[{"_id":"9920","year":"2021","date_created":"2021-08-16T09:44:09Z","acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"keyword":["quantum computing","superinductor","quantum metrology"],"article_processing_charge":"No","oa_version":"Published Version","abstract":[{"text":"This work is concerned with two fascinating circuit quantum electrodynamics components, the Josephson junction and the geometric superinductor, and the interesting experiments that can be done by combining the two. The Josephson junction has revolutionized the field of superconducting circuits as a non-linear dissipation-less circuit element and is used in almost all superconducting qubit implementations since the 90s. On the other hand, the superinductor is a relatively new circuit element introduced as a key component of the fluxonium qubit in 2009. This is an inductor with characteristic impedance larger than the resistance quantum and self-resonance frequency in the GHz regime. The combination of these two elements can occur in two fundamental ways: in parallel and in series. When connected in parallel the two create the fluxonium qubit, a loop with large inductance and a rich energy spectrum reliant on quantum tunneling. On the other hand placing the two elements in series aids with the measurement of the IV curve of a single Josephson junction in a high impedance environment. In this limit theory predicts that the junction will behave as its dual element: the phase-slip junction. While the Josephson junction acts as a non-linear inductor the phase-slip junction has the behavior of a non-linear capacitance and can be used to measure new Josephson junction phenomena, namely Coulomb blockade of Cooper pairs and phase-locked Bloch oscillations. The latter experiment allows for a direct link between frequency and current which is an elusive connection in quantum metrology. This work introduces the geometric superinductor, a superconducting circuit element where the high inductance is due to the geometry rather than the material properties of the superconductor, realized from a highly miniaturized superconducting planar coil. These structures will be described and characterized as resonators and qubit inductors and progress towards the measurement of phase-locked Bloch oscillations will be presented.","lang":"eng"}],"file":[{"file_size":151387283,"content_type":"application/x-zip-compressed","checksum":"3cd1986efde5121d7581f6fcf9090da8","creator":"mperuzzo","access_level":"closed","relation":"source_file","date_created":"2021-08-16T09:33:21Z","file_id":"9924","file_name":"GeometricSuperinductorsForCQED.zip","date_updated":"2021-09-06T08:39:47Z"},{"file_id":"9939","date_created":"2021-08-18T14:20:06Z","relation":"main_file","file_name":"GeometricSuperinductorsAndTheirApplicationsIncQED-1b.pdf","date_updated":"2021-09-06T08:39:47Z","file_size":17596344,"content_type":"application/pdf","checksum":"50928c621cdf0775d7a5906b9dc8602c","access_level":"open_access","creator":"mperuzzo"},{"date_updated":"2021-09-06T08:39:47Z","description":"Extra copy of the thesis as PDF/A-2b","file_name":"GeometricSuperinductorsAndTheirApplicationsIncQED-2b.pdf","file_id":"9940","relation":"other","date_created":"2021-08-18T14:20:09Z","access_level":"closed","creator":"mperuzzo","checksum":"37f486aa1b622fe44af00d627ec13f6c","content_type":"application/pdf","file_size":17592425}],"publication_status":"published","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"9928"},{"relation":"part_of_dissertation","status":"public","id":"8755"}]},"oa":1,"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-013-8"]},"day":"19","supervisor":[{"first_name":"Johannes M","last_name":"Fink","full_name":"Fink, Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X"}],"author":[{"last_name":"Peruzzo","first_name":"Matilda","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","full_name":"Peruzzo, Matilda","orcid":"0000-0002-3415-4628"}],"date_updated":"2024-09-10T12:23:56Z","citation":{"short":"M. Peruzzo, Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics, Institute of Science and Technology Austria, 2021.","mla":"Peruzzo, Matilda. <i>Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics</i>. Institute of Science and Technology Austria, 2021, doi:<a href=\"https://doi.org/10.15479/at:ista:9920\">10.15479/at:ista:9920</a>.","ieee":"M. Peruzzo, “Geometric superinductors and their applications in circuit quantum electrodynamics,” Institute of Science and Technology Austria, 2021.","apa":"Peruzzo, M. (2021). <i>Geometric superinductors and their applications in circuit quantum electrodynamics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:9920\">https://doi.org/10.15479/at:ista:9920</a>","ama":"Peruzzo M. Geometric superinductors and their applications in circuit quantum electrodynamics. 2021. doi:<a href=\"https://doi.org/10.15479/at:ista:9920\">10.15479/at:ista:9920</a>","chicago":"Peruzzo, Matilda. “Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics.” Institute of Science and Technology Austria, 2021. <a href=\"https://doi.org/10.15479/at:ista:9920\">https://doi.org/10.15479/at:ista:9920</a>.","ista":"Peruzzo M. 2021. Geometric superinductors and their applications in circuit quantum electrodynamics. Institute of Science and Technology Austria."},"has_accepted_license":"1","title":"Geometric superinductors and their applications in circuit quantum electrodynamics","page":"149","degree_awarded":"PhD","month":"08","department":[{"_id":"GradSch"},{"_id":"JoFi"}],"publisher":"Institute of Science and Technology Austria","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file_date_updated":"2021-09-06T08:39:47Z","type":"dissertation","alternative_title":["ISTA Thesis"],"ddc":["539"],"status":"public","language":[{"iso":"eng"}],"date_published":"2021-08-19T00:00:00Z","doi":"10.15479/at:ista:9920"},{"year":"2021","_id":"9928","date_created":"2021-08-17T08:14:18Z","ec_funded":1,"acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"oa_version":"Published Version","keyword":["quantum physics","mesoscale and nanoscale physics"],"article_processing_charge":"No","quality_controlled":"1","file":[{"date_updated":"2022-01-18T11:29:33Z","file_id":"10641","success":1,"relation":"main_file","date_created":"2022-01-18T11:29:33Z","file_name":"2021_PRXQuantum_Peruzzo.pdf","access_level":"open_access","creator":"cchlebak","content_type":"application/pdf","file_size":4247422,"checksum":"36eb41ea43d8ca22b0efab12419e4eb2"}],"abstract":[{"text":"There are two elementary superconducting qubit types that derive directly from the quantum harmonic oscillator. In one, the inductor is replaced by a nonlinear Josephson junction to realize the widely used charge qubits with a compact phase variable and a discrete charge wave function. In the other, the junction is added in parallel, which gives rise to an extended phase variable, continuous wave functions, and a rich energy-level structure due to the loop topology. While the corresponding rf superconducting quantum interference device Hamiltonian was introduced as a quadratic quasi-one-dimensional potential approximation to describe the fluxonium qubit implemented with long Josephson-junction arrays, in this work we implement it directly using a linear superinductor formed by a single uninterrupted aluminum wire. We present a large variety of qubits, all stemming from the same circuit but with drastically different characteristic energy scales. This includes flux and fluxonium qubits but also the recently introduced quasicharge qubit with strongly enhanced zero-point phase fluctuations and a heavily suppressed flux dispersion. The use of a geometric inductor results in high reproducibility of the inductive energy as guaranteed by top-down lithography—a key ingredient for intrinsically protected superconducting qubits.","lang":"eng"}],"article_type":"original","publication_status":"published","related_material":{"record":[{"relation":"research_data","id":"13057","status":"public"},{"status":"public","id":"9920","relation":"dissertation_contains"}]},"publication":"PRX Quantum","publication_identifier":{"eissn":["2691-3399"]},"oa":1,"day":"24","author":[{"last_name":"Peruzzo","first_name":"Matilda","full_name":"Peruzzo, Matilda","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3415-4628"},{"orcid":"0000-0001-6937-5773","full_name":"Hassani, Farid","id":"2AED110C-F248-11E8-B48F-1D18A9856A87","last_name":"Hassani","first_name":"Farid"},{"last_name":"Szep","first_name":"Gregory","full_name":"Szep, Gregory"},{"last_name":"Trioni","first_name":"Andrea","id":"42F71B44-F248-11E8-B48F-1D18A9856A87","full_name":"Trioni, Andrea"},{"id":"2C21D6E8-F248-11E8-B48F-1D18A9856A87","full_name":"Redchenko, Elena","first_name":"Elena","last_name":"Redchenko"},{"last_name":"Zemlicka","first_name":"Martin","id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87","full_name":"Zemlicka, Martin"},{"orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M","first_name":"Johannes M","last_name":"Fink"}],"citation":{"short":"M. Peruzzo, F. Hassani, G. Szep, A. Trioni, E. Redchenko, M. Zemlicka, J.M. Fink, PRX Quantum 2 (2021) 040341.","mla":"Peruzzo, Matilda, et al. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” <i>PRX Quantum</i>, vol. 2, no. 4, American Physical Society, 2021, p. 040341, doi:<a href=\"https://doi.org/10.1103/PRXQuantum.2.040341\">10.1103/PRXQuantum.2.040341</a>.","ieee":"M. Peruzzo <i>et al.</i>, “Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction,” <i>PRX Quantum</i>, vol. 2, no. 4. American Physical Society, p. 040341, 2021.","apa":"Peruzzo, M., Hassani, F., Szep, G., Trioni, A., Redchenko, E., Zemlicka, M., &#38; Fink, J. M. (2021). Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. <i>PRX Quantum</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PRXQuantum.2.040341\">https://doi.org/10.1103/PRXQuantum.2.040341</a>","ama":"Peruzzo M, Hassani F, Szep G, et al. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. <i>PRX Quantum</i>. 2021;2(4):040341. doi:<a href=\"https://doi.org/10.1103/PRXQuantum.2.040341\">10.1103/PRXQuantum.2.040341</a>","chicago":"Peruzzo, Matilda, Farid Hassani, Gregory Szep, Andrea Trioni, Elena Redchenko, Martin Zemlicka, and Johannes M Fink. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” <i>PRX Quantum</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PRXQuantum.2.040341\">https://doi.org/10.1103/PRXQuantum.2.040341</a>.","ista":"Peruzzo M, Hassani F, Szep G, Trioni A, Redchenko E, Zemlicka M, Fink JM. 2021. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. 2(4), 040341."},"date_updated":"2023-09-07T13:31:22Z","issue":"4","has_accepted_license":"1","project":[{"_id":"26927A52-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"F07105","name":"Integrating superconducting quantum circuits"},{"call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program"},{"_id":"2622978C-B435-11E9-9278-68D0E5697425","name":"Hybrid Semiconductor - Superconductor Quantum Devices"}],"external_id":{"isi":["000723015100001"],"arxiv":["2106.05882"]},"title":"Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction","scopus_import":"1","acknowledgement":"We thank W. Hughes for analytic and numerical modeling during the early stages of this work, J. Koch for discussions and support with the scqubits package, R. Sett, P. Zielinski, and L. Drmic for software development, and G. Katsaros for equipment support, as well as the MIBA workshop and the Institute of Science and Technology Austria nanofabrication facility. We thank I. Pop, S. Deleglise, and E. Flurin for discussions. This work was supported by a NOMIS Foundation research grant, the Austrian Science Fund (FWF) through BeyondC (F7105), and IST Austria. M.P. is the recipient of a Pöttinger scholarship at IST Austria. E.R. is the recipient of a DOC fellowship of the Austrian Academy of Sciences at IST Austria.","page":"040341","arxiv":1,"isi":1,"publisher":"American Physical Society","department":[{"_id":"JoFi"},{"_id":"NanoFab"},{"_id":"M-Shop"}],"month":"11","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2022-01-18T11:29:33Z","volume":2,"type":"journal_article","ddc":["530"],"intvolume":"         2","language":[{"iso":"eng"}],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.1103/PRXQuantum.2.040341","date_published":"2021-11-24T00:00:00Z"},{"date_created":"2021-08-17T18:11:16Z","ec_funded":1,"year":"2021","_id":"9933","publication_status":"published","abstract":[{"lang":"eng","text":"In this paper, we study the power and limitations of component-stable algorithms in the low-space model of Massively Parallel Computation (MPC). Recently Ghaffari, Kuhn and Uitto (FOCS 2019) introduced the class of component-stable low-space MPC algorithms, which are, informally, defined as algorithms for which the outputs reported by the nodes in different connected components are required to be independent. This very natural notion was introduced to capture most (if not all) of the known efficient MPC algorithms to date, and it was the first general class of MPC algorithms for which one can show non-trivial conditional lower bounds. In this paper we enhance the framework of component-stable algorithms and investigate its effect on the complexity of randomized and deterministic low-space MPC. Our key contributions include: 1) We revise and formalize the lifting approach of Ghaffari, Kuhn and Uitto. This requires a very delicate amendment of the notion of component stability, which allows us to fill in gaps in the earlier arguments. 2) We also extend the framework to obtain conditional lower bounds for deterministic algorithms and fine-grained lower bounds that depend on the maximum degree Δ. 3) We demonstrate a collection of natural graph problems for which non-component-stable algorithms break the conditional lower bound obtained for component-stable algorithms. This implies that, for both deterministic and randomized algorithms, component-stable algorithms are conditionally weaker than the non-component-stable ones.\r\n\r\nAltogether our results imply that component-stability might limit the computational power of the low-space MPC model, paving the way for improved upper bounds that escape the conditional lower bound setting of Ghaffari, Kuhn, and Uitto."}],"quality_controlled":"1","oa_version":"Submitted Version","article_processing_charge":"No","citation":{"short":"A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 481–491.","ista":"Czumaj A, Davies P, Parter M. 2021. Component stability in low-space massively parallel computation. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Principles of Distributed Computing, 481–491.","chicago":"Czumaj, Artur, Peter Davies, and Merav Parter. “Component Stability in Low-Space Massively Parallel Computation.” In <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, 481–491. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3465084.3467903\">https://doi.org/10.1145/3465084.3467903</a>.","apa":"Czumaj, A., Davies, P., &#38; Parter, M. (2021). Component stability in low-space massively parallel computation. In <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i> (pp. 481–491). Virtual, Italy: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3465084.3467903\">https://doi.org/10.1145/3465084.3467903</a>","ieee":"A. Czumaj, P. Davies, and M. Parter, “Component stability in low-space massively parallel computation,” in <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, Virtual, Italy, 2021, pp. 481–491.","ama":"Czumaj A, Davies P, Parter M. Component stability in low-space massively parallel computation. In: <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>. Association for Computing Machinery; 2021:481–491. doi:<a href=\"https://doi.org/10.1145/3465084.3467903\">10.1145/3465084.3467903</a>","mla":"Czumaj, Artur, et al. “Component Stability in Low-Space Massively Parallel Computation.” <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, Association for Computing Machinery, 2021, pp. 481–491, doi:<a href=\"https://doi.org/10.1145/3465084.3467903\">10.1145/3465084.3467903</a>."},"author":[{"first_name":"Artur","last_name":"Czumaj","full_name":"Czumaj, Artur"},{"last_name":"Davies","first_name":"Peter","orcid":"0000-0002-5646-9524","full_name":"Davies, Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425"},{"full_name":"Parter, Merav","first_name":"Merav","last_name":"Parter"}],"date_updated":"2023-08-17T07:11:32Z","day":"21","publication_identifier":{"isbn":["9781450385480"]},"publication":"Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing","oa":1,"project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"title":"Component stability in low-space massively parallel computation","external_id":{"arxiv":["2106.01880"],"isi":["000744439800049"]},"arxiv":1,"page":"481–491","conference":{"end_date":"2021-07-30","location":"Virtual, Italy","start_date":"2021-07-26","name":"PODC: Principles of Distributed Computing"},"acknowledgement":"This work is partially supported by a Weizmann-UK Making Connections Grant, the Centre for Discrete Mathematics and its Applications (DIMAP), IBM Faculty Award, EPSRC award EP/V01305X/1, European Research Council (ERC) Grant No. 949083, the Minerva foundation with funding from the Federal German Ministry for Education and Research No. 713238, and the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No 754411.","department":[{"_id":"DaAl"}],"publisher":"Association for Computing Machinery","month":"07","isi":1,"main_file_link":[{"url":"https://arxiv.org/abs/2106.01880","open_access":"1"}],"type":"conference","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","doi":"10.1145/3465084.3467903","date_published":"2021-07-21T00:00:00Z","language":[{"iso":"eng"}],"status":"public"},{"isi":1,"main_file_link":[{"url":"http://wrap.warwick.ac.uk/153753","open_access":"1"}],"month":"07","department":[{"_id":"DaAl"}],"publisher":"Association for Computing Machinery","acknowledgement":"This work is partially supported by a Weizmann-UK Making Connections Grant, the Centre for Discrete Mathematics and its Applications (DIMAP), IBM Faculty Award, EPSRC award EP/V01305X/1, European Research Council (ERC) Grant No. 949083, the Minerva foundation with funding from the Federal German Ministry for Education and Research No. 713238, and the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No 754411.","conference":{"start_date":"2021-07-26","name":"PODC: Symposium on Principles of Distributed Computing","location":"Virtual, Italy","end_date":"2021-07-30"},"page":"469–479","status":"public","language":[{"iso":"eng"}],"date_published":"2021-07-21T00:00:00Z","doi":"10.1145/3465084.3467937","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"conference","article_processing_charge":"No","oa_version":"Submitted Version","quality_controlled":"1","abstract":[{"lang":"eng","text":"We present a deterministic O(log log log n)-round low-space Massively Parallel Computation (MPC) algorithm for the classical problem of (Δ+1)-coloring on n-vertex graphs. In this model, every machine has sublinear local space of size n^φ for any arbitrary constant φ \\in (0,1). Our algorithm works under the relaxed setting where each machine is allowed to perform exponential local computations, while respecting the n^φ space and bandwidth limitations.\r\n\r\nOur key technical contribution is a novel derandomization of the ingenious (Δ+1)-coloring local algorithm by Chang-Li-Pettie (STOC 2018, SIAM J. Comput. 2020). The Chang-Li-Pettie algorithm runs in T_local =poly(loglog n) rounds, which sets the state-of-the-art randomized round complexity for the problem in the local model. Our derandomization employs a combination of tools, notably pseudorandom generators (PRG) and bounded-independence hash functions.\r\n\r\nThe achieved round complexity of O(logloglog n) rounds matches the bound of log(T_local ), which currently serves an upper bound barrier for all known randomized algorithms for locally-checkable problems in this model. Furthermore, no deterministic sublogarithmic low-space MPC algorithms for the (Δ+1)-coloring problem have been known before."}],"publication_status":"published","_id":"9935","year":"2021","ec_funded":1,"date_created":"2021-08-17T18:14:15Z","external_id":{"isi":["000744439800048"]},"title":"Improved deterministic (Δ+1) coloring in low-space MPC","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"oa":1,"publication_identifier":{"isbn":["978-1-4503-8548-0"]},"publication":"Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing","day":"21","citation":{"ista":"Czumaj A, Davies P, Parter M. 2021. Improved deterministic (Δ+1) coloring in low-space MPC. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Symposium on Principles of Distributed Computing, 469–479.","chicago":"Czumaj, Artur, Peter Davies, and Merav Parter. “Improved Deterministic (Δ+1) Coloring in Low-Space MPC.” In <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, 469–479. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3465084.3467937\">https://doi.org/10.1145/3465084.3467937</a>.","ama":"Czumaj A, Davies P, Parter M. Improved deterministic (Δ+1) coloring in low-space MPC. In: <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>. Association for Computing Machinery; 2021:469–479. doi:<a href=\"https://doi.org/10.1145/3465084.3467937\">10.1145/3465084.3467937</a>","apa":"Czumaj, A., Davies, P., &#38; Parter, M. (2021). Improved deterministic (Δ+1) coloring in low-space MPC. In <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i> (pp. 469–479). Virtual, Italy: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3465084.3467937\">https://doi.org/10.1145/3465084.3467937</a>","ieee":"A. Czumaj, P. Davies, and M. Parter, “Improved deterministic (Δ+1) coloring in low-space MPC,” in <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, Virtual, Italy, 2021, pp. 469–479.","mla":"Czumaj, Artur, et al. “Improved Deterministic (Δ+1) Coloring in Low-Space MPC.” <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, Association for Computing Machinery, 2021, pp. 469–479, doi:<a href=\"https://doi.org/10.1145/3465084.3467937\">10.1145/3465084.3467937</a>.","short":"A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 469–479."},"author":[{"full_name":"Czumaj, Artur","first_name":"Artur","last_name":"Czumaj"},{"last_name":"Davies","first_name":"Peter","orcid":"0000-0002-5646-9524","full_name":"Davies, Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425"},{"first_name":"Merav","last_name":"Parter","full_name":"Parter, Merav"}],"date_updated":"2023-08-17T07:11:03Z"},{"oa":1,"publication_identifier":{"issn":["2664-1690"]},"day":"01","citation":{"ista":"Mühlböck F, Henzinger TA. 2021. Differential monitoring, IST Austria, 17p.","chicago":"Mühlböck, Fabian, and Thomas A Henzinger. <i>Differential Monitoring</i>. IST Austria, 2021. <a href=\"https://doi.org/10.15479/AT:ISTA:9946\">https://doi.org/10.15479/AT:ISTA:9946</a>.","ama":"Mühlböck F, Henzinger TA. <i>Differential Monitoring</i>. IST Austria; 2021. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:9946\">10.15479/AT:ISTA:9946</a>","ieee":"F. Mühlböck and T. A. Henzinger, <i>Differential monitoring</i>. IST Austria, 2021.","apa":"Mühlböck, F., &#38; Henzinger, T. A. (2021). <i>Differential monitoring</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:9946\">https://doi.org/10.15479/AT:ISTA:9946</a>","mla":"Mühlböck, Fabian, and Thomas A. Henzinger. <i>Differential Monitoring</i>. IST Austria, 2021, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:9946\">10.15479/AT:ISTA:9946</a>.","short":"F. Mühlböck, T.A. Henzinger, Differential Monitoring, IST Austria, 2021."},"author":[{"orcid":"0000-0003-1548-0177","id":"6395C5F6-89DF-11E9-9C97-6BDFE5697425","full_name":"Mühlböck, Fabian","last_name":"Mühlböck","first_name":"Fabian"},{"last_name":"Henzinger","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A","orcid":"0000-0002-2985-7724"}],"date_updated":"2023-08-14T07:20:29Z","has_accepted_license":"1","title":"Differential monitoring","project":[{"name":"The Wittgenstein Prize","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"_id":"9946","year":"2021","date_created":"2021-08-20T20:00:37Z","keyword":["run-time verification","software engineering","implicit specification"],"article_processing_charge":"No","oa_version":"Published Version","abstract":[{"text":"We argue that the time is ripe to investigate differential monitoring, in which the specification of a program's behavior is implicitly given by a second program implementing the same informal specification. Similar ideas have been proposed before, and are currently implemented in restricted form for testing and specialized run-time analyses, aspects of which we combine. We discuss the challenges of implementing differential monitoring as a general-purpose, black-box run-time monitoring framework, and present promising results of a preliminary implementation, showing low monitoring overheads for diverse programs.","lang":"eng"}],"file":[{"file_id":"9948","relation":"main_file","date_created":"2021-08-20T19:59:44Z","file_name":"differentialmonitoring-techreport.pdf","date_updated":"2021-09-03T12:34:28Z","file_size":"320453","content_type":"application/pdf","checksum":"0f9aafd59444cb6bdca6925d163ab946","access_level":"open_access","creator":"fmuehlbo"}],"related_material":{"record":[{"id":"9281","status":"public","relation":"other"},{"id":"10108","status":"public","relation":"shorter_version"}]},"publication_status":"published","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file_date_updated":"2021-09-03T12:34:28Z","type":"technical_report","ddc":["005"],"alternative_title":["IST Austria Technical Report"],"status":"public","language":[{"iso":"eng"}],"date_published":"2021-09-01T00:00:00Z","doi":"10.15479/AT:ISTA:9946","acknowledgement":"The authors would like to thank Borzoo Bonakdarpour, Derek Dreyer, Adrian Francalanza, Owolabi Legunsen, Matthew Milano, Manuel Rigger, Cesar Sanchez, and the members of the IST Verification Seminar for their helpful comments and insights on various stages of this work, as well as the reviewers of RV’21 for their helpful suggestions on the actual paper.","page":"17","month":"09","publisher":"IST Austria","department":[{"_id":"ToHe"}]},{"month":"08","related_material":{"record":[{"relation":"used_in_publication","id":"10166","status":"public"}]},"department":[{"_id":"BeVi"}],"publisher":"Institute of Science and Technology Austria","file":[{"date_updated":"2021-08-21T13:43:59Z","file_name":"Data.zip","relation":"main_file","date_created":"2021-08-21T13:43:59Z","success":1,"file_id":"9950","creator":"bvicoso","access_level":"open_access","checksum":"90461837eed66beac6fa302993cf0ca9","file_size":139188306,"content_type":"application/zip"}],"article_processing_charge":"No","oa_version":"None","date_created":"2021-08-21T13:44:22Z","_id":"9949","year":"2021","date_published":"2021-08-24T00:00:00Z","doi":"10.15479/AT:ISTA:9949","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"title":"Data from Hyulmans et al 2021, \"Transitions to asexuality and evolution of gene expression in Artemia brine shrimp\"","status":"public","has_accepted_license":"1","author":[{"orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","last_name":"Vicoso"}],"citation":{"ista":"Vicoso B. 2021. Data from Hyulmans et al 2021, ‘Transitions to asexuality and evolution of gene expression in Artemia brine shrimp’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:9949\">10.15479/AT:ISTA:9949</a>.","chicago":"Vicoso, Beatriz. “Data from Hyulmans et Al 2021, ‘Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.’” Institute of Science and Technology Austria, 2021. <a href=\"https://doi.org/10.15479/AT:ISTA:9949\">https://doi.org/10.15479/AT:ISTA:9949</a>.","apa":"Vicoso, B. (2021). Data from Hyulmans et al 2021, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:9949\">https://doi.org/10.15479/AT:ISTA:9949</a>","ieee":"B. Vicoso, “Data from Hyulmans et al 2021, ‘Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.’” Institute of Science and Technology Austria, 2021.","ama":"Vicoso B. Data from Hyulmans et al 2021, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.” 2021. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:9949\">10.15479/AT:ISTA:9949</a>","mla":"Vicoso, Beatriz. <i>Data from Hyulmans et Al 2021, “Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.”</i> Institute of Science and Technology Austria, 2021, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:9949\">10.15479/AT:ISTA:9949</a>.","short":"B. Vicoso, (2021)."},"type":"research_data","date_updated":"2024-02-21T12:40:30Z","file_date_updated":"2021-08-21T13:43:59Z","day":"24","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"doi":"10.1145/3465084.3467915","date_published":"2021-07-21T00:00:00Z","language":[{"iso":"eng"}],"title":"Comparison dynamics in population protocols","external_id":{"isi":["000744439800005"]},"status":"public","day":"21","publication":"Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"isbn":["9781450385480"]},"date_updated":"2023-08-11T10:56:04Z","type":"conference","citation":{"short":"D.-A. Alistarh, M. Töpfer, P. Uznański, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 55–65.","ama":"Alistarh D-A, Töpfer M, Uznański P. Comparison dynamics in population protocols. In: <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>. Association for Computing Machinery; 2021:55-65. doi:<a href=\"https://doi.org/10.1145/3465084.3467915\">10.1145/3465084.3467915</a>","apa":"Alistarh, D.-A., Töpfer, M., &#38; Uznański, P. (2021). Comparison dynamics in population protocols. In <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i> (pp. 55–65). Virtual, Italy: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3465084.3467915\">https://doi.org/10.1145/3465084.3467915</a>","ieee":"D.-A. Alistarh, M. Töpfer, and P. Uznański, “Comparison dynamics in population protocols,” in <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, Virtual, Italy, 2021, pp. 55–65.","mla":"Alistarh, Dan-Adrian, et al. “Comparison Dynamics in Population Protocols.” <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, Association for Computing Machinery, 2021, pp. 55–65, doi:<a href=\"https://doi.org/10.1145/3465084.3467915\">10.1145/3465084.3467915</a>.","ista":"Alistarh D-A, Töpfer M, Uznański P. 2021. Comparison dynamics in population protocols. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Symposium on Principles of Distributed Computing, 55–65.","chicago":"Alistarh, Dan-Adrian, Martin Töpfer, and Przemysław Uznański. “Comparison Dynamics in Population Protocols.” In <i>Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing</i>, 55–65. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3465084.3467915\">https://doi.org/10.1145/3465084.3467915</a>."},"author":[{"last_name":"Alistarh","first_name":"Dan-Adrian","full_name":"Alistarh, Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X"},{"full_name":"Töpfer, Martin","id":"4B865388-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","last_name":"Töpfer"},{"first_name":"Przemysław","last_name":"Uznański","full_name":"Uznański, Przemysław"}],"quality_controlled":"1","isi":1,"oa_version":"None","article_processing_charge":"No","publication_status":"published","publisher":"Association for Computing Machinery","department":[{"_id":"DaAl"}],"month":"07","abstract":[{"lang":"eng","text":"There has recently been a surge of interest in the computational and complexity properties of the population model, which assumes n anonymous, computationally-bounded nodes, interacting at random, with the goal of jointly computing global predicates. Significant work has gone towards investigating majority or consensus dynamics in this model: that is, assuming that every node is initially in one of two states X or Y, determine which state had higher initial count.\r\n\r\nIn this paper, we consider a natural generalization of majority/consensus, which we call comparison : in its simplest formulation, we are given two baseline states, X and Y, present in any initial configuration in fixed, but possibly small counts. One of these states has higher count than the other: we will assume |X_0| > C |Y_0| for some constant C > 1. The challenge is to design a protocol by which nodes can quickly and reliably decide on which of the baseline states X_0 and Y_0 has higher initial count. We begin by analyzing a simple and general dynamics solving the above comparison problem, which uses O( log n ) states per node, and converges in O(log n) (parallel) time, with high probability, to a state where the whole population votes on opinions X or Y at rates proportional to the initial concentrations of |X_0| vs. |Y_0|. We then describe how this procedure can be bootstrapped to solve comparison, i.e. have every node in the population reach the \"correct'' decision, with probability 1 - o(1), at the cost of O (log log n) additional states. Further, we prove that this dynamics is self-stabilizing, in the sense that it converges to the correct decision from arbitrary initial states, and leak-robust, in the sense that it can withstand spurious faulty reactions, which are known to occur in practical implementations of population protocols. Our analysis is based on a new martingale concentration result relating the discrete-time evolution of a population protocol to its expected (steady-state) analysis, which should be a useful tool when analyzing opinion dynamics and epidemic dissemination in the population model."}],"date_created":"2021-08-22T22:01:20Z","acknowledgement":"We would like to thank Rati Gelashvili for very useful discussions, and the PODC anonymous reviewers for their careful reading of our paper, and for their useful remarks. This work is partially supported by the Polish National Science Center (NCN) grant UMO2017/25/B/ST6/02010.","scopus_import":"1","year":"2021","_id":"9951","conference":{"location":"Virtual, Italy","start_date":"2021-07-26","name":"PODC: Symposium on Principles of Distributed Computing","end_date":"2021-07-30"},"page":"55-65"},{"publisher":"The Company of Biologists","department":[{"_id":"EdHa"}],"month":"07","isi":1,"scopus_import":"1","acknowledgement":"We would like to thank the entire Paluch and Baum laboratories at the MRC-LMCB and the Chalut lab at the Cambridge SCI for discussions and feedback throughout the project, and the MRC-LMCB microscopy platform, in particular Andrew Vaughan, for technical support.","language":[{"iso":"eng"}],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.1242/jcs.255018","date_published":"2021-07-01T00:00:00Z","intvolume":"       134","ddc":["570"],"volume":134,"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2021-08-23T07:32:20Z","file":[{"date_updated":"2021-08-23T07:32:20Z","file_id":"9954","relation":"main_file","success":1,"date_created":"2021-08-23T07:32:20Z","file_name":"2021_JournalOfCellScience_Chaigne.pdf","access_level":"open_access","creator":"asandaue","file_size":8651724,"content_type":"application/pdf","checksum":"f086f9d7cb63b2474c01921cb060c513"}],"abstract":[{"lang":"eng","text":"Proper control of division orientation and symmetry, largely determined by spindle positioning, is essential to development and homeostasis. Spindle positioning has been extensively studied in cells dividing in two-dimensional (2D) environments and in epithelial tissues, where proteins such as NuMA (also known as NUMA1) orient division along the interphase long axis of the cell. However, little is known about how cells control spindle positioning in three-dimensional (3D) environments, such as early mammalian embryos and a variety of adult tissues. Here, we use mouse embryonic stem cells (ESCs), which grow in 3D colonies, as a model to investigate division in 3D. We observe that, at the periphery of 3D colonies, ESCs display high spindle mobility and divide asymmetrically. Our data suggest that enhanced spindle movements are due to unequal distribution of the cell–cell junction protein E-cadherin between future daughter cells. Interestingly, when cells progress towards differentiation, division becomes more symmetric, with more elongated shapes in metaphase and enhanced cortical NuMA recruitment in anaphase. Altogether, this study suggests that in 3D contexts, the geometry of the cell and its contacts with neighbors control division orientation and symmetry."}],"publication_status":"published","article_type":"original","oa_version":"Published Version","article_processing_charge":"Yes (in subscription journal)","quality_controlled":"1","year":"2021","_id":"9952","date_created":"2021-08-22T22:01:20Z","title":"Three-dimensional geometry controls division symmetry in stem cell colonies","external_id":{"isi":["000681395800008"]},"article_number":"jcs255018","issue":"14","has_accepted_license":"1","date_updated":"2023-08-11T10:55:36Z","citation":{"short":"A. Chaigne, M.B. Smith, R.L. Cavestany, E.B. Hannezo, K.J. Chalut, E.K. Paluch, Journal of Cell Science 134 (2021).","ista":"Chaigne A, Smith MB, Cavestany RL, Hannezo EB, Chalut KJ, Paluch EK. 2021. Three-dimensional geometry controls division symmetry in stem cell colonies. Journal of Cell Science. 134(14), jcs255018.","chicago":"Chaigne, Agathe, Matthew B. Smith, R. L. Cavestany, Edouard B Hannezo, Kevin J. Chalut, and Ewa K. Paluch. “Three-Dimensional Geometry Controls Division Symmetry in Stem Cell Colonies.” <i>Journal of Cell Science</i>. The Company of Biologists, 2021. <a href=\"https://doi.org/10.1242/jcs.255018\">https://doi.org/10.1242/jcs.255018</a>.","apa":"Chaigne, A., Smith, M. B., Cavestany, R. L., Hannezo, E. B., Chalut, K. J., &#38; Paluch, E. K. (2021). Three-dimensional geometry controls division symmetry in stem cell colonies. <i>Journal of Cell Science</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.255018\">https://doi.org/10.1242/jcs.255018</a>","ieee":"A. Chaigne, M. B. Smith, R. L. Cavestany, E. B. Hannezo, K. J. Chalut, and E. K. Paluch, “Three-dimensional geometry controls division symmetry in stem cell colonies,” <i>Journal of Cell Science</i>, vol. 134, no. 14. The Company of Biologists, 2021.","ama":"Chaigne A, Smith MB, Cavestany RL, Hannezo EB, Chalut KJ, Paluch EK. Three-dimensional geometry controls division symmetry in stem cell colonies. <i>Journal of Cell Science</i>. 2021;134(14). doi:<a href=\"https://doi.org/10.1242/jcs.255018\">10.1242/jcs.255018</a>","mla":"Chaigne, Agathe, et al. “Three-Dimensional Geometry Controls Division Symmetry in Stem Cell Colonies.” <i>Journal of Cell Science</i>, vol. 134, no. 14, jcs255018, The Company of Biologists, 2021, doi:<a href=\"https://doi.org/10.1242/jcs.255018\">10.1242/jcs.255018</a>."},"author":[{"last_name":"Chaigne","first_name":"Agathe","full_name":"Chaigne, Agathe"},{"full_name":"Smith, Matthew B.","first_name":"Matthew B.","last_name":"Smith"},{"full_name":"Cavestany, R. L.","first_name":"R. L.","last_name":"Cavestany"},{"first_name":"Edouard B","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561"},{"first_name":"Kevin J.","last_name":"Chalut","full_name":"Chalut, Kevin J."},{"first_name":"Ewa K.","last_name":"Paluch","full_name":"Paluch, Ewa K."}],"publication_identifier":{"eissn":["14779137"],"issn":["00219533"]},"publication":"Journal of Cell Science","oa":1,"day":"01"},{"citation":{"short":"K. Picard, K. Bisht, S. Poggini, S. Garofalo, M.T. Golia, B. Basilico, F. Abdallah, N. Ciano Albanese, I. Amrein, N. Vernoux, K. Sharma, C.W. Hui, J. C. Savage, C. Limatola, D. Ragozzino, L. Maggi, I. Branchi, M.È. Tremblay, Brain, Behavior, and Immunity 97 (2021) 423–439.","mla":"Picard, Katherine, et al. “Microglial-Glucocorticoid Receptor Depletion Alters the Response of Hippocampal Microglia and Neurons in a Chronic Unpredictable Mild Stress Paradigm in Female Mice.” <i>Brain, Behavior, and Immunity</i>, vol. 97, Elsevier, 2021, pp. 423–39, doi:<a href=\"https://doi.org/10.1016/j.bbi.2021.07.022\">10.1016/j.bbi.2021.07.022</a>.","ieee":"K. Picard <i>et al.</i>, “Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice,” <i>Brain, Behavior, and Immunity</i>, vol. 97. Elsevier, pp. 423–439, 2021.","ama":"Picard K, Bisht K, Poggini S, et al. Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. <i>Brain, Behavior, and Immunity</i>. 2021;97:423-439. doi:<a href=\"https://doi.org/10.1016/j.bbi.2021.07.022\">10.1016/j.bbi.2021.07.022</a>","apa":"Picard, K., Bisht, K., Poggini, S., Garofalo, S., Golia, M. T., Basilico, B., … Tremblay, M. È. (2021). Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. <i>Brain, Behavior, and Immunity</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.bbi.2021.07.022\">https://doi.org/10.1016/j.bbi.2021.07.022</a>","chicago":"Picard, Katherine, Kanchan Bisht, Silvia Poggini, Stefano Garofalo, Maria Teresa Golia, Bernadette Basilico, Fatima Abdallah, et al. “Microglial-Glucocorticoid Receptor Depletion Alters the Response of Hippocampal Microglia and Neurons in a Chronic Unpredictable Mild Stress Paradigm in Female Mice.” <i>Brain, Behavior, and Immunity</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.bbi.2021.07.022\">https://doi.org/10.1016/j.bbi.2021.07.022</a>.","ista":"Picard K, Bisht K, Poggini S, Garofalo S, Golia MT, Basilico B, Abdallah F, Ciano Albanese N, Amrein I, Vernoux N, Sharma K, Hui CW, C. Savage J, Limatola C, Ragozzino D, Maggi L, Branchi I, Tremblay MÈ. 2021. Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. 97, 423–439."},"author":[{"last_name":"Picard","first_name":"Katherine","full_name":"Picard, Katherine"},{"last_name":"Bisht","first_name":"Kanchan","full_name":"Bisht, Kanchan"},{"first_name":"Silvia","last_name":"Poggini","full_name":"Poggini, Silvia"},{"full_name":"Garofalo, Stefano","first_name":"Stefano","last_name":"Garofalo"},{"full_name":"Golia, Maria Teresa","first_name":"Maria Teresa","last_name":"Golia"},{"orcid":"0000-0003-1843-3173","full_name":"Basilico, Bernadette","id":"36035796-5ACA-11E9-A75E-7AF2E5697425","last_name":"Basilico","first_name":"Bernadette"},{"full_name":"Abdallah, Fatima","first_name":"Fatima","last_name":"Abdallah"},{"first_name":"Naomi","last_name":"Ciano Albanese","full_name":"Ciano Albanese, Naomi"},{"full_name":"Amrein, Irmgard","last_name":"Amrein","first_name":"Irmgard"},{"full_name":"Vernoux, Nathalie","first_name":"Nathalie","last_name":"Vernoux"},{"full_name":"Sharma, Kaushik","last_name":"Sharma","first_name":"Kaushik"},{"full_name":"Hui, Chin Wai","first_name":"Chin Wai","last_name":"Hui"},{"first_name":"Julie","last_name":"C. Savage","full_name":"C. Savage, Julie"},{"full_name":"Limatola, Cristina","first_name":"Cristina","last_name":"Limatola"},{"full_name":"Ragozzino, Davide","first_name":"Davide","last_name":"Ragozzino"},{"full_name":"Maggi, Laura","first_name":"Laura","last_name":"Maggi"},{"first_name":"Igor","last_name":"Branchi","full_name":"Branchi, Igor"},{"full_name":"Tremblay, Marie Ève","last_name":"Tremblay","first_name":"Marie Ève"}],"date_updated":"2023-10-03T09:49:18Z","publication_identifier":{"issn":["0889-1591"]},"publication":"Brain, Behavior, and Immunity","oa":1,"day":"01","external_id":{"pmid":["34343616"],"isi":["000702878400007"]},"title":"Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice","year":"2021","_id":"9953","pmid":1,"date_created":"2021-08-22T22:01:21Z","abstract":[{"text":"Chronic psychological stress is one of the most important triggers and environmental risk factors for neuropsychiatric disorders. Chronic stress can influence all organs via the secretion of stress hormones, including glucocorticoids by the adrenal glands, which coordinate the stress response across the body. In the brain, glucocorticoid receptors (GR) are expressed by various cell types including microglia, which are its resident immune cells regulating stress-induced inflammatory processes. To study the roles of microglial GR under normal homeostatic conditions and following chronic stress, we generated a mouse model in which the GR gene is depleted in microglia specifically at adulthood to prevent developmental confounds. We first confirmed that microglia were depleted in GR in our model in males and females among the cingulate cortex and the hippocampus, both stress-sensitive brain regions. Then, cohorts of microglial-GR depleted and wild-type (WT) adult female mice were housed for 3 weeks in a standard or stressful condition, using a chronic unpredictable mild stress (CUMS) paradigm. CUMS induced stress-related behavior in both microglial-GR depleted and WT animals as demonstrated by a decrease of both saccharine preference and progressive ratio breakpoint. Nevertheless, the hippocampal microglial and neural mechanisms underlying the adaptation to stress occurred differently between the two genotypes. Upon CUMS exposure, microglial morphology was altered in the WT controls, without any apparent effect in microglial-GR depleted mice. Furthermore, in the standard environment condition, GR depleted-microglia showed increased expression of pro-inflammatory genes, and genes involved in microglial homeostatic functions (such as Trem2, Cx3cr1 and Mertk). On the contrary, in CUMS condition, GR depleted-microglia showed reduced expression levels of pro-inflammatory genes and increased neuroprotective as well as anti-inflammatory genes compared to WT-microglia. Moreover, in microglial-GR depleted mice, but not in WT mice, CUMS led to a significant reduction of CA1 long-term potentiation and paired-pulse ratio. Lastly, differences in adult hippocampal neurogenesis were observed between the genotypes during normal homeostatic conditions, with microglial-GR deficiency increasing the formation of newborn neurons in the dentate gyrus subgranular zone independently from stress exposure. Together, these findings indicate that, although the deletion of microglial GR did not prevent the animal’s ability to respond to stress, it contributed to modulating hippocampal functions in both standard and stressful conditions, notably by shaping the microglial response to chronic stress.","lang":"eng"}],"article_type":"original","publication_status":"published","oa_version":"Submitted Version","article_processing_charge":"No","quality_controlled":"1","volume":97,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"status":"public","doi":"10.1016/j.bbi.2021.07.022","date_published":"2021-10-01T00:00:00Z","intvolume":"        97","page":"423-439","scopus_import":"1","acknowledgement":"We acknowledge that Université Laval stands on the traditional and unceded land of the Huron-Wendat peoples; and that the University of Victoria exists on the territory of the Lekwungen peoples and that the Songhees, Esquimalt and WSÁNEÆ peoples have relationships to this land. We thank Emmanuel Planel for the access to the epifluorescence microscope and Julie-Christine Lévesque at the Bioimaging Platform of CRCHU de Québec-Université Laval for technical assistance. We also thank the Centre for Advanced Materials and Related Technology for the access to the confocal microscope with Airyscan. K.P. was supported by a doctoral scholarship from Fonds de Recherche du Québec – Santé (FRQS), an excellence award from Fondation du CHU de Québec, as well as from Centre Thématique de Recherche en Neurosciences and from Fondation Famille-Choquette. K.B. was supported by excellence scholarships from Université Laval and Fondation du CHU de Québec. S.G. is supported by FIRC-AIRC fellowship for Italy 22329/2018 and by Pilot ARISLA NKINALS 2019. C.W.H. and J.C.S. were supported by postdoctoral fellowships from FRQS. This study was funded by a Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery grant (RGPIN-2014-05308) awarded to M.E.T., by ERANET neuron 2017 MicroSynDep to M.E.T. and I.B., and by the Italian Ministry of Health, grant RF-2018-12367249 to I.B, by PRIN 2017, AIRC 2019 and Ministero della Salute RF2018 to C.L. M.E.T. is a Tier II Canada Research Chair in Neurobiology of Aging and Cognition.","publisher":"Elsevier","department":[{"_id":"GaNo"}],"month":"10","main_file_link":[{"url":"https://www.zora.uzh.ch/id/eprint/208855/1/ZORA208855.pdf","open_access":"1"}],"isi":1},{"oa":1,"publication_identifier":{"issn":["1063-6919"],"isbn":["978-166544509-2"]},"publication":"Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition","day":"01","date_updated":"2023-08-11T11:08:35Z","author":[{"full_name":"B R, Mallikarjun","first_name":"Mallikarjun","last_name":"B R"},{"full_name":"Tewari, Ayush","first_name":"Ayush","last_name":"Tewari"},{"full_name":"Oh, Tae-Hyun","last_name":"Oh","first_name":"Tae-Hyun"},{"first_name":"Tim","last_name":"Weyrich","full_name":"Weyrich, Tim"},{"last_name":"Bickel","first_name":"Bernd","full_name":"Bickel, Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385"},{"first_name":"Hans-Peter","last_name":"Seidel","full_name":"Seidel, Hans-Peter"},{"last_name":"Pfister","first_name":"Hanspeter","full_name":"Pfister, Hanspeter"},{"full_name":"Matusik, Wojciech","first_name":"Wojciech","last_name":"Matusik"},{"full_name":"Elgharib, Mohamed","last_name":"Elgharib","first_name":"Mohamed"},{"full_name":"Theobalt, Christian","last_name":"Theobalt","first_name":"Christian"}],"citation":{"ama":"B R M, Tewari A, Oh T-H, et al. Monocular reconstruction of neural face reflectance fields. In: <i>Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition</i>. IEEE; 2021:4791-4800. doi:<a href=\"https://doi.org/10.1109/CVPR46437.2021.00476\">10.1109/CVPR46437.2021.00476</a>","ieee":"M. B R <i>et al.</i>, “Monocular reconstruction of neural face reflectance fields,” in <i>Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition</i>, Nashville, TN, United States; Virtual, 2021, pp. 4791–4800.","apa":"B R, M., Tewari, A., Oh, T.-H., Weyrich, T., Bickel, B., Seidel, H.-P., … Theobalt, C. (2021). Monocular reconstruction of neural face reflectance fields. In <i>Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition</i> (pp. 4791–4800). Nashville, TN, United States; Virtual: IEEE. <a href=\"https://doi.org/10.1109/CVPR46437.2021.00476\">https://doi.org/10.1109/CVPR46437.2021.00476</a>","mla":"B R, Mallikarjun, et al. “Monocular Reconstruction of Neural Face Reflectance Fields.” <i>Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition</i>, IEEE, 2021, pp. 4791–800, doi:<a href=\"https://doi.org/10.1109/CVPR46437.2021.00476\">10.1109/CVPR46437.2021.00476</a>.","ista":"B R M, Tewari A, Oh T-H, Weyrich T, Bickel B, Seidel H-P, Pfister H, Matusik W, Elgharib M, Theobalt C. 2021. Monocular reconstruction of neural face reflectance fields. Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition. CVPR: Conference on Computer Vision and Pattern Recognition, 4791–4800.","chicago":"B R, Mallikarjun, Ayush Tewari, Tae-Hyun Oh, Tim Weyrich, Bernd Bickel, Hans-Peter Seidel, Hanspeter Pfister, Wojciech Matusik, Mohamed Elgharib, and Christian Theobalt. “Monocular Reconstruction of Neural Face Reflectance Fields.” In <i>Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition</i>, 4791–4800. IEEE, 2021. <a href=\"https://doi.org/10.1109/CVPR46437.2021.00476\">https://doi.org/10.1109/CVPR46437.2021.00476</a>.","short":"M. B R, A. Tewari, T.-H. Oh, T. Weyrich, B. Bickel, H.-P. Seidel, H. Pfister, W. Matusik, M. Elgharib, C. Theobalt, in:, Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, IEEE, 2021, pp. 4791–4800."},"has_accepted_license":"1","title":"Monocular reconstruction of neural face reflectance fields","external_id":{"isi":["000739917304096"],"arxiv":["2008.10247"]},"_id":"9957","year":"2021","date_created":"2021-08-24T06:03:00Z","article_processing_charge":"No","oa_version":"Preprint","quality_controlled":"1","abstract":[{"text":"The reflectance field of a face describes the reflectance properties responsible for complex lighting effects including diffuse, specular, inter-reflection and self shadowing. Most existing methods for estimating the face reflectance from a monocular image assume faces to be diffuse with very few approaches adding a specular component. This still leaves out important perceptual aspects of reflectance as higher-order global illumination effects and self-shadowing are not modeled. We present a new neural representation for face reflectance where we can estimate all components of the reflectance responsible for the final appearance from a single monocular image. Instead of modeling each component of the reflectance separately using parametric models, our neural representation allows us to generate a basis set of faces in a geometric deformation-invariant space, parameterized by the input light direction, viewpoint and face geometry. We learn to reconstruct this reflectance field of a face just from a monocular image, which can be used to render the face from any viewpoint in any light condition. Our method is trained on a light-stage training dataset, which captures 300 people illuminated with 150 light conditions from 8 viewpoints. We show that our method outperforms existing monocular reflectance reconstruction methods, in terms of photorealism due to better capturing of physical premitives, such as sub-surface scattering, specularities, self-shadows and other higher-order effects.","lang":"eng"}],"file":[{"access_level":"open_access","creator":"bbickel","file_size":4746649,"content_type":"application/pdf","checksum":"961db0bde76dd87cf833930080bb9f38","date_updated":"2021-08-24T06:02:15Z","file_id":"9958","date_created":"2021-08-24T06:02:15Z","relation":"main_file","file_name":"R_Monocular_Reconstruction_of_Neural_Face_Reflectance_Fields_CVPR_2021_paper[1].pdf"}],"publication_status":"published","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2021-08-24T06:02:15Z","type":"conference","ddc":["000"],"status":"public","language":[{"iso":"eng"}],"date_published":"2021-09-01T00:00:00Z","doi":"10.1109/CVPR46437.2021.00476","scopus_import":"1","acknowledgement":"We thank Tarun Yenamandra and Duarte David for helping us with the comparisons. This work was supported by the\r\nERC Consolidator Grant 4DReply (770784). We also acknowledge support from InterDigital.","page":"4791-4800","conference":{"end_date":"2021-06-25","location":"Nashville, TN, United States; Virtual","start_date":"2021-06-20","name":"CVPR: Conference on Computer Vision and Pattern Recognition"},"arxiv":1,"isi":1,"month":"09","department":[{"_id":"BeBi"}],"publisher":"IEEE"},{"intvolume":"       127","status":"public","language":[{"iso":"eng"}],"date_published":"2021-08-27T00:00:00Z","doi":"10.1103/PhysRevLett.127.090602","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","volume":127,"type":"journal_article","isi":1,"main_file_link":[{"url":"https://arxiv.org/abs/2102.13160","open_access":"1"}],"month":"08","publisher":"American Physical Society","department":[{"_id":"MaSe"}],"acknowledgement":"We thank Dmitry Abanin, Ehud Altman, Iris Cong, Sepehr Ebadi, Alex Keesling, Harry Levine, Ahmed Omran, Hannes Pichler, Rhine Samajdar, Guilia Semeghini, Tout Wang, Norman Yao, and Harry Zhou or stimulating discussions. We acknowledge support from the Center for Ultracold Atoms, the National Science Foundation, the Vannevar Bush Faculty Fellowship, the U.S. Department of Energy, the Army Research Office MURI, and the DARPA ONISQ program (M. L., N. M, W. W. H., D. B.); the European Research Council (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme Grant Agreement No. 850899 (A. M. and M. S.); the Department of Energy Computational Science Graduate Fellowship under Awards No. DESC0021110 (N. M.); the Moore Foundation EPiQS initiative Grant No. GBMF4306, the National University of Singapore (NUS) Development Grant AY2019/2020 and the Stanford Institute for Theoretical Physics (W. W. H.); the NSF Graduate Research Fellowship Program (Grant No. DGE1745303) and The Fannie and John Hertz Foundation (D. B.); the Miller Institute for Basic Research in Science (S. C.); DOE Quantum Systems Accelerator – Contract No. 7568717; and DOE Programmable Quantum Simulators for Lattice Gauge Theories and Gauge-Gravity Correspondence – Grant No. DE-SC0021013.","arxiv":1,"article_number":"090602","issue":"9","title":"Discrete time-crystalline order enabled by quantum many-body scars: Entanglement steering via periodic driving","external_id":{"isi":["000692200100002"],"arxiv":["2102.13160"]},"project":[{"name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","grant_number":"850899","call_identifier":"H2020","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E"}],"oa":1,"publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"publication":"Physical Review Letters","day":"27","date_updated":"2023-08-11T10:57:51Z","citation":{"short":"N. Maskara, A. Michailidis, W.W. Ho, D. Bluvstein, S. Choi, M.D. Lukin, M. Serbyn, Physical Review Letters 127 (2021).","ista":"Maskara N, Michailidis A, Ho WW, Bluvstein D, Choi S, Lukin MD, Serbyn M. 2021. Discrete time-crystalline order enabled by quantum many-body scars: Entanglement steering via periodic driving. Physical Review Letters. 127(9), 090602.","chicago":"Maskara, N., Alexios Michailidis, W. W. Ho, D. Bluvstein, S. Choi, M. D. Lukin, and Maksym Serbyn. “Discrete Time-Crystalline Order Enabled by Quantum Many-Body Scars: Entanglement Steering via Periodic Driving.” <i>Physical Review Letters</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PhysRevLett.127.090602\">https://doi.org/10.1103/PhysRevLett.127.090602</a>.","ama":"Maskara N, Michailidis A, Ho WW, et al. Discrete time-crystalline order enabled by quantum many-body scars: Entanglement steering via periodic driving. <i>Physical Review Letters</i>. 2021;127(9). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.127.090602\">10.1103/PhysRevLett.127.090602</a>","apa":"Maskara, N., Michailidis, A., Ho, W. W., Bluvstein, D., Choi, S., Lukin, M. D., &#38; Serbyn, M. (2021). Discrete time-crystalline order enabled by quantum many-body scars: Entanglement steering via periodic driving. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.127.090602\">https://doi.org/10.1103/PhysRevLett.127.090602</a>","ieee":"N. Maskara <i>et al.</i>, “Discrete time-crystalline order enabled by quantum many-body scars: Entanglement steering via periodic driving,” <i>Physical Review Letters</i>, vol. 127, no. 9. American Physical Society, 2021.","mla":"Maskara, N., et al. “Discrete Time-Crystalline Order Enabled by Quantum Many-Body Scars: Entanglement Steering via Periodic Driving.” <i>Physical Review Letters</i>, vol. 127, no. 9, 090602, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.127.090602\">10.1103/PhysRevLett.127.090602</a>."},"author":[{"full_name":"Maskara, N.","last_name":"Maskara","first_name":"N."},{"id":"36EBAD38-F248-11E8-B48F-1D18A9856A87","full_name":"Michailidis, Alexios","orcid":"0000-0002-8443-1064","first_name":"Alexios","last_name":"Michailidis"},{"full_name":"Ho, W. W.","last_name":"Ho","first_name":"W. W."},{"full_name":"Bluvstein, D.","first_name":"D.","last_name":"Bluvstein"},{"full_name":"Choi, S.","last_name":"Choi","first_name":"S."},{"last_name":"Lukin","first_name":"M. D.","full_name":"Lukin, M. D."},{"last_name":"Serbyn","first_name":"Maksym","full_name":"Serbyn, Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2399-5827"}],"article_processing_charge":"No","oa_version":"Submitted Version","quality_controlled":"1","abstract":[{"text":"The control of many-body quantum dynamics in complex systems is a key challenge in the quest to reliably produce and manipulate large-scale quantum entangled states. Recently, quench experiments in Rydberg atom arrays [Bluvstein et al. Science 371, 1355 (2021)] demonstrated that coherent revivals associated with quantum many-body scars can be stabilized by periodic driving, generating stable subharmonic responses over a wide parameter regime. We analyze a simple, related model where these phenomena originate from spatiotemporal ordering in an effective Floquet unitary, corresponding to discrete time-crystalline behavior in a prethermal regime. Unlike conventional discrete time crystals, the subharmonic response exists only for Néel-like initial states, associated with quantum scars. We predict robustness to perturbations and identify emergent timescales that could be observed in future experiments. Our results suggest a route to controlling entanglement in interacting quantum systems by combining periodic driving with many-body scars.","lang":"eng"}],"article_type":"letter_note","publication_status":"published","_id":"9960","year":"2021","ec_funded":1,"date_created":"2021-08-28T08:08:58Z"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","volume":104,"intvolume":"       104","doi":"10.1103/PhysRevB.104.L081112","date_published":"2021-08-15T00:00:00Z","language":[{"iso":"eng"}],"status":"public","acknowledgement":"We thank S. Garratt for useful comments on the manuscript. This work was supported by the Swiss National Science Foundation (M. Sonner and D.A.A.) and by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (M. Serbyn, Grant Agreement No. 850899, and D.A.A., Grant Agreement No. 864597). Z.P. acknowledges support from EPSRC Grant No. EP/R020612/1 and from Leverhulme Trust Research Leadership Award No. RL-2019-015. The computations were performed on the Baobab cluster of the University\r\nof Geneva.","arxiv":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2012.15676"}],"isi":1,"department":[{"_id":"MaSe"}],"publisher":"American Physical Society","month":"08","day":"15","publication":"Physical Review B","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"oa":1,"author":[{"full_name":"Sonner, Michael","last_name":"Sonner","first_name":"Michael"},{"last_name":"Serbyn","first_name":"Maksym","full_name":"Serbyn, Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2399-5827"},{"full_name":"Papić, Zlatko","first_name":"Zlatko","last_name":"Papić"},{"last_name":"Abanin","first_name":"Dmitry A.","full_name":"Abanin, Dmitry A."}],"date_updated":"2023-08-11T10:57:09Z","citation":{"ista":"Sonner M, Serbyn M, Papić Z, Abanin DA. 2021. Thouless energy across the many-body localization transition in Floquet systems. Physical Review B. 104(8), L081112.","chicago":"Sonner, Michael, Maksym Serbyn, Zlatko Papić, and Dmitry A. Abanin. “Thouless Energy across the Many-Body Localization Transition in Floquet Systems.” <i>Physical Review B</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/PhysRevB.104.L081112\">https://doi.org/10.1103/PhysRevB.104.L081112</a>.","ieee":"M. Sonner, M. Serbyn, Z. Papić, and D. A. Abanin, “Thouless energy across the many-body localization transition in Floquet systems,” <i>Physical Review B</i>, vol. 104, no. 8. American Physical Society, 2021.","ama":"Sonner M, Serbyn M, Papić Z, Abanin DA. Thouless energy across the many-body localization transition in Floquet systems. <i>Physical Review B</i>. 2021;104(8). doi:<a href=\"https://doi.org/10.1103/PhysRevB.104.L081112\">10.1103/PhysRevB.104.L081112</a>","apa":"Sonner, M., Serbyn, M., Papić, Z., &#38; Abanin, D. A. (2021). Thouless energy across the many-body localization transition in Floquet systems. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.104.L081112\">https://doi.org/10.1103/PhysRevB.104.L081112</a>","mla":"Sonner, Michael, et al. “Thouless Energy across the Many-Body Localization Transition in Floquet Systems.” <i>Physical Review B</i>, vol. 104, no. 8, L081112, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/PhysRevB.104.L081112\">10.1103/PhysRevB.104.L081112</a>.","short":"M. Sonner, M. Serbyn, Z. Papić, D.A. Abanin, Physical Review B 104 (2021)."},"article_number":"L081112","issue":"8","project":[{"name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","grant_number":"850899","call_identifier":"H2020"}],"external_id":{"isi":["000689734500009"],"arxiv":["2012.15676"]},"title":"Thouless energy across the many-body localization transition in Floquet systems","date_created":"2021-08-28T16:44:55Z","ec_funded":1,"year":"2021","_id":"9961","quality_controlled":"1","oa_version":"Submitted Version","article_processing_charge":"No","article_type":"letter_note","publication_status":"published","abstract":[{"text":"The notion of Thouless energy plays a central role in the theory of Anderson localization. We investigate and compare the scaling of Thouless energy across the many-body localization (MBL) transition in a Floquet model. We use a combination of methods that are reliable on the ergodic side of the transition (e.g., spectral form factor) and methods that work on the MBL side (e.g., typical matrix elements of local operators) to obtain a complete picture of the Thouless energy behavior across the transition. On the ergodic side, Thouless energy decreases slowly with the system size, while at the transition it becomes comparable to the level spacing. Different probes yield consistent estimates of Thouless energy in their overlapping regime of applicability, giving the location of the transition point nearly free of finite-size drift. This work establishes a connection between different definitions of Thouless energy in a many-body setting and yields insights into the MBL transition in Floquet systems.","lang":"eng"}]},{"oa":1,"publication_identifier":{"issn":["2663-337X"]},"day":"02","supervisor":[{"full_name":"Hippenmeyer, Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","first_name":"Simon"}],"author":[{"last_name":"Hansen","first_name":"Andi H","full_name":"Hansen, Andi H","id":"38853E16-F248-11E8-B48F-1D18A9856A87"}],"citation":{"ama":"Hansen AH. Cell-autonomous gene function and non-cell-autonomous effects in radial projection neuron migration. 2021. doi:<a href=\"https://doi.org/10.15479/at:ista:9962\">10.15479/at:ista:9962</a>","apa":"Hansen, A. H. (2021). <i>Cell-autonomous gene function and non-cell-autonomous effects in radial projection neuron migration</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:9962\">https://doi.org/10.15479/at:ista:9962</a>","ieee":"A. H. Hansen, “Cell-autonomous gene function and non-cell-autonomous effects in radial projection neuron migration,” Institute of Science and Technology Austria, 2021.","mla":"Hansen, Andi H. <i>Cell-Autonomous Gene Function and Non-Cell-Autonomous Effects in Radial Projection Neuron Migration</i>. Institute of Science and Technology Austria, 2021, doi:<a href=\"https://doi.org/10.15479/at:ista:9962\">10.15479/at:ista:9962</a>.","ista":"Hansen AH. 2021. Cell-autonomous gene function and non-cell-autonomous effects in radial projection neuron migration. Institute of Science and Technology Austria.","chicago":"Hansen, Andi H. “Cell-Autonomous Gene Function and Non-Cell-Autonomous Effects in Radial Projection Neuron Migration.” Institute of Science and Technology Austria, 2021. <a href=\"https://doi.org/10.15479/at:ista:9962\">https://doi.org/10.15479/at:ista:9962</a>.","short":"A.H. Hansen, Cell-Autonomous Gene Function and Non-Cell-Autonomous Effects in Radial Projection Neuron Migration, Institute of Science and Technology Austria, 2021."},"date_updated":"2023-09-22T09:58:30Z","has_accepted_license":"1","title":"Cell-autonomous gene function and non-cell-autonomous effects in radial projection neuron migration","project":[{"grant_number":"24812","_id":"2625A13E-B435-11E9-9278-68D0E5697425","name":"Molecular Mechanisms of Radial Neuronal Migration"}],"_id":"9962","year":"2021","date_created":"2021-08-29T12:36:50Z","keyword":["Neuronal migration","Non-cell-autonomous","Cell-autonomous","Neurodevelopmental disease"],"article_processing_charge":"No","oa_version":"Published Version","abstract":[{"lang":"eng","text":"The brain is one of the largest and most complex organs and it is composed of billions of neurons that communicate together enabling e.g. consciousness. The cerebral cortex is the largest site of neural integration in the central nervous system. Concerted radial migration of newly born cortical projection neurons, from their birthplace to their final position, is a key step in the assembly of the cerebral cortex. The cellular and molecular mechanisms regulating radial neuronal migration in vivo are however still unclear. Recent evidence suggests that distinct signaling cues act cell-autonomously but differentially at certain steps during the overall migration process. Moreover, functional analysis of genetic mosaics (mutant neurons present in wild-type/heterozygote environment) using the MADM (Mosaic Analysis with Double Markers) analyses in comparison to global knockout also indicate a significant degree of non-cell-autonomous and/or community effects in the control of cortical neuron migration. The interactions of cell-intrinsic (cell-autonomous) and cell-extrinsic (non-cell-autonomous) components are largely unknown. In part of this thesis work we established a MADM-based experimental strategy for the quantitative analysis of cell-autonomous gene function versus non-cell-autonomous and/or community effects. The direct comparison of mutant neurons from the genetic mosaic (cell-autonomous) to mutant neurons in the conditional and/or global knockout (cell-autonomous + non-cell-autonomous) allows to quantitatively analyze non-cell-autonomous effects. Such analysis enable the high-resolution analysis of projection neuron migration dynamics in distinct environments with concomitant isolation of genomic and proteomic profiles. Using these experimental paradigms and in combination with computational modeling we show and characterize the nature of non-cell-autonomous effects to coordinate radial neuron migration. Furthermore, this thesis discusses recent developments in neurodevelopment with focus on neuronal polarization and non-cell-autonomous mechanisms in neuronal migration."}],"file":[{"date_updated":"2022-09-03T22:30:04Z","date_created":"2021-08-30T09:17:39Z","relation":"source_file","file_id":"9971","embargo_to":"open_access","file_name":"Thesis_Hansen.docx","creator":"ahansen","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":10629190,"checksum":"66b56f5b988b233dc66a4f4b4fb2cdfe"},{"file_size":13457469,"content_type":"application/pdf","checksum":"204fa40321a1c6289b68c473634c4bf3","access_level":"open_access","creator":"ahansen","file_id":"9972","date_created":"2021-08-30T09:29:44Z","relation":"main_file","file_name":"Thesis_Hansen_PDFA-1a.pdf","embargo":"2022-09-02","date_updated":"2022-09-03T22:30:04Z"}],"publication_status":"published","related_material":{"record":[{"id":"8569","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"960","status":"public"}]},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file_date_updated":"2022-09-03T22:30:04Z","type":"dissertation","ddc":["570"],"alternative_title":["ISTA Thesis"],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"language":[{"iso":"eng"}],"date_published":"2021-09-02T00:00:00Z","doi":"10.15479/at:ista:9962","page":"182","degree_awarded":"PhD","month":"09","department":[{"_id":"GradSch"},{"_id":"SiHi"}],"publisher":"Institute of Science and Technology Austria"},{"date_created":"2021-08-29T22:01:16Z","ec_funded":1,"year":"2021","_id":"9969","quality_controlled":"1","oa_version":"Submitted Version","article_processing_charge":"No","related_material":{"record":[{"id":"14506","status":"public","relation":"dissertation_contains"}]},"publication_status":"published","abstract":[{"text":"Payment channel networks are a promising approach to improve the scalability of cryptocurrencies: they allow to perform transactions in a peer-to-peer fashion, along multihop routes in the network, without requiring consensus on the blockchain. However, during the discovery of cost-efficient routes for the transaction, critical information may be revealed about the transacting entities. This paper initiates the study of privacy-preserving route discovery mechanisms for payment channel networks. In particular, we present LightPIR, an approach which allows a client to learn the shortest (or cheapest in terms of fees) path between two nodes without revealing any information about the endpoints of the transaction to the servers. The two main observations which allow for an efficient solution in LightPIR are that: (1) surprisingly, hub labelling algorithms – which were developed to preprocess “street network like” graphs so one can later efficiently compute shortest paths – also perform well for the graphs underlying payment channel networks, and that (2) hub labelling algorithms can be conveniently combined with private information retrieval. LightPIR relies on a simple hub labeling heuristic on top of existing hub labeling algorithms which leverages the specific topological features of cryptocurrency networks to further minimize storage and bandwidth overheads. In a case study considering the Lightning network, we show that our approach is an order of magnitude more efficient compared to a privacy-preserving baseline based on using private information retrieval on a database that stores all pairs shortest paths.","lang":"eng"}],"day":"21","publication_identifier":{"eissn":["1861-2288"],"isbn":["978-1-6654-4501-6"],"eisbn":["978-3-9031-7639-3"]},"oa":1,"date_updated":"2023-11-30T10:54:50Z","author":[{"orcid":"0000-0002-9139-1654","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","full_name":"Pietrzak, Krzysztof Z","last_name":"Pietrzak","first_name":"Krzysztof Z"},{"first_name":"Iosif","last_name":"Salem","full_name":"Salem, Iosif"},{"first_name":"Stefan","last_name":"Schmid","full_name":"Schmid, Stefan"},{"id":"2D82B818-F248-11E8-B48F-1D18A9856A87","full_name":"Yeo, Michelle X","last_name":"Yeo","first_name":"Michelle X"}],"citation":{"mla":"Pietrzak, Krzysztof Z., et al. <i>LightPIR: Privacy-Preserving Route Discovery for Payment Channel Networks</i>. IEEE, 2021, doi:<a href=\"https://doi.org/10.23919/IFIPNetworking52078.2021.9472205\">10.23919/IFIPNetworking52078.2021.9472205</a>.","ama":"Pietrzak KZ, Salem I, Schmid S, Yeo MX. LightPIR: Privacy-preserving route discovery for payment channel networks. In: IEEE; 2021. doi:<a href=\"https://doi.org/10.23919/IFIPNetworking52078.2021.9472205\">10.23919/IFIPNetworking52078.2021.9472205</a>","ieee":"K. Z. Pietrzak, I. Salem, S. Schmid, and M. X. Yeo, “LightPIR: Privacy-preserving route discovery for payment channel networks,” presented at the 2021 IFIP Networking Conference (IFIP Networking), Espoo and Helsinki, Finland, 2021.","apa":"Pietrzak, K. Z., Salem, I., Schmid, S., &#38; Yeo, M. X. (2021). LightPIR: Privacy-preserving route discovery for payment channel networks. Presented at the 2021 IFIP Networking Conference (IFIP Networking), Espoo and Helsinki, Finland: IEEE. <a href=\"https://doi.org/10.23919/IFIPNetworking52078.2021.9472205\">https://doi.org/10.23919/IFIPNetworking52078.2021.9472205</a>","chicago":"Pietrzak, Krzysztof Z, Iosif Salem, Stefan Schmid, and Michelle X Yeo. “LightPIR: Privacy-Preserving Route Discovery for Payment Channel Networks.” IEEE, 2021. <a href=\"https://doi.org/10.23919/IFIPNetworking52078.2021.9472205\">https://doi.org/10.23919/IFIPNetworking52078.2021.9472205</a>.","ista":"Pietrzak KZ, Salem I, Schmid S, Yeo MX. 2021. LightPIR: Privacy-preserving route discovery for payment channel networks. 2021 IFIP Networking Conference (IFIP Networking).","short":"K.Z. Pietrzak, I. Salem, S. Schmid, M.X. Yeo, in:, IEEE, 2021."},"project":[{"grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Teaching Old Crypto New Tricks"}],"title":"LightPIR: Privacy-preserving route discovery for payment channel networks","external_id":{"isi":["000853016800008"],"arxiv":["2104.04293"]},"scopus_import":"1","arxiv":1,"conference":{"end_date":"2021-06-24","location":"Espoo and Helsinki, Finland","name":"2021 IFIP Networking Conference (IFIP Networking)","start_date":"2021-06-21"},"isi":1,"main_file_link":[{"url":"https://arxiv.org/abs/2104.04293","open_access":"1"}],"publisher":"IEEE","department":[{"_id":"KrPi"}],"month":"06","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"conference","doi":"10.23919/IFIPNetworking52078.2021.9472205","date_published":"2021-06-21T00:00:00Z","language":[{"iso":"eng"}],"status":"public"},{"type":"journal_article","volume":387,"file_date_updated":"2021-09-08T09:46:34Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","doi":"10.1007/s00220-021-04199-4","date_published":"2021-08-30T00:00:00Z","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","intvolume":"       387","ddc":["621"],"arxiv":1,"page":"761–791","acknowledgement":"Both authors would like to thank Jan Maas for fruitful discussions and helpful comments.","scopus_import":"1","department":[{"_id":"JaMa"}],"publisher":"Springer Nature","month":"08","isi":1,"citation":{"chicago":"Wirth, Melchior, and Haonan Zhang. “Complete Gradient Estimates of Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/s00220-021-04199-4\">https://doi.org/10.1007/s00220-021-04199-4</a>.","ista":"Wirth M, Zhang H. 2021. Complete gradient estimates of quantum Markov semigroups. Communications in Mathematical Physics. 387, 761–791.","mla":"Wirth, Melchior, and Haonan Zhang. “Complete Gradient Estimates of Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>, vol. 387, Springer Nature, 2021, pp. 761–791, doi:<a href=\"https://doi.org/10.1007/s00220-021-04199-4\">10.1007/s00220-021-04199-4</a>.","ieee":"M. Wirth and H. Zhang, “Complete gradient estimates of quantum Markov semigroups,” <i>Communications in Mathematical Physics</i>, vol. 387. Springer Nature, pp. 761–791, 2021.","ama":"Wirth M, Zhang H. Complete gradient estimates of quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. 2021;387:761–791. doi:<a href=\"https://doi.org/10.1007/s00220-021-04199-4\">10.1007/s00220-021-04199-4</a>","apa":"Wirth, M., &#38; Zhang, H. (2021). Complete gradient estimates of quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00220-021-04199-4\">https://doi.org/10.1007/s00220-021-04199-4</a>","short":"M. Wirth, H. Zhang, Communications in Mathematical Physics 387 (2021) 761–791."},"author":[{"id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","full_name":"Wirth, Melchior","orcid":"0000-0002-0519-4241","first_name":"Melchior","last_name":"Wirth"},{"full_name":"Zhang, Haonan","id":"D8F41E38-9E66-11E9-A9E2-65C2E5697425","first_name":"Haonan","last_name":"Zhang"}],"date_updated":"2023-08-11T11:09:07Z","day":"30","publication_identifier":{"issn":["0010-3616"],"eissn":["1432-0916"]},"publication":"Communications in Mathematical Physics","oa":1,"project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"},{"call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships"},{"grant_number":"F6504","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2","name":"Taming Complexity in Partial Differential Systems"}],"external_id":{"arxiv":["2007.13506"],"isi":["000691214200001"]},"title":"Complete gradient estimates of quantum Markov semigroups","has_accepted_license":"1","date_created":"2021-08-30T10:07:44Z","ec_funded":1,"year":"2021","_id":"9973","article_type":"original","publication_status":"published","file":[{"content_type":"application/pdf","file_size":505971,"checksum":"8a602f916b1c2b0dc1159708b7cb204b","access_level":"open_access","creator":"cchlebak","file_id":"9990","relation":"main_file","date_created":"2021-09-08T07:34:24Z","file_name":"2021_CommunMathPhys_Wirth.pdf","date_updated":"2021-09-08T09:46:34Z"}],"abstract":[{"text":"In this article we introduce a complete gradient estimate for symmetric quantum Markov semigroups on von Neumann algebras equipped with a normal faithful tracial state, which implies semi-convexity of the entropy with respect to the recently introduced noncommutative 2-Wasserstein distance. We show that this complete gradient estimate is stable under tensor products and free products and establish its validity for a number of examples. As an application we prove a complete modified logarithmic Sobolev inequality with optimal constant for Poisson-type semigroups on free group factors.","lang":"eng"}],"quality_controlled":"1","oa_version":"Published Version","keyword":["Mathematical Physics","Statistical and Nonlinear Physics"],"article_processing_charge":"Yes (via OA deal)"},{"date_updated":"2023-10-17T13:06:29Z","author":[{"full_name":"Cao, Deqing","last_name":"Cao","first_name":"Deqing"},{"full_name":"Shen, Xiaoxiao","first_name":"Xiaoxiao","last_name":"Shen"},{"last_name":"Wang","first_name":"Aiping","full_name":"Wang, Aiping"},{"last_name":"Yu","first_name":"Fengjiao","full_name":"Yu, Fengjiao"},{"last_name":"Wu","first_name":"Yuping","full_name":"Wu, Yuping"},{"full_name":"Shi, Siqi","last_name":"Shi","first_name":"Siqi"},{"id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","last_name":"Freunberger","first_name":"Stefan Alexander"},{"full_name":"Chen, Yuhui","last_name":"Chen","first_name":"Yuhui"}],"citation":{"ista":"Cao D, Shen X, Wang A, Yu F, Wu Y, Shi S, Freunberger SA, Chen Y. Sharp kinetic acceleration potentials during mediated redox catalysis of insulators. Research Square, <a href=\"https://doi.org/10.21203/rs.3.rs-750965/v1\">10.21203/rs.3.rs-750965/v1</a>.","chicago":"Cao, Deqing, Xiaoxiao Shen, Aiping Wang, Fengjiao Yu, Yuping Wu, Siqi Shi, Stefan Alexander Freunberger, and Yuhui Chen. “Sharp Kinetic Acceleration Potentials during Mediated Redox Catalysis of Insulators.” <i>Research Square</i>. Research Square, n.d. <a href=\"https://doi.org/10.21203/rs.3.rs-750965/v1\">https://doi.org/10.21203/rs.3.rs-750965/v1</a>.","ieee":"D. Cao <i>et al.</i>, “Sharp kinetic acceleration potentials during mediated redox catalysis of insulators,” <i>Research Square</i>. Research Square.","ama":"Cao D, Shen X, Wang A, et al. Sharp kinetic acceleration potentials during mediated redox catalysis of insulators. <i>Research Square</i>. doi:<a href=\"https://doi.org/10.21203/rs.3.rs-750965/v1\">10.21203/rs.3.rs-750965/v1</a>","apa":"Cao, D., Shen, X., Wang, A., Yu, F., Wu, Y., Shi, S., … Chen, Y. (n.d.). Sharp kinetic acceleration potentials during mediated redox catalysis of insulators. <i>Research Square</i>. Research Square. <a href=\"https://doi.org/10.21203/rs.3.rs-750965/v1\">https://doi.org/10.21203/rs.3.rs-750965/v1</a>","mla":"Cao, Deqing, et al. “Sharp Kinetic Acceleration Potentials during Mediated Redox Catalysis of Insulators.” <i>Research Square</i>, Research Square, doi:<a href=\"https://doi.org/10.21203/rs.3.rs-750965/v1\">10.21203/rs.3.rs-750965/v1</a>.","short":"D. Cao, X. Shen, A. Wang, F. Yu, Y. Wu, S. Shi, S.A. Freunberger, Y. Chen, Research Square (n.d.)."},"publication_identifier":{"eissn":["2693-5015"]},"publication":"Research Square","oa":1,"day":"18","title":"Sharp kinetic acceleration potentials during mediated redox catalysis of insulators","has_accepted_license":"1","year":"2021","_id":"9978","date_created":"2021-08-31T12:54:16Z","file":[{"content_type":"application/pdf","file_size":1019662,"checksum":"1878e91c29d5769ed5a827b0b7addf00","creator":"cchlebak","access_level":"open_access","relation":"main_file","date_created":"2021-08-31T14:02:19Z","success":1,"file_id":"9979","file_name":"2021_ResearchSquare_Cao.pdf","date_updated":"2021-08-31T14:02:19Z"}],"abstract":[{"text":"Redox mediators could catalyse otherwise slow and energy-inefficient cycling of Li-S and Li-O 2 batteries by shuttling electrons/holes between the electrode and the solid insulating storage materials. For mediators to work efficiently they need to oxidize the solid with fast kinetics yet the lowest possible overpotential. Here, we found that when the redox potentials of mediators are tuned via, e.g., Li + concentration in the electrolyte, they exhibit distinct threshold potentials, where the kinetics accelerate several-fold within a range as small as 10 mV. This phenomenon is independent of types of mediators and electrolyte. The acceleration originates from the overpotentials required to activate fast Li + /e – extraction and the following chemical step at specific abundant surface facets. Efficient redox catalysis at insulating solids requires therefore carefully considering the surface conditions of the storage materials and electrolyte-dependent redox potentials, which may be tuned by salt concentrations or solvents.","lang":"eng"}],"publication_status":"submitted","related_material":{"record":[{"relation":"later_version","status":"public","id":"10813"}]},"oa_version":"Preprint","article_processing_charge":"No","keyword":["Catalysis","Energy engineering","Materials theory and modeling"],"type":"preprint","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2021-08-31T14:02:19Z","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","doi":"10.21203/rs.3.rs-750965/v1","date_published":"2021-08-18T00:00:00Z","ddc":["541"],"page":"21","acknowledgement":"This work was financially supported by the National Natural Science Foundation of China (51773092, 21975124, 11874254, 51802187, U2030206). S.A.F. is indebted to IST Austria for support. ","department":[{"_id":"StFr"}],"publisher":"Research Square","month":"08"},{"acknowledgement":"This project has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant NanoEvolution, grant agreement No 894042. The authors acknowledge TU Graz for support through the Lead Project LP-03. Likewise, the use of SOMAPP Lab, a core facility supported by the Austrian Federal Ministry of Education, Science and Research, the Graz University\r\n6 of Technology, the University of Graz, and Anton Paar GmbH is acknowledged. S.D.T, A.V. and R.D. acknowledge the financial support by the Slovenian Research Agency (ARRS) research core funding P2-0393. Furthermore, A.V. acknowledge the funding from the Slovenian Research Agency, research project Z2-1863. S.A.F. is indebted to IST Austria for support. ","date_created":"2021-09-02T08:45:00Z","_id":"9980","year":"2021","page":"21","main_file_link":[{"open_access":"1","url":"https://www.researchsquare.com/article/rs-818607/v1"}],"article_processing_charge":"No","keyword":["Li2S","Lithium Sulphur Batteries","SAXS","WAXS"],"oa_version":"Preprint","month":"08","department":[{"_id":"StFr"}],"publication_status":"submitted","abstract":[{"text":"Insufficient understanding of the mechanism that reversibly converts sulphur into lithium sulphide (Li2S) via soluble polysulphides (PS) hampers the realization of high performance lithium-sulphur cells. Typically Li2S formation is explained by direct electroreduction of a PS to Li2S; however, this is not consistent with the size of the insulating Li2S deposits. Here, we use in situ small and wide angle X-ray scattering (SAXS/WAXS) to track the growth and dissolution of crystalline and amorphous deposits from atomic to sub-micron scales during charge and discharge. Stochastic modelling based on the SAXS data allows quantification of the chemical phase evolution during discharge and charge. We show that Li2S deposits predominantly via disproportionation of transient, solid Li2S2 to form primary Li2S crystallites and solid Li2S4 particles. We further demonstrate that this process happens in reverse during charge. These findings show that the discharge capacity and rate capability in Li-S battery cathodes are therefore limited by mass transport through the increasingly tortuous network of Li2S / Li2S4 / carbon pores rather than electron transport through a passivating surface film.","lang":"eng"}],"day":"16","oa":1,"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication":"Research Square","citation":{"ieee":"C. Prehal <i>et al.</i>, “Mechanism of Li2S formation and dissolution in Lithium-Sulphur batteries,” <i>Research Square</i>. .","ama":"Prehal C, Talian SD, Vizintin A, et al. Mechanism of Li2S formation and dissolution in Lithium-Sulphur batteries. <i>Research Square</i>. doi:<a href=\"https://doi.org/10.21203/rs.3.rs-818607/v1\">10.21203/rs.3.rs-818607/v1</a>","apa":"Prehal, C., Talian, S. D., Vizintin, A., Amenitsch, H., Dominko, R., Freunberger, S. A., &#38; Wood, V. (n.d.). Mechanism of Li2S formation and dissolution in Lithium-Sulphur batteries. <i>Research Square</i>. <a href=\"https://doi.org/10.21203/rs.3.rs-818607/v1\">https://doi.org/10.21203/rs.3.rs-818607/v1</a>","mla":"Prehal, Christian, et al. “Mechanism of Li2S Formation and Dissolution in Lithium-Sulphur Batteries.” <i>Research Square</i>, doi:<a href=\"https://doi.org/10.21203/rs.3.rs-818607/v1\">10.21203/rs.3.rs-818607/v1</a>.","ista":"Prehal C, Talian SD, Vizintin A, Amenitsch H, Dominko R, Freunberger SA, Wood V. Mechanism of Li2S formation and dissolution in Lithium-Sulphur batteries. Research Square, <a href=\"https://doi.org/10.21203/rs.3.rs-818607/v1\">10.21203/rs.3.rs-818607/v1</a>.","chicago":"Prehal, Christian, Sara Drvarič Talian, Alen Vizintin, Heinz Amenitsch, Robert Dominko, Stefan Alexander Freunberger, and Vanessa Wood. “Mechanism of Li2S Formation and Dissolution in Lithium-Sulphur Batteries.” <i>Research Square</i>, n.d. <a href=\"https://doi.org/10.21203/rs.3.rs-818607/v1\">https://doi.org/10.21203/rs.3.rs-818607/v1</a>.","short":"C. Prehal, S.D. Talian, A. Vizintin, H. Amenitsch, R. Dominko, S.A. Freunberger, V. Wood, Research Square (n.d.)."},"type":"preprint","author":[{"first_name":"Christian","last_name":"Prehal","full_name":"Prehal, Christian"},{"full_name":"Talian, Sara Drvarič","first_name":"Sara Drvarič","last_name":"Talian"},{"full_name":"Vizintin, Alen","first_name":"Alen","last_name":"Vizintin"},{"first_name":"Heinz","last_name":"Amenitsch","full_name":"Amenitsch, Heinz"},{"full_name":"Dominko, Robert","first_name":"Robert","last_name":"Dominko"},{"last_name":"Freunberger","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319","full_name":"Freunberger, Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"},{"last_name":"Wood","first_name":"Vanessa","full_name":"Wood, Vanessa"}],"date_updated":"2021-12-03T10:35:42Z","ddc":["621"],"date_published":"2021-08-16T00:00:00Z","doi":"10.21203/rs.3.rs-818607/v1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"title":"Mechanism of Li2S formation and dissolution in Lithium-Sulphur batteries","status":"public","language":[{"iso":"eng"}]},{"volume":11,"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2021-09-02T14:05:43Z","language":[{"iso":"eng"}],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.21468/scipostphys.11.3.048","date_published":"2021-09-02T00:00:00Z","intvolume":"        11","ddc":["519"],"arxiv":1,"publisher":"SciPost","department":[{"_id":"MaSe"}],"month":"09","isi":1,"date_updated":"2023-08-11T10:59:29Z","author":[{"last_name":"De Nicola","first_name":"Stefano","full_name":"De Nicola, Stefano","id":"42832B76-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4842-6671"}],"citation":{"chicago":"De Nicola, Stefano. “Importance Sampling Scheme for the Stochastic Simulation of Quantum Spin Dynamics.” <i>SciPost Physics</i>. SciPost, 2021. <a href=\"https://doi.org/10.21468/scipostphys.11.3.048\">https://doi.org/10.21468/scipostphys.11.3.048</a>.","ista":"De Nicola S. 2021. Importance sampling scheme for the stochastic simulation of quantum spin dynamics. SciPost Physics. 11(3), 048.","mla":"De Nicola, Stefano. “Importance Sampling Scheme for the Stochastic Simulation of Quantum Spin Dynamics.” <i>SciPost Physics</i>, vol. 11, no. 3, 048, SciPost, 2021, doi:<a href=\"https://doi.org/10.21468/scipostphys.11.3.048\">10.21468/scipostphys.11.3.048</a>.","apa":"De Nicola, S. (2021). Importance sampling scheme for the stochastic simulation of quantum spin dynamics. <i>SciPost Physics</i>. SciPost. <a href=\"https://doi.org/10.21468/scipostphys.11.3.048\">https://doi.org/10.21468/scipostphys.11.3.048</a>","ieee":"S. De Nicola, “Importance sampling scheme for the stochastic simulation of quantum spin dynamics,” <i>SciPost Physics</i>, vol. 11, no. 3. SciPost, 2021.","ama":"De Nicola S. Importance sampling scheme for the stochastic simulation of quantum spin dynamics. <i>SciPost Physics</i>. 2021;11(3). doi:<a href=\"https://doi.org/10.21468/scipostphys.11.3.048\">10.21468/scipostphys.11.3.048</a>","short":"S. De Nicola, SciPost Physics 11 (2021)."},"publication":"SciPost Physics","publication_identifier":{"eissn":["2666-9366"],"issn":["2542-4653"]},"oa":1,"day":"02","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"title":"Importance sampling scheme for the stochastic simulation of quantum spin dynamics","external_id":{"isi":["000692534200001"],"arxiv":["2103.16468"]},"issue":"3","article_number":"048","has_accepted_license":"1","year":"2021","_id":"9981","ec_funded":1,"date_created":"2021-09-02T11:49:47Z","file":[{"creator":"cchlebak","access_level":"open_access","checksum":"e4ec69d893e31811efc6093cb6ea8eb7","file_size":373833,"content_type":"application/pdf","date_updated":"2021-09-02T14:05:43Z","file_name":"2021_SciPostPhys_DeNicola.pdf","date_created":"2021-09-02T14:05:43Z","relation":"main_file","success":1,"file_id":"9984"}],"abstract":[{"lang":"eng","text":"The numerical simulation of dynamical phenomena in interacting quantum systems is a notoriously hard problem. Although a number of promising numerical methods exist, they often have limited applicability due to the growth of entanglement or the presence of the so-called sign problem. In this work, we develop an importance sampling scheme for the simulation of quantum spin dynamics, building on a recent approach mapping quantum spin systems to classical stochastic processes. The importance sampling scheme is based on identifying the classical trajectory that yields the largest contribution to a given quantum observable. An exact transformation is then carried out to preferentially sample trajectories that are close to the dominant one. We demonstrate that this approach is capable of reducing the temporal growth of fluctuations in the stochastic quantities, thus extending the range of accessible times and system sizes compared to direct sampling. We discuss advantages and limitations of the proposed approach, outlining directions\r\nfor further developments."}],"article_type":"original","publication_status":"published","oa_version":"Published Version","article_processing_charge":"No","keyword":["General Physics and Astronomy"],"quality_controlled":"1"},{"abstract":[{"text":"AMPA receptor (AMPAR) abundance and positioning at excitatory synapses regulates the strength of transmission. Changes in AMPAR localisation can enact synaptic plasticity, allowing long-term information storage, and is therefore tightly controlled. Multiple mechanisms regulating AMPAR synaptic anchoring have been described, but with limited coherence or comparison between reports, our understanding of this process is unclear. Here, combining synaptic recordings from mouse hippocampal slices and super-resolution imaging in dissociated cultures, we compare the contributions of three AMPAR interaction domains controlling transmission at hippocampal CA1 synapses. We show that the AMPAR C-termini play only a modulatory role, whereas the extracellular N-terminal domain (NTD) and PDZ interactions of the auxiliary subunit TARP γ8 are both crucial, and each is sufficient to maintain transmission. Our data support a model in which γ8 accumulates AMPARs at the postsynaptic density, where the NTD further tunes their positioning. This interplay between cytosolic (TARP γ8) and synaptic cleft (NTD) interactions provides versatility to regulate synaptic transmission and plasticity.","lang":"eng"}],"file":[{"date_updated":"2021-09-08T12:57:06Z","file_name":"2021_NatureCommunications_Watson.pdf","success":1,"date_created":"2021-09-08T12:57:06Z","relation":"main_file","file_id":"9991","creator":"cchlebak","access_level":"open_access","checksum":"1bf4f6a561f96bc426d754de9cb57710","file_size":18310502,"content_type":"application/pdf"}],"publication_status":"published","article_type":"original","article_processing_charge":"Yes","oa_version":"Published Version","quality_controlled":"1","_id":"9985","year":"2021","pmid":1,"date_created":"2021-09-05T22:01:23Z","external_id":{"isi":["000687672000006"],"pmid":["34426577 "]},"title":"AMPA receptor anchoring at CA1 synapses is determined by N-terminal domain and TARP γ8 interactions","article_number":"5083","issue":"1","has_accepted_license":"1","author":[{"full_name":"Watson, Jake","id":"63836096-4690-11EA-BD4E-32803DDC885E","orcid":"0000-0002-8698-3823","first_name":"Jake","last_name":"Watson"},{"first_name":"Alexandra","last_name":"Pinggera","full_name":"Pinggera, Alexandra"},{"full_name":"Ho, Hinze","first_name":"Hinze","last_name":"Ho"},{"full_name":"Greger, Ingo H.","first_name":"Ingo H.","last_name":"Greger"}],"date_updated":"2023-08-11T11:07:51Z","citation":{"chicago":"Watson, Jake, Alexandra Pinggera, Hinze Ho, and Ingo H. Greger. “AMPA Receptor Anchoring at CA1 Synapses Is Determined by N-Terminal Domain and TARP Γ8 Interactions.” <i>Nature Communications</i>. Nature Publishing Group, 2021. <a href=\"https://doi.org/10.1038/s41467-021-25281-4\">https://doi.org/10.1038/s41467-021-25281-4</a>.","ista":"Watson J, Pinggera A, Ho H, Greger IH. 2021. AMPA receptor anchoring at CA1 synapses is determined by N-terminal domain and TARP γ8 interactions. Nature Communications. 12(1), 5083.","mla":"Watson, Jake, et al. “AMPA Receptor Anchoring at CA1 Synapses Is Determined by N-Terminal Domain and TARP Γ8 Interactions.” <i>Nature Communications</i>, vol. 12, no. 1, 5083, Nature Publishing Group, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-021-25281-4\">10.1038/s41467-021-25281-4</a>.","apa":"Watson, J., Pinggera, A., Ho, H., &#38; Greger, I. H. (2021). AMPA receptor anchoring at CA1 synapses is determined by N-terminal domain and TARP γ8 interactions. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41467-021-25281-4\">https://doi.org/10.1038/s41467-021-25281-4</a>","ieee":"J. Watson, A. Pinggera, H. Ho, and I. H. Greger, “AMPA receptor anchoring at CA1 synapses is determined by N-terminal domain and TARP γ8 interactions,” <i>Nature Communications</i>, vol. 12, no. 1. Nature Publishing Group, 2021.","ama":"Watson J, Pinggera A, Ho H, Greger IH. AMPA receptor anchoring at CA1 synapses is determined by N-terminal domain and TARP γ8 interactions. <i>Nature Communications</i>. 2021;12(1). doi:<a href=\"https://doi.org/10.1038/s41467-021-25281-4\">10.1038/s41467-021-25281-4</a>","short":"J. Watson, A. Pinggera, H. Ho, I.H. Greger, Nature Communications 12 (2021)."},"oa":1,"publication_identifier":{"eissn":["2041-1723"]},"publication":"Nature Communications","day":"23","month":"08","department":[{"_id":"PeJo"}],"publisher":"Nature Publishing Group","isi":1,"scopus_import":"1","acknowledgement":"The authors are very grateful to Andrew Penn for advice and discussions on surface receptor labelling in slice tissue, dissociated culture transfection, and for providing tdTomato and BirAER expression plasmids. This work would not have been possible without support from the Biological Services teams at both the Laboratory of Molecular Biology and Ares facilities. We are also very grateful to Nick Barry and Jerome Boulanger of the LMB Light Microscopy facility for support with confocal and STORM imaging and analysis, Junichi Takagi for providing scFv-Clasp expression constructs, Veronica Chang for assistance with scFv-Clasp protein production, and Nejc Kejzar for assistance with cluster analysis. We would like to thank Teru Nakagawa and Ole Paulsen for critical reading of the manuscript and constructive feedback. This work was supported by grants from the Medical Research Council (MC_U105174197) and BBSRC (BB/N002113/1).","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"language":[{"iso":"eng"}],"date_published":"2021-08-23T00:00:00Z","doi":"10.1038/s41467-021-25281-4","intvolume":"        12","ddc":["612"],"volume":12,"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2021-09-08T12:57:06Z"},{"_id":"9986","year":"2021","date_created":"2021-09-05T22:01:24Z","pmid":1,"keyword":["auxin","growth","cell wall","xyloglucans","hypocotyls","gravitropism"],"article_processing_charge":"Yes","oa_version":"Published Version","quality_controlled":"1","abstract":[{"lang":"eng","text":"Size control is a fundamental question in biology, showing incremental complexity in plants, whose cells possess a rigid cell wall. The phytohormone auxin is a vital growth regulator with central importance for differential growth control. Our results indicate that auxin-reliant growth programs affect the molecular complexity of xyloglucans, the major type of cell wall hemicellulose in eudicots. Auxin-dependent induction and repression of growth coincide with reduced and enhanced molecular complexity of xyloglucans, respectively. In agreement with a proposed function in growth control, genetic interference with xyloglucan side decorations distinctly modulates auxin-dependent differential growth rates. Our work proposes that auxin-dependent growth programs have a spatially defined effect on xyloglucan’s molecular structure, which in turn affects cell wall mechanics and specifies differential, gravitropic hypocotyl growth."}],"file":[{"access_level":"open_access","creator":"cchlebak","checksum":"6b7055cf89f1b7ed8594c3fdf56f000b","content_type":"application/pdf","file_size":2162247,"date_updated":"2021-09-07T09:04:53Z","file_name":"2021_IntJMolecularSciences_Velasquez.pdf","file_id":"9988","date_created":"2021-09-06T12:50:19Z","relation":"main_file"}],"publication_status":"published","article_type":"original","oa":1,"publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"publication":"International Journal of Molecular Sciences","day":"26","author":[{"first_name":"Silvia Melina","last_name":"Velasquez","full_name":"Velasquez, Silvia Melina"},{"first_name":"Xiaoyuan","last_name":"Guo","full_name":"Guo, Xiaoyuan"},{"first_name":"Marçal","last_name":"Gallemi","id":"460C6802-F248-11E8-B48F-1D18A9856A87","full_name":"Gallemi, Marçal","orcid":"0000-0003-4675-6893"},{"last_name":"Aryal","first_name":"Bibek","full_name":"Aryal, Bibek"},{"full_name":"Venhuizen, Peter","last_name":"Venhuizen","first_name":"Peter"},{"full_name":"Barbez, Elke","last_name":"Barbez","first_name":"Elke"},{"full_name":"Dünser, Kai Alexander","first_name":"Kai Alexander","last_name":"Dünser"},{"full_name":"Darino, Martin","first_name":"Martin","last_name":"Darino"},{"full_name":"Pӗnčík, Aleš","last_name":"Pӗnčík","first_name":"Aleš"},{"first_name":"Ondřej","last_name":"Novák","full_name":"Novák, Ondřej"},{"full_name":"Kalyna, Maria","first_name":"Maria","last_name":"Kalyna"},{"full_name":"Mouille, Gregory","first_name":"Gregory","last_name":"Mouille"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","last_name":"Benková","first_name":"Eva"},{"last_name":"Bhalerao","first_name":"Rishikesh P.","full_name":"Bhalerao, Rishikesh P."},{"last_name":"Mravec","first_name":"Jozef","full_name":"Mravec, Jozef"},{"full_name":"Kleine-Vehn, Jürgen","last_name":"Kleine-Vehn","first_name":"Jürgen"}],"citation":{"short":"S.M. Velasquez, X. Guo, M. Gallemi, B. Aryal, P. Venhuizen, E. Barbez, K.A. Dünser, M. Darino, A. Pӗnčík, O. Novák, M. Kalyna, G. Mouille, E. Benková, R.P. Bhalerao, J. Mravec, J. Kleine-Vehn, International Journal of Molecular Sciences 22 (2021).","chicago":"Velasquez, Silvia Melina, Xiaoyuan Guo, Marçal Gallemi, Bibek Aryal, Peter Venhuizen, Elke Barbez, Kai Alexander Dünser, et al. “Xyloglucan Remodeling Defines Auxin-Dependent Differential Tissue Expansion in Plants.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22179222\">https://doi.org/10.3390/ijms22179222</a>.","ista":"Velasquez SM, Guo X, Gallemi M, Aryal B, Venhuizen P, Barbez E, Dünser KA, Darino M, Pӗnčík A, Novák O, Kalyna M, Mouille G, Benková E, Bhalerao RP, Mravec J, Kleine-Vehn J. 2021. Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants. International Journal of Molecular Sciences. 22(17), 9222.","mla":"Velasquez, Silvia Melina, et al. “Xyloglucan Remodeling Defines Auxin-Dependent Differential Tissue Expansion in Plants.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 17, 9222, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22179222\">10.3390/ijms22179222</a>.","apa":"Velasquez, S. M., Guo, X., Gallemi, M., Aryal, B., Venhuizen, P., Barbez, E., … Kleine-Vehn, J. (2021). Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22179222\">https://doi.org/10.3390/ijms22179222</a>","ieee":"S. M. Velasquez <i>et al.</i>, “Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 17. MDPI, 2021.","ama":"Velasquez SM, Guo X, Gallemi M, et al. Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants. <i>International Journal of Molecular Sciences</i>. 2021;22(17). doi:<a href=\"https://doi.org/10.3390/ijms22179222\">10.3390/ijms22179222</a>"},"date_updated":"2023-10-31T19:29:38Z","article_number":"9222","issue":"17","has_accepted_license":"1","title":"Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants","external_id":{"isi":["000694347100001"],"pmid":["34502129"]},"scopus_import":"1","acknowledgement":"We are grateful to Paul Knox, Markus Pauly, Malcom O’Neill, and Ignacio Zarra for providing published material; the BOKU-VIBT Imaging Center for access and M. Debreczeny for expertise; J.I. Thaker and Georg Seifert for critical reading.\r\n","isi":1,"month":"08","department":[{"_id":"EvBe"}],"publisher":"MDPI","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2021-09-07T09:04:53Z","volume":22,"type":"journal_article","intvolume":"        22","ddc":["575"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","language":[{"iso":"eng"}],"date_published":"2021-08-26T00:00:00Z","doi":"10.3390/ijms22179222"}]