citation":{"ama":"Haikala V, Jösch MA, Borst A, Mauss A. Optogenetic control of fly optomotor responses. Journal of Neuroscience. 2013;33(34):13927-13934. doi:10.1523/JNEUROSCI.0340-13.2013","apa":"Haikala, V., Jösch, M. A., Borst, A., & Mauss, A. (2013). Optogenetic control of fly optomotor responses. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.0340-13.2013","ieee":"V. Haikala, M. A. Jösch, A. Borst, and A. Mauss, “Optogenetic control of fly optomotor responses,” Journal of Neuroscience, vol. 33, no. 34. Society for Neuroscience, pp. 13927–13934, 2013.","ista":"Haikala V, Jösch MA, Borst A, Mauss A. 2013. Optogenetic control of fly optomotor responses. Journal of Neuroscience. 33(34), 13927–13934.","short":"V. Haikala, M.A. Jösch, A. Borst, A. Mauss, Journal of Neuroscience 33 (2013) 13927–13934.","mla":"Haikala, Väinö, et al. “Optogenetic Control of Fly Optomotor Responses.” Journal of Neuroscience, vol. 33, no. 34, Society for Neuroscience, 2013, pp. 13927–34, doi:10.1523/JNEUROSCI.0340-13.2013.","chicago":"Haikala, Väinö, Maximilian A Jösch, Alexander Borst, and Alex Mauss. “Optogenetic Control of Fly Optomotor Responses.” Journal of Neuroscience. Society for Neuroscience, 2013. https://doi.org/10.1523/JNEUROSCI.0340-13.2013."},"publication":"Journal of Neuroscience","page":"13927 - 13934","quality_controlled":0,"issue":"34","publist_id":"5967","abstract":[{"text":"When confronted with a large-field stimulus rotating around the vertical body axis, flies display a following behavior called "optomotor response." As neural control elements, the large tangential horizontal system (HS) cells of the lobula plate have been prime candidates for long. Here, we applied optogenetic stimulation of HS cells to evaluate their behavioral role in Drosophila. To minimize interference of the optical activation of channelrhodopsin-2 with the visual perception of the flies, we used a bistable variant called ChR2-C128S. By applying pulses of blue and yellow light, we first demonstrate electrophysiologically that lobula plate tangential cells can be activated and deactivated repeatedly with no evident change in depolarization strength over trials. We next show that selective optogenetic activation of HS cells elicits robust yaw head movements and yaw turning responses in fixed and tethered flying flies, respectively.","lang":"eng"}],"extern":1,"type":"journal_article","author":[{"first_name":"Väinö","last_name":"Haikala","full_name":"Haikala, Väinö"},{"last_name":"Jösch","first_name":"Maximilian A","orcid":"0000-0002-3937-1330","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","full_name":"Maximilian Jösch"},{"full_name":"Borst, Alexander","last_name":"Borst","first_name":"Alexander"},{"first_name":"Alex","last_name":"Mauss","full_name":"Mauss, Alex S"}],"volume":33,"date_updated":"2021-01-12T06:49:45Z","date_created":"2018-12-11T11:51:16Z","_id":"1304","acknowledgement":"This work was supported by the Max Planck Society. ","year":"2013","intvolume":" 33","publisher":"Society for Neuroscience","publication_status":"published","status":"public","title":"Optogenetic control of fly optomotor responses"},{"date_published":"2013-01-16T00:00:00Z","doi":"10.1523/JNEUROSCI.3374-12.2013","quality_controlled":0,"page":"902 - 905","publication":"Journal of Neuroscience","citation":{"ama":"Jösch MA, Weber F, Eichner H, Borst A. Functional specialization of parallel motion detection circuits in the fly. Journal of Neuroscience. 2013;33(3):902-905. doi:10.1523/JNEUROSCI.3374-12.2013","ista":"Jösch MA, Weber F, Eichner H, Borst A. 2013. Functional specialization of parallel motion detection circuits in the fly. Journal of Neuroscience. 33(3), 902–905.","ieee":"M. A. Jösch, F. Weber, H. Eichner, and A. Borst, “Functional specialization of parallel motion detection circuits in the fly,” Journal of Neuroscience, vol. 33, no. 3. Society for Neuroscience, pp. 902–905, 2013.","apa":"Jösch, M. A., Weber, F., Eichner, H., & Borst, A. (2013). Functional specialization of parallel motion detection circuits in the fly. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.3374-12.2013","mla":"Jösch, Maximilian A., et al. “Functional Specialization of Parallel Motion Detection Circuits in the Fly.” Journal of Neuroscience, vol. 33, no. 3, Society for Neuroscience, 2013, pp. 902–05, doi:10.1523/JNEUROSCI.3374-12.2013.","short":"M.A. Jösch, F. Weber, H. Eichner, A. Borst, Journal of Neuroscience 33 (2013) 902–905.","chicago":"Jösch, Maximilian A, Franz Weber, Hubert Eichner, and Alexander Borst. “Functional Specialization of Parallel Motion Detection Circuits in the Fly.” Journal of Neuroscience. Society for Neuroscience, 2013. https://doi.org/10.1523/JNEUROSCI.3374-12.2013."},"day":"16","month":"01","date_created":"2018-12-11T11:51:16Z","date_updated":"2021-01-12T06:49:45Z","volume":33,"author":[{"orcid":"0000-0002-3937-1330","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","last_name":"Jösch","first_name":"Maximilian A","full_name":"Maximilian Jösch"},{"first_name":"Franz","last_name":"Weber","full_name":"Weber, Franz"},{"full_name":"Eichner, Hubert","first_name":"Hubert","last_name":"Eichner"},{"full_name":"Borst, Alexander","first_name":"Alexander","last_name":"Borst"}],"title":"Functional specialization of parallel motion detection circuits in the fly","status":"public","publication_status":"published","intvolume":" 33","publisher":"Society for Neuroscience","_id":"1305","acknowledgement":"This work was supported by the Max-Planck-Society and the SFB 870 of the Deutsche Forschungsgemeinschaft.","year":"2013","extern":1,"abstract":[{"lang":"eng","text":"In the fly Drosophila melanogaster, photoreceptor input to motion vision is split into two parallel pathways as represented by first-order interneurons L1 and L2 (Rister et al., 2007; Joesch et al., 2010). However, how these pathways are functionally specialized remains controversial. One study (Eichner et al., 2011) proposed that the L1-pathway evaluates only sequences of brightness increments (ON-ON), while the L2-pathway processes exclusively brightness decrements (OFF-OFF). Another study (Clark et al., 2011) proposed that each of the two pathways evaluates both ON-ON and OFF-OFF sequences. To decide between these alternatives, we recorded from motionsensitive neurons in flies in which the output from either L1 or L2 was genetically blocked. We found that blocking L1 abolishes ON-ON responses but leaves OFF-OFF responses intact. The opposite was true, when the output from L2 was blocked. We conclude that the L1 and L2 pathways are functionally specialized to detect ON-ON and OFF-OFF sequences, respectively."}],"publist_id":"5968","issue":"3","type":"journal_article"},{"month":"01","day":"01","date_published":"2013-01-01T00:00:00Z","doi":"10.1137/120874291","publication":"SIAM Journal on Mathematical Analysis","citation":{"chicago":"Fischer, Julian L. “Advection-Driven Support Shrinking in a Chemotaxis Model with Degenerate Mobility.” SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics , 2013. https://doi.org/10.1137/120874291.","short":"J.L. Fischer, SIAM Journal on Mathematical Analysis 45 (2013) 1585–1615.","mla":"Fischer, Julian L. “Advection-Driven Support Shrinking in a Chemotaxis Model with Degenerate Mobility.” SIAM Journal on Mathematical Analysis, vol. 45, no. 3, Society for Industrial and Applied Mathematics , 2013, pp. 1585–615, doi:10.1137/120874291.","ieee":"J. L. Fischer, “Advection-driven support shrinking in a chemotaxis model with degenerate mobility,” SIAM Journal on Mathematical Analysis, vol. 45, no. 3. Society for Industrial and Applied Mathematics , pp. 1585–1615, 2013.","apa":"Fischer, J. L. (2013). Advection-driven support shrinking in a chemotaxis model with degenerate mobility. SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics . https://doi.org/10.1137/120874291","ista":"Fischer JL. 2013. Advection-driven support shrinking in a chemotaxis model with degenerate mobility. SIAM Journal on Mathematical Analysis. 45(3), 1585–1615.","ama":"Fischer JL. Advection-driven support shrinking in a chemotaxis model with degenerate mobility. SIAM Journal on Mathematical Analysis. 2013;45(3):1585-1615. doi:10.1137/120874291"},"quality_controlled":0,"page":"1585 - 1615","abstract":[{"lang":"eng","text":"We derive sufficient conditions for advection-driven backward motion of the free boundary in a chemotaxis model with degenerate mobility. In this model, a porous-medium-type diffusive term and an advection term are in competition. The former induces forward motion, the latter may induce backward motion of the free boundary depending on the direction of advection. We deduce conditions on the growth of the initial data at the free boundary which ensure that at least initially the advection term is dominant. This implies local backward motion of the free boundary provided the advection is (locally) directed appropriately. Our result is based on a new class of moving test functions and Stampacchia's lemma. As a by-product of our estimates, we obtain quantitative bounds on the spreading of the support of solutions for the chemotaxis model and provide a proof for the finite speed of the support propagation property of solutions."}],"issue":"3","publist_id":"5963","extern":1,"type":"journal_article","author":[{"last_name":"Fischer","first_name":"Julian L","orcid":"0000-0002-0479-558X","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","full_name":"Julian Fischer"}],"date_updated":"2021-01-12T06:49:46Z","date_created":"2018-12-11T11:51:17Z","volume":45,"_id":"1308","year":"2013","publication_status":"published","status":"public","title":"Advection-driven support shrinking in a chemotaxis model with degenerate mobility","publisher":"Society for Industrial and Applied Mathematics ","intvolume":" 45"},{"date_created":"2018-12-11T11:51:17Z","date_updated":"2021-01-12T06:49:46Z","volume":38,"author":[{"id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0479-558X","first_name":"Julian L","last_name":"Fischer","full_name":"Julian Fischer"}],"publication_status":"published","status":"public","title":"Uniqueness of solutions of the Derrida-Lebowitz-Speer-Spohn equation and quantum drift diffusion models","publisher":"Taylor & Francis","intvolume":" 38","_id":"1307","year":"2013","extern":1,"abstract":[{"text":"We prove uniqueness of solutions of the DLSS equation in a class of sufficiently regular functions. The global weak solutions of the DLSS equation constructed by Jüngel and Matthes belong to this class of uniqueness. We also show uniqueness of solutions for the quantum drift-diffusion equation, which contains additional drift and second-order diffusion terms. The results hold in case of periodic or Dirichlet-Neumann boundary conditions. Our proof is based on a monotonicity property of the DLSS operator and sophisticated approximation arguments; we derive a PDE satisfied by the pointwise square root of the solution, which enables us to exploit the monotonicity property of the operator.","lang":"eng"}],"issue":"11","publist_id":"5962","type":"journal_article","date_published":"2013-11-01T00:00:00Z","doi":"10.1080/03605302.2013.823548","quality_controlled":0,"page":"2004 - 2047","publication":"Communications in Partial Differential Equations","citation":{"ama":"Fischer JL. Uniqueness of solutions of the Derrida-Lebowitz-Speer-Spohn equation and quantum drift diffusion models. Communications in Partial Differential Equations. 2013;38(11):2004-2047. doi:10.1080/03605302.2013.823548","ista":"Fischer JL. 2013. Uniqueness of solutions of the Derrida-Lebowitz-Speer-Spohn equation and quantum drift diffusion models. Communications in Partial Differential Equations. 38(11), 2004–2047.","ieee":"J. L. Fischer, “Uniqueness of solutions of the Derrida-Lebowitz-Speer-Spohn equation and quantum drift diffusion models,” Communications in Partial Differential Equations, vol. 38, no. 11. Taylor & Francis, pp. 2004–2047, 2013.","apa":"Fischer, J. L. (2013). Uniqueness of solutions of the Derrida-Lebowitz-Speer-Spohn equation and quantum drift diffusion models. Communications in Partial Differential Equations. Taylor & Francis. https://doi.org/10.1080/03605302.2013.823548","mla":"Fischer, Julian L. “Uniqueness of Solutions of the Derrida-Lebowitz-Speer-Spohn Equation and Quantum Drift Diffusion Models.” Communications in Partial Differential Equations, vol. 38, no. 11, Taylor & Francis, 2013, pp. 2004–47, doi:10.1080/03605302.2013.823548.","short":"J.L. Fischer, Communications in Partial Differential Equations 38 (2013) 2004–2047.","chicago":"Fischer, Julian L. “Uniqueness of Solutions of the Derrida-Lebowitz-Speer-Spohn Equation and Quantum Drift Diffusion Models.” Communications in Partial Differential Equations. Taylor & Francis, 2013. https://doi.org/10.1080/03605302.2013.823548."},"day":"01","month":"11"},{"day":"15","month":"11","doi":"10.1016/j.jde.2013.07.028","date_published":"2013-11-15T00:00:00Z","publication":"Journal of Differential Equations","citation":{"ama":"Fischer JL. Optimal lower bounds on asymptotic support propagation rates for the thin-film equation. Journal of Differential Equations. 2013;255(10):3127-3149. doi:10.1016/j.jde.2013.07.028","apa":"Fischer, J. L. (2013). Optimal lower bounds on asymptotic support propagation rates for the thin-film equation. Journal of Differential Equations. Academic Press. https://doi.org/10.1016/j.jde.2013.07.028","ieee":"J. L. Fischer, “Optimal lower bounds on asymptotic support propagation rates for the thin-film equation,” Journal of Differential Equations, vol. 255, no. 10. Academic Press, pp. 3127–3149, 2013.","ista":"Fischer JL. 2013. Optimal lower bounds on asymptotic support propagation rates for the thin-film equation. Journal of Differential Equations. 255(10), 3127–3149.","short":"J.L. Fischer, Journal of Differential Equations 255 (2013) 3127–3149.","mla":"Fischer, Julian L. “Optimal Lower Bounds on Asymptotic Support Propagation Rates for the Thin-Film Equation.” Journal of Differential Equations, vol. 255, no. 10, Academic Press, 2013, pp. 3127–49, doi:10.1016/j.jde.2013.07.028.","chicago":"Fischer, Julian L. “Optimal Lower Bounds on Asymptotic Support Propagation Rates for the Thin-Film Equation.” Journal of Differential Equations. Academic Press, 2013. https://doi.org/10.1016/j.jde.2013.07.028."},"quality_controlled":0,"page":"3127 - 3149","abstract":[{"lang":"eng","text":"We derive lower bounds on asymptotic support propagation rates for strong solutions of the Cauchy problem for the thin-film equation. The bounds coincide up to a constant factor with the previously known upper bounds and thus are sharp. Our results hold in case of at most three spatial dimensions and n∈. (1, 2.92). The result is established using weighted backward entropy inequalities with singular weight functions to yield a differential inequality; combined with some entropy production estimates, the optimal rate of propagation is obtained. To the best of our knowledge, these are the first lower bounds on asymptotic support propagation rates for higher-order nonnegativity-preserving parabolic equations."}],"publist_id":"5961","issue":"10","extern":1,"type":"journal_article","author":[{"first_name":"Julian L","last_name":"Fischer","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0479-558X","full_name":"Julian Fischer"}],"date_updated":"2021-01-12T06:49:47Z","date_created":"2018-12-11T11:51:18Z","volume":255,"_id":"1310","year":"2013","status":"public","title":"Optimal lower bounds on asymptotic support propagation rates for the thin-film equation","publication_status":"published","publisher":"Academic Press","intvolume":" 255"},{"month":"09","project":[{"call_identifier":"FWF","name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"grant_number":"S11407","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","call_identifier":"FWF"},{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"},{"name":"Microsoft Research Faculty Fellowship","_id":"2587B514-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"language":[{"iso":"eng"}],"doi":"10.4230/LIPIcs.CSL.2013.181","conference":{"name":"CSL: Computer Science Logic","end_date":"2013-09-05","start_date":"203-09-02","location":"Torino, Italy"},"ec_funded":1,"publist_id":"5837","file_date_updated":"2020-07-14T12:44:47Z","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","department":[{"_id":"KrCh"}],"publication_status":"published","year":"2013","volume":23,"date_created":"2018-12-11T11:51:39Z","date_updated":"2021-01-12T06:50:14Z","author":[{"last_name":"Chatterjee","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu"},{"first_name":"Nathanaël","last_name":"Fijalkow","full_name":"Fijalkow, Nathanaël"}],"series_title":"Leibniz International Proceedings in Informatics","scopus_import":1,"has_accepted_license":"1","day":"01","page":"181 - 196","citation":{"chicago":"Chatterjee, Krishnendu, and Nathanaël Fijalkow. “Infinite-State Games with Finitary Conditions.” In 22nd EACSL Annual Conference on Computer Science Logic, 23:181–96. Leibniz International Proceedings in Informatics. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013. https://doi.org/10.4230/LIPIcs.CSL.2013.181.","short":"K. Chatterjee, N. Fijalkow, in:, 22nd EACSL Annual Conference on Computer Science Logic, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013, pp. 181–196.","mla":"Chatterjee, Krishnendu, and Nathanaël Fijalkow. “Infinite-State Games with Finitary Conditions.” 22nd EACSL Annual Conference on Computer Science Logic, vol. 23, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013, pp. 181–96, doi:10.4230/LIPIcs.CSL.2013.181.","apa":"Chatterjee, K., & Fijalkow, N. (2013). Infinite-state games with finitary conditions. In 22nd EACSL Annual Conference on Computer Science Logic (Vol. 23, pp. 181–196). Torino, Italy: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.CSL.2013.181","ieee":"K. Chatterjee and N. Fijalkow, “Infinite-state games with finitary conditions,” in 22nd EACSL Annual Conference on Computer Science Logic, Torino, Italy, 2013, vol. 23, pp. 181–196.","ista":"Chatterjee K, Fijalkow N. 2013. Infinite-state games with finitary conditions. 22nd EACSL Annual Conference on Computer Science Logic. CSL: Computer Science LogicLeibniz International Proceedings in Informatics, LIPIcs, vol. 23, 181–196.","ama":"Chatterjee K, Fijalkow N. Infinite-state games with finitary conditions. In: 22nd EACSL Annual Conference on Computer Science Logic. Vol 23. Leibniz International Proceedings in Informatics. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2013:181-196. doi:10.4230/LIPIcs.CSL.2013.181"},"publication":"22nd EACSL Annual Conference on Computer Science Logic","date_published":"2013-09-01T00:00:00Z","alternative_title":["LIPIcs"],"type":"conference","abstract":[{"lang":"eng","text":"We study two-player zero-sum games over infinite-state graphs equipped with ωB and finitary conditions. Our first contribution is about the strategy complexity, i.e the memory required for winning strategies: we prove that over general infinite-state graphs, memoryless strategies are sufficient for finitary Büchi, and finite-memory suffices for finitary parity games. We then study pushdown games with boundedness conditions, with two contributions. First we prove a collapse result for pushdown games with ωB-conditions, implying the decidability of solving these games. Second we consider pushdown games with finitary parity along with stack boundedness conditions, and show that solving these games is EXPTIME-complete."}],"intvolume":" 23","ddc":["000"],"title":"Infinite-state games with finitary conditions","status":"public","_id":"1374","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"access_level":"open_access","file_name":"IST-2016-624-v1+1_ChKr_Infinite-state_games_2013_17.pdf","content_type":"application/pdf","file_size":547296,"creator":"system","relation":"main_file","file_id":"5023","checksum":"b7091a3866db573c0db5ec486952255e","date_created":"2018-12-12T10:13:38Z","date_updated":"2020-07-14T12:44:47Z"}],"oa_version":"Published Version","pubrep_id":"624"},{"month":"12","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1308.4767"}],"external_id":{"arxiv":["1308.4767"]},"oa":1,"quality_controlled":"1","project":[{"call_identifier":"FWF","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23"},{"call_identifier":"FP7","name":"Quantitative Reactive Modeling","_id":"25EE3708-B435-11E9-9278-68D0E5697425","grant_number":"267989"}],"conference":{"location":"Portland, OR, United States","start_date":"2013-10-20","end_date":"2013-10-23","name":"FMCAD: Formal Methods in Computer-Aided Design"},"doi":"10.1109/FMCAD.2013.6679394","language":[{"iso":"eng"}],"ec_funded":1,"publist_id":"5825","acknowledgement":"This research was supported by the European Commission through project\r\nDIAMOND (FP7-2009-IST-4-248613), and QUAINT (I774-N23), ","year":"2013","publication_status":"published","publisher":"IEEE","department":[{"_id":"ToHe"}],"author":[{"first_name":"Georg","last_name":"Hofferek","full_name":"Hofferek, Georg"},{"full_name":"Gupta, Ashutosh","id":"335E5684-F248-11E8-B48F-1D18A9856A87","last_name":"Gupta","first_name":"Ashutosh"},{"last_name":"Könighofer","first_name":"Bettina","full_name":"Könighofer, Bettina"},{"last_name":"Jiang","first_name":"Jie","full_name":"Jiang, Jie"},{"first_name":"Roderick","last_name":"Bloem","full_name":"Bloem, Roderick"}],"date_created":"2018-12-11T11:51:43Z","date_updated":"2021-01-12T06:50:19Z","day":"11","publication":"2013 Formal Methods in Computer-Aided Design","citation":{"chicago":"Hofferek, Georg, Ashutosh Gupta, Bettina Könighofer, Jie Jiang, and Roderick Bloem. “Synthesizing Multiple Boolean Functions Using Interpolation on a Single Proof.” In 2013 Formal Methods in Computer-Aided Design, 77–84. IEEE, 2013. https://doi.org/10.1109/FMCAD.2013.6679394.","mla":"Hofferek, Georg, et al. “Synthesizing Multiple Boolean Functions Using Interpolation on a Single Proof.” 2013 Formal Methods in Computer-Aided Design, IEEE, 2013, pp. 77–84, doi:10.1109/FMCAD.2013.6679394.","short":"G. Hofferek, A. Gupta, B. Könighofer, J. Jiang, R. Bloem, in:, 2013 Formal Methods in Computer-Aided Design, IEEE, 2013, pp. 77–84.","ista":"Hofferek G, Gupta A, Könighofer B, Jiang J, Bloem R. 2013. Synthesizing multiple boolean functions using interpolation on a single proof. 2013 Formal Methods in Computer-Aided Design. FMCAD: Formal Methods in Computer-Aided Design, 77–84.","apa":"Hofferek, G., Gupta, A., Könighofer, B., Jiang, J., & Bloem, R. (2013). Synthesizing multiple boolean functions using interpolation on a single proof. In 2013 Formal Methods in Computer-Aided Design (pp. 77–84). Portland, OR, United States: IEEE. https://doi.org/10.1109/FMCAD.2013.6679394","ieee":"G. Hofferek, A. Gupta, B. Könighofer, J. Jiang, and R. Bloem, “Synthesizing multiple boolean functions using interpolation on a single proof,” in 2013 Formal Methods in Computer-Aided Design, Portland, OR, United States, 2013, pp. 77–84.","ama":"Hofferek G, Gupta A, Könighofer B, Jiang J, Bloem R. Synthesizing multiple boolean functions using interpolation on a single proof. In: 2013 Formal Methods in Computer-Aided Design. IEEE; 2013:77-84. doi:10.1109/FMCAD.2013.6679394"},"page":"77 - 84","date_published":"2013-12-11T00:00:00Z","type":"conference","abstract":[{"lang":"eng","text":"It is often difficult to correctly implement a Boolean controller for a complex system, especially when concurrency is involved. Yet, it may be easy to formally specify a controller. For instance, for a pipelined processor it suffices to state that the visible behavior of the pipelined system should be identical to a non-pipelined reference system (Burch-Dill paradigm). We present a novel procedure to efficiently synthesize multiple Boolean control signals from a specification given as a quantified first-order formula (with a specific quantifier structure). Our approach uses uninterpreted functions to abstract details of the design. We construct an unsatisfiable SMT formula from the given specification. Then, from just one proof of unsatisfiability, we use a variant of Craig interpolation to compute multiple coordinated interpolants that implement the Boolean control signals. Our method avoids iterative learning and back-substitution of the control functions. We applied our approach to synthesize a controller for a simple two-stage pipelined processor, and present first experimental results."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1385","title":"Synthesizing multiple boolean functions using interpolation on a single proof","status":"public","oa_version":"Preprint"},{"page":"89 - 100","citation":{"mla":"Boker, Udi, et al. Nondeterminism in the Presence of a Diverse or Unknown Future. Vol. 7966, no. PART 2, Springer, 2013, pp. 89–100, doi:10.1007/978-3-642-39212-2_11.","short":"U. Boker, D. Kuperberg, O. Kupferman, M. Skrzypczak, 7966 (2013) 89–100.","chicago":"Boker, Udi, Denis Kuperberg, Orna Kupferman, and Michał Skrzypczak. “Nondeterminism in the Presence of a Diverse or Unknown Future.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-39212-2_11.","ama":"Boker U, Kuperberg D, Kupferman O, Skrzypczak M. Nondeterminism in the presence of a diverse or unknown future. 2013;7966(PART 2):89-100. doi:10.1007/978-3-642-39212-2_11","ista":"Boker U, Kuperberg D, Kupferman O, Skrzypczak M. 2013. Nondeterminism in the presence of a diverse or unknown future. 7966(PART 2), 89–100.","ieee":"U. Boker, D. Kuperberg, O. Kupferman, and M. Skrzypczak, “Nondeterminism in the presence of a diverse or unknown future,” vol. 7966, no. PART 2. Springer, pp. 89–100, 2013.","apa":"Boker, U., Kuperberg, D., Kupferman, O., & Skrzypczak, M. (2013). Nondeterminism in the presence of a diverse or unknown future. Presented at the ICALP: Automata, Languages and Programming, Riga, Latvia: Springer. https://doi.org/10.1007/978-3-642-39212-2_11"},"date_published":"2013-07-01T00:00:00Z","series_title":"Lecture Notes in Computer Science","scopus_import":1,"has_accepted_license":"1","article_processing_charge":"No","day":"01","intvolume":" 7966","title":"Nondeterminism in the presence of a diverse or unknown future","ddc":["000"],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1387","oa_version":"Submitted Version","file":[{"checksum":"98bc02e3793072e279ec8d364b381ff3","date_updated":"2020-07-14T12:44:48Z","date_created":"2020-05-15T11:05:50Z","relation":"main_file","file_id":"7857","content_type":"application/pdf","file_size":276982,"creator":"dernst","access_level":"open_access","file_name":"2013_ICALP_Boker.pdf"}],"alternative_title":["LNCS"],"type":"conference","issue":"PART 2","abstract":[{"text":"Choices made by nondeterministic word automata depend on both the past (the prefix of the word read so far) and the future (the suffix yet to be read). In several applications, most notably synthesis, the future is diverse or unknown, leading to algorithms that are based on deterministic automata. Hoping to retain some of the advantages of nondeterministic automata, researchers have studied restricted classes of nondeterministic automata. Three such classes are nondeterministic automata that are good for trees (GFT; i.e., ones that can be expanded to tree automata accepting the derived tree languages, thus whose choices should satisfy diverse futures), good for games (GFG; i.e., ones whose choices depend only on the past), and determinizable by pruning (DBP; i.e., ones that embody equivalent deterministic automata). The theoretical properties and relative merits of the different classes are still open, having vagueness on whether they really differ from deterministic automata. In particular, while DBP ⊆ GFG ⊆ GFT, it is not known whether every GFT automaton is GFG and whether every GFG automaton is DBP. Also open is the possible succinctness of GFG and GFT automata compared to deterministic automata. We study these problems for ω-regular automata with all common acceptance conditions. We show that GFT=GFG⊃DBP, and describe a determinization construction for GFG automata.","lang":"eng"}],"project":[{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"name":"Quantitative Reactive Modeling","call_identifier":"FP7","grant_number":"267989","_id":"25EE3708-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","oa":1,"language":[{"iso":"eng"}],"doi":"10.1007/978-3-642-39212-2_11","conference":{"name":"ICALP: Automata, Languages and Programming","start_date":"2013-07-08","location":"Riga, Latvia","end_date":"2013-07-12"},"month":"07","department":[{"_id":"ToHe"}],"publisher":"Springer","publication_status":"published","acknowledgement":"and ERC Grant QUALITY.","year":"2013","volume":7966,"date_created":"2018-12-11T11:51:44Z","date_updated":"2020-08-11T10:09:09Z","author":[{"full_name":"Boker, Udi","first_name":"Udi","last_name":"Boker","id":"31E297B6-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Denis","last_name":"Kuperberg","full_name":"Kuperberg, Denis"},{"first_name":"Orna","last_name":"Kupferman","full_name":"Kupferman, Orna"},{"last_name":"Skrzypczak","first_name":"Michał","full_name":"Skrzypczak, Michał"}],"ec_funded":1,"publist_id":"5823","file_date_updated":"2020-07-14T12:44:48Z"},{"day":"01","month":"01","quality_controlled":0,"page":"1147 - 1168","publication":"Annals of Mathematics","citation":{"apa":"Hausel, T., Letellier, E., & Rodríguez Villegas, F. (2013). Positivity for Kac polynomials and DT-invariants of quivers. Annals of Mathematics. Princeton University Press. https://doi.org/10.4007/annals.2013.177.3.8","ieee":"T. Hausel, E. Letellier, and F. Rodríguez Villegas, “Positivity for Kac polynomials and DT-invariants of quivers,” Annals of Mathematics, vol. 177, no. 3. Princeton University Press, pp. 1147–1168, 2013.","ista":"Hausel T, Letellier E, Rodríguez Villegas F. 2013. Positivity for Kac polynomials and DT-invariants of quivers. Annals of Mathematics. 177(3), 1147–1168.","ama":"Hausel T, Letellier E, Rodríguez Villegas F. Positivity for Kac polynomials and DT-invariants of quivers. Annals of Mathematics. 2013;177(3):1147-1168. doi:10.4007/annals.2013.177.3.8","chicago":"Hausel, Tamás, Emmanuel Letellier, and Fernando Rodríguez Villegas. “Positivity for Kac Polynomials and DT-Invariants of Quivers.” Annals of Mathematics. Princeton University Press, 2013. https://doi.org/10.4007/annals.2013.177.3.8.","short":"T. Hausel, E. Letellier, F. Rodríguez Villegas, Annals of Mathematics 177 (2013) 1147–1168.","mla":"Hausel, Tamás, et al. “Positivity for Kac Polynomials and DT-Invariants of Quivers.” Annals of Mathematics, vol. 177, no. 3, Princeton University Press, 2013, pp. 1147–68, doi:10.4007/annals.2013.177.3.8."},"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1204.2375"}],"oa":1,"doi":"10.4007/annals.2013.177.3.8","date_published":"2013-01-01T00:00:00Z","type":"journal_article","extern":1,"abstract":[{"lang":"eng","text":"We give a cohomological interpretation of both the Kac polynomial and the refined Donaldson-Thomas-invariants of quivers. This interpretation yields a proof of a conjecture of Kac from 1982 and gives a new perspective on recent work of Kontsevich-Soibelman. Thisis achieved by computing, via an arithmetic Fourier transform, the dimensions of the isotypical components of the cohomology of associated Nakajima quiver varieties under the action of a Weyl group. The generating function of the corresponding Poincare polynomials is an extension of Hua's formula for Kac polynomials of quivers involving Hall-Littlewood symmetric functions. The resulting formulae contain a wide range of information on the geometry of the quiver varieties."}],"issue":"3","publist_id":"5754","status":"public","publication_status":"published","title":"Positivity for Kac polynomials and DT-invariants of quivers","publisher":"Princeton University Press","intvolume":" 177","_id":"1442","year":"2013","acknowledgement":"The first author thanks the Royal Society for funding his research 2005-2012 in the form of a Royal Society University Research Fellowship as well as the Mathematical Institute and Wadham College in Oxford for a very productive environment. The second author is supported by Agence Nationale de la Recherche grant\nANR-09-JCJC-0102-01. The third author is supported by the NSF grant DMS-1101484 and a Research Scholarship from the Clay Mathematical Institute.","date_updated":"2021-01-12T06:50:47Z","date_created":"2018-12-11T11:52:02Z","volume":177,"author":[{"first_name":"Tamas","last_name":"Hausel","id":"4A0666D8-F248-11E8-B48F-1D18A9856A87","full_name":"Tamas Hausel"},{"first_name":"Emmanuel","last_name":"Letellier","full_name":"Letellier, Emmanuel"},{"last_name":"Rodríguez Villegas","first_name":"Fernando","full_name":"Rodríguez Villegas, Fernando"}]},{"quality_controlled":0,"page":"29 - 70","publication":"Handbook of Moduli: Volume II","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1102.1717"}],"citation":{"ista":"Hausel T. 2013.Global topology of the Hitchin system. In: Handbook of Moduli: Volume II. Advanced Lectures in Mathematics, vol. 25, 29–70.","apa":"Hausel, T. (2013). Global topology of the Hitchin system. In Handbook of Moduli: Volume II (Vol. 25, pp. 29–70). International Press.","ieee":"T. Hausel, “Global topology of the Hitchin system,” in Handbook of Moduli: Volume II, vol. 25, International Press, 2013, pp. 29–70.","ama":"Hausel T. Global topology of the Hitchin system. In: Handbook of Moduli: Volume II. Vol 25. International Press; 2013:29-70.","chicago":"Hausel, Tamás. “Global Topology of the Hitchin System.” In Handbook of Moduli: Volume II, 25:29–70. International Press, 2013.","mla":"Hausel, Tamás. “Global Topology of the Hitchin System.” Handbook of Moduli: Volume II, vol. 25, International Press, 2013, pp. 29–70.","short":"T. Hausel, in:, Handbook of Moduli: Volume II, International Press, 2013, pp. 29–70."},"oa":1,"date_published":"2013-03-15T00:00:00Z","month":"03","day":"15","publication_status":"published","status":"public","title":"Global topology of the Hitchin system","intvolume":" 25","publisher":"International Press","_id":"1443","year":"2013","date_updated":"2021-01-12T06:50:47Z","date_created":"2018-12-11T11:52:03Z","volume":25,"author":[{"full_name":"Tamas Hausel","id":"4A0666D8-F248-11E8-B48F-1D18A9856A87","last_name":"Hausel","first_name":"Tamas"}],"alternative_title":["Advanced Lectures in Mathematics"],"type":"book_chapter","extern":1,"abstract":[{"lang":"eng","text":"Here we survey several results and conjectures on the cohomology of the total space of the Hitchin system: the moduli space of semi-stable rank n and degree d Higgs bundles on a complex algebraic curve C. The picture emerging is a dynamic mixture of ideas originating in theoretical physics such as gauge theory and mirror symmetry, Weil conjectures in arithmetic algebraic geometry, representation theory of finite groups of Lie type and Langlands duality in number theory."}],"publist_id":"5753"},{"quality_controlled":0,"page":"85 - 128","publication":"Advances in Mathematics","citation":{"ista":"Hausel T, Letellier E, Rodríguez Villegas F. 2013. Arithmetic harmonic analysis on character and quiver varieties II. Advances in Mathematics. 234, 85–128.","ieee":"T. Hausel, E. Letellier, and F. Rodríguez Villegas, “Arithmetic harmonic analysis on character and quiver varieties II,” Advances in Mathematics, vol. 234. Academic Press, pp. 85–128, 2013.","apa":"Hausel, T., Letellier, E., & Rodríguez Villegas, F. (2013). Arithmetic harmonic analysis on character and quiver varieties II. Advances in Mathematics. Academic Press. https://doi.org/10.1016/j.aim.2012.10.009","ama":"Hausel T, Letellier E, Rodríguez Villegas F. Arithmetic harmonic analysis on character and quiver varieties II. Advances in Mathematics. 2013;234:85-128. doi:10.1016/j.aim.2012.10.009","chicago":"Hausel, Tamás, Emmanuel Letellier, and Fernando Rodríguez Villegas. “Arithmetic Harmonic Analysis on Character and Quiver Varieties II.” Advances in Mathematics. Academic Press, 2013. https://doi.org/10.1016/j.aim.2012.10.009.","mla":"Hausel, Tamás, et al. “Arithmetic Harmonic Analysis on Character and Quiver Varieties II.” Advances in Mathematics, vol. 234, Academic Press, 2013, pp. 85–128, doi:10.1016/j.aim.2012.10.009.","short":"T. Hausel, E. Letellier, F. Rodríguez Villegas, Advances in Mathematics 234 (2013) 85–128."},"doi":"10.1016/j.aim.2012.10.009","date_published":"2013-02-15T00:00:00Z","month":"02","day":"15","status":"public","title":"Arithmetic harmonic analysis on character and quiver varieties II","publication_status":"published","intvolume":" 234","publisher":"Academic Press","_id":"1469","acknowledgement":"During the preparation of this paper TH was supported by a Royal Society University Research Fellowship at the University of Oxford. EL was supported by ANR-09-JCJC-0102-01. FRV was supported by NSF grant DMS-0200605, an FRA from the University of Texas at Austin, EPSRC grant EP/G027110/1, Visiting Fellowships at All Souls and Wadham Colleges in Oxford and a Research Scholarship from the Clay Mathematical Institute.","year":"2013","date_created":"2018-12-11T11:52:12Z","date_updated":"2021-01-12T06:50:57Z","volume":234,"author":[{"full_name":"Tamas Hausel","last_name":"Hausel","first_name":"Tamas","id":"4A0666D8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Letellier","first_name":"Emmanuel","full_name":"Letellier, Emmanuel"},{"first_name":"Fernando","last_name":"Rodríguez Villegas","full_name":"Rodríguez Villegas, Fernando"}],"type":"journal_article","extern":1,"abstract":[{"text":"We study connections between the topology of generic character varieties of fundamental groups of punctured Riemann surfaces, Macdonald polynomials, quiver representations, Hilbert schemes on Cx × Cx, modular forms and multiplicities in tensor products of irreducible characters of finite general linear groups.","lang":"eng"}],"publist_id":"5724"},{"page":"23 - 38","quality_controlled":0,"oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1012.2583"}],"citation":{"chicago":"De Cataldo, Mark, Tamás Hausel, and Luca Migliorini. “Exchange between Perverse and Weight Filtration for the Hilbert Schemes of Points of Two Surfaces.” Journal of Singularities. Worldwide Center of Mathematics, 2013. https://doi.org/10.5427/jsing.2013.7c.","mla":"De Cataldo, Mark, et al. “Exchange between Perverse and Weight Filtration for the Hilbert Schemes of Points of Two Surfaces.” Journal of Singularities, vol. 7, Worldwide Center of Mathematics, 2013, pp. 23–38, doi:10.5427/jsing.2013.7c.","short":"M. De Cataldo, T. Hausel, L. Migliorini, Journal of Singularities 7 (2013) 23–38.","ista":"De Cataldo M, Hausel T, Migliorini L. 2013. Exchange between perverse and weight filtration for the Hilbert schemes of points of two surfaces. Journal of Singularities. 7, 23–38.","apa":"De Cataldo, M., Hausel, T., & Migliorini, L. (2013). Exchange between perverse and weight filtration for the Hilbert schemes of points of two surfaces. Journal of Singularities. Worldwide Center of Mathematics. https://doi.org/10.5427/jsing.2013.7c","ieee":"M. De Cataldo, T. Hausel, and L. Migliorini, “Exchange between perverse and weight filtration for the Hilbert schemes of points of two surfaces,” Journal of Singularities, vol. 7. Worldwide Center of Mathematics, pp. 23–38, 2013.","ama":"De Cataldo M, Hausel T, Migliorini L. Exchange between perverse and weight filtration for the Hilbert schemes of points of two surfaces. Journal of Singularities. 2013;7:23-38. doi:10.5427/jsing.2013.7c"},"publication":"Journal of Singularities","doi":"10.5427/jsing.2013.7c","date_published":"2013-01-01T00:00:00Z","day":"01","month":"01","publisher":"Worldwide Center of Mathematics","intvolume":" 7","title":"Exchange between perverse and weight filtration for the Hilbert schemes of points of two surfaces","status":"public","publication_status":"published","year":"2013","_id":"1470","acknowledgement":"Mark Andrea A. de Cataldo was partially supported by N.S.A. and N.S.F. Tamás Hausel was supported by a Royal Society University Research Fellowship. Luca Migliorini was partially supported by PRIN 2007 project \"Spazi di moduli e teoria di Lie\"","volume":7,"date_created":"2018-12-11T11:52:12Z","date_updated":"2021-01-12T06:50:58Z","author":[{"first_name":"Mark","last_name":"De Cataldo","full_name":"De Cataldo, Mark A"},{"last_name":"Hausel","first_name":"Tamas","id":"4A0666D8-F248-11E8-B48F-1D18A9856A87","full_name":"Tamas Hausel"},{"full_name":"Migliorini, Luca","first_name":"Luca","last_name":"Migliorini"}],"type":"journal_article","extern":1,"publist_id":"5725","abstract":[{"text":"We show that a natural isomorphism between the rational cohomology groups of the two zero-dimensional Hilbert schemes of n-points of two surfaces, the affine plane minus the axes and the cotangent bundle of an elliptic curve, exchanges the weight filtration on the first set of cohomology groups with the perverse Leray filtration associated with a natural fibration on the second set of cohomology groups. We discuss some associated hard Lefschetz phenomena.","lang":"eng"}]},{"citation":{"mla":"Aceto, Luca, et al. “38th International Colloquium on Automata, Languages and Programming.” Information and Computation, vol. 222, no. 1, Elsevier, 2013, p. 1, doi:10.1016/j.ic.2012.11.002.","short":"L. Aceto, M.H. Henzinger, J. Sgall, Information and Computation 222 (2013) 1.","chicago":"Aceto, Luca, Monika H Henzinger, and Jiří Sgall. “38th International Colloquium on Automata, Languages and Programming.” Information and Computation. Elsevier, 2013. https://doi.org/10.1016/j.ic.2012.11.002.","ama":"Aceto L, Henzinger MH, Sgall J. 38th International Colloquium on Automata, Languages and Programming. Information and Computation. 2013;222(1):1. doi:10.1016/j.ic.2012.11.002","ista":"Aceto L, Henzinger MH, Sgall J. 2013. 38th International Colloquium on Automata, Languages and Programming. Information and Computation. 222(1), 1.","apa":"Aceto, L., Henzinger, M. H., & Sgall, J. (2013). 38th International Colloquium on Automata, Languages and Programming. Information and Computation. Elsevier. https://doi.org/10.1016/j.ic.2012.11.002","ieee":"L. Aceto, M. H. Henzinger, and J. Sgall, “38th International Colloquium on Automata, Languages and Programming,” Information and Computation, vol. 222, no. 1. Elsevier, p. 1, 2013."},"publication":"Information and Computation","page":"1","quality_controlled":"1","article_type":"letter_note","doi":"10.1016/j.ic.2012.11.002","date_published":"2013-01-01T00:00:00Z","language":[{"iso":"eng"}],"scopus_import":"1","publication_identifier":{"issn":["0890-5401"]},"article_processing_charge":"No","day":"01","month":"01","year":"2013","_id":"11758","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 222","publisher":"Elsevier","publication_status":"published","title":"38th International Colloquium on Automata, Languages and Programming","status":"public","author":[{"last_name":"Aceto","first_name":"Luca","full_name":"Aceto, Luca"},{"orcid":"0000-0002-5008-6530","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","last_name":"Henzinger","first_name":"Monika H","full_name":"Henzinger, Monika H"},{"full_name":"Sgall, Jiří","last_name":"Sgall","first_name":"Jiří"}],"oa_version":"None","volume":222,"date_updated":"2023-02-23T10:09:19Z","date_created":"2022-08-08T11:25:34Z","type":"journal_article","issue":"1","extern":"1"},{"month":"04","day":"18","doi":"10.1242/dev.092726","date_published":"2013-04-18T00:00:00Z","page":"1740 - 1750","quality_controlled":0,"citation":{"ama":"Kahane N, Ribes V, Kicheva A, Briscoe J, Kalcheim C. The transition from differentiation to growth during dermomyotome-derived myogenesis depends on temporally restricted hedgehog signaling. Development. 2013;140(8):1740-1750. doi:10.1242/dev.092726","ieee":"N. Kahane, V. Ribes, A. Kicheva, J. Briscoe, and C. Kalcheim, “The transition from differentiation to growth during dermomyotome-derived myogenesis depends on temporally restricted hedgehog signaling,” Development, vol. 140, no. 8. Company of Biologists, pp. 1740–1750, 2013.","apa":"Kahane, N., Ribes, V., Kicheva, A., Briscoe, J., & Kalcheim, C. (2013). The transition from differentiation to growth during dermomyotome-derived myogenesis depends on temporally restricted hedgehog signaling. Development. Company of Biologists. https://doi.org/10.1242/dev.092726","ista":"Kahane N, Ribes V, Kicheva A, Briscoe J, Kalcheim C. 2013. The transition from differentiation to growth during dermomyotome-derived myogenesis depends on temporally restricted hedgehog signaling. Development. 140(8), 1740–1750.","short":"N. Kahane, V. Ribes, A. Kicheva, J. Briscoe, C. Kalcheim, Development 140 (2013) 1740–1750.","mla":"Kahane, Nitza, et al. “The Transition from Differentiation to Growth during Dermomyotome-Derived Myogenesis Depends on Temporally Restricted Hedgehog Signaling.” Development, vol. 140, no. 8, Company of Biologists, 2013, pp. 1740–50, doi:10.1242/dev.092726.","chicago":"Kahane, Nitza, Vanessa Ribes, Anna Kicheva, James Briscoe, and Chaya Kalcheim. “The Transition from Differentiation to Growth during Dermomyotome-Derived Myogenesis Depends on Temporally Restricted Hedgehog Signaling.” Development. Company of Biologists, 2013. https://doi.org/10.1242/dev.092726."},"publication":"Development","extern":1,"issue":"8","publist_id":"5402","abstract":[{"lang":"eng","text":"The development of a functional tissue requires coordination of the amplification of progenitors and their differentiation into specific cell types. The molecular basis for this coordination during myotome ontogeny is not well understood. Dermomytome progenitors that colonize the myotome first acquire myocyte identity and subsequently proliferate as Pax7-expressing progenitors before undergoing terminal differentiation. We show that the dynamics of sonic hedgehog (Shh) signaling is crucial for this transition in both avian and mouse embryos. Initially, Shh ligand emanating from notochord/floor plate reaches the dermomyotome, where it both maintains the proliferation of dermomyotome cells and promotes myogenic differentiation of progenitors that colonized the myotome. Interfering with Shh signaling at this stage produces small myotomes and accumulation of Pax7-expressing progenitors. An in vivo reporter of Shh activity combined with mouse genetics revealed the existence of both activator and repressor Shh activities operating on distinct subsets of cells during the epaxial myotomal maturation. In contrast to observations in mice, in avians Shh promotes the differentiation of both epaxial and hypaxial myotome domains. Subsequently, myogenic progenitors become refractory to Shh; this is likely to occur at the level of, or upstream of, smoothened signaling. The end of responsiveness to Shh coincides with, and is thus likely to enable, the transition into the growth phase of the myotome."}],"type":"journal_article","volume":140,"date_updated":"2021-01-12T06:52:47Z","date_created":"2018-12-11T11:53:41Z","author":[{"first_name":"Nitza","last_name":"Kahane","full_name":"Kahane, Nitza"},{"full_name":"Ribes, Vanessa","first_name":"Vanessa","last_name":"Ribes"},{"full_name":"Anna Kicheva","orcid":"0000-0003-4509-4998","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87","last_name":"Kicheva","first_name":"Anna"},{"first_name":"James","last_name":"Briscoe","full_name":"Briscoe, James"},{"full_name":"Kalcheim, Chaya","last_name":"Kalcheim","first_name":"Chaya"}],"intvolume":" 140","publisher":"Company of Biologists","status":"public","publication_status":"published","title":"The transition from differentiation to growth during dermomyotome-derived myogenesis depends on temporally restricted hedgehog signaling","_id":"1726","acknowledgement":"This study was supported by grants from the Israel Science Foundation (ISF) [11/09 to C.K.]; the Association Francaise contre les Myopathies (AFM) [15642 to C.K.]; the German Research Foundation (DFG) [UN 34/27-1 to C.K.]; the UK Medical Research Council (MRC) [U117560541 to J.B. and A.K.]; Fondation Pour la Recherche Médicale (FRM) (post-doctoral fellowship to V.R.). Deposited in PMC for release after 6 months","year":"2013"},{"intvolume":" 8","publisher":"Cold Spring Harbor Laboratory Press","status":"public","title":"Quantitative imaging of morphogen gradients in drosophila imaginal discs","publication_status":"published","year":"2013","_id":"1727","volume":8,"date_updated":"2021-01-12T06:52:47Z","date_created":"2018-12-11T11:53:41Z","author":[{"id":"3959A2A0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4509-4998","first_name":"Anna","last_name":"Kicheva","full_name":"Anna Kicheva"},{"last_name":"Holtzer","first_name":"Laurent","full_name":"Holtzer, Laurent"},{"full_name":"Wartlick, Ortrud","last_name":"Wartlick","first_name":"Ortrud"},{"full_name":"Schmidt, Thomas S","first_name":"Thomas","last_name":"Schmidt"},{"full_name":"González-Gaitán, Marcos A","last_name":"González Gaitán","first_name":"Marcos"}],"type":"journal_article","extern":1,"issue":"5","publist_id":"5401","abstract":[{"text":"Cells at different positions in a developing tissue receive different concentrations of signaling molecules, called morphogens, and this influences their cell fate. Morphogen concentration gradients have been proposed to control patterning as well as growth in many developing tissues. Some outstanding questions about tissue patterning by morphogen gradients are the following: What are the mechanisms that regulate gradient formation and shape? Is the positional information encoded in the gradient sufficiently precise to determine the positions of target gene domain boundaries? What are the temporal dynamics of gradients and how do they relate to patterning and growth? These questions are inherently quantitative in nature and addressing them requires measuring morphogen concentrations in cells, levels of downstream signaling activity, and kinetics of morphogen transport. Here we first present methods for quantifying morphogen gradient shape in which the measurements can be calibrated to reflect actual morphogen concentrations. We then discuss using fluorescence recovery after photobleaching to study the kinetics of morphogen transport at the tissue level. Finally, we present particle tracking as a method to study morphogen intracellular trafficking.","lang":"eng"}],"page":"387 - 403","quality_controlled":0,"citation":{"ieee":"A. Kicheva, L. Holtzer, O. Wartlick, T. Schmidt, and M. González Gaitán, “Quantitative imaging of morphogen gradients in drosophila imaginal discs,” Cold Spring Harbor Protocols, vol. 8, no. 5. Cold Spring Harbor Laboratory Press, pp. 387–403, 2013.","apa":"Kicheva, A., Holtzer, L., Wartlick, O., Schmidt, T., & González Gaitán, M. (2013). Quantitative imaging of morphogen gradients in drosophila imaginal discs. Cold Spring Harbor Protocols. Cold Spring Harbor Laboratory Press. https://doi.org/10.1101/pdb.top074237","ista":"Kicheva A, Holtzer L, Wartlick O, Schmidt T, González Gaitán M. 2013. Quantitative imaging of morphogen gradients in drosophila imaginal discs. Cold Spring Harbor Protocols. 8(5), 387–403.","ama":"Kicheva A, Holtzer L, Wartlick O, Schmidt T, González Gaitán M. Quantitative imaging of morphogen gradients in drosophila imaginal discs. Cold Spring Harbor Protocols. 2013;8(5):387-403. doi:10.1101/pdb.top074237","chicago":"Kicheva, Anna, Laurent Holtzer, Ortrud Wartlick, Thomas Schmidt, and Marcos González Gaitán. “Quantitative Imaging of Morphogen Gradients in Drosophila Imaginal Discs.” Cold Spring Harbor Protocols. Cold Spring Harbor Laboratory Press, 2013. https://doi.org/10.1101/pdb.top074237.","short":"A. Kicheva, L. Holtzer, O. Wartlick, T. Schmidt, M. González Gaitán, Cold Spring Harbor Protocols 8 (2013) 387–403.","mla":"Kicheva, Anna, et al. “Quantitative Imaging of Morphogen Gradients in Drosophila Imaginal Discs.” Cold Spring Harbor Protocols, vol. 8, no. 5, Cold Spring Harbor Laboratory Press, 2013, pp. 387–403, doi:10.1101/pdb.top074237."},"publication":"Cold Spring Harbor Protocols","doi":"10.1101/pdb.top074237","date_published":"2013-05-01T00:00:00Z","day":"01","month":"05"},{"type":"journal_article","abstract":[{"text":"We report on hole g-factor measurements in three terminal SiGe self-assembled quantum dot devices with a top gate electrode positioned very close to the nanostructure. Measurements of both the perpendicular as well as the parallel g-factor reveal significant changes for a small modulation of the top gate voltage. From the observed modulations, we estimate that, for realistic experimental conditions, hole spins can be electrically manipulated with Rabi frequencies in the order of 100 MHz. This work emphasises the potential of hole-based nano-devices for efficient spin manipulation by means of the g-tensor modulation technique.","lang":"eng"}],"issue":"26","publist_id":"5364","extern":1,"year":"2013","_id":"1760","acknowledgement":"We acknowledge the financial support from the Nanosciences Foundation (Grenoble, France), the Commission for a Marie Curie Carrer Integration Grant, the Austrian Science Fund (FWF) for a Lise-Meitner Fellowship (M1435-N30), the DOE under Contract No. DE-FG02-08ER46482 (Yale), the European Starting Grant program, and the Agence Nationale de la Recherche","title":"SiGe quantum dots for fast hole spin Rabi oscillations","publication_status":"published","status":"public","intvolume":" 103","publisher":"American Institute of Physics","author":[{"full_name":"Ares, Natalia","last_name":"Ares","first_name":"Natalia"},{"first_name":"Georgios","last_name":"Katsaros","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","full_name":"Georgios Katsaros"},{"full_name":"Golovach, Vitaly N","last_name":"Golovach","first_name":"Vitaly"},{"full_name":"Zhang, Jianjun","first_name":"Jianjun","last_name":"Zhang"},{"full_name":"Prager, Aaron A","last_name":"Prager","first_name":"Aaron"},{"full_name":"Glazman, Leonid I","last_name":"Glazman","first_name":"Leonid"},{"last_name":"Schmidt","first_name":"Oliver","full_name":"Schmidt, Oliver G"},{"first_name":"Silvano","last_name":"De Franceschi","full_name":"De Franceschi, Silvano"}],"date_created":"2018-12-11T11:53:52Z","date_updated":"2021-01-12T06:53:02Z","volume":103,"day":"23","month":"01","publication":"Applied Physics Letters","oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1307.7196"}],"citation":{"chicago":"Ares, Natalia, Georgios Katsaros, Vitaly Golovach, Jianjun Zhang, Aaron Prager, Leonid Glazman, Oliver Schmidt, and Silvano De Franceschi. “SiGe Quantum Dots for Fast Hole Spin Rabi Oscillations.” Applied Physics Letters. American Institute of Physics, 2013. https://doi.org/10.1063/1.4858959.","mla":"Ares, Natalia, et al. “SiGe Quantum Dots for Fast Hole Spin Rabi Oscillations.” Applied Physics Letters, vol. 103, no. 26, American Institute of Physics, 2013, doi:10.1063/1.4858959.","short":"N. Ares, G. Katsaros, V. Golovach, J. Zhang, A. Prager, L. Glazman, O. Schmidt, S. De Franceschi, Applied Physics Letters 103 (2013).","ista":"Ares N, Katsaros G, Golovach V, Zhang J, Prager A, Glazman L, Schmidt O, De Franceschi S. 2013. SiGe quantum dots for fast hole spin Rabi oscillations. Applied Physics Letters. 103(26).","apa":"Ares, N., Katsaros, G., Golovach, V., Zhang, J., Prager, A., Glazman, L., … De Franceschi, S. (2013). SiGe quantum dots for fast hole spin Rabi oscillations. Applied Physics Letters. American Institute of Physics. https://doi.org/10.1063/1.4858959","ieee":"N. Ares et al., “SiGe quantum dots for fast hole spin Rabi oscillations,” Applied Physics Letters, vol. 103, no. 26. American Institute of Physics, 2013.","ama":"Ares N, Katsaros G, Golovach V, et al. SiGe quantum dots for fast hole spin Rabi oscillations. Applied Physics Letters. 2013;103(26). doi:10.1063/1.4858959"},"quality_controlled":0,"doi":"10.1063/1.4858959","date_published":"2013-01-23T00:00:00Z"},{"author":[{"first_name":"Natalia","last_name":"Ares","full_name":"Ares, Natalia"},{"full_name":"Golovach, Vitaly N","first_name":"Vitaly","last_name":"Golovach"},{"id":"38DB5788-F248-11E8-B48F-1D18A9856A87","last_name":"Katsaros","first_name":"Georgios","full_name":"Georgios Katsaros"},{"last_name":"Stoffel","first_name":"Mathieu","full_name":"Stoffel, Mathieu"},{"first_name":"Frank","last_name":"Fournel","full_name":"Fournel, Frank"},{"first_name":"Leonid","last_name":"Glazman","full_name":"Glazman, Leonid I"},{"full_name":"Schmidt, Oliver G","first_name":"Oliver","last_name":"Schmidt"},{"last_name":"De Franceschi","first_name":"Silvano","full_name":"De Franceschi, Silvano"}],"volume":110,"date_created":"2018-12-11T11:53:51Z","date_updated":"2021-01-12T06:53:01Z","year":"2013","_id":"1759","acknowledgement":"We acknowledge financial support from the Nanosciences Foundation (Grenoble, France), DOE under Contract No. DEFG02-08ER46482 (Yale), the Agence Nationale de la Recherche, and the European Starting Grant. G. K. acknowledges support from the European Commission via a Marie Curie Carrer Integration Grant and the FWF for a Lise-Meitner Fellowship","publisher":"American Physical Society","intvolume":" 110","status":"public","publication_status":"published","title":"Nature of tunable hole g factors in quantum dots","publist_id":"5365","issue":"4","abstract":[{"text":"We report an electric-field-induced giant modulation of the hole g factor in SiGe nanocrystals. The observed effect is ascribed to a so-far overlooked contribution to the g factor that stems from the mixing between heavy- and light-hole wave functions. We show that the relative displacement between the confined heavy- and light-hole states, occurring upon application of the electric field, alters their mixing strength leading to a strong nonmonotonic modulation of the g factor.","lang":"eng"}],"extern":1,"type":"journal_article","date_published":"2013-01-23T00:00:00Z","doi":"10.1103/PhysRevLett.110.046602","citation":{"ama":"Ares N, Golovach V, Katsaros G, et al. Nature of tunable hole g factors in quantum dots. Physical Review Letters. 2013;110(4). doi:10.1103/PhysRevLett.110.046602","ista":"Ares N, Golovach V, Katsaros G, Stoffel M, Fournel F, Glazman L, Schmidt O, De Franceschi S. 2013. Nature of tunable hole g factors in quantum dots. Physical Review Letters. 110(4).","apa":"Ares, N., Golovach, V., Katsaros, G., Stoffel, M., Fournel, F., Glazman, L., … De Franceschi, S. (2013). Nature of tunable hole g factors in quantum dots. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.110.046602","ieee":"N. Ares et al., “Nature of tunable hole g factors in quantum dots,” Physical Review Letters, vol. 110, no. 4. American Physical Society, 2013.","mla":"Ares, Natalia, et al. “Nature of Tunable Hole g Factors in Quantum Dots.” Physical Review Letters, vol. 110, no. 4, American Physical Society, 2013, doi:10.1103/PhysRevLett.110.046602.","short":"N. Ares, V. Golovach, G. Katsaros, M. Stoffel, F. Fournel, L. Glazman, O. Schmidt, S. De Franceschi, Physical Review Letters 110 (2013).","chicago":"Ares, Natalia, Vitaly Golovach, Georgios Katsaros, Mathieu Stoffel, Frank Fournel, Leonid Glazman, Oliver Schmidt, and Silvano De Franceschi. “Nature of Tunable Hole g Factors in Quantum Dots.” Physical Review Letters. American Physical Society, 2013. https://doi.org/10.1103/PhysRevLett.110.046602."},"main_file_link":[{"url":"http://arxiv.org/abs/1208.0476","open_access":"1"}],"oa":1,"publication":"Physical Review Letters","quality_controlled":0,"day":"23","month":"01"},{"type":"journal_article","extern":1,"publist_id":"5329","issue":"7446","abstract":[{"text":"The geometric aspects of quantum mechanics are emphasized most prominently by the concept of geometric phases, which are acquired whenever a quantum system evolves along a path in Hilbert space, that is, the space of quantum states of the system. The geometric phase is determined only by the shape of this path and is, in its simplest form, a real number. However, if the system has degenerate energy levels, then matrix-valued geometric state transformations, known as non-Abelian holonomies-the effect of which depends on the order of two consecutive paths-can be obtained. They are important, for example, for the creation of synthetic gauge fields in cold atomic gases or the description of non-Abelian anyon statistics. Moreover, there are proposals to exploit non-Abelian holonomic gates for the purposes of noise-resilient quantum computation. In contrast to Abelian geometric operations, non-Abelian ones have been observed only in nuclear quadrupole resonance experiments with a large number of spins, and without full characterization of the geometric process and its non-commutative nature. Here we realize non-Abelian non-adiabatic holonomic quantum operations on a single, superconducting, artificial three-level atom by applying a well-controlled, two-tone microwave drive. Using quantum process tomography, we determine fidelities of the resulting non-commuting gates that exceed 95 per cent. We show that two different quantum gates, originating from two distinct paths in Hilbert space, yield non-equivalent transformations when applied in different orders. This provides evidence for the non-Abelian character of the implemented holonomic quantum operations. In combination with a non-trivial two-quantum-bit gate, our method suggests a way to universal holonomic quantum computing.","lang":"eng"}],"publisher":"Nature Publishing Group","intvolume":" 496","publication_status":"published","title":"Experimental realization of non-Abelian non-adiabatic geometric gates","status":"public","_id":"1785","year":"2013","acknowledgement":"This work is supported financially by GEOMDISS, the Swiss National Science Foundation and ETH Zurich","volume":496,"date_created":"2018-12-11T11:54:00Z","date_updated":"2021-01-12T06:53:11Z","author":[{"full_name":"Abdumalikov, Abdufarrukh A","first_name":"Abdufarrukh","last_name":"Abdumalikov"},{"id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X","first_name":"Johannes M","last_name":"Fink","full_name":"Johannes Fink"},{"full_name":"Juliusson, K","last_name":"Juliusson","first_name":"K"},{"last_name":"Pechal","first_name":"M","full_name":"Pechal, M"},{"last_name":"Berger","first_name":"Stefan","full_name":"Berger, Stefan T"},{"full_name":"Wallraff, Andreas","first_name":"Andreas","last_name":"Wallraff"},{"last_name":"Filipp","first_name":"Stefan","full_name":"Filipp, Stefan"}],"month":"04","day":"25","page":"482 - 485","quality_controlled":0,"citation":{"ista":"Abdumalikov A, Fink JM, Juliusson K, Pechal M, Berger S, Wallraff A, Filipp S. 2013. Experimental realization of non-Abelian non-adiabatic geometric gates. Nature. 496(7446), 482–485.","ieee":"A. Abdumalikov et al., “Experimental realization of non-Abelian non-adiabatic geometric gates,” Nature, vol. 496, no. 7446. Nature Publishing Group, pp. 482–485, 2013.","apa":"Abdumalikov, A., Fink, J. M., Juliusson, K., Pechal, M., Berger, S., Wallraff, A., & Filipp, S. (2013). Experimental realization of non-Abelian non-adiabatic geometric gates. Nature. Nature Publishing Group. https://doi.org/10.1038/nature12010","ama":"Abdumalikov A, Fink JM, Juliusson K, et al. Experimental realization of non-Abelian non-adiabatic geometric gates. Nature. 2013;496(7446):482-485. doi:10.1038/nature12010","chicago":"Abdumalikov, Abdufarrukh, Johannes M Fink, K Juliusson, M Pechal, Stefan Berger, Andreas Wallraff, and Stefan Filipp. “Experimental Realization of Non-Abelian Non-Adiabatic Geometric Gates.” Nature. Nature Publishing Group, 2013. https://doi.org/10.1038/nature12010.","mla":"Abdumalikov, Abdufarrukh, et al. “Experimental Realization of Non-Abelian Non-Adiabatic Geometric Gates.” Nature, vol. 496, no. 7446, Nature Publishing Group, 2013, pp. 482–85, doi:10.1038/nature12010.","short":"A. Abdumalikov, J.M. Fink, K. Juliusson, M. Pechal, S. Berger, A. Wallraff, S. Filipp, Nature 496 (2013) 482–485."},"publication":"Nature","date_published":"2013-04-25T00:00:00Z","doi":"10.1038/nature12010"},{"day":"01","month":"06","date_published":"2013-06-01T00:00:00Z","doi":"10.1038/nphys2612","page":"345 - 348","quality_controlled":0,"citation":{"chicago":"Lang, C, Christopher Eichler, L. Steffen, Johannes M Fink, Matthew Woolley, Alexandre Blais, and Andreas Wallraff. “Correlations, Indistinguishability and Entanglement in Hong-Ou-Mandel Experiments at Microwave Frequencies.” Nature Physics. Nature Publishing Group, 2013. https://doi.org/10.1038/nphys2612.","mla":"Lang, C., et al. “Correlations, Indistinguishability and Entanglement in Hong-Ou-Mandel Experiments at Microwave Frequencies.” Nature Physics, vol. 9, no. 6, Nature Publishing Group, 2013, pp. 345–48, doi:10.1038/nphys2612.","short":"C. Lang, C. Eichler, L. Steffen, J.M. Fink, M. Woolley, A. Blais, A. Wallraff, Nature Physics 9 (2013) 345–348.","ista":"Lang C, Eichler C, Steffen L, Fink JM, Woolley M, Blais A, Wallraff A. 2013. Correlations, indistinguishability and entanglement in Hong-Ou-Mandel experiments at microwave frequencies. Nature Physics. 9(6), 345–348.","ieee":"C. Lang et al., “Correlations, indistinguishability and entanglement in Hong-Ou-Mandel experiments at microwave frequencies,” Nature Physics, vol. 9, no. 6. Nature Publishing Group, pp. 345–348, 2013.","apa":"Lang, C., Eichler, C., Steffen, L., Fink, J. M., Woolley, M., Blais, A., & Wallraff, A. (2013). Correlations, indistinguishability and entanglement in Hong-Ou-Mandel experiments at microwave frequencies. Nature Physics. Nature Publishing Group. https://doi.org/10.1038/nphys2612","ama":"Lang C, Eichler C, Steffen L, et al. Correlations, indistinguishability and entanglement in Hong-Ou-Mandel experiments at microwave frequencies. Nature Physics. 2013;9(6):345-348. doi:10.1038/nphys2612"},"publication":"Nature Physics","extern":1,"issue":"6","publist_id":"5327","abstract":[{"lang":"eng","text":"When two indistinguishable single photons impinge at the two inputs of a beam splitter they coalesce into a pair of photons appearing in either one of its two outputs. This effect is due to the bosonic nature of photons and was first experimentally observed by Hong, Ou and Mandel. Here, we present the observation of the Hong-Ou-Mandel effect with two independent single-photon sources in the microwave frequency domain. We probe the indistinguishability of single photons, created with a controllable delay, in time-resolved second-order cross- and auto-correlation function measurements. Using quadrature amplitude detection we are able to resolve different photon numbers and detect coherence in and between the output arms. This scheme allows us to fully characterize the two-mode entanglement of the spatially separated beam-splitter output modes. Our experiments constitute a first step towards using two-photon interference at microwave frequencies for quantum communication and information processing."}],"type":"journal_article","volume":9,"date_created":"2018-12-11T11:54:00Z","date_updated":"2021-01-12T06:53:11Z","author":[{"first_name":"C","last_name":"Lang","full_name":"Lang, C"},{"last_name":"Eichler","first_name":"Christopher","full_name":"Eichler, Christopher"},{"first_name":"L.","last_name":"Steffen","full_name":"Steffen, L. Kraig"},{"first_name":"Johannes M","last_name":"Fink","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X","full_name":"Johannes Fink"},{"first_name":"Matthew","last_name":"Woolley","full_name":"Woolley, Matthew J"},{"last_name":"Blais","first_name":"Alexandre","full_name":"Blais, Alexandre"},{"full_name":"Wallraff, Andreas","last_name":"Wallraff","first_name":"Andreas"}],"publisher":"Nature Publishing Group","intvolume":" 9","status":"public","publication_status":"published","title":"Correlations, indistinguishability and entanglement in Hong-Ou-Mandel experiments at microwave frequencies","_id":"1787","acknowledgement":"This work was supported by the European Research Council (ERC) through a Starting Grant and by ETHZ. L.S. was supported by EU IP SOLID. A.B. and M.J.W. were supported by NSERC, CIFAR and the Alfred P. Sloan Foundation","year":"2013"},{"author":[{"full_name":"Nissen, Felix","first_name":"Felix","last_name":"Nissen"},{"full_name":"Johannes Fink","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X","first_name":"Johannes M","last_name":"Fink"},{"last_name":"Mlynek","first_name":"Jonas","full_name":"Mlynek, Jonas A"},{"first_name":"Andreas","last_name":"Wallraff","full_name":"Wallraff, Andreas"},{"last_name":"Keeling","first_name":"Jonathan","full_name":"Keeling, Jonathan M"}],"volume":110,"date_created":"2018-12-11T11:54:00Z","date_updated":"2021-01-12T06:53:11Z","year":"2013","_id":"1786","acknowledgement":"J. K. acknowledges financial support from EPSRC program “TOPNES” (EP/I031014/1) and EPSRC (EP/G004714/2)","publisher":"American Physical Society","intvolume":" 110","status":"public","title":"Collective suppression of linewidths in circuit QED","publication_status":"published","publist_id":"5328","issue":"20","abstract":[{"lang":"eng","text":"We report the experimental observation and a theoretical explanation of collective suppression of linewidths for multiple superconducting qubits coupled to a good cavity. This demonstrates how strong qubit-cavity coupling can significantly modify the dephasing and dissipation processes that might be expected for individual qubits, and can potentially improve coherence times in many-body circuit QED."}],"extern":1,"type":"journal_article","date_published":"2013-05-15T00:00:00Z","doi":"10.1103/PhysRevLett.110.203602","main_file_link":[{"url":"http://arxiv.org/abs/1302.0665","open_access":"1"}],"citation":{"ama":"Nissen F, Fink JM, Mlynek J, Wallraff A, Keeling J. Collective suppression of linewidths in circuit QED. Physical Review Letters. 2013;110(20). doi:10.1103/PhysRevLett.110.203602","ista":"Nissen F, Fink JM, Mlynek J, Wallraff A, Keeling J. 2013. Collective suppression of linewidths in circuit QED. Physical Review Letters. 110(20).","apa":"Nissen, F., Fink, J. M., Mlynek, J., Wallraff, A., & Keeling, J. (2013). Collective suppression of linewidths in circuit QED. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.110.203602","ieee":"F. Nissen, J. M. Fink, J. Mlynek, A. Wallraff, and J. Keeling, “Collective suppression of linewidths in circuit QED,” Physical Review Letters, vol. 110, no. 20. American Physical Society, 2013.","mla":"Nissen, Felix, et al. “Collective Suppression of Linewidths in Circuit QED.” Physical Review Letters, vol. 110, no. 20, American Physical Society, 2013, doi:10.1103/PhysRevLett.110.203602.","short":"F. Nissen, J.M. Fink, J. Mlynek, A. Wallraff, J. Keeling, Physical Review Letters 110 (2013).","chicago":"Nissen, Felix, Johannes M Fink, Jonas Mlynek, Andreas Wallraff, and Jonathan Keeling. “Collective Suppression of Linewidths in Circuit QED.” Physical Review Letters. American Physical Society, 2013. https://doi.org/10.1103/PhysRevLett.110.203602."},"oa":1,"publication":"Physical Review Letters","quality_controlled":0,"month":"05","day":"15"},{"day":"02","month":"10","quality_controlled":0,"page":"9 - 11","publication":"Neuron","citation":{"ieee":"G. Novarino, S. Baek, and J. Gleeson, “The sacred disease: The puzzling genetics of epileptic disorders,” Neuron, vol. 80, no. 1. Elsevier, pp. 9–11, 2013.","apa":"Novarino, G., Baek, S., & Gleeson, J. (2013). The sacred disease: The puzzling genetics of epileptic disorders. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2013.09.019","ista":"Novarino G, Baek S, Gleeson J. 2013. The sacred disease: The puzzling genetics of epileptic disorders. Neuron. 80(1), 9–11.","ama":"Novarino G, Baek S, Gleeson J. The sacred disease: The puzzling genetics of epileptic disorders. Neuron. 2013;80(1):9-11. doi:10.1016/j.neuron.2013.09.019","chicago":"Novarino, Gaia, Seungtae Baek, and Joseph Gleeson. “The Sacred Disease: The Puzzling Genetics of Epileptic Disorders.” Neuron. Elsevier, 2013. https://doi.org/10.1016/j.neuron.2013.09.019.","short":"G. Novarino, S. Baek, J. Gleeson, Neuron 80 (2013) 9–11.","mla":"Novarino, Gaia, et al. “The Sacred Disease: The Puzzling Genetics of Epileptic Disorders.” Neuron, vol. 80, no. 1, Elsevier, 2013, pp. 9–11, doi:10.1016/j.neuron.2013.09.019."},"date_published":"2013-10-02T00:00:00Z","doi":"10.1016/j.neuron.2013.09.019","type":"journal_article","extern":1,"abstract":[{"text":"In the September 12, 2013 issue of Nature, the Epi4K Consortium (. Allen etal., 2013) reported sequencing 264patient trios with epileptic encephalopathies. The Consortium focused on genes exceptionally intolerant to sequence variations and found substantial interconnections with autism and intellectual disability gene networks.","lang":"eng"}],"issue":"1","publist_id":"5323","publication_status":"published","status":"public","title":"The sacred disease: The puzzling genetics of epileptic disorders","publisher":"Elsevier","intvolume":" 80","_id":"1790","year":"2013","date_updated":"2021-01-12T06:53:13Z","date_created":"2018-12-11T11:54:01Z","volume":80,"author":[{"full_name":"Gaia Novarino","last_name":"Novarino","first_name":"Gaia","orcid":"0000-0002-7673-7178","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Seungtae","last_name":"Baek","full_name":"Baek, SeungTae"},{"last_name":"Gleeson","first_name":"Joseph","full_name":"Gleeson, Joseph G"}]},{"month":"10","day":"01","citation":{"short":"L.A. Sazanov, R. Baradaran, R. Efremov, J. Berrisford, G. Minhas, Biochemical Society Transactions 41 (2013) 1265–1271.","mla":"Sazanov, Leonid A., et al. “A Long Road towards the Structure of Respiratory Complex I, a Giant Molecular Proton Pump.” Biochemical Society Transactions, vol. 41, no. 5, Portland Press, 2013, pp. 1265–71, doi:10.1042/BST20130193.","chicago":"Sazanov, Leonid A, Rozbeh Baradaran, Rouslan Efremov, John Berrisford, and Gurdeep Minhas. “A Long Road towards the Structure of Respiratory Complex I, a Giant Molecular Proton Pump.” Biochemical Society Transactions. Portland Press, 2013. https://doi.org/10.1042/BST20130193.","ama":"Sazanov LA, Baradaran R, Efremov R, Berrisford J, Minhas G. A long road towards the structure of respiratory complex I, a giant molecular proton pump. Biochemical Society Transactions. 2013;41(5):1265-1271. doi:10.1042/BST20130193","ieee":"L. A. Sazanov, R. Baradaran, R. Efremov, J. Berrisford, and G. Minhas, “A long road towards the structure of respiratory complex I, a giant molecular proton pump,” Biochemical Society Transactions, vol. 41, no. 5. Portland Press, pp. 1265–1271, 2013.","apa":"Sazanov, L. A., Baradaran, R., Efremov, R., Berrisford, J., & Minhas, G. (2013). A long road towards the structure of respiratory complex I, a giant molecular proton pump. Biochemical Society Transactions. Portland Press. https://doi.org/10.1042/BST20130193","ista":"Sazanov LA, Baradaran R, Efremov R, Berrisford J, Minhas G. 2013. A long road towards the structure of respiratory complex I, a giant molecular proton pump. Biochemical Society Transactions. 41(5), 1265–1271."},"publication":"Biochemical Society Transactions","page":"1265 - 1271","quality_controlled":0,"doi":"10.1042/BST20130193","date_published":"2013-10-01T00:00:00Z","type":"journal_article","publist_id":"5106","issue":"5","abstract":[{"text":"Complex I (NADH:ubiquinone oxidoreductase) is central to cellular energy production, being the first and largest enzyme of the respiratory chain in mitochondria. It couples electron transfer from NADH to ubiquinone with proton translocation across the inner mitochondrial membrane and is involved in a wide range of human neurodegenerative disorders. Mammalian complex I is composed of 44 different subunits, whereas the 'minimal' bacterial version contains 14 highly conserved 'core' subunits. The L-shaped assembly consists of hydrophilic and membrane domains. We have determined all known atomic structures of complex I, starting from the hydrophilic domain of Thermus thermophilus enzyme (eight subunits, nine Fe-S clusters), followed by the membrane domains of the Escherichia coli (six subunits, 55 transmembrane helices) and T. thermophilus (seven subunits, 64 transmembrane helices) enzymes, and finally culminating in a recent crystal structure of the entire intact complex I from T. thermophilus (536 kDa, 16 subunits, nine Fe-S clusters, 64 transmembrane helices). The structure suggests an unusual and unique coupling mechanism via longrange conformational changes. Determination of the structure of the entire complex was possible only through this step-by-step approach, building on from smaller subcomplexes towards the entire assembly. Large membrane proteins are notoriously difficult to crystallize, and so various non-standard and sometimes counterintuitive approaches were employed in order to achieve crystal diffraction to high resolution and solve the structures. These steps, as well as the implications from the final structure, are discussed in the present review.","lang":"eng"}],"extern":1,"acknowledgement":"This work was funded by the Medical Research Council.","_id":"1977","year":"2013","intvolume":" 41","publisher":"Portland Press","publication_status":"published","status":"public","title":"A long road towards the structure of respiratory complex I, a giant molecular proton pump","author":[{"full_name":"Leonid Sazanov","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov","first_name":"Leonid A"},{"last_name":"Baradaran","first_name":"Rozbeh","full_name":"Baradaran, Rozbeh "},{"full_name":"Efremov, Rouslan G","first_name":"Rouslan","last_name":"Efremov"},{"last_name":"Berrisford","first_name":"John","full_name":"Berrisford, John M"},{"full_name":"Minhas, Gurdeep S","last_name":"Minhas","first_name":"Gurdeep"}],"volume":41,"date_created":"2018-12-11T11:55:00Z","date_updated":"2021-01-12T06:54:28Z"},{"day":"28","month":"02","page":"443 - 448","quality_controlled":0,"citation":{"apa":"Baradaran, R., Berrisford, J., Minhas, G., & Sazanov, L. A. (2013). Crystal structure of the entire respiratory complex i. Nature. Nature Publishing Group. https://doi.org/10.1038/nature11871","ieee":"R. Baradaran, J. Berrisford, G. Minhas, and L. A. Sazanov, “Crystal structure of the entire respiratory complex i,” Nature, vol. 494, no. 7438. Nature Publishing Group, pp. 443–448, 2013.","ista":"Baradaran R, Berrisford J, Minhas G, Sazanov LA. 2013. Crystal structure of the entire respiratory complex i. Nature. 494(7438), 443–448.","ama":"Baradaran R, Berrisford J, Minhas G, Sazanov LA. Crystal structure of the entire respiratory complex i. Nature. 2013;494(7438):443-448. doi:10.1038/nature11871","chicago":"Baradaran, Rozbeh, John Berrisford, Gurdeep Minhas, and Leonid A Sazanov. “Crystal Structure of the Entire Respiratory Complex I.” Nature. Nature Publishing Group, 2013. https://doi.org/10.1038/nature11871.","short":"R. Baradaran, J. Berrisford, G. Minhas, L.A. Sazanov, Nature 494 (2013) 443–448.","mla":"Baradaran, Rozbeh, et al. “Crystal Structure of the Entire Respiratory Complex I.” Nature, vol. 494, no. 7438, Nature Publishing Group, 2013, pp. 443–48, doi:10.1038/nature11871."},"publication":"Nature","doi":"10.1038/nature11871","date_published":"2013-02-28T00:00:00Z","type":"journal_article","extern":1,"issue":"7438","publist_id":"5107","abstract":[{"text":"Complex I is the first and largest enzyme of the respiratory chain and has a central role in cellular energy production through the coupling of NADH:ubiquinone electron transfer to proton translocation. It is also implicated in many common human neurodegenerative diseases. Here, we report the first crystal structure of the entire, intact complex I (from Thermus thermophilus) at 3.3 Å resolution. The structure of the 536-kDa complex comprises 16 different subunits, with a total of 64 transmembrane helices and 9 iron-sulphur clusters. The core fold of subunit Nqo8 (ND1 in humans) is, unexpectedly, similar to a half-channel of the antiporter-like subunits. Small subunits nearby form a linked second half-channel, which completes the fourth proton-translocation pathway (present in addition to the channels in three antiporter-like subunits). The quinone-binding site is unusually long, narrow and enclosed. The quinone headgroup binds at the deep end of this chamber, near iron-sulphur cluster N2. Notably, the chamber is linked to the fourth channel by a 'funnel' of charged residues. The link continues over the entire membrane domain as a flexible central axis of charged and polar residues, and probably has a leading role in the propagation of conformational changes, aided by coupling elements. The structure suggests that a unique, out-of-the-membrane quinone-reaction chamber enables the redox energy to drive concerted long-range conformational changes in the four antiporter-like domains, resulting in translocation of four protons per cycle.","lang":"eng"}],"intvolume":" 494","publisher":"Nature Publishing Group","status":"public","publication_status":"published","title":"Crystal structure of the entire respiratory complex i","_id":"1978","year":"2013","acknowledgement":"This work was funded by the Medical Research Council.","volume":494,"date_updated":"2021-01-12T06:54:28Z","date_created":"2018-12-11T11:55:01Z","author":[{"first_name":"Rozbeh","last_name":"Baradaran","full_name":"Baradaran, Rozbeh "},{"full_name":"Berrisford, John M","last_name":"Berrisford","first_name":"John"},{"last_name":"Minhas","first_name":"Gurdeep","full_name":"Minhas, Gurdeep S"},{"id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","first_name":"Leonid A","last_name":"Sazanov","full_name":"Leonid Sazanov"}]},{"month":"07","day":"18","doi":"10.1038/nature12235","date_published":"2013-07-18T00:00:00Z","page":"332 - 335","quality_controlled":0,"citation":{"ama":"Vicoso B, Bachtrog D. Reversal of an ancient sex chromosome to an autosome in Drosophila. Nature. 2013;499(7458):332-335. doi:10.1038/nature12235","ista":"Vicoso B, Bachtrog D. 2013. Reversal of an ancient sex chromosome to an autosome in Drosophila. Nature. 499(7458), 332–335.","apa":"Vicoso, B., & Bachtrog, D. (2013). Reversal of an ancient sex chromosome to an autosome in Drosophila. Nature. Nature Publishing Group. https://doi.org/10.1038/nature12235","ieee":"B. Vicoso and D. Bachtrog, “Reversal of an ancient sex chromosome to an autosome in Drosophila,” Nature, vol. 499, no. 7458. Nature Publishing Group, pp. 332–335, 2013.","mla":"Vicoso, Beatriz, and Doris Bachtrog. “Reversal of an Ancient Sex Chromosome to an Autosome in Drosophila.” Nature, vol. 499, no. 7458, Nature Publishing Group, 2013, pp. 332–35, doi:10.1038/nature12235.","short":"B. Vicoso, D. Bachtrog, Nature 499 (2013) 332–335.","chicago":"Vicoso, Beatriz, and Doris Bachtrog. “Reversal of an Ancient Sex Chromosome to an Autosome in Drosophila.” Nature. Nature Publishing Group, 2013. https://doi.org/10.1038/nature12235."},"publication":"Nature","extern":1,"publist_id":"5092","issue":"7458","abstract":[{"lang":"eng","text":"Although transitions of sex-determination mechanisms are frequent in species with homomorphic sex chromosomes, heteromorphic sex chromosomes are thought to represent a terminal evolutionary stage owing to chromosome-specific adaptations such as dosage compensation or an accumulation of sex-specific mutations. Here we show that an autosome of Drosophila, the dot chromosome, was ancestrally a differentiated X chromosome. We analyse the whole genome of true fruitflies (Tephritidae), flesh flies (Sarcophagidae) and soldier flies (Stratiomyidae) to show that genes located on the dot chromosome of Drosophila are X-linked in outgroup species, whereas Drosophila X-linked genes are autosomal. We date this chromosomal transition to early drosophilid evolution by sequencing the genome of other Drosophilidae. Our results reveal several puzzling aspects of Drosophila dot chromosome biology to be possible remnants of its former life as a sex chromosome, such as its minor feminizing role in sex determination or its targeting by a chromosome-specific regulatory mechanism. We also show that patterns of biased gene expression of the dot chromosome during early embryogenesis, oogenesis and spermatogenesis resemble that of the current X chromosome. Thus, although sex chromosomes are not necessarily evolutionary end points and can revert back to an autosomal inheritance, the highly specialized genome architecture of this former X chromosome suggests that severe fitness costs must be overcome for such a turnover to occur."}],"type":"journal_article","volume":499,"date_updated":"2021-01-12T06:54:33Z","date_created":"2018-12-11T11:55:05Z","author":[{"first_name":"Beatriz","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","full_name":"Beatriz Vicoso"},{"full_name":"Bachtrog, Doris","first_name":"Doris","last_name":"Bachtrog"}],"intvolume":" 499","publisher":"Nature Publishing Group","title":"Reversal of an ancient sex chromosome to an autosome in Drosophila","publication_status":"published","status":"public","year":"2013","_id":"1991","acknowledgement":"Funded by National Institutes of Health grants (R01GM076007 and R01GM093182) and a Packard Fellowship to D.B."},{"type":"journal_article","extern":1,"issue":"12","publist_id":"5095","abstract":[{"lang":"eng","text":"The rod-shaped bacterium Escherichia coli selects the cell center as site of division with the help of the proteins MinC, MinD, and MinE. This protein system collectively oscillates between the two cell poles by alternately binding to the membrane in one of the two cell halves. This dynamic behavior, which emerges from the interaction of the ATPase MinD and its activator MinE on the cell membrane, has become a paradigm for protein self-organization. Recently, it has been found that not only the binding of MinD to the membrane, but also interactions of MinE with the membrane contribute to Min-protein self-organization. Here, we show that by accounting for this finding in a computational model, we can comprehensively describe all observed Min-protein patterns in vivo and in vitro. Furthermore, by varying the system's geometry, our computations predict patterns that have not yet been reported. We confirm these predictions experimentally."}],"intvolume":" 9","publisher":"Public Library of Science","title":"Membrane binding of MinE allows for a comprehensive description of Min-protein pattern formation","status":"public","publication_status":"published","year":"2013","_id":"1988","volume":9,"date_updated":"2021-01-12T06:54:32Z","date_created":"2018-12-11T11:55:04Z","author":[{"first_name":"Mike","last_name":"Bonny","full_name":"Bonny, Mike "},{"first_name":"Elisabeth","last_name":"Fischer Friedrich","full_name":"Fischer-Friedrich, Elisabeth"},{"last_name":"Loose","first_name":"Martin","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","full_name":"Martin Loose"},{"last_name":"Schwille","first_name":"Petra","full_name":"Schwille, Petra "},{"first_name":"Karsten","last_name":"Kruse","full_name":"Kruse, Karsten"}],"month":"12","day":"01","quality_controlled":0,"citation":{"chicago":"Bonny, Mike, Elisabeth Fischer Friedrich, Martin Loose, Petra Schwille, and Karsten Kruse. “Membrane Binding of MinE Allows for a Comprehensive Description of Min-Protein Pattern Formation.” PLoS Computational Biology. Public Library of Science, 2013. https://doi.org/10.1371/journal.pcbi.1003347.","short":"M. Bonny, E. Fischer Friedrich, M. Loose, P. Schwille, K. Kruse, PLoS Computational Biology 9 (2013).","mla":"Bonny, Mike, et al. “Membrane Binding of MinE Allows for a Comprehensive Description of Min-Protein Pattern Formation.” PLoS Computational Biology, vol. 9, no. 12, Public Library of Science, 2013, doi:10.1371/journal.pcbi.1003347.","apa":"Bonny, M., Fischer Friedrich, E., Loose, M., Schwille, P., & Kruse, K. (2013). Membrane binding of MinE allows for a comprehensive description of Min-protein pattern formation. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1003347","ieee":"M. Bonny, E. Fischer Friedrich, M. Loose, P. Schwille, and K. Kruse, “Membrane binding of MinE allows for a comprehensive description of Min-protein pattern formation,” PLoS Computational Biology, vol. 9, no. 12. Public Library of Science, 2013.","ista":"Bonny M, Fischer Friedrich E, Loose M, Schwille P, Kruse K. 2013. Membrane binding of MinE allows for a comprehensive description of Min-protein pattern formation. PLoS Computational Biology. 9(12).","ama":"Bonny M, Fischer Friedrich E, Loose M, Schwille P, Kruse K. Membrane binding of MinE allows for a comprehensive description of Min-protein pattern formation. PLoS Computational Biology. 2013;9(12). doi:10.1371/journal.pcbi.1003347"},"publication":"PLoS Computational Biology","doi":"10.1371/journal.pcbi.1003347","date_published":"2013-12-01T00:00:00Z"},{"publist_id":"5066","date_updated":"2021-01-12T06:54:42Z","date_created":"2018-12-11T11:55:11Z","volume":41,"author":[{"full_name":"Uhler, Caroline","last_name":"Uhler","first_name":"Caroline","orcid":"0000-0002-7008-0216","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Raskutti, Garvesh","last_name":"Raskutti","first_name":"Garvesh"},{"full_name":"Bühlmann, Peter","first_name":"Peter","last_name":"Bühlmann"},{"full_name":"Yu, Bin","first_name":"Bin","last_name":"Yu"}],"publication_status":"published","department":[{"_id":"CaUh"}],"publisher":"Institute of Mathematical Statistics","year":"2013","month":"04","language":[{"iso":"eng"}],"doi":"10.1214/12-AOS1080","quality_controlled":"1","external_id":{"arxiv":["1207.0547"]},"main_file_link":[{"open_access":"1","url":"www.doi.org/10.1214/12-AOS1080"}],"oa":1,"abstract":[{"lang":"eng","text":"Many algorithms for inferring causality rely heavily on the faithfulness assumption. The main justification for imposing this assumption is that the set of unfaithful distributions has Lebesgue measure zero, since it can be seen as a collection of hypersurfaces in a hypercube. However, due to sampling error the faithfulness condition alone is not sufficient for statistical estimation, and strong-faithfulness has been proposed and assumed to achieve uniform or high-dimensional consistency. In contrast to the plain faithfulness assumption, the set of distributions that is not strong-faithful has nonzero Lebesgue measure and in fact, can be surprisingly large as we show in this paper. We study the strong-faithfulness condition from a geometric and combinatorial point of view and give upper and lower bounds on the Lebesgue measure of strong-faithful distributions for various classes of directed acyclic graphs. Our results imply fundamental limitations for the PC-algorithm and potentially also for other algorithms based on partial correlation testing in the Gaussian case."}],"issue":"2","type":"journal_article","oa_version":"Published Version","title":"Geometry of the faithfulness assumption in causal inference","status":"public","intvolume":" 41","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2010","day":"01","scopus_import":1,"date_published":"2013-04-01T00:00:00Z","page":"436 - 463","publication":"The Annals of Statistics","citation":{"mla":"Uhler, Caroline, et al. “Geometry of the Faithfulness Assumption in Causal Inference.” The Annals of Statistics, vol. 41, no. 2, Institute of Mathematical Statistics, 2013, pp. 436–63, doi:10.1214/12-AOS1080.","short":"C. Uhler, G. Raskutti, P. Bühlmann, B. Yu, The Annals of Statistics 41 (2013) 436–463.","chicago":"Uhler, Caroline, Garvesh Raskutti, Peter Bühlmann, and Bin Yu. “Geometry of the Faithfulness Assumption in Causal Inference.” The Annals of Statistics. Institute of Mathematical Statistics, 2013. https://doi.org/10.1214/12-AOS1080.","ama":"Uhler C, Raskutti G, Bühlmann P, Yu B. Geometry of the faithfulness assumption in causal inference. The Annals of Statistics. 2013;41(2):436-463. doi:10.1214/12-AOS1080","ista":"Uhler C, Raskutti G, Bühlmann P, Yu B. 2013. Geometry of the faithfulness assumption in causal inference. The Annals of Statistics. 41(2), 436–463.","apa":"Uhler, C., Raskutti, G., Bühlmann, P., & Yu, B. (2013). Geometry of the faithfulness assumption in causal inference. The Annals of Statistics. Institute of Mathematical Statistics. https://doi.org/10.1214/12-AOS1080","ieee":"C. Uhler, G. Raskutti, P. Bühlmann, and B. Yu, “Geometry of the faithfulness assumption in causal inference,” The Annals of Statistics, vol. 41, no. 2. Institute of Mathematical Statistics, pp. 436–463, 2013."}},{"publication":"Journal of Privacy and Confidentiality ","oa":1,"citation":{"apa":"Uhler, C., Slavkovic, A., & Fienberg, S. (2013). Privacy-preserving data sharing for genome-wide association studies. Journal of Privacy and Confidentiality . Carnegie Mellon University. https://doi.org/10.29012/jpc.v5i1.629","ieee":"C. Uhler, A. Slavkovic, and S. Fienberg, “Privacy-preserving data sharing for genome-wide association studies,” Journal of Privacy and Confidentiality , vol. 5, no. 1. Carnegie Mellon University, pp. 137–166, 2013.","ista":"Uhler C, Slavkovic A, Fienberg S. 2013. Privacy-preserving data sharing for genome-wide association studies. Journal of Privacy and Confidentiality . 5(1), 137–166.","ama":"Uhler C, Slavkovic A, Fienberg S. Privacy-preserving data sharing for genome-wide association studies. Journal of Privacy and Confidentiality . 2013;5(1):137-166. doi:10.29012/jpc.v5i1.629","chicago":"Uhler, Caroline, Aleksandra Slavkovic, and Stephen Fienberg. “Privacy-Preserving Data Sharing for Genome-Wide Association Studies.” Journal of Privacy and Confidentiality . Carnegie Mellon University, 2013. https://doi.org/10.29012/jpc.v5i1.629.","short":"C. Uhler, A. Slavkovic, S. Fienberg, Journal of Privacy and Confidentiality 5 (2013) 137–166.","mla":"Uhler, Caroline, et al. “Privacy-Preserving Data Sharing for Genome-Wide Association Studies.” Journal of Privacy and Confidentiality , vol. 5, no. 1, Carnegie Mellon University, 2013, pp. 137–66, doi:10.29012/jpc.v5i1.629."},"main_file_link":[{"open_access":"1","url":"http://repository.cmu.edu/jpc/vol5/iss1/6"}],"quality_controlled":"1","page":"137 - 166","doi":"10.29012/jpc.v5i1.629","date_published":"2013-08-01T00:00:00Z","language":[{"iso":"eng"}],"day":"01","month":"08","article_processing_charge":"No","_id":"2009","year":"2013","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publication_status":"published","title":"Privacy-preserving data sharing for genome-wide association studies","status":"public","department":[{"_id":"CaUh"}],"intvolume":" 5","publisher":"Carnegie Mellon University","author":[{"first_name":"Caroline","last_name":"Uhler","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7008-0216","full_name":"Uhler, Caroline"},{"first_name":"Aleksandra","last_name":"Slavkovic","full_name":"Slavkovic, Aleksandra"},{"last_name":"Fienberg","first_name":"Stephen","full_name":"Fienberg, Stephen"}],"date_updated":"2021-01-12T06:54:41Z","date_created":"2018-12-11T11:55:11Z","volume":5,"oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"Traditional statistical methods for confidentiality protection of statistical databases do not scale well to deal with GWAS databases especially in terms of guarantees regarding protection from linkage to external information. The more recent concept of differential privacy, introduced by the cryptographic community, is an approach which provides a rigorous definition of privacy with meaningful privacy guarantees in the presence of arbitrary external information, although the guarantees may come at a serious price in terms of data utility. Building on such notions, we propose new methods to release aggregate GWAS data without compromising an individual’s privacy. We present methods for releasing differentially private minor allele frequencies, chi-square statistics and p-values. We compare these approaches on simulated data and on a GWAS study of canine hair length involving 685 dogs. We also propose a privacy-preserving method for finding genome-wide associations based on a differentially-private approach to penalized logistic regression."}],"issue":"1","publist_id":"5067"},{"type":"journal_article","publist_id":"4964","issue":"16","abstract":[{"text":"Sex chromosomes originate from autosomes. The accumulation of sexually antagonistic mutations on protosex chromosomes selects for a loss of recombination and sets in motion the evolutionary processes generating heteromorphic sex chromosomes. Recombination suppression and differentiation are generally viewed as the default path of sex chromosome evolution, and the occurrence of old, homomorphic sex chromosomes, such as those of ratite birds, has remained a mystery. Here, we analyze the genome and transcriptome of emu (Dromaius novaehollandiae) and confirm that most genes on the sex chromosome are shared between the Z and W. Surprisingly, however, levels of gene expression are generally sex-biased for all sex-linked genes relative to autosomes, including those in the pseudoautosomal region, and the male-bias increases after gonad formation. This expression bias suggests that the emu sex chromosomes have become masculinized, even in the absence of ZW differentiation. Thus, birds may have taken different evolutionary solutions to minimize the deleterious effects imposed by sexually antagonistic mutations: some lineages eliminate recombination along the protosex chromosomes to physically restrict sexually antagonistic alleles to one sex, whereas ratites evolved sex-biased expression to confine the product of a sexually antagonistic allele to the sex it benefits. This difference in conflict resolution may explain the preservation of recombining, homomorphic sex chromosomes in other lineages and illustrates the importance of sexually antagonistic mutations driving the evolution of sex chromosomes. ","lang":"eng"}],"extern":1,"year":"2013","_id":"2074","publisher":"National Academy of Sciences","intvolume":" 110","title":"Sex biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution","status":"public","publication_status":"published","author":[{"full_name":"Beatriz Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","first_name":"Beatriz","last_name":"Vicoso"},{"first_name":"Vera","last_name":"Kaiser","full_name":"Kaiser, Vera B"},{"full_name":"Bachtrog, Doris","last_name":"Bachtrog","first_name":"Doris"}],"volume":110,"date_updated":"2021-01-12T06:55:08Z","date_created":"2018-12-11T11:55:33Z","month":"04","day":"16","citation":{"ama":"Vicoso B, Kaiser V, Bachtrog D. Sex biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution. PNAS. 2013;110(16):6453-6458. doi:10.1073/pnas.1217027110","ieee":"B. Vicoso, V. Kaiser, and D. Bachtrog, “Sex biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution,” PNAS, vol. 110, no. 16. National Academy of Sciences, pp. 6453–6458, 2013.","apa":"Vicoso, B., Kaiser, V., & Bachtrog, D. (2013). Sex biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1217027110","ista":"Vicoso B, Kaiser V, Bachtrog D. 2013. Sex biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution. PNAS. 110(16), 6453–6458.","short":"B. Vicoso, V. Kaiser, D. Bachtrog, PNAS 110 (2013) 6453–6458.","mla":"Vicoso, Beatriz, et al. “Sex Biased Gene Expression at Homomorphic Sex Chromosomes in Emus and Its Implication for Sex Chromosome Evolution.” PNAS, vol. 110, no. 16, National Academy of Sciences, 2013, pp. 6453–58, doi:10.1073/pnas.1217027110.","chicago":"Vicoso, Beatriz, Vera Kaiser, and Doris Bachtrog. “Sex Biased Gene Expression at Homomorphic Sex Chromosomes in Emus and Its Implication for Sex Chromosome Evolution.” PNAS. National Academy of Sciences, 2013. https://doi.org/10.1073/pnas.1217027110."},"publication":"PNAS","page":"6453 - 6458","quality_controlled":0,"doi":"10.1073/pnas.1217027110","date_published":"2013-04-16T00:00:00Z"},{"type":"journal_article","extern":1,"abstract":[{"text":"Snakes exhibit genetic sex determination, with female heterogametic sex chromosomes (ZZ males, ZW females). Extensive cytogenetic work has suggested that the level of sex chromosome heteromorphism varies among species, with Boidae having entirely homomorphic sex chromosomes, Viperidae having completely heteromorphic sex chromosomes, and Colubridae showing partial differentiation. Here, we take a genomic approach to compare sex chromosome differentiation in these three snake families. We identify homomorphic sex chromosomes in boas (Boidae), but completely heteromorphic sex chromosomes in both garter snakes (Colubridae) and pygmy rattlesnake (Viperidae). Detection of W-linked gametologs enables us to establish the presence of evolutionary strata on garter and pygmy rattlesnake sex chromosomes where recombination was abolished at different time points. Sequence analysis shows that all strata are shared between pygmy rattlesnake and garter snake, i.e., recombination was abolished between the sex chromosomes before the two lineages diverged. The sex-biased transmission of the Z and its hemizygosity in females can impact patterns of molecular evolution, and we show that rates of evolution for Z-linked genes are increased relative to their pseudoautosomal homologs, both at synonymous and amino acid sites (even after controlling for mutational biases). This demonstrates that mutation rates are male-biased in snakes (male-driven evolution), but also supports faster-Z evolution due to differential selective effects on the Z. Finally, we perform a transcriptome analysis in boa and pygmy rattlesnake to establish baseline levels of sex-biased expression in homomorphic sex chromosomes, and show that heteromorphic ZW chromosomes in rattlesnakes lack chromosome-wide dosage compensation. Our study provides the first full scale overview of the evolution of snake sex chromosomes at the genomic level, thus greatly expanding our knowledge of reptilian and vertebrate sex chromosomes evolution.\n","lang":"eng"}],"publist_id":"4962","issue":"8","publication_status":"published","title":"Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata and lack of global dosage compensation","status":"public","intvolume":" 11","publisher":"Public Library of Science","acknowledgement":"Funded by NIH grants (R01GM076007 and R01GM093182) and a Packard Fellowship to DB.","_id":"2076","year":"2013","date_created":"2018-12-11T11:55:34Z","date_updated":"2021-01-12T06:55:09Z","volume":11,"author":[{"full_name":"Beatriz Vicoso","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","last_name":"Vicoso","first_name":"Beatriz"},{"full_name":"Emerson, Jr J.","first_name":"Jr","last_name":"Emerson"},{"full_name":"Zektser, Yulia","first_name":"Yulia","last_name":"Zektser"},{"first_name":"Shivani","last_name":"Mahajan","full_name":"Mahajan, Shivani"},{"last_name":"Bachtrog","first_name":"Doris","full_name":"Bachtrog, Doris"}],"month":"08","day":"27","quality_controlled":0,"publication":"PLoS Biology","citation":{"chicago":"Vicoso, Beatriz, Jr Emerson, Yulia Zektser, Shivani Mahajan, and Doris Bachtrog. “Comparative Sex Chromosome Genomics in Snakes: Differentiation Evolutionary Strata and Lack of Global Dosage Compensation.” PLoS Biology. Public Library of Science, 2013. https://doi.org/10.1371/journal.pbio.1001643.","mla":"Vicoso, Beatriz, et al. “Comparative Sex Chromosome Genomics in Snakes: Differentiation Evolutionary Strata and Lack of Global Dosage Compensation.” PLoS Biology, vol. 11, no. 8, Public Library of Science, 2013, doi:10.1371/journal.pbio.1001643.","short":"B. Vicoso, J. Emerson, Y. Zektser, S. Mahajan, D. Bachtrog, PLoS Biology 11 (2013).","ista":"Vicoso B, Emerson J, Zektser Y, Mahajan S, Bachtrog D. 2013. Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata and lack of global dosage compensation. PLoS Biology. 11(8).","ieee":"B. Vicoso, J. Emerson, Y. Zektser, S. Mahajan, and D. Bachtrog, “Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata and lack of global dosage compensation,” PLoS Biology, vol. 11, no. 8. Public Library of Science, 2013.","apa":"Vicoso, B., Emerson, J., Zektser, Y., Mahajan, S., & Bachtrog, D. (2013). Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata and lack of global dosage compensation. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1001643","ama":"Vicoso B, Emerson J, Zektser Y, Mahajan S, Bachtrog D. Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata and lack of global dosage compensation. PLoS Biology. 2013;11(8). doi:10.1371/journal.pbio.1001643"},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"doi":"10.1371/journal.pbio.1001643","date_published":"2013-08-27T00:00:00Z"},{"intvolume":" 32","publisher":"ACM","status":"public","title":"Computational design of mechanical characters","publication_status":"published","year":"2013","_id":"2108","volume":32,"date_updated":"2021-01-12T06:55:21Z","date_created":"2018-12-11T11:55:46Z","author":[{"full_name":"Coros, Stelian","first_name":"Stelian","last_name":"Coros"},{"full_name":"Thomaszewski, Bernhard","last_name":"Thomaszewski","first_name":"Bernhard"},{"last_name":"Noris","first_name":"Gioacchino","full_name":"Noris, Gioacchino"},{"full_name":"Sueda, Shinjiro","last_name":"Sueda","first_name":"Shinjiro"},{"full_name":"Forberg, Moira","first_name":"Moira","last_name":"Forberg"},{"first_name":"Robert","last_name":"Sumner","full_name":"Sumner, Robert W"},{"full_name":"Matusik, Wojciech","last_name":"Matusik","first_name":"Wojciech"},{"last_name":"Bickel","first_name":"Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","full_name":"Bernd Bickel"}],"type":"journal_article","extern":1,"issue":"4","publist_id":"4927","abstract":[{"lang":"eng","text":"We present an interactive design system that allows non-expert users to create animated mechanical characters. Given an articulated character as input, the user iteratively creates an animation by sketching motion curves indicating how different parts of the character should move. For each motion curve, our framework creates an optimized mechanism that reproduces it as closely as possible. The resulting mechanisms are attached to the character and then connected to each other using gear trains, which are created in a semi-automated fashion. The mechanical assemblies generated with our system can be driven with a single input driver, such as a hand-operated crank or an electric motor, and they can be fabricated using rapid prototyping devices. We demonstrate the versatility of our approach by designing a wide range of mechanical characters, several of which we manufactured using 3D printing. While our pipeline is designed for characters driven by planar mechanisms, significant parts of it extend directly to non-planar mechanisms, allowing us to create characters with compelling 3D motions. "}],"quality_controlled":0,"citation":{"ama":"Coros S, Thomaszewski B, Noris G, et al. Computational design of mechanical characters. ACM Transactions on Graphics. 2013;32(4). doi:10.1145/2461912.2461953","apa":"Coros, S., Thomaszewski, B., Noris, G., Sueda, S., Forberg, M., Sumner, R., … Bickel, B. (2013). Computational design of mechanical characters. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2461912.2461953","ieee":"S. Coros et al., “Computational design of mechanical characters,” ACM Transactions on Graphics, vol. 32, no. 4. ACM, 2013.","ista":"Coros S, Thomaszewski B, Noris G, Sueda S, Forberg M, Sumner R, Matusik W, Bickel B. 2013. Computational design of mechanical characters. ACM Transactions on Graphics. 32(4).","short":"S. Coros, B. Thomaszewski, G. Noris, S. Sueda, M. Forberg, R. Sumner, W. Matusik, B. Bickel, ACM Transactions on Graphics 32 (2013).","mla":"Coros, Stelian, et al. “Computational Design of Mechanical Characters.” ACM Transactions on Graphics, vol. 32, no. 4, ACM, 2013, doi:10.1145/2461912.2461953.","chicago":"Coros, Stelian, Bernhard Thomaszewski, Gioacchino Noris, Shinjiro Sueda, Moira Forberg, Robert Sumner, Wojciech Matusik, and Bernd Bickel. “Computational Design of Mechanical Characters.” ACM Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2461912.2461953."},"publication":"ACM Transactions on Graphics","doi":"10.1145/2461912.2461953","date_published":"2013-07-01T00:00:00Z","month":"07","day":"01"},{"quality_controlled":0,"citation":{"chicago":"Papas, Marios, Christian Regg, Wojciech Jarosz, Bernd Bickel, Philip Jackson, Wojciech Matusik, Steve Marschner, and Markus Groß. “Fabricating Translucent Materials Using Continuous Pigment Mixtures.” ACM Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2461912.2461974.","mla":"Papas, Marios, et al. “Fabricating Translucent Materials Using Continuous Pigment Mixtures.” ACM Transactions on Graphics, vol. 32, no. 4, ACM, 2013, doi:10.1145/2461912.2461974.","short":"M. Papas, C. Regg, W. Jarosz, B. Bickel, P. Jackson, W. Matusik, S. Marschner, M. Groß, ACM Transactions on Graphics 32 (2013).","ista":"Papas M, Regg C, Jarosz W, Bickel B, Jackson P, Matusik W, Marschner S, Groß M. 2013. Fabricating translucent materials using continuous pigment mixtures. ACM Transactions on Graphics. 32(4).","ieee":"M. Papas et al., “Fabricating translucent materials using continuous pigment mixtures,” ACM Transactions on Graphics, vol. 32, no. 4. ACM, 2013.","apa":"Papas, M., Regg, C., Jarosz, W., Bickel, B., Jackson, P., Matusik, W., … Groß, M. (2013). Fabricating translucent materials using continuous pigment mixtures. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2461912.2461974","ama":"Papas M, Regg C, Jarosz W, et al. Fabricating translucent materials using continuous pigment mixtures. ACM Transactions on Graphics. 2013;32(4). doi:10.1145/2461912.2461974"},"publication":"ACM Transactions on Graphics","doi":"10.1145/2461912.2461974","date_published":"2013-07-01T00:00:00Z","day":"01","month":"07","publisher":"ACM","intvolume":" 32","status":"public","title":"Fabricating translucent materials using continuous pigment mixtures","publication_status":"published","year":"2013","_id":"2110","volume":32,"date_updated":"2021-01-12T06:55:22Z","date_created":"2018-12-11T11:55:46Z","author":[{"full_name":"Papas, Marios","first_name":"Marios","last_name":"Papas"},{"first_name":"Christian","last_name":"Regg","full_name":"Regg, Christian"},{"full_name":"Jarosz, Wojciech","last_name":"Jarosz","first_name":"Wojciech"},{"full_name":"Bernd Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","first_name":"Bernd","last_name":"Bickel"},{"full_name":"Jackson, Philip V","first_name":"Philip","last_name":"Jackson"},{"full_name":"Matusik, Wojciech","first_name":"Wojciech","last_name":"Matusik"},{"last_name":"Marschner","first_name":"Steve","full_name":"Marschner, Steve"},{"full_name":"Groß, Markus S","first_name":"Markus","last_name":"Groß"}],"type":"journal_article","extern":1,"publist_id":"4925","issue":"4","abstract":[{"lang":"eng","text":"We present a method for practical physical reproduction and design of homogeneous materials with desired subsurface scattering. Our process uses a collection of different pigments that can be suspended in a clear base material. Our goal is to determine pigment concentrations that best reproduce the appearance and subsurface scattering of a given target material. In order to achieve this task we first fabricate a collection of material samples composed of known mixtures of the available pigments with the base material. We then acquire their reflectance profiles using a custom-built measurement device. We use the same device to measure the reflectance profile of a target material. Based on the database of mappings from pigment concentrations to reflectance profiles, we use an optimization process to compute the concentration of pigments to best replicate the target material appearance. We demonstrate the practicality of our method by reproducing a variety of different translucent materials. We also present a tool that allows the user to explore the range of achievable appearances for a given set of pigments. "}]},{"year":"2013","_id":"2111","status":"public","publication_status":"published","title":"Augmenting physical avatars using projector-based illumination","intvolume":" 32","publisher":"ACM","author":[{"full_name":"Bermano, Amit H","first_name":"Amit","last_name":"Bermano"},{"full_name":"Bruschweiler, Philipp","first_name":"Philipp","last_name":"Bruschweiler"},{"full_name":"Grundhöfer, Anselm","last_name":"Grundhöfer","first_name":"Anselm"},{"full_name":"Iwai, Daisuke","first_name":"Daisuke","last_name":"Iwai"},{"full_name":"Bernd Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","first_name":"Bernd","last_name":"Bickel"},{"full_name":"Groß, Markus S","first_name":"Markus","last_name":"Groß"}],"date_updated":"2021-01-12T06:55:23Z","date_created":"2018-12-11T11:55:47Z","volume":32,"type":"journal_article","abstract":[{"text":"Animated animatronic figures are a unique way to give physical presence to a character. However, their movement and expressions are often limited due to mechanical constraints. In this paper, we propose a complete process for augmenting physical avatars using projector-based illumination, significantly increasing their expressiveness. Given an input animation, the system decomposes the motion into low-frequency motion that can be physically reproduced by the animatronic head and high-frequency details that are added using projected shading. At the core is a spatio-temporal optimization process that compresses the motion in gradient space, ensuring faithful motion replay while respecting the physical limitations of the system. We also propose a complete multi-camera and projection system, including a novel defocused projection and subsurface scattering compensation scheme. The result of our system is a highly expressive physical avatar that features facial details and motion otherwise unattainable due to physical constraints.","lang":"eng"}],"issue":"6","publist_id":"4922","extern":1,"publication":"ACM Transactions on Graphics","citation":{"ama":"Bermano A, Bruschweiler P, Grundhöfer A, Iwai D, Bickel B, Groß M. Augmenting physical avatars using projector-based illumination. ACM Transactions on Graphics. 2013;32(6). doi:10.1145/2508363.2508416","apa":"Bermano, A., Bruschweiler, P., Grundhöfer, A., Iwai, D., Bickel, B., & Groß, M. (2013). Augmenting physical avatars using projector-based illumination. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2508363.2508416","ieee":"A. Bermano, P. Bruschweiler, A. Grundhöfer, D. Iwai, B. Bickel, and M. Groß, “Augmenting physical avatars using projector-based illumination,” ACM Transactions on Graphics, vol. 32, no. 6. ACM, 2013.","ista":"Bermano A, Bruschweiler P, Grundhöfer A, Iwai D, Bickel B, Groß M. 2013. Augmenting physical avatars using projector-based illumination. ACM Transactions on Graphics. 32(6).","short":"A. Bermano, P. Bruschweiler, A. Grundhöfer, D. Iwai, B. Bickel, M. Groß, ACM Transactions on Graphics 32 (2013).","mla":"Bermano, Amit, et al. “Augmenting Physical Avatars Using Projector-Based Illumination.” ACM Transactions on Graphics, vol. 32, no. 6, ACM, 2013, doi:10.1145/2508363.2508416.","chicago":"Bermano, Amit, Philipp Bruschweiler, Anselm Grundhöfer, Daisuke Iwai, Bernd Bickel, and Markus Groß. “Augmenting Physical Avatars Using Projector-Based Illumination.” ACM Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2508363.2508416."},"quality_controlled":0,"doi":"10.1145/2508363.2508416","date_published":"2013-11-01T00:00:00Z","month":"11","day":"01"},{"volume":37,"date_updated":"2021-01-12T06:55:22Z","date_created":"2018-12-11T11:55:46Z","author":[{"full_name":"Hildebrand, Kristian","last_name":"Hildebrand","first_name":"Kristian"},{"first_name":"Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","full_name":"Bernd Bickel"},{"last_name":"Alexa","first_name":"Marc","full_name":"Alexa, Marc"}],"publisher":"Elsevier","intvolume":" 37","publication_status":"published","title":"Orthogonal slicing for additive manufacturing","status":"public","year":"2013","_id":"2109","extern":1,"issue":"6","publist_id":"4924","abstract":[{"lang":"eng","text":"Most additive manufacturing technologies work by layering, i.e. slicing the shape and then generating each slice independently. This introduces an anisotropy into the process, often as different accuracies in the tangential and normal directions, but also in terms of other parameters such as build speed or tensile strength and strain. We model this as an anisotropic cubic element. Our approach then finds a compromise between modeling each part of the shape individually in the best possible direction and using one direction for the whole shape part. In particular, we compute an orthogonal basis and consider only the three basis vectors as slice normals (i.e. fabrication directions). Then we optimize a decomposition of the shape along this basis so that each part can be consistently sliced along one of the basis vectors. In simulation, we show that this approach is superior to slicing the whole shape in one direction, only. It also has clear benefits if the shape is larger than the build volume of the available equipment."}],"type":"journal_article","date_published":"2013-10-01T00:00:00Z","doi":"10.1016/j.cag.2013.05.011","page":"669 - 675","quality_controlled":0,"citation":{"chicago":"Hildebrand, Kristian, Bernd Bickel, and Marc Alexa. “Orthogonal Slicing for Additive Manufacturing.” Computers and Graphics (Pergamon). Elsevier, 2013. https://doi.org/10.1016/j.cag.2013.05.011.","short":"K. Hildebrand, B. Bickel, M. Alexa, Computers and Graphics (Pergamon) 37 (2013) 669–675.","mla":"Hildebrand, Kristian, et al. “Orthogonal Slicing for Additive Manufacturing.” Computers and Graphics (Pergamon), vol. 37, no. 6, Elsevier, 2013, pp. 669–75, doi:10.1016/j.cag.2013.05.011.","ieee":"K. Hildebrand, B. Bickel, and M. Alexa, “Orthogonal slicing for additive manufacturing,” Computers and Graphics (Pergamon), vol. 37, no. 6. Elsevier, pp. 669–675, 2013.","apa":"Hildebrand, K., Bickel, B., & Alexa, M. (2013). Orthogonal slicing for additive manufacturing. Computers and Graphics (Pergamon). Elsevier. https://doi.org/10.1016/j.cag.2013.05.011","ista":"Hildebrand K, Bickel B, Alexa M. 2013. Orthogonal slicing for additive manufacturing. Computers and Graphics (Pergamon). 37(6), 669–675.","ama":"Hildebrand K, Bickel B, Alexa M. Orthogonal slicing for additive manufacturing. Computers and Graphics (Pergamon). 2013;37(6):669-675. doi:10.1016/j.cag.2013.05.011"},"publication":"Computers and Graphics (Pergamon)","month":"10","day":"01"},{"type":"journal_article","abstract":[{"text":"We present a method for fabrication-oriented design of actuated deformable characters that allows a user to automatically create physical replicas of digitally designed characters using rapid manufacturing technologies. Given a deformable character and a set of target poses as input, our method computes a small set of actuators along with their locations on the surface and optimizes the internal material distribution such that the resulting character exhibits the desired deformation behavior. We approach this problem with a dedicated algorithm that combines finite-element analysis, sparse regularization, and constrained optimization. We validate our pipeline on a set of two- and three-dimensional example characters and present results in simulation and physically-fabricated prototypes.","lang":"eng"}],"publist_id":"4926","issue":"4","extern":1,"_id":"2107","acknowledgement":"This work was partly funded by the NCCR Co-Me of the Swiss NSF","year":"2013","title":"Computational design of actuated deformable characters","publication_status":"published","status":"public","intvolume":" 32","publisher":"ACM","author":[{"first_name":"Mélina","last_name":"Skouras","full_name":"Skouras, Mélina"},{"full_name":"Thomaszewski, Bernhard","first_name":"Bernhard","last_name":"Thomaszewski"},{"last_name":"Coros","first_name":"Stelian","full_name":"Coros, Stelian"},{"id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","first_name":"Bernd","last_name":"Bickel","full_name":"Bernd Bickel"},{"full_name":"Groß, Markus S","last_name":"Groß","first_name":"Markus"}],"date_created":"2018-12-11T11:55:45Z","date_updated":"2021-01-12T06:55:21Z","volume":32,"month":"07","day":"01","publication":"ACM Transactions on Graphics","citation":{"short":"M. Skouras, B. Thomaszewski, S. Coros, B. Bickel, M. Groß, ACM Transactions on Graphics 32 (2013).","mla":"Skouras, Mélina, et al. “Computational Design of Actuated Deformable Characters.” ACM Transactions on Graphics, vol. 32, no. 4, ACM, 2013, doi:10.1145/2461912.2461979.","chicago":"Skouras, Mélina, Bernhard Thomaszewski, Stelian Coros, Bernd Bickel, and Markus Groß. “Computational Design of Actuated Deformable Characters.” ACM Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2461912.2461979.","ama":"Skouras M, Thomaszewski B, Coros S, Bickel B, Groß M. Computational design of actuated deformable characters. ACM Transactions on Graphics. 2013;32(4). doi:10.1145/2461912.2461979","apa":"Skouras, M., Thomaszewski, B., Coros, S., Bickel, B., & Groß, M. (2013). Computational design of actuated deformable characters. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2461912.2461979","ieee":"M. Skouras, B. Thomaszewski, S. Coros, B. Bickel, and M. Groß, “Computational design of actuated deformable characters,” ACM Transactions on Graphics, vol. 32, no. 4. ACM, 2013.","ista":"Skouras M, Thomaszewski B, Coros S, Bickel B, Groß M. 2013. Computational design of actuated deformable characters. ACM Transactions on Graphics. 32(4)."},"quality_controlled":0,"doi":"10.1145/2461912.2461979","date_published":"2013-07-01T00:00:00Z"},{"day":"01","month":"11","publication":"ACM Transactions on Graphics","citation":{"chicago":"Miguel, Eder, Rasmus Tamstorf, Derek Bradley, Sara Schvartzman, Bernhard Thomaszewski, Bernd Bickel, Wojciech Matusik, Steve Marschner, and Miguel Otaduy. “Modeling and Estimation of Internal Friction in Cloth.” ACM Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2508363.2508389 .","mla":"Miguel, Eder, et al. “Modeling and Estimation of Internal Friction in Cloth.” ACM Transactions on Graphics, vol. 32, no. 6, ACM, 2013, doi:10.1145/2508363.2508389 .","short":"E. Miguel, R. Tamstorf, D. Bradley, S. Schvartzman, B. Thomaszewski, B. Bickel, W. Matusik, S. Marschner, M. Otaduy, ACM Transactions on Graphics 32 (2013).","ista":"Miguel E, Tamstorf R, Bradley D, Schvartzman S, Thomaszewski B, Bickel B, Matusik W, Marschner S, Otaduy M. 2013. Modeling and estimation of internal friction in cloth. ACM Transactions on Graphics. 32(6).","apa":"Miguel, E., Tamstorf, R., Bradley, D., Schvartzman, S., Thomaszewski, B., Bickel, B., … Otaduy, M. (2013). Modeling and estimation of internal friction in cloth. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2508363.2508389 ","ieee":"E. Miguel et al., “Modeling and estimation of internal friction in cloth,” ACM Transactions on Graphics, vol. 32, no. 6. ACM, 2013.","ama":"Miguel E, Tamstorf R, Bradley D, et al. Modeling and estimation of internal friction in cloth. ACM Transactions on Graphics. 2013;32(6). doi:10.1145/2508363.2508389 "},"quality_controlled":0,"doi":"10.1145/2508363.2508389 ","date_published":"2013-11-01T00:00:00Z","type":"journal_article","abstract":[{"text":"Force-deformation measurements of cloth exhibit significant hysteresis, and many researchers have identified internal friction as the source of this effect. However, it has not been incorporated into computer animation models of cloth. In this paper, we propose a model of internal friction based on an augmented reparameterization of Dahl's model, and we show that this model provides a good match to several important features of cloth hysteresis even with a minimal set of parameters. We also propose novel parameter estimation procedures that are based on simple and inexpensive setups and need only sparse data, as opposed to the complex hardware and dense data acquisition of previous methods. Finally, we provide an algorithm for the efficient simulation of internal friction, and we demonstrate it on simulation examples that show disparate behavior with and without internal friction.","lang":"eng"}],"issue":"6","publist_id":"4923","extern":1,"acknowledgement":"This work was supported in part by the European Research Council (ERC-2011-StG-280135 Animetrics) and the Spanish Ministry of Economy (TIN2012-35840).","_id":"2112","year":"2013","publication_status":"published","title":"Modeling and estimation of internal friction in cloth","status":"public","publisher":"ACM","intvolume":" 32","author":[{"full_name":"Miguel, Eder","first_name":"Eder","last_name":"Miguel"},{"last_name":"Tamstorf","first_name":"Rasmus","full_name":"Tamstorf, Rasmus"},{"full_name":"Bradley, Derek J","first_name":"Derek","last_name":"Bradley"},{"last_name":"Schvartzman","first_name":"Sara","full_name":"Schvartzman, Sara C"},{"full_name":"Thomaszewski, Bernhard","first_name":"Bernhard","last_name":"Thomaszewski"},{"orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel","first_name":"Bernd","full_name":"Bernd Bickel"},{"full_name":"Matusik, Wojciech","first_name":"Wojciech","last_name":"Matusik"},{"full_name":"Marschner, Steve","last_name":"Marschner","first_name":"Steve"},{"full_name":"Otaduy, Miguel A","first_name":"Miguel","last_name":"Otaduy"}],"date_created":"2018-12-11T11:55:47Z","date_updated":"2021-01-12T06:55:23Z","volume":32},{"month":"11","day":"18","doi":"10.1214/EJP.v18-2945 ","date_published":"2013-11-18T00:00:00Z","publication":"Electronic Journal of Probability","oa":1,"citation":{"apa":"Dirksen, S., Maas, J., & Van Neerven, J. (2013). Poisson stochastic integration in Banach spaces. Electronic Journal of Probability. Institute of Mathematical Statistics. https://doi.org/10.1214/EJP.v18-2945 ","ieee":"S. Dirksen, J. Maas, and J. Van Neerven, “Poisson stochastic integration in Banach spaces,” Electronic Journal of Probability, vol. 18. Institute of Mathematical Statistics, 2013.","ista":"Dirksen S, Maas J, Van Neerven J. 2013. Poisson stochastic integration in Banach spaces. Electronic Journal of Probability. 18.","ama":"Dirksen S, Maas J, Van Neerven J. Poisson stochastic integration in Banach spaces. Electronic Journal of Probability. 2013;18. doi:10.1214/EJP.v18-2945 ","chicago":"Dirksen, Sjoerd, Jan Maas, and Jan Van Neerven. “Poisson Stochastic Integration in Banach Spaces.” Electronic Journal of Probability. Institute of Mathematical Statistics, 2013. https://doi.org/10.1214/EJP.v18-2945 .","short":"S. Dirksen, J. Maas, J. Van Neerven, Electronic Journal of Probability 18 (2013).","mla":"Dirksen, Sjoerd, et al. “Poisson Stochastic Integration in Banach Spaces.” Electronic Journal of Probability, vol. 18, Institute of Mathematical Statistics, 2013, doi:10.1214/EJP.v18-2945 ."},"main_file_link":[{"url":"http://arxiv.org/abs/1307.7901 ","open_access":"1"}],"quality_controlled":0,"abstract":[{"lang":"eng","text":"We prove new upper and lower bounds for Banach space-valued stochastic integrals with respect to a compensated Poisson random measure. Our estimates apply to Banach spaces with non-trivial martingale (co)type and extend various results in the literature. We also develop a Malliavin framework to interpret Poisson stochastic integrals as vector-valued Skorohod integrals, and prove a Clark-Ocone representation formula."}],"publist_id":"4917","extern":1,"type":"journal_article","author":[{"last_name":"Dirksen","first_name":"Sjoerd","full_name":"Dirksen, Sjoerd"},{"full_name":"Jan Maas","last_name":"Maas","first_name":"Jan","orcid":"0000-0002-0845-1338","id":"4C5696CE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jan","last_name":"Van Neerven","full_name":"van Neerven, Jan M"}],"date_created":"2018-12-11T11:55:49Z","date_updated":"2021-01-12T06:55:24Z","volume":18,"_id":"2117","acknowledgement":"The first and third named authors were supported by VICI subsidy 639.033.604 of the Netherlands Organisation for Scientific Research (NWO). The first and second named authors were supported by the German Research Foundation in the Collaborative Research C","year":"2013","title":"Poisson stochastic integration in Banach spaces","status":"public","publication_status":"published","publisher":"Institute of Mathematical Statistics","intvolume":" 18"},{"volume":33,"date_created":"2018-12-11T11:55:47Z","date_updated":"2021-01-12T06:55:23Z","author":[{"full_name":"Rouiller, Olivier","first_name":"Olivier","last_name":"Rouiller"},{"first_name":"Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","full_name":"Bernd Bickel"},{"first_name":"Jan","last_name":"Kautz","full_name":"Kautz, Jan"},{"first_name":"Wojciech","last_name":"Matusik","full_name":"Matusik, Wojciech"},{"first_name":"Marc","last_name":"Alexa","full_name":"Alexa, Marc"}],"publisher":"IEEE","intvolume":" 33","title":"3D printing spatially varying BRDFs","publication_status":"published","status":"public","_id":"2113","year":"2013","extern":1,"issue":"6","publist_id":"4920","abstract":[{"text":"A new method fabricates custom surface reflectance and spatially varying bidirectional reflectance distribution functions (svBRDFs). Researchers optimize a microgeometry for a range of normal distribution functions and simulate the resulting surface's effective reflectance. Using the simulation's results, they reproduce an input svBRDF's appearance by distributing the microgeometry on the printed material's surface. This method lets people print svBRDFs on planar samples with current 3D printing technology, even with a limited set of printing materials. It extends naturally to printing svBRDFs on arbitrary shapes.","lang":"eng"}],"type":"journal_article","doi":"10.1109/MCG.2013.82 ","date_published":"2013-09-23T00:00:00Z","page":"48 - 57","quality_controlled":0,"citation":{"chicago":"Rouiller, Olivier, Bernd Bickel, Jan Kautz, Wojciech Matusik, and Marc Alexa. “3D Printing Spatially Varying BRDFs.” IEEE Computer Graphics and Applications. IEEE, 2013. https://doi.org/10.1109/MCG.2013.82 .","short":"O. Rouiller, B. Bickel, J. Kautz, W. Matusik, M. Alexa, IEEE Computer Graphics and Applications 33 (2013) 48–57.","mla":"Rouiller, Olivier, et al. “3D Printing Spatially Varying BRDFs.” IEEE Computer Graphics and Applications, vol. 33, no. 6, IEEE, 2013, pp. 48–57, doi:10.1109/MCG.2013.82 .","ieee":"O. Rouiller, B. Bickel, J. Kautz, W. Matusik, and M. Alexa, “3D printing spatially varying BRDFs,” IEEE Computer Graphics and Applications, vol. 33, no. 6. IEEE, pp. 48–57, 2013.","apa":"Rouiller, O., Bickel, B., Kautz, J., Matusik, W., & Alexa, M. (2013). 3D printing spatially varying BRDFs. IEEE Computer Graphics and Applications. IEEE. https://doi.org/10.1109/MCG.2013.82 ","ista":"Rouiller O, Bickel B, Kautz J, Matusik W, Alexa M. 2013. 3D printing spatially varying BRDFs. IEEE Computer Graphics and Applications. 33(6), 48–57.","ama":"Rouiller O, Bickel B, Kautz J, Matusik W, Alexa M. 3D printing spatially varying BRDFs. IEEE Computer Graphics and Applications. 2013;33(6):48-57. doi:10.1109/MCG.2013.82 "},"publication":"IEEE Computer Graphics and Applications","day":"23","month":"09"},{"day":"01","month":"12","doi":"10.1109/MCG.2013.89","date_published":"2013-12-01T00:00:00Z","publication":"IEEE Computer Graphics and Applications","citation":{"ama":"Bickel B, Alexa M. Computational aspects of fabrication: Modeling, design and 3d printing. IEEE Computer Graphics and Applications. 2013;33(6):24-25. doi:10.1109/MCG.2013.89","ieee":"B. Bickel and M. Alexa, “Computational aspects of fabrication: Modeling, design and 3d printing,” IEEE Computer Graphics and Applications, vol. 33, no. 6. IEEE, pp. 24–25, 2013.","apa":"Bickel, B., & Alexa, M. (2013). Computational aspects of fabrication: Modeling, design and 3d printing. IEEE Computer Graphics and Applications. IEEE. https://doi.org/10.1109/MCG.2013.89","ista":"Bickel B, Alexa M. 2013. Computational aspects of fabrication: Modeling, design and 3d printing. IEEE Computer Graphics and Applications. 33(6), 24–25.","short":"B. Bickel, M. Alexa, IEEE Computer Graphics and Applications 33 (2013) 24–25.","mla":"Bickel, Bernd, and Marc Alexa. “Computational Aspects of Fabrication: Modeling, Design and 3d Printing.” IEEE Computer Graphics and Applications, vol. 33, no. 6, IEEE, 2013, pp. 24–25, doi:10.1109/MCG.2013.89.","chicago":"Bickel, Bernd, and Marc Alexa. “Computational Aspects of Fabrication: Modeling, Design and 3d Printing.” IEEE Computer Graphics and Applications. IEEE, 2013. https://doi.org/10.1109/MCG.2013.89."},"quality_controlled":0,"page":"24 - 25","abstract":[{"text":"3D printing is considered a disruptive technology with a potentially tremendous socioeconomic impact. The three articles in this special issue illustrate how novel computer graphics approaches are advancing such digital fabrication.","lang":"eng"}],"publist_id":"4921","issue":"6","extern":1,"type":"journal_article","author":[{"full_name":"Bernd Bickel","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel","first_name":"Bernd"},{"first_name":"Marc","last_name":"Alexa","full_name":"Alexa, Marc"}],"date_created":"2018-12-11T11:55:48Z","date_updated":"2021-01-12T06:55:24Z","volume":33,"_id":"2114","year":"2013","title":"Computational aspects of fabrication: Modeling, design and 3d printing","status":"public","publication_status":"published","intvolume":" 33","publisher":"IEEE"},{"abstract":[{"lang":"eng","text":"This paper continues the investigation of `Wasserstein-like' transportation distances for probability measures on discrete sets. We prove that the discrete transportation metrics on the d-dimensional discrete torus with mesh size 1/N converge, when N→∞, to the standard 2-Wasserstein distance W_2 on the continuous torus in the sense of Gromov-Hausdorff. This is the first convergence result for the recently developed discrete transportation metrics. The result shows the compatibility between these metrics and the well-established 2-Wasserstein metric. \n\n\n"}],"publist_id":"4904","issue":"2","extern":1,"type":"journal_article","author":[{"first_name":"Nicola","last_name":"Gigli","full_name":"Gigli, Nicola"},{"id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0845-1338","first_name":"Jan","last_name":"Maas","full_name":"Jan Maas"}],"date_created":"2018-12-11T11:55:53Z","date_updated":"2021-01-12T06:55:29Z","volume":45,"_id":"2129","acknowledgement":"JM acknowledges support by Rubicon subsidy 680-50-0901 of the Netherlands Organisation for Scientific Research (NWO).","year":"2013","status":"public","publication_status":"published","title":"Gromov-Hausdorff convergence of discrete transportation metrics","publisher":"Society for Industrial and Applied Mathematics ","intvolume":" 45","month":"01","day":"01","date_published":"2013-01-01T00:00:00Z","doi":"10.1137/120886315 ","publication":"SIAM Journal on Mathematical Analysis","oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1207.6501"}],"citation":{"apa":"Gigli, N., & Maas, J. (2013). Gromov-Hausdorff convergence of discrete transportation metrics. SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics . https://doi.org/10.1137/120886315 ","ieee":"N. Gigli and J. Maas, “Gromov-Hausdorff convergence of discrete transportation metrics,” SIAM Journal on Mathematical Analysis, vol. 45, no. 2. Society for Industrial and Applied Mathematics , pp. 879–899, 2013.","ista":"Gigli N, Maas J. 2013. Gromov-Hausdorff convergence of discrete transportation metrics. SIAM Journal on Mathematical Analysis. 45(2), 879–899.","ama":"Gigli N, Maas J. Gromov-Hausdorff convergence of discrete transportation metrics. SIAM Journal on Mathematical Analysis. 2013;45(2):879-899. doi:10.1137/120886315 ","chicago":"Gigli, Nicola, and Jan Maas. “Gromov-Hausdorff Convergence of Discrete Transportation Metrics.” SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics , 2013. https://doi.org/10.1137/120886315 .","short":"N. Gigli, J. Maas, SIAM Journal on Mathematical Analysis 45 (2013) 879–899.","mla":"Gigli, Nicola, and Jan Maas. “Gromov-Hausdorff Convergence of Discrete Transportation Metrics.” SIAM Journal on Mathematical Analysis, vol. 45, no. 2, Society for Industrial and Applied Mathematics , 2013, pp. 879–99, doi:10.1137/120886315 ."},"quality_controlled":0,"page":"879 - 899"},{"doi":"10.3389/fphy.2013.00017","date_published":"2013-10-07T00:00:00Z","publication":"Frontiers Physics","oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1307.8129"}],"citation":{"ama":"Lemeshko M. Manipulating scattering of ultracold atoms with light-induced dissipation. Frontiers Physics. 2013;1(17). doi:10.3389/fphy.2013.00017","ieee":"M. Lemeshko, “Manipulating scattering of ultracold atoms with light-induced dissipation,” Frontiers Physics, vol. 1, no. 17. Frontiers Media, 2013.","apa":"Lemeshko, M. (2013). Manipulating scattering of ultracold atoms with light-induced dissipation. Frontiers Physics. Frontiers Media. https://doi.org/10.3389/fphy.2013.00017","ista":"Lemeshko M. 2013. Manipulating scattering of ultracold atoms with light-induced dissipation. Frontiers Physics. 1(17).","short":"M. Lemeshko, Frontiers Physics 1 (2013).","mla":"Lemeshko, Mikhail. “Manipulating Scattering of Ultracold Atoms with Light-Induced Dissipation.” Frontiers Physics, vol. 1, no. 17, Frontiers Media, 2013, doi:10.3389/fphy.2013.00017.","chicago":"Lemeshko, Mikhail. “Manipulating Scattering of Ultracold Atoms with Light-Induced Dissipation.” Frontiers Physics. Frontiers Media, 2013. https://doi.org/10.3389/fphy.2013.00017."},"quality_controlled":0,"month":"10","day":"07","author":[{"first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802","full_name":"Mikhail Lemeshko"}],"date_created":"2018-12-11T11:55:56Z","date_updated":"2021-01-12T06:55:32Z","volume":1,"acknowledgement":"The work was supported by the NSF through a grant for the Institute for Theoretical Atomic, Molecular, and Optical Physics at Harvard University and Smithsonian Astrophysical Observatory","_id":"2139","year":"2013","publication_status":"published","title":"Manipulating scattering of ultracold atoms with light-induced dissipation","status":"public","publisher":"Frontiers Media","intvolume":" 1","abstract":[{"text":"Recently it has been shown that pairs of atoms can form metastable bonds due to non-conservative forces induced by dissipation [Lemeshko&Weimer, Nature Comm. 4, 2230 (2013)]. Here we study the dynamics of interaction-induced coherent population trapping - the process responsible for the formation of dissipatively bound molecules. We derive the effective dissipative potentials induced between ultracold atoms by laser light, and study the time evolution of the scattering states. We demonstrate that binding occurs on short timescales of ~10 microseconds, even if the initial kinetic energy of the atoms significantly exceeds the depth of the dissipative potential. Dissipatively-bound molecules with preordained bond lengths and vibrational wavefunctions can be created and detected in current experiments with ultracold atoms.","lang":"eng"}],"publist_id":"4885","issue":"17","extern":1,"type":"journal_article"},{"year":"2013","acknowledgement":" and an Elise Richter Fellowship (Austrian Science Fund V00125). ","publication_status":"published","publisher":"ACM","department":[{"_id":"ToHe"}],"author":[{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000−0002−2985−7724","first_name":"Thomas A","last_name":"Henzinger","full_name":"Henzinger, Thomas A"},{"full_name":"Kirsch, Christoph","first_name":"Christoph","last_name":"Kirsch"},{"full_name":"Payer, Hannes","last_name":"Payer","first_name":"Hannes"},{"id":"4C7638DA-F248-11E8-B48F-1D18A9856A87","last_name":"Sezgin","first_name":"Ali","full_name":"Sezgin, Ali"},{"full_name":"Sokolova, Ana","last_name":"Sokolova","first_name":"Ana"}],"related_material":{"record":[{"relation":"later_version","status":"deleted","id":"10901"}]},"date_updated":"2023-02-21T16:06:49Z","date_created":"2018-12-11T11:56:11Z","file_date_updated":"2020-07-14T12:45:31Z","publist_id":"4801","ec_funded":1,"oa":1,"quality_controlled":"1","project":[{"grant_number":"267989","_id":"25EE3708-B435-11E9-9278-68D0E5697425","name":"Quantitative Reactive Modeling","call_identifier":"FP7"},{"_id":"25F5A88A-B435-11E9-9278-68D0E5697425","grant_number":"S11402-N23","call_identifier":"FWF","name":"Moderne Concurrency Paradigms"}],"conference":{"name":"POPL: Principles of Programming Languages","end_date":"2013-01-25","start_date":"2013-01-23","location":"Rome, Italy"},"doi":"10.1145/2429069.2429109","language":[{"iso":"eng"}],"month":"01","publication_identifier":{"isbn":["978-1-4503-1832-7"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2181","title":"Quantitative relaxation of concurrent data structures","ddc":["000","004"],"status":"public","pubrep_id":"198","file":[{"file_name":"IST-2014-198-v1+1_popl128-henzinger-clean.pdf","access_level":"open_access","creator":"system","file_size":294689,"content_type":"application/pdf","file_id":"5086","relation":"main_file","date_created":"2018-12-12T10:14:33Z","date_updated":"2020-07-14T12:45:31Z","checksum":"adf465e70948f4e80e48057524516456"}],"oa_version":"Submitted Version","type":"conference","abstract":[{"lang":"eng","text":"There is a trade-off between performance and correctness in implementing concurrent data structures. Better performance may be achieved at the expense of relaxing correctness, by redefining the semantics of data structures. We address such a redefinition of data structure semantics and present a systematic and formal framework for obtaining new data structures by quantitatively relaxing existing ones. We view a data structure as a sequential specification S containing all "legal" sequences over an alphabet of method calls. Relaxing the data structure corresponds to defining a distance from any sequence over the alphabet to the sequential specification: the k-relaxed sequential specification contains all sequences over the alphabet within distance k from the original specification. In contrast to other existing work, our relaxations are semantic (distance in terms of data structure states). As an instantiation of our framework, we present two simple yet generic relaxation schemes, called out-of-order and stuttering relaxation, along with several ways of computing distances. We show that the out-of-order relaxation, when further instantiated to stacks, queues, and priority queues, amounts to tolerating bounded out-of-order behavior, which cannot be captured by a purely syntactic relaxation (distance in terms of sequence manipulation, e.g. edit distance). We give concurrent implementations of relaxed data structures and demonstrate that bounded relaxations provide the means for trading correctness for performance in a controlled way. The relaxations are monotonic which further highlights the trade-off: increasing k increases the number of permitted sequences, which as we demonstrate can lead to better performance. Finally, since a relaxed stack or queue also implements a pool, we actually have new concurrent pool implementations that outperform the state-of-the-art ones."}],"publication":"Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language","citation":{"ama":"Henzinger TA, Kirsch C, Payer H, Sezgin A, Sokolova A. Quantitative relaxation of concurrent data structures. In: Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language. ACM; 2013:317-328. doi:10.1145/2429069.2429109","apa":"Henzinger, T. A., Kirsch, C., Payer, H., Sezgin, A., & Sokolova, A. (2013). Quantitative relaxation of concurrent data structures. In Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language (pp. 317–328). Rome, Italy: ACM. https://doi.org/10.1145/2429069.2429109","ieee":"T. A. Henzinger, C. Kirsch, H. Payer, A. Sezgin, and A. Sokolova, “Quantitative relaxation of concurrent data structures,” in Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language, Rome, Italy, 2013, pp. 317–328.","ista":"Henzinger TA, Kirsch C, Payer H, Sezgin A, Sokolova A. 2013. Quantitative relaxation of concurrent data structures. Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language. POPL: Principles of Programming Languages, 317–328.","short":"T.A. Henzinger, C. Kirsch, H. Payer, A. Sezgin, A. Sokolova, in:, Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language, ACM, 2013, pp. 317–328.","mla":"Henzinger, Thomas A., et al. “Quantitative Relaxation of Concurrent Data Structures.” Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language, ACM, 2013, pp. 317–28, doi:10.1145/2429069.2429109.","chicago":"Henzinger, Thomas A, Christoph Kirsch, Hannes Payer, Ali Sezgin, and Ana Sokolova. “Quantitative Relaxation of Concurrent Data Structures.” In Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language, 317–28. ACM, 2013. https://doi.org/10.1145/2429069.2429109."},"page":"317 - 328","date_published":"2013-01-01T00:00:00Z","scopus_import":1,"day":"01","has_accepted_license":"1"},{"doi":"10.1145/2429069.2429085","date_published":"2013-01-01T00:00:00Z","conference":{"name":"POPL: Principles of Programming Languages","start_date":"2013-07-23","location":"Rome, Italy","end_date":"2013-01-25"},"language":[{"iso":"eng"}],"citation":{"apa":"Cerny, P., Henzinger, T. A., & Radhakrishna, A. (2013). Quantitative abstraction refinement. In Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language (pp. 115–128). Rome, Italy: ACM. https://doi.org/10.1145/2429069.2429085","ieee":"P. Cerny, T. A. Henzinger, and A. Radhakrishna, “Quantitative abstraction refinement,” in Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language, Rome, Italy, 2013, pp. 115–128.","ista":"Cerny P, Henzinger TA, Radhakrishna A. 2013. Quantitative abstraction refinement. Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language. POPL: Principles of Programming Languages, 115–128.","ama":"Cerny P, Henzinger TA, Radhakrishna A. Quantitative abstraction refinement. In: Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language. ACM; 2013:115-128. doi:10.1145/2429069.2429085","chicago":"Cerny, Pavol, Thomas A Henzinger, and Arjun Radhakrishna. “Quantitative Abstraction Refinement.” In Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language, 115–28. ACM, 2013. https://doi.org/10.1145/2429069.2429085.","short":"P. Cerny, T.A. Henzinger, A. Radhakrishna, in:, Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language, ACM, 2013, pp. 115–128.","mla":"Cerny, Pavol, et al. “Quantitative Abstraction Refinement.” Proceedings of the 40th Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Language, ACM, 2013, pp. 115–28, doi:10.1145/2429069.2429085."},"publication":"Proceedings of the 40th annual ACM SIGPLAN-SIGACT symposium on Principles of programming language","project":[{"_id":"25EE3708-B435-11E9-9278-68D0E5697425","grant_number":"267989","call_identifier":"FP7","name":"Quantitative Reactive Modeling"},{"_id":"25F5A88A-B435-11E9-9278-68D0E5697425","grant_number":"S11402-N23","name":"Moderne Concurrency Paradigms","call_identifier":"FWF"}],"page":"115 - 128","quality_controlled":"1","month":"01","day":"01","scopus_import":1,"author":[{"id":"4DCBEFFE-F248-11E8-B48F-1D18A9856A87","last_name":"Cerny","first_name":"Pavol","full_name":"Cerny, Pavol"},{"full_name":"Henzinger, Thomas A","first_name":"Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000−0002−2985−7724"},{"full_name":"Radhakrishna, Arjun","last_name":"Radhakrishna","first_name":"Arjun","id":"3B51CAC4-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"None","date_updated":"2021-01-12T06:55:50Z","date_created":"2018-12-11T11:56:11Z","_id":"2182","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2013","department":[{"_id":"ToHe"}],"publisher":"ACM","status":"public","title":"Quantitative abstraction refinement","publication_status":"published","publist_id":"4800","ec_funded":1,"abstract":[{"lang":"eng","text":"We propose a general framework for abstraction with respect to quantitative properties, such as worst-case execution time, or power consumption. Our framework provides a systematic way for counter-example guided abstraction refinement for quantitative properties. The salient aspect of the framework is that it allows anytime verification, that is, verification algorithms that can be stopped at any time (for example, due to exhaustion of memory), and report approximations that improve monotonically when the algorithms are given more time. We instantiate the framework with a number of quantitative abstractions and refinement schemes, which differ in terms of how much quantitative information they keep from the original system. We introduce both state-based and trace-based quantitative abstractions, and we describe conditions that define classes of quantitative properties for which the abstractions provide over-approximations. We give algorithms for evaluating the quantitative properties on the abstract systems. We present algorithms for counter-example based refinements for quantitative properties for both state-based and segment-based abstractions. We perform a case study on worst-case execution time of executables to evaluate the anytime verification aspect and the quantitative abstractions we proposed."}],"type":"conference"},{"month":"12","day":"01","publication_identifier":{"eisbn":["978-0-7695-5037-4 "]},"scopus_import":1,"conference":{"end_date":"2013-07-10","location":"St. Petersburg, Russia","start_date":"2013-07-08","name":"ISVD: Voronoi Diagrams in Science and Engineering"},"date_published":"2013-12-01T00:00:00Z","doi":"10.1109/ISVD.2013.11","language":[{"iso":"eng"}],"citation":{"apa":"Biedl, T., Held, M., & Huber, S. (2013). Recognizing straight skeletons and Voronoi diagrams and reconstructing their input (pp. 37–46). Presented at the ISVD: Voronoi Diagrams in Science and Engineering, St. Petersburg, Russia: IEEE. https://doi.org/10.1109/ISVD.2013.11","ieee":"T. Biedl, M. Held, and S. Huber, “Recognizing straight skeletons and Voronoi diagrams and reconstructing their input,” presented at the ISVD: Voronoi Diagrams in Science and Engineering, St. Petersburg, Russia, 2013, pp. 37–46.","ista":"Biedl T, Held M, Huber S. 2013. Recognizing straight skeletons and Voronoi diagrams and reconstructing their input. ISVD: Voronoi Diagrams in Science and Engineering, 2013 10th International Symposium on Voronoi Diagrams in Science and Engineering (ISVD 2013) , , 37–46.","ama":"Biedl T, Held M, Huber S. Recognizing straight skeletons and Voronoi diagrams and reconstructing their input. In: IEEE; 2013:37-46. doi:10.1109/ISVD.2013.11","chicago":"Biedl, Therese, Martin Held, and Stefan Huber. “Recognizing Straight Skeletons and Voronoi Diagrams and Reconstructing Their Input,” 37–46. IEEE, 2013. https://doi.org/10.1109/ISVD.2013.11.","short":"T. Biedl, M. Held, S. Huber, in:, IEEE, 2013, pp. 37–46.","mla":"Biedl, Therese, et al. Recognizing Straight Skeletons and Voronoi Diagrams and Reconstructing Their Input. IEEE, 2013, pp. 37–46, doi:10.1109/ISVD.2013.11."},"quality_controlled":"1","page":"37 - 46","abstract":[{"lang":"eng","text":"A straight skeleton is a well-known geometric structure, and several algorithms exist to construct the straight skeleton for a given polygon or planar straight-line graph. In this paper, we ask the reverse question: Given the straight skeleton (in form of a planar straight-line graph, with some rays to infinity), can we reconstruct a planar straight-line graph for which this was the straight skeleton? We show how to reduce this problem to the problem of finding a line that intersects a set of convex polygons. We can find these convex polygons and all such lines in $O(nlog n)$ time in the Real RAM computer model, where $n$ denotes the number of edges of the input graph. We also explain how our approach can be used for recognizing Voronoi diagrams of points, thereby completing a partial solution provided by Ash and Bolker in 1985.\r\n"}],"publist_id":"4763","type":"conference","alternative_title":["2013 10th International Symposium on Voronoi Diagrams in Science and Engineering (ISVD 2013) "],"author":[{"last_name":"Biedl","first_name":"Therese","full_name":"Biedl, Therese"},{"last_name":"Held","first_name":"Martin","full_name":"Held, Martin"},{"last_name":"Huber","first_name":"Stefan","orcid":"0000-0002-8871-5814","id":"4700A070-F248-11E8-B48F-1D18A9856A87","full_name":"Huber, Stefan"}],"date_updated":"2021-01-12T06:56:00Z","date_created":"2018-12-11T11:56:20Z","oa_version":"None","_id":"2209","year":"2013","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Recognizing straight skeletons and Voronoi diagrams and reconstructing their input","publication_status":"published","status":"public","department":[{"_id":"HeEd"}],"publisher":"IEEE"},{"article_processing_charge":"No","month":"04","day":"08","language":[{"iso":"eng"}],"doi":"10.1103/PhysRevLett.110.155301","date_published":"2013-04-08T00:00:00Z","oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1211.3317"}],"citation":{"chicago":"Bhongale, Satyan, Ludwig Mathey, Erhai Zhao, Susanne Yelin, and Mikhail Lemeshko. “Quantum Phases of Quadrupolar Fermi Gases in Optical Lattices.” Physical Review Letters. American Physical Society, 2013. https://doi.org/10.1103/PhysRevLett.110.155301.","short":"S. Bhongale, L. Mathey, E. Zhao, S. Yelin, M. Lemeshko, Physical Review Letters 110 (2013).","mla":"Bhongale, Satyan, et al. “Quantum Phases of Quadrupolar Fermi Gases in Optical Lattices.” Physical Review Letters, vol. 110, no. 15, American Physical Society, 2013, doi:10.1103/PhysRevLett.110.155301.","apa":"Bhongale, S., Mathey, L., Zhao, E., Yelin, S., & Lemeshko, M. (2013). Quantum phases of quadrupolar fermi gases in optical lattices. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.110.155301","ieee":"S. Bhongale, L. Mathey, E. Zhao, S. Yelin, and M. Lemeshko, “Quantum phases of quadrupolar fermi gases in optical lattices,” Physical Review Letters, vol. 110, no. 15. American Physical Society, 2013.","ista":"Bhongale S, Mathey L, Zhao E, Yelin S, Lemeshko M. 2013. Quantum phases of quadrupolar fermi gases in optical lattices. Physical Review Letters. 110(15).","ama":"Bhongale S, Mathey L, Zhao E, Yelin S, Lemeshko M. Quantum phases of quadrupolar fermi gases in optical lattices. Physical Review Letters. 2013;110(15). doi:10.1103/PhysRevLett.110.155301"},"publication":"Physical Review Letters","extern":"1","publist_id":"4769","issue":"15","abstract":[{"text":"We introduce a new platform for quantum simulation of many-body systems based on nonspherical atoms or molecules with zero dipole moments but possessing a significant value of electric quadrupole moments. We consider a quadrupolar Fermi gas trapped in a 2D square optical lattice, and show that the peculiar symmetry and broad tunability of the quadrupole-quadrupole interaction results in a rich phase diagram encompassing unconventional BCS and charge density wave phases, and opens up a perspective to create a topological superfluid. Quadrupolar species, such as metastable alkaline-earth atoms and homonuclear molecules, are stable against chemical reactions and collapse and are readily available in experiment at high densities.","lang":"eng"}],"type":"journal_article","oa_version":"None","volume":110,"date_created":"2018-12-11T11:56:18Z","date_updated":"2021-11-16T08:04:06Z","related_material":{"link":[{"url":"https://doi.org/10.1103/PhysRevLett.111.239901","relation":"erratum"}]},"author":[{"full_name":"Bhongale, Satyan","last_name":"Bhongale","first_name":"Satyan"},{"full_name":"Mathey, Ludwig","first_name":"Ludwig","last_name":"Mathey"},{"last_name":"Zhao","first_name":"Erhai","full_name":"Zhao, Erhai"},{"last_name":"Yelin","first_name":"Susanne","full_name":"Yelin, Susanne"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","first_name":"Mikhail","full_name":"Lemeshko, Mikhail"}],"publisher":"American Physical Society","intvolume":" 110","title":"Quantum phases of quadrupolar fermi gases in optical lattices","publication_status":"published","status":"public","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"2204","year":"2013"},{"day":"24","month":"07","date_published":"2013-07-24T00:00:00Z","doi":"10.1103/PhysRevB.88.014426","quality_controlled":0,"publication":"Physical Review B - Condensed Matter and Materials Physics","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1307.1130"}],"citation":{"ama":"Lemeshko M, Yao N, Gorshkov A, et al. Controllable quantum spin glasses with magnetic impurities embedded in quantum solids. Physical Review B - Condensed Matter and Materials Physics. 2013;88(1). doi:10.1103/PhysRevB.88.014426","ista":"Lemeshko M, Yao N, Gorshkov A, Weimer H, Bennett S, Momose T, Gopalakrishnan S. 2013. Controllable quantum spin glasses with magnetic impurities embedded in quantum solids. Physical Review B - Condensed Matter and Materials Physics. 88(1).","ieee":"M. Lemeshko et al., “Controllable quantum spin glasses with magnetic impurities embedded in quantum solids,” Physical Review B - Condensed Matter and Materials Physics, vol. 88, no. 1. American Physical Society, 2013.","apa":"Lemeshko, M., Yao, N., Gorshkov, A., Weimer, H., Bennett, S., Momose, T., & Gopalakrishnan, S. (2013). Controllable quantum spin glasses with magnetic impurities embedded in quantum solids. Physical Review B - Condensed Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.88.014426","mla":"Lemeshko, Mikhail, et al. “Controllable Quantum Spin Glasses with Magnetic Impurities Embedded in Quantum Solids.” Physical Review B - Condensed Matter and Materials Physics, vol. 88, no. 1, American Physical Society, 2013, doi:10.1103/PhysRevB.88.014426.","short":"M. Lemeshko, N. Yao, A. Gorshkov, H. Weimer, S. Bennett, T. Momose, S. Gopalakrishnan, Physical Review B - Condensed Matter and Materials Physics 88 (2013).","chicago":"Lemeshko, Mikhail, Norman Yao, Alexey Gorshkov, Hendrik Weimer, Steven Bennett, Takamasa Momose, and Sarang Gopalakrishnan. “Controllable Quantum Spin Glasses with Magnetic Impurities Embedded in Quantum Solids.” Physical Review B - Condensed Matter and Materials Physics. American Physical Society, 2013. https://doi.org/10.1103/PhysRevB.88.014426."},"oa":1,"extern":1,"abstract":[{"lang":"eng","text":"Magnetic impurities embedded in inert solids can exhibit long coherence times and interact with one another via their intrinsic anisotropic dipolar interaction. We argue that, as a consequence of these properties, disordered ensembles of magnetic impurities provide an effective platform for realizing a controllable, tunable version of the dipolar quantum spin glass seen in LiHoxY1-xF4. Specifically, we propose and analyze a system composed of dysprosium atoms embedded in solid helium. We describe the phase diagram of the system and discuss the realizability and detectability of the quantum spin glass and antiglass phases."}],"publist_id":"4767","issue":"1","type":"journal_article","date_created":"2018-12-11T11:56:19Z","date_updated":"2021-01-12T06:55:59Z","volume":88,"author":[{"full_name":"Mikhail Lemeshko","first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802"},{"last_name":"Yao","first_name":"Norman","full_name":"Yao, Norman Y"},{"first_name":"Alexey","last_name":"Gorshkov","full_name":"Gorshkov, Alexey V"},{"first_name":"Hendrik","last_name":"Weimer","full_name":"Weimer, Hendrik"},{"full_name":"Bennett, Steven D","last_name":"Bennett","first_name":"Steven"},{"full_name":"Momose, Takamasa","last_name":"Momose","first_name":"Takamasa"},{"first_name":"Sarang","last_name":"Gopalakrishnan","full_name":"Gopalakrishnan, Sarang"}],"status":"public","title":"Controllable quantum spin glasses with magnetic impurities embedded in quantum solids","publication_status":"published","publisher":"American Physical Society","intvolume":" 88","year":"2013","_id":"2206"},{"author":[{"first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802","full_name":"Mikhail Lemeshko"},{"full_name":"Krems, Roman V","first_name":"Roman","last_name":"Krems"},{"last_name":"Doyle","first_name":"John","full_name":"Doyle, John M"},{"last_name":"Kais","first_name":"Sabre","full_name":"Kais, Sabre"}],"date_updated":"2020-07-14T12:45:32Z","date_created":"2018-12-11T11:56:19Z","volume":111,"year":"2013","_id":"2205","acknowledgement":"National Science Foundation; Natural Sciences and Engineering Research Council of Canada","publication_status":"published","status":"public","title":"Manipulation of molecules with electromagnetic fields","publisher":"Taylor & Francis","intvolume":" 111","abstract":[{"text":"The goal of the present article is to review the major developments that have led to the current understanding of molecule-field interactions and experimental methods for manipulating molecules with electromagnetic fields. Molecule-field interactions are at the core of several, seemingly distinct areas of molecular physics. This is reflected in the organisation of this article, which includes sections on field control of molecular beams, external field traps for cold molecules, control of molecular orientation and molecular alignment, manipulation of molecules by non-conservative forces, ultracold molecules and ultracold chemistry, controlled many-body phenomena, entanglement of molecules and dipole arrays, and stability of molecular systems in high-frequency super-intense laser fields. The article contains 852 references.","lang":"eng"}],"publist_id":"4768","issue":"12-13","extern":1,"type":"review","doi":"10.1080/00268976.2013.813595","date_published":"2013-07-01T00:00:00Z","publication":"Molecular Physics","main_file_link":[{"url":"http://arxiv.org/abs/1306.0912","open_access":"1"}],"citation":{"ista":"Lemeshko M, Krems R, Doyle J, Kais S. 2013. Manipulation of molecules with electromagnetic fields. Molecular Physics. 111(12–13), 1648–1682.","ieee":"M. Lemeshko, R. Krems, J. Doyle, and S. Kais, “Manipulation of molecules with electromagnetic fields,” Molecular Physics, vol. 111, no. 12–13. Taylor & Francis, pp. 1648–1682, 2013.","apa":"Lemeshko, M., Krems, R., Doyle, J., & Kais, S. (2013). Manipulation of molecules with electromagnetic fields. Molecular Physics. Taylor & Francis. https://doi.org/10.1080/00268976.2013.813595","ama":"Lemeshko M, Krems R, Doyle J, Kais S. Manipulation of molecules with electromagnetic fields. Molecular Physics. 2013;111(12-13):1648-1682. doi:10.1080/00268976.2013.813595","chicago":"Lemeshko, Mikhail, Roman Krems, John Doyle, and Sabre Kais. “Manipulation of Molecules with Electromagnetic Fields.” Molecular Physics. Taylor & Francis, 2013. https://doi.org/10.1080/00268976.2013.813595.","mla":"Lemeshko, Mikhail, et al. “Manipulation of Molecules with Electromagnetic Fields.” Molecular Physics, vol. 111, no. 12–13, Taylor & Francis, 2013, pp. 1648–82, doi:10.1080/00268976.2013.813595.","short":"M. Lemeshko, R. Krems, J. Doyle, S. Kais, Molecular Physics 111 (2013) 1648–1682."},"oa":1,"quality_controlled":0,"page":"1648 - 1682","day":"01","month":"07"},{"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1211.4035"}],"oa":1,"citation":{"chicago":"Lemeshko, Mikhail, and Hendrik Weimer. “Dissipative Binding of Atoms by Non-Conservative Forces.” Nature Communications. Nature Publishing Group, 2013. https://doi.org/10.1038/ncomms3230.","short":"M. Lemeshko, H. Weimer, Nature Communications 4 (2013).","mla":"Lemeshko, Mikhail, and Hendrik Weimer. “Dissipative Binding of Atoms by Non-Conservative Forces.” Nature Communications, vol. 4, Nature Publishing Group, 2013, doi:10.1038/ncomms3230.","ieee":"M. Lemeshko and H. Weimer, “Dissipative binding of atoms by non-conservative forces,” Nature Communications, vol. 4. Nature Publishing Group, 2013.","apa":"Lemeshko, M., & Weimer, H. (2013). Dissipative binding of atoms by non-conservative forces. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms3230","ista":"Lemeshko M, Weimer H. 2013. Dissipative binding of atoms by non-conservative forces. Nature Communications. 4.","ama":"Lemeshko M, Weimer H. Dissipative binding of atoms by non-conservative forces. Nature Communications. 2013;4. doi:10.1038/ncomms3230"},"publication":"Nature Communications","quality_controlled":0,"date_published":"2013-07-30T00:00:00Z","doi":"10.1038/ncomms3230","day":"30","month":"07","_id":"2207","year":"2013","intvolume":" 4","publisher":"Nature Publishing Group","publication_status":"published","title":"Dissipative binding of atoms by non-conservative forces","status":"public","author":[{"full_name":"Mikhail Lemeshko","first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802"},{"full_name":"Weimer, Hendrik","last_name":"Weimer","first_name":"Hendrik"}],"volume":4,"date_created":"2018-12-11T11:56:20Z","date_updated":"2021-01-12T06:55:59Z","type":"journal_article","publist_id":"4766","abstract":[{"text":"The formation of molecules and supramolecular structures results from bonding by conservative forces acting among electrons and nuclei and giving rise to equilibrium configurations defined by minima of the interaction potential. Here we show that bonding can also occur by the non-conservative forces responsible for interaction-induced coherent population trapping. The bound state arises in a dissipative process and manifests itself as a stationary state at a preordained interatomic distance. Remarkably, such a dissipative bonding is present even when the interactions among the atoms are purely repulsive. The dissipative bound states can be created and studied spectroscopically in present-day experiments with ultracold atoms or molecules and can potentially serve for cooling strongly interacting quantum gases.","lang":"eng"}],"extern":1},{"type":"conference","abstract":[{"lang":"eng","text":"A straight skeleton is a well-known geometric structure, and several algorithms exist to construct the straight skeleton for a given polygon. In this paper, we ask the reverse question: Given the straight skeleton (in form of a tree with a drawing in the plane, but with the exact position of the leaves unspecified), can we reconstruct the polygon? We show that in most cases there exists at most one polygon; in the remaining case there is an infinite number of polygons determined by one angle that can range in an interval. We can find this (set of) polygon(s) in linear time in the Real RAM computer model."}],"publist_id":"4762","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2210","year":"2013","title":"Reconstructing polygons from embedded straight skeletons","publication_status":"published","status":"public","publisher":"TU Braunschweig","department":[{"_id":"HeEd"}],"author":[{"full_name":"Biedl, Therese","last_name":"Biedl","first_name":"Therese"},{"first_name":"Martin","last_name":"Held","full_name":"Held, Martin"},{"full_name":"Huber, Stefan","id":"4700A070-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8871-5814","first_name":"Stefan","last_name":"Huber"}],"date_updated":"2021-01-12T06:56:00Z","date_created":"2018-12-11T11:56:21Z","oa_version":"Submitted Version","month":"03","day":"01","publication":"29th European Workshop on Computational Geometry","oa":1,"citation":{"chicago":"Biedl, Therese, Martin Held, and Stefan Huber. “Reconstructing Polygons from Embedded Straight Skeletons.” In 29th European Workshop on Computational Geometry, 95–98. TU Braunschweig, 2013.","short":"T. Biedl, M. Held, S. Huber, in:, 29th European Workshop on Computational Geometry, TU Braunschweig, 2013, pp. 95–98.","mla":"Biedl, Therese, et al. “Reconstructing Polygons from Embedded Straight Skeletons.” 29th European Workshop on Computational Geometry, TU Braunschweig, 2013, pp. 95–98.","ieee":"T. Biedl, M. Held, and S. Huber, “Reconstructing polygons from embedded straight skeletons,” in 29th European Workshop on Computational Geometry, Braunschweig, Germany, 2013, pp. 95–98.","apa":"Biedl, T., Held, M., & Huber, S. (2013). Reconstructing polygons from embedded straight skeletons. In 29th European Workshop on Computational Geometry (pp. 95–98). Braunschweig, Germany: TU Braunschweig.","ista":"Biedl T, Held M, Huber S. 2013. Reconstructing polygons from embedded straight skeletons. 29th European Workshop on Computational Geometry. EuroCG: European Workshop on Computational Geometry, 95–98.","ama":"Biedl T, Held M, Huber S. Reconstructing polygons from embedded straight skeletons. In: 29th European Workshop on Computational Geometry. TU Braunschweig; 2013:95-98."},"main_file_link":[{"url":"http://www.ibr.cs.tu-bs.de/alg/eurocg13/booklet_eurocg13.pdf","open_access":"1"}],"page":"95 - 98","conference":{"name":"EuroCG: European Workshop on Computational Geometry","end_date":"2013-03-20","start_date":"2013-03-17","location":"Braunschweig, Germany"},"date_published":"2013-03-01T00:00:00Z","language":[{"iso":"eng"}]},{"month":"01","language":[{"iso":"eng"}],"doi":"10.1007/978-3-642-45221-5_13","conference":{"name":"LPAR: Logic for Programming, Artificial Intelligence, and Reasoning","location":"Stellenbosch, South Africa","start_date":"2013-12-14","end_date":"2013-12-19"},"project":[{"name":"Rigorous Systems Engineering","call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23"}],"quality_controlled":"1","oa":1,"publist_id":"4724","file_date_updated":"2020-07-14T12:45:34Z","volume":8312,"date_updated":"2020-08-11T10:09:42Z","date_created":"2018-12-11T11:56:29Z","author":[{"first_name":"Régis","last_name":"Blanc","full_name":"Blanc, Régis"},{"id":"335E5684-F248-11E8-B48F-1D18A9856A87","first_name":"Ashutosh","last_name":"Gupta","full_name":"Gupta, Ashutosh"},{"full_name":"Kovács, Laura","first_name":"Laura","last_name":"Kovács"},{"full_name":"Kragl, Bernhard","last_name":"Kragl","first_name":"Bernhard","orcid":"0000-0001-7745-9117","id":"320FC952-F248-11E8-B48F-1D18A9856A87"}],"publisher":"Springer","department":[{"_id":"ToHe"}],"publication_status":"published","year":"2013","has_accepted_license":"1","article_processing_charge":"No","day":"14","series_title":"Lecture Notes in Computer Science","scopus_import":1,"date_published":"2013-01-14T00:00:00Z","page":"173 - 181","citation":{"apa":"Blanc, R., Gupta, A., Kovács, L., & Kragl, B. (2013). Tree interpolation in Vampire. Presented at the LPAR: Logic for Programming, Artificial Intelligence, and Reasoning, Stellenbosch, South Africa: Springer. https://doi.org/10.1007/978-3-642-45221-5_13","ieee":"R. Blanc, A. Gupta, L. Kovács, and B. Kragl, “Tree interpolation in Vampire,” vol. 8312. Springer, pp. 173–181, 2013.","ista":"Blanc R, Gupta A, Kovács L, Kragl B. 2013. Tree interpolation in Vampire. 8312, 173–181.","ama":"Blanc R, Gupta A, Kovács L, Kragl B. Tree interpolation in Vampire. 2013;8312:173-181. doi:10.1007/978-3-642-45221-5_13","chicago":"Blanc, Régis, Ashutosh Gupta, Laura Kovács, and Bernhard Kragl. “Tree Interpolation in Vampire.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-45221-5_13.","short":"R. Blanc, A. Gupta, L. Kovács, B. Kragl, 8312 (2013) 173–181.","mla":"Blanc, Régis, et al. Tree Interpolation in Vampire. Vol. 8312, Springer, 2013, pp. 173–81, doi:10.1007/978-3-642-45221-5_13."},"abstract":[{"lang":"eng","text":"We describe new extensions of the Vampire theorem prover for computing tree interpolants. These extensions generalize Craig interpolation in Vampire, and can also be used to derive sequence interpolants. We evaluated our implementation on a large number of examples over the theory of linear integer arithmetic and integer-indexed arrays, with and without quantifiers. When compared to other methods, our experiments show that some examples could only be solved by our implementation."}],"alternative_title":["LNCS"],"type":"conference","oa_version":"Submitted Version","file":[{"access_level":"open_access","file_name":"2013_LPAR_Blanc.pdf","creator":"dernst","file_size":279206,"content_type":"application/pdf","file_id":"7858","relation":"main_file","checksum":"9cebaafca032e6769d273f393305c705","date_updated":"2020-07-14T12:45:34Z","date_created":"2020-05-15T11:10:40Z"}],"intvolume":" 8312","status":"public","title":"Tree interpolation in Vampire","ddc":["000"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2237"},{"day":"01","series_title":"Lecture Notes in Computer Science","scopus_import":1,"date_published":"2013-12-01T00:00:00Z","page":"228 - 242","citation":{"apa":"Chatterjee, K., Forejt, V., & Wojtczak, D. (2013). Multi-objective discounted reward verification in graphs and MDPs. Presented at the LPAR: Logic for Programming, Artificial Intelligence, and Reasoning, Stellenbosch, South Africa: Springer. https://doi.org/10.1007/978-3-642-45221-5_17","ieee":"K. Chatterjee, V. Forejt, and D. Wojtczak, “Multi-objective discounted reward verification in graphs and MDPs,” vol. 8312. Springer, pp. 228–242, 2013.","ista":"Chatterjee K, Forejt V, Wojtczak D. 2013. Multi-objective discounted reward verification in graphs and MDPs. 8312, 228–242.","ama":"Chatterjee K, Forejt V, Wojtczak D. Multi-objective discounted reward verification in graphs and MDPs. 2013;8312:228-242. doi:10.1007/978-3-642-45221-5_17","chicago":"Chatterjee, Krishnendu, Vojtěch Forejt, and Dominik Wojtczak. “Multi-Objective Discounted Reward Verification in Graphs and MDPs.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-45221-5_17.","short":"K. Chatterjee, V. Forejt, D. Wojtczak, 8312 (2013) 228–242.","mla":"Chatterjee, Krishnendu, et al. Multi-Objective Discounted Reward Verification in Graphs and MDPs. Vol. 8312, Springer, 2013, pp. 228–42, doi:10.1007/978-3-642-45221-5_17."},"abstract":[{"text":"We study the problem of achieving a given value in Markov decision processes (MDPs) with several independent discounted reward objectives. We consider a generalised version of discounted reward objectives, in which the amount of discounting depends on the states visited and on the objective. This definition extends the usual definition of discounted reward, and allows to capture the systems in which the value of different commodities diminish at different and variable rates.\r\n\r\nWe establish results for two prominent subclasses of the problem, namely state-discount models where the discount factors are only dependent on the state of the MDP (and independent of the objective), and reward-discount models where they are only dependent on the objective (but not on the state of the MDP). For the state-discount models we use a straightforward reduction to expected total reward and show that the problem whether a value is achievable can be solved in polynomial time. For the reward-discount model we show that memory and randomisation of the strategies are required, but nevertheless that the problem is decidable and it is sufficient to consider strategies which after a certain number of steps behave in a memoryless way.\r\n\r\nFor the general case, we show that when restricted to graphs (i.e. MDPs with no randomisation), pure strategies and discount factors of the form 1/n where n is an integer, the problem is in PSPACE and finite memory suffices for achieving a given value. We also show that when the discount factors are not of the form 1/n, the memory required by a strategy can be infinite.\r\n","lang":"eng"}],"alternative_title":["LNCS"],"type":"conference","oa_version":"None","title":"Multi-objective discounted reward verification in graphs and MDPs","status":"public","intvolume":" 8312","_id":"2238","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"12","language":[{"iso":"eng"}],"conference":{"location":"Stellenbosch, South Africa","start_date":"2013-12-14","end_date":"2013-12-19","name":"LPAR: Logic for Programming, Artificial Intelligence, and Reasoning"},"doi":"10.1007/978-3-642-45221-5_17","quality_controlled":"1","project":[{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"}],"publist_id":"4723","ec_funded":1,"date_updated":"2020-08-11T10:09:42Z","date_created":"2018-12-11T11:56:30Z","volume":8312,"author":[{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X"},{"last_name":"Forejt","first_name":"Vojtěch","full_name":"Forejt, Vojtěch"},{"first_name":"Dominik","last_name":"Wojtczak","full_name":"Wojtczak, Dominik"}],"publication_status":"published","department":[{"_id":"KrCh"}],"publisher":"Springer","year":"2013"},{"year":"2013","publication_status":"published","department":[{"_id":"ToHe"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","author":[{"full_name":"Michaliszyn, Jakub","first_name":"Jakub","last_name":"Michaliszyn"},{"full_name":"Otop, Jan","last_name":"Otop","first_name":"Jan","id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T11:56:32Z","date_updated":"2020-08-11T10:09:42Z","volume":23,"file_date_updated":"2020-07-14T12:45:34Z","publist_id":"4708","ec_funded":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","project":[{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF"},{"grant_number":"267989","_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Quantitative Reactive Modeling"}],"conference":{"end_date":"2013-09-05","start_date":"2013-09-02","location":"Torino, Italy","name":"CSL: Computer Science Logic"},"doi":"10.4230/LIPIcs.CSL.2013.563","language":[{"iso":"eng"}],"month":"09","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2243","ddc":["000","004"],"title":"Elementary modal logics over transitive structures","status":"public","intvolume":" 23","pubrep_id":"136","oa_version":"Published Version","file":[{"date_created":"2018-12-12T10:12:11Z","date_updated":"2020-07-14T12:45:34Z","checksum":"e0732e73a8b1e39483df7717d53e3e35","relation":"main_file","file_id":"4929","file_size":454915,"content_type":"application/pdf","creator":"system","file_name":"IST-2016-136-v1+2_39.pdf","access_level":"open_access"}],"type":"conference","alternative_title":["LIPIcs"],"abstract":[{"text":"We show that modal logic over universally first-order definable classes of transitive frames is decidable. More precisely, let K be an arbitrary class of transitive Kripke frames definable by a universal first-order sentence. We show that the global and finite global satisfiability problems of modal logic over K are decidable in NP, regardless of choice of K. We also show that the local satisfiability and the finite local satisfiability problems of modal logic over K are decidable in NEXPTIME.","lang":"eng"}],"citation":{"mla":"Michaliszyn, Jakub, and Jan Otop. Elementary Modal Logics over Transitive Structures. Vol. 23, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013, pp. 563–77, doi:10.4230/LIPIcs.CSL.2013.563.","short":"J. Michaliszyn, J. Otop, 23 (2013) 563–577.","chicago":"Michaliszyn, Jakub, and Jan Otop. “Elementary Modal Logics over Transitive Structures.” Leibniz International Proceedings in Informatics. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013. https://doi.org/10.4230/LIPIcs.CSL.2013.563.","ama":"Michaliszyn J, Otop J. Elementary modal logics over transitive structures. 2013;23:563-577. doi:10.4230/LIPIcs.CSL.2013.563","ista":"Michaliszyn J, Otop J. 2013. Elementary modal logics over transitive structures. 23, 563–577.","apa":"Michaliszyn, J., & Otop, J. (2013). Elementary modal logics over transitive structures. Presented at the CSL: Computer Science Logic, Torino, Italy: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.CSL.2013.563","ieee":"J. Michaliszyn and J. Otop, “Elementary modal logics over transitive structures,” vol. 23. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, pp. 563–577, 2013."},"page":"563 - 577","date_published":"2013-09-01T00:00:00Z","scopus_import":1,"series_title":"Leibniz International Proceedings in Informatics","day":"01","has_accepted_license":"1"},{"language":[{"iso":"eng"}],"conference":{"end_date":"2013-09-25","start_date":"2013-09-23","location":"Bordeaux, France","name":"GD: Graph Drawing and Network Visualization"},"doi":"10.1007/978-3-319-03841-4_41","quality_controlled":"1","project":[{"grant_number":"PP00P2_138948","_id":"25FA3206-B435-11E9-9278-68D0E5697425","name":"Embeddings in Higher Dimensions: Algorithms and Combinatorics"}],"external_id":{"arxiv":["1302.6475"]},"main_file_link":[{"url":"http://arxiv.org/abs/1302.6475","open_access":"1"}],"oa":1,"month":"09","date_updated":"2023-02-21T17:03:07Z","date_created":"2018-12-11T11:56:32Z","volume":8242,"author":[{"full_name":"Matoušek, Jiří","last_name":"Matoušek","first_name":"Jiří"},{"full_name":"Sedgwick, Eric","last_name":"Sedgwick","first_name":"Eric"},{"full_name":"Tancer, Martin","last_name":"Tancer","first_name":"Martin","orcid":"0000-0002-1191-6714","id":"38AC689C-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-1494-0568","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","last_name":"Wagner","first_name":"Uli","full_name":"Wagner, Uli"}],"related_material":{"record":[{"id":"1411","status":"public","relation":"later_version"}]},"publication_status":"published","department":[{"_id":"UlWa"}],"publisher":"Springer","year":"2013","acknowledgement":"We would like to thank the authors of [GHR13] for mak- ing a draft of their paper available to us, and, in particular, T. Huynh for an e-mail correspondence.","publist_id":"4707","date_published":"2013-09-01T00:00:00Z","page":"472 - 483","citation":{"ista":"Matoušek J, Sedgwick E, Tancer M, Wagner U. 2013. Untangling two systems of noncrossing curves. 8242, 472–483.","apa":"Matoušek, J., Sedgwick, E., Tancer, M., & Wagner, U. (2013). Untangling two systems of noncrossing curves. Presented at the GD: Graph Drawing and Network Visualization, Bordeaux, France: Springer. https://doi.org/10.1007/978-3-319-03841-4_41","ieee":"J. Matoušek, E. Sedgwick, M. Tancer, and U. Wagner, “Untangling two systems of noncrossing curves,” vol. 8242. Springer, pp. 472–483, 2013.","ama":"Matoušek J, Sedgwick E, Tancer M, Wagner U. Untangling two systems of noncrossing curves. 2013;8242:472-483. doi:10.1007/978-3-319-03841-4_41","chicago":"Matoušek, Jiří, Eric Sedgwick, Martin Tancer, and Uli Wagner. “Untangling Two Systems of Noncrossing Curves.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-319-03841-4_41.","mla":"Matoušek, Jiří, et al. Untangling Two Systems of Noncrossing Curves. Vol. 8242, Springer, 2013, pp. 472–83, doi:10.1007/978-3-319-03841-4_41.","short":"J. Matoušek, E. Sedgwick, M. Tancer, U. Wagner, 8242 (2013) 472–483."},"day":"01","series_title":"Lecture Notes in Computer Science","scopus_import":1,"oa_version":"Preprint","status":"public","title":"Untangling two systems of noncrossing curves","intvolume":" 8242","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2244","abstract":[{"text":"We consider two systems (α1,...,αm) and (β1,...,βn) of curves drawn on a compact two-dimensional surface ℳ with boundary. Each αi and each βj is either an arc meeting the boundary of ℳ at its two endpoints, or a closed curve. The αi are pairwise disjoint except for possibly sharing endpoints, and similarly for the βj. We want to "untangle" the βj from the αi by a self-homeomorphism of ℳ; more precisely, we seek an homeomorphism φ: ℳ → ℳ fixing the boundary of ℳ pointwise such that the total number of crossings of the αi with the φ(βj) is as small as possible. This problem is motivated by an application in the algorithmic theory of embeddings and 3-manifolds. We prove that if ℳ is planar, i.e., a sphere with h ≥ 0 boundary components ("holes"), then O(mn) crossings can be achieved (independently of h), which is asymptotically tight, as an easy lower bound shows. In general, for an arbitrary (orientable or nonorientable) surface ℳ with h holes and of (orientable or nonorientable) genus g ≥ 0, we obtain an O((m + n)4) upper bound, again independent of h and g. ","lang":"eng"}],"alternative_title":["LNCS"],"type":"conference"},{"month":"01","doi":"10.1007/978-3-642-40041-4_4","conference":{"start_date":"2013-08-18","location":"Santa Barbara, CA, United States","end_date":"2013-08-22","name":"CRYPTO: International Cryptology Conference"},"language":[{"iso":"eng"}],"oa":1,"project":[{"_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668","call_identifier":"FP7","name":"Provable Security for Physical Cryptography"}],"quality_controlled":"1","ec_funded":1,"publist_id":"4687","file_date_updated":"2020-07-14T12:45:35Z","author":[{"full_name":"Alwen, Joel F","last_name":"Alwen","first_name":"Joel F","id":"2A8DFA8C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Krenn","first_name":"Stephan","orcid":"0000-0003-2835-9093","id":"329FCCF0-F248-11E8-B48F-1D18A9856A87","full_name":"Krenn, Stephan"},{"full_name":"Pietrzak, Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","first_name":"Krzysztof Z","last_name":"Pietrzak"},{"full_name":"Wichs, Daniel","first_name":"Daniel","last_name":"Wichs"}],"volume":8042,"date_created":"2018-12-11T11:56:37Z","date_updated":"2021-01-12T06:56:21Z","year":"2013","department":[{"_id":"KrPi"}],"publisher":"Springer","publication_status":"published","has_accepted_license":"1","day":"01","scopus_import":1,"series_title":"Lecture Notes in Computer Science","date_published":"2013-01-01T00:00:00Z","citation":{"ama":"Alwen JF, Krenn S, Pietrzak KZ, Wichs D. Learning with rounding, revisited: New reduction properties and applications. 2013;8042(1):57-74. doi:10.1007/978-3-642-40041-4_4","apa":"Alwen, J. F., Krenn, S., Pietrzak, K. Z., & Wichs, D. (2013). Learning with rounding, revisited: New reduction properties and applications. Presented at the CRYPTO: International Cryptology Conference, Santa Barbara, CA, United States: Springer. https://doi.org/10.1007/978-3-642-40041-4_4","ieee":"J. F. Alwen, S. Krenn, K. Z. Pietrzak, and D. Wichs, “Learning with rounding, revisited: New reduction properties and applications,” vol. 8042, no. 1. Springer, pp. 57–74, 2013.","ista":"Alwen JF, Krenn S, Pietrzak KZ, Wichs D. 2013. Learning with rounding, revisited: New reduction properties and applications. 8042(1), 57–74.","short":"J.F. Alwen, S. Krenn, K.Z. Pietrzak, D. Wichs, 8042 (2013) 57–74.","mla":"Alwen, Joel F., et al. Learning with Rounding, Revisited: New Reduction Properties and Applications. Vol. 8042, no. 1, Springer, 2013, pp. 57–74, doi:10.1007/978-3-642-40041-4_4.","chicago":"Alwen, Joel F, Stephan Krenn, Krzysztof Z Pietrzak, and Daniel Wichs. “Learning with Rounding, Revisited: New Reduction Properties and Applications.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-40041-4_4."},"page":"57 - 74","issue":"1","abstract":[{"text":"The learning with rounding (LWR) problem, introduced by Banerjee, Peikert and Rosen at EUROCRYPT ’12, is a variant of learning with errors (LWE), where one replaces random errors with deterministic rounding. The LWR problem was shown to be as hard as LWE for a setting of parameters where the modulus and modulus-to-error ratio are super-polynomial. In this work we resolve the main open problem and give a new reduction that works for a larger range of parameters, allowing for a polynomial modulus and modulus-to-error ratio. In particular, a smaller modulus gives us greater efficiency, and a smaller modulus-to-error ratio gives us greater security, which now follows from the worst-case hardness of GapSVP with polynomial (rather than super-polynomial) approximation factors.\r\n\r\nAs a tool in the reduction, we show that there is a “lossy mode” for the LWR problem, in which LWR samples only reveal partial information about the secret. This property gives us several interesting new applications, including a proof that LWR remains secure with weakly random secrets of sufficient min-entropy, and very simple constructions of deterministic encryption, lossy trapdoor functions and reusable extractors.\r\n\r\nOur approach is inspired by a technique of Goldwasser et al. from ICS ’10, which implicitly showed the existence of a “lossy mode” for LWE. By refining this technique, we also improve on the parameters of that work to only requiring a polynomial (instead of super-polynomial) modulus and modulus-to-error ratio.\r\n","lang":"eng"}],"type":"conference","alternative_title":["LNCS"],"pubrep_id":"684","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"IST-2016-684-v1+1_098.pdf","creator":"system","content_type":"application/pdf","file_size":587898,"file_id":"4912","relation":"main_file","checksum":"16d428408a806b8e49eecc607deab115","date_created":"2018-12-12T10:11:55Z","date_updated":"2020-07-14T12:45:35Z"}],"_id":"2259","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 8042","title":"Learning with rounding, revisited: New reduction properties and applications","status":"public","ddc":["000","004"]},{"date_published":"2013-01-01T00:00:00Z","citation":{"chicago":"Kiltz, Eike, Krzysztof Z Pietrzak, and Mario Szegedy. “Digital Signatures with Minimal Overhead from Indifferentiable Random Invertible Functions.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-40041-4_31.","short":"E. Kiltz, K.Z. Pietrzak, M. Szegedy, 8042 (2013) 571–588.","mla":"Kiltz, Eike, et al. Digital Signatures with Minimal Overhead from Indifferentiable Random Invertible Functions. Vol. 8042, Springer, 2013, pp. 571–88, doi:10.1007/978-3-642-40041-4_31.","apa":"Kiltz, E., Pietrzak, K. Z., & Szegedy, M. (2013). Digital signatures with minimal overhead from indifferentiable random invertible functions. Presented at the CRYPTO: International Cryptology Conference, Santa Barbara, CA, United States: Springer. https://doi.org/10.1007/978-3-642-40041-4_31","ieee":"E. Kiltz, K. Z. Pietrzak, and M. Szegedy, “Digital signatures with minimal overhead from indifferentiable random invertible functions,” vol. 8042. Springer, pp. 571–588, 2013.","ista":"Kiltz E, Pietrzak KZ, Szegedy M. 2013. Digital signatures with minimal overhead from indifferentiable random invertible functions. 8042, 571–588.","ama":"Kiltz E, Pietrzak KZ, Szegedy M. Digital signatures with minimal overhead from indifferentiable random invertible functions. 2013;8042:571-588. doi:10.1007/978-3-642-40041-4_31"},"page":"571 - 588","day":"01","has_accepted_license":"1","scopus_import":1,"series_title":"Lecture Notes in Computer Science","pubrep_id":"685","file":[{"file_name":"IST-2016-685-v1+1_658.pdf","access_level":"open_access","file_size":493175,"content_type":"application/pdf","creator":"system","relation":"main_file","file_id":"4744","date_created":"2018-12-12T10:09:20Z","date_updated":"2020-07-14T12:45:35Z","checksum":"18a3f602cb41de184dc0e16a0e907633"}],"oa_version":"Submitted Version","_id":"2258","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Digital signatures with minimal overhead from indifferentiable random invertible functions","ddc":["000","004"],"intvolume":" 8042","abstract":[{"text":"In a digital signature scheme with message recovery, rather than transmitting the message m and its signature σ, a single enhanced signature τ is transmitted. The verifier is able to recover m from τ and at the same time verify its authenticity. The two most important parameters of such a scheme are its security and overhead |τ| − |m|. A simple argument shows that for any scheme with “n bits security” |τ| − |m| ≥ n, i.e., the overhead is lower bounded by the security parameter n. Currently, the best known constructions in the random oracle model are far from this lower bound requiring an overhead of n + logq h , where q h is the number of queries to the random oracle. In this paper we give a construction which basically matches the n bit lower bound. We propose a simple digital signature scheme with n + o(logq h ) bits overhead, where q h denotes the number of random oracle queries.\r\n\r\nOur construction works in two steps. First, we propose a signature scheme with message recovery having optimal overhead in a new ideal model, the random invertible function model. Second, we show that a four-round Feistel network with random oracles as round functions is tightly “public-indifferentiable” from a random invertible function. At the core of our indifferentiability proof is an almost tight upper bound for the expected number of edges of the densest “small” subgraph of a random Cayley graph, which may be of independent interest.\r\n","lang":"eng"}],"type":"conference","alternative_title":["LNCS"],"conference":{"end_date":"2013-08-22","location":"Santa Barbara, CA, United States","start_date":"2013-08-18","name":"CRYPTO: International Cryptology Conference"},"doi":"10.1007/978-3-642-40041-4_31","language":[{"iso":"eng"}],"oa":1,"quality_controlled":"1","project":[{"_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668","name":"Provable Security for Physical Cryptography","call_identifier":"FP7"}],"month":"01","author":[{"last_name":"Kiltz","first_name":"Eike","full_name":"Kiltz, Eike"},{"full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","last_name":"Pietrzak","first_name":"Krzysztof Z"},{"full_name":"Szegedy, Mario","last_name":"Szegedy","first_name":"Mario"}],"date_updated":"2021-01-12T06:56:21Z","date_created":"2018-12-11T11:56:37Z","volume":8042,"year":"2013","publication_status":"published","publisher":"Springer","department":[{"_id":"KrPi"}],"file_date_updated":"2020-07-14T12:45:35Z","publist_id":"4688","ec_funded":1},{"publist_id":"4690","file_date_updated":"2020-07-14T12:45:35Z","year":"2013","department":[{"_id":"E-Lib"}],"publisher":"Verein Österreichischer Bibliothekarinnen und Bibliothekare","publication_status":"published","author":[{"first_name":"Patrick","last_name":"Danowski","id":"2EBD1598-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6026-4409","full_name":"Danowski, Patrick"},{"full_name":"Goldfarb, Doron","first_name":"Doron","last_name":"Goldfarb"},{"full_name":"Schaffner, Verena","first_name":"Verena","last_name":"Schaffner"},{"last_name":"Seidler","first_name":"Wolfram","full_name":"Seidler, Wolfram"}],"volume":66,"date_created":"2018-12-11T11:56:36Z","date_updated":"2021-01-12T06:56:20Z","month":"12","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"language":[{"iso":"eng"}],"type":"journal_article","issue":"3/4","abstract":[{"lang":"eng","text":"Linked (Open) Data - bibliographic data on the Semantic Web. Report of the Working Group on Linked Data to the plenary assembly of the Austrian Library Network (translation of the title). Linked Data stands for a certain approach to publishing data on the Web. The underlying idea is to harmonise heterogeneous data sources of different origin in order to improve their accessibility and interoperability, effectively making them queryable as a big distributed database. This report summarises relevant developments in Europe as well as the Linked Data Working Group‘s strategic and technical considerations regarding the publishing of the Austrian Library Network’s (OBV’s) bibliographic datasets. It concludes with the mutual agreement that the implementation of Linked Data principles within the OBV can only be taken into consideration accompanied by a discussion about the provision of the datasets under a free license."},{"lang":"ger","text":"Linked Data steht für eine bestimmte Form der Veröffentlichung von Daten via Internet. Die zu Grunde liegende Idee ist es, Daten verschiedenster Provenienz, die derzeit teilweise gar nicht oder nur schwer zugänglich sind, in möglichst \r\neinheitlicher Form miteinander zu verknüpfen und dadurch in ihrer Gesamtheit abfragbar zu machen.\r\nDieser Bericht fasst die Entwicklungen im europäischen Raum, sowie strategische und technische Überlegungen der AG Linked Data hinsichtlich der Veröffentlichung von bibliothekarischen Daten des Österreichischen Bibliothekenverbundes (OBV) zusammen und schließt mit der gemeinsamen Übereinkunft, dass die Umsetzung von Linked Data-Prinzipien im OBV nur in Zusammenhang mit einer Diskussion über die damit einhergehende Veröffentlichung der Daten unter einer freien Lizenz angedacht werden sollte."}],"_id":"2256","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 66","ddc":["020"],"status":"public","title":"Linked (Open) Data - Bibliographische Daten im Semantic Web","pubrep_id":"719","popular_science":"1","oa_version":"Published Version","file":[{"file_name":"IST-2016-719-v1+1_Patrick_Danowski__Doron_Goldfarb__Verena_Schaffner__Wolfram_Seidler_Linked__Open__Data_Bibliographische_Daten_im_Semantic_Web.pdf","access_level":"open_access","creator":"system","content_type":"application/pdf","file_size":881545,"file_id":"4669","relation":"main_file","date_created":"2018-12-12T10:08:09Z","date_updated":"2020-07-14T12:45:35Z","checksum":"ae57ffcee3720adcc27b0f2767a1e04b"}],"has_accepted_license":"1","day":"01","citation":{"chicago":"Danowski, Patrick, Doron Goldfarb, Verena Schaffner, and Wolfram Seidler. “Linked (Open) Data - Bibliographische Daten Im Semantic Web.” VÖB Mitteilungen. Verein Österreichischer Bibliothekarinnen und Bibliothekare, 2013.","short":"P. Danowski, D. Goldfarb, V. Schaffner, W. Seidler, VÖB Mitteilungen 66 (2013) 559–587.","mla":"Danowski, Patrick, et al. “Linked (Open) Data - Bibliographische Daten Im Semantic Web.” VÖB Mitteilungen, vol. 66, no. 3/4, Verein Österreichischer Bibliothekarinnen und Bibliothekare, 2013, pp. 559–87.","ieee":"P. Danowski, D. Goldfarb, V. Schaffner, and W. Seidler, “Linked (Open) Data - Bibliographische Daten im Semantic Web,” VÖB Mitteilungen, vol. 66, no. 3/4. Verein Österreichischer Bibliothekarinnen und Bibliothekare, pp. 559–587, 2013.","apa":"Danowski, P., Goldfarb, D., Schaffner, V., & Seidler, W. (2013). Linked (Open) Data - Bibliographische Daten im Semantic Web. VÖB Mitteilungen. Verein Österreichischer Bibliothekarinnen und Bibliothekare.","ista":"Danowski P, Goldfarb D, Schaffner V, Seidler W. 2013. Linked (Open) Data - Bibliographische Daten im Semantic Web. VÖB Mitteilungen. 66(3/4), 559–587.","ama":"Danowski P, Goldfarb D, Schaffner V, Seidler W. Linked (Open) Data - Bibliographische Daten im Semantic Web. VÖB Mitteilungen. 2013;66(3/4):559-587."},"publication":"VÖB Mitteilungen","page":"559 - 587","date_published":"2013-12-01T00:00:00Z"},{"month":"06","main_file_link":[{"url":"http://eprint.iacr.org/2012/475","open_access":"1"}],"oa":1,"quality_controlled":"1","conference":{"start_date":"2013-06-25","location":"Banff, AB, Canada","end_date":"2013-06-28","name":"ACNS: Applied Cryptography and Network Security"},"doi":"10.1007/978-3-642-38980-1_33","language":[{"iso":"eng"}],"publist_id":"4686","year":"2013","publication_status":"published","department":[{"_id":"KrPi"}],"publisher":"Springer","author":[{"first_name":"David","last_name":"Bernhard","full_name":"Bernhard, David"},{"full_name":"Fuchsbauer, Georg","first_name":"Georg","last_name":"Fuchsbauer","id":"46B4C3EE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Essam","last_name":"Ghadafi","full_name":"Ghadafi, Essam"}],"date_updated":"2020-08-11T10:09:44Z","date_created":"2018-12-11T11:56:37Z","volume":7954,"scopus_import":1,"series_title":"Lecture Notes in Computer Science","day":"01","citation":{"ista":"Bernhard D, Fuchsbauer G, Ghadafi E. 2013. Efficient signatures of knowledge and DAA in the standard model. 7954, 518–533.","apa":"Bernhard, D., Fuchsbauer, G., & Ghadafi, E. (2013). Efficient signatures of knowledge and DAA in the standard model. Presented at the ACNS: Applied Cryptography and Network Security, Banff, AB, Canada: Springer. https://doi.org/10.1007/978-3-642-38980-1_33","ieee":"D. Bernhard, G. Fuchsbauer, and E. Ghadafi, “Efficient signatures of knowledge and DAA in the standard model,” vol. 7954. Springer, pp. 518–533, 2013.","ama":"Bernhard D, Fuchsbauer G, Ghadafi E. Efficient signatures of knowledge and DAA in the standard model. 2013;7954:518-533. doi:10.1007/978-3-642-38980-1_33","chicago":"Bernhard, David, Georg Fuchsbauer, and Essam Ghadafi. “Efficient Signatures of Knowledge and DAA in the Standard Model.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-38980-1_33.","mla":"Bernhard, David, et al. Efficient Signatures of Knowledge and DAA in the Standard Model. Vol. 7954, Springer, 2013, pp. 518–33, doi:10.1007/978-3-642-38980-1_33.","short":"D. Bernhard, G. Fuchsbauer, E. Ghadafi, 7954 (2013) 518–533."},"page":"518 - 533","date_published":"2013-06-01T00:00:00Z","type":"conference","alternative_title":["LNCS"],"abstract":[{"lang":"eng","text":"Direct Anonymous Attestation (DAA) is one of the most complex cryptographic protocols deployed in practice. It allows an embedded secure processor known as a Trusted Platform Module (TPM) to attest to the configuration of its host computer without violating the owner’s privacy. DAA has been standardized by the Trusted Computing Group and ISO/IEC.\r\n\r\nThe security of the DAA standard and all existing schemes is analyzed in the random-oracle model. We provide the first constructions of DAA in the standard model, that is, without relying on random oracles. Our constructions use new building blocks, including the first efficient signatures of knowledge in the standard model, which have many applications beyond DAA.\r\n"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2260","status":"public","title":"Efficient signatures of knowledge and DAA in the standard model","intvolume":" 7954","oa_version":"Submitted Version"},{"publisher":"Company of Biologists","department":[{"_id":"SiHi"}],"publication_status":"published","pmid":1,"year":"2013","volume":140,"date_updated":"2021-01-12T06:56:23Z","date_created":"2018-12-11T11:56:39Z","author":[{"last_name":"Liang","first_name":"Huixuan","full_name":"Liang, Huixuan"},{"last_name":"Xiao","first_name":"Guanxi","full_name":"Xiao, Guanxi"},{"full_name":"Yin, Haifeng","last_name":"Yin","first_name":"Haifeng"},{"id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","first_name":"Simon","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"},{"first_name":"Jonathan","last_name":"Horowitz","full_name":"Horowitz, Jonathan"},{"last_name":"Ghashghaei","first_name":"Troy","full_name":"Ghashghaei, Troy"}],"publist_id":"4681","quality_controlled":"1","external_id":{"pmid":["23293287"]},"main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3561788/"}],"oa":1,"language":[{"iso":"eng"}],"doi":"10.1242/dev.085621","month":"02","intvolume":" 140","status":"public","title":"Neural development is dependent on the function of specificity protein 2 in cell cycle progression","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"2264","oa_version":"Submitted Version","type":"journal_article","issue":"3","abstract":[{"lang":"eng","text":"Faithful progression through the cell cycle is crucial to the maintenance and developmental potential of stem cells. Here, we demonstrate that neural stem cells (NSCs) and intermediate neural progenitor cells (NPCs) employ a zinc-finger transcription factor specificity protein 2 (Sp2) as a cell cycle regulator in two temporally and spatially distinct progenitor domains. Differential conditional deletion of Sp2 in early embryonic cerebral cortical progenitors, and perinatal olfactory bulb progenitors disrupted transitions through G1, G2 and M phases, whereas DNA synthesis appeared intact. Cell-autonomous function of Sp2 was identified by deletion of Sp2 using mosaic analysis with double markers, which clearly established that conditional Sp2-null NSCs and NPCs are M phase arrested in vivo. Importantly, conditional deletion of Sp2 led to a decline in the generation of NPCs and neurons in the developing and postnatal brains. Our findings implicate Sp2-dependent mechanisms as novel regulators of cell cycle progression, the absence of which disrupts neurogenesis in the embryonic and postnatal brain."}],"page":"552 - 561","citation":{"ama":"Liang H, Xiao G, Yin H, Hippenmeyer S, Horowitz J, Ghashghaei T. Neural development is dependent on the function of specificity protein 2 in cell cycle progression. Development. 2013;140(3):552-561. doi:10.1242/dev.085621","ista":"Liang H, Xiao G, Yin H, Hippenmeyer S, Horowitz J, Ghashghaei T. 2013. Neural development is dependent on the function of specificity protein 2 in cell cycle progression. Development. 140(3), 552–561.","apa":"Liang, H., Xiao, G., Yin, H., Hippenmeyer, S., Horowitz, J., & Ghashghaei, T. (2013). Neural development is dependent on the function of specificity protein 2 in cell cycle progression. Development. Company of Biologists. https://doi.org/10.1242/dev.085621","ieee":"H. Liang, G. Xiao, H. Yin, S. Hippenmeyer, J. Horowitz, and T. Ghashghaei, “Neural development is dependent on the function of specificity protein 2 in cell cycle progression,” Development, vol. 140, no. 3. Company of Biologists, pp. 552–561, 2013.","mla":"Liang, Huixuan, et al. “Neural Development Is Dependent on the Function of Specificity Protein 2 in Cell Cycle Progression.” Development, vol. 140, no. 3, Company of Biologists, 2013, pp. 552–61, doi:10.1242/dev.085621.","short":"H. Liang, G. Xiao, H. Yin, S. Hippenmeyer, J. Horowitz, T. Ghashghaei, Development 140 (2013) 552–561.","chicago":"Liang, Huixuan, Guanxi Xiao, Haifeng Yin, Simon Hippenmeyer, Jonathan Horowitz, and Troy Ghashghaei. “Neural Development Is Dependent on the Function of Specificity Protein 2 in Cell Cycle Progression.” Development. Company of Biologists, 2013. https://doi.org/10.1242/dev.085621."},"publication":"Development","date_published":"2013-02-01T00:00:00Z","scopus_import":1,"article_processing_charge":"No","day":"01"},{"quality_controlled":0,"page":"409 - 418","publication":"Computer Graphics Forum","citation":{"chicago":"Auzinger, Thomas, Michael Wimmer, and Stefan Jeschke. “Analytic Visibility on the GPU.” Computer Graphics Forum. Wiley-Blackwell, 2013. https://doi.org/DOI: 10.1111/cgf.12061.","mla":"Auzinger, Thomas, et al. “Analytic Visibility on the GPU.” Computer Graphics Forum, vol. 32, no. 124, Wiley-Blackwell, 2013, pp. 409–18, doi:DOI: 10.1111/cgf.12061.","short":"T. Auzinger, M. Wimmer, S. Jeschke, Computer Graphics Forum 32 (2013) 409–418.","ista":"Auzinger T, Wimmer M, Jeschke S. 2013. Analytic Visibility on the GPU. Computer Graphics Forum. 32(124), 409–418.","apa":"Auzinger, T., Wimmer, M., & Jeschke, S. (2013). Analytic Visibility on the GPU. Computer Graphics Forum. Wiley-Blackwell. https://doi.org/DOI: 10.1111/cgf.12061","ieee":"T. Auzinger, M. Wimmer, and S. Jeschke, “Analytic Visibility on the GPU,” Computer Graphics Forum, vol. 32, no. 124. Wiley-Blackwell, pp. 409–418, 2013.","ama":"Auzinger T, Wimmer M, Jeschke S. Analytic Visibility on the GPU. Computer Graphics Forum. 2013;32(124):409-418. doi:DOI: 10.1111/cgf.12061"},"date_published":"2013-05-06T00:00:00Z","doi":"DOI: 10.1111/cgf.12061","day":"06","month":"05","title":"Analytic Visibility on the GPU","status":"public","publication_status":"published","publisher":"Wiley-Blackwell","intvolume":" 32","_id":"2269","year":"2013","acknowledgement":"Funding was provided by the FWF grant P20768-N13.\nWe want to thank the reviewers for their insightful and helpful remarks and Gernot Ziegler for providing help with CUDA. ","date_created":"2018-12-11T11:56:40Z","date_updated":"2021-01-12T06:56:25Z","volume":32,"author":[{"first_name":"Thomas","last_name":"Auzinger","id":"4718F954-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1546-3265","full_name":"Thomas Auzinger"},{"full_name":"Wimmer, Michael","first_name":"Michael","last_name":"Wimmer"},{"full_name":"Stefan Jeschke","last_name":"Jeschke","first_name":"Stefan","id":"44D6411A-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article","extern":1,"abstract":[{"text":"This paper presents a parallel, implementation-friendly analytic visibility method for triangular meshes. Together with an analytic filter convolution, it allows for a fully analytic solution to anti-aliased 3D mesh rendering on parallel hardware. Building on recent works in computational geometry, we present a new edge-triangle intersection algorithm and a novel method to complete the boundaries of all visible triangle regions after a hidden line elimination step. All stages of the method are embarrassingly parallel and easily implementable on parallel hardware. A GPU implementation is discussed and performance characteristics of the method are shown and compared to traditional sampling-based rendering methods.","lang":"eng"}],"publist_id":"4675","issue":124}]