[{"oa_version":"Preprint","page":"2738-2776","language":[{"iso":"eng"}],"month":"10","volume":202,"conference":{"end_date":"2023-07-29","start_date":"2023-07-23","location":"Honolulu, HI, United States","name":"ICML: International Conference on Machine Learning"},"department":[{"_id":"GradSch"},{"_id":"MaMo"}],"author":[{"first_name":"Simone","id":"ca726dda-de17-11ea-bc14-f9da834f63aa","last_name":"Bombari","full_name":"Bombari, Simone"},{"full_name":"Kiyani, Shayan","last_name":"Kiyani","id":"f5a2b424-e339-11ed-8435-ff3b4fe70cf8","first_name":"Shayan"},{"orcid":"0000-0002-3242-7020","full_name":"Mondelli, Marco","last_name":"Mondelli","first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425"}],"publication_status":"published","acknowledgement":"Simone Bombari and Marco Mondelli were partially supported by the 2019 Lopez-Loreta prize, and\r\nthe authors would like to thank Hamed Hassani for helpful discussions.\r\n","intvolume":"       202","citation":{"ama":"Bombari S, Kiyani S, Mondelli M. Beyond the universal law of robustness: Sharper laws for random features and neural tangent kernels. In: <i>Proceedings of the 40th International Conference on Machine Learning</i>. Vol 202. ML Research Press; 2023:2738-2776.","apa":"Bombari, S., Kiyani, S., &#38; Mondelli, M. (2023). Beyond the universal law of robustness: Sharper laws for random features and neural tangent kernels. In <i>Proceedings of the 40th International Conference on Machine Learning</i> (Vol. 202, pp. 2738–2776). Honolulu, HI, United States: ML Research Press.","short":"S. Bombari, S. Kiyani, M. Mondelli, in:, Proceedings of the 40th International Conference on Machine Learning, ML Research Press, 2023, pp. 2738–2776.","ieee":"S. Bombari, S. Kiyani, and M. Mondelli, “Beyond the universal law of robustness: Sharper laws for random features and neural tangent kernels,” in <i>Proceedings of the 40th International Conference on Machine Learning</i>, Honolulu, HI, United States, 2023, vol. 202, pp. 2738–2776.","chicago":"Bombari, Simone, Shayan Kiyani, and Marco Mondelli. “Beyond the Universal Law of Robustness: Sharper Laws for Random Features and Neural Tangent Kernels.” In <i>Proceedings of the 40th International Conference on Machine Learning</i>, 202:2738–76. ML Research Press, 2023.","mla":"Bombari, Simone, et al. “Beyond the Universal Law of Robustness: Sharper Laws for Random Features and Neural Tangent Kernels.” <i>Proceedings of the 40th International Conference on Machine Learning</i>, vol. 202, ML Research Press, 2023, pp. 2738–76.","ista":"Bombari S, Kiyani S, Mondelli M. 2023. Beyond the universal law of robustness: Sharper laws for random features and neural tangent kernels. Proceedings of the 40th International Conference on Machine Learning. ICML: International Conference on Machine Learning, PMLR, vol. 202, 2738–2776."},"corr_author":"1","related_material":{"link":[{"url":"https://github.com/simone-bombari/beyond-universal-robustness","relation":"software"}]},"alternative_title":["PMLR"],"year":"2023","external_id":{"arxiv":["2302.01629"]},"_id":"12859","date_published":"2023-10-27T00:00:00Z","date_created":"2023-04-23T16:11:03Z","publication":"Proceedings of the 40th International Conference on Machine Learning","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference","day":"27","article_processing_charge":"No","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2302.01629"}],"abstract":[{"lang":"eng","text":"Machine learning models are vulnerable to adversarial perturbations, and a thought-provoking paper by Bubeck and Sellke has analyzed this phenomenon through the lens of over-parameterization: interpolating smoothly the data requires significantly more parameters than simply memorizing it. However, this \"universal\" law provides only a necessary condition for robustness, and it is unable to discriminate between models. In this paper, we address these gaps by focusing on empirical risk minimization in two prototypical settings, namely, random features and the neural tangent kernel (NTK). We prove that, for random features, the model is not robust for any degree of over-parameterization, even when the necessary condition coming from the universal law of robustness is satisfied. In contrast, for even activations, the NTK model meets the universal lower bound, and it is robust as soon as the necessary condition on over-parameterization is fulfilled. This also addresses a conjecture in prior work by Bubeck, Li and Nagaraj. Our analysis decouples the effect of the kernel of the model from an \"interaction matrix\", which describes the interaction with the test data and captures the effect of the activation. Our theoretical results are corroborated by numerical evidence on both synthetic and standard datasets (MNIST, CIFAR-10)."}],"quality_controlled":"1","title":"Beyond the universal law of robustness: Sharper laws for random features and neural tangent kernels","publisher":"ML Research Press","oa":1,"date_updated":"2025-04-15T07:50:16Z","status":"public","project":[{"_id":"059876FA-7A3F-11EA-A408-12923DDC885E","name":"Prix Lopez-Loretta 2019 - Marco Mondelli"}],"arxiv":1},{"ec_funded":1,"has_accepted_license":"1","article_number":"2086","citation":{"ista":"Schmid L, Ekbatani F, Hilbe C, Chatterjee K. 2023. Quantitative assessment can stabilize indirect reciprocity under imperfect information. Nature Communications. 14, 2086.","mla":"Schmid, Laura, et al. “Quantitative Assessment Can Stabilize Indirect Reciprocity under Imperfect Information.” <i>Nature Communications</i>, vol. 14, 2086, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-37817-x\">10.1038/s41467-023-37817-x</a>.","ieee":"L. Schmid, F. Ekbatani, C. Hilbe, and K. Chatterjee, “Quantitative assessment can stabilize indirect reciprocity under imperfect information,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","chicago":"Schmid, Laura, Farbod Ekbatani, Christian Hilbe, and Krishnendu Chatterjee. “Quantitative Assessment Can Stabilize Indirect Reciprocity under Imperfect Information.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-37817-x\">https://doi.org/10.1038/s41467-023-37817-x</a>.","short":"L. Schmid, F. Ekbatani, C. Hilbe, K. Chatterjee, Nature Communications 14 (2023).","apa":"Schmid, L., Ekbatani, F., Hilbe, C., &#38; Chatterjee, K. (2023). Quantitative assessment can stabilize indirect reciprocity under imperfect information. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-37817-x\">https://doi.org/10.1038/s41467-023-37817-x</a>","ama":"Schmid L, Ekbatani F, Hilbe C, Chatterjee K. Quantitative assessment can stabilize indirect reciprocity under imperfect information. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-37817-x\">10.1038/s41467-023-37817-x</a>"},"oa_version":"Published Version","language":[{"iso":"eng"}],"acknowledgement":"This work was supported by the European Research Council CoG 863818 (ForM-SMArt) (to K.C.) and the European Research Council Starting Grant 850529: E-DIRECT (to C.H.). L.S. received additional partial support by the Austrian Science Fund (FWF) under grant Z211-N23 (Wittgenstein Award), and also thanks the support by the Stochastic Analysis and Application Research Center (SAARC) under National Research Foundation of Korea grant NRF-2019R1A5A1028324. The authors additionally thank Stefan Schmid for providing access to his lab infrastructure at the University of Vienna for the purpose of collecting simulation data.","ddc":["000"],"intvolume":"        14","scopus_import":"1","month":"04","volume":14,"isi":1,"publication_status":"published","department":[{"_id":"KrCh"}],"author":[{"id":"38B437DE-F248-11E8-B48F-1D18A9856A87","first_name":"Laura","orcid":"0000-0002-6978-7329","last_name":"Schmid","full_name":"Schmid, Laura"},{"first_name":"Farbod","full_name":"Ekbatani, Farbod","last_name":"Ekbatani"},{"orcid":"0000-0001-5116-955X","last_name":"Hilbe","full_name":"Hilbe, Christian","first_name":"Christian","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"}],"file":[{"date_updated":"2023-04-25T09:13:53Z","success":1,"checksum":"a4b3b7b36fbef068cabf4fb99501fef6","file_id":"12868","content_type":"application/pdf","date_created":"2023-04-25T09:13:53Z","relation":"main_file","access_level":"open_access","file_size":1786475,"creator":"dernst","file_name":"2023_NatureComm_Schmid.pdf"}],"publisher":"Springer Nature","abstract":[{"lang":"eng","text":"The field of indirect reciprocity investigates how social norms can foster cooperation when individuals continuously monitor and assess each other’s social interactions. By adhering to certain social norms, cooperating individuals can improve their reputation and, in turn, receive benefits from others. Eight social norms, known as the “leading eight,\" have been shown to effectively promote the evolution of cooperation as long as information is public and reliable. These norms categorize group members as either ’good’ or ’bad’. In this study, we examine a scenario where individuals instead assign nuanced reputation scores to each other, and only cooperate with those whose reputation exceeds a certain threshold. We find both analytically and through simulations that such quantitative assessments are error-correcting, thus facilitating cooperation in situations where information is private and unreliable. Moreover, our results identify four specific norms that are robust to such conditions, and may be relevant for helping to sustain cooperation in natural populations."}],"title":"Quantitative assessment can stabilize indirect reciprocity under imperfect information","quality_controlled":"1","publication_identifier":{"eissn":["2041-1723"]},"project":[{"call_identifier":"H2020","name":"Formal Methods for Stochastic Models: Algorithms and Applications","grant_number":"863818","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E"},{"name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"date_updated":"2025-04-15T06:26:15Z","status":"public","doi":"10.1038/s41467-023-37817-x","oa":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_type":"original","date_published":"2023-04-12T00:00:00Z","external_id":{"pmid":["37045828"],"isi":["001003644100020"]},"_id":"12861","license":"https://creativecommons.org/licenses/by/4.0/","pmid":1,"date_created":"2023-04-23T22:01:03Z","file_date_updated":"2023-04-25T09:13:53Z","year":"2023","article_processing_charge":"No","day":"12","publication":"Nature Communications","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article"},{"year":"2023","file_date_updated":"2023-04-25T08:59:18Z","pmid":1,"date_created":"2023-04-23T22:01:03Z","external_id":{"pmid":["37011110"],"isi":["000962668700002"]},"_id":"12862","date_published":"2023-04-01T00:00:00Z","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"PLoS Computational Biology","day":"01","article_processing_charge":"No","publication_identifier":{"eissn":["1553-7358"]},"title":"Uncovering the organization of neural circuits with Generalized Phase Locking Analysis","quality_controlled":"1","abstract":[{"text":"Despite the considerable progress of in vivo neural recording techniques, inferring the biophysical mechanisms underlying large scale coordination of brain activity from neural data remains challenging. One obstacle is the difficulty to link high dimensional functional connectivity measures to mechanistic models of network activity. We address this issue by investigating spike-field coupling (SFC) measurements, which quantify the synchronization between, on the one hand, the action potentials produced by neurons, and on the other hand mesoscopic “field” signals, reflecting subthreshold activities at possibly multiple recording sites. As the number of recording sites gets large, the amount of pairwise SFC measurements becomes overwhelmingly challenging to interpret. We develop Generalized Phase Locking Analysis (GPLA) as an interpretable dimensionality reduction of this multivariate SFC. GPLA describes the dominant coupling between field activity and neural ensembles across space and frequencies. We show that GPLA features are biophysically interpretable when used in conjunction with appropriate network models, such that we can identify the influence of underlying circuit properties on these features. We demonstrate the statistical benefits and interpretability of this approach in various computational models and Utah array recordings. The results suggest that GPLA, used jointly with biophysical modeling, can help uncover the contribution of recurrent microcircuits to the spatio-temporal dynamics observed in multi-channel experimental recordings.","lang":"eng"}],"publisher":"Public Library of Science","file":[{"file_name":"2023_PLoSCompBio_Safavi.pdf","file_size":4737671,"creator":"dernst","access_level":"open_access","date_created":"2023-04-25T08:59:18Z","relation":"main_file","file_id":"12867","checksum":"edeb9d09f3e41ba7c0251308b9e372e7","content_type":"application/pdf","success":1,"date_updated":"2023-04-25T08:59:18Z"}],"article_type":"original","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa":1,"doi":"10.1371/journal.pcbi.1010983","status":"public","date_updated":"2025-04-23T08:54:49Z","language":[{"iso":"eng"}],"oa_version":"Published Version","department":[{"_id":"JoCs"}],"author":[{"last_name":"Safavi","full_name":"Safavi, Shervin","first_name":"Shervin"},{"full_name":"Panagiotaropoulos, Theofanis I.","last_name":"Panagiotaropoulos","first_name":"Theofanis I."},{"last_name":"Kapoor","full_name":"Kapoor, Vishal","first_name":"Vishal"},{"first_name":"Juan F","id":"44B06F76-F248-11E8-B48F-1D18A9856A87","full_name":"Ramirez Villegas, Juan F","last_name":"Ramirez Villegas"},{"full_name":"Logothetis, Nikos K.","last_name":"Logothetis","first_name":"Nikos K."},{"last_name":"Besserve","full_name":"Besserve, Michel","first_name":"Michel"}],"publication_status":"published","isi":1,"month":"04","volume":19,"scopus_import":"1","ddc":["570"],"intvolume":"        19","acknowledgement":"We thank Britni Crocker for help with preprocessing of the data and spike sorting; Joachim Werner and Michael Schnabel for their excellent IT support; Andreas Tolias for help with the initial implantation’s of the Utah arrays.\r\nAll authors were supported by the Max Planck Society. M.B. was supported by the German\r\nFederal Ministry of Education and Research (BMBF) through the funding scheme received by\r\nthe Tübingen AI Center, FKZ: 01IS18039B. N.K.L. and V.K. acknowledge the support from the\r\nShanghai Municipal Science and Technology Major Project (Grant No. 2019SHZDZX02). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. ","citation":{"apa":"Safavi, S., Panagiotaropoulos, T. I., Kapoor, V., Ramirez Villegas, J. F., Logothetis, N. K., &#38; Besserve, M. (2023). Uncovering the organization of neural circuits with Generalized Phase Locking Analysis. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1010983\">https://doi.org/10.1371/journal.pcbi.1010983</a>","ama":"Safavi S, Panagiotaropoulos TI, Kapoor V, Ramirez Villegas JF, Logothetis NK, Besserve M. Uncovering the organization of neural circuits with Generalized Phase Locking Analysis. <i>PLoS Computational Biology</i>. 2023;19(4). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1010983\">10.1371/journal.pcbi.1010983</a>","short":"S. Safavi, T.I. Panagiotaropoulos, V. Kapoor, J.F. Ramirez Villegas, N.K. Logothetis, M. Besserve, PLoS Computational Biology 19 (2023).","mla":"Safavi, Shervin, et al. “Uncovering the Organization of Neural Circuits with Generalized Phase Locking Analysis.” <i>PLoS Computational Biology</i>, vol. 19, no. 4, e1010983, Public Library of Science, 2023, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1010983\">10.1371/journal.pcbi.1010983</a>.","ieee":"S. Safavi, T. I. Panagiotaropoulos, V. Kapoor, J. F. Ramirez Villegas, N. K. Logothetis, and M. Besserve, “Uncovering the organization of neural circuits with Generalized Phase Locking Analysis,” <i>PLoS Computational Biology</i>, vol. 19, no. 4. Public Library of Science, 2023.","chicago":"Safavi, Shervin, Theofanis I. Panagiotaropoulos, Vishal Kapoor, Juan F Ramirez Villegas, Nikos K. Logothetis, and Michel Besserve. “Uncovering the Organization of Neural Circuits with Generalized Phase Locking Analysis.” <i>PLoS Computational Biology</i>. Public Library of Science, 2023. <a href=\"https://doi.org/10.1371/journal.pcbi.1010983\">https://doi.org/10.1371/journal.pcbi.1010983</a>.","ista":"Safavi S, Panagiotaropoulos TI, Kapoor V, Ramirez Villegas JF, Logothetis NK, Besserve M. 2023. Uncovering the organization of neural circuits with Generalized Phase Locking Analysis. PLoS Computational Biology. 19(4), e1010983."},"article_number":"e1010983","issue":"4","has_accepted_license":"1","related_material":{"link":[{"url":"https://github.com/shervinsafavi/gpla.git","relation":"software"}]}},{"language":[{"iso":"eng"}],"page":"63510-63521","oa_version":"None","isi":1,"publication_status":"published","department":[{"_id":"LifeSc"}],"author":[{"full_name":"Filipović Marijić, Vlatka","last_name":"Filipović Marijić","first_name":"Vlatka"},{"first_name":"Nesrete","id":"cb5852d4-287f-11ed-baf0-bc1dd2d5c745","full_name":"Krasnici, Nesrete","last_name":"Krasnici"},{"last_name":"Valić","full_name":"Valić, Damir","first_name":"Damir"},{"full_name":"Kapetanović, Damir","last_name":"Kapetanović","first_name":"Damir"},{"full_name":"Vardić Smrzlić, Irena","last_name":"Vardić Smrzlić","first_name":"Irena"},{"full_name":"Jordanova, Maja","last_name":"Jordanova","first_name":"Maja"},{"full_name":"Rebok, Katerina","last_name":"Rebok","first_name":"Katerina"},{"full_name":"Ramani, Sheriban","last_name":"Ramani","first_name":"Sheriban"},{"last_name":"Kostov","full_name":"Kostov, Vasil","first_name":"Vasil"},{"full_name":"Nastova, Rodne","last_name":"Nastova","first_name":"Rodne"},{"first_name":"Zrinka","full_name":"Dragun, Zrinka","last_name":"Dragun"}],"volume":30,"month":"05","intvolume":"        30","scopus_import":"1","acknowledgement":"The authors are grateful to Dr. Nevenka Mikac for the opportunity to perform metal measurements on HR ICP-MS. This research was funded by the Ministry of Science, Education and Sport of the Republic of Croatia (projects No. 098–0982934-2721 and 098–1782739-2749). The sampling was carried out as a part of two Croatian-Macedonian bilateral projects: “The assessment of availability and effects of metals on fish in the rivers under the impact of mining activities” and “Bacterial and parasitical communities of chub as indicators of the status of environment exposed to mining activities.”","citation":{"mla":"Filipović Marijić, Vlatka, et al. “Pollution Impact on Metal and Biomarker Responses in Intestinal Cytosol of Freshwater Fish.” <i>Environmental Science and Pollution Research</i>, vol. 30, Springer Nature, 2023, pp. 63510–21, doi:<a href=\"https://doi.org/10.1007/s11356-023-26844-2\">10.1007/s11356-023-26844-2</a>.","ieee":"V. Filipović Marijić <i>et al.</i>, “Pollution impact on metal and biomarker responses in intestinal cytosol of freshwater fish,” <i>Environmental Science and Pollution Research</i>, vol. 30. Springer Nature, pp. 63510–63521, 2023.","chicago":"Filipović Marijić, Vlatka, Nesrete Krasnici, Damir Valić, Damir Kapetanović, Irena Vardić Smrzlić, Maja Jordanova, Katerina Rebok, et al. “Pollution Impact on Metal and Biomarker Responses in Intestinal Cytosol of Freshwater Fish.” <i>Environmental Science and Pollution Research</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s11356-023-26844-2\">https://doi.org/10.1007/s11356-023-26844-2</a>.","ista":"Filipović Marijić V, Krasnici N, Valić D, Kapetanović D, Vardić Smrzlić I, Jordanova M, Rebok K, Ramani S, Kostov V, Nastova R, Dragun Z. 2023. Pollution impact on metal and biomarker responses in intestinal cytosol of freshwater fish. Environmental Science and Pollution Research. 30, 63510–63521.","apa":"Filipović Marijić, V., Krasnici, N., Valić, D., Kapetanović, D., Vardić Smrzlić, I., Jordanova, M., … Dragun, Z. (2023). Pollution impact on metal and biomarker responses in intestinal cytosol of freshwater fish. <i>Environmental Science and Pollution Research</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11356-023-26844-2\">https://doi.org/10.1007/s11356-023-26844-2</a>","ama":"Filipović Marijić V, Krasnici N, Valić D, et al. Pollution impact on metal and biomarker responses in intestinal cytosol of freshwater fish. <i>Environmental Science and Pollution Research</i>. 2023;30:63510-63521. doi:<a href=\"https://doi.org/10.1007/s11356-023-26844-2\">10.1007/s11356-023-26844-2</a>","short":"V. Filipović Marijić, N. Krasnici, D. Valić, D. Kapetanović, I. Vardić Smrzlić, M. Jordanova, K. Rebok, S. Ramani, V. Kostov, R. Nastova, Z. Dragun, Environmental Science and Pollution Research 30 (2023) 63510–63521."},"year":"2023","pmid":1,"date_created":"2023-04-23T22:01:03Z","date_published":"2023-05-01T00:00:00Z","external_id":{"pmid":["37055686"],"isi":["000970917900012"]},"_id":"12863","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publication":"Environmental Science and Pollution Research","article_processing_charge":"No","day":"01","publication_identifier":{"eissn":["1614-7499"],"issn":["0944-1344"]},"publisher":"Springer Nature","title":"Pollution impact on metal and biomarker responses in intestinal cytosol of freshwater fish","abstract":[{"text":"In the present study, essential and nonessential metal content and biomarker responses were investigated in the intestine of fish collected from the areas polluted by mining. Our objective was to determine metal and biomarker levels in tissue responsible for dietary intake, which is rarely studied in water pollution research. The study was conducted in the Bregalnica River, reference location, and in the Zletovska and Kriva Rivers (the Republic of North Macedonia), which are directly influenced by the active mines Zletovo and Toranica, respectively. Biological responses were analyzed in Vardar chub (Squalius vardarensis; Karaman, 1928), using for the first time intestinal cytosol as a potentially toxic cell fraction, since metal sensitivity is mostly associated with cytosol. Cytosolic metal levels were higher in fish under the influence of mining (Tl, Li, Cs, Mo, Sr, Cd, Rb, and Cu in the Zletovska River and Cr, Pb, and Se in the Kriva River compared to the Bregalnica River in both seasons). The same trend was evident for total proteins, biomarkers of general stress, and metallothioneins, biomarkers of metal exposure, indicating cellular disturbances in the intestine, the primary site of dietary metal uptake. The association of cytosolic Cu and Cd at all locations pointed to similar pathways and homeostasis of these metallothionein-binding metals. Comparison with other indicator tissues showed that metal concentrations were higher in the intestine of fish from mining-affected areas than in the liver and gills. In general, these results indicated the importance of dietary metal pathways, and cytosolic metal fraction in assessing pollution impacts in freshwater ecosystems.","lang":"eng"}],"quality_controlled":"1","article_type":"original","status":"public","doi":"10.1007/s11356-023-26844-2","date_updated":"2023-10-04T11:23:10Z"},{"doi":"10.1016/b978-0-12-818872-9.00129-1","date_updated":"2024-10-21T06:01:23Z","status":"public","publication_identifier":{"isbn":["9780128188736"]},"citation":{"apa":"Currin, C., &#38; Beyer, C. (2023). Altered childhood brain development in autism and epilepsy. In B. Halpern-Felsher (Ed.), <i>Encyclopedia of Child and Adolescent Health</i> (1st ed., pp. 86–98). Elsevier. <a href=\"https://doi.org/10.1016/b978-0-12-818872-9.00129-1\">https://doi.org/10.1016/b978-0-12-818872-9.00129-1</a>","ama":"Currin C, Beyer C. Altered childhood brain development in autism and epilepsy. In: Halpern-Felsher B, ed. <i>Encyclopedia of Child and Adolescent Health</i>. 1st ed. Elsevier; 2023:86-98. doi:<a href=\"https://doi.org/10.1016/b978-0-12-818872-9.00129-1\">10.1016/b978-0-12-818872-9.00129-1</a>","short":"C. Currin, C. Beyer, in:, B. Halpern-Felsher (Ed.), Encyclopedia of Child and Adolescent Health, 1st ed., Elsevier, 2023, pp. 86–98.","mla":"Currin, Christopher, and Chad Beyer. “Altered Childhood Brain Development in Autism and Epilepsy.” <i>Encyclopedia of Child and Adolescent Health</i>, edited by Bonnie Halpern-Felsher, 1st ed., Elsevier, 2023, pp. 86–98, doi:<a href=\"https://doi.org/10.1016/b978-0-12-818872-9.00129-1\">10.1016/b978-0-12-818872-9.00129-1</a>.","chicago":"Currin, Christopher, and Chad Beyer. “Altered Childhood Brain Development in Autism and Epilepsy.” In <i>Encyclopedia of Child and Adolescent Health</i>, edited by Bonnie Halpern-Felsher, 1st ed., 86–98. Elsevier, 2023. <a href=\"https://doi.org/10.1016/b978-0-12-818872-9.00129-1\">https://doi.org/10.1016/b978-0-12-818872-9.00129-1</a>.","ieee":"C. Currin and C. Beyer, “Altered childhood brain development in autism and epilepsy,” in <i>Encyclopedia of Child and Adolescent Health</i>, 1st ed., B. Halpern-Felsher, Ed. Elsevier, 2023, pp. 86–98.","ista":"Currin C, Beyer C. 2023.Altered childhood brain development in autism and epilepsy. In: Encyclopedia of Child and Adolescent Health. Vol. 1: Biological Development and Physical Health, , 86–98."},"corr_author":"1","alternative_title":["Vol. 1: Biological Development and Physical Health"],"title":"Altered childhood brain development in autism and epilepsy","abstract":[{"lang":"eng","text":"Autism spectrum disorder (ASD) and epilepsy are frequently comorbid neurodevelopmental disorders. Extensive research has demonstrated shared pathological pathways, etiologies, and phenotypes. Many risk factors for these disorders, like genetic mutations and environmental pressures, are linked to changes in childhood brain development, which is a critical period for their manifestation.\r\nDecades of research have yielded many signatures for ASD and epilepsy, some shared and others unique or opposing. The anatomical, physiological, and behavioral correlates of these disorders are discussed in this chapter in the context of understanding shared pathological pathways. We end with important takeaways on the presentation, prevention, intervention, and policy changes for ASD and epilepsy. This chapter aims to explore the complexity of these disorders, both in etiology and phenotypes, with the further goal of appreciating the expanse of unknowns still to explore about the brain."}],"quality_controlled":"1","publisher":"Elsevier","month":"02","publication":"Encyclopedia of Child and Adolescent Health","author":[{"first_name":"Christopher","id":"e8321fc5-3091-11eb-8a53-83f309a11ac9","orcid":"0000-0002-4809-5059","full_name":"Currin, Christopher","last_name":"Currin"},{"first_name":"Chad","full_name":"Beyer, Chad","last_name":"Beyer"}],"department":[{"_id":"TiVo"}],"type":"book_chapter","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","scopus_import":"1","article_processing_charge":"No","oa_version":"None","page":"86-98","language":[{"iso":"eng"}],"year":"2023","_id":"12866","editor":[{"last_name":"Halpern-Felsher","full_name":"Halpern-Felsher, Bonnie","first_name":"Bonnie"}],"edition":"1","date_published":"2023-02-01T00:00:00Z","date_created":"2023-04-25T07:52:43Z"},{"type":"research_data","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Frederik Ravn","last_name":"Klausen","full_name":"Klausen, Frederik Ravn"},{"last_name":"Lauritsen","full_name":"Lauritsen, Asbjørn Bækgaard","orcid":"0000-0003-4476-2288","first_name":"Asbjørn Bækgaard","id":"e1a2682f-dc8d-11ea-abe3-81da9ac728f1"}],"department":[{"_id":"GradSch"},{"_id":"RoSe"}],"month":"04","article_processing_charge":"No","ddc":["000"],"day":"26","acknowledgement":"FRK acknowledges support from the Villum Foundation for support through the QMATH center of Excellence (Grant No. 10059) and the Villum Young Investigator (Grant No. 25452) programs. ","year":"2023","file_date_updated":"2023-04-26T12:30:06Z","oa_version":"Published Version","date_created":"2023-04-26T12:34:49Z","license":"https://creativecommons.org/publicdomain/zero/1.0/","date_published":"2023-04-26T00:00:00Z","_id":"12869","tmp":{"image":"/images/cc_0.png","short":"CC0 (1.0)","name":"Creative Commons Public Domain Dedication (CC0 1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode"},"oa":1,"doi":"10.15479/AT:ISTA:12869","status":"public","date_updated":"2025-09-09T12:26:01Z","corr_author":"1","citation":{"ista":"Klausen FR, Lauritsen AB. 2023. Research data for: A stochastic cellular automaton model of culture formation, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:12869\">10.15479/AT:ISTA:12869</a>.","chicago":"Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. “Research Data for: A Stochastic Cellular Automaton Model of Culture Formation.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:12869\">https://doi.org/10.15479/AT:ISTA:12869</a>.","ieee":"F. R. Klausen and A. B. Lauritsen, “Research data for: A stochastic cellular automaton model of culture formation.” Institute of Science and Technology Austria, 2023.","mla":"Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. <i>Research Data for: A Stochastic Cellular Automaton Model of Culture Formation</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12869\">10.15479/AT:ISTA:12869</a>.","short":"F.R. Klausen, A.B. Lauritsen, (2023).","ama":"Klausen FR, Lauritsen AB. Research data for: A stochastic cellular automaton model of culture formation. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12869\">10.15479/AT:ISTA:12869</a>","apa":"Klausen, F. R., &#38; Lauritsen, A. B. (2023). Research data for: A stochastic cellular automaton model of culture formation. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:12869\">https://doi.org/10.15479/AT:ISTA:12869</a>"},"has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","abstract":[{"text":"We introduce a stochastic cellular automaton as a model for culture and border formation. The model can be conceptualized as a game where the expansion rate of cultures is quantified in terms of their area and perimeter in such a way that approximately round cultures get a competitive advantage.  We first analyse the model  with periodic boundary conditions, where we study how the model can end up in a fixed state, i.e. freezes. Then we implement the model on the European geography with mountains and rivers. We see how the model reproduces some qualitative features of European culture formation, namely that rivers and mountains are more frequently borders between cultures, mountainous regions tend to have higher cultural diversity and the central European plain has less clear cultural borders. ","lang":"eng"}],"title":"Research data for: A stochastic cellular automaton model of culture formation","related_material":{"record":[{"status":"deleted","id":"14505","relation":"used_in_publication"},{"status":"public","id":"12890","relation":"used_in_publication"}]},"file":[{"date_updated":"2023-04-26T12:30:06Z","success":1,"file_id":"12870","checksum":"85ede12d38bb8d944022a8cba4d719f5","content_type":"application/octet-stream","relation":"main_file","date_created":"2023-04-26T12:30:06Z","creator":"alaurits","access_level":"open_access","file_size":4567,"file_name":"README.md"},{"checksum":"25bf79452ae895f9c8a20571a096b4c3","file_id":"12871","content_type":"application/x-zip-compressed","success":1,"date_updated":"2023-04-26T12:27:34Z","file_name":"simulations_era=10_flux_varied_europe.zip","file_size":732586731,"access_level":"open_access","creator":"alaurits","relation":"main_file","date_created":"2023-04-26T12:27:34Z"},{"creator":"alaurits","access_level":"open_access","file_size":1743893150,"relation":"main_file","date_created":"2023-04-26T12:29:53Z","file_name":"simulations_era=10_flux_varied_torus.zip","date_updated":"2023-04-26T12:29:53Z","checksum":"bca48d80ece73eb169aee7211a4a751a","content_type":"application/x-zip-compressed","file_id":"12872","success":1},{"file_id":"12873","content_type":"application/x-zip-compressed","checksum":"e77a655db15486a387a36362fbf0b665","success":1,"date_updated":"2023-04-26T12:29:19Z","file_name":"simulations_era=10_R_varied_torus.zip","file_size":878391851,"creator":"alaurits","access_level":"open_access","date_created":"2023-04-26T12:29:19Z","relation":"main_file"},{"file_name":"simulations_era=100.zip","access_level":"open_access","file_size":201652478,"creator":"alaurits","date_created":"2023-04-26T12:30:05Z","relation":"main_file","file_id":"12874","content_type":"application/x-zip-compressed","checksum":"8556406513adc4aa2e0417f46680f627","success":1,"date_updated":"2023-04-26T12:30:05Z"}]},{"acknowledgement":"This work was partially supported by GACR [grant No. GA22-10845S]; and Grant Agency of Masaryk University [grant No. MUNI/G/1771/2020]. This work was partially supported by European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie [Grant Agreement No. 101034413 to S.P.].","scopus_import":"1","intvolume":"        39","ddc":["000"],"month":"04","volume":39,"department":[{"_id":"ToHe"}],"author":[{"first_name":"Nikola","last_name":"Beneš","full_name":"Beneš, Nikola"},{"full_name":"Brim, Luboš","last_name":"Brim","first_name":"Luboš"},{"first_name":"Ondřej","full_name":"Huvar, Ondřej","last_name":"Huvar"},{"orcid":"0000-0003-1993-0331","last_name":"Pastva","full_name":"Pastva, Samuel","id":"07c5ea74-f61c-11ec-a664-aa7c5d957b2b","first_name":"Samuel"},{"first_name":"David","full_name":"Šafránek, David","last_name":"Šafránek"}],"publication_status":"published","isi":1,"oa_version":"Published Version","language":[{"iso":"eng"}],"related_material":{"link":[{"url":"https://doi.org/10.5281/zenodo.7688740","relation":"software"}]},"ec_funded":1,"has_accepted_license":"1","issue":"4","citation":{"short":"N. Beneš, L. Brim, O. Huvar, S. Pastva, D. Šafránek, Bioinformatics 39 (2023).","ama":"Beneš N, Brim L, Huvar O, Pastva S, Šafránek D. Boolean network sketches: A unifying framework for logical model inference. <i>Bioinformatics</i>. 2023;39(4). doi:<a href=\"https://doi.org/10.1093/bioinformatics/btad158\">10.1093/bioinformatics/btad158</a>","apa":"Beneš, N., Brim, L., Huvar, O., Pastva, S., &#38; Šafránek, D. (2023). Boolean network sketches: A unifying framework for logical model inference. <i>Bioinformatics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/bioinformatics/btad158\">https://doi.org/10.1093/bioinformatics/btad158</a>","ista":"Beneš N, Brim L, Huvar O, Pastva S, Šafránek D. 2023. Boolean network sketches: A unifying framework for logical model inference. Bioinformatics. 39(4), btad158.","ieee":"N. Beneš, L. Brim, O. Huvar, S. Pastva, and D. Šafránek, “Boolean network sketches: A unifying framework for logical model inference,” <i>Bioinformatics</i>, vol. 39, no. 4. Oxford University Press, 2023.","chicago":"Beneš, Nikola, Luboš Brim, Ondřej Huvar, Samuel Pastva, and David Šafránek. “Boolean Network Sketches: A Unifying Framework for Logical Model Inference.” <i>Bioinformatics</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/bioinformatics/btad158\">https://doi.org/10.1093/bioinformatics/btad158</a>.","mla":"Beneš, Nikola, et al. “Boolean Network Sketches: A Unifying Framework for Logical Model Inference.” <i>Bioinformatics</i>, vol. 39, no. 4, btad158, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/bioinformatics/btad158\">10.1093/bioinformatics/btad158</a>."},"article_number":"btad158","day":"03","article_processing_charge":"No","publication":"Bioinformatics","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"pmid":["37004199"],"isi":["000976610800001"]},"_id":"12876","date_published":"2023-04-03T00:00:00Z","pmid":1,"date_created":"2023-04-30T22:01:05Z","file_date_updated":"2023-05-02T07:39:04Z","year":"2023","status":"public","date_updated":"2025-05-14T11:06:50Z","doi":"10.1093/bioinformatics/btad158","project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020"}],"oa":1,"article_type":"original","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"file":[{"relation":"main_file","date_created":"2023-05-02T07:39:04Z","file_size":478740,"access_level":"open_access","creator":"dernst","file_name":"2023_Bioinformatics_Benes.pdf","date_updated":"2023-05-02T07:39:04Z","success":1,"content_type":"application/pdf","file_id":"12886","checksum":"2cb90ddf781baefddf47eac4b54e2a03"}],"abstract":[{"lang":"eng","text":"Motivation: The problem of model inference is of fundamental importance to systems biology. Logical models (e.g. Boolean networks; BNs) represent a computationally attractive approach capable of handling large biological networks. The models are typically inferred from experimental data. However, even with a substantial amount of experimental data supported by some prior knowledge, existing inference methods often focus on a small sample of admissible candidate models only.\r\n\r\nResults: We propose Boolean network sketches as a new formal instrument for the inference of Boolean networks. A sketch integrates (typically partial) knowledge about the network’s topology and the update logic (obtained through, e.g. a biological knowledge base or a literature search), as well as further assumptions about the properties of the network’s transitions (e.g. the form of its attractor landscape), and additional restrictions on the model dynamics given by the measured experimental data. Our new BNs inference algorithm starts with an ‘initial’ sketch, which is extended by adding restrictions representing experimental data to a ‘data-informed’ sketch and subsequently computes all BNs consistent with the data-informed sketch. Our algorithm is based on a symbolic representation and coloured model-checking. Our approach is unique in its ability to cover a broad spectrum of knowledge and efficiently produce a compact representation of all inferred BNs. We evaluate the method on a non-trivial collection of real-world and simulated data."}],"title":"Boolean network sketches: A unifying framework for logical model inference","quality_controlled":"1","publisher":"Oxford University Press","publication_identifier":{"eissn":["1367-4811"]}},{"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1905.00890","open_access":"1"}],"publication_identifier":{"issn":["0020-9910"],"eissn":["1432-1297"]},"publisher":"Springer Nature","abstract":[{"text":"We consider billiards obtained by removing from the plane finitely many strictly convex analytic obstacles satisfying the non-eclipse condition. The restriction of the dynamics to the set of non-escaping orbits is conjugated to a subshift, which provides a natural labeling of periodic orbits. We show that under suitable symmetry and genericity assumptions, the Marked Length Spectrum determines the geometry of the billiard table.","lang":"eng"}],"title":"Marked Length Spectral determination of analytic chaotic billiards with axial symmetries","quality_controlled":"1","oa":1,"article_type":"original","project":[{"call_identifier":"H2020","grant_number":"885707","name":"Spectral rigidity and integrability for billiards and geodesic flows","_id":"9B8B92DE-BA93-11EA-9121-9846C619BF3A"}],"status":"public","doi":"10.1007/s00222-023-01191-8","date_updated":"2025-04-14T07:53:46Z","arxiv":1,"year":"2023","date_published":"2023-08-01T00:00:00Z","_id":"12877","external_id":{"isi":["000978887600001"],"arxiv":["1905.00890"]},"date_created":"2023-04-30T22:01:05Z","publication":"Inventiones Mathematicae","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","article_processing_charge":"No","day":"01","citation":{"ama":"De Simoi J, Kaloshin V, Leguil M. Marked Length Spectral determination of analytic chaotic billiards with axial symmetries. <i>Inventiones Mathematicae</i>. 2023;233:829-901. doi:<a href=\"https://doi.org/10.1007/s00222-023-01191-8\">10.1007/s00222-023-01191-8</a>","apa":"De Simoi, J., Kaloshin, V., &#38; Leguil, M. (2023). Marked Length Spectral determination of analytic chaotic billiards with axial symmetries. <i>Inventiones Mathematicae</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00222-023-01191-8\">https://doi.org/10.1007/s00222-023-01191-8</a>","short":"J. De Simoi, V. Kaloshin, M. Leguil, Inventiones Mathematicae 233 (2023) 829–901.","ieee":"J. De Simoi, V. Kaloshin, and M. Leguil, “Marked Length Spectral determination of analytic chaotic billiards with axial symmetries,” <i>Inventiones Mathematicae</i>, vol. 233. Springer Nature, pp. 829–901, 2023.","chicago":"De Simoi, Jacopo, Vadim Kaloshin, and Martin Leguil. “Marked Length Spectral Determination of Analytic Chaotic Billiards with Axial Symmetries.” <i>Inventiones Mathematicae</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00222-023-01191-8\">https://doi.org/10.1007/s00222-023-01191-8</a>.","mla":"De Simoi, Jacopo, et al. “Marked Length Spectral Determination of Analytic Chaotic Billiards with Axial Symmetries.” <i>Inventiones Mathematicae</i>, vol. 233, Springer Nature, 2023, pp. 829–901, doi:<a href=\"https://doi.org/10.1007/s00222-023-01191-8\">10.1007/s00222-023-01191-8</a>.","ista":"De Simoi J, Kaloshin V, Leguil M. 2023. Marked Length Spectral determination of analytic chaotic billiards with axial symmetries. Inventiones Mathematicae. 233, 829–901."},"ec_funded":1,"page":"829-901","oa_version":"Preprint","language":[{"iso":"eng"}],"volume":233,"month":"08","publication_status":"published","isi":1,"department":[{"_id":"VaKa"}],"author":[{"full_name":"De Simoi, Jacopo","last_name":"De Simoi","first_name":"Jacopo"},{"first_name":"Vadim","id":"FE553552-CDE8-11E9-B324-C0EBE5697425","orcid":"0000-0002-6051-2628","full_name":"Kaloshin, Vadim","last_name":"Kaloshin"},{"first_name":"Martin","last_name":"Leguil","full_name":"Leguil, Martin"}],"acknowledgement":"J.D.S. and M.L. have been partially supported by the NSERC Discovery grant, reference number 502617-2017. M.L. was also supported by the ERC project 692925 NUHGD of Sylvain Crovisier, by the ANR AAPG 2021 PRC CoSyDy: Conformally symplectic dynamics, beyond symplectic dynamics (ANR-CE40-0014), and by the ANR JCJC PADAWAN: Parabolic dynamics, bifurcations and wandering domains (ANR-21-CE40-0012). V.K. acknowledges partial support of the NSF grant DMS-1402164 and ERC Grant # 885707.","intvolume":"       233","scopus_import":"1"},{"acknowledgement":"The authors thank Professor Jianqiang Wu (Kunming Institute of Botany, Chinese Academy of Sciences) for support with phytohormone measurement. Thanks also go to Professor Pieter. B. F. Ouwerkerk (Leiden University) and Professor Jean-Benoit Morel (Plant Health Institute of Montpellier) for provision of the rice lines NB-7B-70 and NB-7B-76 and wild-type NB-61-WT, Professor Zuhua He (Chinese Academy of Sciences) for provision of the rice OsNPR1-RNAi mutant, and Professor Yinong Yang (The Pennsylvania State University) for provision of the rice line NahG. This work was supported by grants from the National Natural Science Foundation of China (Grant Nos. 32260085, 31460453, 31660501, 31860064, 31970609, 31801792 and 31960554), the Key Projects of the Applied Basic Research Plan of Yunnan Province (202301AS070082), the Major Special Program for Scientific Research, Education Department of Yunnan Province (Grant No. ZD2015005), the Start-up fund from Xishuangbanna Tropical Botanical Garden, and ‘Top Talents Program in Science and Technology’ from Yunnan Province, the SRF for ROCS, SEM (Grant No. [2013] 1792), and the Major Science and Technology Project in Yunnan Province (202102AE090042 and 202202AE090036); and the young and middle-aged academic and technical leaders reserve talent program in Yunnan Province (202205AC160076).","intvolume":"       115","ddc":["580"],"scopus_import":"1","volume":115,"month":"07","isi":1,"publication_status":"published","author":[{"first_name":"Lihui","full_name":"Jiang, Lihui","last_name":"Jiang"},{"first_name":"Baolin","last_name":"Yao","full_name":"Yao, Baolin"},{"first_name":"Xiaoyan","full_name":"Zhang, Xiaoyan","last_name":"Zhang"},{"first_name":"Lixia","last_name":"Wu","full_name":"Wu, Lixia"},{"first_name":"Qijing","full_name":"Fu, Qijing","last_name":"Fu"},{"first_name":"Yiting","full_name":"Zhao, Yiting","last_name":"Zhao"},{"first_name":"Yuxin","full_name":"Cao, Yuxin","last_name":"Cao"},{"first_name":"Ruomeng","last_name":"Zhu","full_name":"Zhu, Ruomeng"},{"last_name":"Lu","full_name":"Lu, Xinqi","first_name":"Xinqi"},{"first_name":"Wuying","last_name":"Huang","full_name":"Huang, Wuying"},{"last_name":"Zhao","full_name":"Zhao, Jianping","first_name":"Jianping"},{"first_name":"Kuixiu","last_name":"Li","full_name":"Li, Kuixiu"},{"first_name":"Shuanglu","last_name":"Zhao","full_name":"Zhao, Shuanglu"},{"first_name":"Li","full_name":"Han, Li","last_name":"Han"},{"first_name":"Xuan","full_name":"Zhou, Xuan","last_name":"Zhou"},{"first_name":"Chongyu","full_name":"Luo, Chongyu","last_name":"Luo"},{"first_name":"Haiyan","last_name":"Zhu","full_name":"Zhu, Haiyan"},{"full_name":"Yang, Jing","last_name":"Yang","first_name":"Jing"},{"first_name":"Huichuan","last_name":"Huang","full_name":"Huang, Huichuan"},{"full_name":"Zhu, Zhengge","last_name":"Zhu","first_name":"Zhengge"},{"full_name":"He, Xiahong","last_name":"He","first_name":"Xiahong"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"},{"first_name":"Zhongkai","last_name":"Zhang","full_name":"Zhang, Zhongkai"},{"full_name":"Liu, Changning","last_name":"Liu","first_name":"Changning"},{"first_name":"Yunlong","full_name":"Du, Yunlong","last_name":"Du"}],"department":[{"_id":"JiFr"}],"page":"155-174","oa_version":"Published Version","language":[{"iso":"eng"}],"OA_place":"publisher","OA_type":"free access","issue":"1","citation":{"short":"L. Jiang, B. Yao, X. Zhang, L. Wu, Q. Fu, Y. Zhao, Y. Cao, R. Zhu, X. Lu, W. Huang, J. Zhao, K. Li, S. Zhao, L. Han, X. Zhou, C. Luo, H. Zhu, J. Yang, H. Huang, Z. Zhu, X. He, J. Friml, Z. Zhang, C. Liu, Y. Du, Plant Journal 115 (2023) 155–174.","ama":"Jiang L, Yao B, Zhang X, et al. Salicylic acid inhibits rice endocytic protein trafficking mediated by OsPIN3t and clathrin to affect root growth. <i>Plant Journal</i>. 2023;115(1):155-174. doi:<a href=\"https://doi.org/10.1111/tpj.16218\">10.1111/tpj.16218</a>","apa":"Jiang, L., Yao, B., Zhang, X., Wu, L., Fu, Q., Zhao, Y., … Du, Y. (2023). Salicylic acid inhibits rice endocytic protein trafficking mediated by OsPIN3t and clathrin to affect root growth. <i>Plant Journal</i>. Wiley. <a href=\"https://doi.org/10.1111/tpj.16218\">https://doi.org/10.1111/tpj.16218</a>","ista":"Jiang L, Yao B, Zhang X, Wu L, Fu Q, Zhao Y, Cao Y, Zhu R, Lu X, Huang W, Zhao J, Li K, Zhao S, Han L, Zhou X, Luo C, Zhu H, Yang J, Huang H, Zhu Z, He X, Friml J, Zhang Z, Liu C, Du Y. 2023. Salicylic acid inhibits rice endocytic protein trafficking mediated by OsPIN3t and clathrin to affect root growth. Plant Journal. 115(1), 155–174.","ieee":"L. Jiang <i>et al.</i>, “Salicylic acid inhibits rice endocytic protein trafficking mediated by OsPIN3t and clathrin to affect root growth,” <i>Plant Journal</i>, vol. 115, no. 1. Wiley, pp. 155–174, 2023.","chicago":"Jiang, Lihui, Baolin Yao, Xiaoyan Zhang, Lixia Wu, Qijing Fu, Yiting Zhao, Yuxin Cao, et al. “Salicylic Acid Inhibits Rice Endocytic Protein Trafficking Mediated by OsPIN3t and Clathrin to Affect Root Growth.” <i>Plant Journal</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/tpj.16218\">https://doi.org/10.1111/tpj.16218</a>.","mla":"Jiang, Lihui, et al. “Salicylic Acid Inhibits Rice Endocytic Protein Trafficking Mediated by OsPIN3t and Clathrin to Affect Root Growth.” <i>Plant Journal</i>, vol. 115, no. 1, Wiley, 2023, pp. 155–74, doi:<a href=\"https://doi.org/10.1111/tpj.16218\">10.1111/tpj.16218</a>."},"article_processing_charge":"No","day":"01","publication":"Plant Journal","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-07-01T00:00:00Z","_id":"12878","external_id":{"isi":["000971861400001"],"pmid":["37025008 "]},"date_created":"2023-04-30T22:01:06Z","pmid":1,"year":"2023","date_updated":"2026-06-18T17:29:30Z","doi":"10.1111/tpj.16218","status":"public","oa":1,"article_type":"original","publisher":"Wiley","abstract":[{"lang":"eng","text":"Salicylic acid (SA) plays important roles in different aspects of plant development, including root growth, where auxin is also a major player by means of its asymmetric distribution. However, the mechanism underlying the effect of SA on the development of rice roots remains poorly understood. Here, we show that SA inhibits rice root growth by interfering with auxin transport associated with the OsPIN3t- and clathrin-mediated gene regulatory network (GRN). SA inhibits root growth as well as Brefeldin A-sensitive trafficking through a non-canonical SA signaling mechanism. Transcriptome analysis of rice seedlings treated with SA revealed that the OsPIN3t auxin transporter is at the center of a GRN involving the coat protein clathrin. The root growth and endocytic trafficking in both the pin3t and clathrin heavy chain mutants were SA insensitivity. SA inhibitory effect on the endocytosis of OsPIN3t was dependent on clathrin; however, the root growth and endocytic trafficking mediated by tyrphostin A23 (TyrA23) were independent of the pin3t mutant under SA treatment. These data reveal that SA affects rice root growth through the convergence of transcriptional and non-SA signaling mechanisms involving OsPIN3t-mediated auxin transport and clathrin-mediated trafficking as key components."}],"title":"Salicylic acid inhibits rice endocytic protein trafficking mediated by OsPIN3t and clathrin to affect root growth","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1111/tpj.16218","open_access":"1"}],"publication_identifier":{"eissn":["1365-313X"],"issn":["0960-7412"]}},{"_id":"12880","external_id":{"pmid":["37071033"],"isi":["000971629400001"]},"date_published":"2023-04-18T00:00:00Z","date_created":"2023-04-30T22:01:06Z","license":"https://creativecommons.org/licenses/by-nc/4.0/","pmid":1,"file_date_updated":"2023-05-02T07:24:55Z","year":"2023","day":"18","article_processing_charge":"No","publication":"Nucleus","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"date_updated":"2023-05-02T07:24:55Z","success":1,"file_id":"12884","checksum":"8e707eda84f64dbad7f03545ae0a83ef","content_type":"application/pdf","date_created":"2023-05-02T07:24:55Z","relation":"main_file","creator":"dernst","access_level":"open_access","file_size":3811113,"file_name":"2023_Nucleus_Kaneshiro.pdf"}],"abstract":[{"text":"Peripheral heterochromatin positioning depends on nuclear envelope associated proteins and repressive histone modifications. Here we show that overexpression (OE) of Lamin B1 (LmnB1) leads to the redistribution of peripheral heterochromatin into heterochromatic foci within the nucleoplasm. These changes represent a perturbation of heterochromatin binding at the nuclear periphery (NP) through a mechanism independent from altering other heterochromatin anchors or histone post-translational modifications. We further show that LmnB1 OE alters gene expression. These changes do not correlate with different levels of H3K9me3, but a significant number of the misregulated genes were likely mislocalized away from the NP upon LmnB1 OE. We also observed an enrichment of developmental processes amongst the upregulated genes. ~74% of these genes were normally repressed in our cell type, suggesting that LmnB1 OE promotes gene de-repression. This demonstrates a broader consequence of LmnB1 OE on cell fate, and highlights the importance of maintaining proper levels of LmnB1.","lang":"eng"}],"quality_controlled":"1","title":"Lamin B1 overexpression alters chromatin organization and gene expression","publisher":"Taylor & Francis","publication_identifier":{"issn":["1949-1034"],"eissn":["1949-1042"]},"date_updated":"2024-10-09T21:05:01Z","status":"public","doi":"10.1080/19491034.2023.2202548","oa":1,"article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"oa_version":"Published Version","language":[{"iso":"eng"}],"acknowledgement":"We thank members of the Hetzer lab for critical review of the manuscript; Novogene for mRNA library preparation and sequencing; the Next-Generation Sequencing Core Facility at the Salk Institute, with funding from NIH-NCI CCSG: P30 014195, the Chapman Foundation, and the Helmsley Charitable Trust, for sequencing Cut&Run libraries; and the Waitt Advanced Biophotonics Core Facility at the Salk Institute, with funding from NIH-NCI CCSG: P30 014195, the Waitt Foundation, and the Chan-Zuckerberg Initiative Imaging Scientist Award, for electron microscopy sample preparation and imaging.","scopus_import":"1","intvolume":"        14","ddc":["570"],"volume":14,"month":"04","author":[{"full_name":"Kaneshiro, Jeanae M.","last_name":"Kaneshiro","first_name":"Jeanae M."},{"full_name":"Capitanio, Juliana S.","last_name":"Capitanio","first_name":"Juliana S."},{"full_name":"Hetzer, Martin W","last_name":"Hetzer","orcid":"0000-0002-2111-992X","first_name":"Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed"}],"department":[{"_id":"MaHe"}],"isi":1,"publication_status":"published","has_accepted_license":"1","issue":"1","citation":{"short":"J.M. Kaneshiro, J.S. Capitanio, M. Hetzer, Nucleus 14 (2023).","apa":"Kaneshiro, J. M., Capitanio, J. S., &#38; Hetzer, M. (2023). Lamin B1 overexpression alters chromatin organization and gene expression. <i>Nucleus</i>. Taylor &#38; Francis. <a href=\"https://doi.org/10.1080/19491034.2023.2202548\">https://doi.org/10.1080/19491034.2023.2202548</a>","ama":"Kaneshiro JM, Capitanio JS, Hetzer M. Lamin B1 overexpression alters chromatin organization and gene expression. <i>Nucleus</i>. 2023;14(1). doi:<a href=\"https://doi.org/10.1080/19491034.2023.2202548\">10.1080/19491034.2023.2202548</a>","ista":"Kaneshiro JM, Capitanio JS, Hetzer M. 2023. Lamin B1 overexpression alters chromatin organization and gene expression. Nucleus. 14(1), 2202548.","mla":"Kaneshiro, Jeanae M., et al. “Lamin B1 Overexpression Alters Chromatin Organization and Gene Expression.” <i>Nucleus</i>, vol. 14, no. 1, 2202548, Taylor &#38; Francis, 2023, doi:<a href=\"https://doi.org/10.1080/19491034.2023.2202548\">10.1080/19491034.2023.2202548</a>.","chicago":"Kaneshiro, Jeanae M., Juliana S. Capitanio, and Martin Hetzer. “Lamin B1 Overexpression Alters Chromatin Organization and Gene Expression.” <i>Nucleus</i>. Taylor &#38; Francis, 2023. <a href=\"https://doi.org/10.1080/19491034.2023.2202548\">https://doi.org/10.1080/19491034.2023.2202548</a>.","ieee":"J. M. Kaneshiro, J. S. Capitanio, and M. Hetzer, “Lamin B1 overexpression alters chromatin organization and gene expression,” <i>Nucleus</i>, vol. 14, no. 1. Taylor &#38; Francis, 2023."},"corr_author":"1","article_number":"2202548"},{"quality_controlled":"1","title":"Stochastic cellular automaton model of culture formation","abstract":[{"lang":"eng","text":"We introduce a stochastic cellular automaton as a model for culture and border formation. The model can be conceptualized as a game where the expansion rate of cultures is quantified in terms of their area and perimeter in such a way that approximately geometrically round cultures get a competitive advantage. We first analyze the model with periodic boundary conditions, where we study how the model can end up in a fixed state, i.e., freezes. Then we implement the model on the European geography with mountains and rivers. We see how the model reproduces some qualitative features of European culture formation, namely, that rivers and mountains are more frequently borders between cultures, mountainous regions tend to have higher cultural diversity, and the central European plain has less clear cultural borders."}],"publisher":"American Physical Society","publication_identifier":{"issn":["2470-0045"],"eissn":["2470-0053"]},"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2305.02153","open_access":"1"}],"arxiv":1,"doi":"10.1103/PhysRevE.108.054307","status":"public","date_updated":"2025-09-09T12:26:01Z","article_type":"original","oa":1,"pmid":1,"date_created":"2023-05-04T08:35:01Z","_id":"12890","external_id":{"arxiv":["2305.02153"],"pmid":["38115445"],"isi":["001106396300005"]},"date_published":"2023-11-08T00:00:00Z","year":"2023","day":"08","article_processing_charge":"No","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","type":"journal_article","publication":"Physical Review E","related_material":{"record":[{"relation":"research_data","status":"public","id":"12869"}],"link":[{"relation":"software","url":"https://github.com/FrederikRavnKlausen/model-for-culture-formation"}]},"citation":{"ieee":"F. R. Klausen and A. B. Lauritsen, “Stochastic cellular automaton model of culture formation,” <i>Physical Review E</i>, vol. 108, no. 5. American Physical Society, 2023.","chicago":"Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. “Stochastic Cellular Automaton Model of Culture Formation.” <i>Physical Review E</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevE.108.054307\">https://doi.org/10.1103/PhysRevE.108.054307</a>.","mla":"Klausen, Frederik Ravn, and Asbjørn Bækgaard Lauritsen. “Stochastic Cellular Automaton Model of Culture Formation.” <i>Physical Review E</i>, vol. 108, no. 5, 054307, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevE.108.054307\">10.1103/PhysRevE.108.054307</a>.","ista":"Klausen FR, Lauritsen AB. 2023. Stochastic cellular automaton model of culture formation. Physical Review E. 108(5), 054307.","ama":"Klausen FR, Lauritsen AB. Stochastic cellular automaton model of culture formation. <i>Physical Review E</i>. 2023;108(5). doi:<a href=\"https://doi.org/10.1103/PhysRevE.108.054307\">10.1103/PhysRevE.108.054307</a>","apa":"Klausen, F. R., &#38; Lauritsen, A. B. (2023). Stochastic cellular automaton model of culture formation. <i>Physical Review E</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevE.108.054307\">https://doi.org/10.1103/PhysRevE.108.054307</a>","short":"F.R. Klausen, A.B. Lauritsen, Physical Review E 108 (2023)."},"corr_author":"1","article_number":"054307","issue":"5","language":[{"iso":"eng"}],"oa_version":"Preprint","scopus_import":"1","intvolume":"       108","acknowledgement":"Thanks to Kim Sneppen, Svend Krøjer, Peter Wildemann, Peter Rasmussen and Kent Bækgaard Lauritsen for discussions and suggestions. FRK acknowledges support from the Villum Foundation for support through the QMATH center of Excellence (Grant No. 10059) and the Villum Young Investigator (Grant No. 25452) programs.","author":[{"full_name":"Klausen, Frederik Ravn","last_name":"Klausen","first_name":"Frederik Ravn"},{"full_name":"Lauritsen, Asbjørn Bækgaard","last_name":"Lauritsen","orcid":"0000-0003-4476-2288","id":"e1a2682f-dc8d-11ea-abe3-81da9ac728f1","first_name":"Asbjørn Bækgaard"}],"department":[{"_id":"GradSch"},{"_id":"RoSe"}],"isi":1,"publication_status":"published","month":"11","volume":108},{"corr_author":"1","citation":{"ista":"Sahu R. 2023. Cavity quantum electrooptics. Institute of Science and Technology Austria.","chicago":"Sahu, Rishabh. “Cavity Quantum Electrooptics.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:12900\">https://doi.org/10.15479/at:ista:12900</a>.","ieee":"R. Sahu, “Cavity quantum electrooptics,” Institute of Science and Technology Austria, 2023.","mla":"Sahu, Rishabh. <i>Cavity Quantum Electrooptics</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:12900\">10.15479/at:ista:12900</a>.","short":"R. Sahu, Cavity Quantum Electrooptics, Institute of Science and Technology Austria, 2023.","ama":"Sahu R. Cavity quantum electrooptics. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:12900\">10.15479/at:ista:12900</a>","apa":"Sahu, R. (2023). <i>Cavity quantum electrooptics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:12900\">https://doi.org/10.15479/at:ista:12900</a>"},"has_accepted_license":"1","ec_funded":1,"alternative_title":["ISTA Thesis"],"related_material":{"record":[{"id":"13175","status":"public","relation":"new_edition"},{"relation":"part_of_dissertation","status":"public","id":"10924"},{"id":"9114","status":"public","relation":"part_of_dissertation"}]},"degree_awarded":"PhD","OA_place":"publisher","supervisor":[{"id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","first_name":"Johannes M","full_name":"Fink, Johannes M","last_name":"Fink","orcid":"0000-0001-8112-028X"}],"language":[{"iso":"eng"}],"page":"190","oa_version":"Published Version","publication_status":"published","department":[{"_id":"GradSch"},{"_id":"JoFi"}],"author":[{"orcid":"0000-0001-6264-2162","full_name":"Sahu, Rishabh","last_name":"Sahu","id":"47D26E34-F248-11E8-B48F-1D18A9856A87","first_name":"Rishabh"}],"month":"05","ddc":["537","535","539"],"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-030-5"]},"publisher":"Institute of Science and Technology Austria","title":"Cavity quantum electrooptics","abstract":[{"text":"About a 100 years ago, we discovered that our universe is inherently noisy, that is, measuring any physical quantity with a precision beyond a certain point is not possible because of an omnipresent inherent noise. We call this - the quantum noise. Certain physical processes allow this quantum noise to get correlated in conjugate physical variables. These quantum correlations can be used to go beyond the potential of our inherently noisy universe and obtain a quantum advantage over the classical applications. \r\n\r\nQuantum noise being inherent also means that, at the fundamental level, the physical quantities are not well defined and therefore, objects can stay in multiple states at the same time. For example, the position of a particle not being well defined means that the particle is in multiple positions at the same time. About 4 decades ago, we started exploring the possibility of using objects which can be in multiple states at the same time to increase the dimensionality in computation. Thus, the field of quantum computing was born. We discovered that using quantum entanglement, a property closely related to quantum correlations, can be used to speed up computation of certain problems, such as factorisation of large numbers, faster than any known classical algorithm. Thus began the pursuit to make quantum computers a reality. \r\n\r\nTill date, we have explored quantum control over many physical systems including photons, spins, atoms, ions and even simple circuits made up of superconducting material. However, there persists one ubiquitous theme. The more readily a system interacts with an external field or matter, the more easily we can control it. But this also means that such a system can easily interact with a noisy environment and quickly lose its coherence. Consequently, such systems like electron spins need to be protected from the environment to ensure the longevity of their coherence. Other systems like nuclear spins are naturally protected as they do not interact easily with the environment. But, due to the same reason, it is harder to interact with such systems. \r\n\r\nAfter decades of experimentation with various systems, we are convinced that no one type of quantum system would be the best for all the quantum applications. We would need hybrid systems which are all interconnected - much like the current internet where all sorts of devices can all talk to each other - but now for quantum devices. A quantum internet. \r\n\r\nOptical photons are the best contenders to carry information for the quantum internet. They can carry quantum information cheaply and without much loss - the same reasons which has made them the backbone of our current internet. Following this direction, many systems, like trapped ions, have already demonstrated successful quantum links over a large distances using optical photons. However, some of the most promising contenders for quantum computing which are based on microwave frequencies have been left behind. This is because high energy optical photons can adversely affect fragile low-energy microwave systems. \r\n\r\nIn this thesis, we present substantial progress on this missing quantum link between microwave and optics using electrooptical nonlinearities in lithium niobate. The nonlinearities are enhanced by using resonant cavities for all the involved modes leading to observation of strong direct coupling between optical and microwave frequencies. With this strong coupling we are not only able to achieve almost 100\\% internal conversion efficiency with low added noise, thus presenting a quantum-enabled transducer, but also we are able to observe novel effects such as cooling of a microwave mode using optics. The strong coupling regime also leads to direct observation of dynamical backaction effect between microwave and optical frequencies which are studied in detail here. Finally, we also report first observation of microwave-optics entanglement in form of two-mode squeezed vacuum squeezed 0.7dB below vacuum level. \r\nWith this new bridge between microwave and optics, the microwave-based quantum technologies can finally be a part of a quantum network which is based on optical photons - putting us one step closer to a future with quantum internet. ","lang":"eng"}],"file":[{"date_created":"2023-05-09T08:45:14Z","embargo_to":"open_access","relation":"source_file","creator":"rsahu","access_level":"closed","file_size":36767177,"file_name":"thesis.zip","date_updated":"2023-06-06T22:30:03Z","file_id":"12928","content_type":"application/x-zip-compressed","checksum":"8cbdab9c37ee55e591092a6f66b272c4"},{"file_id":"12929","content_type":"application/pdf","checksum":"439659ead46618147309be39d9dd5a8c","date_updated":"2023-07-06T11:37:40Z","file_name":"thesis_pdfa_final.pdf","relation":"main_file","date_created":"2023-05-09T08:51:17Z","creator":"rsahu","access_level":"closed","file_size":17501990}],"tmp":{"short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)"},"project":[{"call_identifier":"H2020","name":"A Fiber Optic Transceiver for Superconducting Qubits","grant_number":"758053","_id":"26336814-B435-11E9-9278-68D0E5697425"},{"_id":"9B868D20-BA93-11EA-9121-9846C619BF3A","grant_number":"899354","name":"Quantum Local Area Networks with Superconducting Qubits","call_identifier":"H2020"},{"name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits","grant_number":"F07105","_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f"}],"date_updated":"2026-04-15T06:43:26Z","status":"public","keyword":["quantum optics","electrooptics","quantum networks","quantum communication","transduction"],"doi":"10.15479/at:ista:12900","year":"2023","file_date_updated":"2023-07-06T11:37:40Z","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","date_created":"2023-05-05T11:08:50Z","date_published":"2023-05-05T00:00:00Z","_id":"12900","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"SSU"},{"_id":"NanoFab"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","type":"dissertation","article_processing_charge":"No","day":"05"},{"publication_identifier":{"eissn":["1096-0783"],"issn":["0022-1236"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2106.11217"}],"quality_controlled":"1","abstract":[{"text":"This paper establishes new connections between many-body quantum systems, One-body Reduced Density Matrices Functional Theory (1RDMFT) and Optimal Transport (OT), by interpreting the problem of computing the ground-state energy of a finite-dimensional composite quantum system at positive temperature as a non-commutative entropy regularized Optimal Transport problem. We develop a new approach to fully characterize the dual-primal solutions in such non-commutative setting. The mathematical formalism is particularly relevant in quantum chemistry: numerical realizations of the many-electron ground-state energy can be computed via a non-commutative version of Sinkhorn algorithm. Our approach allows to prove convergence and robustness of this algorithm, which, to our best knowledge, were unknown even in the two marginal case. Our methods are based on a priori estimates in the dual problem, which we believe to be of independent interest. Finally, the above results are extended in 1RDMFT setting, where bosonic or fermionic symmetry conditions are enforced on the problem.","lang":"eng"}],"title":"A non-commutative entropic optimal transport approach to quantum composite systems at positive temperature","publisher":"Elsevier","article_type":"original","oa":1,"arxiv":1,"status":"public","doi":"10.1016/j.jfa.2023.109963","date_updated":"2025-04-15T08:31:52Z","project":[{"_id":"256E75B8-B435-11E9-9278-68D0E5697425","name":"Optimal Transport and Stochastic Dynamics","grant_number":"716117","call_identifier":"H2020"},{"call_identifier":"H2020","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","name":"Analysis of quantum many-body systems"},{"call_identifier":"FWF","grant_number":"F06504","name":"Taming Complexity in Partial Differential Systems","_id":"260482E2-B435-11E9-9278-68D0E5697425"}],"year":"2023","date_created":"2023-05-07T22:01:02Z","_id":"12911","external_id":{"arxiv":["2106.11217"],"isi":["000990804300001"]},"date_published":"2023-08-15T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publication":"Journal of Functional Analysis","day":"15","article_processing_charge":"No","citation":{"mla":"Feliciangeli, Dario, et al. “A Non-Commutative Entropic Optimal Transport Approach to Quantum Composite Systems at Positive Temperature.” <i>Journal of Functional Analysis</i>, vol. 285, no. 4, 109963, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.jfa.2023.109963\">10.1016/j.jfa.2023.109963</a>.","ieee":"D. Feliciangeli, A. Gerolin, and L. Portinale, “A non-commutative entropic optimal transport approach to quantum composite systems at positive temperature,” <i>Journal of Functional Analysis</i>, vol. 285, no. 4. Elsevier, 2023.","chicago":"Feliciangeli, Dario, Augusto Gerolin, and Lorenzo Portinale. “A Non-Commutative Entropic Optimal Transport Approach to Quantum Composite Systems at Positive Temperature.” <i>Journal of Functional Analysis</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.jfa.2023.109963\">https://doi.org/10.1016/j.jfa.2023.109963</a>.","ista":"Feliciangeli D, Gerolin A, Portinale L. 2023. A non-commutative entropic optimal transport approach to quantum composite systems at positive temperature. Journal of Functional Analysis. 285(4), 109963.","apa":"Feliciangeli, D., Gerolin, A., &#38; Portinale, L. (2023). A non-commutative entropic optimal transport approach to quantum composite systems at positive temperature. <i>Journal of Functional Analysis</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jfa.2023.109963\">https://doi.org/10.1016/j.jfa.2023.109963</a>","ama":"Feliciangeli D, Gerolin A, Portinale L. A non-commutative entropic optimal transport approach to quantum composite systems at positive temperature. <i>Journal of Functional Analysis</i>. 2023;285(4). doi:<a href=\"https://doi.org/10.1016/j.jfa.2023.109963\">10.1016/j.jfa.2023.109963</a>","short":"D. Feliciangeli, A. Gerolin, L. Portinale, Journal of Functional Analysis 285 (2023)."},"article_number":"109963","issue":"4","related_material":{"record":[{"relation":"earlier_version","id":"9792","status":"public"}]},"ec_funded":1,"language":[{"iso":"eng"}],"oa_version":"Preprint","author":[{"first_name":"Dario","id":"41A639AA-F248-11E8-B48F-1D18A9856A87","last_name":"Feliciangeli","full_name":"Feliciangeli, Dario","orcid":"0000-0003-0754-8530"},{"first_name":"Augusto","full_name":"Gerolin, Augusto","last_name":"Gerolin"},{"first_name":"Lorenzo","id":"30AD2CBC-F248-11E8-B48F-1D18A9856A87","last_name":"Portinale","full_name":"Portinale, Lorenzo"}],"department":[{"_id":"RoSe"},{"_id":"JaMa"}],"isi":1,"publication_status":"published","volume":285,"month":"08","scopus_import":"1","intvolume":"       285","acknowledgement":"This work started when A.G. was visiting the Erwin Schrödinger Institute and then continued when D.F. and L.P visited the Theoretical Chemistry Department of the Vrije Universiteit Amsterdam. The authors thank the hospitality of both places and, especially, P. Gori-Giorgi and K. Giesbertz for fruitful discussions and literature suggestions in the early state of the project. The authors also thank J. Maas and R. Seiringer for their feedback and useful comments to a first draft of the article. Finally, we acknowledge the high quality review done by the anonymous referee of our paper, who we would like to thank for the excellent work and constructive feedback.\r\nD.F acknowledges support by the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreements No 716117 and No 694227). A.G. acknowledges funding by the HORIZON EUROPE European Research Council under H2020/MSCA-IF “OTmeetsDFT” [grant ID: 795942] as well as partial support of his research by the Canada Research Chairs Program (ID 2021-00234) and Natural Sciences and Engineering Research Council of Canada, RGPIN-2022-05207. L.P. acknowledges support by the Austrian Science Fund (FWF), grants No W1245 and No F65, and by the Deutsche Forschungsgemeinschaft (DFG) - Project number 390685813."},{"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_type":"original","oa":1,"status":"public","doi":"10.1038/s41467-023-38005-7","date_updated":"2023-08-01T14:34:00Z","publication_identifier":{"eissn":["2041-1723"]},"publisher":"Springer Nature","quality_controlled":"1","title":"Symmetry-broken Josephson junctions and superconducting diodes in magic-angle twisted bilayer graphene","abstract":[{"text":"The coexistence of gate-tunable superconducting, magnetic and topological orders in magic-angle twisted bilayer graphene provides opportunities for the creation of hybrid Josephson junctions. Here we report the fabrication of gate-defined symmetry-broken Josephson junctions in magic-angle twisted bilayer graphene, where the weak link is gate-tuned close to the correlated insulator state with a moiré filling factor of υ = −2. We observe a phase-shifted and asymmetric Fraunhofer pattern with a pronounced magnetic hysteresis. Our theoretical calculations of the junction weak link—with valley polarization and orbital magnetization—explain most of these unconventional features. The effects persist up to the critical temperature of 3.5 K, with magnetic hysteresis observed below 800 mK. We show how the combination of magnetization and its current-induced magnetization switching allows us to realise a programmable zero-field superconducting diode. Our results represent a major advance towards the creation of future superconducting quantum electronic devices.","lang":"eng"}],"file":[{"file_name":"2023_NatureComm_DiezMerida.pdf","date_created":"2023-05-08T07:26:40Z","relation":"main_file","access_level":"open_access","creator":"dernst","file_size":1405588,"success":1,"file_id":"12917","checksum":"a778105665c10beb2354c92d2b295115","content_type":"application/pdf","date_updated":"2023-05-08T07:26:40Z"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","publication":"Nature Communications","article_processing_charge":"No","day":"26","year":"2023","file_date_updated":"2023-05-08T07:26:40Z","date_created":"2023-05-07T22:01:03Z","pmid":1,"date_published":"2023-04-26T00:00:00Z","_id":"12913","external_id":{"isi":["000979744000004"],"pmid":["37100775"]},"article_number":"2396","citation":{"ama":"Díez-Mérida J, Díez-Carlón A, Yang SY, et al. Symmetry-broken Josephson junctions and superconducting diodes in magic-angle twisted bilayer graphene. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-38005-7\">10.1038/s41467-023-38005-7</a>","apa":"Díez-Mérida, J., Díez-Carlón, A., Yang, S. Y., Xie, Y. M., Gao, X. J., Senior, J. L., … Efetov, D. K. (2023). Symmetry-broken Josephson junctions and superconducting diodes in magic-angle twisted bilayer graphene. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-38005-7\">https://doi.org/10.1038/s41467-023-38005-7</a>","short":"J. Díez-Mérida, A. Díez-Carlón, S.Y. Yang, Y.M. Xie, X.J. Gao, J.L. Senior, K. Watanabe, T. Taniguchi, X. Lu, A.P. Higginbotham, K.T. Law, D.K. Efetov, Nature Communications 14 (2023).","ieee":"J. Díez-Mérida <i>et al.</i>, “Symmetry-broken Josephson junctions and superconducting diodes in magic-angle twisted bilayer graphene,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","chicago":"Díez-Mérida, J., A. Díez-Carlón, S. Y. Yang, Y. M. Xie, X. J. Gao, Jorden L Senior, K. Watanabe, et al. “Symmetry-Broken Josephson Junctions and Superconducting Diodes in Magic-Angle Twisted Bilayer Graphene.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-38005-7\">https://doi.org/10.1038/s41467-023-38005-7</a>.","mla":"Díez-Mérida, J., et al. “Symmetry-Broken Josephson Junctions and Superconducting Diodes in Magic-Angle Twisted Bilayer Graphene.” <i>Nature Communications</i>, vol. 14, 2396, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-38005-7\">10.1038/s41467-023-38005-7</a>.","ista":"Díez-Mérida J, Díez-Carlón A, Yang SY, Xie YM, Gao XJ, Senior JL, Watanabe K, Taniguchi T, Lu X, Higginbotham AP, Law KT, Efetov DK. 2023. Symmetry-broken Josephson junctions and superconducting diodes in magic-angle twisted bilayer graphene. Nature Communications. 14, 2396."},"has_accepted_license":"1","isi":1,"publication_status":"published","author":[{"first_name":"J.","last_name":"Díez-Mérida","full_name":"Díez-Mérida, J."},{"last_name":"Díez-Carlón","full_name":"Díez-Carlón, A.","first_name":"A."},{"full_name":"Yang, S. Y.","last_name":"Yang","first_name":"S. Y."},{"first_name":"Y. M.","last_name":"Xie","full_name":"Xie, Y. M."},{"last_name":"Gao","full_name":"Gao, X. J.","first_name":"X. J."},{"id":"5479D234-2D30-11EA-89CC-40953DDC885E","first_name":"Jorden L","last_name":"Senior","full_name":"Senior, Jorden L"},{"first_name":"K.","full_name":"Watanabe, K.","last_name":"Watanabe"},{"last_name":"Taniguchi","full_name":"Taniguchi, T.","first_name":"T."},{"first_name":"X.","last_name":"Lu","full_name":"Lu, X."},{"first_name":"Andrew P","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","last_name":"Higginbotham","full_name":"Higginbotham, Andrew P","orcid":"0000-0003-2607-2363"},{"full_name":"Law, K. T.","last_name":"Law","first_name":"K. T."},{"first_name":"Dmitri K.","last_name":"Efetov","full_name":"Efetov, Dmitri K."}],"department":[{"_id":"AnHi"}],"month":"04","volume":14,"ddc":["530"],"intvolume":"        14","scopus_import":"1","acknowledgement":"We are grateful for the fruitful discussions with Allan MacDonald and Andrei Bernevig. D.K.E. acknowledges support from the Ministry of Economy and Competitiveness of Spain through the “Severo Ochoa” program for Centers of Excellence in R&D (SE5-0522), Fundació Privada Cellex, Fundació Privada Mir-Puig, the Generalitat de Catalunya through the CERCA program, funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 852927)” and the La Caixa Foundation. K.T.L. acknowledges the support of the Ministry of Science and Technology of China and the HKRGC through grants MOST20SC04, C6025-19G, 16310219, 16309718, and 16310520. J.D.M. acknowledges support from the INPhINIT ‘la Caixa’ Foundation (ID 100010434) fellowship program (LCF/BQ/DI19/11730021). Y.M.X. acknowledges the support of HKRGC through Grant No. PDFS2223-6S01.","language":[{"iso":"eng"}],"oa_version":"Published Version"},{"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2207.13130"}],"publication_identifier":{"issn":["2469-9926"],"eissn":["2469-9934"]},"quality_controlled":"1","title":"Numerical quantum clock simulations for measuring tunneling times","abstract":[{"text":"We numerically study two methods of measuring tunneling times using a quantum clock. In the conventional method using the Larmor clock, we show that the Larmor tunneling time can be shorter for higher tunneling barriers. In the second method, we study the probability of a spin-flip of a particle when it is transmitted through a potential barrier including a spatially rotating field interacting with its spin. According to the adiabatic theorem, the probability depends on the velocity of the particle inside the barrier. It is numerically observed that the probability increases for higher barriers, which is consistent with the result obtained by the Larmor clock. By comparing outcomes for different initial spin states, we suggest that one of the main causes of the apparent decrease in the tunneling time can be the filtering effect occurring at the end of the barrier.","lang":"eng"}],"publisher":"American Physical Society","oa":1,"article_type":"original","date_updated":"2025-04-14T07:44:01Z","status":"public","doi":"10.1103/PhysRevA.107.042216","project":[{"call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"arxiv":1,"year":"2023","external_id":{"arxiv":["2207.13130"],"isi":["000975799300006"]},"_id":"12914","date_published":"2023-04-20T00:00:00Z","date_created":"2023-05-07T22:01:03Z","publication":"Physical Review A","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","day":"20","article_processing_charge":"No","issue":"4","citation":{"ista":"Suzuki F, Unruh WG. 2023. Numerical quantum clock simulations for measuring tunneling times. Physical Review A. 107(4), 042216.","mla":"Suzuki, Fumika, and William G. Unruh. “Numerical Quantum Clock Simulations for Measuring Tunneling Times.” <i>Physical Review A</i>, vol. 107, no. 4, 042216, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevA.107.042216\">10.1103/PhysRevA.107.042216</a>.","ieee":"F. Suzuki and W. G. Unruh, “Numerical quantum clock simulations for measuring tunneling times,” <i>Physical Review A</i>, vol. 107, no. 4. American Physical Society, 2023.","chicago":"Suzuki, Fumika, and William G. Unruh. “Numerical Quantum Clock Simulations for Measuring Tunneling Times.” <i>Physical Review A</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevA.107.042216\">https://doi.org/10.1103/PhysRevA.107.042216</a>.","short":"F. Suzuki, W.G. Unruh, Physical Review A 107 (2023).","apa":"Suzuki, F., &#38; Unruh, W. G. (2023). Numerical quantum clock simulations for measuring tunneling times. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.107.042216\">https://doi.org/10.1103/PhysRevA.107.042216</a>","ama":"Suzuki F, Unruh WG. Numerical quantum clock simulations for measuring tunneling times. <i>Physical Review A</i>. 2023;107(4). doi:<a href=\"https://doi.org/10.1103/PhysRevA.107.042216\">10.1103/PhysRevA.107.042216</a>"},"article_number":"042216","corr_author":"1","ec_funded":1,"oa_version":"Preprint","language":[{"iso":"eng"}],"volume":107,"month":"04","author":[{"first_name":"Fumika","id":"650C99FC-1079-11EA-A3C0-73AE3DDC885E","orcid":"0000-0003-4982-5970","last_name":"Suzuki","full_name":"Suzuki, Fumika"},{"first_name":"William G.","full_name":"Unruh, William G.","last_name":"Unruh"}],"department":[{"_id":"MiLe"}],"isi":1,"publication_status":"published","acknowledgement":"We thank W. H. Zurek, N. Sinitsyn, M. O. Scully, M. Arndt, and C. H. Marrows for helpful discussions. F.S. acknowledges support from the Los Alamos National Laboratory LDRD program under Project No. 20230049DR and the Center for Nonlinear Studies. F.S. also thanks the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant No. 754411 for support. W.G.U. thanks the Natural Science and Engineering Research Council of Canada, the Hagler Institute of Texas A&M University, the Helmholz Inst HZDR, Germany for support while this work was being done.","scopus_import":"1","intvolume":"       107"},{"year":"2023","date_created":"2023-05-07T22:01:04Z","pmid":1,"_id":"12915","external_id":{"pmid":["37071412"],"isi":["000976063200001"]},"date_published":"2023-05-09T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publication":"ACS Nano","day":"09","article_processing_charge":"No","publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"main_file_link":[{"open_access":"1","url":"https://ddd.uab.cat/pub/artpub/2023/zlnqprw07rek/acsnan_a2023_Pre.pdf"}],"abstract":[{"lang":"eng","text":"Cu2–xS and Cu2–xSe have recently been reported as promising thermoelectric (TE) materials for medium-temperature applications. In contrast, Cu2–xTe, another member of the copper chalcogenide family, typically exhibits low Seebeck coefficients that limit its potential to achieve a superior thermoelectric figure of merit, zT, particularly in the low-temperature range where this material could be effective. To address this, we investigated the TE performance of Cu1.5–xTe–Cu2Se nanocomposites by consolidating surface-engineered Cu1.5Te nanocrystals. This surface engineering strategy allows for precise adjustment of Cu/Te ratios and results in a reversible phase transition at around 600 K in Cu1.5–xTe–Cu2Se nanocomposites, as systematically confirmed by in situ high-temperature X-ray diffraction combined with differential scanning calorimetry analysis. The phase transition leads to a conversion from metallic-like to semiconducting-like TE properties. Additionally, a layer of Cu2Se generated around Cu1.5–xTe nanoparticles effectively inhibits Cu1.5–xTe grain growth, minimizing thermal conductivity and decreasing hole concentration. These properties indicate that copper telluride based compounds have a promising thermoelectric potential, translated into a high dimensionless zT of 1.3 at 560 K."}],"title":"Thermoelectric performance of surface-engineered Cu1.5–xTe–Cu2Se nanocomposites","quality_controlled":"1","publisher":"American Chemical Society","article_type":"original","oa":1,"status":"public","doi":"10.1021/acsnano.3c00495","date_updated":"2025-06-25T06:01:54Z","language":[{"iso":"eng"}],"oa_version":"Submitted Version","page":"8442-8452","author":[{"first_name":"Congcong","last_name":"Xing","full_name":"Xing, Congcong"},{"first_name":"Yu","last_name":"Zhang","full_name":"Zhang, Yu"},{"full_name":"Xiao, Ke","last_name":"Xiao","first_name":"Ke"},{"full_name":"Han, Xu","last_name":"Han","first_name":"Xu"},{"id":"2A70014E-F248-11E8-B48F-1D18A9856A87","first_name":"Yu","full_name":"Liu, Yu","last_name":"Liu","orcid":"0000-0001-7313-6740"},{"full_name":"Nan, Bingfei","last_name":"Nan","first_name":"Bingfei"},{"full_name":"Ramon, Maria Garcia","last_name":"Ramon","id":"1ffff7cd-ed76-11ed-8d5f-be5e7c364eb9","first_name":"Maria Garcia"},{"first_name":"Khak Ho","full_name":"Lim, Khak Ho","last_name":"Lim"},{"first_name":"Junshan","last_name":"Li","full_name":"Li, Junshan"},{"last_name":"Arbiol","full_name":"Arbiol, Jordi","first_name":"Jordi"},{"first_name":"Bed","full_name":"Poudel, Bed","last_name":"Poudel"},{"first_name":"Amin","full_name":"Nozariasbmarz, Amin","last_name":"Nozariasbmarz"},{"first_name":"Wenjie","full_name":"Li, Wenjie","last_name":"Li"},{"id":"43C61214-F248-11E8-B48F-1D18A9856A87","first_name":"Maria","last_name":"Ibáñez","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843"},{"full_name":"Cabot, Andreu","last_name":"Cabot","first_name":"Andreu"}],"department":[{"_id":"MaIb"}],"publication_status":"published","isi":1,"volume":17,"month":"05","scopus_import":"1","intvolume":"        17","acknowledgement":"The authors acknowledge support from the projects ENE2016-77798-C4-3-R and NANOGEN (PID2020-116093RB-C43) funded by MCIN/AEI/10.13039/501100011033/and by “ERDF A way of making Europe”, and by the “European Union”. K.X. and B.N. thank the China Scholarship Council (CSC) for scholarship support. The authors acknowledge funding from Generalitat de Catalunya 2017 SGR 327 and 2017 SGR 1246. ICN2 is supported by the Severo Ochoa program from the Spanish MCIN/AEI (Grant No.: CEX2021-001214-S). IREC and ICN2 are funded by the CERCA Programme/Generalitat de Catalunya. J.L. acknowledges support from the Natural Science Foundation of Sichuan province (2022NSFSC1229). Part of the present work was performed in the frameworks of Universitat de Barcelona Nanoscience Ph.D. program and Universitat Autònoma de Barcelona Materials Science Ph.D. program. Y.L. acknowledges funding from the National Natural Science Foundation of China (Grant No. 22209034) and the Innovation and Entrepreneurship Project of Overseas Returnees in Anhui Province (Grants No. 2022LCX002). K.H.L. acknowledges the financial support of the National Natural Science Foundation of China (Grant No. 22208293).","citation":{"ista":"Xing C, Zhang Y, Xiao K, Han X, Liu Y, Nan B, Ramon MG, Lim KH, Li J, Arbiol J, Poudel B, Nozariasbmarz A, Li W, Ibáñez M, Cabot A. 2023. Thermoelectric performance of surface-engineered Cu1.5–xTe–Cu2Se nanocomposites. ACS Nano. 17(9), 8442–8452.","chicago":"Xing, Congcong, Yu Zhang, Ke Xiao, Xu Han, Yu Liu, Bingfei Nan, Maria Garcia Ramon, et al. “Thermoelectric Performance of Surface-Engineered Cu1.5–XTe–Cu2Se Nanocomposites.” <i>ACS Nano</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acsnano.3c00495\">https://doi.org/10.1021/acsnano.3c00495</a>.","ieee":"C. Xing <i>et al.</i>, “Thermoelectric performance of surface-engineered Cu1.5–xTe–Cu2Se nanocomposites,” <i>ACS Nano</i>, vol. 17, no. 9. American Chemical Society, pp. 8442–8452, 2023.","mla":"Xing, Congcong, et al. “Thermoelectric Performance of Surface-Engineered Cu1.5–XTe–Cu2Se Nanocomposites.” <i>ACS Nano</i>, vol. 17, no. 9, American Chemical Society, 2023, pp. 8442–52, doi:<a href=\"https://doi.org/10.1021/acsnano.3c00495\">10.1021/acsnano.3c00495</a>.","short":"C. Xing, Y. Zhang, K. Xiao, X. Han, Y. Liu, B. Nan, M.G. Ramon, K.H. Lim, J. Li, J. Arbiol, B. Poudel, A. Nozariasbmarz, W. Li, M. Ibáñez, A. Cabot, ACS Nano 17 (2023) 8442–8452.","ama":"Xing C, Zhang Y, Xiao K, et al. Thermoelectric performance of surface-engineered Cu1.5–xTe–Cu2Se nanocomposites. <i>ACS Nano</i>. 2023;17(9):8442-8452. doi:<a href=\"https://doi.org/10.1021/acsnano.3c00495\">10.1021/acsnano.3c00495</a>","apa":"Xing, C., Zhang, Y., Xiao, K., Han, X., Liu, Y., Nan, B., … Cabot, A. (2023). Thermoelectric performance of surface-engineered Cu1.5–xTe–Cu2Se nanocomposites. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.3c00495\">https://doi.org/10.1021/acsnano.3c00495</a>"},"corr_author":"1","OA_type":"green","issue":"9","OA_place":"repository"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publication":"Synthesis","article_processing_charge":"No","day":"01","year":"2023","date_created":"2023-05-08T08:25:08Z","date_published":"2023-05-01T00:00:00Z","_id":"12919","article_type":"original","status":"public","date_updated":"2024-10-14T12:08:22Z","keyword":["Organic Chemistry","Catalysis"],"doi":"10.1055/a-1979-5933","publication_identifier":{"issn":["0039-7881"],"eissn":["1437-210X"]},"publisher":"Georg Thieme Verlag","quality_controlled":"1","title":"Photocatalytic cleavage of trityl protected thiols and alcohols","abstract":[{"text":"We report the visible light photocatalytic cleavage of trityl thioethers or ethers under pH-neutral conditions. The method results in the formation of the respective symmetrical disulfides and alcohols in moderate to excellent yield. The protocol only requires the addition of a suitable photocatalyst and light rendering it orthogonal to several functionalities, including acid labile protective groups. The same conditions can be used to directly convert trityl-protected thiols into unsymmetrical disulfides or selenosulfides, and to cleave trityl resins in solid phase organic synthesis.","lang":"eng"}],"publication_status":"published","author":[{"full_name":"Murakami, Sho","last_name":"Murakami","first_name":"Sho"},{"full_name":"Brudy, Cosima","last_name":"Brudy","first_name":"Cosima"},{"first_name":"Moritz","last_name":"Bachmann","full_name":"Bachmann, Moritz"},{"full_name":"Takemoto, Yoshiji","last_name":"Takemoto","first_name":"Yoshiji"},{"orcid":"0000-0001-8689-388X","last_name":"Pieber","full_name":"Pieber, Bartholomäus","first_name":"Bartholomäus","id":"93e5e5b2-0da6-11ed-8a41-af589a024726"}],"volume":55,"month":"05","intvolume":"        55","scopus_import":"1","language":[{"iso":"eng"}],"page":"1367-1374","oa_version":"None","extern":"1","citation":{"chicago":"Murakami, Sho, Cosima Brudy, Moritz Bachmann, Yoshiji Takemoto, and Bartholomäus Pieber. “Photocatalytic Cleavage of Trityl Protected Thiols and Alcohols.” <i>Synthesis</i>. Georg Thieme Verlag, 2023. <a href=\"https://doi.org/10.1055/a-1979-5933\">https://doi.org/10.1055/a-1979-5933</a>.","ieee":"S. Murakami, C. Brudy, M. Bachmann, Y. Takemoto, and B. Pieber, “Photocatalytic cleavage of trityl protected thiols and alcohols,” <i>Synthesis</i>, vol. 55, no. 09. Georg Thieme Verlag, pp. 1367–1374, 2023.","mla":"Murakami, Sho, et al. “Photocatalytic Cleavage of Trityl Protected Thiols and Alcohols.” <i>Synthesis</i>, vol. 55, no. 09, Georg Thieme Verlag, 2023, pp. 1367–74, doi:<a href=\"https://doi.org/10.1055/a-1979-5933\">10.1055/a-1979-5933</a>.","ista":"Murakami S, Brudy C, Bachmann M, Takemoto Y, Pieber B. 2023. Photocatalytic cleavage of trityl protected thiols and alcohols. Synthesis. 55(09), 1367–1374.","ama":"Murakami S, Brudy C, Bachmann M, Takemoto Y, Pieber B. Photocatalytic cleavage of trityl protected thiols and alcohols. <i>Synthesis</i>. 2023;55(09):1367-1374. doi:<a href=\"https://doi.org/10.1055/a-1979-5933\">10.1055/a-1979-5933</a>","apa":"Murakami, S., Brudy, C., Bachmann, M., Takemoto, Y., &#38; Pieber, B. (2023). Photocatalytic cleavage of trityl protected thiols and alcohols. <i>Synthesis</i>. Georg Thieme Verlag. <a href=\"https://doi.org/10.1055/a-1979-5933\">https://doi.org/10.1055/a-1979-5933</a>","short":"S. Murakami, C. Brudy, M. Bachmann, Y. Takemoto, B. Pieber, Synthesis 55 (2023) 1367–1374."},"issue":"09"},{"abstract":[{"lang":"eng","text":"The multicomponent approach allows to incorporate several functionalities into a single covalent organic framework (COF) and consequently allows the construction of bifunctional materials for cooperative catalysis. The well-defined structure of such multicomponent COFs is furthermore ideally suited for structure-activity relationship studies. We report a series of multicomponent COFs that contain acridine- and 2,2’-bipyridine linkers connected through 1,3,5-benzenetrialdehyde derivatives. The acridine motif is responsible for broad light absorption, while the bipyridine unit enables complexation of nickel catalysts. These features enable the usage of the framework materials as catalysts for light-mediated carbon−heteroatom cross-couplings. Variation of the node units shows that the catalytic activity correlates to the keto-enamine tautomer isomerism. This allows switching between high charge-carrier mobility and persistent, localized charge-separated species depending on the nodes, a tool to tailor the materials for specific reactions. Moreover, nickel-loaded COFs are recyclable and catalyze cross-couplings even using red light irradiation."}],"quality_controlled":"1","title":"Programmable photocatalytic activity of multicomponent covalent organic frameworks used as metallaphotocatalysts","publisher":"Wiley","publication_identifier":{"eissn":["1521-3765"],"issn":["0947-6539"]},"main_file_link":[{"url":"https://doi.org/10.1002/chem.202202967","open_access":"1"}],"doi":"10.1002/chem.202202967","keyword":["General Chemistry","Catalysis","Organic Chemistry"],"status":"public","date_updated":"2024-10-14T12:08:10Z","article_type":"original","oa":1,"date_created":"2023-05-08T08:25:34Z","_id":"12920","date_published":"2023-01-18T00:00:00Z","year":"2023","day":"18","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publication":"Chemistry – A European Journal","citation":{"mla":"Traxler, Michael, et al. “Programmable Photocatalytic Activity of Multicomponent Covalent Organic Frameworks Used as Metallaphotocatalysts.” <i>Chemistry – A European Journal</i>, vol. 29, no. 4, e202202967, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/chem.202202967\">10.1002/chem.202202967</a>.","chicago":"Traxler, Michael, Susanne Reischauer, Sarah Vogl, Jérôme Roeser, Jabor Rabeah, Christopher Penschke, Peter Saalfrank, Bartholomäus Pieber, and Arne Thomas. “Programmable Photocatalytic Activity of Multicomponent Covalent Organic Frameworks Used as Metallaphotocatalysts.” <i>Chemistry – A European Journal</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/chem.202202967\">https://doi.org/10.1002/chem.202202967</a>.","ieee":"M. Traxler <i>et al.</i>, “Programmable photocatalytic activity of multicomponent covalent organic frameworks used as metallaphotocatalysts,” <i>Chemistry – A European Journal</i>, vol. 29, no. 4. Wiley, 2023.","ista":"Traxler M, Reischauer S, Vogl S, Roeser J, Rabeah J, Penschke C, Saalfrank P, Pieber B, Thomas A. 2023. Programmable photocatalytic activity of multicomponent covalent organic frameworks used as metallaphotocatalysts. Chemistry – A European Journal. 29(4), e202202967.","apa":"Traxler, M., Reischauer, S., Vogl, S., Roeser, J., Rabeah, J., Penschke, C., … Thomas, A. (2023). Programmable photocatalytic activity of multicomponent covalent organic frameworks used as metallaphotocatalysts. <i>Chemistry – A European Journal</i>. Wiley. <a href=\"https://doi.org/10.1002/chem.202202967\">https://doi.org/10.1002/chem.202202967</a>","ama":"Traxler M, Reischauer S, Vogl S, et al. Programmable photocatalytic activity of multicomponent covalent organic frameworks used as metallaphotocatalysts. <i>Chemistry – A European Journal</i>. 2023;29(4). doi:<a href=\"https://doi.org/10.1002/chem.202202967\">10.1002/chem.202202967</a>","short":"M. Traxler, S. Reischauer, S. Vogl, J. Roeser, J. Rabeah, C. Penschke, P. Saalfrank, B. Pieber, A. Thomas, Chemistry – A European Journal 29 (2023)."},"article_number":"e202202967","issue":"4","extern":"1","language":[{"iso":"eng"}],"oa_version":"Published Version","scopus_import":"1","intvolume":"        29","author":[{"first_name":"Michael","last_name":"Traxler","full_name":"Traxler, Michael"},{"first_name":"Susanne","last_name":"Reischauer","full_name":"Reischauer, Susanne"},{"first_name":"Sarah","full_name":"Vogl, Sarah","last_name":"Vogl"},{"first_name":"Jérôme","full_name":"Roeser, Jérôme","last_name":"Roeser"},{"first_name":"Jabor","last_name":"Rabeah","full_name":"Rabeah, Jabor"},{"full_name":"Penschke, Christopher","last_name":"Penschke","first_name":"Christopher"},{"first_name":"Peter","full_name":"Saalfrank, Peter","last_name":"Saalfrank"},{"first_name":"Bartholomäus","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","full_name":"Pieber, Bartholomäus","last_name":"Pieber","orcid":"0000-0001-8689-388X"},{"last_name":"Thomas","full_name":"Thomas, Arne","first_name":"Arne"}],"publication_status":"published","volume":29,"month":"01"},{"extern":"1","citation":{"ama":"Madani A, Pieber B. In situ reaction monitoring in photocatalytic organic synthesis. <i>ChemCatChem</i>. 2023;15(7). doi:<a href=\"https://doi.org/10.1002/cctc.202201583\">10.1002/cctc.202201583</a>","apa":"Madani, A., &#38; Pieber, B. (2023). In situ reaction monitoring in photocatalytic organic synthesis. <i>ChemCatChem</i>. Wiley. <a href=\"https://doi.org/10.1002/cctc.202201583\">https://doi.org/10.1002/cctc.202201583</a>","short":"A. Madani, B. Pieber, ChemCatChem 15 (2023).","chicago":"Madani, Amiera, and Bartholomäus Pieber. “In Situ Reaction Monitoring in Photocatalytic Organic Synthesis.” <i>ChemCatChem</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/cctc.202201583\">https://doi.org/10.1002/cctc.202201583</a>.","ieee":"A. Madani and B. Pieber, “In situ reaction monitoring in photocatalytic organic synthesis,” <i>ChemCatChem</i>, vol. 15, no. 7. Wiley, 2023.","mla":"Madani, Amiera, and Bartholomäus Pieber. “In Situ Reaction Monitoring in Photocatalytic Organic Synthesis.” <i>ChemCatChem</i>, vol. 15, no. 7, e202201583, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/cctc.202201583\">10.1002/cctc.202201583</a>.","ista":"Madani A, Pieber B. 2023. In situ reaction monitoring in photocatalytic organic synthesis. ChemCatChem. 15(7), e202201583."},"article_number":"e202201583","issue":"7","author":[{"first_name":"Amiera","full_name":"Madani, Amiera","last_name":"Madani"},{"last_name":"Pieber","full_name":"Pieber, Bartholomäus","orcid":"0000-0001-8689-388X","first_name":"Bartholomäus","id":"93e5e5b2-0da6-11ed-8a41-af589a024726"}],"publication_status":"published","volume":15,"month":"04","scopus_import":"1","intvolume":"        15","language":[{"iso":"eng"}],"oa_version":"Published Version","article_type":"original","oa":1,"doi":"10.1002/cctc.202201583","keyword":["Inorganic Chemistry","Organic Chemistry","Physical and Theoretical Chemistry","Catalysis"],"date_updated":"2024-10-14T12:07:59Z","status":"public","publication_identifier":{"issn":["1867-3880"],"eissn":["1867-3899"]},"main_file_link":[{"url":"https://doi.org/10.1002/cctc.202201583","open_access":"1"}],"title":"In situ reaction monitoring in photocatalytic organic synthesis","abstract":[{"lang":"eng","text":"Visible-light photocatalysis provides numerous useful methodologies for synthetic organic chemistry. However, the mechanisms of these reactions are often not fully understood. Common mechanistic experiments mainly aim to characterize excited state properties of photocatalysts and their interaction with other species. Recently, in situ reaction monitoring using dedicated techniques was shown to be well-suited for the identification of intermediates and to obtain kinetic insights, thereby providing more holistic pictures of the reactions of interest. This minireview surveys these technologies and discusses selected examples where reaction monitoring was used to elucidate the mechanism of photocatalytic reactions."}],"quality_controlled":"1","publisher":"Wiley","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"ChemCatChem","day":"06","article_processing_charge":"No","year":"2023","date_created":"2023-05-08T08:25:55Z","_id":"12921","date_published":"2023-04-06T00:00:00Z"},{"extern":"1","issue":"2","article_number":"e202211663","citation":{"ama":"Lepre E, Rat S, Cavedon C, et al. Catalytic properties of high nitrogen content carbonaceous materials. <i>Angewandte Chemie International Edition</i>. 2023;62(2). doi:<a href=\"https://doi.org/10.1002/anie.202211663\">10.1002/anie.202211663</a>","apa":"Lepre, E., Rat, S., Cavedon, C., Seeberger, P. H., Pieber, B., Antonietti, M., &#38; López‐Salas, N. (2023). Catalytic properties of high nitrogen content carbonaceous materials. <i>Angewandte Chemie International Edition</i>. Wiley. <a href=\"https://doi.org/10.1002/anie.202211663\">https://doi.org/10.1002/anie.202211663</a>","short":"E. Lepre, S. Rat, C. Cavedon, P.H. Seeberger, B. Pieber, M. Antonietti, N. López‐Salas, Angewandte Chemie International Edition 62 (2023).","ieee":"E. Lepre <i>et al.</i>, “Catalytic properties of high nitrogen content carbonaceous materials,” <i>Angewandte Chemie International Edition</i>, vol. 62, no. 2. Wiley, 2023.","chicago":"Lepre, Enrico, Sylvain Rat, Cristian Cavedon, Peter H. Seeberger, Bartholomäus Pieber, Markus Antonietti, and Nieves López‐Salas. “Catalytic Properties of High Nitrogen Content Carbonaceous Materials.” <i>Angewandte Chemie International Edition</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/anie.202211663\">https://doi.org/10.1002/anie.202211663</a>.","mla":"Lepre, Enrico, et al. “Catalytic Properties of High Nitrogen Content Carbonaceous Materials.” <i>Angewandte Chemie International Edition</i>, vol. 62, no. 2, e202211663, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/anie.202211663\">10.1002/anie.202211663</a>.","ista":"Lepre E, Rat S, Cavedon C, Seeberger PH, Pieber B, Antonietti M, López‐Salas N. 2023. Catalytic properties of high nitrogen content carbonaceous materials. Angewandte Chemie International Edition. 62(2), e202211663."},"month":"01","volume":62,"publication_status":"published","author":[{"last_name":"Lepre","full_name":"Lepre, Enrico","first_name":"Enrico"},{"full_name":"Rat, Sylvain","last_name":"Rat","first_name":"Sylvain"},{"full_name":"Cavedon, Cristian","last_name":"Cavedon","first_name":"Cristian"},{"last_name":"Seeberger","full_name":"Seeberger, Peter H.","first_name":"Peter H."},{"orcid":"0000-0001-8689-388X","full_name":"Pieber, Bartholomäus","last_name":"Pieber","id":"93e5e5b2-0da6-11ed-8a41-af589a024726","first_name":"Bartholomäus"},{"first_name":"Markus","last_name":"Antonietti","full_name":"Antonietti, Markus"},{"first_name":"Nieves","last_name":"López‐Salas","full_name":"López‐Salas, Nieves"}],"intvolume":"        62","scopus_import":"1","oa_version":"Published Version","language":[{"iso":"eng"}],"oa":1,"article_type":"original","doi":"10.1002/anie.202211663","date_updated":"2023-08-21T09:18:12Z","keyword":["General Chemistry","Catalysis"],"status":"public","main_file_link":[{"url":"https://doi.org/10.1002/anie.202211663","open_access":"1"}],"publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"publisher":"Wiley","abstract":[{"lang":"eng","text":"The influence of structural modifications on the catalytic activity of carbon materials is poorly understood. A collection of carbonaceous materials with different pore networks and high nitrogen content was characterized and used to catalyze four reactions to deduce structure–activity relationships. The CO2 cycloaddition and Knoevenagel reaction depend on Lewis basic sites (electron-rich nitrogen species). The absence of large conjugated carbon domains resulting from the introduction of large amounts of nitrogen in the carbon network is responsible for poor redox activity, as observed through the catalytic reduction of nitrobenzene with hydrazine and the catalytic oxidation of 3,3′,5,5′-tetramethylbenzidine using hydroperoxide. The material with the highest activity towards Lewis acid catalysis (in the hydrolysis of (dimethoxymethyl)benzene to benzaldehyde) is the most effective for small molecule activation and presents the highest concentration of electron-poor nitrogen species."}],"title":"Catalytic properties of high nitrogen content carbonaceous materials","quality_controlled":"1","publication":"Angewandte Chemie International Edition","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","day":"09","year":"2023","date_published":"2023-01-09T00:00:00Z","_id":"12922","date_created":"2023-05-08T08:28:14Z"}]