[{"oa_version":"Published Version","article_processing_charge":"No","keyword":["Statistical and Nonlinear Physics","Atomic and Molecular Physics","and Optics","Nuclear and High Energy Physics","Condensed Matter Physics"],"quality_controlled":"1","file":[{"date_updated":"2023-07-31T09:02:27Z","file_name":"2023_SciPostPhysCore_Tucci.pdf","relation":"main_file","success":1,"date_created":"2023-07-31T09:02:27Z","file_id":"13329","creator":"dernst","access_level":"open_access","checksum":"b472bc82108747eda5d52adf9e2ac7f3","file_size":523236,"content_type":"application/pdf"}],"abstract":[{"text":"Recent experimental advances have inspired the development of theoretical tools to describe the non-equilibrium dynamics of quantum systems. Among them an exact representation of quantum spin systems in terms of classical stochastic processes has been proposed. Here we provide first steps towards the extension of this stochastic approach to bosonic systems by considering the one-dimensional quantum quartic oscillator. We show how to exactly parameterize the time evolution of this prototypical model via the dynamics of a set of classical variables. We interpret these variables as stochastic processes, which allows us to propose a novel way to numerically simulate the time evolution of the system. We benchmark our findings by considering analytically solvable limits and providing alternative derivations of known results.","lang":"eng"}],"article_type":"original","publication_status":"published","year":"2023","_id":"13277","ec_funded":1,"date_created":"2023-07-24T10:47:46Z","article_number":"029","issue":"2","has_accepted_license":"1","project":[{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"external_id":{"arxiv":["2211.01923"]},"title":"Stochastic representation of the quantum quartic oscillator","publication":"SciPost Physics Core","publication_identifier":{"issn":["2666-9366"]},"oa":1,"day":"14","citation":{"ista":"Tucci G, De Nicola S, Wald S, Gambassi A. 2023. Stochastic representation of the quantum quartic oscillator. SciPost Physics Core. 6(2), 029.","chicago":"Tucci, Gennaro, Stefano De Nicola, Sascha Wald, and Andrea Gambassi. “Stochastic Representation of the Quantum Quartic Oscillator.” <i>SciPost Physics Core</i>. SciPost Foundation, 2023. <a href=\"https://doi.org/10.21468/scipostphyscore.6.2.029\">https://doi.org/10.21468/scipostphyscore.6.2.029</a>.","ama":"Tucci G, De Nicola S, Wald S, Gambassi A. Stochastic representation of the quantum quartic oscillator. <i>SciPost Physics Core</i>. 2023;6(2). doi:<a href=\"https://doi.org/10.21468/scipostphyscore.6.2.029\">10.21468/scipostphyscore.6.2.029</a>","ieee":"G. Tucci, S. De Nicola, S. Wald, and A. Gambassi, “Stochastic representation of the quantum quartic oscillator,” <i>SciPost Physics Core</i>, vol. 6, no. 2. SciPost Foundation, 2023.","apa":"Tucci, G., De Nicola, S., Wald, S., &#38; Gambassi, A. (2023). Stochastic representation of the quantum quartic oscillator. <i>SciPost Physics Core</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/scipostphyscore.6.2.029\">https://doi.org/10.21468/scipostphyscore.6.2.029</a>","mla":"Tucci, Gennaro, et al. “Stochastic Representation of the Quantum Quartic Oscillator.” <i>SciPost Physics Core</i>, vol. 6, no. 2, 029, SciPost Foundation, 2023, doi:<a href=\"https://doi.org/10.21468/scipostphyscore.6.2.029\">10.21468/scipostphyscore.6.2.029</a>.","short":"G. Tucci, S. De Nicola, S. Wald, A. Gambassi, SciPost Physics Core 6 (2023)."},"date_updated":"2023-07-31T09:03:28Z","author":[{"first_name":"Gennaro","last_name":"Tucci","full_name":"Tucci, Gennaro"},{"first_name":"Stefano","last_name":"De Nicola","orcid":"0000-0002-4842-6671","id":"42832B76-F248-11E8-B48F-1D18A9856A87","full_name":"De Nicola, Stefano"},{"full_name":"Wald, Sascha","first_name":"Sascha","last_name":"Wald"},{"last_name":"Gambassi","first_name":"Andrea","full_name":"Gambassi, Andrea"}],"department":[{"_id":"MaSe"}],"publisher":"SciPost Foundation","month":"04","acknowledgement":"S. De Nicola acknowledges funding from the Institute of Science and Technology Austria (ISTA), and from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411. S. De Nicola also acknowledges funding from the EPSRC Center for Doctoral Training in Cross-Disciplinary Approaches to NonEquilibrium Systems (CANES) under Grant EP/L015854/1. ","arxiv":1,"ddc":["530"],"intvolume":"         6","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/scipostphyscore.6.2.029","date_published":"2023-04-14T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2023-07-31T09:02:27Z","volume":6,"type":"journal_article"},{"isi":1,"month":"01","department":[{"_id":"MiLe"}],"publisher":"SciPost Foundation","scopus_import":"1","arxiv":1,"ddc":["530"],"intvolume":"        14","date_published":"2023-01-24T00:00:00Z","doi":"10.21468/scipostphys.14.1.006","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"}],"file_date_updated":"2023-07-31T08:44:38Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","volume":14,"quality_controlled":"1","keyword":["General Physics and Astronomy"],"article_processing_charge":"No","oa_version":"Published Version","publication_status":"published","article_type":"original","abstract":[{"text":"We present a numerical analysis of spin-1/2 fermions in a one-dimensional harmonic potential in the presence of a magnetic point-like impurity at the center of the trap. The model represents a few-body analogue of a magnetic impurity in the vicinity of an s-wave superconductor. Already for a few particles we find a ground-state level crossing between sectors with different fermion parities. We interpret this crossing as a few-body precursor of a quantum phase transition, which occurs when the impurity \"breaks\" a Cooper pair. This picture is further corroborated by analyzing density-density correlations in momentum space. Finally, we discuss how the system may be realized with existing cold-atoms platforms.","lang":"eng"}],"file":[{"success":1,"date_created":"2023-07-31T08:44:38Z","relation":"main_file","file_id":"13328","file_name":"2023_SciPostPhysics_Rammelmueller.pdf","date_updated":"2023-07-31T08:44:38Z","content_type":"application/pdf","file_size":1163444,"checksum":"ffdb70b9ae7aa45ea4ea6096ecbd6431","creator":"dernst","access_level":"open_access"}],"date_created":"2023-07-24T10:48:23Z","_id":"13278","year":"2023","has_accepted_license":"1","issue":"1","article_number":"006","external_id":{"arxiv":["2204.01606"],"isi":["001000325800008"]},"title":"Magnetic impurity in a one-dimensional few-fermion system","day":"24","oa":1,"publication_identifier":{"issn":["2542-4653"]},"publication":"SciPost Physics","author":[{"first_name":"Lukas","last_name":"Rammelmüller","full_name":"Rammelmüller, Lukas"},{"full_name":"Huber, David","first_name":"David","last_name":"Huber"},{"last_name":"Čufar","first_name":"Matija","full_name":"Čufar, Matija"},{"full_name":"Brand, Joachim","last_name":"Brand","first_name":"Joachim"},{"full_name":"Hammer, Hans-Werner","first_name":"Hans-Werner","last_name":"Hammer"},{"last_name":"Volosniev","first_name":"Artem","orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem","id":"37D278BC-F248-11E8-B48F-1D18A9856A87"}],"citation":{"short":"L. Rammelmüller, D. Huber, M. Čufar, J. Brand, H.-W. Hammer, A. Volosniev, SciPost Physics 14 (2023).","mla":"Rammelmüller, Lukas, et al. “Magnetic Impurity in a One-Dimensional Few-Fermion System.” <i>SciPost Physics</i>, vol. 14, no. 1, 006, SciPost Foundation, 2023, doi:<a href=\"https://doi.org/10.21468/scipostphys.14.1.006\">10.21468/scipostphys.14.1.006</a>.","apa":"Rammelmüller, L., Huber, D., Čufar, M., Brand, J., Hammer, H.-W., &#38; Volosniev, A. (2023). Magnetic impurity in a one-dimensional few-fermion system. <i>SciPost Physics</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/scipostphys.14.1.006\">https://doi.org/10.21468/scipostphys.14.1.006</a>","ieee":"L. Rammelmüller, D. Huber, M. Čufar, J. Brand, H.-W. Hammer, and A. Volosniev, “Magnetic impurity in a one-dimensional few-fermion system,” <i>SciPost Physics</i>, vol. 14, no. 1. SciPost Foundation, 2023.","ama":"Rammelmüller L, Huber D, Čufar M, Brand J, Hammer H-W, Volosniev A. Magnetic impurity in a one-dimensional few-fermion system. <i>SciPost Physics</i>. 2023;14(1). doi:<a href=\"https://doi.org/10.21468/scipostphys.14.1.006\">10.21468/scipostphys.14.1.006</a>","chicago":"Rammelmüller, Lukas, David Huber, Matija Čufar, Joachim Brand, Hans-Werner Hammer, and Artem Volosniev. “Magnetic Impurity in a One-Dimensional Few-Fermion System.” <i>SciPost Physics</i>. SciPost Foundation, 2023. <a href=\"https://doi.org/10.21468/scipostphys.14.1.006\">https://doi.org/10.21468/scipostphys.14.1.006</a>.","ista":"Rammelmüller L, Huber D, Čufar M, Brand J, Hammer H-W, Volosniev A. 2023. Magnetic impurity in a one-dimensional few-fermion system. SciPost Physics. 14(1), 006."},"date_updated":"2023-12-13T11:39:32Z"},{"page":"184","department":[{"_id":"GradSch"},{"_id":"GeKa"}],"publisher":"Institute of Science and Technology Austria","month":"07","degree_awarded":"PhD","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","type":"dissertation","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file_date_updated":"2023-08-11T14:39:17Z","language":[{"iso":"eng"}],"tmp":{"image":"/images/cc_by_nc_sa.png","short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"status":"public","doi":"10.15479/at:ista:13286","date_published":"2023-07-21T00:00:00Z","alternative_title":["ISTA Thesis"],"ddc":["530"],"acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"year":"2023","_id":"13286","date_created":"2023-07-24T14:10:45Z","ec_funded":1,"file":[{"date_updated":"2023-08-11T10:01:34Z","file_id":"14033","date_created":"2023-08-11T09:27:39Z","relation":"source_file","file_name":"PhD_thesis_Valentini_final.zip","access_level":"closed","creator":"mvalenti","content_type":"application/x-zip-compressed","file_size":56121429,"checksum":"666ee31c7eade89679806287c062fa14"},{"date_updated":"2023-08-11T14:39:17Z","file_name":"PhD_thesis_Valentini_final_validated.pdf","file_id":"14035","relation":"main_file","date_created":"2023-08-11T14:39:17Z","access_level":"open_access","creator":"mvalenti","checksum":"0992f2ebef152dee8e70055350ebbb55","file_size":38199711,"content_type":"application/pdf"}],"abstract":[{"lang":"eng","text":"Semiconductor-superconductor hybrid systems are the harbour of many intriguing mesoscopic phenomena. This material combination leads to spatial variations of the superconducting properties, which gives rise to Andreev bound states (ABSs). Some of these states might exhibit remarkable properties that render them highly desirable for topological quantum computing. The most prominent and hunted of such states are Majorana zero modes (MZMs), quasiparticles equals to their own quasiparticles that they follow non-abelian statistics. In this thesis, we first introduce the general framework of such hybrid systems and, then, we unveil a series of mesoscopic phenomena that we discovered. Firstly, we show tunneling spectroscopy experiments on full-shell nanowires (NWs) showing that unwanted quantum-dot states coupled to superconductors (Yu-Shiba-Rusinov states) can mimic MZMs signatures. Then, we introduce a novel protocol which allowed the integration of tunneling spectroscopy with Coulomb spectroscopy within the same device. Employing this approach on both full-shell NWs and partial-shell NWs, we demonstrated that longitudinally confined states reveal charge transport phenomenology similar to the one expected for MZMs. These findings shed light on the intricate interplay between superconductivity and quantum confinement, which brought us to explore another material platform, i.e. a two-dimensional Germanium hole gas. After developing a robust way to induce superconductivity in such system, we showed how to engineer the proximity effect and we revealed a superconducting hard gap. Finally, we created a superconducting radio frequency driven ideal diode and a generator of non-sinusoidal current-phase relations. Our results open the path for the exploration of protected superconducting qubits and more complex hybrid devices in planar Germanium, like Kitaev chains and hybrid qubit devices."}],"related_material":{"record":[{"id":"13312","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"12118","status":"public"},{"status":"public","id":"8910","relation":"part_of_dissertation"},{"relation":"research_data","id":"12522","status":"public"}]},"publication_status":"published","oa_version":"Published Version","article_processing_charge":"No","supervisor":[{"orcid":"0000-0001-8342-202X","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","full_name":"Katsaros, Georgios","last_name":"Katsaros","first_name":"Georgios"}],"author":[{"last_name":"Valentini","first_name":"Marco","id":"C0BB2FAC-D767-11E9-B658-BC13E6697425","full_name":"Valentini, Marco"}],"citation":{"short":"M. Valentini, Mesoscopic Phenomena in Hybrid Semiconductor-Superconductor Nanodevices : From Full-Shell Nanowires to Two-Dimensional Hole Gas in Germanium, Institute of Science and Technology Austria, 2023.","apa":"Valentini, M. (2023). <i>Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:13286\">https://doi.org/10.15479/at:ista:13286</a>","ieee":"M. Valentini, “Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium,” Institute of Science and Technology Austria, 2023.","ama":"Valentini M. Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:13286\">10.15479/at:ista:13286</a>","mla":"Valentini, Marco. <i>Mesoscopic Phenomena in Hybrid Semiconductor-Superconductor Nanodevices : From Full-Shell Nanowires to Two-Dimensional Hole Gas in Germanium</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:13286\">10.15479/at:ista:13286</a>.","ista":"Valentini M. 2023. Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium. Institute of Science and Technology Austria.","chicago":"Valentini, Marco. “Mesoscopic Phenomena in Hybrid Semiconductor-Superconductor Nanodevices : From Full-Shell Nanowires to Two-Dimensional Hole Gas in Germanium.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:13286\">https://doi.org/10.15479/at:ista:13286</a>."},"date_updated":"2024-02-21T12:35:34Z","publication_identifier":{"issn":["2663 - 337X"]},"oa":1,"day":"21","project":[{"_id":"262116AA-B435-11E9-9278-68D0E5697425","name":"Hybrid Semiconductor - Superconductor Quantum Devices"},{"name":"TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS","call_identifier":"H2020","_id":"237E5020-32DE-11EA-91FC-C7463DDC885E","grant_number":"862046"},{"grant_number":"F8606","_id":"34a66131-11ca-11ed-8bc3-a31681c6b03e","name":"Conventional and unconventional topological superconductors"}],"title":"Mesoscopic phenomena in hybrid semiconductor-superconductor nanodevices : From full-shell nanowires to two-dimensional hole gas in germanium","has_accepted_license":"1"},{"arxiv":1,"page":"129:1--129:20","conference":{"start_date":"2023-07-10","location":"Paderborn, Germany","name":"ICALP: International Colloquium on Automata, Languages, and Programming","end_date":"2023-07-14"},"acknowledgement":"This work was supported in part by the ERC-2020-AdG 101020093.\r\nWe thank Pierre Ganty for early discussions and the anonymous reviewers for their helpful comments.\r\n","month":"07","department":[{"_id":"GradSch"},{"_id":"ToHe"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","type":"conference","volume":261,"file_date_updated":"2023-07-24T15:11:05Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-07-05T00:00:00Z","doi":"10.4230/LIPIcs.ICALP.2023.129","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"}],"ddc":["000"],"alternative_title":["LIPIcs"],"intvolume":"       261","ec_funded":1,"date_created":"2023-07-24T15:11:41Z","_id":"13292","year":"2023","publication_status":"published","abstract":[{"lang":"eng","text":"The operator precedence languages (OPLs) represent the largest known subclass of the context-free languages which enjoys all desirable closure and decidability properties. This includes the decidability of language inclusion, which is the ultimate verification problem. Operator precedence grammars, automata, and logics have been investigated and used, for example, to verify programs with arithmetic expressions and exceptions (both of which are deterministic pushdown but lie outside the scope of the visibly pushdown languages). In this paper, we complete the picture and give, for the first time, an algebraic characterization of the class of OPLs in the form of a syntactic congruence that has finitely many equivalence classes exactly for the operator precedence languages. This is a generalization of the celebrated Myhill-Nerode theorem for the regular languages to OPLs. As one of the consequences, we show that universality and language inclusion for nondeterministic operator precedence automata can be solved by an antichain algorithm. Antichain algorithms avoid determinization and complementation through an explicit subset construction, by leveraging a quasi-order on words, which allows the pruning of the search space for counterexample words without sacrificing completeness. Antichain algorithms can be implemented symbolically, and these implementations are today the best-performing algorithms in practice for the inclusion of finite automata. We give a generic construction of the quasi-order needed for antichain algorithms from a finite syntactic congruence. This yields the first antichain algorithm for OPLs, an algorithm that solves the ExpTime-hard language inclusion problem for OPLs in exponential time."}],"file":[{"file_name":"icalp23.pdf","success":1,"date_created":"2023-07-24T15:11:05Z","relation":"main_file","file_id":"13293","date_updated":"2023-07-24T15:11:05Z","checksum":"5d4c8932ef3450615a53b9bb15d92eb2","file_size":859379,"content_type":"application/pdf","creator":"esarac","access_level":"open_access"}],"quality_controlled":"1","article_processing_charge":"Yes","oa_version":"Published Version","date_updated":"2023-07-31T08:38:38Z","author":[{"first_name":"Thomas A","last_name":"Henzinger","orcid":"0000-0002-2985-7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A"},{"full_name":"Kebis, Pavol","last_name":"Kebis","first_name":"Pavol"},{"first_name":"Nicolas Adrien","last_name":"Mazzocchi","full_name":"Mazzocchi, Nicolas Adrien","id":"b26baa86-3308-11ec-87b0-8990f34baa85"},{"last_name":"Sarac","first_name":"Naci E","id":"8C6B42F8-C8E6-11E9-A03A-F2DCE5697425","full_name":"Sarac, Naci E"}],"citation":{"chicago":"Henzinger, Thomas A, Pavol Kebis, Nicolas Adrien Mazzocchi, and Naci E Sarac. “Regular Methods for Operator Precedence Languages.” In <i>50th International Colloquium on Automata, Languages, and Programming</i>, 261:129:1--129:20. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023. <a href=\"https://doi.org/10.4230/LIPIcs.ICALP.2023.129\">https://doi.org/10.4230/LIPIcs.ICALP.2023.129</a>.","ista":"Henzinger TA, Kebis P, Mazzocchi NA, Sarac NE. 2023. Regular methods for operator precedence languages. 50th International Colloquium on Automata, Languages, and Programming. ICALP: International Colloquium on Automata, Languages, and Programming, LIPIcs, vol. 261, 129:1--129:20.","mla":"Henzinger, Thomas A., et al. “Regular Methods for Operator Precedence Languages.” <i>50th International Colloquium on Automata, Languages, and Programming</i>, vol. 261, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, p. 129:1--129:20, doi:<a href=\"https://doi.org/10.4230/LIPIcs.ICALP.2023.129\">10.4230/LIPIcs.ICALP.2023.129</a>.","ama":"Henzinger TA, Kebis P, Mazzocchi NA, Sarac NE. Regular methods for operator precedence languages. In: <i>50th International Colloquium on Automata, Languages, and Programming</i>. Vol 261. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2023:129:1--129:20. doi:<a href=\"https://doi.org/10.4230/LIPIcs.ICALP.2023.129\">10.4230/LIPIcs.ICALP.2023.129</a>","ieee":"T. A. Henzinger, P. Kebis, N. A. Mazzocchi, and N. E. Sarac, “Regular methods for operator precedence languages,” in <i>50th International Colloquium on Automata, Languages, and Programming</i>, Paderborn, Germany, 2023, vol. 261, p. 129:1--129:20.","apa":"Henzinger, T. A., Kebis, P., Mazzocchi, N. A., &#38; Sarac, N. E. (2023). Regular methods for operator precedence languages. In <i>50th International Colloquium on Automata, Languages, and Programming</i> (Vol. 261, p. 129:1--129:20). Paderborn, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.ICALP.2023.129\">https://doi.org/10.4230/LIPIcs.ICALP.2023.129</a>","short":"T.A. Henzinger, P. Kebis, N.A. Mazzocchi, N.E. Sarac, in:, 50th International Colloquium on Automata, Languages, and Programming, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, p. 129:1--129:20."},"day":"05","oa":1,"publication_identifier":{"isbn":["9783959772785"],"eissn":["1868-8969"]},"publication":"50th International Colloquium on Automata, Languages, and Programming","title":"Regular methods for operator precedence languages","external_id":{"arxiv":["2305.03447"]},"project":[{"name":"Vigilant Algorithmic Monitoring of Software","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","grant_number":"101020093","call_identifier":"H2020"}],"has_accepted_license":"1"},{"ec_funded":1,"date_created":"2023-07-25T18:32:40Z","_id":"13310","year":"2023","quality_controlled":"1","article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","publication_status":"published","abstract":[{"text":"Machine-learned systems are in widespread use for making decisions about humans, and it is important that they are fair, i.e., not biased against individuals based on sensitive attributes. We present runtime verification of algorithmic fairness for systems whose models are unknown, but are assumed to have a Markov chain structure. We introduce a specification language that can model many common algorithmic fairness properties, such as demographic parity, equal opportunity, and social burden. We build monitors that observe a long sequence of events as generated by a given system, and output, after each observation, a quantitative estimate of how fair or biased the system was on that run until that point in time. The estimate is proven to be correct modulo a variable error bound and a given confidence level, where the error bound gets tighter as the observed sequence gets longer. Our monitors are of two types, and use, respectively, frequentist and Bayesian statistical inference techniques. While the frequentist monitors compute estimates that are objectively correct with respect to the ground truth, the Bayesian monitors compute estimates that are correct subject to a given prior belief about the system’s model. Using a prototype implementation, we show how we can monitor if a bank is fair in giving loans to applicants from different social backgrounds, and if a college is fair in admitting students while maintaining a reasonable financial burden on the society. Although they exhibit different theoretical complexities in certain cases, in our experiments, both frequentist and Bayesian monitors took less than a millisecond to update their verdicts after each observation.","lang":"eng"}],"file":[{"file_size":647760,"content_type":"application/pdf","checksum":"ccaf94bf7d658ba012c016e11869b54c","creator":"dernst","access_level":"open_access","relation":"main_file","date_created":"2023-07-31T08:11:20Z","success":1,"file_id":"13327","file_name":"2023_LNCS_CAV_HenzingerT.pdf","date_updated":"2023-07-31T08:11:20Z"}],"day":"18","oa":1,"publication_identifier":{"eissn":["1611-3349"],"isbn":["9783031377020"],"eisbn":["9783031377037"],"issn":["0302-9743"]},"publication":"Computer Aided Verification","citation":{"short":"T.A. Henzinger, M. Karimi, K. Kueffner, K. Mallik, in:, Computer Aided Verification, Springer Nature, 2023, pp. 358–382.","ista":"Henzinger TA, Karimi M, Kueffner K, Mallik K. 2023. Monitoring algorithmic fairness. Computer Aided Verification. CAV: Computer Aided Verification, LNCS, vol. 13965, 358–382.","chicago":"Henzinger, Thomas A, Mahyar Karimi, Konstantin Kueffner, and Kaushik Mallik. “Monitoring Algorithmic Fairness.” In <i>Computer Aided Verification</i>, 13965:358–382. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-3-031-37703-7_17\">https://doi.org/10.1007/978-3-031-37703-7_17</a>.","ieee":"T. A. Henzinger, M. Karimi, K. Kueffner, and K. Mallik, “Monitoring algorithmic fairness,” in <i>Computer Aided Verification</i>, Paris, France, 2023, vol. 13965, pp. 358–382.","apa":"Henzinger, T. A., Karimi, M., Kueffner, K., &#38; Mallik, K. (2023). Monitoring algorithmic fairness. In <i>Computer Aided Verification</i> (Vol. 13965, pp. 358–382). Paris, France: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-37703-7_17\">https://doi.org/10.1007/978-3-031-37703-7_17</a>","ama":"Henzinger TA, Karimi M, Kueffner K, Mallik K. Monitoring algorithmic fairness. In: <i>Computer Aided Verification</i>. Vol 13965. Springer Nature; 2023:358–382. doi:<a href=\"https://doi.org/10.1007/978-3-031-37703-7_17\">10.1007/978-3-031-37703-7_17</a>","mla":"Henzinger, Thomas A., et al. “Monitoring Algorithmic Fairness.” <i>Computer Aided Verification</i>, vol. 13965, Springer Nature, 2023, pp. 358–382, doi:<a href=\"https://doi.org/10.1007/978-3-031-37703-7_17\">10.1007/978-3-031-37703-7_17</a>."},"date_updated":"2023-09-05T15:14:00Z","author":[{"orcid":"0000-0002-2985-7724","full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","first_name":"Thomas A"},{"first_name":"Mahyar","last_name":"Karimi","orcid":"0009-0005-0820-1696","full_name":"Karimi, Mahyar","id":"f1dedef5-2f78-11ee-989a-c4c97bccf506"},{"first_name":"Konstantin","last_name":"Kueffner","id":"8121a2d0-dc85-11ea-9058-af578f3b4515","full_name":"Kueffner, Konstantin","orcid":"0000-0001-8974-2542"},{"first_name":"Kaushik","last_name":"Mallik","orcid":"0000-0001-9864-7475","id":"0834ff3c-6d72-11ec-94e0-b5b0a4fb8598","full_name":"Mallik, Kaushik"}],"has_accepted_license":"1","external_id":{"arxiv":["2305.15979"]},"title":"Monitoring algorithmic fairness","project":[{"_id":"62781420-2b32-11ec-9570-8d9b63373d4d","grant_number":"101020093","call_identifier":"H2020","name":"Vigilant Algorithmic Monitoring of Software"}],"acknowledgement":"This work is supported by the European Research Council under Grant No.: ERC-2020-AdG101020093.","arxiv":1,"conference":{"end_date":"2023-07-22","name":"CAV: Computer Aided Verification","start_date":"2023-07-17","location":"Paris, France"},"page":"358–382","month":"07","department":[{"_id":"GradSch"},{"_id":"ToHe"}],"publisher":"Springer Nature","file_date_updated":"2023-07-31T08:11:20Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","type":"conference","volume":13965,"intvolume":"     13965","alternative_title":["LNCS"],"ddc":["000"],"date_published":"2023-07-18T00:00:00Z","doi":"10.1007/978-3-031-37703-7_17","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_updated":"2024-02-07T07:52:32Z","citation":{"ista":"Valentini M, Sagi O, Baghumyan L, Gijsel T de, Jung J, Calcaterra S, Ballabio A, Servin JA, Aggarwal K, Janik M, Adletzberger T, Souto RS, Leijnse M, Danon J, Schrade C, Bakkers E, Chrastina D, Isella G, Katsaros G. Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas. arXiv, 2306.07109.","chicago":"Valentini, Marco, Oliver Sagi, Levon Baghumyan, Thijs de Gijsel, Jason Jung, Stefano Calcaterra, Andrea Ballabio, et al. “Radio Frequency Driven Superconducting Diode and Parity Conserving  Cooper Pair Transport in a Two-Dimensional Germanium Hole Gas.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2306.07109\">https://doi.org/10.48550/arXiv.2306.07109</a>.","apa":"Valentini, M., Sagi, O., Baghumyan, L., Gijsel, T. de, Jung, J., Calcaterra, S., … Katsaros, G. (n.d.). Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2306.07109\">https://doi.org/10.48550/arXiv.2306.07109</a>","ama":"Valentini M, Sagi O, Baghumyan L, et al. Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2306.07109\">10.48550/arXiv.2306.07109</a>","ieee":"M. Valentini <i>et al.</i>, “Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas,” <i>arXiv</i>. .","mla":"Valentini, Marco, et al. “Radio Frequency Driven Superconducting Diode and Parity Conserving  Cooper Pair Transport in a Two-Dimensional Germanium Hole Gas.” <i>ArXiv</i>, 2306.07109, doi:<a href=\"https://doi.org/10.48550/arXiv.2306.07109\">10.48550/arXiv.2306.07109</a>.","short":"M. Valentini, O. Sagi, L. Baghumyan, T. de Gijsel, J. Jung, S. Calcaterra, A. Ballabio, J.A. Servin, K. Aggarwal, M. Janik, T. Adletzberger, R.S. Souto, M. Leijnse, J. Danon, C. Schrade, E. Bakkers, D. Chrastina, G. Isella, G. Katsaros, ArXiv (n.d.)."},"author":[{"last_name":"Valentini","first_name":"Marco","id":"C0BB2FAC-D767-11E9-B658-BC13E6697425","full_name":"Valentini, Marco"},{"id":"71616374-A8E9-11E9-A7CA-09ECE5697425","full_name":"Sagi, Oliver","first_name":"Oliver","last_name":"Sagi"},{"last_name":"Baghumyan","first_name":"Levon","full_name":"Baghumyan, Levon"},{"full_name":"Gijsel, Thijs de","first_name":"Thijs de","last_name":"Gijsel"},{"last_name":"Jung","first_name":"Jason","full_name":"Jung, Jason","id":"4C9ACE7A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Calcaterra, Stefano","last_name":"Calcaterra","first_name":"Stefano"},{"last_name":"Ballabio","first_name":"Andrea","full_name":"Ballabio, Andrea"},{"full_name":"Servin, Juan Aguilera","first_name":"Juan Aguilera","last_name":"Servin"},{"last_name":"Aggarwal","first_name":"Kushagra","orcid":"0000-0001-9985-9293","id":"b22ab905-3539-11eb-84c3-fc159dcd79cb","full_name":"Aggarwal, Kushagra"},{"first_name":"Marian","last_name":"Janik","full_name":"Janik, Marian","id":"396A1950-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Thomas","last_name":"Adletzberger","full_name":"Adletzberger, Thomas","id":"38756BB2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Souto, Rubén Seoane","first_name":"Rubén Seoane","last_name":"Souto"},{"full_name":"Leijnse, Martin","last_name":"Leijnse","first_name":"Martin"},{"first_name":"Jeroen","last_name":"Danon","full_name":"Danon, Jeroen"},{"full_name":"Schrade, Constantin","last_name":"Schrade","first_name":"Constantin"},{"full_name":"Bakkers, Erik","last_name":"Bakkers","first_name":"Erik"},{"first_name":"Daniel","last_name":"Chrastina","full_name":"Chrastina, Daniel"},{"full_name":"Isella, Giovanni","first_name":"Giovanni","last_name":"Isella"},{"first_name":"Georgios","last_name":"Katsaros","full_name":"Katsaros, Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8342-202X"}],"publication":"arXiv","oa":1,"day":"13","project":[{"grant_number":"862046","call_identifier":"H2020","_id":"237E5020-32DE-11EA-91FC-C7463DDC885E","name":"TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS"},{"grant_number":"P32235","_id":"237B3DA4-32DE-11EA-91FC-C7463DDC885E","call_identifier":"FWF","name":"Towards scalable hut wire quantum devices"},{"name":"Merging spin and superconducting qubits in planar Ge","grant_number":"P36507","_id":"bd8bd29e-d553-11ed-ba76-f0070d4b237a"},{"grant_number":"F8606","_id":"34a66131-11ca-11ed-8bc3-a31681c6b03e","name":"Conventional and unconventional topological superconductors"},{"_id":"bd5b4ec5-d553-11ed-ba76-a6eedb083344","name":"Protected states of quantum matter"}],"external_id":{"arxiv":["2306.07109"]},"title":"Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas","article_number":"2306.07109","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"year":"2023","_id":"13312","date_created":"2023-07-26T11:17:20Z","ec_funded":1,"abstract":[{"text":"Superconductor/semiconductor hybrid devices have attracted increasing\r\ninterest in the past years. Superconducting electronics aims to complement\r\nsemiconductor technology, while hybrid architectures are at the forefront of\r\nnew ideas such as topological superconductivity and protected qubits. In this\r\nwork, we engineer the induced superconductivity in two-dimensional germanium\r\nhole gas by varying the distance between the quantum well and the aluminum. We\r\ndemonstrate a hard superconducting gap and realize an electrically and flux\r\ntunable superconducting diode using a superconducting quantum interference\r\ndevice (SQUID). This allows to tune the current phase relation (CPR), to a\r\nregime where single Cooper pair tunneling is suppressed, creating a $ \\sin\r\n\\left( 2 \\varphi \\right)$ CPR. Shapiro experiments complement this\r\ninterpretation and the microwave drive allows to create a diode with $ \\approx\r\n100 \\%$ efficiency. The reported results open up the path towards monolithic\r\nintegration of spin qubit devices, microwave resonators and (protected)\r\nsuperconducting qubits on a silicon technology compatible platform.","lang":"eng"}],"publication_status":"submitted","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"13286"}]},"oa_version":"Preprint","article_processing_charge":"No","keyword":["Mesoscale and Nanoscale Physics"],"type":"preprint","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","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":"10.48550/arXiv.2306.07109","date_published":"2023-06-13T00:00:00Z","ddc":["530"],"arxiv":1,"acknowledgement":"The authors acknowledge Alexander Brinkmann, Alessandro Crippa, Andrew Higginbotham, Andrea Iorio, Giordano\r\nScappucci and Christian Schonenberger for helpful discussions. We thank Marcel Verheijen for the support in the\r\nTEM analysis. This research and related results were made\r\npossible with the support of the NOMIS Foundation. It was\r\nsupported by the Scientific Service Units of ISTA through resources provided by the MIBA Machine Shop and the\r\nnanofabrication facility, the European Union’s Horizon 2020\r\nresearch and innovation programme under Grant Agreement\r\nNo 862046, the HORIZON-RIA 101069515 project and the\r\nFWF Projects #P-32235, #P-36507 and #F-8606. R.S.S.\r\nacknowledges Spanish CM “Talento Program” Project No.\r\n2022-T1/IND-24070.","department":[{"_id":"GeKa"},{"_id":"M-Shop"}],"month":"06","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2306.07109","open_access":"1"}]},{"abstract":[{"text":"The emergence of large-scale order in self-organized systems relies on local interactions between individual components. During bacterial cell division, FtsZ—a prokaryotic homologue of the eukaryotic protein tubulin—polymerizes into treadmilling filaments that further organize into a cytoskeletal ring. In vitro, FtsZ filaments can form dynamic chiral assemblies. However, how the active and passive properties of individual filaments relate to these large-scale self-organized structures remains poorly understood. Here we connect single-filament properties with the mesoscopic scale by combining minimal active matter simulations and biochemical reconstitution experiments. We show that the density and flexibility of active chiral filaments define their global order. At intermediate densities, curved, flexible filaments organize into chiral rings and polar bands. An effectively nematic organization dominates for high densities and for straight, mutant filaments with increased rigidity. Our predicted phase diagram quantitatively captures these features, demonstrating how the flexibility, density and chirality of the active filaments affect their collective behaviour. Our findings shed light on the fundamental properties of active chiral matter and explain how treadmilling FtsZ filaments organize during bacterial cell division.","lang":"eng"}],"file":[{"access_level":"open_access","creator":"dernst","checksum":"bc7673ca07d37309013a86166577b2f7","content_type":"application/pdf","file_size":22471673,"date_updated":"2024-01-30T14:28:30Z","file_name":"2023_NaturePhysics_Dunajova.pdf","file_id":"14916","relation":"main_file","success":1,"date_created":"2024-01-30T14:28:30Z"}],"publication_status":"published","related_material":{"record":[{"id":"13116","status":"public","relation":"research_data"}]},"article_type":"original","article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","quality_controlled":"1","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"_id":"13314","year":"2023","pmid":1,"date_created":"2023-07-27T14:44:45Z","ec_funded":1,"title":"Chiral and nematic phases of flexible active filaments","external_id":{"pmid":["38075437"]},"project":[{"grant_number":"679239","call_identifier":"H2020","_id":"2595697A-B435-11E9-9278-68D0E5697425","name":"Self-Organization of the Bacterial Cell"},{"name":"Understanding bacterial cell division by in vitro\r\nreconstitution","grant_number":"P34607","_id":"fc38323b-9c52-11eb-aca3-ff8afb4a011d"},{"_id":"34d75525-11ca-11ed-8bc3-89b6307fee9d","grant_number":"26360","name":"Motile active matter models of migrating cells and chiral filaments"}],"has_accepted_license":"1","author":[{"id":"4B39F286-F248-11E8-B48F-1D18A9856A87","full_name":"Dunajova, Zuzana","last_name":"Dunajova","first_name":"Zuzana"},{"id":"299FE892-F248-11E8-B48F-1D18A9856A87","full_name":"Prats Mateu, Batirtze","last_name":"Prats Mateu","first_name":"Batirtze"},{"last_name":"Radler","first_name":"Philipp","orcid":"0000-0001-9198-2182 ","id":"40136C2A-F248-11E8-B48F-1D18A9856A87","full_name":"Radler, Philipp"},{"full_name":"Lim, Keesiang","first_name":"Keesiang","last_name":"Lim"},{"full_name":"Brandis, Dörte","id":"21d64d35-f128-11eb-9611-b8bcca7a12fd","last_name":"Brandis","first_name":"Dörte"},{"last_name":"Velicky","first_name":"Philipp","orcid":"0000-0002-2340-7431","full_name":"Velicky, Philipp","id":"39BDC62C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Johann G","last_name":"Danzl","full_name":"Danzl, Johann G","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8559-3973"},{"last_name":"Wong","first_name":"Richard W.","full_name":"Wong, Richard W."},{"first_name":"Jens","last_name":"Elgeti","full_name":"Elgeti, Jens"},{"full_name":"Hannezo, Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561","first_name":"Edouard B","last_name":"Hannezo"},{"first_name":"Martin","last_name":"Loose","id":"462D4284-F248-11E8-B48F-1D18A9856A87","full_name":"Loose, Martin","orcid":"0000-0001-7309-9724"}],"citation":{"ista":"Dunajova Z, Prats Mateu B, Radler P, Lim K, Brandis D, Velicky P, Danzl JG, Wong RW, Elgeti J, Hannezo EB, Loose M. 2023. Chiral and nematic phases of flexible active filaments. Nature Physics. 19, 1916–1926.","chicago":"Dunajova, Zuzana, Batirtze Prats Mateu, Philipp Radler, Keesiang Lim, Dörte Brandis, Philipp Velicky, Johann G Danzl, et al. “Chiral and Nematic Phases of Flexible Active Filaments.” <i>Nature Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41567-023-02218-w\">https://doi.org/10.1038/s41567-023-02218-w</a>.","apa":"Dunajova, Z., Prats Mateu, B., Radler, P., Lim, K., Brandis, D., Velicky, P., … Loose, M. (2023). Chiral and nematic phases of flexible active filaments. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-023-02218-w\">https://doi.org/10.1038/s41567-023-02218-w</a>","ieee":"Z. Dunajova <i>et al.</i>, “Chiral and nematic phases of flexible active filaments,” <i>Nature Physics</i>, vol. 19. Springer Nature, pp. 1916–1926, 2023.","ama":"Dunajova Z, Prats Mateu B, Radler P, et al. Chiral and nematic phases of flexible active filaments. <i>Nature Physics</i>. 2023;19:1916-1926. doi:<a href=\"https://doi.org/10.1038/s41567-023-02218-w\">10.1038/s41567-023-02218-w</a>","mla":"Dunajova, Zuzana, et al. “Chiral and Nematic Phases of Flexible Active Filaments.” <i>Nature Physics</i>, vol. 19, Springer Nature, 2023, pp. 1916–26, doi:<a href=\"https://doi.org/10.1038/s41567-023-02218-w\">10.1038/s41567-023-02218-w</a>.","short":"Z. Dunajova, B. Prats Mateu, P. Radler, K. Lim, D. Brandis, P. Velicky, J.G. Danzl, R.W. Wong, J. Elgeti, E.B. Hannezo, M. Loose, Nature Physics 19 (2023) 1916–1926."},"date_updated":"2024-02-21T12:19:08Z","oa":1,"publication":"Nature Physics","publication_identifier":{"eissn":["1745-2481"],"issn":["1745-2473"]},"day":"01","month":"12","department":[{"_id":"JoDa"},{"_id":"EdHa"},{"_id":"MaLo"},{"_id":"GradSch"}],"publisher":"Springer Nature","page":"1916-1926","scopus_import":"1","acknowledgement":"This work was supported by the European Research Council through grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607 to M.L., B. P.M. was also supported by the Kanazawa University WPI- NanoLSI Bio-SPM collaborative research program. Z.D. has received funding from Doctoral Programme of the Austrian Academy of Sciences (OeAW): Grant agreement 26360. We thank Jan Brugues (MPI CBG, Dresden, Germany), Andela Saric (ISTA, Klosterneuburg, Austria), Daniel Pearce (Uni Geneva, Switzerland) for valuable scientific input and comments on the manuscript. We are also thankful for the support by the Scientific Service Units (SSU) of IST Austria through resources provided by the Imaging and Optics Facility (IOF) and the Lab Support Facility (LSF).","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":"2023-12-01T00:00:00Z","doi":"10.1038/s41567-023-02218-w","ddc":["530"],"intvolume":"        19","volume":19,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2024-01-30T14:28:30Z"},{"acknowledgement":"J.B. was funded by the European Union (ERC, CHORAL, project number 101039794). Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union or the European Research Council. Neither the European Union nor the granting authority can be held responsible for them. M.M. was supported by the 2019 Lopez-Loreta Prize. We would like to thank the reviewers for the insightful comments and, in particular, for suggesting the BAMP-inspired denoisers leading to AMP-AP.","scopus_import":"1","publisher":"National Academy of Sciences","department":[{"_id":"MaMo"}],"month":"07","type":"journal_article","volume":120,"file_date_updated":"2023-07-31T07:30:48Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1073/pnas.2302028120","date_published":"2023-07-25T00:00:00Z","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","ddc":["000"],"intvolume":"       120","pmid":1,"date_created":"2023-07-30T22:01:02Z","year":"2023","_id":"13315","article_type":"original","related_material":{"link":[{"url":"https://github.com/fcamilli95/Structured-PCA-","relation":"software"}]},"publication_status":"published","file":[{"date_updated":"2023-07-31T07:30:48Z","file_name":"2023_PNAS_Barbier.pdf","relation":"main_file","date_created":"2023-07-31T07:30:48Z","success":1,"file_id":"13323","creator":"dernst","access_level":"open_access","checksum":"1fc06228afdb3aa80cf8e7766bcf9dc5","content_type":"application/pdf","file_size":995933}],"abstract":[{"lang":"eng","text":"How do statistical dependencies in measurement noise influence high-dimensional inference? To answer this, we study the paradigmatic spiked matrix model of principal components analysis (PCA), where a rank-one matrix is corrupted by additive noise. We go beyond the usual independence assumption on the noise entries, by drawing the noise from a low-order polynomial orthogonal matrix ensemble. The resulting noise correlations make the setting relevant for applications but analytically challenging. We provide characterization of the Bayes optimal limits of inference in this model. If the spike is rotation invariant, we show that standard spectral PCA is optimal. However, for more general priors, both PCA and the existing approximate message-passing algorithm (AMP) fall short of achieving the information-theoretic limits, which we compute using the replica method from statistical physics. We thus propose an AMP, inspired by the theory of adaptive Thouless–Anderson–Palmer equations, which is empirically observed to saturate the conjectured theoretical limit. This AMP comes with a rigorous state evolution analysis tracking its performance. Although we focus on specific noise distributions, our methodology can be generalized to a wide class of trace matrix ensembles at the cost of more involved expressions. Finally, despite the seemingly strong assumption of rotation-invariant noise, our theory empirically predicts algorithmic performance on real data, pointing at strong universality properties."}],"quality_controlled":"1","oa_version":"Published Version","article_processing_charge":"Yes (in subscription journal)","author":[{"first_name":"Jean","last_name":"Barbier","full_name":"Barbier, Jean"},{"last_name":"Camilli","first_name":"Francesco","full_name":"Camilli, Francesco"},{"last_name":"Mondelli","first_name":"Marco","orcid":"0000-0002-3242-7020","full_name":"Mondelli, Marco","id":"27EB676C-8706-11E9-9510-7717E6697425"},{"full_name":"Sáenz, Manuel","last_name":"Sáenz","first_name":"Manuel"}],"date_updated":"2024-09-10T13:03:18Z","citation":{"short":"J. Barbier, F. Camilli, M. Mondelli, M. Sáenz, Proceedings of the National Academy of Sciences of the United States of America 120 (2023).","chicago":"Barbier, Jean, Francesco Camilli, Marco Mondelli, and Manuel Sáenz. “Fundamental Limits in Structured Principal Component Analysis and How to Reach Them.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2023. <a href=\"https://doi.org/10.1073/pnas.2302028120\">https://doi.org/10.1073/pnas.2302028120</a>.","ista":"Barbier J, Camilli F, Mondelli M, Sáenz M. 2023. Fundamental limits in structured principal component analysis and how to reach them. Proceedings of the National Academy of Sciences of the United States of America. 120(30), e2302028120.","mla":"Barbier, Jean, et al. “Fundamental Limits in Structured Principal Component Analysis and How to Reach Them.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 120, no. 30, e2302028120, National Academy of Sciences, 2023, doi:<a href=\"https://doi.org/10.1073/pnas.2302028120\">10.1073/pnas.2302028120</a>.","ieee":"J. Barbier, F. Camilli, M. Mondelli, and M. Sáenz, “Fundamental limits in structured principal component analysis and how to reach them,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 120, no. 30. National Academy of Sciences, 2023.","ama":"Barbier J, Camilli F, Mondelli M, Sáenz M. Fundamental limits in structured principal component analysis and how to reach them. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2023;120(30). doi:<a href=\"https://doi.org/10.1073/pnas.2302028120\">10.1073/pnas.2302028120</a>","apa":"Barbier, J., Camilli, F., Mondelli, M., &#38; Sáenz, M. (2023). Fundamental limits in structured principal component analysis and how to reach them. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2302028120\">https://doi.org/10.1073/pnas.2302028120</a>"},"day":"25","publication_identifier":{"eissn":["1091-6490"]},"publication":"Proceedings of the National Academy of Sciences of the United States of America","oa":1,"project":[{"name":"Prix Lopez-Loretta 2019 - Marco Mondelli","_id":"059876FA-7A3F-11EA-A408-12923DDC885E"}],"external_id":{"pmid":["37463204"]},"title":"Fundamental limits in structured principal component analysis and how to reach them","has_accepted_license":"1","article_number":"e2302028120","issue":"30"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2023-07-31T07:43:00Z","volume":12,"type":"journal_article","intvolume":"        12","ddc":["570"],"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":"2023-07-21T00:00:00Z","doi":"10.7554/eLife.84850","scopus_import":"1","acknowledgement":"This work was supported by JSPS KAKENHI grant #18K062291, and the Takeda Science Foundation to JYT., as well as JSPS KAKENHI grant #19K065710, the Takeda Science Foundation, and Life Science Foundation of Japan to JT.","isi":1,"month":"07","publisher":"eLife Sciences Publications","department":[{"_id":"DaSi"}],"oa":1,"publication_identifier":{"eissn":["2050-084X"]},"publication":"eLife","day":"21","author":[{"full_name":"Toshima, Junko Y.","first_name":"Junko Y.","last_name":"Toshima"},{"last_name":"Tsukahara","first_name":"Ayana","full_name":"Tsukahara, Ayana"},{"full_name":"Nagano, Makoto","first_name":"Makoto","last_name":"Nagano"},{"full_name":"Tojima, Takuro","last_name":"Tojima","first_name":"Takuro"},{"full_name":"Siekhaus, Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8323-8353","first_name":"Daria E","last_name":"Siekhaus"},{"full_name":"Nakano, Akihiko","last_name":"Nakano","first_name":"Akihiko"},{"first_name":"Jiro","last_name":"Toshima","full_name":"Toshima, Jiro"}],"date_updated":"2023-12-13T11:37:36Z","citation":{"apa":"Toshima, J. Y., Tsukahara, A., Nagano, M., Tojima, T., Siekhaus, D. E., Nakano, A., &#38; Toshima, J. (2023). The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.84850\">https://doi.org/10.7554/eLife.84850</a>","ieee":"J. Y. Toshima <i>et al.</i>, “The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network,” <i>eLife</i>, vol. 12. eLife Sciences Publications, 2023.","ama":"Toshima JY, Tsukahara A, Nagano M, et al. The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network. <i>eLife</i>. 2023;12. doi:<a href=\"https://doi.org/10.7554/eLife.84850\">10.7554/eLife.84850</a>","mla":"Toshima, Junko Y., et al. “The Yeast Endocytic Early/Sorting Compartment Exists as an Independent Sub-Compartment within the Trans-Golgi Network.” <i>ELife</i>, vol. 12, e84850, eLife Sciences Publications, 2023, doi:<a href=\"https://doi.org/10.7554/eLife.84850\">10.7554/eLife.84850</a>.","ista":"Toshima JY, Tsukahara A, Nagano M, Tojima T, Siekhaus DE, Nakano A, Toshima J. 2023. The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network. eLife. 12, e84850.","chicago":"Toshima, Junko Y., Ayana Tsukahara, Makoto Nagano, Takuro Tojima, Daria E Siekhaus, Akihiko Nakano, and Jiro Toshima. “The Yeast Endocytic Early/Sorting Compartment Exists as an Independent Sub-Compartment within the Trans-Golgi Network.” <i>ELife</i>. eLife Sciences Publications, 2023. <a href=\"https://doi.org/10.7554/eLife.84850\">https://doi.org/10.7554/eLife.84850</a>.","short":"J.Y. Toshima, A. Tsukahara, M. Nagano, T. Tojima, D.E. Siekhaus, A. Nakano, J. Toshima, ELife 12 (2023)."},"article_number":"e84850","has_accepted_license":"1","title":"The yeast endocytic early/sorting compartment exists as an independent sub-compartment within the trans-Golgi network","external_id":{"isi":["001035372800001"],"pmid":["37477116"]},"_id":"13316","year":"2023","pmid":1,"date_created":"2023-07-30T22:01:02Z","article_processing_charge":"Yes","oa_version":"Published Version","quality_controlled":"1","abstract":[{"lang":"eng","text":"Although budding yeast has been extensively used as a model organism for studying organelle functions and intracellular vesicle trafficking, whether it possesses an independent endocytic early/sorting compartment that sorts endocytic cargos to the endo-lysosomal pathway or the recycling pathway has long been unclear. The structure and properties of the endocytic early/sorting compartment differ significantly between organisms; in plant cells, the trans-Golgi network (TGN) serves this role, whereas in mammalian cells a separate intracellular structure performs this function. The yeast syntaxin homolog Tlg2p, widely localizing to the TGN and endosomal compartments, is presumed to act as a Q-SNARE for endocytic vesicles, but which compartment is the direct target for endocytic vesicles remained unanswered. Here we demonstrate by high-speed and high-resolution 4D imaging of fluorescently labeled endocytic cargos that the Tlg2p-residing compartment within the TGN functions as the early/sorting compartment. After arriving here, endocytic cargos are recycled to the plasma membrane or transported to the yeast Rab5-residing endosomal compartment through the pathway requiring the clathrin adaptors GGAs. Interestingly, Gga2p predominantly localizes at the Tlg2p-residing compartment, and the deletion of GGAs has little effect on another TGN region where Sec7p is present but suppresses dynamics of the Tlg2-residing early/sorting compartment, indicating that the Tlg2p- and Sec7p-residing regions are discrete entities in the mutant. Thus, the Tlg2p-residing region seems to serve as an early/sorting compartment and function independently of the Sec7p-residing region within the TGN."}],"file":[{"date_updated":"2023-07-31T07:43:00Z","success":1,"date_created":"2023-07-31T07:43:00Z","relation":"main_file","file_id":"13324","file_name":"2023_eLife_Toshima.pdf","creator":"dernst","access_level":"open_access","file_size":11980913,"content_type":"application/pdf","checksum":"2af111a00cf5e3a956f7f0fd13199b15"}],"article_type":"original","publication_status":"published"},{"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":"2023-07-21T00:00:00Z","doi":"10.1007/s10955-023-03132-4","intvolume":"       190","ddc":["510","530"],"volume":190,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2023-07-31T07:49:31Z","month":"07","publisher":"Springer Nature","department":[{"_id":"LaEr"}],"isi":1,"arxiv":1,"scopus_import":"1","acknowledgement":"LE, JH, and VR were supported by ERC Advanced Grant “RMTBeyond” No. 101020331. SS was supported by KAKENHI Grant Number JP22J14935 from the Japan Society for the Promotion of Science (JSPS) and Forefront Physics and Mathematics Program to Drive Transformation (FoPM), a World-leading Innovative Graduate Study (WINGS) Program, the University of Tokyo.\r\nOpen access funding provided by The University of Tokyo.","external_id":{"arxiv":["2304.04213"],"isi":["001035677200002"]},"title":"Eigenstate thermalisation hypothesis for translation invariant spin systems","project":[{"name":"Random matrices beyond Wigner-Dyson-Mehta","grant_number":"101020331","_id":"62796744-2b32-11ec-9570-940b20777f1d","call_identifier":"H2020"}],"article_number":"128","issue":"7","has_accepted_license":"1","date_updated":"2023-12-13T11:38:44Z","author":[{"last_name":"Sugimoto","first_name":"Shoki","full_name":"Sugimoto, Shoki"},{"first_name":"Sven Joscha","last_name":"Henheik","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","full_name":"Henheik, Sven Joscha","orcid":"0000-0003-1106-327X"},{"last_name":"Riabov","first_name":"Volodymyr","id":"1949f904-edfb-11eb-afb5-e2dfddabb93b","full_name":"Riabov, Volodymyr"},{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","full_name":"Erdös, László","orcid":"0000-0001-5366-9603","last_name":"Erdös","first_name":"László"}],"citation":{"chicago":"Sugimoto, Shoki, Sven Joscha Henheik, Volodymyr Riabov, and László Erdös. “Eigenstate Thermalisation Hypothesis for Translation Invariant Spin Systems.” <i>Journal of Statistical Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s10955-023-03132-4\">https://doi.org/10.1007/s10955-023-03132-4</a>.","ista":"Sugimoto S, Henheik SJ, Riabov V, Erdös L. 2023. Eigenstate thermalisation hypothesis for translation invariant spin systems. Journal of Statistical Physics. 190(7), 128.","mla":"Sugimoto, Shoki, et al. “Eigenstate Thermalisation Hypothesis for Translation Invariant Spin Systems.” <i>Journal of Statistical Physics</i>, vol. 190, no. 7, 128, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s10955-023-03132-4\">10.1007/s10955-023-03132-4</a>.","ama":"Sugimoto S, Henheik SJ, Riabov V, Erdös L. Eigenstate thermalisation hypothesis for translation invariant spin systems. <i>Journal of Statistical Physics</i>. 2023;190(7). doi:<a href=\"https://doi.org/10.1007/s10955-023-03132-4\">10.1007/s10955-023-03132-4</a>","ieee":"S. Sugimoto, S. J. Henheik, V. Riabov, and L. Erdös, “Eigenstate thermalisation hypothesis for translation invariant spin systems,” <i>Journal of Statistical Physics</i>, vol. 190, no. 7. Springer Nature, 2023.","apa":"Sugimoto, S., Henheik, S. J., Riabov, V., &#38; Erdös, L. (2023). Eigenstate thermalisation hypothesis for translation invariant spin systems. <i>Journal of Statistical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10955-023-03132-4\">https://doi.org/10.1007/s10955-023-03132-4</a>","short":"S. Sugimoto, S.J. Henheik, V. Riabov, L. Erdös, Journal of Statistical Physics 190 (2023)."},"oa":1,"publication_identifier":{"issn":["0022-4715"],"eissn":["1572-9613"]},"publication":"Journal of Statistical Physics","day":"21","abstract":[{"text":"We prove the Eigenstate Thermalisation Hypothesis (ETH) for local observables in a typical translation invariant system of quantum spins with L-body interactions, where L is the number of spins. This mathematically verifies the observation first made by Santos and Rigol (Phys Rev E 82(3):031130, 2010, https://doi.org/10.1103/PhysRevE.82.031130) that the ETH may hold for systems with additional translational symmetries for a naturally restricted class of observables. We also present numerical support for the same phenomenon for Hamiltonians with local interaction.","lang":"eng"}],"file":[{"content_type":"application/pdf","file_size":612755,"checksum":"c2ef6b2aecfee1ad6d03fab620507c2c","access_level":"open_access","creator":"dernst","file_id":"13325","success":1,"relation":"main_file","date_created":"2023-07-31T07:49:31Z","file_name":"2023_JourStatPhysics_Sugimoto.pdf","date_updated":"2023-07-31T07:49:31Z"}],"publication_status":"published","article_type":"original","article_processing_charge":"Yes (in subscription journal)","oa_version":"Published Version","quality_controlled":"1","_id":"13317","year":"2023","date_created":"2023-07-30T22:01:02Z","ec_funded":1},{"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","language":[{"iso":"eng"}],"date_published":"2023-07-24T00:00:00Z","doi":"10.1007/s00208-023-02680-0","arxiv":1,"scopus_import":"1","acknowledgement":"The research of A.V. is supported by NSF DMS-1900286, DMS-2154402 and by Hausdorff Center for Mathematics. H.Z. is supported by the Lise Meitner fellowship, Austrian Science Fund (FWF) M3337. This work is partially supported by NSF DMS-1929284 while both authors were in residence at the Institute for Computational and Experimental Research in Mathematics in Providence, RI, during the Harmonic Analysis and Convexity program.","month":"07","publisher":"Springer Nature","department":[{"_id":"JaMa"}],"isi":1,"main_file_link":[{"url":"https://doi.org/10.1007/s00208-023-02680-0","open_access":"1"}],"author":[{"full_name":"Volberg, Alexander","first_name":"Alexander","last_name":"Volberg"},{"first_name":"Haonan","last_name":"Zhang","id":"D8F41E38-9E66-11E9-A9E2-65C2E5697425","full_name":"Zhang, Haonan"}],"date_updated":"2023-12-13T11:36:20Z","citation":{"short":"A. Volberg, H. Zhang, Mathematische Annalen (2023).","ista":"Volberg A, Zhang H. 2023. Noncommutative Bohnenblust–Hille inequalities. Mathematische Annalen.","chicago":"Volberg, Alexander, and Haonan Zhang. “Noncommutative Bohnenblust–Hille Inequalities.” <i>Mathematische Annalen</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00208-023-02680-0\">https://doi.org/10.1007/s00208-023-02680-0</a>.","ama":"Volberg A, Zhang H. Noncommutative Bohnenblust–Hille inequalities. <i>Mathematische Annalen</i>. 2023. doi:<a href=\"https://doi.org/10.1007/s00208-023-02680-0\">10.1007/s00208-023-02680-0</a>","apa":"Volberg, A., &#38; Zhang, H. (2023). Noncommutative Bohnenblust–Hille inequalities. <i>Mathematische Annalen</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00208-023-02680-0\">https://doi.org/10.1007/s00208-023-02680-0</a>","ieee":"A. Volberg and H. Zhang, “Noncommutative Bohnenblust–Hille inequalities,” <i>Mathematische Annalen</i>. Springer Nature, 2023.","mla":"Volberg, Alexander, and Haonan Zhang. “Noncommutative Bohnenblust–Hille Inequalities.” <i>Mathematische Annalen</i>, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00208-023-02680-0\">10.1007/s00208-023-02680-0</a>."},"oa":1,"publication":"Mathematische Annalen","publication_identifier":{"eissn":["1432-1807"],"issn":["0025-5831"]},"day":"24","title":"Noncommutative Bohnenblust–Hille inequalities","external_id":{"isi":["001035665500001"],"arxiv":["2210.14468"]},"project":[{"name":"Curvature-dimension in noncommutative analysis","grant_number":"M03337","_id":"eb958bca-77a9-11ec-83b8-c565cb50d8d6"}],"_id":"13318","year":"2023","date_created":"2023-07-30T22:01:03Z","abstract":[{"lang":"eng","text":"Bohnenblust–Hille inequalities for Boolean cubes have been proven with dimension-free constants that grow subexponentially in the degree (Defant et al. in Math Ann 374(1):653–680, 2019). Such inequalities have found great applications in learning low-degree Boolean functions (Eskenazis and Ivanisvili in Proceedings of the 54th annual ACM SIGACT symposium on theory of computing, pp 203–207, 2022). Motivated by learning quantum observables, a qubit analogue of Bohnenblust–Hille inequality for Boolean cubes was recently conjectured in Rouzé et al. (Quantum Talagrand, KKL and Friedgut’s theorems and the learnability of quantum Boolean functions, 2022. arXiv preprint arXiv:2209.07279). The conjecture was resolved in Huang et al. (Learning to predict arbitrary quantum processes, 2022. arXiv preprint arXiv:2210.14894). In this paper, we give a new proof of these Bohnenblust–Hille inequalities for qubit system with constants that are dimension-free and of exponential growth in the degree. As a consequence, we obtain a junta theorem for low-degree polynomials. Using similar ideas, we also study learning problems of low degree quantum observables and Bohr’s radius phenomenon on quantum Boolean cubes."}],"article_type":"original","publication_status":"epub_ahead","article_processing_charge":"No","oa_version":"Published Version","quality_controlled":"1"},{"date_created":"2023-07-30T22:01:03Z","year":"2023","_id":"13319","publication_status":"published","article_type":"original","file":[{"access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":481209,"checksum":"cca204e81891270216a0c84eb8bcd398","date_updated":"2024-01-30T12:15:11Z","file_id":"14905","relation":"main_file","date_created":"2024-01-30T12:15:11Z","success":1,"file_name":"2023_CommMathPhysics_Vernooij.pdf"}],"abstract":[{"text":"We prove that the generator of the L2 implementation of a KMS-symmetric quantum Markov semigroup can be expressed as the square of a derivation with values in a Hilbert bimodule, extending earlier results by Cipriani and Sauvageot for tracially symmetric semigroups and the second-named author for GNS-symmetric semigroups. This result hinges on the introduction of a new completely positive map on the algebra of bounded operators on the GNS Hilbert space. This transformation maps symmetric Markov operators to symmetric Markov operators and is essential to obtain the required inner product on the Hilbert bimodule.","lang":"eng"}],"quality_controlled":"1","oa_version":"Published Version","article_processing_charge":"Yes (via OA deal)","author":[{"first_name":"Matthijs","last_name":"Vernooij","full_name":"Vernooij, Matthijs"},{"id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","full_name":"Wirth, Melchior","orcid":"0000-0002-0519-4241","last_name":"Wirth","first_name":"Melchior"}],"citation":{"short":"M. Vernooij, M. Wirth, Communications in Mathematical Physics 403 (2023) 381–416.","chicago":"Vernooij, Matthijs, and Melchior Wirth. “Derivations and KMS-Symmetric Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00220-023-04795-6\">https://doi.org/10.1007/s00220-023-04795-6</a>.","ista":"Vernooij M, Wirth M. 2023. Derivations and KMS-symmetric quantum Markov semigroups. Communications in Mathematical Physics. 403, 381–416.","mla":"Vernooij, Matthijs, and Melchior Wirth. “Derivations and KMS-Symmetric Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>, vol. 403, Springer Nature, 2023, pp. 381–416, doi:<a href=\"https://doi.org/10.1007/s00220-023-04795-6\">10.1007/s00220-023-04795-6</a>.","ieee":"M. Vernooij and M. Wirth, “Derivations and KMS-symmetric quantum Markov semigroups,” <i>Communications in Mathematical Physics</i>, vol. 403. Springer Nature, pp. 381–416, 2023.","apa":"Vernooij, M., &#38; Wirth, M. (2023). Derivations and KMS-symmetric quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00220-023-04795-6\">https://doi.org/10.1007/s00220-023-04795-6</a>","ama":"Vernooij M, Wirth M. Derivations and KMS-symmetric quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. 2023;403:381-416. doi:<a href=\"https://doi.org/10.1007/s00220-023-04795-6\">10.1007/s00220-023-04795-6</a>"},"date_updated":"2024-01-30T12:16:32Z","day":"01","publication_identifier":{"issn":["0010-3616"],"eissn":["1432-0916"]},"publication":"Communications in Mathematical Physics","oa":1,"project":[{"_id":"34c6ea2d-11ca-11ed-8bc3-c04f3c502833","grant_number":"ESP156_N","name":"Gradient flow techniques for quantum Markov semigroups"}],"title":"Derivations and KMS-symmetric quantum Markov semigroups","external_id":{"arxiv":["2303.15949"],"isi":["001033655400002"]},"has_accepted_license":"1","arxiv":1,"page":"381-416","acknowledgement":"The authors are grateful to Martijn Caspers for helpful comments on a preliminary version of this manuscript. M. V. was supported by the NWO Vidi grant VI.Vidi.192.018 ‘Non-commutative harmonic analysis and rigidity of operator algebras’. M. W. was funded by the Austrian Science Fund (FWF) under the Esprit Programme [ESP 156]. For the purpose of Open Access, the authors have applied a CC BY public copyright licence to any Author Accepted Manuscript (AAM) version arising from this submission. Open access funding provided by Austrian Science Fund (FWF).","scopus_import":"1","publisher":"Springer Nature","department":[{"_id":"JaMa"}],"month":"10","isi":1,"type":"journal_article","volume":403,"file_date_updated":"2024-01-30T12:15:11Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1007/s00220-023-04795-6","date_published":"2023-10-01T00:00:00Z","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","ddc":["510"],"intvolume":"       403"},{"conference":{"location":"Saint-Malo, France","start_date":"2023-04-23","name":"ITW: Information Theory Workshop","end_date":"2023-04-28"},"page":"294-298","arxiv":1,"scopus_import":"1","acknowledgement":"Marco Mondelli was partially supported by the 2019 Lopez-Loreta prize.","month":"05","department":[{"_id":"MaMo"}],"publisher":"Institute of Electrical and Electronics Engineers","isi":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2212.01572"}],"type":"conference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","language":[{"iso":"eng"}],"date_published":"2023-05-01T00:00:00Z","doi":"10.1109/ITW55543.2023.10160238","_id":"13321","year":"2023","date_created":"2023-07-30T22:01:04Z","abstract":[{"text":"We consider the problem of reconstructing the signal and the hidden variables from observations coming from a multi-layer network with rotationally invariant weight matrices. The multi-layer structure models inference from deep generative priors, and the rotational invariance imposed on the weights generalizes the i.i.d. Gaussian assumption by allowing for a complex correlation structure, which is typical in applications. In this work, we present a new class of approximate message passing (AMP) algorithms and give a state evolution recursion which precisely characterizes their performance in the large system limit. In contrast with the existing multi-layer VAMP (ML-VAMP) approach, our proposed AMP – dubbed multilayer rotationally invariant generalized AMP (ML-RI-GAMP) – provides a natural generalization beyond Gaussian designs, in the sense that it recovers the existing Gaussian AMP as a special case. Furthermore, ML-RI-GAMP exhibits a significantly lower complexity than ML-VAMP, as the computationally intensive singular value decomposition is replaced by an estimation of the moments of the design matrices. Finally, our numerical results show that this complexity gain comes at little to no cost in the performance of the algorithm.","lang":"eng"}],"publication_status":"published","article_processing_charge":"No","oa_version":"Preprint","quality_controlled":"1","date_updated":"2024-09-10T13:03:19Z","citation":{"ista":"Xu Y, Hou TQ, Liang SS, Mondelli M. 2023. Approximate message passing for multi-layer estimation in rotationally invariant models. 2023 IEEE Information Theory Workshop. ITW: Information Theory Workshop, 294–298.","chicago":"Xu, Yizhou, Tian Qi Hou, Shan Suo Liang, and Marco Mondelli. “Approximate Message Passing for Multi-Layer Estimation in Rotationally Invariant Models.” In <i>2023 IEEE Information Theory Workshop</i>, 294–98. Institute of Electrical and Electronics Engineers, 2023. <a href=\"https://doi.org/10.1109/ITW55543.2023.10160238\">https://doi.org/10.1109/ITW55543.2023.10160238</a>.","apa":"Xu, Y., Hou, T. Q., Liang, S. S., &#38; Mondelli, M. (2023). Approximate message passing for multi-layer estimation in rotationally invariant models. In <i>2023 IEEE Information Theory Workshop</i> (pp. 294–298). Saint-Malo, France: Institute of Electrical and Electronics Engineers. <a href=\"https://doi.org/10.1109/ITW55543.2023.10160238\">https://doi.org/10.1109/ITW55543.2023.10160238</a>","ieee":"Y. Xu, T. Q. Hou, S. S. Liang, and M. Mondelli, “Approximate message passing for multi-layer estimation in rotationally invariant models,” in <i>2023 IEEE Information Theory Workshop</i>, Saint-Malo, France, 2023, pp. 294–298.","ama":"Xu Y, Hou TQ, Liang SS, Mondelli M. Approximate message passing for multi-layer estimation in rotationally invariant models. In: <i>2023 IEEE Information Theory Workshop</i>. Institute of Electrical and Electronics Engineers; 2023:294-298. doi:<a href=\"https://doi.org/10.1109/ITW55543.2023.10160238\">10.1109/ITW55543.2023.10160238</a>","mla":"Xu, Yizhou, et al. “Approximate Message Passing for Multi-Layer Estimation in Rotationally Invariant Models.” <i>2023 IEEE Information Theory Workshop</i>, Institute of Electrical and Electronics Engineers, 2023, pp. 294–98, doi:<a href=\"https://doi.org/10.1109/ITW55543.2023.10160238\">10.1109/ITW55543.2023.10160238</a>.","short":"Y. Xu, T.Q. Hou, S.S. Liang, M. Mondelli, in:, 2023 IEEE Information Theory Workshop, Institute of Electrical and Electronics Engineers, 2023, pp. 294–298."},"author":[{"last_name":"Xu","first_name":"Yizhou","full_name":"Xu, Yizhou"},{"full_name":"Hou, Tian Qi","last_name":"Hou","first_name":"Tian Qi"},{"full_name":"Liang, Shan Suo","last_name":"Liang","first_name":"Shan Suo"},{"last_name":"Mondelli","first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425","full_name":"Mondelli, Marco","orcid":"0000-0002-3242-7020"}],"oa":1,"publication":"2023 IEEE Information Theory Workshop","publication_identifier":{"eissn":["2475-4218"],"isbn":["9798350301496"]},"day":"01","title":"Approximate message passing for multi-layer estimation in rotationally invariant models","external_id":{"arxiv":["2212.01572"],"isi":["001031733100053"]},"project":[{"name":"Prix Lopez-Loretta 2019 - Marco Mondelli","_id":"059876FA-7A3F-11EA-A408-12923DDC885E"}]},{"day":"31","oa":1,"publication_identifier":{"issn":["2791-4585"]},"citation":{"short":"S. Köse, Exterior Algebra and Combinatorics, Institute of Science and Technology Austria, 2023.","apa":"Köse, S. (2023). <i>Exterior algebra and combinatorics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:13331\">https://doi.org/10.15479/at:ista:13331</a>","ieee":"S. Köse, “Exterior algebra and combinatorics,” Institute of Science and Technology Austria, 2023.","ama":"Köse S. Exterior algebra and combinatorics. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:13331\">10.15479/at:ista:13331</a>","mla":"Köse, Seyda. <i>Exterior Algebra and Combinatorics</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:13331\">10.15479/at:ista:13331</a>.","ista":"Köse S. 2023. Exterior algebra and combinatorics. Institute of Science and Technology Austria.","chicago":"Köse, Seyda. “Exterior Algebra and Combinatorics.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:13331\">https://doi.org/10.15479/at:ista:13331</a>."},"author":[{"full_name":"Köse, Seyda","id":"8ba3170d-dc85-11ea-9058-c4251c96a6eb","first_name":"Seyda","last_name":"Köse"}],"date_updated":"2023-10-04T11:54:56Z","supervisor":[{"first_name":"Uli","last_name":"Wagner","full_name":"Wagner, Uli","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1494-0568"}],"has_accepted_license":"1","title":"Exterior algebra and combinatorics","date_created":"2023-07-31T10:20:55Z","_id":"13331","year":"2023","article_processing_charge":"No","oa_version":"Published Version","related_material":{"record":[{"id":"12680","status":"public","relation":"part_of_dissertation"}]},"publication_status":"published","abstract":[{"text":"The extension of extremal combinatorics to the setting of exterior algebra is a work\r\nin progress that gained attention recently. In this thesis, we study the combinatorial structure of exterior algebra by introducing a dictionary that translates the notions from the set systems into the framework of exterior algebra. We show both generalizations of celebrated Erdös--Ko--Rado theorem and Hilton--Milner theorem to the setting of exterior algebra in the simplest non-trivial case of two-forms.\r\n","lang":"eng"}],"file":[{"access_level":"closed","creator":"skoese","content_type":"application/x-zip-compressed","file_size":28684,"checksum":"96ee518d796d02af71395622c45de03c","date_updated":"2023-07-31T10:16:32Z","file_id":"13333","date_created":"2023-07-31T10:16:32Z","relation":"source_file","file_name":"Exterior Algebra and Combinatorics.zip"},{"creator":"skoese","access_level":"open_access","file_size":4953418,"content_type":"application/pdf","checksum":"f610f4713f88bc477de576aaa46b114e","date_updated":"2023-08-03T15:28:55Z","success":1,"relation":"main_file","date_created":"2023-08-03T15:28:55Z","file_id":"13480","file_name":"thesis-pdfa.pdf"}],"file_date_updated":"2023-08-03T15:28:55Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","type":"dissertation","ddc":["510","516"],"alternative_title":["ISTA Master's Thesis"],"date_published":"2023-07-31T00:00:00Z","doi":"10.15479/at:ista:13331","status":"public","language":[{"iso":"eng"}],"page":"26","degree_awarded":"MS","month":"07","publisher":"Institute of Science and Technology Austria","department":[{"_id":"GradSch"},{"_id":"UlWa"}]},{"date_created":"2023-07-31T11:30:46Z","_id":"13336","year":"2023","main_file_link":[{"url":"https://doi.org/10.5281/zenodo.8059564","open_access":"1"}],"article_processing_charge":"No","oa_version":"Published Version","month":"06","publisher":"Zenodo","related_material":{"record":[{"id":"13258","status":"public","relation":"used_in_publication"}]},"department":[{"_id":"KrCh"}],"day":"20","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"research_data_reference","citation":{"short":"M. Kleshnina, (2023).","ieee":"M. Kleshnina, “kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games.” Zenodo, 2023.","ama":"Kleshnina M. kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games. 2023. doi:<a href=\"https://doi.org/10.5281/ZENODO.8059564\">10.5281/ZENODO.8059564</a>","apa":"Kleshnina, M. (2023). kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.8059564\">https://doi.org/10.5281/ZENODO.8059564</a>","mla":"Kleshnina, Maria. <i>Kleshnina/Stochgames_info: The Effect of Environmental Information on Evolution of Cooperation in Stochastic Games</i>. Zenodo, 2023, doi:<a href=\"https://doi.org/10.5281/ZENODO.8059564\">10.5281/ZENODO.8059564</a>.","ista":"Kleshnina M. 2023. kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.8059564\">10.5281/ZENODO.8059564</a>.","chicago":"Kleshnina, Maria. “Kleshnina/Stochgames_info: The Effect of Environmental Information on Evolution of Cooperation in Stochastic Games.” Zenodo, 2023. <a href=\"https://doi.org/10.5281/ZENODO.8059564\">https://doi.org/10.5281/ZENODO.8059564</a>."},"date_updated":"2025-07-14T09:09:53Z","author":[{"full_name":"Kleshnina, Maria","id":"4E21749C-F248-11E8-B48F-1D18A9856A87","last_name":"Kleshnina","first_name":"Maria"}],"ddc":["000"],"date_published":"2023-06-20T00:00:00Z","doi":"10.5281/ZENODO.8059564","title":"kleshnina/stochgames_info: The effect of environmental information on evolution of cooperation in stochastic games","status":"public"},{"year":"2023","_id":"13340","date_created":"2023-08-01T08:26:15Z","abstract":[{"lang":"eng","text":"Photoisomerization of azobenzenes from their stable E isomer to the metastable Z state is the basis of numerous applications of these molecules. However, this reaction typically requires ultraviolet light, which limits applicability. In this study, we introduce disequilibration by sensitization under confinement (DESC), a supramolecular approach to induce the E-to-Z isomerization by using light of a desired color, including red. DESC relies on a combination of a macrocyclic host and a photosensitizer, which act together to selectively bind and sensitize E-azobenzenes for isomerization. The Z isomer lacks strong affinity for and is expelled from the host, which can then convert additional E-azobenzenes to the Z state. In this way, the host–photosensitizer complex converts photon energy into chemical energy in the form of out-of-equilibrium photostationary states, including ones that cannot be accessed through direct photoexcitation."}],"publication_status":"published","article_type":"original","oa_version":"Preprint","article_processing_charge":"No","quality_controlled":"1","author":[{"last_name":"Gemen","first_name":"Julius","full_name":"Gemen, Julius"},{"full_name":"Church, Jonathan R.","last_name":"Church","first_name":"Jonathan R."},{"last_name":"Ruoko","first_name":"Tero-Petri","full_name":"Ruoko, Tero-Petri"},{"last_name":"Durandin","first_name":"Nikita","full_name":"Durandin, Nikita"},{"last_name":"Białek","first_name":"Michał J.","full_name":"Białek, Michał J."},{"last_name":"Weissenfels","first_name":"Maren","full_name":"Weissenfels, Maren"},{"first_name":"Moran","last_name":"Feller","full_name":"Feller, Moran"},{"last_name":"Kazes","first_name":"Miri","full_name":"Kazes, Miri"},{"last_name":"Borin","first_name":"Veniamin A.","full_name":"Borin, Veniamin A."},{"first_name":"Magdalena","last_name":"Odaybat","full_name":"Odaybat, Magdalena"},{"last_name":"Kalepu","first_name":"Rishir","full_name":"Kalepu, Rishir"},{"full_name":"Diskin-Posner, Yael","first_name":"Yael","last_name":"Diskin-Posner"},{"full_name":"Oron, Dan","last_name":"Oron","first_name":"Dan"},{"last_name":"Fuchter","first_name":"Matthew J.","full_name":"Fuchter, Matthew J."},{"first_name":"Arri","last_name":"Priimagi","full_name":"Priimagi, Arri"},{"first_name":"Igor","last_name":"Schapiro","full_name":"Schapiro, Igor"},{"id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","full_name":"Klajn, Rafal","first_name":"Rafal","last_name":"Klajn"}],"date_updated":"2023-10-03T08:11:26Z","citation":{"short":"J. Gemen, J.R. Church, T.-P. Ruoko, N. Durandin, M.J. Białek, M. Weissenfels, M. Feller, M. Kazes, V.A. Borin, M. Odaybat, R. Kalepu, Y. Diskin-Posner, D. Oron, M.J. Fuchter, A. Priimagi, I. Schapiro, R. Klajn, Science 381 (2023) 1357–1363.","ista":"Gemen J, Church JR, Ruoko T-P, Durandin N, Białek MJ, Weissenfels M, Feller M, Kazes M, Borin VA, Odaybat M, Kalepu R, Diskin-Posner Y, Oron D, Fuchter MJ, Priimagi A, Schapiro I, Klajn R. 2023. Disequilibrating azoarenes by visible-light sensitization under confinement. Science. 381(6664), 1357–1363.","chicago":"Gemen, Julius, Jonathan R. Church, Tero-Petri Ruoko, Nikita Durandin, Michał J. Białek, Maren Weissenfels, Moran Feller, et al. “Disequilibrating Azoarenes by Visible-Light Sensitization under Confinement.” <i>Science</i>. American Association for the Advancement of Science, 2023. <a href=\"https://doi.org/10.1126/science.adh9059\">https://doi.org/10.1126/science.adh9059</a>.","ieee":"J. Gemen <i>et al.</i>, “Disequilibrating azoarenes by visible-light sensitization under confinement,” <i>Science</i>, vol. 381, no. 6664. American Association for the Advancement of Science, pp. 1357–1363, 2023.","ama":"Gemen J, Church JR, Ruoko T-P, et al. Disequilibrating azoarenes by visible-light sensitization under confinement. <i>Science</i>. 2023;381(6664):1357-1363. doi:<a href=\"https://doi.org/10.1126/science.adh9059\">10.1126/science.adh9059</a>","apa":"Gemen, J., Church, J. R., Ruoko, T.-P., Durandin, N., Białek, M. J., Weissenfels, M., … Klajn, R. (2023). Disequilibrating azoarenes by visible-light sensitization under confinement. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.adh9059\">https://doi.org/10.1126/science.adh9059</a>","mla":"Gemen, Julius, et al. “Disequilibrating Azoarenes by Visible-Light Sensitization under Confinement.” <i>Science</i>, vol. 381, no. 6664, American Association for the Advancement of Science, 2023, pp. 1357–63, doi:<a href=\"https://doi.org/10.1126/science.adh9059\">10.1126/science.adh9059</a>."},"publication_identifier":{"eissn":["1095-9203"]},"publication":"Science","oa":1,"day":"22","title":"Disequilibrating azoarenes by visible-light sensitization under confinement","issue":"6664","page":"1357-1363","scopus_import":"1","acknowledgement":"We acknowledge funding from the European Union’s Horizon 2020 Research and Innovation Program [European Research Council grants 820008 (Ra.K.) and 101045223 (A.P.) and Marie Skłodowska-Curie grants 812868 (J.G.) and 101022777 (T.-P.R.)], the Academy of Finland [Center of Excellence Programme LIBER grant 346107 (A.P.), Flagship Programme PREIN grant 320165 (A.P.), and Postdoctoral Researcher grant 340103 (T.-P.R.)], Zuckerman STEM Leadership Program Fellowship (J.R.C.), President’s PhD Scholarship (M.O.), and the EPSRC [Established Career Fellowship grant EP/R00188X/1 (M.J.F.)].","department":[{"_id":"RaKl"}],"publisher":"American Association for the Advancement of Science","month":"09","main_file_link":[{"url":"https://doi.org/10.26434/chemrxiv-2023-gq2h0","open_access":"1"}],"volume":381,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"status":"public","doi":"10.1126/science.adh9059","date_published":"2023-09-22T00:00:00Z","intvolume":"       381"},{"ddc":["570"],"date_published":"2023-11-21T00:00:00Z","doi":"10.15252/embj.2023114557","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"status":"public","language":[{"iso":"eng"}],"file_date_updated":"2023-11-27T08:45:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","month":"11","publisher":"Embo Press","department":[{"_id":"NanoFab"},{"_id":"Bio"}],"acknowledgement":"We thank Christoph Mayr and Bingzhi Wang for initial experiments on amoeboid nucleokinesis, Ana-Maria Lennon-Duménil and Aline Yatim for bone marrow from MyoIIA-Flox*CD11c-Cre mice, Michael Sixt and Aglaja Kopf for EMTB-mCherry, EB3-mCherry, Lifeact-GFP, Lfc knockout, and Myh9-GFP expressing HoxB8 cells, Malte Benjamin Braun, Mauricio Ruiz, and Madeleine T. Schmitt for critical reading of the manuscript, and the Core Facility Bioimaging, the Core Facility Flow Cytometry, and the Animal Core Facility of the Biomedical Center (BMC) for excellent support. This study was supported by the Peter Hans Hofschneider Professorship of the foundation “Stiftung Experimentelle Biomedizin” (to JR), the LMU Institutional Strategy LMU-Excellent within the framework of the German Excellence Initiative (to JR), and the Deutsche Forschungsgemeinschaft (DFG; German Research Foundation; SFB914 project A12, to JR), and the CZI grant DAF2020-225401 (https://doi.org/10.37921/120055ratwvi) from the Chan Zuckerberg Initiative DAF (to RH; an advised fund of Silicon Valley Community Foundation (funder https://doi.org/10.13039/100014989)). Open Access funding enabled and organized by Projekt DEAL.","scopus_import":"1","has_accepted_license":"1","article_number":"e114557","external_id":{"pmid":["37987147"]},"title":"Adaptive pathfinding by nucleokinesis during amoeboid migration","day":"21","oa":1,"publication":"EMBO Journal","publication_identifier":{"issn":["0261-4189"],"eissn":["1460-2075"]},"author":[{"first_name":"Janina","last_name":"Kroll","full_name":"Kroll, Janina"},{"first_name":"Robert","last_name":"Hauschild","orcid":"0000-0001-9843-3522","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert"},{"full_name":"Kuznetcov, Arthur","first_name":"Arthur","last_name":"Kuznetcov"},{"first_name":"Kasia","last_name":"Stefanowski","full_name":"Stefanowski, Kasia"},{"full_name":"Hermann, Monika D.","first_name":"Monika D.","last_name":"Hermann"},{"first_name":"Jack","last_name":"Merrin","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-7180-6050","id":"3CD37A82-F248-11E8-B48F-1D18A9856A87","full_name":"Shafeek, Lubuna B","first_name":"Lubuna B","last_name":"Shafeek"},{"first_name":"Annette","last_name":"Müller-Taubenberger","full_name":"Müller-Taubenberger, Annette"},{"first_name":"Jörg","last_name":"Renkawitz","orcid":"0000-0003-2856-3369","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","full_name":"Renkawitz, Jörg"}],"date_updated":"2023-11-27T08:47:45Z","citation":{"short":"J. Kroll, R. Hauschild, A. Kuznetcov, K. Stefanowski, M.D. Hermann, J. Merrin, L.B. Shafeek, A. Müller-Taubenberger, J. Renkawitz, EMBO Journal (2023).","ama":"Kroll J, Hauschild R, Kuznetcov A, et al. Adaptive pathfinding by nucleokinesis during amoeboid migration. <i>EMBO Journal</i>. 2023. doi:<a href=\"https://doi.org/10.15252/embj.2023114557\">10.15252/embj.2023114557</a>","ieee":"J. Kroll <i>et al.</i>, “Adaptive pathfinding by nucleokinesis during amoeboid migration,” <i>EMBO Journal</i>. Embo Press, 2023.","apa":"Kroll, J., Hauschild, R., Kuznetcov, A., Stefanowski, K., Hermann, M. D., Merrin, J., … Renkawitz, J. (2023). Adaptive pathfinding by nucleokinesis during amoeboid migration. <i>EMBO Journal</i>. Embo Press. <a href=\"https://doi.org/10.15252/embj.2023114557\">https://doi.org/10.15252/embj.2023114557</a>","mla":"Kroll, Janina, et al. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.” <i>EMBO Journal</i>, e114557, Embo Press, 2023, doi:<a href=\"https://doi.org/10.15252/embj.2023114557\">10.15252/embj.2023114557</a>.","ista":"Kroll J, Hauschild R, Kuznetcov A, Stefanowski K, Hermann MD, Merrin J, Shafeek LB, Müller-Taubenberger A, Renkawitz J. 2023. Adaptive pathfinding by nucleokinesis during amoeboid migration. EMBO Journal., e114557.","chicago":"Kroll, Janina, Robert Hauschild, Arthur Kuznetcov, Kasia Stefanowski, Monika D. Hermann, Jack Merrin, Lubuna B Shafeek, Annette Müller-Taubenberger, and Jörg Renkawitz. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.” <i>EMBO Journal</i>. Embo Press, 2023. <a href=\"https://doi.org/10.15252/embj.2023114557\">https://doi.org/10.15252/embj.2023114557</a>."},"quality_controlled":"1","article_processing_charge":"Yes (via OA deal)","oa_version":"Published Version","article_type":"original","publication_status":"published","abstract":[{"text":"Motile cells moving in multicellular organisms encounter microenvironments of locally heterogeneous mechanochemical composition. Individual compositional parameters like chemotactic signals, adhesiveness, and pore sizes are well known to be sensed by motile cells, providing individual guidance cues for cellular pathfinding. However, motile cells encounter diverse mechanochemical signals at the same time, raising the question of how cells respond to locally diverse and potentially competing signals on their migration routes. Here, we reveal that motile amoeboid cells require nuclear repositioning, termed nucleokinesis, for adaptive pathfinding in heterogeneous mechanochemical microenvironments. Using mammalian immune cells and the amoeba<jats:italic>Dictyostelium discoideum</jats:italic>, we discover that frequent, rapid and long-distance nucleokinesis is a basic component of amoeboid pathfinding, enabling cells to reorientate quickly between locally competing cues. Amoeboid nucleokinesis comprises a two-step cell polarity switch and is driven by myosin II-forces, sliding the nucleus from a ‘losing’ to the ‘winning’ leading edge to re-adjust the nuclear to the cellular path. Impaired nucleokinesis distorts fast path adaptions and causes cellular arrest in the microenvironment. Our findings establish that nucleokinesis is required for amoeboid cell navigation. Given that motile single-cell amoebae, many immune cells, and some cancer cells utilize an amoeboid migration strategy, these results suggest that amoeboid nucleokinesis underlies cellular navigation during unicellular biology, immunity, and disease.","lang":"eng"}],"file":[{"checksum":"6261d0041c7e8d284c39712c40079730","file_size":4862497,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2023_EmboJournal_Kroll.pdf","date_created":"2023-11-27T08:45:56Z","success":1,"relation":"main_file","file_id":"14611","date_updated":"2023-11-27T08:45:56Z"}],"date_created":"2023-08-01T08:59:06Z","pmid":1,"_id":"13342","year":"2023"},{"citation":{"ieee":"C. Lionello, C. Perego, A. Gardin, R. Klajn, and G. M. Pavan, “Supramolecular semiconductivity through emerging ionic gates in ion–nanoparticle superlattices,” <i>ACS Nano</i>, vol. 17, no. 1. American Chemical Society, pp. 275–287, 2023.","ama":"Lionello C, Perego C, Gardin A, Klajn R, Pavan GM. Supramolecular semiconductivity through emerging ionic gates in ion–nanoparticle superlattices. <i>ACS Nano</i>. 2023;17(1):275-287. doi:<a href=\"https://doi.org/10.1021/acsnano.2c07558\">10.1021/acsnano.2c07558</a>","apa":"Lionello, C., Perego, C., Gardin, A., Klajn, R., &#38; Pavan, G. M. (2023). Supramolecular semiconductivity through emerging ionic gates in ion–nanoparticle superlattices. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.2c07558\">https://doi.org/10.1021/acsnano.2c07558</a>","mla":"Lionello, Chiara, et al. “Supramolecular Semiconductivity through Emerging Ionic Gates in Ion–Nanoparticle Superlattices.” <i>ACS Nano</i>, vol. 17, no. 1, American Chemical Society, 2023, pp. 275–87, doi:<a href=\"https://doi.org/10.1021/acsnano.2c07558\">10.1021/acsnano.2c07558</a>.","ista":"Lionello C, Perego C, Gardin A, Klajn R, Pavan GM. 2023. Supramolecular semiconductivity through emerging ionic gates in ion–nanoparticle superlattices. ACS Nano. 17(1), 275–287.","chicago":"Lionello, Chiara, Claudio Perego, Andrea Gardin, Rafal Klajn, and Giovanni M. Pavan. “Supramolecular Semiconductivity through Emerging Ionic Gates in Ion–Nanoparticle Superlattices.” <i>ACS Nano</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acsnano.2c07558\">https://doi.org/10.1021/acsnano.2c07558</a>.","short":"C. Lionello, C. Perego, A. Gardin, R. Klajn, G.M. Pavan, ACS Nano 17 (2023) 275–287."},"date_updated":"2023-08-02T06:51:15Z","author":[{"full_name":"Lionello, Chiara","last_name":"Lionello","first_name":"Chiara"},{"full_name":"Perego, Claudio","last_name":"Perego","first_name":"Claudio"},{"last_name":"Gardin","first_name":"Andrea","full_name":"Gardin, Andrea"},{"last_name":"Klajn","first_name":"Rafal","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","full_name":"Klajn, Rafal"},{"full_name":"Pavan, Giovanni M.","first_name":"Giovanni M.","last_name":"Pavan"}],"day":"10","oa":1,"publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"publication":"ACS Nano","title":"Supramolecular semiconductivity through emerging ionic gates in ion–nanoparticle superlattices","issue":"1","date_created":"2023-08-01T09:30:29Z","_id":"13346","year":"2023","publication_status":"published","article_type":"original","abstract":[{"lang":"eng","text":"The self-assembly of nanoparticles driven by small molecules or ions may produce colloidal superlattices with features and properties reminiscent of those of metals or semiconductors. However, to what extent the properties of such supramolecular crystals actually resemble those of atomic materials often remains unclear. Here, we present coarse-grained molecular simulations explicitly demonstrating how a behavior evocative of that of semiconductors may emerge in a colloidal superlattice. As a case study, we focus on gold nanoparticles bearing positively charged groups that self-assemble into FCC crystals via mediation by citrate counterions. In silico ohmic experiments show how the dynamically diverse behavior of the ions in different superlattice domains allows the opening of conductive ionic gates above certain levels of applied electric fields. The observed binary conductive/nonconductive behavior is reminiscent of that of conventional semiconductors, while, at a supramolecular level, crossing the “band gap” requires a sufficient electrostatic stimulus to break the intermolecular interactions and make ions diffuse throughout the superlattice’s cavities."}],"quality_controlled":"1","keyword":["General Physics and Astronomy","General Engineering","General Materials Science"],"article_processing_charge":"No","oa_version":"Published Version","type":"journal_article","volume":17,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-01-10T00:00:00Z","doi":"10.1021/acsnano.2c07558","status":"public","language":[{"iso":"eng"}],"extern":"1","intvolume":"        17","page":"275-287","scopus_import":"1","month":"01","publisher":"American Chemical Society","main_file_link":[{"url":"https://doi.org/10.1021/acsnano.2c07558","open_access":"1"}]},{"date_created":"2023-08-01T09:33:08Z","pmid":1,"_id":"13354","year":"2023","quality_controlled":"1","keyword":["Colloid and Surface Chemistry","Biochemistry","General Chemistry","Catalysis"],"article_processing_charge":"No","oa_version":"Published Version","publication_status":"published","article_type":"original","abstract":[{"lang":"eng","text":"Integrating light-sensitive molecules within nanoparticle (NP) assemblies is an attractive approach to fabricate new photoresponsive nanomaterials. Here, we describe the concept of photocleavable anionic glue (PAG): small trianions capable of mediating interactions between (and inducing the aggregation of) cationic NPs by means of electrostatic interactions. Exposure to light converts PAGs into dianionic products incapable of maintaining the NPs in an assembled state, resulting in light-triggered disassembly of NP aggregates. To demonstrate the proof-of-concept, we work with an organic PAG incorporating the UV-cleavable o-nitrobenzyl moiety and an inorganic PAG, the photosensitive trioxalatocobaltate(III) complex, which absorbs light across the entire visible spectrum. Both PAGs were used to prepare either amorphous NP assemblies or regular superlattices with a long-range NP order. These NP aggregates disassembled rapidly upon light exposure for a specific time, which could be tuned by the incident light wavelength or the amount of PAG used. Selective excitation of the inorganic PAG in a system combining the two PAGs results in a photodecomposition product that deactivates the organic PAG, enabling nontrivial disassembly profiles under a single type of external stimulus."}],"day":"09","oa":1,"publication":"Journal of the American Chemical Society","publication_identifier":{"issn":["0002-7863"],"eissn":["1520-5126"]},"citation":{"chicago":"Wang, Jinhua, Tzuf Shay Peled, and Rafal Klajn. “Photocleavable Anionic Glues for Light-Responsive Nanoparticle Aggregates.” <i>Journal of the American Chemical Society</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/jacs.2c11973\">https://doi.org/10.1021/jacs.2c11973</a>.","ista":"Wang J, Peled TS, Klajn R. 2023. Photocleavable anionic glues for light-responsive nanoparticle aggregates. Journal of the American Chemical Society. 145(7), 4098–4108.","mla":"Wang, Jinhua, et al. “Photocleavable Anionic Glues for Light-Responsive Nanoparticle Aggregates.” <i>Journal of the American Chemical Society</i>, vol. 145, no. 7, American Chemical Society, 2023, pp. 4098–108, doi:<a href=\"https://doi.org/10.1021/jacs.2c11973\">10.1021/jacs.2c11973</a>.","ieee":"J. Wang, T. S. Peled, and R. Klajn, “Photocleavable anionic glues for light-responsive nanoparticle aggregates,” <i>Journal of the American Chemical Society</i>, vol. 145, no. 7. American Chemical Society, pp. 4098–4108, 2023.","apa":"Wang, J., Peled, T. S., &#38; Klajn, R. (2023). Photocleavable anionic glues for light-responsive nanoparticle aggregates. <i>Journal of the American Chemical Society</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.2c11973\">https://doi.org/10.1021/jacs.2c11973</a>","ama":"Wang J, Peled TS, Klajn R. Photocleavable anionic glues for light-responsive nanoparticle aggregates. <i>Journal of the American Chemical Society</i>. 2023;145(7):4098-4108. doi:<a href=\"https://doi.org/10.1021/jacs.2c11973\">10.1021/jacs.2c11973</a>","short":"J. Wang, T.S. Peled, R. Klajn, Journal of the American Chemical Society 145 (2023) 4098–4108."},"author":[{"first_name":"Jinhua","last_name":"Wang","full_name":"Wang, Jinhua"},{"last_name":"Peled","first_name":"Tzuf Shay","full_name":"Peled, Tzuf Shay"},{"first_name":"Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","full_name":"Klajn, Rafal"}],"date_updated":"2023-08-02T10:44:22Z","issue":"7","title":"Photocleavable anionic glues for light-responsive nanoparticle aggregates","external_id":{"pmid":["36757850"]},"scopus_import":"1","page":"4098-4108","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1021/jacs.2c11973"}],"month":"02","publisher":"American Chemical Society","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","volume":145,"extern":"1","intvolume":"       145","date_published":"2023-02-09T00:00:00Z","doi":"10.1021/jacs.2c11973","status":"public","language":[{"iso":"eng"}]},{"volume":952,"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2023-08-02T07:42:26Z","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":"10.3847/1538-4357/acd118","date_published":"2023-08-01T00:00:00Z","ddc":["520"],"intvolume":"       952","acknowledgement":"This paper includes data collected by the Kepler mission and obtained from the MAST data archive at the Space Telescope Science Institute (STScI). Funding for the Kepler mission is provided by the NASA Science Mission Directorate. STScI is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS 5–26555. We acknowledge that this research was supported in part by the National Science Foundation under grant No. NSF PHY-1748958. S.M. acknowledges support from the Spanish Ministry of Science and Innovation (MICINN) with the Ramón y Cajal fellowship No. RYC-2015-17697, the grant No. PID2019-107061GB-C66, and through AEI under the Severo Ochoa Centres of Excellence Programme 2020–2023 (CEX2019-000920-S). S.M. and D.G.R. acknowledge support from the Spanish Ministry of Science and Innovation (MICINN) with the grant No. PID2019-107187GB-I00. Z.R.C. acknowledges support from National Aeronautics and Space Administration via the TESS Guest Investigator Program (grant No. 80NSSC18K18584). The work presented here was partially supported by the NASA grant NNX17AF27G. A.R.G.S. acknowledges the support by FCT through national funds and by FEDER through COMPETE2020 by the following grants: UIDB/04434/2020 and UIDP/04434/2020. A.R.G.S. is supported by FCT through the work contract No. 2020.02480.CEECIND/CP1631/CT0001. R.A.G., L.A., and S.N.B. acknowledge the support from PLATO and GOLF CNES grants. S.N.B. acknowledges support from PLATO ASI-INAF agreement No. 2015-019-R.1-2018.","department":[{"_id":"LiBu"}],"publisher":"American Astronomical Society","month":"08","isi":1,"author":[{"full_name":"Mathur, Savita","first_name":"Savita","last_name":"Mathur"},{"full_name":"Claytor, Zachary R.","first_name":"Zachary R.","last_name":"Claytor"},{"first_name":"Ângela R. G.","last_name":"Santos","full_name":"Santos, Ângela R. G."},{"last_name":"García","first_name":"Rafael A.","full_name":"García, Rafael A."},{"full_name":"Amard, Louis","first_name":"Louis","last_name":"Amard"},{"id":"d9edb345-f866-11ec-9b37-d119b5234501","full_name":"Bugnet, Lisa Annabelle","orcid":"0000-0003-0142-4000","last_name":"Bugnet","first_name":"Lisa Annabelle"},{"full_name":"Corsaro, Enrico","last_name":"Corsaro","first_name":"Enrico"},{"last_name":"Bonanno","first_name":"Alfio","full_name":"Bonanno, Alfio"},{"first_name":"Sylvain N.","last_name":"Breton","full_name":"Breton, Sylvain N."},{"first_name":"Diego","last_name":"Godoy-Rivera","full_name":"Godoy-Rivera, Diego"},{"last_name":"Pinsonneault","first_name":"Marc H.","full_name":"Pinsonneault, Marc H."},{"full_name":"van Saders, Jennifer","last_name":"van Saders","first_name":"Jennifer"}],"citation":{"mla":"Mathur, Savita, et al. “Magnetic Activity Evolution of Solar-like Stars. I. Sph–Age Relation Derived from Kepler Observations.” <i>The Astrophysical Journal</i>, vol. 952, no. 2, 131, American Astronomical Society, 2023, doi:<a href=\"https://doi.org/10.3847/1538-4357/acd118\">10.3847/1538-4357/acd118</a>.","ieee":"S. Mathur <i>et al.</i>, “Magnetic activity evolution of solar-like stars. I. Sph–age relation derived from Kepler observations,” <i>The Astrophysical Journal</i>, vol. 952, no. 2. American Astronomical Society, 2023.","apa":"Mathur, S., Claytor, Z. R., Santos, Â. R. G., García, R. A., Amard, L., Bugnet, L. A., … van Saders, J. (2023). Magnetic activity evolution of solar-like stars. I. Sph–age relation derived from Kepler observations. <i>The Astrophysical Journal</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/1538-4357/acd118\">https://doi.org/10.3847/1538-4357/acd118</a>","ama":"Mathur S, Claytor ZR, Santos ÂRG, et al. Magnetic activity evolution of solar-like stars. I. Sph–age relation derived from Kepler observations. <i>The Astrophysical Journal</i>. 2023;952(2). doi:<a href=\"https://doi.org/10.3847/1538-4357/acd118\">10.3847/1538-4357/acd118</a>","chicago":"Mathur, Savita, Zachary R. Claytor, Ângela R. G. Santos, Rafael A. García, Louis Amard, Lisa Annabelle Bugnet, Enrico Corsaro, et al. “Magnetic Activity Evolution of Solar-like Stars. I. Sph–Age Relation Derived from Kepler Observations.” <i>The Astrophysical Journal</i>. American Astronomical Society, 2023. <a href=\"https://doi.org/10.3847/1538-4357/acd118\">https://doi.org/10.3847/1538-4357/acd118</a>.","ista":"Mathur S, Claytor ZR, Santos ÂRG, García RA, Amard L, Bugnet LA, Corsaro E, Bonanno A, Breton SN, Godoy-Rivera D, Pinsonneault MH, van Saders J. 2023. Magnetic activity evolution of solar-like stars. I. Sph–age relation derived from Kepler observations. The Astrophysical Journal. 952(2), 131.","short":"S. Mathur, Z.R. Claytor, Â.R.G. Santos, R.A. García, L. Amard, L.A. Bugnet, E. Corsaro, A. Bonanno, S.N. Breton, D. Godoy-Rivera, M.H. Pinsonneault, J. van Saders, The Astrophysical Journal 952 (2023)."},"date_updated":"2023-12-13T12:00:15Z","publication":"The Astrophysical Journal","publication_identifier":{"issn":["0004-637X"],"eissn":["1538-4357"]},"oa":1,"day":"01","title":"Magnetic activity evolution of solar-like stars. I. Sph–age relation derived from Kepler observations","external_id":{"isi":["001034185700001"]},"article_number":"131","issue":"2","has_accepted_license":"1","year":"2023","_id":"13443","date_created":"2023-08-01T14:19:16Z","file":[{"file_name":"2023_AstrophysicalJour_Mathur.pdf","file_id":"13448","date_created":"2023-08-02T07:42:26Z","relation":"main_file","success":1,"date_updated":"2023-08-02T07:42:26Z","checksum":"f12452834d7ed6748dbf5ace18af4723","content_type":"application/pdf","file_size":4192386,"access_level":"open_access","creator":"dernst"}],"abstract":[{"text":"The ages of solar-like stars have been at the center of many studies such as exoplanet characterization or Galactic-archeology. While ages are usually computed from stellar evolution models, relations linking ages to other stellar properties, such as rotation and magnetic activity, have been investigated. With the large catalog of 55,232 rotation periods, Prot, and photometric magnetic activity index, Sph from Kepler data, we have the opportunity to look for such magneto-gyro-chronology relations. Stellar ages are obtained with two stellar evolution codes that include treatment of angular momentum evolution, hence using Prot as input in addition to classical atmospheric parameters. We explore two different ways of predicting stellar ages on three subsamples with spectroscopic observations: solar analogs, late-F and G dwarfs, and K dwarfs. We first perform a Bayesian analysis to derive relations between Sph and ages between 1 and 5 Gyr, and other stellar properties. For late-F and G dwarfs, and K dwarfs, the multivariate regression favors the model with Prot and Sph with median differences of 0.1% and 0.2%, respectively. We also apply Machine Learning techniques with a Random Forest algorithm to predict ages up to 14 Gyr with the same set of input parameters. For late-F, G and K dwarfs together, predicted ages are on average within 5.3% of the model ages and improve to 3.1% when including Prot. These are very promising results for a quick age estimation for solar-like stars with photometric observations, especially with current and future space missions.","lang":"eng"}],"article_type":"original","publication_status":"published","oa_version":"Published Version","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"article_processing_charge":"Yes","quality_controlled":"1"}]