[{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"JaMa"}],"scopus_import":"1","date_created":"2022-05-08T22:01:44Z","date_published":"2022-03-01T00:00:00Z","external_id":{"isi":["000773518500005"],"arxiv":["1811.11598"]},"intvolume":"        50","main_file_link":[{"open_access":"1","url":" https://doi.org/10.48550/arXiv.1811.11598"}],"publisher":"Institute of Mathematical Statistics","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"oa":1,"year":"2022","date_updated":"2023-10-17T12:50:24Z","publication":"Annals of Probability","article_type":"original","page":"591-648","month":"03","day":"01","citation":{"mla":"Dello Schiavo, Lorenzo. “The Dirichlet–Ferguson Diffusion on the Space of Probability Measures over a Closed Riemannian Manifold.” <i>Annals of Probability</i>, vol. 50, no. 2, Institute of Mathematical Statistics, 2022, pp. 591–648, doi:<a href=\"https://doi.org/10.1214/21-AOP1541\">10.1214/21-AOP1541</a>.","chicago":"Dello Schiavo, Lorenzo. “The Dirichlet–Ferguson Diffusion on the Space of Probability Measures over a Closed Riemannian Manifold.” <i>Annals of Probability</i>. Institute of Mathematical Statistics, 2022. <a href=\"https://doi.org/10.1214/21-AOP1541\">https://doi.org/10.1214/21-AOP1541</a>.","ama":"Dello Schiavo L. The Dirichlet–Ferguson diffusion on the space of probability measures over a closed Riemannian manifold. <i>Annals of Probability</i>. 2022;50(2):591-648. doi:<a href=\"https://doi.org/10.1214/21-AOP1541\">10.1214/21-AOP1541</a>","ista":"Dello Schiavo L. 2022. The Dirichlet–Ferguson diffusion on the space of probability measures over a closed Riemannian manifold. Annals of Probability. 50(2), 591–648.","short":"L. Dello Schiavo, Annals of Probability 50 (2022) 591–648.","apa":"Dello Schiavo, L. (2022). The Dirichlet–Ferguson diffusion on the space of probability measures over a closed Riemannian manifold. <i>Annals of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/21-AOP1541\">https://doi.org/10.1214/21-AOP1541</a>","ieee":"L. Dello Schiavo, “The Dirichlet–Ferguson diffusion on the space of probability measures over a closed Riemannian manifold,” <i>Annals of Probability</i>, vol. 50, no. 2. Institute of Mathematical Statistics, pp. 591–648, 2022."},"oa_version":"Preprint","arxiv":1,"article_processing_charge":"No","volume":50,"_id":"11354","author":[{"orcid":"0000-0002-9881-6870","first_name":"Lorenzo","id":"ECEBF480-9E4F-11EA-B557-B0823DDC885E","last_name":"Dello Schiavo","full_name":"Dello Schiavo, Lorenzo"}],"title":"The Dirichlet–Ferguson diffusion on the space of probability measures over a closed Riemannian manifold","doi":"10.1214/21-AOP1541","issue":"2","abstract":[{"text":"We construct a recurrent diffusion process with values in the space of probability measures over an arbitrary closed Riemannian manifold of dimension d≥2. The process is associated with the Dirichlet form defined by integration of the Wasserstein gradient w.r.t. the Dirichlet–Ferguson measure, and is the counterpart on multidimensional base spaces to the modified massive Arratia flow over the unit interval described in V. Konarovskyi and M.-K. von Renesse (Comm. Pure Appl. Math. 72 (2019) 764–800). Together with two different constructions of the process, we discuss its ergodicity, invariant sets, finite-dimensional approximations, and Varadhan short-time asymptotics.","lang":"eng"}],"project":[{"_id":"256E75B8-B435-11E9-9278-68D0E5697425","grant_number":"716117","call_identifier":"H2020","name":"Optimal Transport and Stochastic Dynamics"},{"name":"Taming Complexity in Partial Differential Systems","grant_number":"F6504","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2"}],"publication_identifier":{"issn":["0091-1798"],"eissn":["2168-894X"]},"ec_funded":1,"status":"public","acknowledgement":"Research supported by the Sonderforschungsbereich 1060 and the Hausdorff Center for Mathematics. The author gratefully acknowledges funding of his current position at IST Austria by the Austrian Science Fund (FWF) grant F65 and by the European Research Council (ERC, Grant agreement No. 716117, awarded to Prof. Dr. Jan Maas).","publication_status":"published"},{"isi":1,"type":"conference","quality_controlled":"1","language":[{"iso":"eng"}],"publisher":"Springer Nature","intvolume":"     13241","external_id":{"isi":["000782393600001"]},"date_published":"2022-03-29T00:00:00Z","date_created":"2022-05-08T22:01:44Z","scopus_import":"1","department":[{"_id":"ToHe"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","page":"3-22","publication":"Fundamental Approaches to Software Engineering","date_updated":"2023-08-03T07:03:40Z","alternative_title":["LNCS"],"year":"2022","oa":1,"has_accepted_license":"1","article_processing_charge":"No","volume":13241,"file":[{"date_updated":"2022-05-09T06:52:44Z","success":1,"content_type":"application/pdf","checksum":"7f6f860b20b8de2a249e9c1b4eee15cf","access_level":"open_access","file_size":479146,"relation":"main_file","creator":"dernst","file_name":"2022_LNCS_Bartocci.pdf","date_created":"2022-05-09T06:52:44Z","file_id":"11357"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","conference":{"start_date":"2022-04-02","location":"Munich, Germany","end_date":"2022-04-07","name":"FASE: Fundamental Approaches to Software Engineering"},"citation":{"ista":"Bartocci E, Ferrere T, Henzinger TA, Nickovic D, Da Costa AO. 2022. Information-flow interfaces. Fundamental Approaches to Software Engineering. FASE: Fundamental Approaches to Software Engineering, LNCS, vol. 13241, 3–22.","ama":"Bartocci E, Ferrere T, Henzinger TA, Nickovic D, Da Costa AO. Information-flow interfaces. In: <i>Fundamental Approaches to Software Engineering</i>. Vol 13241. Springer Nature; 2022:3-22. doi:<a href=\"https://doi.org/10.1007/978-3-030-99429-7_1\">10.1007/978-3-030-99429-7_1</a>","short":"E. Bartocci, T. Ferrere, T.A. Henzinger, D. Nickovic, A.O. Da Costa, in:, Fundamental Approaches to Software Engineering, Springer Nature, 2022, pp. 3–22.","ieee":"E. Bartocci, T. Ferrere, T. A. Henzinger, D. Nickovic, and A. O. Da Costa, “Information-flow interfaces,” in <i>Fundamental Approaches to Software Engineering</i>, Munich, Germany, 2022, vol. 13241, pp. 3–22.","apa":"Bartocci, E., Ferrere, T., Henzinger, T. A., Nickovic, D., &#38; Da Costa, A. O. (2022). Information-flow interfaces. In <i>Fundamental Approaches to Software Engineering</i> (Vol. 13241, pp. 3–22). Munich, Germany: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-99429-7_1\">https://doi.org/10.1007/978-3-030-99429-7_1</a>","mla":"Bartocci, Ezio, et al. “Information-Flow Interfaces.” <i>Fundamental Approaches to Software Engineering</i>, vol. 13241, Springer Nature, 2022, pp. 3–22, doi:<a href=\"https://doi.org/10.1007/978-3-030-99429-7_1\">10.1007/978-3-030-99429-7_1</a>.","chicago":"Bartocci, Ezio, Thomas Ferrere, Thomas A Henzinger, Dejan Nickovic, and Ana Oliveira Da Costa. “Information-Flow Interfaces.” In <i>Fundamental Approaches to Software Engineering</i>, 13241:3–22. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/978-3-030-99429-7_1\">https://doi.org/10.1007/978-3-030-99429-7_1</a>."},"day":"29","month":"03","file_date_updated":"2022-05-09T06:52:44Z","ddc":["000"],"acknowledgement":"This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 956123 and was funded in part by the FWF project W1255-N23 and by the ERC-2020-AdG 101020093.","publication_status":"published","status":"public","ec_funded":1,"publication_identifier":{"isbn":["9783030994280"],"issn":["0302-9743"],"eissn":["1611-3349"]},"project":[{"grant_number":"101020093","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","name":"Vigilant Algorithmic Monitoring of Software","call_identifier":"H2020"}],"abstract":[{"text":"Contract-based design is a promising methodology for taming the complexity of developing sophisticated systems. A formal contract distinguishes between assumptions, which are constraints that the designer of a component puts on the environments in which the component can be used safely, and guarantees, which are promises that the designer asks from the team that implements the component. A theory of formal contracts can be formalized as an interface theory, which supports the composition and refinement of both assumptions and guarantees.\r\nAlthough there is a rich landscape of contract-based design methods that address functional and extra-functional properties, we present the first interface theory that is designed for ensuring system-wide security properties. Our framework provides a refinement relation and a composition operation that support both incremental design and independent implementability. We develop our theory for both stateless and stateful interfaces. We illustrate the applicability of our framework with an example inspired from the automotive domain.","lang":"eng"}],"doi":"10.1007/978-3-030-99429-7_1","title":"Information-flow interfaces","author":[{"first_name":"Ezio","last_name":"Bartocci","full_name":"Bartocci, Ezio"},{"id":"40960E6E-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","full_name":"Ferrere, Thomas","last_name":"Ferrere","orcid":"0000-0001-5199-3143"},{"full_name":"Henzinger, Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","orcid":"0000-0002-2985-7724"},{"full_name":"Nickovic, Dejan","last_name":"Nickovic","id":"41BCEE5C-F248-11E8-B48F-1D18A9856A87","first_name":"Dejan"},{"first_name":"Ana Oliveira","last_name":"Da Costa","full_name":"Da Costa, Ana Oliveira"}],"_id":"11355"},{"publication_identifier":{"issn":["2095-9273"],"eissn":["2095-9281"]},"project":[{"name":"Bottom-up Engineering for Thermoelectric Applications","_id":"9B8804FC-BA93-11EA-9121-9846C619BF3A","grant_number":"M02889"}],"acknowledgement":"This work was supported by the National Science Fund for Distinguished Young Scholars (51925101), National Key Research and Development Program of China (2018YFA0702100), 111 Project (B17002), and Lise Meitner Project (M2889-N).","status":"public","publication_status":"published","author":[{"orcid":"0000-0002-9515-4277","first_name":"Cheng","id":"9E331C2E-9F27-11E9-AE48-5033E6697425","last_name":"Chang","full_name":"Chang, Cheng"},{"first_name":"Bingchao","last_name":"Qin","full_name":"Qin, Bingchao"},{"last_name":"Su","full_name":"Su, Lizhong","first_name":"Lizhong"},{"first_name":"Li Dong","last_name":"Zhao","full_name":"Zhao, Li Dong"}],"title":"Distinct electron and hole transports in SnSe crystals","_id":"11356","issue":"11","doi":"10.1016/j.scib.2022.04.007","volume":67,"article_processing_charge":"No","day":"15","citation":{"chicago":"Chang, Cheng, Bingchao Qin, Lizhong Su, and Li Dong Zhao. “Distinct Electron and Hole Transports in SnSe Crystals.” <i>Science Bulletin</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.scib.2022.04.007\">https://doi.org/10.1016/j.scib.2022.04.007</a>.","mla":"Chang, Cheng, et al. “Distinct Electron and Hole Transports in SnSe Crystals.” <i>Science Bulletin</i>, vol. 67, no. 11, Elsevier, 2022, pp. 1105–07, doi:<a href=\"https://doi.org/10.1016/j.scib.2022.04.007\">10.1016/j.scib.2022.04.007</a>.","ama":"Chang C, Qin B, Su L, Zhao LD. Distinct electron and hole transports in SnSe crystals. <i>Science Bulletin</i>. 2022;67(11):1105-1107. doi:<a href=\"https://doi.org/10.1016/j.scib.2022.04.007\">10.1016/j.scib.2022.04.007</a>","ista":"Chang C, Qin B, Su L, Zhao LD. 2022. Distinct electron and hole transports in SnSe crystals. Science Bulletin. 67(11), 1105–1107.","short":"C. Chang, B. Qin, L. Su, L.D. Zhao, Science Bulletin 67 (2022) 1105–1107.","ieee":"C. Chang, B. Qin, L. Su, and L. D. Zhao, “Distinct electron and hole transports in SnSe crystals,” <i>Science Bulletin</i>, vol. 67, no. 11. Elsevier, pp. 1105–1107, 2022.","apa":"Chang, C., Qin, B., Su, L., &#38; Zhao, L. D. (2022). Distinct electron and hole transports in SnSe crystals. <i>Science Bulletin</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.scib.2022.04.007\">https://doi.org/10.1016/j.scib.2022.04.007</a>"},"month":"06","oa_version":"Published Version","publication":"Science Bulletin","date_updated":"2023-08-03T07:04:10Z","article_type":"letter_note","page":"1105-1107","oa":1,"year":"2022","intvolume":"        67","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.scib.2022.04.007"}],"publisher":"Elsevier","isi":1,"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","department":[{"_id":"MaIb"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000835291100006"]},"date_published":"2022-06-15T00:00:00Z","scopus_import":"1","date_created":"2022-05-08T22:01:44Z"},{"type":"dissertation","language":[{"iso":"eng"}],"publisher":"Institute of Science and Technology Austria","date_created":"2022-05-12T07:14:01Z","date_published":"2022-05-12T00:00:00Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"GradSch"},{"_id":"ToHe"}],"page":"124","related_material":{"record":[{"id":"11366","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"7808"},{"id":"10666","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"10665"},{"status":"public","relation":"part_of_dissertation","id":"10667"}]},"date_updated":"2025-07-14T09:10:11Z","keyword":["neural networks","verification","machine learning"],"year":"2022","alternative_title":["ISTA Thesis"],"oa":1,"article_processing_charge":"No","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)","image":"/image/cc_by_nd.png","short":"CC BY-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nd/4.0/legalcode"},"file":[{"file_name":"src.zip","creator":"mlechner","relation":"source_file","file_size":13210143,"access_level":"closed","content_type":"application/zip","checksum":"8eefa9c7c10ca7e1a2ccdd731962a645","date_updated":"2022-05-13T12:49:00Z","file_id":"11378","date_created":"2022-05-13T12:33:26Z"},{"file_name":"thesis_main-a2.pdf","relation":"main_file","creator":"mlechner","file_size":2732536,"date_updated":"2022-05-17T15:19:39Z","access_level":"open_access","content_type":"application/pdf","checksum":"1b9e1e5a9a83ed9d89dad2f5133dc026","file_id":"11382","date_created":"2022-05-16T08:02:28Z"}],"degree_awarded":"PhD","oa_version":"Published Version","license":"https://creativecommons.org/licenses/by-nd/4.0/","file_date_updated":"2022-05-17T15:19:39Z","month":"05","ddc":["004"],"day":"12","citation":{"mla":"Lechner, Mathias. <i>Learning Verifiable Representations</i>. Institute of Science and Technology Austria, 2022, doi:<a href=\"https://doi.org/10.15479/at:ista:11362\">10.15479/at:ista:11362</a>.","chicago":"Lechner, Mathias. “Learning Verifiable Representations.” Institute of Science and Technology Austria, 2022. <a href=\"https://doi.org/10.15479/at:ista:11362\">https://doi.org/10.15479/at:ista:11362</a>.","ieee":"M. Lechner, “Learning verifiable representations,” Institute of Science and Technology Austria, 2022.","apa":"Lechner, M. (2022). <i>Learning verifiable representations</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:11362\">https://doi.org/10.15479/at:ista:11362</a>","short":"M. Lechner, Learning Verifiable Representations, Institute of Science and Technology Austria, 2022.","ista":"Lechner M. 2022. Learning verifiable representations. Institute of Science and Technology Austria.","ama":"Lechner M. Learning verifiable representations. 2022. doi:<a href=\"https://doi.org/10.15479/at:ista:11362\">10.15479/at:ista:11362</a>"},"ec_funded":1,"publication_status":"published","status":"public","project":[{"call_identifier":"FWF","name":"The Wittgenstein Prize","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"Vigilant Algorithmic Monitoring of Software","grant_number":"101020093","_id":"62781420-2b32-11ec-9570-8d9b63373d4d"}],"publication_identifier":{"isbn":["978-3-99078-017-6"]},"doi":"10.15479/at:ista:11362","abstract":[{"text":"Deep learning has enabled breakthroughs in challenging computing problems and has emerged as the standard problem-solving tool for computer vision and natural language processing tasks.\r\nOne exception to this trend is safety-critical tasks where robustness and resilience requirements contradict the black-box nature of neural networks. \r\nTo deploy deep learning methods for these tasks, it is vital to provide guarantees on neural network agents' safety and robustness criteria. \r\nThis can be achieved by developing formal verification methods to verify the safety and robustness properties of neural networks.\r\n\r\nOur goal is to design, develop and assess safety verification methods for neural networks to improve their reliability and trustworthiness in real-world applications.\r\nThis thesis establishes techniques for the verification of compressed and adversarially trained models as well as the design of novel neural networks for verifiably safe decision-making.\r\n\r\nFirst, we establish the problem of verifying quantized neural networks. Quantization is a technique that trades numerical precision for the computational efficiency of running a neural network and is widely adopted in industry.\r\nWe show that neglecting the reduced precision when verifying a neural network can lead to wrong conclusions about the robustness and safety of the network, highlighting that novel techniques for quantized network verification are necessary. We introduce several bit-exact verification methods explicitly designed for quantized neural networks and experimentally confirm on realistic networks that the network's robustness and other formal properties are affected by the quantization.\r\n\r\nFurthermore, we perform a case study providing evidence that adversarial training, a standard technique for making neural networks more robust, has detrimental effects on the network's performance. This robustness-accuracy tradeoff has been studied before regarding the accuracy obtained on classification datasets where each data point is independent of all other data points. On the other hand, we investigate the tradeoff empirically in robot learning settings where a both, a high accuracy and a high robustness, are desirable.\r\nOur results suggest that the negative side-effects of adversarial training outweigh its robustness benefits in practice.\r\n\r\nFinally, we consider the problem of verifying safety when running a Bayesian neural network policy in a feedback loop with systems over the infinite time horizon. Bayesian neural networks are probabilistic models for learning uncertainties in the data and are therefore often used on robotic and healthcare applications where data is inherently stochastic.\r\nWe introduce a method for recalibrating Bayesian neural networks so that they yield probability distributions over safe decisions only.\r\nOur method learns a safety certificate that guarantees safety over the infinite time horizon to determine which decisions are safe in every possible state of the system.\r\nWe demonstrate the effectiveness of our approach on a series of reinforcement learning benchmarks.","lang":"eng"}],"_id":"11362","author":[{"first_name":"Mathias","id":"3DC22916-F248-11E8-B48F-1D18A9856A87","last_name":"Lechner","full_name":"Lechner, Mathias"}],"supervisor":[{"orcid":"0000-0002-2985-7724","last_name":"Henzinger","full_name":"Henzinger, Thomas A","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"}],"title":"Learning verifiable representations"},{"date_updated":"2023-08-01T13:36:50Z","project":[{"grant_number":"101020093","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","call_identifier":"H2020","name":"Vigilant Algorithmic Monitoring of Software"}],"publication":"arXiv","ec_funded":1,"article_number":"2204.07373","publication_status":"submitted","status":"public","acknowledgement":"This work was supported in parts by the ERC-2020-AdG 101020093, National Science Foundation (NSF), and JP\r\nMorgan Graduate Fellowships. We thank Christoph Lampert for inspiring this work.\r\n","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"11362"},{"status":"public","relation":"later_version","id":"12704"}]},"_id":"11366","author":[{"id":"3DC22916-F248-11E8-B48F-1D18A9856A87","first_name":"Mathias","full_name":"Lechner, Mathias","last_name":"Lechner"},{"last_name":"Amini","full_name":"Amini, Alexander","first_name":"Alexander"},{"first_name":"Daniela","last_name":"Rus","full_name":"Rus, Daniela"},{"orcid":"0000-0002-2985-7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","full_name":"Henzinger, Thomas A","last_name":"Henzinger"}],"title":"Revisiting the adversarial robustness-accuracy tradeoff in robot learning","oa":1,"doi":"10.48550/arXiv.2204.07373","year":"2022","abstract":[{"lang":"eng","text":"Adversarial training (i.e., training on adversarially perturbed input data) is a well-studied method for making neural networks robust to potential adversarial attacks during inference. However, the improved robustness does not\r\ncome for free but rather is accompanied by a decrease in overall model accuracy and performance. Recent work has shown that, in practical robot learning applications, the effects of adversarial training do not pose a fair trade-off\r\nbut inflict a net loss when measured in holistic robot performance. This work revisits the robustness-accuracy trade-off in robot learning by systematically analyzing if recent advances in robust training methods and theory in\r\nconjunction with adversarial robot learning can make adversarial training suitable for real-world robot applications. We evaluate a wide variety of robot learning tasks ranging from autonomous driving in a high-fidelity environment\r\namenable to sim-to-real deployment, to mobile robot gesture recognition. Our results demonstrate that, while these techniques make incremental improvements on the trade-off on a relative scale, the negative side-effects caused by\r\nadversarial training still outweigh the improvements by an order of magnitude. We conclude that more substantial advances in robust learning methods are necessary before they can benefit robot learning tasks in practice."}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2204.07373"}],"arxiv":1,"language":[{"iso":"eng"}],"type":"preprint","article_processing_charge":"No","month":"04","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"ToHe"}],"day":"15","citation":{"chicago":"Lechner, Mathias, Alexander Amini, Daniela Rus, and Thomas A Henzinger. “Revisiting the Adversarial Robustness-Accuracy Tradeoff in Robot Learning.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2204.07373\">https://doi.org/10.48550/arXiv.2204.07373</a>.","mla":"Lechner, Mathias, et al. “Revisiting the Adversarial Robustness-Accuracy Tradeoff in Robot Learning.” <i>ArXiv</i>, 2204.07373, doi:<a href=\"https://doi.org/10.48550/arXiv.2204.07373\">10.48550/arXiv.2204.07373</a>.","ista":"Lechner M, Amini A, Rus D, Henzinger TA. Revisiting the adversarial robustness-accuracy tradeoff in robot learning. arXiv, 2204.07373.","ama":"Lechner M, Amini A, Rus D, Henzinger TA. Revisiting the adversarial robustness-accuracy tradeoff in robot learning. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2204.07373\">10.48550/arXiv.2204.07373</a>","short":"M. Lechner, A. Amini, D. Rus, T.A. Henzinger, ArXiv (n.d.).","ieee":"M. Lechner, A. Amini, D. Rus, and T. A. Henzinger, “Revisiting the adversarial robustness-accuracy tradeoff in robot learning,” <i>arXiv</i>. .","apa":"Lechner, M., Amini, A., Rus, D., &#38; Henzinger, T. A. (n.d.). Revisiting the adversarial robustness-accuracy tradeoff in robot learning. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2204.07373\">https://doi.org/10.48550/arXiv.2204.07373</a>"},"oa_version":"Preprint","date_created":"2022-05-12T13:20:17Z","date_published":"2022-04-15T00:00:00Z","external_id":{"arxiv":["2204.07373"]}},{"date_updated":"2024-02-21T12:35:18Z","publication":"Nature Communications","article_type":"original","article_number":"2635","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41467-022-34485-1"}],"record":[{"id":"14280","relation":"dissertation_contains","status":"public"},{"relation":"research_data","status":"public","id":"10934"}]},"oa":1,"keyword":["General Physics and Astronomy","General Biochemistry","Genetics and Molecular Biology","General Chemistry"],"year":"2022","intvolume":"        13","publisher":"Springer Nature","language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"MaLo"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"scopus_import":"1","date_created":"2022-05-13T09:06:28Z","external_id":{"isi":["000795171100037"]},"date_published":"2022-05-12T00:00:00Z","project":[{"grant_number":"679239","_id":"2595697A-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Self-Organization of the Bacterial Cell"},{"_id":"fc38323b-9c52-11eb-aca3-ff8afb4a011d","grant_number":"P34607","name":"Understanding bacterial cell division by in vitro\r\nreconstitution"}],"publication_identifier":{"issn":["2041-1723"]},"ec_funded":1,"acknowledgement":"We acknowledge members of the Loose laboratory at IST Austria for helpful discussions—in particular L. Lindorfer for his assistance with cloning and purifications. We thank J. Löwe and T. Nierhaus (MRC-LMB Cambridge, UK) for sharing unpublished work and helpful discussions, as well as D. Vavylonis and D. Rutkowski (Lehigh University, Bethlehem, PA, USA) and S. Martin (University of Lausanne, Switzerland) for sharing their code for FRAP analysis. We are also thankful for the support by the Scientific Service Units (SSU) of IST Austria through resources provided by the Imaging and Optics Facility (IOF) and the Lab Support Facility (LSF). This work was supported by the European Research Council through grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607 to M.L. and HFSP LT 000824/2016-L4 to N.B. For the purpose of open access, we have applied a CC BY public copyright licence to any Author Accepted Manuscript version arising from this submission.","publication_status":"published","status":"public","_id":"11373","author":[{"last_name":"Radler","full_name":"Radler, Philipp","first_name":"Philipp","id":"40136C2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9198-2182 "},{"orcid":"0000-0002-3086-9124","id":"38661662-F248-11E8-B48F-1D18A9856A87","first_name":"Natalia S.","full_name":"Baranova, Natalia S.","last_name":"Baranova"},{"orcid":"0000-0001-6730-4461","full_name":"Dos Santos Caldas, Paulo R","last_name":"Dos Santos Caldas","id":"38FCDB4C-F248-11E8-B48F-1D18A9856A87","first_name":"Paulo R"},{"orcid":"0000-0003-1216-9105","first_name":"Christoph M","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","last_name":"Sommer","full_name":"Sommer, Christoph M"},{"id":"319AA9CE-F248-11E8-B48F-1D18A9856A87","first_name":"Maria D","full_name":"Lopez Pelegrin, Maria D","last_name":"Lopez Pelegrin"},{"last_name":"Michalik","full_name":"Michalik, David","first_name":"David","id":"B9577E20-AA38-11E9-AC9A-0930E6697425"},{"id":"462D4284-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","full_name":"Loose, Martin","last_name":"Loose","orcid":"0000-0001-7309-9724"}],"title":"In vitro reconstitution of Escherichia coli divisome activation","doi":"10.1038/s41467-022-30301-y","abstract":[{"text":"The actin-homologue FtsA is essential for E. coli cell division, as it links FtsZ filaments in the Z-ring to transmembrane proteins. FtsA is thought to initiate cell constriction by switching from an inactive polymeric to an active monomeric conformation, which recruits downstream proteins and stabilizes the Z-ring. However, direct biochemical evidence for this mechanism is missing. Here, we use reconstitution experiments and quantitative fluorescence microscopy to study divisome activation in vitro. By comparing wild-type FtsA with FtsA R286W, we find that this hyperactive mutant outperforms FtsA WT in replicating FtsZ treadmilling dynamics, FtsZ filament stabilization and recruitment of FtsN. We could attribute these differences to a faster exchange and denser packing of FtsA R286W below FtsZ filaments. Using FRET microscopy, we also find that FtsN binding promotes FtsA self-interaction. We propose that in the active divisome FtsA and FtsN exist as a dynamic copolymer that follows treadmilling filaments of FtsZ.","lang":"eng"}],"file":[{"file_id":"11374","date_created":"2022-05-13T09:10:51Z","file_name":"2022_NatureCommunications_Radler.pdf","relation":"main_file","creator":"dernst","file_size":6945191,"access_level":"open_access","content_type":"application/pdf","checksum":"5af863ee1b95a0710f6ee864d68dc7a6","success":1,"date_updated":"2022-05-13T09:10:51Z"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":13,"article_processing_charge":"No","has_accepted_license":"1","ddc":["570"],"month":"05","file_date_updated":"2022-05-13T09:10:51Z","day":"12","citation":{"ama":"Radler P, Baranova NS, Dos Santos Caldas PR, et al. In vitro reconstitution of Escherichia coli divisome activation. <i>Nature Communications</i>. 2022;13. doi:<a href=\"https://doi.org/10.1038/s41467-022-30301-y\">10.1038/s41467-022-30301-y</a>","ista":"Radler P, Baranova NS, Dos Santos Caldas PR, Sommer CM, Lopez Pelegrin MD, Michalik D, Loose M. 2022. In vitro reconstitution of Escherichia coli divisome activation. Nature Communications. 13, 2635.","short":"P. Radler, N.S. Baranova, P.R. Dos Santos Caldas, C.M. Sommer, M.D. Lopez Pelegrin, D. Michalik, M. Loose, Nature Communications 13 (2022).","apa":"Radler, P., Baranova, N. S., Dos Santos Caldas, P. R., Sommer, C. M., Lopez Pelegrin, M. D., Michalik, D., &#38; Loose, M. (2022). In vitro reconstitution of Escherichia coli divisome activation. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-022-30301-y\">https://doi.org/10.1038/s41467-022-30301-y</a>","ieee":"P. Radler <i>et al.</i>, “In vitro reconstitution of Escherichia coli divisome activation,” <i>Nature Communications</i>, vol. 13. Springer Nature, 2022.","mla":"Radler, Philipp, et al. “In Vitro Reconstitution of Escherichia Coli Divisome Activation.” <i>Nature Communications</i>, vol. 13, 2635, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1038/s41467-022-30301-y\">10.1038/s41467-022-30301-y</a>.","chicago":"Radler, Philipp, Natalia S. Baranova, Paulo R Dos Santos Caldas, Christoph M Sommer, Maria D Lopez Pelegrin, David Michalik, and Martin Loose. “In Vitro Reconstitution of Escherichia Coli Divisome Activation.” <i>Nature Communications</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41467-022-30301-y\">https://doi.org/10.1038/s41467-022-30301-y</a>."},"oa_version":"Published Version"},{"language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","isi":1,"publisher":"American Chemical Society","main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2109.00556","open_access":"1"}],"intvolume":"        22","date_created":"2022-05-15T22:01:41Z","scopus_import":"1","external_id":{"isi":["000809056900019"],"arxiv":["2109.00556"]},"date_published":"2022-04-27T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"MaSe"}],"page":"3317-3322","article_type":"original","date_updated":"2023-08-03T07:12:45Z","publication":"Nano Letters","year":"2022","oa":1,"article_processing_charge":"No","volume":22,"arxiv":1,"oa_version":"Preprint","month":"04","citation":{"chicago":"Winterer, Felix, Anna M. Seiler, Areg Ghazaryan, Fabian R. Geisenhof, Kenji Watanabe, Takashi Taniguchi, Maksym Serbyn, and R. Thomas Weitz. “Spontaneous Gully-Polarized Quantum Hall States in ABA Trilayer Graphene.” <i>Nano Letters</i>. American Chemical Society, 2022. <a href=\"https://doi.org/10.1021/acs.nanolett.2c00435\">https://doi.org/10.1021/acs.nanolett.2c00435</a>.","mla":"Winterer, Felix, et al. “Spontaneous Gully-Polarized Quantum Hall States in ABA Trilayer Graphene.” <i>Nano Letters</i>, vol. 22, no. 8, American Chemical Society, 2022, pp. 3317–22, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.2c00435\">10.1021/acs.nanolett.2c00435</a>.","ama":"Winterer F, Seiler AM, Ghazaryan A, et al. Spontaneous gully-polarized quantum hall states in ABA trilayer graphene. <i>Nano Letters</i>. 2022;22(8):3317-3322. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.2c00435\">10.1021/acs.nanolett.2c00435</a>","ista":"Winterer F, Seiler AM, Ghazaryan A, Geisenhof FR, Watanabe K, Taniguchi T, Serbyn M, Weitz RT. 2022. Spontaneous gully-polarized quantum hall states in ABA trilayer graphene. Nano Letters. 22(8), 3317–3322.","short":"F. Winterer, A.M. Seiler, A. Ghazaryan, F.R. Geisenhof, K. Watanabe, T. Taniguchi, M. Serbyn, R.T. Weitz, Nano Letters 22 (2022) 3317–3322.","ieee":"F. Winterer <i>et al.</i>, “Spontaneous gully-polarized quantum hall states in ABA trilayer graphene,” <i>Nano Letters</i>, vol. 22, no. 8. American Chemical Society, pp. 3317–3322, 2022.","apa":"Winterer, F., Seiler, A. M., Ghazaryan, A., Geisenhof, F. R., Watanabe, K., Taniguchi, T., … Weitz, R. T. (2022). Spontaneous gully-polarized quantum hall states in ABA trilayer graphene. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.2c00435\">https://doi.org/10.1021/acs.nanolett.2c00435</a>"},"day":"27","publication_status":"published","status":"public","acknowledgement":"We acknowledge funding from the Center for Nanoscience (CeNS) and by the Deutsche\r\nForschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy-EXC-2111-390814868 (MCQST). K.W. and T.T. acknowledge support from the Elemental Strategy Initiative conducted by the MEXT, Japan (Grant Number PMXP0112101001) and JSPS KAKENHI (Grant Numbers 19H05790 and JP20H00354).","publication_identifier":{"eissn":["15306992"],"issn":["15306984"]},"doi":"10.1021/acs.nanolett.2c00435","abstract":[{"lang":"eng","text":"Bernal-stacked multilayer graphene is a versatile platform to explore quantum transport phenomena and interaction physics due to its exceptional tunability via electrostatic gating. For instance, upon applying a perpendicular electric field, its band structure exhibits several off-center Dirac points (so-called Dirac gullies) in each valley. Here, the formation of Dirac gullies and the interaction-induced breakdown of gully coherence is explored via magnetotransport measurements in high-quality Bernal-stacked (ABA) trilayer graphene. At zero magnetic field, multiple Lifshitz transitions indicating the formation of Dirac gullies are identified. In the quantum Hall regime, the emergence of Dirac gullies is evident as an increase in Landau level degeneracy. When tuning both electric and magnetic fields, electron–electron interactions can be controllably enhanced until, beyond critical electric and magnetic fields, the gully degeneracy is eventually lifted. The arising correlated ground state is consistent with a previously predicted nematic phase that spontaneously breaks the rotational gully symmetry."}],"issue":"8","_id":"11379","title":"Spontaneous gully-polarized quantum hall states in ABA trilayer graphene","author":[{"first_name":"Felix","last_name":"Winterer","full_name":"Winterer, Felix"},{"last_name":"Seiler","full_name":"Seiler, Anna M.","first_name":"Anna M."},{"orcid":"0000-0001-9666-3543","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","first_name":"Areg","full_name":"Ghazaryan, Areg","last_name":"Ghazaryan"},{"last_name":"Geisenhof","full_name":"Geisenhof, Fabian R.","first_name":"Fabian R."},{"last_name":"Watanabe","full_name":"Watanabe, Kenji","first_name":"Kenji"},{"first_name":"Takashi","full_name":"Taniguchi, Takashi","last_name":"Taniguchi"},{"orcid":"0000-0002-2399-5827","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","first_name":"Maksym","full_name":"Serbyn, Maksym","last_name":"Serbyn"},{"first_name":"R. Thomas","full_name":"Weitz, R. Thomas","last_name":"Weitz"}]},{"author":[{"full_name":"Belohlavy, Stefanie","last_name":"Belohlavy","id":"43FE426A-F248-11E8-B48F-1D18A9856A87","first_name":"Stefanie","orcid":"0000-0002-9849-498X"}],"title":"The genetic basis of complex traits studied via analysis of evolve and resequence experiments","supervisor":[{"orcid":"0000-0002-8548-5240","last_name":"Barton","full_name":"Barton, Nicholas H","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"_id":"11388","abstract":[{"lang":"eng","text":"In evolve and resequence experiments, a population is sequenced, subjected to selection and\r\nthen sequenced again, so that genetic changes before and after selection can be observed at\r\nthe genetic level. Here, I use these studies to better understand the genetic basis of complex\r\ntraits - traits which depend on more than a few genes.\r\nIn the first chapter, I discuss the first evolve and resequence experiment, in which a population\r\nof mice, the so-called \"Longshanks\" mice, were selected for tibia length while their body mass\r\nwas kept constant. The full pedigree is known. We observed a selection response on all\r\nchromosomes and used the infinitesimal model with linkage, a model which assumes an infinite\r\nnumber of genes with infinitesimally small effect sizes, as a null model. Results implied a very\r\npolygenic basis with a few loci of major effect standing out and changing in parallel. There\r\nwas large variability between the different chromosomes in this study, probably due to LD.\r\nIn chapter two, I go on to discuss the impact of LD, on the variability in an allele-frequency\r\nbased summary statistic, giving an equation based on the initial allele frequencies, average\r\npairwise LD, and the first four moments of the haplotype block copy number distribution. I\r\ndescribe this distribution by referring back to the founder generation. I then demonstrate\r\nhow to infer selection via a maximum likelihood scheme on the example of a single locus and\r\ndiscuss how to extend this to more realistic scenarios.\r\nIn chapter three, I discuss the second evolve and resequence experiment, in which a small\r\npopulation of Drosophila melanogaster was selected for increased pupal case size over 6\r\ngenerations. The experiment was highly replicated with 27 lines selected within family and a\r\nknown pedigree. We observed a phenotypic selection response of over one standard deviation.\r\nI describe the patterns in allele frequency data, including allele frequency changes and patterns\r\nof heterozygosity, and give ideas for future work."}],"doi":"10.15479/at:ista:11388","publication_identifier":{"isbn":["978-3-99078-018-3"]},"status":"public","publication_status":"published","day":"18","citation":{"chicago":"Belohlavy, Stefanie. “The Genetic Basis of Complex Traits Studied via Analysis of Evolve and Resequence Experiments.” Institute of Science and Technology Austria, 2022. <a href=\"https://doi.org/10.15479/at:ista:11388\">https://doi.org/10.15479/at:ista:11388</a>.","mla":"Belohlavy, Stefanie. <i>The Genetic Basis of Complex Traits Studied via Analysis of Evolve and Resequence Experiments</i>. Institute of Science and Technology Austria, 2022, doi:<a href=\"https://doi.org/10.15479/at:ista:11388\">10.15479/at:ista:11388</a>.","ieee":"S. Belohlavy, “The genetic basis of complex traits studied via analysis of evolve and resequence experiments,” Institute of Science and Technology Austria, 2022.","apa":"Belohlavy, S. (2022). <i>The genetic basis of complex traits studied via analysis of evolve and resequence experiments</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:11388\">https://doi.org/10.15479/at:ista:11388</a>","ista":"Belohlavy S. 2022. The genetic basis of complex traits studied via analysis of evolve and resequence experiments. Institute of Science and Technology Austria.","short":"S. Belohlavy, The Genetic Basis of Complex Traits Studied via Analysis of Evolve and Resequence Experiments, Institute of Science and Technology Austria, 2022.","ama":"Belohlavy S. The genetic basis of complex traits studied via analysis of evolve and resequence experiments. 2022. doi:<a href=\"https://doi.org/10.15479/at:ista:11388\">10.15479/at:ista:11388</a>"},"month":"05","file_date_updated":"2023-05-20T22:30:03Z","ddc":["576"],"oa_version":"Published Version","degree_awarded":"PhD","file":[{"embargo":"2023-05-19","relation":"main_file","file_size":8247240,"creator":"sbelohla","file_name":"thesis_sb_final_pdfa.pdf","date_updated":"2023-05-20T22:30:03Z","checksum":"4d75e6a619df7e8a9d6e840aee182380","content_type":"application/pdf","access_level":"open_access","date_created":"2022-05-19T13:03:13Z","file_id":"11398"},{"embargo_to":"open_access","date_created":"2022-05-19T13:07:47Z","file_id":"11399","content_type":"application/x-zip-compressed","checksum":"7a5d8b6dd0ca00784f860075b0a7d8f0","access_level":"closed","date_updated":"2023-05-20T22:30:03Z","creator":"sbelohla","file_size":7094,"relation":"source_file","file_name":"thesis_sb_final.zip"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","article_processing_charge":"No","oa":1,"alternative_title":["ISTA Thesis"],"year":"2022","date_updated":"2023-08-29T06:41:51Z","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"6713"}]},"page":"98","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_published":"2022-05-18T00:00:00Z","date_created":"2022-05-16T16:49:18Z","publisher":"Institute of Science and Technology Austria","type":"dissertation","language":[{"iso":"eng"}]},{"publication_identifier":{"issn":["2663-337X"]},"publication_status":"published","status":"public","_id":"11393","author":[{"id":"4BE3BC94-F248-11E8-B48F-1D18A9856A87","first_name":"Marijo","full_name":"Jevtic, Marijo","last_name":"Jevtic"}],"supervisor":[{"orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","first_name":"Ryuichi","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto"}],"title":"Contextual fear learning induced changes in AMPA receptor subtypes along the proximodistal axis in dorsal hippocampus","doi":"10.15479/at:ista:11393","abstract":[{"lang":"eng","text":"AMPA receptors (AMPARs) mediate fast excitatory neurotransmission and their role is\r\nimplicated in complex processes such as learning and memory and various neurological\r\ndiseases. These receptors are composed of different subunits and the subunit composition can\r\naffect channel properties, receptor trafficking and interaction with other associated proteins.\r\nUsing the high sensitivity SDS-digested freeze-fracture replica labeling (SDS-FRL) for\r\nelectron microscopy I investigated the number, density, and localization of AMPAR subunits,\r\nGluA1, GluA2, GluA3, and GluA1-3 (panAMPA) in pyramidal cells in the CA1 area of mouse\r\nhippocampus. I have found that the immunogold labeling for all of these subunits in the\r\npostsynaptic sites was highest in stratum radiatum and lowest in stratum lacunosummoleculare. The labeling density for the all subunits in the extrasynaptic sites showed a gradual\r\nincrease from the pyramidal cell soma towards the distal part of stratum radiatum. The densities\r\nof extrasynaptic GluA1, GluA2 and panAMPA labeling reached 10-15% of synaptic densities,\r\nwhile the ratio of extrasynaptic labeling for GluA3 was significantly lower compared than those\r\nfor other subunits. The labeling patterns for GluA1, GluA2 and GluA1-3 are similar and their\r\ndensities were higher in the periphery than center of synapses. In contrast, the GluA3-\r\ncontaining receptors were more centrally localized compared to the GluA1- and GluA2-\r\ncontaining receptors.\r\nThe hippocampus plays a central role in learning and memory. Contextual learning has been\r\nshown to require the delivery of AMPA receptors to CA1 synapses in the dorsal hippocampus.\r\nHowever, proximodistal heterogeneity of this plasticity and particular contribution of different\r\nAMPA receptor subunits are not fully understood. By combining inhibitory avoidance task, a\r\nhippocampus-dependent contextual fear-learning paradigm, with SDS-FRL, I have revealed an\r\nincrease in synaptic density specific to GluA1-containing AMPA receptors in the CA1 area.\r\nThe intrasynaptic distribution of GluA1 also changed from the periphery to center-preferred\r\npattern. Furthermore, this synaptic plasticity was evident selectively in stratum radiatum but\r\nnot stratum oriens, and in the CA1 subregion proximal but not distal to CA2. These findings\r\nfurther contribute to our understanding of how specific hippocampal subregions and AMPA\r\nreceptor subunits are involved in physiological learning.\r\nAlthough the immunolabeling results above shed light on subunit-specific plasticity in\r\nAMPAR distribution, no tools to visualize and study the subunit composition at the single\r\nchannel level in situ have been available. Electron microscopy with conventional immunogold\r\nlabeling approaches has limitations in the single channel analysis because of the large size of\r\nantibodies and steric hindrance hampering multiple subunit labeling of single channels. I\r\nmanaged to develop a new chemical labeling system using a short peptide tag and small\r\nsynthetic probes, which form specific covalent bond with a cysteine residue in the tag fused to\r\nproteins of interest (reactive tag system). I additionally made substantial progress into adapting\r\nthis system for AMPA receptor subunits."}],"file":[{"date_created":"2022-05-17T09:08:06Z","file_id":"11395","embargo_to":"open_access","date_updated":"2023-05-17T22:30:03Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","checksum":"8fc695d88020d70d231dad0e9f10b138","access_level":"closed","relation":"source_file","file_size":56427603,"creator":"cchlebak","file_name":"MJ thesis.docx"},{"checksum":"c1dd20a1aece521b3500607b00e463d6","content_type":"application/pdf","access_level":"open_access","date_updated":"2023-05-17T22:30:03Z","relation":"main_file","file_size":4351981,"creator":"cchlebak","file_name":"MJ_thesis_PDFA.pdf","embargo":"2023-05-16","date_created":"2022-05-17T12:09:25Z","file_id":"11397"}],"degree_awarded":"PhD","article_processing_charge":"No","has_accepted_license":"1","month":"05","ddc":["570"],"file_date_updated":"2023-05-17T22:30:03Z","day":"16","citation":{"ista":"Jevtic M. 2022. Contextual fear learning induced changes in AMPA receptor subtypes along the proximodistal axis in dorsal hippocampus. Institute of Science and Technology Austria.","ama":"Jevtic M. Contextual fear learning induced changes in AMPA receptor subtypes along the proximodistal axis in dorsal hippocampus. 2022. doi:<a href=\"https://doi.org/10.15479/at:ista:11393\">10.15479/at:ista:11393</a>","short":"M. Jevtic, Contextual Fear Learning Induced Changes in AMPA Receptor Subtypes along the Proximodistal Axis in Dorsal Hippocampus, Institute of Science and Technology Austria, 2022.","ieee":"M. Jevtic, “Contextual fear learning induced changes in AMPA receptor subtypes along the proximodistal axis in dorsal hippocampus,” Institute of Science and Technology Austria, 2022.","apa":"Jevtic, M. (2022). <i>Contextual fear learning induced changes in AMPA receptor subtypes along the proximodistal axis in dorsal hippocampus</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:11393\">https://doi.org/10.15479/at:ista:11393</a>","chicago":"Jevtic, Marijo. “Contextual Fear Learning Induced Changes in AMPA Receptor Subtypes along the Proximodistal Axis in Dorsal Hippocampus.” Institute of Science and Technology Austria, 2022. <a href=\"https://doi.org/10.15479/at:ista:11393\">https://doi.org/10.15479/at:ista:11393</a>.","mla":"Jevtic, Marijo. <i>Contextual Fear Learning Induced Changes in AMPA Receptor Subtypes along the Proximodistal Axis in Dorsal Hippocampus</i>. Institute of Science and Technology Austria, 2022, doi:<a href=\"https://doi.org/10.15479/at:ista:11393\">10.15479/at:ista:11393</a>."},"oa_version":"Published Version","date_updated":"2023-09-07T14:53:44Z","page":"108","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"7391"}]},"oa":1,"year":"2022","alternative_title":["ISTA Thesis"],"publisher":"Institute of Science and Technology Austria","type":"dissertation","language":[{"iso":"eng"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"GradSch"},{"_id":"RySh"}],"acknowledged_ssus":[{"_id":"EM-Fac"}],"date_created":"2022-05-17T08:57:41Z","date_published":"2022-05-16T00:00:00Z"},{"month":"05","ddc":["540"],"file_date_updated":"2022-05-23T07:45:33Z","day":"16","citation":{"mla":"Palaia, Ivan, and Anđela Šarić. “Controlling Cluster Size in 2D Phase-Separating Binary Mixtures with Specific Interactions.” <i>The Journal of Chemical Physics</i>, vol. 156, no. 19, 194902, AIP Publishing, 2022, doi:<a href=\"https://doi.org/10.1063/5.0087769\">10.1063/5.0087769</a>.","chicago":"Palaia, Ivan, and Anđela Šarić. “Controlling Cluster Size in 2D Phase-Separating Binary Mixtures with Specific Interactions.” <i>The Journal of Chemical Physics</i>. AIP Publishing, 2022. <a href=\"https://doi.org/10.1063/5.0087769\">https://doi.org/10.1063/5.0087769</a>.","ista":"Palaia I, Šarić A. 2022. Controlling cluster size in 2D phase-separating binary mixtures with specific interactions. The Journal of Chemical Physics. 156(19), 194902.","short":"I. Palaia, A. Šarić, The Journal of Chemical Physics 156 (2022).","ama":"Palaia I, Šarić A. Controlling cluster size in 2D phase-separating binary mixtures with specific interactions. <i>The Journal of Chemical Physics</i>. 2022;156(19). doi:<a href=\"https://doi.org/10.1063/5.0087769\">10.1063/5.0087769</a>","apa":"Palaia, I., &#38; Šarić, A. (2022). Controlling cluster size in 2D phase-separating binary mixtures with specific interactions. <i>The Journal of Chemical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0087769\">https://doi.org/10.1063/5.0087769</a>","ieee":"I. Palaia and A. Šarić, “Controlling cluster size in 2D phase-separating binary mixtures with specific interactions,” <i>The Journal of Chemical Physics</i>, vol. 156, no. 19. AIP Publishing, 2022."},"oa_version":"Published Version","file":[{"file_name":"2022_JourChemPhysics_Palaia.pdf","file_size":6387208,"creator":"dernst","relation":"main_file","access_level":"open_access","checksum":"7fada58059676a4bb0944b82247af740","content_type":"application/pdf","success":1,"date_updated":"2022-05-23T07:45:33Z","file_id":"11405","date_created":"2022-05-23T07:45:33Z"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_processing_charge":"No","volume":156,"has_accepted_license":"1","_id":"11400","author":[{"full_name":"Palaia, Ivan","last_name":"Palaia","id":"9c805cd2-4b75-11ec-a374-db6dd0ed57fa","first_name":"Ivan","orcid":" 0000-0002-8843-9485 "},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","full_name":"Šarić, Anđela","last_name":"Šarić","orcid":"0000-0002-7854-2139"}],"title":"Controlling cluster size in 2D phase-separating binary mixtures with specific interactions","doi":"10.1063/5.0087769","issue":"19","abstract":[{"lang":"eng","text":"By varying the concentration of molecules in the cytoplasm or on the membrane, cells can induce the formation of condensates and liquid droplets, similar to phase separation. Their thermodynamics, much studied, depends on the mutual interactions between microscopic constituents. Here, we focus on the kinetics and size control of 2D clusters, forming on membranes. Using molecular dynamics of patchy colloids, we model a system of two species of proteins, giving origin to specific heterotypic bonds. We find that concentrations, together with valence and bond strength, control both the size and the growth time rate of the clusters. In particular, if one species is in large excess, it gradually saturates the binding sites of the other species; the system then becomes kinetically arrested and cluster coarsening slows down or stops, thus yielding effective size selection. This phenomenology is observed both in solid and fluid clusters, which feature additional generic homotypic interactions and are reminiscent of the ones observed on biological membranes."}],"project":[{"call_identifier":"H2020","name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines","grant_number":"802960","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e"},{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413","call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program"}],"publication_identifier":{"eissn":["1089-7690"],"issn":["0021-9606"]},"ec_funded":1,"publication_status":"published","acknowledgement":"The authors thank Longhui Zeng and Xiaolei Su (Yale University) for bringing the topic to their attention and for useful comments. This work has received funding from the European Research Council under the European Union’s Horizon\r\n2020 research and innovation program (ERC Grant No. 802960 and Marie Skłodowska-Curie Grant No. 101034413). The authors are grateful to the UK Materials and Molecular Modeling Hub for computational resources, which is partially funded by EPSRC (Grant Nos. EP/P020194/1 and EP/T022213/1). The authors acknowledge support from ISTA and from the Royal Society (Grant No. UF160266).","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"AnSa"}],"date_created":"2022-05-22T17:04:48Z","external_id":{"isi":["000797236000004"]},"date_published":"2022-05-16T00:00:00Z","intvolume":"       156","publisher":"AIP Publishing","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"oa":1,"keyword":["Physical and Theoretical Chemistry","General Physics and Astronomy"],"year":"2022","date_updated":"2023-09-05T11:59:00Z","publication":"The Journal of Chemical Physics","article_type":"original","article_number":"194902"},{"external_id":{"isi":["000794880200001"]},"date_published":"2022-05-13T00:00:00Z","date_created":"2022-05-22T22:01:40Z","scopus_import":"1","department":[{"_id":"MaIb"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","publisher":"Springer Nature","intvolume":"        14","year":"2022","oa":1,"article_number":"42","article_type":"original","publication":"NPG Asia Materials","date_updated":"2023-08-03T07:13:58Z","oa_version":"Published Version","citation":{"short":"V.Q. Nguyen, T.L. Trinh, C. Chang, L.D. Zhao, T.H. Nguyen, V.T. Duong, A.T. Duong, J.H. Park, S. Park, J. Kim, S. Cho, NPG Asia Materials 14 (2022).","ama":"Nguyen VQ, Trinh TL, Chang C, et al. Unidentified major p-type source in SnSe: Multivacancies. <i>NPG Asia Materials</i>. 2022;14. doi:<a href=\"https://doi.org/10.1038/s41427-022-00393-5\">10.1038/s41427-022-00393-5</a>","ista":"Nguyen VQ, Trinh TL, Chang C, Zhao LD, Nguyen TH, Duong VT, Duong AT, Park JH, Park S, Kim J, Cho S. 2022. Unidentified major p-type source in SnSe: Multivacancies. NPG Asia Materials. 14, 42.","ieee":"V. Q. Nguyen <i>et al.</i>, “Unidentified major p-type source in SnSe: Multivacancies,” <i>NPG Asia Materials</i>, vol. 14. Springer Nature, 2022.","apa":"Nguyen, V. Q., Trinh, T. L., Chang, C., Zhao, L. D., Nguyen, T. H., Duong, V. T., … Cho, S. (2022). Unidentified major p-type source in SnSe: Multivacancies. <i>NPG Asia Materials</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41427-022-00393-5\">https://doi.org/10.1038/s41427-022-00393-5</a>","chicago":"Nguyen, Van Quang, Thi Ly Trinh, Cheng Chang, Li Dong Zhao, Thi Huong Nguyen, Van Thiet Duong, Anh Tuan Duong, et al. “Unidentified Major P-Type Source in SnSe: Multivacancies.” <i>NPG Asia Materials</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41427-022-00393-5\">https://doi.org/10.1038/s41427-022-00393-5</a>.","mla":"Nguyen, Van Quang, et al. “Unidentified Major P-Type Source in SnSe: Multivacancies.” <i>NPG Asia Materials</i>, vol. 14, 42, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1038/s41427-022-00393-5\">10.1038/s41427-022-00393-5</a>."},"day":"13","month":"05","ddc":["540"],"file_date_updated":"2022-05-23T06:47:57Z","has_accepted_license":"1","volume":14,"article_processing_charge":"No","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"date_created":"2022-05-23T06:47:57Z","file_id":"11404","relation":"main_file","creator":"dernst","file_size":6202545,"file_name":"2022_NPGAsiaMaterials_Nguyen.pdf","content_type":"application/pdf","checksum":"0579997cc1d28bf66e29357e08e3e39d","access_level":"open_access","date_updated":"2022-05-23T06:47:57Z","success":1}],"abstract":[{"text":"Tin selenide (SnSe) is considered a robust candidate for thermoelectric applications due to its very high thermoelectric figure of merit, ZT, with values of 2.6 in p-type and 2.8 in n-type single crystals. Sn has been replaced with various lower group dopants to achieve successful p-type doping in SnSe with high ZT values. A known, facile, and powerful alternative way to introduce a hole carrier is to use a natural single Sn vacancy, VSn. Through transport and scanning tunneling microscopy studies, we discovered that VSn are dominant in high-quality (slow cooling rate) SnSe single crystals, while multiple vacancies, Vmulti, are dominant in low-quality (high cooling rate) single crystals. Surprisingly, both VSn and Vmulti help to increase the power factors of SnSe, whereas samples with dominant VSn have superior thermoelectric properties in SnSe single crystals. Additionally, the observation that Vmulti are good p-type sources observed in relatively low-quality single crystals is useful in thermoelectric applications because polycrystalline SnSe can be used due to its mechanical strength; this substance is usually fabricated at very high cooling speeds.","lang":"eng"}],"doi":"10.1038/s41427-022-00393-5","title":"Unidentified major p-type source in SnSe: Multivacancies","author":[{"first_name":"Van Quang","full_name":"Nguyen, Van Quang","last_name":"Nguyen"},{"first_name":"Thi Ly","full_name":"Trinh, Thi Ly","last_name":"Trinh"},{"orcid":"0000-0002-9515-4277","first_name":"Cheng","id":"9E331C2E-9F27-11E9-AE48-5033E6697425","last_name":"Chang","full_name":"Chang, Cheng"},{"first_name":"Li Dong","last_name":"Zhao","full_name":"Zhao, Li Dong"},{"full_name":"Nguyen, Thi Huong","last_name":"Nguyen","first_name":"Thi Huong"},{"first_name":"Van Thiet","last_name":"Duong","full_name":"Duong, Van Thiet"},{"last_name":"Duong","full_name":"Duong, Anh Tuan","first_name":"Anh Tuan"},{"last_name":"Park","full_name":"Park, Jong Ho","first_name":"Jong Ho"},{"first_name":"Sudong","last_name":"Park","full_name":"Park, Sudong"},{"first_name":"Jungdae","last_name":"Kim","full_name":"Kim, Jungdae"},{"first_name":"Sunglae","last_name":"Cho","full_name":"Cho, Sunglae"}],"_id":"11401","publication_status":"published","status":"public","acknowledgement":"This work was supported by the National Research Foundation of Korea [NRF-2019R1F1A1058473, NRF-2019R1A6A1A11053838, and NRF-2020K1A4A7A02095438].","publication_identifier":{"eissn":["1884-4057"],"issn":["1884-4049"]}},{"publication_identifier":{"issn":["0022-0000"],"eissn":["1090-2724"]},"project":[{"grant_number":"S11407","_id":"25863FF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Game Theory"},{"grant_number":"863818","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","call_identifier":"H2020","name":"Formal Methods for Stochastic Models: Algorithms and Applications"}],"status":"public","publication_status":"published","acknowledgement":"This work was partially supported by Austrian Science Fund (FWF) NFN Grant No RiSE/SHiNE S11407 and by the grant ERC CoG 863818 (ForM-SMArt).","ec_funded":1,"author":[{"orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee"},{"last_name":"Doyen","full_name":"Doyen, Laurent","first_name":"Laurent"}],"title":"Graph planning with expected finite horizon","_id":"11402","abstract":[{"text":"Fixed-horizon planning considers a weighted graph and asks to construct a path that maximizes the sum of weights for a given time horizon T. However, in many scenarios, the time horizon is not fixed, but the stopping time is chosen according to some distribution such that the expected stopping time is T. If the stopping-time distribution is not known, then to ensure robustness, the distribution is chosen by an adversary as the worst-case scenario. A stationary plan for every vertex always chooses the same outgoing edge. For fixed horizon or fixed stopping-time distribution, stationary plans are not sufficient for optimality. Quite surprisingly we show that when an adversary chooses the stopping-time distribution with expected stopping-time T, then stationary plans are sufficient. While computing optimal stationary plans for fixed horizon is NP-complete, we show that computing optimal stationary plans under adversarial stopping-time distribution can be achieved in polynomial time.","lang":"eng"}],"doi":"10.1016/j.jcss.2022.04.003","arxiv":1,"volume":129,"article_processing_charge":"No","day":"01","citation":{"apa":"Chatterjee, K., &#38; Doyen, L. (2022). Graph planning with expected finite horizon. <i>Journal of Computer and System Sciences</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jcss.2022.04.003\">https://doi.org/10.1016/j.jcss.2022.04.003</a>","ieee":"K. Chatterjee and L. Doyen, “Graph planning with expected finite horizon,” <i>Journal of Computer and System Sciences</i>, vol. 129. Elsevier, pp. 1–21, 2022.","ista":"Chatterjee K, Doyen L. 2022. Graph planning with expected finite horizon. Journal of Computer and System Sciences. 129, 1–21.","ama":"Chatterjee K, Doyen L. Graph planning with expected finite horizon. <i>Journal of Computer and System Sciences</i>. 2022;129:1-21. doi:<a href=\"https://doi.org/10.1016/j.jcss.2022.04.003\">10.1016/j.jcss.2022.04.003</a>","short":"K. Chatterjee, L. Doyen, Journal of Computer and System Sciences 129 (2022) 1–21.","mla":"Chatterjee, Krishnendu, and Laurent Doyen. “Graph Planning with Expected Finite Horizon.” <i>Journal of Computer and System Sciences</i>, vol. 129, Elsevier, 2022, pp. 1–21, doi:<a href=\"https://doi.org/10.1016/j.jcss.2022.04.003\">10.1016/j.jcss.2022.04.003</a>.","chicago":"Chatterjee, Krishnendu, and Laurent Doyen. “Graph Planning with Expected Finite Horizon.” <i>Journal of Computer and System Sciences</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.jcss.2022.04.003\">https://doi.org/10.1016/j.jcss.2022.04.003</a>."},"month":"11","oa_version":"Preprint","publication":"Journal of Computer and System Sciences","date_updated":"2025-07-14T09:09:54Z","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"7402"}]},"article_type":"original","page":"1-21","oa":1,"year":"2022","intvolume":"       129","main_file_link":[{"open_access":"1","url":" https://doi.org/10.48550/arXiv.1802.03642"}],"publisher":"Elsevier","isi":1,"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","department":[{"_id":"KrCh"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000805002800001"],"arxiv":["1802.03642"]},"date_published":"2022-11-01T00:00:00Z","scopus_import":"1","date_created":"2022-05-22T22:01:40Z"},{"publication_identifier":{"eissn":["2662-138X"]},"status":"public","publication_status":"published","_id":"11403","title":"Measuring airborne nanoplastics using aerosol physics","author":[{"orcid":"0000-0002-0464-8440","last_name":"Stöllner","full_name":"Stöllner, Andrea","first_name":"Andrea","id":"4bdcf7f6-eb97-11eb-a6c2-9981bbdc3bed"}],"doi":"10.1038/s43017-022-00302-y","issue":"6","volume":3,"article_processing_charge":"No","month":"06","citation":{"mla":"Stöllner, Andrea. “Measuring Airborne Nanoplastics Using Aerosol Physics.” <i>Nature Reviews Earth and Environment</i>, vol. 3, no. 6, Springer Nature, 2022, p. 360, doi:<a href=\"https://doi.org/10.1038/s43017-022-00302-y\">10.1038/s43017-022-00302-y</a>.","chicago":"Stöllner, Andrea. “Measuring Airborne Nanoplastics Using Aerosol Physics.” <i>Nature Reviews Earth and Environment</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s43017-022-00302-y\">https://doi.org/10.1038/s43017-022-00302-y</a>.","ieee":"A. Stöllner, “Measuring airborne nanoplastics using aerosol physics,” <i>Nature Reviews Earth and Environment</i>, vol. 3, no. 6. Springer Nature, p. 360, 2022.","apa":"Stöllner, A. (2022). Measuring airborne nanoplastics using aerosol physics. <i>Nature Reviews Earth and Environment</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s43017-022-00302-y\">https://doi.org/10.1038/s43017-022-00302-y</a>","short":"A. Stöllner, Nature Reviews Earth and Environment 3 (2022) 360.","ama":"Stöllner A. Measuring airborne nanoplastics using aerosol physics. <i>Nature Reviews Earth and Environment</i>. 2022;3(6):360. doi:<a href=\"https://doi.org/10.1038/s43017-022-00302-y\">10.1038/s43017-022-00302-y</a>","ista":"Stöllner A. 2022. Measuring airborne nanoplastics using aerosol physics. Nature Reviews Earth and Environment. 3(6), 360."},"day":"01","oa_version":"None","date_updated":"2023-11-28T09:53:42Z","publication":"Nature Reviews Earth and Environment","page":"360","article_type":"original","year":"2022","publisher":"Springer Nature","intvolume":"         3","language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"GradSch"}],"date_created":"2022-05-22T22:01:41Z","scopus_import":"1","date_published":"2022-06-01T00:00:00Z","external_id":{"isi":["000791125600002"]}},{"oa":1,"year":"2022","date_updated":"2024-02-21T12:38:33Z","publication":"Genetics","article_type":"original","article_number":"iyac083","related_material":{"record":[{"id":"14651","status":"public","relation":"dissertation_contains"},{"status":"public","relation":"research_data","id":"11321"},{"status":"public","relation":"research_data","id":"9192"}]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"acknowledged_ssus":[{"_id":"ScienComp"}],"scopus_import":"1","date_created":"2022-05-26T13:44:50Z","date_published":"2022-07-01T00:00:00Z","external_id":{"pmid":["35639938"],"isi":["000803735800001"]},"intvolume":"       221","publisher":"Oxford University Press","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"isi":1,"_id":"11411","author":[{"id":"455235B8-F248-11E8-B48F-1D18A9856A87","first_name":"Parvathy","full_name":"Surendranadh, Parvathy","last_name":"Surendranadh"},{"orcid":"0000-0003-1771-714X","first_name":"Louise S","id":"2CFCFF98-F248-11E8-B48F-1D18A9856A87","last_name":"Arathoon","full_name":"Arathoon, Louise S"},{"last_name":"Baskett","full_name":"Baskett, Carina","first_name":"Carina","id":"3B4A7CE2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7354-8574"},{"full_name":"Field, David","last_name":"Field","id":"419049E2-F248-11E8-B48F-1D18A9856A87","first_name":"David","orcid":"0000-0002-4014-8478"},{"orcid":"0000-0001-6118-0541","last_name":"Pickup","full_name":"Pickup, Melinda","first_name":"Melinda","id":"2C78037E-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-8548-5240","last_name":"Barton","full_name":"Barton, Nicholas H","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"title":"Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus","doi":"10.1093/genetics/iyac083","issue":"3","abstract":[{"lang":"eng","text":"Many studies have quantified the distribution of heterozygosity and relatedness in natural populations, but few have examined the demographic processes driving these patterns. In this study, we take a novel approach by studying how population structure affects both pairwise identity and the distribution of heterozygosity in a natural population of the self-incompatible plant Antirrhinum majus. Excess variance in heterozygosity between individuals is due to identity disequilibrium, which reflects the variance in inbreeding between individuals; it is measured by the statistic g2. We calculated g2 together with FST and pairwise relatedness (Fij) using 91 SNPs in 22,353 individuals collected over 11 years. We find that pairwise Fij declines rapidly over short spatial scales, and the excess variance in heterozygosity between individuals reflects significant variation in inbreeding. Additionally, we detect an excess of individuals with around half the average heterozygosity, indicating either selfing or matings between close relatives. We use 2 types of simulation to ask whether variation in heterozygosity is consistent with fine-scale spatial population structure. First, by simulating offspring using parents drawn from a range of spatial scales, we show that the known pollen dispersal kernel explains g2. Second, we simulate a 1,000-generation pedigree using the known dispersal and spatial distribution and find that the resulting g2 is consistent with that observed from the field data. In contrast, a simulated population with uniform density underestimates g2, indicating that heterogeneous density promotes identity disequilibrium. Our study shows that heterogeneous density and leptokurtic dispersal can together explain the distribution of heterozygosity."}],"project":[{"name":"The maintenance of alternative adaptive peaks in snapdragons","_id":"05959E1C-7A3F-11EA-A408-12923DDC885E","grant_number":"P32166"}],"publication_identifier":{"eissn":["1943-2631"]},"publication_status":"published","acknowledgement":"Part of this work was funded by Marie Curie COFUND Doctoral Fellowship and Austrian Science Fund FWF (grant P32166).\r\nWe thank the many volunteers and friends who have contributed to data collection in the field site over the years, in particular those who have managed field seasons: Barbora Trubenova, Maria Clara Melo, Tom Ellis, Eva Cereghetti, Lenka Matejovicova, Beatriz Pablo Carmona. Frederic Ferrer and Eva Salmerón Mateu have been immensely helpful with logistics at our informal field station, El Serrat de Planoles. We thank Sean Stankowski for technical help in\r\nproducing figure 1. This research was also supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp).","status":"public","file_date_updated":"2022-05-26T12:48:21Z","pmid":1,"ddc":["576"],"month":"07","day":"01","citation":{"ista":"Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. 2022. Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. Genetics. 221(3), iyac083.","ama":"Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. <i>Genetics</i>. 2022;221(3). doi:<a href=\"https://doi.org/10.1093/genetics/iyac083\">10.1093/genetics/iyac083</a>","short":"P. Surendranadh, L.S. Arathoon, C. Baskett, D. Field, M. Pickup, N.H. Barton, Genetics 221 (2022).","ieee":"P. Surendranadh, L. S. Arathoon, C. Baskett, D. Field, M. Pickup, and N. H. Barton, “Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus,” <i>Genetics</i>, vol. 221, no. 3. Oxford University Press, 2022.","apa":"Surendranadh, P., Arathoon, L. S., Baskett, C., Field, D., Pickup, M., &#38; Barton, N. H. (2022). Effects of fine-scale population structure on the distribution of heterozygosity in a long-term study of Antirrhinum majus. <i>Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/genetics/iyac083\">https://doi.org/10.1093/genetics/iyac083</a>","mla":"Surendranadh, Parvathy, et al. “Effects of Fine-Scale Population Structure on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.” <i>Genetics</i>, vol. 221, no. 3, iyac083, Oxford University Press, 2022, doi:<a href=\"https://doi.org/10.1093/genetics/iyac083\">10.1093/genetics/iyac083</a>.","chicago":"Surendranadh, Parvathy, Louise S Arathoon, Carina Baskett, David Field, Melinda Pickup, and Nicholas H Barton. “Effects of Fine-Scale Population Structure on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.” <i>Genetics</i>. Oxford University Press, 2022. <a href=\"https://doi.org/10.1093/genetics/iyac083\">https://doi.org/10.1093/genetics/iyac083</a>."},"oa_version":"Submitted Version","file":[{"date_updated":"2022-05-26T12:48:15Z","success":1,"checksum":"cc2d56deb608bd53c5cc02f03a875107","content_type":"application/pdf","access_level":"open_access","creator":"larathoo","file_size":885374,"relation":"main_file","file_name":"Manuscript.pdf","date_created":"2022-05-26T12:48:15Z","file_id":"11412"},{"file_size":1401704,"relation":"main_file","creator":"larathoo","file_name":"SupplementalMaterial.pdf","date_updated":"2022-05-26T12:48:21Z","success":1,"content_type":"application/pdf","checksum":"693742595b6c7ed809423be01460d083","access_level":"open_access","date_created":"2022-05-26T12:48:21Z","file_id":"11413"}],"article_processing_charge":"No","volume":221,"has_accepted_license":"1"},{"year":"2022","oa":1,"article_type":"letter_note","article_number":"190401","date_updated":"2023-08-03T07:16:20Z","publication":"Applied Physics Letters","scopus_import":"1","date_created":"2022-05-29T22:01:53Z","external_id":{"isi":["000796002100002"]},"date_published":"2022-05-12T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JoFi"}],"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"main_file_link":[{"url":"https://doi.org/10.1063/5.0097339","open_access":"1"}],"intvolume":"       120","publisher":"American Institute of Physics","doi":"10.1063/5.0097339","issue":"19","abstract":[{"lang":"eng","text":"Over the past few years, the field of quantum information science has seen tremendous progress toward realizing large-scale quantum computers. With demonstrations of quantum computers outperforming classical computers for a select range of problems,1–3 we have finally entered the noisy, intermediate-scale quantum (NISQ) computing era. While the quantum computers of today are technological marvels, they are not yet error corrected, and it is unclear whether any system will scale beyond a few hundred logical qubits without significant changes to architecture and control schemes. Today's quantum systems are analogous to the ENIAC (Electronic Numerical Integrator And Computer) and EDVAC (Electronic Discrete Variable Automatic Computer) systems of the 1940s, which ran on vacuum tubes. These machines were built on a solid, nominally scalable architecture and when they were developed, nobody could have predicted the development of the transistor and the impact of the resulting semiconductor industry. Simply put, the computers of today are nothing like the early computers of the 1940s. We believe that the qubits of future fault-tolerant quantum systems will look quite different from the qubits of the NISQ machines in operation today. This Special Topic issue is devoted to new and emerging quantum systems with a focus on enabling technologies that can eventually lead to the quantum analog to the transistor. We have solicited both research4–18 and perspective articles19–21 to discuss new and emerging qubit systems with a focus on novel materials, encodings, and architectures. We are proud to present a collection that touches on a wide range of technologies including superconductors,7–13,21 semiconductors,15–17,19 and individual atomic qubits.18\r\n"}],"_id":"11417","author":[{"full_name":"Sigillito, Anthony J.","last_name":"Sigillito","first_name":"Anthony J."},{"first_name":"Jacob P.","last_name":"Covey","full_name":"Covey, Jacob P."},{"first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X"},{"first_name":"Karl","full_name":"Petersson, Karl","last_name":"Petersson"},{"first_name":"Stefan","last_name":"Preble","full_name":"Preble, Stefan"}],"title":"Emerging qubit systems: Guest editorial","publication_status":"published","status":"public","acknowledgement":"We would like to thank all of the authors who contributed to\r\nthis Special Topic. We would also like to thank the editorial team at\r\nAPL including Jessica Trudeau, Emma Van Burns, Martin Weides,\r\nand Lesley Cohen.","publication_identifier":{"issn":["0003-6951"]},"oa_version":"Published Version","month":"05","day":"12","citation":{"mla":"Sigillito, Anthony J., et al. “Emerging Qubit Systems: Guest Editorial.” <i>Applied Physics Letters</i>, vol. 120, no. 19, 190401, American Institute of Physics, 2022, doi:<a href=\"https://doi.org/10.1063/5.0097339\">10.1063/5.0097339</a>.","chicago":"Sigillito, Anthony J., Jacob P. Covey, Johannes M Fink, Karl Petersson, and Stefan Preble. “Emerging Qubit Systems: Guest Editorial.” <i>Applied Physics Letters</i>. American Institute of Physics, 2022. <a href=\"https://doi.org/10.1063/5.0097339\">https://doi.org/10.1063/5.0097339</a>.","ieee":"A. J. Sigillito, J. P. Covey, J. M. Fink, K. Petersson, and S. Preble, “Emerging qubit systems: Guest editorial,” <i>Applied Physics Letters</i>, vol. 120, no. 19. American Institute of Physics, 2022.","apa":"Sigillito, A. J., Covey, J. P., Fink, J. M., Petersson, K., &#38; Preble, S. (2022). Emerging qubit systems: Guest editorial. <i>Applied Physics Letters</i>. American Institute of Physics. <a href=\"https://doi.org/10.1063/5.0097339\">https://doi.org/10.1063/5.0097339</a>","ama":"Sigillito AJ, Covey JP, Fink JM, Petersson K, Preble S. Emerging qubit systems: Guest editorial. <i>Applied Physics Letters</i>. 2022;120(19). doi:<a href=\"https://doi.org/10.1063/5.0097339\">10.1063/5.0097339</a>","short":"A.J. Sigillito, J.P. Covey, J.M. Fink, K. Petersson, S. Preble, Applied Physics Letters 120 (2022).","ista":"Sigillito AJ, Covey JP, Fink JM, Petersson K, Preble S. 2022. Emerging qubit systems: Guest editorial. Applied Physics Letters. 120(19), 190401."},"article_processing_charge":"No","volume":120},{"publication":"Annals of Probability","date_updated":"2023-08-03T07:16:53Z","page":"984-1012","article_type":"original","oa":1,"year":"2022","publisher":"Institute of Mathematical Statistics","intvolume":"        50","main_file_link":[{"url":"https://arxiv.org/abs/2103.06730","open_access":"1"}],"isi":1,"language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","department":[{"_id":"LaEr"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"arxiv":["2103.06730"],"isi":["000793963400005"]},"date_published":"2022-05-01T00:00:00Z","date_created":"2022-05-29T22:01:53Z","scopus_import":"1","publication_identifier":{"eissn":["2168-894X"],"issn":["0091-1798"]},"publication_status":"published","acknowledgement":"L.E. would like to thank Zhigang Bao for many illuminating discussions in an early stage of this research. The authors are also grateful to Paul Bourgade for his comments on the manuscript and the anonymous referee for several useful suggestions.","status":"public","title":"Normal fluctuation in quantum ergodicity for Wigner matrices","author":[{"orcid":"0000-0002-4901-7992","full_name":"Cipolloni, Giorgio","last_name":"Cipolloni","id":"42198EFA-F248-11E8-B48F-1D18A9856A87","first_name":"Giorgio"},{"first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","full_name":"Erdös, László","orcid":"0000-0001-5366-9603"},{"orcid":"0000-0002-2904-1856","first_name":"Dominik J","id":"408ED176-F248-11E8-B48F-1D18A9856A87","last_name":"Schröder","full_name":"Schröder, Dominik J"}],"_id":"11418","abstract":[{"text":"We consider the quadratic form of a general high-rank deterministic matrix on the eigenvectors of an N×N\r\nWigner matrix and prove that it has Gaussian fluctuation for each bulk eigenvector in the large N limit. The proof is a combination of the energy method for the Dyson Brownian motion inspired by Marcinek and Yau (2021) and our recent multiresolvent local laws (Comm. Math. Phys. 388 (2021) 1005–1048).","lang":"eng"}],"issue":"3","doi":"10.1214/21-AOP1552","arxiv":1,"article_processing_charge":"No","volume":50,"citation":{"ieee":"G. Cipolloni, L. Erdös, and D. J. Schröder, “Normal fluctuation in quantum ergodicity for Wigner matrices,” <i>Annals of Probability</i>, vol. 50, no. 3. Institute of Mathematical Statistics, pp. 984–1012, 2022.","apa":"Cipolloni, G., Erdös, L., &#38; Schröder, D. J. (2022). Normal fluctuation in quantum ergodicity for Wigner matrices. <i>Annals of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/21-AOP1552\">https://doi.org/10.1214/21-AOP1552</a>","short":"G. Cipolloni, L. Erdös, D.J. Schröder, Annals of Probability 50 (2022) 984–1012.","ista":"Cipolloni G, Erdös L, Schröder DJ. 2022. Normal fluctuation in quantum ergodicity for Wigner matrices. Annals of Probability. 50(3), 984–1012.","ama":"Cipolloni G, Erdös L, Schröder DJ. Normal fluctuation in quantum ergodicity for Wigner matrices. <i>Annals of Probability</i>. 2022;50(3):984-1012. doi:<a href=\"https://doi.org/10.1214/21-AOP1552\">10.1214/21-AOP1552</a>","chicago":"Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Normal Fluctuation in Quantum Ergodicity for Wigner Matrices.” <i>Annals of Probability</i>. Institute of Mathematical Statistics, 2022. <a href=\"https://doi.org/10.1214/21-AOP1552\">https://doi.org/10.1214/21-AOP1552</a>.","mla":"Cipolloni, Giorgio, et al. “Normal Fluctuation in Quantum Ergodicity for Wigner Matrices.” <i>Annals of Probability</i>, vol. 50, no. 3, Institute of Mathematical Statistics, 2022, pp. 984–1012, doi:<a href=\"https://doi.org/10.1214/21-AOP1552\">10.1214/21-AOP1552</a>."},"day":"01","month":"05","oa_version":"Preprint"},{"date_created":"2022-05-29T22:01:54Z","scopus_import":"1","external_id":{"isi":["000876231600001"],"pmid":["35471147 "]},"date_published":"2022-05-05T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"RySh"}],"type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","isi":1,"publisher":"eLife Sciences Publications","intvolume":"        11","year":"2022","oa":1,"article_number":"e73542","article_type":"original","date_updated":"2023-08-03T07:15:49Z","publication":"eLife","oa_version":"Published Version","file_date_updated":"2022-05-30T08:09:16Z","pmid":1,"ddc":["616"],"month":"05","citation":{"mla":"Hori, Tetsuya, et al. “Microtubule Assembly by Tau Impairs Endocytosis and Neurotransmission via Dynamin Sequestration in Alzheimer’s Disease Synapse Model.” <i>ELife</i>, vol. 11, e73542, eLife Sciences Publications, 2022, doi:<a href=\"https://doi.org/10.7554/eLife.73542\">10.7554/eLife.73542</a>.","chicago":"Hori, Tetsuya, Kohgaku Eguchi, Han Ying Wang, Tomohiro Miyasaka, Laurent Guillaud, Zacharie Taoufiq, Satyajit Mahapatra, Hiroshi Yamada, Kohji Takei, and Tomoyuki Takahashi. “Microtubule Assembly by Tau Impairs Endocytosis and Neurotransmission via Dynamin Sequestration in Alzheimer’s Disease Synapse Model.” <i>ELife</i>. eLife Sciences Publications, 2022. <a href=\"https://doi.org/10.7554/eLife.73542\">https://doi.org/10.7554/eLife.73542</a>.","ieee":"T. Hori <i>et al.</i>, “Microtubule assembly by tau impairs endocytosis and neurotransmission via dynamin sequestration in Alzheimer’s disease synapse model,” <i>eLife</i>, vol. 11. eLife Sciences Publications, 2022.","apa":"Hori, T., Eguchi, K., Wang, H. Y., Miyasaka, T., Guillaud, L., Taoufiq, Z., … Takahashi, T. (2022). Microtubule assembly by tau impairs endocytosis and neurotransmission via dynamin sequestration in Alzheimer’s disease synapse model. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.73542\">https://doi.org/10.7554/eLife.73542</a>","ista":"Hori T, Eguchi K, Wang HY, Miyasaka T, Guillaud L, Taoufiq Z, Mahapatra S, Yamada H, Takei K, Takahashi T. 2022. Microtubule assembly by tau impairs endocytosis and neurotransmission via dynamin sequestration in Alzheimer’s disease synapse model. eLife. 11, e73542.","short":"T. Hori, K. Eguchi, H.Y. Wang, T. Miyasaka, L. Guillaud, Z. Taoufiq, S. Mahapatra, H. Yamada, K. Takei, T. Takahashi, ELife 11 (2022).","ama":"Hori T, Eguchi K, Wang HY, et al. Microtubule assembly by tau impairs endocytosis and neurotransmission via dynamin sequestration in Alzheimer’s disease synapse model. <i>eLife</i>. 2022;11. doi:<a href=\"https://doi.org/10.7554/eLife.73542\">10.7554/eLife.73542</a>"},"day":"05","volume":11,"article_processing_charge":"No","has_accepted_license":"1","file":[{"access_level":"open_access","content_type":"application/pdf","checksum":"ccddbd167e00ff8375f12998af497152","success":1,"date_updated":"2022-05-30T08:09:16Z","file_name":"elife-73542-v2.pdf","file_size":2466296,"creator":"cchlebak","relation":"main_file","file_id":"11421","date_created":"2022-05-30T08:09:16Z"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.7554/eLife.73542","abstract":[{"lang":"eng","text":"Elevation of soluble wild-type (WT) tau occurs in synaptic compartments in Alzheimer’s disease. We addressed whether tau elevation affects synaptic transmission at the calyx of Held in slices from mice brainstem. Whole-cell loading of WT human tau (h-tau) in presynaptic terminals at 10–20 µM caused microtubule (MT) assembly and activity-dependent rundown of excitatory neurotransmission. Capacitance measurements revealed that the primary target of WT h-tau is vesicle endocytosis. Blocking MT assembly using nocodazole prevented tau-induced impairments of endocytosis and neurotransmission. Immunofluorescence imaging analyses revealed that MT assembly by WT h-tau loading was associated with an increased MT-bound fraction of the endocytic protein dynamin. A synthetic dodecapeptide corresponding to dynamin 1-pleckstrin-homology domain inhibited MT-dynamin interaction and rescued tau-induced impairments of endocytosis and neurotransmission. We conclude that elevation of presynaptic WT tau induces de novo assembly of MTs, thereby sequestering free dynamins. As a result, endocytosis and subsequent vesicle replenishment are impaired, causing activity-dependent rundown of neurotransmission."}],"_id":"11419","title":"Microtubule assembly by tau impairs endocytosis and neurotransmission via dynamin sequestration in Alzheimer's disease synapse model","author":[{"first_name":"Tetsuya","full_name":"Hori, Tetsuya","last_name":"Hori"},{"orcid":"0000-0002-6170-2546","id":"2B7846DC-F248-11E8-B48F-1D18A9856A87","first_name":"Kohgaku","full_name":"Eguchi, Kohgaku","last_name":"Eguchi"},{"first_name":"Han Ying","full_name":"Wang, Han Ying","last_name":"Wang"},{"first_name":"Tomohiro","last_name":"Miyasaka","full_name":"Miyasaka, Tomohiro"},{"full_name":"Guillaud, Laurent","last_name":"Guillaud","first_name":"Laurent"},{"first_name":"Zacharie","full_name":"Taoufiq, Zacharie","last_name":"Taoufiq"},{"first_name":"Satyajit","last_name":"Mahapatra","full_name":"Mahapatra, Satyajit"},{"last_name":"Yamada","full_name":"Yamada, Hiroshi","first_name":"Hiroshi"},{"first_name":"Kohji","last_name":"Takei","full_name":"Takei, Kohji"},{"full_name":"Takahashi, Tomoyuki","last_name":"Takahashi","first_name":"Tomoyuki"}],"publication_status":"published","acknowledgement":"We thank Yasuo Ihara, Nobuyuki Nukina, and Takeshi Sakaba for comments and Patrick Stoney for editing this paper. We also thank Shota Okuda and Mikako Matsubara for their contributions in the early stage of this study, and Satoko Wada-Kakuda for technical assistant with in vitro analysis of tau. This research was supported by funding from Okinawa Institute of Science and Technology and from Technology (OIST) and Core Research for the Evolutional Science and Technology of Japan Science and Technology Agency (CREST) to TT, and by Scientific Research on Innovative Areas to TM (Brain Protein Aging and Dementia Control 26117004).","status":"public","publication_identifier":{"eissn":["2050-084X"]}},{"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"MaMo"},{"_id":"DaAl"}],"scopus_import":"1","date_created":"2022-05-29T22:01:54Z","date_published":"2022-04-01T00:00:00Z","external_id":{"arxiv":["2111.02278"]},"intvolume":"        23","publisher":"Journal of Machine Learning Research","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","oa":1,"year":"2022","date_updated":"2024-09-10T13:03:17Z","publication":"Journal of Machine Learning Research","article_type":"original","page":"1-55","related_material":{"link":[{"url":"https://www.jmlr.org/papers/v23/21-1365.html","relation":"other"}]},"month":"04","file_date_updated":"2022-05-30T08:22:55Z","ddc":["000"],"day":"01","citation":{"ista":"Shevchenko A, Kungurtsev V, Mondelli M. 2022. Mean-field analysis of piecewise linear solutions for wide ReLU networks. Journal of Machine Learning Research. 23(130), 1–55.","short":"A. Shevchenko, V. Kungurtsev, M. Mondelli, Journal of Machine Learning Research 23 (2022) 1–55.","ama":"Shevchenko A, Kungurtsev V, Mondelli M. Mean-field analysis of piecewise linear solutions for wide ReLU networks. <i>Journal of Machine Learning Research</i>. 2022;23(130):1-55.","ieee":"A. Shevchenko, V. Kungurtsev, and M. Mondelli, “Mean-field analysis of piecewise linear solutions for wide ReLU networks,” <i>Journal of Machine Learning Research</i>, vol. 23, no. 130. Journal of Machine Learning Research, pp. 1–55, 2022.","apa":"Shevchenko, A., Kungurtsev, V., &#38; Mondelli, M. (2022). Mean-field analysis of piecewise linear solutions for wide ReLU networks. <i>Journal of Machine Learning Research</i>. Journal of Machine Learning Research.","mla":"Shevchenko, Aleksandr, et al. “Mean-Field Analysis of Piecewise Linear Solutions for Wide ReLU Networks.” <i>Journal of Machine Learning Research</i>, vol. 23, no. 130, Journal of Machine Learning Research, 2022, pp. 1–55.","chicago":"Shevchenko, Aleksandr, Vyacheslav Kungurtsev, and Marco Mondelli. “Mean-Field Analysis of Piecewise Linear Solutions for Wide ReLU Networks.” <i>Journal of Machine Learning Research</i>. Journal of Machine Learning Research, 2022."},"oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"arxiv":1,"file":[{"file_name":"21-1365.pdf","file_size":1521701,"creator":"cchlebak","relation":"main_file","success":1,"date_updated":"2022-05-30T08:22:55Z","access_level":"open_access","checksum":"d4ff5d1affb34848b5c5e4002483fc62","content_type":"application/pdf","file_id":"11422","date_created":"2022-05-30T08:22:55Z"}],"article_processing_charge":"No","volume":23,"has_accepted_license":"1","_id":"11420","author":[{"last_name":"Shevchenko","full_name":"Shevchenko, Aleksandr","first_name":"Aleksandr","id":"F2B06EC2-C99E-11E9-89F0-752EE6697425"},{"first_name":"Vyacheslav","full_name":"Kungurtsev, Vyacheslav","last_name":"Kungurtsev"},{"orcid":"0000-0002-3242-7020","first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425","last_name":"Mondelli","full_name":"Mondelli, Marco"}],"title":"Mean-field analysis of piecewise linear solutions for wide ReLU networks","issue":"130","abstract":[{"text":"Understanding the properties of neural networks trained via stochastic gradient descent (SGD) is at the heart of the theory of deep learning. In this work, we take a mean-field view, and consider a two-layer ReLU network trained via noisy-SGD for a univariate regularized regression problem. Our main result is that SGD with vanishingly small noise injected in the gradients is biased towards a simple solution: at convergence, the ReLU network implements a piecewise linear map of the inputs, and the number of “knot” points -- i.e., points where the tangent of the ReLU network estimator changes -- between two consecutive training inputs is at most three. In particular, as the number of neurons of the network grows, the SGD dynamics is captured by the solution of a gradient flow and, at convergence, the distribution of the weights approaches the unique minimizer of a related free energy, which has a Gibbs form. Our key technical contribution consists in the analysis of the estimator resulting from this minimizer: we show that its second derivative vanishes everywhere, except at some specific locations which represent the “knot” points. We also provide empirical evidence that knots at locations distinct from the data points might occur, as predicted by our theory.","lang":"eng"}],"project":[{"name":"Prix Lopez-Loretta 2019 - Marco Mondelli","_id":"059876FA-7A3F-11EA-A408-12923DDC885E"}],"publication_identifier":{"issn":["1532-4435"],"eissn":["1533-7928"]},"publication_status":"published","acknowledgement":"We would like to thank Mert Pilanci for several exploratory discussions in the early stage\r\nof the project, Jan Maas for clarifications about Jordan et al. (1998), and Max Zimmer for\r\nsuggestive numerical experiments. A. Shevchenko and M. Mondelli are partially supported\r\nby the 2019 Lopez-Loreta Prize. V. Kungurtsev acknowledges support to the OP VVV\r\nproject CZ.02.1.01/0.0/0.0/16 019/0000765 Research Center for Informatics.\r\n","status":"public"},{"publication_status":"published","acknowledgement":"Partially supported by the DFG Collaborative Research Center TRR 109, “Discretization in Geometry and Dynamics” and the European Research Council (ERC), grant no. 788183, “Alpha Shape Theory Extended”. Erin Chambers: Supported in part by the National Science Foundation through grants DBI-1759807, CCF-1907612, and CCF-2106672. Mathijs Wintraecken: Supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411. The Austrian science fund (FWF) M-3073 Acknowledgements We thank André Lieutier, David Letscher, Ellen Gasparovic, Kathryn Leonard, and Tao Ju for early discussions on this work. We also thank Lu Liu, Yajie Yan and Tao Ju for sharing code to generate the examples.","status":"public","ec_funded":1,"publication_identifier":{"issn":["1868-8969"],"isbn":["978-3-95977-227-3"]},"project":[{"name":"Learning and triangulating manifolds via collapses","grant_number":"M03073","_id":"fc390959-9c52-11eb-aca3-afa58bd282b2"},{"_id":"266A2E9E-B435-11E9-9278-68D0E5697425","grant_number":"788183","call_identifier":"H2020","name":"Alpha Shape Theory Extended"},{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"abstract":[{"lang":"eng","text":"The medial axis of a set consists of the points in the ambient space without a unique closest point on the original set. Since its introduction, the medial axis has been used extensively in many applications as a method of computing a topologically equivalent skeleton. Unfortunately, one limiting factor in the use of the medial axis of a smooth manifold is that it is not necessarily topologically stable under small perturbations of the manifold. To counter these instabilities various prunings of the medial axis have been proposed. Here, we examine one type of pruning, called burning. Because of the good experimental results, it was hoped that the burning method of simplifying the medial axis would be stable. In this work we show a simple example that dashes such hopes based on Bing’s house with two rooms, demonstrating an isotopy of a shape where the medial axis goes from collapsible to non-collapsible."}],"doi":"10.4230/LIPIcs.SoCG.2022.66","author":[{"full_name":"Chambers, Erin","last_name":"Chambers","first_name":"Erin"},{"id":"35638A5C-AAC7-11E9-B0BF-5503E6697425","first_name":"Christopher D","full_name":"Fillmore, Christopher D","last_name":"Fillmore"},{"first_name":"Elizabeth R","id":"2D04F932-F248-11E8-B48F-1D18A9856A87","last_name":"Stephenson","full_name":"Stephenson, Elizabeth R","orcid":"0000-0002-6862-208X"},{"orcid":"0000-0002-7472-2220","full_name":"Wintraecken, Mathijs","last_name":"Wintraecken","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","first_name":"Mathijs"}],"title":"A cautionary tale: Burning the medial axis is unstable","editor":[{"full_name":"Goaoc, Xavier","last_name":"Goaoc","first_name":"Xavier"},{"full_name":"Kerber, Michael","last_name":"Kerber","first_name":"Michael"}],"_id":"11428","has_accepted_license":"1","volume":224,"article_processing_charge":"No","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"date_updated":"2022-06-07T07:58:30Z","success":1,"content_type":"application/pdf","checksum":"b25ce40fade4ebc0bcaae176db4f5f1f","access_level":"open_access","relation":"main_file","creator":"dernst","file_size":17580705,"file_name":"2022_LIPICs_Chambers.pdf","date_created":"2022-06-07T07:58:30Z","file_id":"11437"}],"conference":{"name":"SoCG: Symposium on Computational Geometry","end_date":"2022-06-10","location":"Berlin, Germany","start_date":"2022-06-07"},"oa_version":"Published Version","day":"01","citation":{"ama":"Chambers E, Fillmore CD, Stephenson ER, Wintraecken M. A cautionary tale: Burning the medial axis is unstable. In: Goaoc X, Kerber M, eds. <i>38th International Symposium on Computational Geometry</i>. Vol 224. LIPIcs. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2022:66:1-66:9. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2022.66\">10.4230/LIPIcs.SoCG.2022.66</a>","ista":"Chambers E, Fillmore CD, Stephenson ER, Wintraecken M. 2022. A cautionary tale: Burning the medial axis is unstable. 38th International Symposium on Computational Geometry. SoCG: Symposium on Computational GeometryLIPIcs vol. 224, 66:1-66:9.","short":"E. Chambers, C.D. Fillmore, E.R. Stephenson, M. Wintraecken, in:, X. Goaoc, M. Kerber (Eds.), 38th International Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2022, p. 66:1-66:9.","ieee":"E. Chambers, C. D. Fillmore, E. R. Stephenson, and M. Wintraecken, “A cautionary tale: Burning the medial axis is unstable,” in <i>38th International Symposium on Computational Geometry</i>, Berlin, Germany, 2022, vol. 224, p. 66:1-66:9.","apa":"Chambers, E., Fillmore, C. D., Stephenson, E. R., &#38; Wintraecken, M. (2022). A cautionary tale: Burning the medial axis is unstable. In X. Goaoc &#38; M. Kerber (Eds.), <i>38th International Symposium on Computational Geometry</i> (Vol. 224, p. 66:1-66:9). Berlin, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2022.66\">https://doi.org/10.4230/LIPIcs.SoCG.2022.66</a>","mla":"Chambers, Erin, et al. “A Cautionary Tale: Burning the Medial Axis Is Unstable.” <i>38th International Symposium on Computational Geometry</i>, edited by Xavier Goaoc and Michael Kerber, vol. 224, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2022, p. 66:1-66:9, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2022.66\">10.4230/LIPIcs.SoCG.2022.66</a>.","chicago":"Chambers, Erin, Christopher D Fillmore, Elizabeth R Stephenson, and Mathijs Wintraecken. “A Cautionary Tale: Burning the Medial Axis Is Unstable.” In <i>38th International Symposium on Computational Geometry</i>, edited by Xavier Goaoc and Michael Kerber, 224:66:1-66:9. LIPIcs. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2022. <a href=\"https://doi.org/10.4230/LIPIcs.SoCG.2022.66\">https://doi.org/10.4230/LIPIcs.SoCG.2022.66</a>."},"file_date_updated":"2022-06-07T07:58:30Z","ddc":["510"],"month":"06","page":"66:1-66:9","publication":"38th International Symposium on Computational Geometry","date_updated":"2023-02-21T09:50:52Z","year":"2022","oa":1,"quality_controlled":"1","language":[{"iso":"eng"}],"type":"conference","series_title":"LIPIcs","intvolume":"       224","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","date_published":"2022-06-01T00:00:00Z","scopus_import":"1","date_created":"2022-06-01T14:18:04Z","department":[{"_id":"HeEd"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87"},{"publication_identifier":{"eissn":["1611-3349"],"isbn":["9783031062445"],"eisbn":["9783031062452"],"issn":["0302-9743"]},"date_updated":"2022-06-02T05:56:22Z","edition":"1","publication_status":"published","status":"public","place":"Cham","page":"153","title":"Web and Wireless Geographical Information Systems","_id":"11429","editor":[{"orcid":"0000-0001-6746-4174","last_name":"Karimipour","full_name":"Karimipour, Farid","first_name":"Farid","id":"2A2BCDC4-CF62-11E9-BE5E-3B1EE6697425"},{"full_name":"Storandt, Sabine","last_name":"Storandt","first_name":"Sabine"}],"abstract":[{"lang":"eng","text":"This book constitutes the refereed proceedings of the 18th International Symposium on Web and Wireless Geographical Information Systems, W2GIS 2022, held in Konstanz, Germany, in April 2022.\r\nThe 7 full papers presented together with 6 short papers in the volume were carefully reviewed and selected from 16 submissions.  The papers cover topics that range from mobile GIS and Location-Based Services to Spatial Information Retrieval and Wireless Sensor Networks."}],"alternative_title":["LNCS"],"year":"2022","doi":"10.1007/978-3-031-06245-2","publisher":"Springer Nature","intvolume":"     13238","volume":13238,"article_processing_charge":"No","type":"book_editor","language":[{"iso":"eng"}],"quality_controlled":"1","citation":{"mla":"Karimipour, Farid, and Sabine Storandt, editors. <i>Web and Wireless Geographical Information Systems</i>. 1st ed., vol. 13238, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1007/978-3-031-06245-2\">10.1007/978-3-031-06245-2</a>.","chicago":"Karimipour, Farid, and Sabine Storandt, eds. <i>Web and Wireless Geographical Information Systems</i>. 1st ed. Vol. 13238. Cham: Springer Nature, 2022. <a href=\"https://doi.org/10.1007/978-3-031-06245-2\">https://doi.org/10.1007/978-3-031-06245-2</a>.","ama":"Karimipour F, Storandt S, eds. <i>Web and Wireless Geographical Information Systems</i>. Vol 13238. 1st ed. Cham: Springer Nature; 2022. doi:<a href=\"https://doi.org/10.1007/978-3-031-06245-2\">10.1007/978-3-031-06245-2</a>","short":"F. Karimipour, S. Storandt, eds., Web and Wireless Geographical Information Systems, 1st ed., Springer Nature, Cham, 2022.","ista":"Karimipour F, Storandt S eds. 2022. Web and Wireless Geographical Information Systems 1st ed., Cham: Springer Nature, 153p.","ieee":"F. Karimipour and S. Storandt, Eds., <i>Web and Wireless Geographical Information Systems</i>, 1st ed., vol. 13238. Cham: Springer Nature, 2022.","apa":"Karimipour, F., &#38; Storandt, S. (Eds.). (2022). <i>Web and Wireless Geographical Information Systems</i> (1st ed., Vol. 13238). Cham: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-06245-2\">https://doi.org/10.1007/978-3-031-06245-2</a>"},"day":"01","department":[{"_id":"HeEd"}],"month":"05","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2022-05-01T00:00:00Z","date_created":"2022-06-02T05:40:53Z","oa_version":"None"}]