[{"author":[{"last_name":"Cipolloni","first_name":"Giorgio","full_name":"Cipolloni, Giorgio","orcid":"0000-0002-4901-7992","id":"42198EFA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"László","full_name":"Erdös, László","last_name":"Erdös","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Schröder","full_name":"Schröder, Dominik J","first_name":"Dominik J","orcid":"0000-0002-2904-1856","id":"408ED176-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article","day":"01","title":"Density of small singular values of the shifted real Ginibre ensemble","citation":{"mla":"Cipolloni, Giorgio, et al. “Density of Small Singular Values of the Shifted Real Ginibre Ensemble.” <i>Annales Henri Poincaré</i>, vol. 23, no. 11, Springer Nature, 2022, pp. 3981–4002, doi:<a href=\"https://doi.org/10.1007/s00023-022-01188-8\">10.1007/s00023-022-01188-8</a>.","chicago":"Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Density of Small Singular Values of the Shifted Real Ginibre Ensemble.” <i>Annales Henri Poincaré</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s00023-022-01188-8\">https://doi.org/10.1007/s00023-022-01188-8</a>.","ieee":"G. Cipolloni, L. Erdös, and D. J. Schröder, “Density of small singular values of the shifted real Ginibre ensemble,” <i>Annales Henri Poincaré</i>, vol. 23, no. 11. Springer Nature, pp. 3981–4002, 2022.","ista":"Cipolloni G, Erdös L, Schröder DJ. 2022. Density of small singular values of the shifted real Ginibre ensemble. Annales Henri Poincaré. 23(11), 3981–4002.","ama":"Cipolloni G, Erdös L, Schröder DJ. Density of small singular values of the shifted real Ginibre ensemble. <i>Annales Henri Poincaré</i>. 2022;23(11):3981-4002. doi:<a href=\"https://doi.org/10.1007/s00023-022-01188-8\">10.1007/s00023-022-01188-8</a>","apa":"Cipolloni, G., Erdös, L., &#38; Schröder, D. J. (2022). Density of small singular values of the shifted real Ginibre ensemble. <i>Annales Henri Poincaré</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00023-022-01188-8\">https://doi.org/10.1007/s00023-022-01188-8</a>","short":"G. Cipolloni, L. Erdös, D.J. Schröder, Annales Henri Poincaré 23 (2022) 3981–4002."},"doi":"10.1007/s00023-022-01188-8","ddc":["510"],"keyword":["Mathematical Physics","Nuclear and High Energy Physics","Statistical and Nonlinear Physics"],"language":[{"iso":"eng"}],"acknowledgement":"Open access funding provided by Swiss Federal Institute of Technology Zurich. Supported by Dr. Max Rössler, the Walter Haefner Foundation and the ETH Zürich Foundation.","date_created":"2023-01-16T09:50:26Z","month":"11","page":"3981-4002","intvolume":"        23","status":"public","publication":"Annales Henri Poincaré","quality_controlled":"1","department":[{"_id":"LaEr"}],"isi":1,"publisher":"Springer Nature","oa_version":"Published Version","has_accepted_license":"1","year":"2022","article_type":"original","publication_identifier":{"eissn":["1424-0661"],"issn":["1424-0637"]},"external_id":{"isi":["000796323500001"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:33:52Z","_id":"12232","date_published":"2022-11-01T00:00:00Z","abstract":[{"lang":"eng","text":"We derive a precise asymptotic formula for the density of the small singular values of the real Ginibre matrix ensemble shifted by a complex parameter z as the dimension tends to infinity. For z away from the real axis the formula coincides with that for the complex Ginibre ensemble we derived earlier in Cipolloni et al. (Prob Math Phys 1:101–146, 2020). On the level of the one-point function of the low lying singular values we thus confirm the transition from real to complex Ginibre ensembles as the shift parameter z becomes genuinely complex; the analogous phenomenon has been well known for eigenvalues. We use the superbosonization formula (Littelmann et al. in Comm Math Phys 283:343–395, 2008) in a regime where the main contribution comes from a three dimensional saddle manifold."}],"file":[{"file_id":"12424","relation":"main_file","content_type":"application/pdf","success":1,"date_created":"2023-01-27T11:06:47Z","creator":"dernst","file_size":1333638,"file_name":"2022_AnnalesHenriP_Cipolloni.pdf","access_level":"open_access","date_updated":"2023-01-27T11:06:47Z","checksum":"5582f059feeb2f63e2eb68197a34d7dc"}],"article_processing_charge":"No","issue":"11","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":23,"file_date_updated":"2023-01-27T11:06:47Z","oa":1,"publication_status":"published"},{"date_created":"2023-01-16T09:50:38Z","month":"11","page":"7134-7145","status":"public","intvolume":"        70","publication":"IEEE Transactions on Communications","quality_controlled":"1","department":[{"_id":"MaMo"}],"isi":1,"publisher":"Institute of Electrical and Electronics Engineers","author":[{"first_name":"Nghia","full_name":"Doan, Nghia","last_name":"Doan"},{"first_name":"Seyyed Ali","full_name":"Hashemi, Seyyed Ali","last_name":"Hashemi"},{"last_name":"Mondelli","first_name":"Marco","full_name":"Mondelli, Marco","id":"27EB676C-8706-11E9-9510-7717E6697425","orcid":"0000-0002-3242-7020"},{"last_name":"Gross","first_name":"Warren J.","full_name":"Gross, Warren J."}],"type":"journal_article","day":"01","title":"Decoding Reed-Muller codes with successive codeword permutations","citation":{"ista":"Doan N, Hashemi SA, Mondelli M, Gross WJ. 2022. Decoding Reed-Muller codes with successive codeword permutations. IEEE Transactions on Communications. 70(11), 7134–7145.","ieee":"N. Doan, S. A. Hashemi, M. Mondelli, and W. J. Gross, “Decoding Reed-Muller codes with successive codeword permutations,” <i>IEEE Transactions on Communications</i>, vol. 70, no. 11. Institute of Electrical and Electronics Engineers, pp. 7134–7145, 2022.","chicago":"Doan, Nghia, Seyyed Ali Hashemi, Marco Mondelli, and Warren J. Gross. “Decoding Reed-Muller Codes with Successive Codeword Permutations.” <i>IEEE Transactions on Communications</i>. Institute of Electrical and Electronics Engineers, 2022. <a href=\"https://doi.org/10.1109/tcomm.2022.3211101\">https://doi.org/10.1109/tcomm.2022.3211101</a>.","mla":"Doan, Nghia, et al. “Decoding Reed-Muller Codes with Successive Codeword Permutations.” <i>IEEE Transactions on Communications</i>, vol. 70, no. 11, Institute of Electrical and Electronics Engineers, 2022, pp. 7134–45, doi:<a href=\"https://doi.org/10.1109/tcomm.2022.3211101\">10.1109/tcomm.2022.3211101</a>.","short":"N. Doan, S.A. Hashemi, M. Mondelli, W.J. Gross, IEEE Transactions on Communications 70 (2022) 7134–7145.","apa":"Doan, N., Hashemi, S. A., Mondelli, M., &#38; Gross, W. J. (2022). Decoding Reed-Muller codes with successive codeword permutations. <i>IEEE Transactions on Communications</i>. Institute of Electrical and Electronics Engineers. <a href=\"https://doi.org/10.1109/tcomm.2022.3211101\">https://doi.org/10.1109/tcomm.2022.3211101</a>","ama":"Doan N, Hashemi SA, Mondelli M, Gross WJ. Decoding Reed-Muller codes with successive codeword permutations. <i>IEEE Transactions on Communications</i>. 2022;70(11):7134-7145. doi:<a href=\"https://doi.org/10.1109/tcomm.2022.3211101\">10.1109/tcomm.2022.3211101</a>"},"doi":"10.1109/tcomm.2022.3211101","language":[{"iso":"eng"}],"_id":"12233","abstract":[{"lang":"eng","text":"A novel recursive list decoding (RLD) algorithm for Reed-Muller (RM) codes based on successive permutations (SP) of the codeword is presented. A low-complexity SP scheme applied to a subset of the symmetry group of RM codes is first proposed to carefully select a good codeword permutation on the fly. Then, the proposed SP technique is integrated into an improved RLD algorithm that initializes different decoding paths with random codeword permutations, which are sampled from the full symmetry group of RM codes. Finally, efficient latency and complexity reduction schemes are introduced that virtually preserve the error-correction performance of the proposed decoder. Simulation results demonstrate that at the target frame error rate of 10−3 for the RM code of length 256 with 163 information bits, the proposed decoder reduces 6% of the computational complexity and 22% of the decoding latency of the state-of-the-art semi-parallel simplified successive-cancellation decoder with fast Hadamard transform (SSC-FHT) that uses 96 permutations from the full symmetry group of RM codes, while relatively maintaining the error-correction performance and memory consumption of the semi-parallel permuted SSC-FHT decoder."}],"date_published":"2022-11-01T00:00:00Z","article_processing_charge":"No","issue":"11","arxiv":1,"volume":70,"main_file_link":[{"open_access":"1","url":" https://doi.org/10.48550/arXiv.2109.02122"}],"oa":1,"publication_status":"published","oa_version":"Preprint","year":"2022","article_type":"original","publication_identifier":{"eissn":["1558-0857"],"issn":["0090-6778"]},"external_id":{"isi":["000937284600006"],"arxiv":["2109.02122"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:34:43Z"},{"intvolume":"        76","status":"public","publication":"Evolution","quality_controlled":"1","department":[{"_id":"NiBa"}],"isi":1,"publisher":"Wiley","date_created":"2023-01-16T09:50:48Z","month":"11","page":"2784-2785","doi":"10.1111/evo.14632","ddc":["570"],"keyword":["General Agricultural and Biological Sciences","Genetics","Ecology","Evolution","Behavior and Systematics"],"language":[{"iso":"eng"}],"type":"journal_article","author":[{"first_name":"Sean","full_name":"Stankowski, Sean","last_name":"Stankowski","id":"43161670-5719-11EA-8025-FABC3DDC885E"}],"day":"01","title":"Digest: On the origin of a possible hybrid species","citation":{"short":"S. Stankowski, Evolution 76 (2022) 2784–2785.","apa":"Stankowski, S. (2022). Digest: On the origin of a possible hybrid species. <i>Evolution</i>. Wiley. <a href=\"https://doi.org/10.1111/evo.14632\">https://doi.org/10.1111/evo.14632</a>","ama":"Stankowski S. Digest: On the origin of a possible hybrid species. <i>Evolution</i>. 2022;76(11):2784-2785. doi:<a href=\"https://doi.org/10.1111/evo.14632\">10.1111/evo.14632</a>","ieee":"S. Stankowski, “Digest: On the origin of a possible hybrid species,” <i>Evolution</i>, vol. 76, no. 11. Wiley, pp. 2784–2785, 2022.","ista":"Stankowski S. 2022. Digest: On the origin of a possible hybrid species. Evolution. 76(11), 2784–2785.","chicago":"Stankowski, Sean. “Digest: On the Origin of a Possible Hybrid Species.” <i>Evolution</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/evo.14632\">https://doi.org/10.1111/evo.14632</a>.","mla":"Stankowski, Sean. “Digest: On the Origin of a Possible Hybrid Species.” <i>Evolution</i>, vol. 76, no. 11, Wiley, 2022, pp. 2784–85, doi:<a href=\"https://doi.org/10.1111/evo.14632\">10.1111/evo.14632</a>."},"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"volume":76,"file_date_updated":"2023-01-27T11:28:38Z","oa":1,"publication_status":"published","abstract":[{"text":"Hybrid speciation—the origin of new species resulting from the hybridization of genetically divergent lineages—was once considered rare, but genomic data suggest that it may occur more often than once thought. In this study, Noguerales and Ortego found genomic evidence supporting the hybrid origin of a grasshopper that is able to exploit a broader range of host plants than either of its putative parents.","lang":"eng"}],"_id":"12234","date_published":"2022-11-01T00:00:00Z","file":[{"access_level":"open_access","date_updated":"2023-01-27T11:28:38Z","checksum":"4c0f05083b414ac0323a1b9ee1abc275","file_size":287282,"creator":"dernst","file_name":"2022_Evolution_Stankowski.pdf","success":1,"date_created":"2023-01-27T11:28:38Z","relation":"main_file","file_id":"12425","content_type":"application/pdf"}],"article_processing_charge":"Yes (via OA deal)","issue":"11","publication_identifier":{"eissn":["1558-5646"],"issn":["0014-3820"]},"external_id":{"isi":["000855751600001"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:35:48Z","has_accepted_license":"1","year":"2022","oa_version":"Published Version","article_type":"original"},{"date_created":"2023-01-16T09:50:58Z","month":"11","page":"566-575","status":"public","intvolume":"       109","department":[{"_id":"MaRo"}],"quality_controlled":"1","publication":"European Journal of Haematology","isi":1,"publisher":"Wiley","type":"journal_article","author":[{"last_name":"Patxot","full_name":"Patxot, Marion","first_name":"Marion"},{"last_name":"Stojanov","first_name":"Miloš","full_name":"Stojanov, Miloš"},{"full_name":"Ojavee, Sven Erik","first_name":"Sven Erik","last_name":"Ojavee"},{"first_name":"Rosanna Pescini","full_name":"Gobert, Rosanna Pescini","last_name":"Gobert"},{"last_name":"Kutalik","full_name":"Kutalik, Zoltán","first_name":"Zoltán"},{"last_name":"Gavillet","first_name":"Mathilde","full_name":"Gavillet, Mathilde"},{"last_name":"Baud","full_name":"Baud, David","first_name":"David"},{"orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","last_name":"Robinson","first_name":"Matthew Richard","full_name":"Robinson, Matthew Richard"}],"day":"01","title":"Haematological changes from conception to childbirth: An indicator of major pregnancy complications","citation":{"apa":"Patxot, M., Stojanov, M., Ojavee, S. E., Gobert, R. P., Kutalik, Z., Gavillet, M., … Robinson, M. R. (2022). Haematological changes from conception to childbirth: An indicator of major pregnancy complications. <i>European Journal of Haematology</i>. Wiley. <a href=\"https://doi.org/10.1111/ejh.13844\">https://doi.org/10.1111/ejh.13844</a>","ama":"Patxot M, Stojanov M, Ojavee SE, et al. Haematological changes from conception to childbirth: An indicator of major pregnancy complications. <i>European Journal of Haematology</i>. 2022;109(5):566-575. doi:<a href=\"https://doi.org/10.1111/ejh.13844\">10.1111/ejh.13844</a>","short":"M. Patxot, M. Stojanov, S.E. Ojavee, R.P. Gobert, Z. Kutalik, M. Gavillet, D. Baud, M.R. Robinson, European Journal of Haematology 109 (2022) 566–575.","mla":"Patxot, Marion, et al. “Haematological Changes from Conception to Childbirth: An Indicator of Major Pregnancy Complications.” <i>European Journal of Haematology</i>, vol. 109, no. 5, Wiley, 2022, pp. 566–75, doi:<a href=\"https://doi.org/10.1111/ejh.13844\">10.1111/ejh.13844</a>.","ieee":"M. Patxot <i>et al.</i>, “Haematological changes from conception to childbirth: An indicator of major pregnancy complications,” <i>European Journal of Haematology</i>, vol. 109, no. 5. Wiley, pp. 566–575, 2022.","ista":"Patxot M, Stojanov M, Ojavee SE, Gobert RP, Kutalik Z, Gavillet M, Baud D, Robinson MR. 2022. Haematological changes from conception to childbirth: An indicator of major pregnancy complications. European Journal of Haematology. 109(5), 566–575.","chicago":"Patxot, Marion, Miloš Stojanov, Sven Erik Ojavee, Rosanna Pescini Gobert, Zoltán Kutalik, Mathilde Gavillet, David Baud, and Matthew Richard Robinson. “Haematological Changes from Conception to Childbirth: An Indicator of Major Pregnancy Complications.” <i>European Journal of Haematology</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/ejh.13844\">https://doi.org/10.1111/ejh.13844</a>."},"ddc":["570","610"],"doi":"10.1111/ejh.13844","language":[{"iso":"eng"}],"keyword":["Hematology","General Medicine"],"acknowledgement":"This project was funded by an SNSF Eccellenza Grant to MRR (PCEGP3-181181), and by core funding from the Institute of Science and Technology Austria. We would like to thank the participants of the study and all the midwives and doctors involved for the computerized obstetrical data from the CHUV Maternity Hospital. Open access funding provided by Universite de Lausanne.","pmid":1,"date_published":"2022-11-01T00:00:00Z","_id":"12235","abstract":[{"lang":"eng","text":"Background: About 800 women die every day worldwide from pregnancy-related complications, including excessive blood loss, infections and high-blood pressure (World Health Organization, 2019). To improve screening for high-risk pregnancies, we set out to identify patterns of maternal hematological changes associated with future pregnancy complications.\r\n\r\nMethods: Using mixed effects models, we established changes in 14 complete blood count (CBC) parameters for 1710 healthy pregnancies and compared them to measurements from 98 pregnancy-induced hypertension, 106 gestational diabetes and 339 postpartum hemorrhage cases.\r\n\r\nResults: Results show interindividual variations, but good individual repeatability in CBC values during physiological pregnancies, allowing the identification of specific alterations in women with obstetric complications. For example, in women with uncomplicated pregnancies, haemoglobin count decreases of 0.12 g/L (95% CI −0.16, −0.09) significantly per gestation week (p value <.001). Interestingly, this decrease is three times more pronounced in women who will develop pregnancy-induced hypertension, with an additional decrease of 0.39 g/L (95% CI −0.51, −0.26). We also confirm that obstetric complications and white CBC predict the likelihood of giving birth earlier during pregnancy.\r\n\r\nConclusion: We provide a comprehensive description of the associations between haematological changes through pregnancy and three major obstetric complications to support strategies for prevention, early-diagnosis and maternal care."}],"file":[{"date_created":"2023-01-27T11:42:43Z","success":1,"content_type":"application/pdf","relation":"main_file","file_id":"12426","checksum":"a676d732f67c2990197e34f96b219370","date_updated":"2023-01-27T11:42:43Z","access_level":"open_access","file_name":"2022_EuropJourHaematology_Patxot.pdf","creator":"dernst","file_size":1225073}],"issue":"5","article_processing_charge":"No","volume":109,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"file_date_updated":"2023-01-27T11:42:43Z","oa":1,"publication_status":"published","oa_version":"Published Version","has_accepted_license":"1","year":"2022","article_type":"original","publication_identifier":{"eissn":["1600-0609"],"issn":["0902-4441"]},"date_updated":"2023-08-04T09:36:21Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1","external_id":{"isi":["000849690500001"],"pmid":["36059200"]}},{"article_processing_charge":"No","issue":"42","abstract":[{"lang":"eng","text":"High-entropy materials offer numerous advantages as catalysts, including a flexible composition to tune the catalytic activity and selectivity and a large variety of adsorption/reaction sites for multistep or multiple reactions. Herein, we report on the synthesis, properties, and electrocatalytic performance of an amorphous high-entropy boride based on abundant transition metals, CoFeNiMnZnB. This metal boride provides excellent performance toward the oxygen evolution reaction (OER), including a low overpotential of 261 mV at 10 mA cm–2, a reduced Tafel slope of 56.8 mV dec–1, and very high stability. The outstanding OER performance of CoFeNiMnZnB is attributed to the synergistic interactions between the different metals, the leaching of Zn ions, the generation of oxygen vacancies, and the in situ formation of an amorphous oxyhydroxide at the CoFeNiMnZnB surface during the OER."}],"_id":"12236","date_published":"2022-10-14T00:00:00Z","publication_status":"published","volume":14,"oa_version":"None","year":"2022","article_type":"original","publication_identifier":{"eissn":["1944-8252"],"issn":["1944-8244"]},"scopus_import":"1","external_id":{"pmid":["36239982"],"isi":["000873782700001"]},"date_updated":"2023-10-04T08:28:14Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","page":"48212-48219","date_created":"2023-01-16T09:51:10Z","month":"10","isi":1,"publisher":"American Chemical Society","intvolume":"        14","status":"public","publication":"ACS Applied Materials & Interfaces","department":[{"_id":"MaIb"}],"quality_controlled":"1","title":"CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution reaction","citation":{"short":"X. Wang, Y. Zuo, S. Horta, R. He, L. Yang, A. Ostovari Moghaddam, M. Ibáñez, X. Qi, A. Cabot, ACS Applied Materials &#38; Interfaces 14 (2022) 48212–48219.","ama":"Wang X, Zuo Y, Horta S, et al. CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution reaction. <i>ACS Applied Materials &#38; Interfaces</i>. 2022;14(42):48212-48219. doi:<a href=\"https://doi.org/10.1021/acsami.2c11627\">10.1021/acsami.2c11627</a>","apa":"Wang, X., Zuo, Y., Horta, S., He, R., Yang, L., Ostovari Moghaddam, A., … Cabot, A. (2022). CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution reaction. <i>ACS Applied Materials &#38; Interfaces</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsami.2c11627\">https://doi.org/10.1021/acsami.2c11627</a>","chicago":"Wang, Xiang, Yong Zuo, Sharona Horta, Ren He, Linlin Yang, Ahmad Ostovari Moghaddam, Maria Ibáñez, Xueqiang Qi, and Andreu Cabot. “CoFeNiMnZnB as a High-Entropy Metal Boride to Boost the Oxygen Evolution Reaction.” <i>ACS Applied Materials &#38; Interfaces</i>. American Chemical Society, 2022. <a href=\"https://doi.org/10.1021/acsami.2c11627\">https://doi.org/10.1021/acsami.2c11627</a>.","ista":"Wang X, Zuo Y, Horta S, He R, Yang L, Ostovari Moghaddam A, Ibáñez M, Qi X, Cabot A. 2022. CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution reaction. ACS Applied Materials &#38; Interfaces. 14(42), 48212–48219.","ieee":"X. Wang <i>et al.</i>, “CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution reaction,” <i>ACS Applied Materials &#38; Interfaces</i>, vol. 14, no. 42. American Chemical Society, pp. 48212–48219, 2022.","mla":"Wang, Xiang, et al. “CoFeNiMnZnB as a High-Entropy Metal Boride to Boost the Oxygen Evolution Reaction.” <i>ACS Applied Materials &#38; Interfaces</i>, vol. 14, no. 42, American Chemical Society, 2022, pp. 48212–19, doi:<a href=\"https://doi.org/10.1021/acsami.2c11627\">10.1021/acsami.2c11627</a>."},"type":"journal_article","author":[{"first_name":"Xiang","full_name":"Wang, Xiang","last_name":"Wang"},{"first_name":"Yong","full_name":"Zuo, Yong","last_name":"Zuo"},{"id":"03a7e858-01b1-11ec-8b71-99ae6c4a05bc","first_name":"Sharona","full_name":"Horta, Sharona","last_name":"Horta"},{"last_name":"He","full_name":"He, Ren","first_name":"Ren"},{"full_name":"Yang, Linlin","first_name":"Linlin","last_name":"Yang"},{"last_name":"Ostovari Moghaddam","full_name":"Ostovari Moghaddam, Ahmad","first_name":"Ahmad"},{"last_name":"Ibáñez","full_name":"Ibáñez, Maria","first_name":"Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843"},{"first_name":"Xueqiang","full_name":"Qi, Xueqiang","last_name":"Qi"},{"last_name":"Cabot","first_name":"Andreu","full_name":"Cabot, Andreu"}],"day":"14","pmid":1,"acknowledgement":"This work was supported by the Spanish MCIN project COMBENERGY (PID2019-105490RB-C32). X.W. and L.Y. thank the China Scholarship Council (CSC) for the scholarship support.","doi":"10.1021/acsami.2c11627","keyword":["General Materials Science"],"language":[{"iso":"eng"}]},{"page":"8471-8489","date_created":"2023-01-16T09:51:26Z","month":"09","isi":1,"publisher":"American Chemical Society","intvolume":"        34","status":"public","department":[{"_id":"MaIb"}],"quality_controlled":"1","publication":"Chemistry of Materials","title":"Solution-processed inorganic thermoelectric materials: Opportunities and challenges","ec_funded":1,"citation":{"ama":"Fiedler C, Kleinhanns T, Garcia M, Lee S, Calcabrini M, Ibáñez M. Solution-processed inorganic thermoelectric materials: Opportunities and challenges. <i>Chemistry of Materials</i>. 2022;34(19):8471-8489. doi:<a href=\"https://doi.org/10.1021/acs.chemmater.2c01967\">10.1021/acs.chemmater.2c01967</a>","apa":"Fiedler, C., Kleinhanns, T., Garcia, M., Lee, S., Calcabrini, M., &#38; Ibáñez, M. (2022). Solution-processed inorganic thermoelectric materials: Opportunities and challenges. <i>Chemistry of Materials</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.chemmater.2c01967\">https://doi.org/10.1021/acs.chemmater.2c01967</a>","short":"C. Fiedler, T. Kleinhanns, M. Garcia, S. Lee, M. Calcabrini, M. Ibáñez, Chemistry of Materials 34 (2022) 8471–8489.","mla":"Fiedler, Christine, et al. “Solution-Processed Inorganic Thermoelectric Materials: Opportunities and Challenges.” <i>Chemistry of Materials</i>, vol. 34, no. 19, American Chemical Society, 2022, pp. 8471–89, doi:<a href=\"https://doi.org/10.1021/acs.chemmater.2c01967\">10.1021/acs.chemmater.2c01967</a>.","chicago":"Fiedler, Christine, Tobias Kleinhanns, Maria Garcia, Seungho Lee, Mariano Calcabrini, and Maria Ibáñez. “Solution-Processed Inorganic Thermoelectric Materials: Opportunities and Challenges.” <i>Chemistry of Materials</i>. American Chemical Society, 2022. <a href=\"https://doi.org/10.1021/acs.chemmater.2c01967\">https://doi.org/10.1021/acs.chemmater.2c01967</a>.","ista":"Fiedler C, Kleinhanns T, Garcia M, Lee S, Calcabrini M, Ibáñez M. 2022. Solution-processed inorganic thermoelectric materials: Opportunities and challenges. Chemistry of Materials. 34(19), 8471–8489.","ieee":"C. Fiedler, T. Kleinhanns, M. Garcia, S. Lee, M. Calcabrini, and M. Ibáñez, “Solution-processed inorganic thermoelectric materials: Opportunities and challenges,” <i>Chemistry of Materials</i>, vol. 34, no. 19. American Chemical Society, pp. 8471–8489, 2022."},"type":"journal_article","author":[{"id":"bd3fceba-dc74-11ea-a0a7-c17f71817366","full_name":"Fiedler, Christine","first_name":"Christine","last_name":"Fiedler"},{"id":"8BD9DE16-AB3C-11E9-9C8C-2A03E6697425","full_name":"Kleinhanns, Tobias","first_name":"Tobias","last_name":"Kleinhanns"},{"last_name":"Garcia","first_name":"Maria","full_name":"Garcia, Maria","id":"6e5c50b8-97dc-11ed-be98-b0a74c84cae0"},{"orcid":"0000-0002-6962-8598","id":"BB243B88-D767-11E9-B658-BC13E6697425","last_name":"Lee","first_name":"Seungho","full_name":"Lee, Seungho"},{"id":"45D7531A-F248-11E8-B48F-1D18A9856A87","last_name":"Calcabrini","first_name":"Mariano","full_name":"Calcabrini, Mariano"},{"last_name":"Ibáñez","full_name":"Ibáñez, Maria","first_name":"Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843"}],"day":"20","acknowledgement":"This work was financially supported by ISTA and the Werner Siemens Foundation. M.C. has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement no. 665385.","project":[{"name":"International IST Doctoral Program","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"pmid":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"12885"}]},"ddc":["540"],"doi":"10.1021/acs.chemmater.2c01967","language":[{"iso":"eng"}],"keyword":["Materials Chemistry","General Chemical Engineering","General Chemistry"],"issue":"19","article_processing_charge":"Yes (via OA deal)","_id":"12237","abstract":[{"text":"Thermoelectric technology requires synthesizing complex materials where not only the crystal structure but also other structural features such as defects, grain size and orientation, and interfaces must be controlled. To date, conventional solid-state techniques are unable to provide this level of control. Herein, we present a synthetic approach in which dense inorganic thermoelectric materials are produced by the consolidation of well-defined nanoparticle powders. The idea is that controlling the characteristics of the powder allows the chemical transformations that take place during consolidation to be guided, ultimately yielding inorganic solids with targeted features. Different from conventional methods, syntheses in solution can produce particles with unprecedented control over their size, shape, crystal structure, composition, and surface chemistry. However, to date, most works have focused only on the low-cost benefits of this strategy. In this perspective, we first cover the opportunities that solution processing of the powder offers, emphasizing the potential structural features that can be controlled by precisely engineering the inorganic core of the particle, the surface, and the organization of the particles before consolidation. We then discuss the challenges of this synthetic approach and more practical matters related to solution processing. Finally, we suggest some good practices for adequate knowledge transfer and improving reproducibility among different laboratories.","lang":"eng"}],"date_published":"2022-09-20T00:00:00Z","file":[{"success":1,"date_created":"2023-01-30T07:35:09Z","file_id":"12434","relation":"main_file","content_type":"application/pdf","access_level":"open_access","date_updated":"2023-01-30T07:35:09Z","checksum":"f7143e44ab510519d1949099c3558532","file_size":10923495,"creator":"dernst","file_name":"2022_ChemistryMaterials_Fiedler.pdf"}],"oa":1,"publication_status":"published","volume":34,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"file_date_updated":"2023-01-30T07:35:09Z","year":"2022","oa_version":"Published Version","has_accepted_license":"1","article_type":"original","publication_identifier":{"eissn":["1520-5002"],"issn":["0897-4756"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:38:26Z","external_id":{"pmid":["36248227"],"isi":["000917837600001"]},"scopus_import":"1"},{"article_type":"original","oa_version":"None","year":"2022","date_updated":"2023-08-04T09:38:53Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"isi":["000898428700006"],"pmid":["36174555"]},"scopus_import":"1","publication_identifier":{"issn":["1534-5807"]},"date_published":"2022-10-01T00:00:00Z","_id":"12238","abstract":[{"lang":"eng","text":"Upon the initiation of collective cell migration, the cells at the free edge are specified as leader cells; however, the mechanism underlying the leader cell specification remains elusive. Here, we show that lamellipodial extension after the release from mechanical confinement causes sustained extracellular signal-regulated kinase (ERK) activation and underlies the leader cell specification. Live-imaging of Madin-Darby canine kidney (MDCK) cells and mouse epidermis through the use of Förster resonance energy transfer (FRET)-based biosensors showed that leader cells exhibit sustained ERK activation in a hepatocyte growth factor (HGF)-dependent manner. Meanwhile, follower cells exhibit oscillatory ERK activation waves in an epidermal growth factor (EGF) signaling-dependent manner. Lamellipodial extension at the free edge increases the cellular sensitivity to HGF. The HGF-dependent ERK activation, in turn, promotes lamellipodial extension, thereby forming a positive feedback loop between cell extension and ERK activation and specifying the cells at the free edge as the leader cells. Our findings show that the integration of physical and biochemical cues underlies the leader cell specification during collective cell migration."}],"issue":"19","article_processing_charge":"No","volume":57,"publication_status":"published","day":"01","type":"journal_article","author":[{"id":"5299a9ce-7679-11eb-a7bc-d1e62b936307","full_name":"Hino, Naoya","first_name":"Naoya","last_name":"Hino"},{"last_name":"Matsuda","first_name":"Kimiya","full_name":"Matsuda, Kimiya"},{"first_name":"Yuya","full_name":"Jikko, Yuya","last_name":"Jikko"},{"first_name":"Gembu","full_name":"Maryu, Gembu","last_name":"Maryu"},{"last_name":"Sakai","first_name":"Katsuya","full_name":"Sakai, Katsuya"},{"first_name":"Ryu","full_name":"Imamura, Ryu","last_name":"Imamura"},{"last_name":"Tsukiji","first_name":"Shinya","full_name":"Tsukiji, Shinya"},{"first_name":"Kazuhiro","full_name":"Aoki, Kazuhiro","last_name":"Aoki"},{"last_name":"Terai","full_name":"Terai, Kenta","first_name":"Kenta"},{"first_name":"Tsuyoshi","full_name":"Hirashima, Tsuyoshi","last_name":"Hirashima"},{"last_name":"Trepat","full_name":"Trepat, Xavier","first_name":"Xavier"},{"full_name":"Matsuda, Michiyuki","first_name":"Michiyuki","last_name":"Matsuda"}],"citation":{"apa":"Hino, N., Matsuda, K., Jikko, Y., Maryu, G., Sakai, K., Imamura, R., … Matsuda, M. (2022). A feedback loop between lamellipodial extension and HGF-ERK signaling specifies leader cells during collective cell migration. <i>Developmental Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.devcel.2022.09.003\">https://doi.org/10.1016/j.devcel.2022.09.003</a>","ama":"Hino N, Matsuda K, Jikko Y, et al. A feedback loop between lamellipodial extension and HGF-ERK signaling specifies leader cells during collective cell migration. <i>Developmental Cell</i>. 2022;57(19):2290-2304.e7. doi:<a href=\"https://doi.org/10.1016/j.devcel.2022.09.003\">10.1016/j.devcel.2022.09.003</a>","short":"N. Hino, K. Matsuda, Y. Jikko, G. Maryu, K. Sakai, R. Imamura, S. Tsukiji, K. Aoki, K. Terai, T. Hirashima, X. Trepat, M. Matsuda, Developmental Cell 57 (2022) 2290–2304.e7.","mla":"Hino, Naoya, et al. “A Feedback Loop between Lamellipodial Extension and HGF-ERK Signaling Specifies Leader Cells during Collective Cell Migration.” <i>Developmental Cell</i>, vol. 57, no. 19, Elsevier, 2022, p. 2290–2304.e7, doi:<a href=\"https://doi.org/10.1016/j.devcel.2022.09.003\">10.1016/j.devcel.2022.09.003</a>.","ieee":"N. Hino <i>et al.</i>, “A feedback loop between lamellipodial extension and HGF-ERK signaling specifies leader cells during collective cell migration,” <i>Developmental Cell</i>, vol. 57, no. 19. Elsevier, p. 2290–2304.e7, 2022.","ista":"Hino N, Matsuda K, Jikko Y, Maryu G, Sakai K, Imamura R, Tsukiji S, Aoki K, Terai K, Hirashima T, Trepat X, Matsuda M. 2022. A feedback loop between lamellipodial extension and HGF-ERK signaling specifies leader cells during collective cell migration. Developmental Cell. 57(19), 2290–2304.e7.","chicago":"Hino, Naoya, Kimiya Matsuda, Yuya Jikko, Gembu Maryu, Katsuya Sakai, Ryu Imamura, Shinya Tsukiji, et al. “A Feedback Loop between Lamellipodial Extension and HGF-ERK Signaling Specifies Leader Cells during Collective Cell Migration.” <i>Developmental Cell</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.devcel.2022.09.003\">https://doi.org/10.1016/j.devcel.2022.09.003</a>."},"title":"A feedback loop between lamellipodial extension and HGF-ERK signaling specifies leader cells during collective cell migration","language":[{"iso":"eng"}],"keyword":["Developmental Biology","Cell Biology","General Biochemistry","Genetics and Molecular Biology","Molecular Biology"],"doi":"10.1016/j.devcel.2022.09.003","acknowledgement":"We thank the members of the Matsuda Laboratory for their helpful discussion and encouragement, and we thank K. Hirano and K. Takakura for their technical assistance. This work was supported by the Kyoto University Live Imaging Center. Financial support was provided in the form of JSPS KAKENHI grants (nos. 17J02107 and 20K22653 to N.H., and 20H05898 and 19H00993 to M.M.), a JST CREST grant (no. JPMJCR1654 to M.M.), a Moonshot R&D grant (no. JPMJPS2022-11 to M.M.), Generalitat de Catalunya and the CERCA Programme (no. SGR-2017-01602 to X.T.), MICCINN/FEDER (no. PGC2018-099645-B-I00 to X.T.), and European Research Council (no. Adv-883739 to X.T.). IBEC is a recipient of a Severo Ochoa Award of Excellence from the MINECO. This work was partly supported by an Extramural Collaborative Research Grant of Cancer Research Institute, Kanazawa University.","pmid":1,"month":"10","date_created":"2023-01-16T09:51:39Z","page":"2290-2304.e7","department":[{"_id":"CaHe"}],"quality_controlled":"1","publication":"Developmental Cell","intvolume":"        57","status":"public","publisher":"Elsevier","isi":1},{"language":[{"iso":"eng"}],"keyword":["Plant Science","Molecular Biology"],"ddc":["580"],"doi":"10.1016/j.molp.2022.09.003","acknowledgement":"A.J. is supported by funding from the Austrian Science Fund I3630B25 (to J.F.). This research was supported by the Scientific Service Units of Institute of Science and Technology Austria (ISTA) through resources provided by the Electron Microscopy Facility, Lab Support Facility, and the Imaging and Optics Facility. We acknowledge Prof. David Robinson (Heidelberg) and Prof. Jan Traas (Lyon) for making us aware of previously published classical on-grid preparation methods. No conflict of interest declared.","project":[{"call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630"}],"pmid":1,"day":"03","type":"journal_article","author":[{"id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","last_name":"Johnson","first_name":"Alexander J","full_name":"Johnson, Alexander J"},{"orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","last_name":"Kaufmann","full_name":"Kaufmann, Walter","first_name":"Walter"},{"last_name":"Sommer","first_name":"Christoph M","full_name":"Sommer, Christoph M","orcid":"0000-0003-1216-9105","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Costanzo","first_name":"Tommaso","full_name":"Costanzo, Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","orcid":"0000-0001-9732-3815"},{"first_name":"Dana A.","full_name":"Dahhan, Dana A.","last_name":"Dahhan"},{"last_name":"Bednarek","first_name":"Sebastian Y.","full_name":"Bednarek, Sebastian Y."},{"last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"citation":{"apa":"Johnson, A. J., Kaufmann, W., Sommer, C. M., Costanzo, T., Dahhan, D. A., Bednarek, S. Y., &#38; Friml, J. (2022). Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. <i>Molecular Plant</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">https://doi.org/10.1016/j.molp.2022.09.003</a>","ama":"Johnson AJ, Kaufmann W, Sommer CM, et al. Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. <i>Molecular Plant</i>. 2022;15(10):1533-1542. doi:<a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">10.1016/j.molp.2022.09.003</a>","short":"A.J. Johnson, W. Kaufmann, C.M. Sommer, T. Costanzo, D.A. Dahhan, S.Y. Bednarek, J. Friml, Molecular Plant 15 (2022) 1533–1542.","mla":"Johnson, Alexander J., et al. “Three-Dimensional Visualization of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” <i>Molecular Plant</i>, vol. 15, no. 10, Elsevier, 2022, pp. 1533–42, doi:<a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">10.1016/j.molp.2022.09.003</a>.","ieee":"A. J. Johnson <i>et al.</i>, “Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution,” <i>Molecular Plant</i>, vol. 15, no. 10. Elsevier, pp. 1533–1542, 2022.","ista":"Johnson AJ, Kaufmann W, Sommer CM, Costanzo T, Dahhan DA, Bednarek SY, Friml J. 2022. Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. Molecular Plant. 15(10), 1533–1542.","chicago":"Johnson, Alexander J, Walter Kaufmann, Christoph M Sommer, Tommaso Costanzo, Dana A. Dahhan, Sebastian Y. Bednarek, and Jiří Friml. “Three-Dimensional Visualization of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” <i>Molecular Plant</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">https://doi.org/10.1016/j.molp.2022.09.003</a>."},"title":"Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution","quality_controlled":"1","department":[{"_id":"JiFr"},{"_id":"EM-Fac"},{"_id":"Bio"}],"publication":"Molecular Plant","status":"public","intvolume":"        15","publisher":"Elsevier","isi":1,"month":"10","date_created":"2023-01-16T09:51:49Z","page":"1533-1542","date_updated":"2023-08-04T09:39:24Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","scopus_import":"1","external_id":{"isi":["000882769800009"],"pmid":["36081349"]},"publication_identifier":{"issn":["1674-2052"]},"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"Bio"}],"article_type":"original","year":"2022","oa_version":"Published Version","has_accepted_license":"1","file_date_updated":"2023-01-30T07:46:51Z","volume":15,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"publication_status":"published","oa":1,"file":[{"access_level":"open_access","date_updated":"2023-01-30T07:46:51Z","checksum":"04d5c12490052d03e4dc4412338a43dd","file_size":2307251,"creator":"dernst","file_name":"2022_MolecularPlant_Johnson.pdf","success":1,"date_created":"2023-01-30T07:46:51Z","relation":"main_file","file_id":"12435","content_type":"application/pdf"}],"_id":"12239","abstract":[{"lang":"eng","text":"Biological systems are the sum of their dynamic three-dimensional (3D) parts. Therefore, it is critical to study biological structures in 3D and at high resolution to gain insights into their physiological functions. Electron microscopy of metal replicas of unroofed cells and isolated organelles has been a key technique to visualize intracellular structures at nanometer resolution. However, many of these methods require specialized equipment and personnel to complete them. Here, we present novel accessible methods to analyze biological structures in unroofed cells and biochemically isolated organelles in 3D and at nanometer resolution, focusing on Arabidopsis clathrin-coated vesicles (CCVs). While CCVs are essential trafficking organelles, their detailed structural information is lacking due to their poor preservation when observed via classical electron microscopy protocols experiments. First, we establish a method to visualize CCVs in unroofed cells using scanning transmission electron microscopy tomography, providing sufficient resolution to define the clathrin coat arrangements. Critically, the samples are prepared directly on electron microscopy grids, removing the requirement to use extremely corrosive acids, thereby enabling the use of this method in any electron microscopy lab. Secondly, we demonstrate that this standardized sample preparation allows the direct comparison of isolated CCV samples with those visualized in cells. Finally, to facilitate the high-throughput and robust screening of metal replicated samples, we provide a deep learning analysis method to screen the “pseudo 3D” morphologies of CCVs imaged with 2D modalities. Collectively, our work establishes accessible ways to examine the 3D structure of biological samples and provide novel insights into the structure of plant CCVs."}],"date_published":"2022-10-03T00:00:00Z","issue":"10","article_processing_charge":"Yes (via OA deal)"},{"arxiv":1,"issue":"10","article_processing_charge":"Yes (via OA deal)","file":[{"file_id":"12436","relation":"main_file","content_type":"application/pdf","success":1,"date_created":"2023-01-30T08:01:10Z","creator":"dernst","file_size":7356807,"file_name":"2022_JourMathPhysics_Cipolloni2.pdf","access_level":"open_access","date_updated":"2023-01-30T08:01:10Z","checksum":"2db278ae5b07f345a7e3fec1f92b5c33"}],"article_number":"103303","date_published":"2022-10-14T00:00:00Z","_id":"12243","abstract":[{"text":"We consider the eigenvalues of a large dimensional real or complex Ginibre matrix in the region of the complex plane where their real parts reach their maximum value. This maximum follows the Gumbel distribution and that these extreme eigenvalues form a Poisson point process as the dimension asymptotically tends to infinity. In the complex case, these facts have already been established by Bender [Probab. Theory Relat. Fields 147, 241 (2010)] and in the real case by Akemann and Phillips [J. Stat. Phys. 155, 421 (2014)] even for the more general elliptic ensemble with a sophisticated saddle point analysis. The purpose of this article is to give a very short direct proof in the Ginibre case with an effective error term. Moreover, our estimates on the correlation kernel in this regime serve as a key input for accurately locating [Formula: see text] for any large matrix X with i.i.d. entries in the companion paper [G. Cipolloni et al., arXiv:2206.04448 (2022)]. ","lang":"eng"}],"publication_status":"published","oa":1,"file_date_updated":"2023-01-30T08:01:10Z","volume":63,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"article_type":"original","has_accepted_license":"1","year":"2022","oa_version":"Published Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:40:02Z","scopus_import":"1","external_id":{"arxiv":["2206.04443"],"isi":["000869715800001"]},"publication_identifier":{"eissn":["1089-7658"],"issn":["0022-2488"]},"month":"10","date_created":"2023-01-16T09:52:58Z","publisher":"AIP Publishing","isi":1,"department":[{"_id":"LaEr"}],"quality_controlled":"1","publication":"Journal of Mathematical Physics","intvolume":"        63","status":"public","ec_funded":1,"citation":{"short":"G. Cipolloni, L. Erdös, D.J. Schröder, Y. Xu, Journal of Mathematical Physics 63 (2022).","apa":"Cipolloni, G., Erdös, L., Schröder, D. J., &#38; Xu, Y. (2022). Directional extremal statistics for Ginibre eigenvalues. <i>Journal of Mathematical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0104290\">https://doi.org/10.1063/5.0104290</a>","ama":"Cipolloni G, Erdös L, Schröder DJ, Xu Y. Directional extremal statistics for Ginibre eigenvalues. <i>Journal of Mathematical Physics</i>. 2022;63(10). doi:<a href=\"https://doi.org/10.1063/5.0104290\">10.1063/5.0104290</a>","ieee":"G. Cipolloni, L. Erdös, D. J. Schröder, and Y. Xu, “Directional extremal statistics for Ginibre eigenvalues,” <i>Journal of Mathematical Physics</i>, vol. 63, no. 10. AIP Publishing, 2022.","ista":"Cipolloni G, Erdös L, Schröder DJ, Xu Y. 2022. Directional extremal statistics for Ginibre eigenvalues. Journal of Mathematical Physics. 63(10), 103303.","chicago":"Cipolloni, Giorgio, László Erdös, Dominik J Schröder, and Yuanyuan Xu. “Directional Extremal Statistics for Ginibre Eigenvalues.” <i>Journal of Mathematical Physics</i>. AIP Publishing, 2022. <a href=\"https://doi.org/10.1063/5.0104290\">https://doi.org/10.1063/5.0104290</a>.","mla":"Cipolloni, Giorgio, et al. “Directional Extremal Statistics for Ginibre Eigenvalues.” <i>Journal of Mathematical Physics</i>, vol. 63, no. 10, 103303, AIP Publishing, 2022, doi:<a href=\"https://doi.org/10.1063/5.0104290\">10.1063/5.0104290</a>."},"title":"Directional extremal statistics for Ginibre eigenvalues","day":"14","author":[{"orcid":"0000-0002-4901-7992","id":"42198EFA-F248-11E8-B48F-1D18A9856A87","last_name":"Cipolloni","first_name":"Giorgio","full_name":"Cipolloni, Giorgio"},{"last_name":"Erdös","full_name":"Erdös, László","first_name":"László","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-2904-1856","id":"408ED176-F248-11E8-B48F-1D18A9856A87","last_name":"Schröder","full_name":"Schröder, Dominik J","first_name":"Dominik J"},{"id":"7902bdb1-a2a4-11eb-a164-c9216f71aea3","first_name":"Yuanyuan","full_name":"Xu, Yuanyuan","last_name":"Xu"}],"type":"journal_article","acknowledgement":"The authors are grateful to G. Akemann for bringing Refs. 19 and 24–26 to their attention. Discussions with Guillaume Dubach on a preliminary version of this project are acknowledged.\r\nL.E. and Y.X. were supported by the ERC Advanced Grant “RMTBeyond” under Grant No. 101020331. D.S. was supported by Dr. Max Rössler, the Walter Haefner Foundation, and the ETH Zürich Foundation.","project":[{"call_identifier":"H2020","_id":"62796744-2b32-11ec-9570-940b20777f1d","grant_number":"101020331","name":"Random matrices beyond Wigner-Dyson-Mehta"}],"language":[{"iso":"eng"}],"keyword":["Mathematical Physics","Statistical and Nonlinear Physics"],"doi":"10.1063/5.0104290","ddc":["510","530"]},{"publication_status":"published","oa":1,"file_date_updated":"2023-01-30T08:06:56Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":25,"article_processing_charge":"No","issue":"10","file":[{"access_level":"open_access","date_updated":"2023-01-30T08:06:56Z","checksum":"28431146873096f52e0107b534f178c9","file_size":23789835,"creator":"dernst","file_name":"2022_NatureNeuroscience_Colombo.pdf","success":1,"date_created":"2023-01-30T08:06:56Z","relation":"main_file","file_id":"12437","content_type":"application/pdf"}],"_id":"12244","date_published":"2022-10-01T00:00:00Z","abstract":[{"text":"Environmental cues influence the highly dynamic morphology of microglia. Strategies to characterize these changes usually involve user-selected morphometric features, which preclude the identification of a spectrum of context-dependent morphological phenotypes. Here we develop MorphOMICs, a topological data analysis approach, which enables semiautomatic mapping of microglial morphology into an atlas of cue-dependent phenotypes and overcomes feature-selection biases and biological variability. We extract spatially heterogeneous and sexually dimorphic morphological phenotypes for seven adult mouse brain regions. This sex-specific phenotype declines with maturation but increases over the disease trajectories in two neurodegeneration mouse models, with females showing a faster morphological shift in affected brain regions. Remarkably, microglia morphologies reflect an adaptation upon repeated exposure to ketamine anesthesia and do not recover to control morphologies. Finally, we demonstrate that both long primary processes and short terminal processes provide distinct insights to morphological phenotypes. MorphOMICs opens a new perspective to characterize microglial morphology.","lang":"eng"}],"external_id":{"pmid":["36180790"],"isi":["000862214700001"]},"scopus_import":"1","date_updated":"2024-03-25T23:30:10Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","acknowledged_ssus":[{"_id":"PreCl"},{"_id":"Bio"},{"_id":"ScienComp"}],"publication_identifier":{"issn":["1097-6256"],"eissn":["1546-1726"]},"article_type":"original","has_accepted_license":"1","oa_version":"Published Version","year":"2022","publisher":"Springer Nature","isi":1,"publication":"Nature Neuroscience","quality_controlled":"1","department":[{"_id":"SaSi"}],"status":"public","intvolume":"        25","page":"1379-1393","month":"10","date_created":"2023-01-16T09:53:07Z","related_material":{"record":[{"relation":"dissertation_contains","id":"12378","status":"public"}],"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/morphomics-revealing-the-hidden-meaning-of-microglia-shape/","relation":"press_release"}]},"project":[{"grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"call_identifier":"H2020","_id":"25D4A630-B435-11E9-9278-68D0E5697425","grant_number":"715571","name":"Microglia action towards neuronal circuit formation and function in health and disease"}],"pmid":1,"acknowledgement":"We thank the scientific service units at ISTA, in particular M. Schunn’s team at the preclinical facility, and especially our colony manager S. Haslinger, for excellent support. We are also grateful to the ISTA Imaging & Optics Facility, and in particular C. Sommer for helping with the data file conversions. We thank R. Erhart from the ISTA Scientific Computing Unit for improving the script performance. We thank M. Maes, B. Nagy, S. Oakeley and M. Benevento and all members of the Siegert group for constant feedback on the project and on the manuscript. This research was supported by the European Union Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Actions program (754411 to R.J.A.C.), and by the European Research Council (grant no. 715571 to S.S.). L.K. was supported by funding to the Blue Brain Project, a research center of the École polytechnique fédérale de Lausanne, from the Swiss government’s ETH Board of the Swiss Federal Institutes of Technology. L.-H.T. was supported by NIH (grant no. R37NS051874) and by the JPB Foundation. The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript.","keyword":["General Neuroscience"],"language":[{"iso":"eng"}],"doi":"10.1038/s41593-022-01167-6","ddc":["570"],"citation":{"ieee":"G. Colombo <i>et al.</i>, “A tool for mapping microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes,” <i>Nature Neuroscience</i>, vol. 25, no. 10. Springer Nature, pp. 1379–1393, 2022.","ista":"Colombo G, Cubero RJ, Kanari L, Venturino A, Schulz R, Scolamiero M, Agerberg J, Mathys H, Tsai L-H, Chachólski W, Hess K, Siegert S. 2022. A tool for mapping microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes. Nature Neuroscience. 25(10), 1379–1393.","chicago":"Colombo, Gloria, Ryan J Cubero, Lida Kanari, Alessandro Venturino, Rouven Schulz, Martina Scolamiero, Jens Agerberg, et al. “A Tool for Mapping Microglial Morphology, MorphOMICs, Reveals Brain-Region and Sex-Dependent Phenotypes.” <i>Nature Neuroscience</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41593-022-01167-6\">https://doi.org/10.1038/s41593-022-01167-6</a>.","mla":"Colombo, Gloria, et al. “A Tool for Mapping Microglial Morphology, MorphOMICs, Reveals Brain-Region and Sex-Dependent Phenotypes.” <i>Nature Neuroscience</i>, vol. 25, no. 10, Springer Nature, 2022, pp. 1379–93, doi:<a href=\"https://doi.org/10.1038/s41593-022-01167-6\">10.1038/s41593-022-01167-6</a>.","short":"G. Colombo, R.J. Cubero, L. Kanari, A. Venturino, R. Schulz, M. Scolamiero, J. Agerberg, H. Mathys, L.-H. Tsai, W. Chachólski, K. Hess, S. Siegert, Nature Neuroscience 25 (2022) 1379–1393.","apa":"Colombo, G., Cubero, R. J., Kanari, L., Venturino, A., Schulz, R., Scolamiero, M., … Siegert, S. (2022). A tool for mapping microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes. <i>Nature Neuroscience</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41593-022-01167-6\">https://doi.org/10.1038/s41593-022-01167-6</a>","ama":"Colombo G, Cubero RJ, Kanari L, et al. A tool for mapping microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes. <i>Nature Neuroscience</i>. 2022;25(10):1379-1393. doi:<a href=\"https://doi.org/10.1038/s41593-022-01167-6\">10.1038/s41593-022-01167-6</a>"},"ec_funded":1,"title":"A tool for mapping microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes","day":"01","author":[{"id":"3483CF6C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9434-8902","last_name":"Colombo","full_name":"Colombo, Gloria","first_name":"Gloria"},{"id":"850B2E12-9CD4-11E9-837F-E719E6697425","orcid":"0000-0003-0002-1867","first_name":"Ryan J","full_name":"Cubero, Ryan J","last_name":"Cubero"},{"last_name":"Kanari","first_name":"Lida","full_name":"Kanari, Lida"},{"orcid":"0000-0003-2356-9403","id":"41CB84B2-F248-11E8-B48F-1D18A9856A87","first_name":"Alessandro","full_name":"Venturino, Alessandro","last_name":"Venturino"},{"last_name":"Schulz","first_name":"Rouven","full_name":"Schulz, Rouven","id":"4C5E7B96-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5297-733X"},{"full_name":"Scolamiero, Martina","first_name":"Martina","last_name":"Scolamiero"},{"last_name":"Agerberg","full_name":"Agerberg, Jens","first_name":"Jens"},{"last_name":"Mathys","full_name":"Mathys, Hansruedi","first_name":"Hansruedi"},{"first_name":"Li-Huei","full_name":"Tsai, Li-Huei","last_name":"Tsai"},{"last_name":"Chachólski","full_name":"Chachólski, Wojciech","first_name":"Wojciech"},{"full_name":"Hess, Kathryn","first_name":"Kathryn","last_name":"Hess"},{"orcid":"0000-0001-8635-0877","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87","full_name":"Siegert, Sandra","first_name":"Sandra","last_name":"Siegert"}],"type":"journal_article"},{"article_processing_charge":"No","issue":"19","article_number":"dev200474","file":[{"file_size":9348839,"creator":"dernst","file_name":"2022_Development_Soto.pdf","access_level":"open_access","date_updated":"2023-01-30T08:35:44Z","checksum":"d7c29b74e9e4032308228cc704a30e88","relation":"main_file","file_id":"12438","content_type":"application/pdf","success":1,"date_created":"2023-01-30T08:35:44Z"}],"abstract":[{"lang":"eng","text":"MicroRNAs (miRs) have an important role in tuning dynamic gene expression. However, the mechanism by which they are quantitatively controlled is unknown. We show that the amount of mature miR-9, a key regulator of neuronal development, increases during zebrafish neurogenesis in a sharp stepwise manner. We characterize the spatiotemporal profile of seven distinct microRNA primary transcripts (pri-mir)-9s that produce the same mature miR-9 and show that they are sequentially expressed during hindbrain neurogenesis. Expression of late-onset pri-mir-9-1 is added on to, rather than replacing, the expression of early onset pri-mir-9-4 and -9-5 in single cells. CRISPR/Cas9 mutation of the late-onset pri-mir-9-1 prevents the developmental increase of mature miR-9, reduces late neuronal differentiation and fails to downregulate Her6 at late stages. Mathematical modelling shows that an adaptive network containing Her6 is insensitive to linear increases in miR-9 but responds to stepwise increases of miR-9. We suggest that a sharp stepwise increase of mature miR-9 is created by sequential and additive temporal activation of distinct loci. This may be a strategy to overcome adaptation and facilitate a transition of Her6 to a new dynamic regime or steady state."}],"_id":"12245","date_published":"2022-10-01T00:00:00Z","publication_status":"published","oa":1,"file_date_updated":"2023-01-30T08:35:44Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":149,"article_type":"original","has_accepted_license":"1","year":"2022","oa_version":"Published Version","scopus_import":"1","external_id":{"isi":["000918161000003"],"pmid":["36189829"]},"date_updated":"2023-08-04T09:41:08Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"issn":["0950-1991"],"eissn":["1477-9129"]},"month":"10","date_created":"2023-01-16T09:53:17Z","publisher":"The Company of Biologists","isi":1,"publication":"Development","department":[{"_id":"AnKi"}],"quality_controlled":"1","status":"public","intvolume":"       149","citation":{"short":"X. Soto, J. Burton, C.S. Manning, T. Minchington, R. Lea, J. Lee, J. Kursawe, M. Rattray, N. Papalopulu, Development 149 (2022).","ama":"Soto X, Burton J, Manning CS, et al. Sequential and additive expression of miR-9 precursors control timing of neurogenesis. <i>Development</i>. 2022;149(19). doi:<a href=\"https://doi.org/10.1242/dev.200474\">10.1242/dev.200474</a>","apa":"Soto, X., Burton, J., Manning, C. S., Minchington, T., Lea, R., Lee, J., … Papalopulu, N. (2022). Sequential and additive expression of miR-9 precursors control timing of neurogenesis. <i>Development</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/dev.200474\">https://doi.org/10.1242/dev.200474</a>","chicago":"Soto, Ximena, Joshua Burton, Cerys S. Manning, Thomas Minchington, Robert Lea, Jessica Lee, Jochen Kursawe, Magnus Rattray, and Nancy Papalopulu. “Sequential and Additive Expression of MiR-9 Precursors Control Timing of Neurogenesis.” <i>Development</i>. The Company of Biologists, 2022. <a href=\"https://doi.org/10.1242/dev.200474\">https://doi.org/10.1242/dev.200474</a>.","ista":"Soto X, Burton J, Manning CS, Minchington T, Lea R, Lee J, Kursawe J, Rattray M, Papalopulu N. 2022. Sequential and additive expression of miR-9 precursors control timing of neurogenesis. Development. 149(19), dev200474.","ieee":"X. Soto <i>et al.</i>, “Sequential and additive expression of miR-9 precursors control timing of neurogenesis,” <i>Development</i>, vol. 149, no. 19. The Company of Biologists, 2022.","mla":"Soto, Ximena, et al. “Sequential and Additive Expression of MiR-9 Precursors Control Timing of Neurogenesis.” <i>Development</i>, vol. 149, no. 19, dev200474, The Company of Biologists, 2022, doi:<a href=\"https://doi.org/10.1242/dev.200474\">10.1242/dev.200474</a>."},"title":"Sequential and additive expression of miR-9 precursors control timing of neurogenesis","day":"01","type":"journal_article","author":[{"first_name":"Ximena","full_name":"Soto, Ximena","last_name":"Soto"},{"first_name":"Joshua","full_name":"Burton, Joshua","last_name":"Burton"},{"last_name":"Manning","full_name":"Manning, Cerys S.","first_name":"Cerys S."},{"id":"7d1648cb-19e9-11eb-8e7a-f8c037fb3e3f","full_name":"Minchington, Thomas","first_name":"Thomas","last_name":"Minchington"},{"full_name":"Lea, Robert","first_name":"Robert","last_name":"Lea"},{"last_name":"Lee","first_name":"Jessica","full_name":"Lee, Jessica"},{"last_name":"Kursawe","first_name":"Jochen","full_name":"Kursawe, Jochen"},{"last_name":"Rattray","first_name":"Magnus","full_name":"Rattray, Magnus"},{"last_name":"Papalopulu","first_name":"Nancy","full_name":"Papalopulu, Nancy"}],"related_material":{"link":[{"relation":"software","url":" https://github.com/burtonjosh/StepwiseMir9"}]},"pmid":1,"acknowledgement":"We are grateful to Dr Tom Pettini for the advice on smiFISH technique and Dr Laure Bally-Cuif for sharing plasmids. The authors also thank the Biological Services Facility, Bioimaging and Systems Microscopy Facilities of the University of Manchester for technical support.\r\nThis work was supported by a Wellcome Trust Senior Research Fellowship (090868/Z/09/Z) and a Wellcome Trust Investigator Award (224394/Z/21/Z) to N.P. and a Medical Research Council Career Development Award to C.S.M. (MR/V032534/1). J.B. was supported by a Wellcome Trust Four-Year PhD Studentship in Basic Science (219992/Z/19/Z). Open Access funding provided by The University of Manchester. Deposited in PMC for immediate release.","keyword":["Developmental Biology","Molecular Biology"],"language":[{"iso":"eng"}],"ddc":["570"],"doi":"10.1242/dev.200474"},{"citation":{"mla":"Lewin, Mathieu, et al. “Improved Lieb–Oxford Bound on the Indirect and Exchange Energies.” <i>Letters in Mathematical Physics</i>, vol. 112, no. 5, 92, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1007/s11005-022-01584-5\">10.1007/s11005-022-01584-5</a>.","chicago":"Lewin, Mathieu, Elliott H. Lieb, and Robert Seiringer. “Improved Lieb–Oxford Bound on the Indirect and Exchange Energies.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s11005-022-01584-5\">https://doi.org/10.1007/s11005-022-01584-5</a>.","ieee":"M. Lewin, E. H. Lieb, and R. Seiringer, “Improved Lieb–Oxford bound on the indirect and exchange energies,” <i>Letters in Mathematical Physics</i>, vol. 112, no. 5. Springer Nature, 2022.","ista":"Lewin M, Lieb EH, Seiringer R. 2022. Improved Lieb–Oxford bound on the indirect and exchange energies. Letters in Mathematical Physics. 112(5), 92.","ama":"Lewin M, Lieb EH, Seiringer R. Improved Lieb–Oxford bound on the indirect and exchange energies. <i>Letters in Mathematical Physics</i>. 2022;112(5). doi:<a href=\"https://doi.org/10.1007/s11005-022-01584-5\">10.1007/s11005-022-01584-5</a>","apa":"Lewin, M., Lieb, E. H., &#38; Seiringer, R. (2022). Improved Lieb–Oxford bound on the indirect and exchange energies. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-022-01584-5\">https://doi.org/10.1007/s11005-022-01584-5</a>","short":"M. Lewin, E.H. Lieb, R. Seiringer, Letters in Mathematical Physics 112 (2022)."},"ec_funded":1,"title":"Improved Lieb–Oxford bound on the indirect and exchange energies","day":"15","type":"journal_article","author":[{"last_name":"Lewin","full_name":"Lewin, Mathieu","first_name":"Mathieu"},{"first_name":"Elliott H.","full_name":"Lieb, Elliott H.","last_name":"Lieb"},{"last_name":"Seiringer","full_name":"Seiringer, Robert","first_name":"Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"694227","name":"Analysis of quantum many-body systems"}],"acknowledgement":"We would like to thank David Gontier for useful advice on the numerical simulations. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant Agreements MDFT No. 725528 of M.L. and AQUAMS No. 694227 of R.S.). We are thankful for the hospitality of the Institut Henri Poincaré in Paris, where part of this work was done.","keyword":["Mathematical Physics","Statistical and Nonlinear Physics"],"language":[{"iso":"eng"}],"doi":"10.1007/s11005-022-01584-5","month":"09","date_created":"2023-01-16T09:53:54Z","publisher":"Springer Nature","isi":1,"publication":"Letters in Mathematical Physics","department":[{"_id":"RoSe"}],"quality_controlled":"1","intvolume":"       112","status":"public","article_type":"original","oa_version":"Preprint","year":"2022","external_id":{"arxiv":["2203.12473"],"isi":["000854762600001"]},"scopus_import":"1","date_updated":"2023-09-05T15:17:34Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_identifier":{"issn":["0377-9017"],"eissn":["1573-0530"]},"arxiv":1,"article_processing_charge":"No","issue":"5","article_number":"92","date_published":"2022-09-15T00:00:00Z","_id":"12246","abstract":[{"lang":"eng","text":"The Lieb–Oxford inequality provides a lower bound on the Coulomb energy of a classical system of N identical charges only in terms of their one-particle density. We prove here a new estimate on the best constant in this inequality. Numerical evaluation provides the value 1.58, which is a significant improvement to the previously known value 1.64. The best constant has recently been shown to be larger than 1.44. In a second part, we prove that the constant can be reduced to 1.25 when the inequality is restricted to Hartree–Fock states. This is the first proof that the exchange term is always much lower than the full indirect Coulomb energy."}],"publication_status":"published","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2203.12473"}],"oa":1,"volume":112},{"external_id":{"isi":["000848449100001"],"pmid":["35994296"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:42:11Z","publication_identifier":{"eissn":["1558-5646"],"issn":["0014-3820"]},"article_type":"original","year":"2022","has_accepted_license":"1","oa_version":"Published Version","file_date_updated":"2023-01-30T08:45:35Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":76,"publication_status":"published","oa":1,"file":[{"date_updated":"2023-01-30T08:45:35Z","access_level":"open_access","checksum":"defd8a4bea61cf00a3c88d4a30e2728c","file_name":"2022_Evolution_Koch.pdf","creator":"dernst","file_size":2990581,"success":1,"date_created":"2023-01-30T08:45:35Z","content_type":"application/pdf","relation":"main_file","file_id":"12439"}],"_id":"12247","date_published":"2022-10-01T00:00:00Z","abstract":[{"lang":"eng","text":"Chromosomal inversions have been shown to play a major role in a local adaptation by suppressing recombination between alternative arrangements and maintaining beneficial allele combinations. However, so far, their importance relative to the remaining genome remains largely unknown. Understanding the genetic architecture of adaptation requires better estimates of how loci of different effect sizes contribute to phenotypic variation. Here, we used three Swedish islands where the marine snail Littorina saxatilis has repeatedly evolved into two distinct ecotypes along a habitat transition. We estimated the contribution of inversion polymorphisms to phenotypic divergence while controlling for polygenic effects in the remaining genome using a quantitative genetics framework. We confirmed the importance of inversions but showed that contributions of loci outside inversions are of similar magnitude, with variable proportions dependent on the trait and the population. Some inversions showed consistent effects across all sites, whereas others exhibited site-specific effects, indicating that the genomic basis for replicated phenotypic divergence is only partly shared. The contributions of sexual dimorphism as well as environmental factors to phenotypic variation were significant but minor compared to inversions and polygenic background. Overall, this integrated approach provides insight into the multiple mechanisms contributing to parallel phenotypic divergence."}],"article_processing_charge":"No","issue":"10","keyword":["General Agricultural and Biological Sciences","Genetics","Ecology","Evolution","Behavior and Systematics"],"language":[{"iso":"eng"}],"doi":"10.1111/evo.14602","ddc":["570"],"related_material":{"record":[{"relation":"research_data","id":"13066","status":"public"}]},"pmid":1,"acknowledgement":"We thank everyone who helped with fieldwork, snail processing, and DNA extractions, particularly Laura Brettell, Mårten Duvetorp, Juan Galindo, Anne-Lise Liabot, Irena Senčić, and Zuzanna Zagrodzka. We also thank Rui Faria and Jenny Larsson for their contributions, with inversions and shell shape respectively. KJ was funded by the Swedish research council Vetenskapsrådet, grant number 2017-03798. R.K.B. and E.K. were funded by the European Research Council (ERC-2015-AdG-693030-BARRIERS). R.K.B. was also funded by the Natural Environment Research Council and the Swedish Research Council Vetenskapsrådet.","day":"01","type":"journal_article","author":[{"first_name":"Eva L.","full_name":"Koch, Eva L.","last_name":"Koch"},{"last_name":"Ravinet","full_name":"Ravinet, Mark","first_name":"Mark"},{"orcid":"0000-0003-1050-4969","id":"3C147470-F248-11E8-B48F-1D18A9856A87","last_name":"Westram","first_name":"Anja M","full_name":"Westram, Anja M"},{"last_name":"Johannesson","first_name":"Kerstin","full_name":"Johannesson, Kerstin"},{"first_name":"Roger K.","full_name":"Butlin, Roger K.","last_name":"Butlin"}],"citation":{"chicago":"Koch, Eva L., Mark Ravinet, Anja M Westram, Kerstin Johannesson, and Roger K. Butlin. “Genetic Architecture of Repeated Phenotypic Divergence in Littorina Saxatilis Evolution.” <i>Evolution</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/evo.14602\">https://doi.org/10.1111/evo.14602</a>.","ieee":"E. L. Koch, M. Ravinet, A. M. Westram, K. Johannesson, and R. K. Butlin, “Genetic architecture of repeated phenotypic divergence in Littorina saxatilis evolution,” <i>Evolution</i>, vol. 76, no. 10. Wiley, pp. 2332–2346, 2022.","ista":"Koch EL, Ravinet M, Westram AM, Johannesson K, Butlin RK. 2022. Genetic architecture of repeated phenotypic divergence in Littorina saxatilis evolution. Evolution. 76(10), 2332–2346.","mla":"Koch, Eva L., et al. “Genetic Architecture of Repeated Phenotypic Divergence in Littorina Saxatilis Evolution.” <i>Evolution</i>, vol. 76, no. 10, Wiley, 2022, pp. 2332–46, doi:<a href=\"https://doi.org/10.1111/evo.14602\">10.1111/evo.14602</a>.","short":"E.L. Koch, M. Ravinet, A.M. Westram, K. Johannesson, R.K. Butlin, Evolution 76 (2022) 2332–2346.","ama":"Koch EL, Ravinet M, Westram AM, Johannesson K, Butlin RK. Genetic architecture of repeated phenotypic divergence in Littorina saxatilis evolution. <i>Evolution</i>. 2022;76(10):2332-2346. doi:<a href=\"https://doi.org/10.1111/evo.14602\">10.1111/evo.14602</a>","apa":"Koch, E. L., Ravinet, M., Westram, A. M., Johannesson, K., &#38; Butlin, R. K. (2022). Genetic architecture of repeated phenotypic divergence in Littorina saxatilis evolution. <i>Evolution</i>. Wiley. <a href=\"https://doi.org/10.1111/evo.14602\">https://doi.org/10.1111/evo.14602</a>"},"title":"Genetic architecture of repeated phenotypic divergence in Littorina saxatilis evolution","publication":"Evolution","department":[{"_id":"NiBa"}],"quality_controlled":"1","intvolume":"        76","status":"public","publisher":"Wiley","isi":1,"month":"10","date_created":"2023-01-16T09:54:15Z","page":"2332-2346"},{"external_id":{"isi":["000850270300001"],"pmid":["35977389"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2024-03-25T23:30:26Z","publication_identifier":{"issn":["1943-2631"]},"acknowledged_ssus":[{"_id":"ScienComp"}],"article_type":"original","year":"2022","has_accepted_license":"1","oa_version":"Published Version","publication_status":"published","oa":1,"file_date_updated":"2023-01-30T08:59:58Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":222,"article_processing_charge":"No","issue":"2","file":[{"date_updated":"2023-01-30T08:59:58Z","access_level":"open_access","checksum":"f79ff5383e882ea3f95f3da47a78029d","file_name":"2022_Genetics_Elkrewi.pdf","file_size":1347136,"creator":"dernst","success":1,"date_created":"2023-01-30T08:59:58Z","content_type":"application/pdf","relation":"main_file","file_id":"12440"}],"article_number":"iyac123","date_published":"2022-10-01T00:00:00Z","_id":"12248","abstract":[{"text":"Eurasian brine shrimp (genus Artemia) have closely related sexual and asexual lineages of parthenogenetic females, which produce rare males at low frequencies. Although they are known to have ZW chromosomes, these are not well characterized, and it is unclear whether they are shared across the clade. Furthermore, the underlying genetic architecture of the transmission of asexuality, which can occur when rare males mate with closely related sexual females, is not well understood. We produced a chromosome-level assembly for the sexual Eurasian species Artemia sinica and characterized in detail the pair of sex chromosomes of this species. We combined this new assembly with short-read genomic data for the sexual species Artemia sp. Kazakhstan and several asexual lineages of Artemia parthenogenetica, allowing us to perform an in-depth characterization of sex-chromosome evolution across the genus. We identified a small differentiated region of the ZW pair that is shared by all sexual and asexual lineages, supporting the shared ancestry of the sex chromosomes. We also inferred that recombination suppression has spread to larger sections of the chromosome independently in the American and Eurasian lineages. Finally, we took advantage of a rare male, which we backcrossed to sexual females, to explore the genetic basis of asexuality. Our results suggest that parthenogenesis is likely partly controlled by a locus on the Z chromosome, highlighting the interplay between sex determination and asexuality.","lang":"eng"}],"pmid":1,"project":[{"_id":"250BDE62-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","grant_number":"715257"},{"_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","grant_number":"F8810","name":"The highjacking of meiosis for asexual reproduction"}],"related_material":{"record":[{"status":"public","id":"11653","relation":"research_data"}]},"acknowledgement":"This work was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 715257) and by the Austrian Science Foundation (FWF SFB F88-10).\r\nWe thank the Vicoso group for comments on the manuscript and the ISTA Scientific computing team and the Vienna Biocenter Sequencing facility for technical support.","keyword":["Genetics"],"language":[{"iso":"eng"}],"doi":"10.1093/genetics/iyac123","ddc":["570"],"citation":{"ama":"Elkrewi MN, Khauratovich U, Toups MA, et al. ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp. <i>Genetics</i>. 2022;222(2). doi:<a href=\"https://doi.org/10.1093/genetics/iyac123\">10.1093/genetics/iyac123</a>","apa":"Elkrewi, M. N., Khauratovich, U., Toups, M. A., Bett, V. K., Mrnjavac, A., Macon, A., … Vicoso, B. (2022). ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp. <i>Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/genetics/iyac123\">https://doi.org/10.1093/genetics/iyac123</a>","short":"M.N. Elkrewi, U. Khauratovich, M.A. Toups, V.K. Bett, A. Mrnjavac, A. Macon, C. Fraisse, L. Sax, A.K. Huylmans, F. Hontoria, B. Vicoso, Genetics 222 (2022).","mla":"Elkrewi, Marwan N., et al. “ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.” <i>Genetics</i>, vol. 222, no. 2, iyac123, Oxford University Press, 2022, doi:<a href=\"https://doi.org/10.1093/genetics/iyac123\">10.1093/genetics/iyac123</a>.","chicago":"Elkrewi, Marwan N, Uladzislava Khauratovich, Melissa A Toups, Vincent K Bett, Andrea Mrnjavac, Ariana Macon, Christelle Fraisse, et al. “ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.” <i>Genetics</i>. Oxford University Press, 2022. <a href=\"https://doi.org/10.1093/genetics/iyac123\">https://doi.org/10.1093/genetics/iyac123</a>.","ieee":"M. N. Elkrewi <i>et al.</i>, “ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp,” <i>Genetics</i>, vol. 222, no. 2. Oxford University Press, 2022.","ista":"Elkrewi MN, Khauratovich U, Toups MA, Bett VK, Mrnjavac A, Macon A, Fraisse C, Sax L, Huylmans AK, Hontoria F, Vicoso B. 2022. ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp. Genetics. 222(2), iyac123."},"ec_funded":1,"title":"ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp","day":"01","type":"journal_article","author":[{"last_name":"Elkrewi","first_name":"Marwan N","full_name":"Elkrewi, Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","orcid":"0000-0002-5328-7231"},{"last_name":"Khauratovich","full_name":"Khauratovich, Uladzislava","first_name":"Uladzislava","id":"5eba06f4-97d8-11ed-9f8f-d826ebdd9434"},{"orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","first_name":"Melissa A","last_name":"Toups"},{"id":"57854184-AAE0-11E9-8D04-98D6E5697425","last_name":"Bett","first_name":"Vincent K","full_name":"Bett, Vincent K"},{"id":"353FAC84-AE61-11E9-8BFC-00D3E5697425","last_name":"Mrnjavac","full_name":"Mrnjavac, Andrea","first_name":"Andrea"},{"id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","first_name":"Ariana","full_name":"Macon, Ariana","last_name":"Macon"},{"id":"32DF5794-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8441-5075","last_name":"Fraisse","first_name":"Christelle","full_name":"Fraisse, Christelle"},{"last_name":"Sax","full_name":"Sax, Luca","first_name":"Luca","id":"701c5602-97d8-11ed-96b5-b52773c70189"},{"last_name":"Huylmans","first_name":"Ann K","full_name":"Huylmans, Ann K","orcid":"0000-0001-8871-4961","id":"4C0A3874-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hontoria, Francisco","first_name":"Francisco","last_name":"Hontoria"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","last_name":"Vicoso","first_name":"Beatriz","full_name":"Vicoso, Beatriz"}],"publisher":"Oxford University Press","isi":1,"publication":"Genetics","quality_controlled":"1","department":[{"_id":"BeVi"}],"status":"public","intvolume":"       222","month":"10","date_created":"2023-01-16T09:56:10Z"},{"article_number":"121101","file":[{"date_created":"2023-01-30T09:07:00Z","success":1,"content_type":"application/pdf","relation":"main_file","file_id":"12441","checksum":"b0915b706568a663a9a372fca24adf35","date_updated":"2023-01-30T09:07:00Z","access_level":"open_access","file_name":"2022_JourChemPhysics_Cheng.pdf","creator":"dernst","file_size":4402384}],"_id":"12249","date_published":"2022-09-30T00:00:00Z","abstract":[{"lang":"eng","text":"The chemical potential of a component in a solution is defined as the free energy change as the amount of that component changes. Computing this fundamental thermodynamic property from atomistic simulations is notoriously difficult because of the convergence issues involved in free energy methods and finite size effects. This Communication presents the so-called S0 method, which can be used to obtain chemical potentials from static structure factors computed from equilibrium molecular dynamics simulations under the isothermal–isobaric ensemble. This new method is demonstrated on the systems of binary Lennard-Jones particles, urea–water mixtures, a NaCl aqueous solution, and a high-pressure carbon–hydrogen mixture. "}],"article_processing_charge":"No","issue":"12","file_date_updated":"2023-01-30T09:07:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":157,"publication_status":"published","oa":1,"article_type":"original","oa_version":"Published Version","year":"2022","has_accepted_license":"1","scopus_import":"1","external_id":{"isi":["000862856000003"]},"date_updated":"2023-08-04T09:43:11Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"issn":["0021-9606"],"eissn":["1089-7690"]},"month":"09","date_created":"2023-01-16T09:56:20Z","publication":"The Journal of Chemical Physics","quality_controlled":"1","department":[{"_id":"BiCh"}],"status":"public","intvolume":"       157","publisher":"AIP Publishing","isi":1,"day":"30","type":"journal_article","author":[{"orcid":"0000-0002-3584-9632","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","last_name":"Cheng","first_name":"Bingqing","full_name":"Cheng, Bingqing"}],"citation":{"chicago":"Cheng, Bingqing. “Computing Chemical Potentials of Solutions from Structure Factors.” <i>The Journal of Chemical Physics</i>. AIP Publishing, 2022. <a href=\"https://doi.org/10.1063/5.0107059\">https://doi.org/10.1063/5.0107059</a>.","ista":"Cheng B. 2022. Computing chemical potentials of solutions from structure factors. The Journal of Chemical Physics. 157(12), 121101.","ieee":"B. Cheng, “Computing chemical potentials of solutions from structure factors,” <i>The Journal of Chemical Physics</i>, vol. 157, no. 12. AIP Publishing, 2022.","mla":"Cheng, Bingqing. “Computing Chemical Potentials of Solutions from Structure Factors.” <i>The Journal of Chemical Physics</i>, vol. 157, no. 12, 121101, AIP Publishing, 2022, doi:<a href=\"https://doi.org/10.1063/5.0107059\">10.1063/5.0107059</a>.","short":"B. Cheng, The Journal of Chemical Physics 157 (2022).","ama":"Cheng B. Computing chemical potentials of solutions from structure factors. <i>The Journal of Chemical Physics</i>. 2022;157(12). doi:<a href=\"https://doi.org/10.1063/5.0107059\">10.1063/5.0107059</a>","apa":"Cheng, B. (2022). Computing chemical potentials of solutions from structure factors. <i>The Journal of Chemical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0107059\">https://doi.org/10.1063/5.0107059</a>"},"title":"Computing chemical potentials of solutions from structure factors","keyword":["Physical and Theoretical Chemistry","General Physics and Astronomy"],"language":[{"iso":"eng"}],"doi":"10.1063/5.0107059","ddc":["530","540"],"related_material":{"link":[{"url":"https://github.com/ BingqingCheng/S0","relation":"software"}]},"acknowledgement":"I thank Daan Frenkel for providing feedback on an early draft and for stimulating discussions, Debashish Mukherji and Robinson Cortes-Huerto for sharing the trajectories for urea–water mixtures, and Aleks Reinhardt for useful suggestions on the manuscript."},{"article_processing_charge":"No","_id":"12251","abstract":[{"text":"Amyloid formation is linked to devastating neurodegenerative diseases, motivating detailed studies of the mechanisms of amyloid formation. For Aβ, the peptide associated with Alzheimer’s disease, the mechanism and rate of aggregation have been established for a range of variants and conditions <jats:italic>in vitro</jats:italic> and in bodily fluids. A key outstanding question is how the relative stabilities of monomers, fibrils and intermediates affect each step in the fibril formation process. By monitoring the kinetics of aggregation of Aβ42, in the presence of urea or guanidinium hydrochloride (GuHCl), we here determine the rates of the underlying microscopic steps and establish the importance of changes in relative stability induced by the presence of denaturant for each individual step. Denaturants shift the equilibrium towards the unfolded state of each species. We find that a non-ionic denaturant, urea, reduces the overall aggregation rate, and that the effect on nucleation is stronger than the effect on elongation. Urea reduces the rate of secondary nucleation by decreasing the coverage of fibril surfaces and the rate of nucleus formation. It also reduces the rate of primary nucleation, increasing its reaction order. The ionic denaturant, GuHCl, accelerates the aggregation at low denaturant concentrations and decelerates the aggregation at high denaturant concentrations. Below approximately 0.25 M GuHCl, the screening of repulsive electrostatic interactions between peptides by the charged denaturant dominates, leading to an increased aggregation rate. At higher GuHCl concentrations, the electrostatic repulsion is completely screened, and the denaturing effect dominates. The results illustrate how the differential effects of denaturants on stability of monomer, oligomer and fibril translate to differential effects on microscopic steps, with the rate of nucleation being most strongly reduced.","lang":"eng"}],"date_published":"2022-09-20T00:00:00Z","article_number":"943355","file":[{"content_type":"application/pdf","relation":"main_file","file_id":"12442","success":1,"date_created":"2023-01-30T09:15:13Z","file_name":"2022_FrontiersNeuroscience_Weiffert2.pdf","creator":"dernst","file_size":19798610,"date_updated":"2023-01-30T09:15:13Z","access_level":"open_access","checksum":"e67d16113ffb4fb4fa38a183d169f210"}],"oa":1,"publication_status":"published","volume":16,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"file_date_updated":"2023-01-30T09:15:13Z","has_accepted_license":"1","oa_version":"Published Version","year":"2022","article_type":"original","publication_identifier":{"issn":["1662-453X"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:48:56Z","external_id":{"isi":["000866287100001"]},"scopus_import":"1","date_created":"2023-01-16T09:56:43Z","month":"09","isi":1,"publisher":"Frontiers Media","status":"public","intvolume":"        16","quality_controlled":"1","department":[{"_id":"AnSa"}],"publication":"Frontiers in Neuroscience","title":"Influence of denaturants on amyloid β42 aggregation kinetics","citation":{"short":"T. Weiffert, G. Meisl, S. Curk, R. Cukalevski, A. Šarić, T.P.J. Knowles, S. Linse, Frontiers in Neuroscience 16 (2022).","apa":"Weiffert, T., Meisl, G., Curk, S., Cukalevski, R., Šarić, A., Knowles, T. P. J., &#38; Linse, S. (2022). Influence of denaturants on amyloid β42 aggregation kinetics. <i>Frontiers in Neuroscience</i>. Frontiers Media. <a href=\"https://doi.org/10.3389/fnins.2022.943355\">https://doi.org/10.3389/fnins.2022.943355</a>","ama":"Weiffert T, Meisl G, Curk S, et al. Influence of denaturants on amyloid β42 aggregation kinetics. <i>Frontiers in Neuroscience</i>. 2022;16. doi:<a href=\"https://doi.org/10.3389/fnins.2022.943355\">10.3389/fnins.2022.943355</a>","ista":"Weiffert T, Meisl G, Curk S, Cukalevski R, Šarić A, Knowles TPJ, Linse S. 2022. Influence of denaturants on amyloid β42 aggregation kinetics. Frontiers in Neuroscience. 16, 943355.","ieee":"T. Weiffert <i>et al.</i>, “Influence of denaturants on amyloid β42 aggregation kinetics,” <i>Frontiers in Neuroscience</i>, vol. 16. Frontiers Media, 2022.","chicago":"Weiffert, Tanja, Georg Meisl, Samo Curk, Risto Cukalevski, Anđela Šarić, Tuomas P. J. Knowles, and Sara Linse. “Influence of Denaturants on Amyloid Β42 Aggregation Kinetics.” <i>Frontiers in Neuroscience</i>. Frontiers Media, 2022. <a href=\"https://doi.org/10.3389/fnins.2022.943355\">https://doi.org/10.3389/fnins.2022.943355</a>.","mla":"Weiffert, Tanja, et al. “Influence of Denaturants on Amyloid Β42 Aggregation Kinetics.” <i>Frontiers in Neuroscience</i>, vol. 16, 943355, Frontiers Media, 2022, doi:<a href=\"https://doi.org/10.3389/fnins.2022.943355\">10.3389/fnins.2022.943355</a>."},"type":"journal_article","author":[{"first_name":"Tanja","full_name":"Weiffert, Tanja","last_name":"Weiffert"},{"full_name":"Meisl, Georg","first_name":"Georg","last_name":"Meisl"},{"full_name":"Curk, Samo","first_name":"Samo","last_name":"Curk"},{"last_name":"Cukalevski","full_name":"Cukalevski, Risto","first_name":"Risto"},{"last_name":"Šarić","full_name":"Šarić, Anđela","first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139"},{"last_name":"Knowles","first_name":"Tuomas P. J.","full_name":"Knowles, Tuomas P. J."},{"last_name":"Linse","first_name":"Sara","full_name":"Linse, Sara"}],"day":"20","acknowledgement":"This work was supported by grants from the Swedish Research Council (grant no. 2015-00143) and the European Research Council (grant no. 340890).","ddc":["570"],"doi":"10.3389/fnins.2022.943355","language":[{"iso":"eng"}],"keyword":["General Neuroscience"]},{"citation":{"short":"D. Dormeshkin, M. Shapira, S. Dubovik, A. Kavaleuski, M. Katsin, A. Migas, A. Meleshko, S. Semyonov, Frontiers in Immunology 13 (2022).","apa":"Dormeshkin, D., Shapira, M., Dubovik, S., Kavaleuski, A., Katsin, M., Migas, A., … Semyonov, S. (2022). Isolation of an escape-resistant SARS-CoV-2 neutralizing nanobody from a novel synthetic nanobody library. <i>Frontiers in Immunology</i>. Frontiers Media. <a href=\"https://doi.org/10.3389/fimmu.2022.965446\">https://doi.org/10.3389/fimmu.2022.965446</a>","ama":"Dormeshkin D, Shapira M, Dubovik S, et al. Isolation of an escape-resistant SARS-CoV-2 neutralizing nanobody from a novel synthetic nanobody library. <i>Frontiers in Immunology</i>. 2022;13. doi:<a href=\"https://doi.org/10.3389/fimmu.2022.965446\">10.3389/fimmu.2022.965446</a>","ieee":"D. Dormeshkin <i>et al.</i>, “Isolation of an escape-resistant SARS-CoV-2 neutralizing nanobody from a novel synthetic nanobody library,” <i>Frontiers in Immunology</i>, vol. 13. Frontiers Media, 2022.","ista":"Dormeshkin D, Shapira M, Dubovik S, Kavaleuski A, Katsin M, Migas A, Meleshko A, Semyonov S. 2022. Isolation of an escape-resistant SARS-CoV-2 neutralizing nanobody from a novel synthetic nanobody library. Frontiers in Immunology. 13, 965446.","chicago":"Dormeshkin, Dmitri, Michail Shapira, Simon Dubovik, Anton Kavaleuski, Mikalai Katsin, Alexandr Migas, Alexander Meleshko, and Sergei Semyonov. “Isolation of an Escape-Resistant SARS-CoV-2 Neutralizing Nanobody from a Novel Synthetic Nanobody Library.” <i>Frontiers in Immunology</i>. Frontiers Media, 2022. <a href=\"https://doi.org/10.3389/fimmu.2022.965446\">https://doi.org/10.3389/fimmu.2022.965446</a>.","mla":"Dormeshkin, Dmitri, et al. “Isolation of an Escape-Resistant SARS-CoV-2 Neutralizing Nanobody from a Novel Synthetic Nanobody Library.” <i>Frontiers in Immunology</i>, vol. 13, 965446, Frontiers Media, 2022, doi:<a href=\"https://doi.org/10.3389/fimmu.2022.965446\">10.3389/fimmu.2022.965446</a>."},"title":"Isolation of an escape-resistant SARS-CoV-2 neutralizing nanobody from a novel synthetic nanobody library","day":"16","author":[{"last_name":"Dormeshkin","first_name":"Dmitri","full_name":"Dormeshkin, Dmitri"},{"last_name":"Shapira","first_name":"Michail","full_name":"Shapira, Michail"},{"last_name":"Dubovik","first_name":"Simon","full_name":"Dubovik, Simon"},{"orcid":"0000-0003-2091-526X","id":"4968f7ad-eb97-11eb-a6c2-8ed382e8912c","first_name":"Anton","full_name":"Kavaleuski, Anton","last_name":"Kavaleuski"},{"last_name":"Katsin","first_name":"Mikalai","full_name":"Katsin, Mikalai"},{"last_name":"Migas","first_name":"Alexandr","full_name":"Migas, Alexandr"},{"last_name":"Meleshko","full_name":"Meleshko, Alexander","first_name":"Alexander"},{"last_name":"Semyonov","full_name":"Semyonov, Sergei","first_name":"Sergei"}],"type":"journal_article","acknowledgement":"The authors declare that this study received funding from Immunofusion. The funder was not involved in the study design, collection, analysis, interpretation of data, the writing of this article or the decision to submit it for publication.","keyword":["Immunology","Immunology and Allergy","COVID-19","SARS-CoV-2","synthetic library","RBD","neutralization nanobody","VHH"],"language":[{"iso":"eng"}],"doi":"10.3389/fimmu.2022.965446","ddc":["570"],"month":"09","date_created":"2023-01-16T09:56:57Z","publisher":"Frontiers Media","isi":1,"publication":"Frontiers in Immunology","department":[{"_id":"LeSa"}],"quality_controlled":"1","status":"public","intvolume":"        13","article_type":"original","year":"2022","oa_version":"Published Version","has_accepted_license":"1","scopus_import":"1","external_id":{"isi":["000862479100001"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:49:24Z","publication_identifier":{"issn":["1664-3224"]},"article_processing_charge":"No","file":[{"date_updated":"2023-01-30T09:22:26Z","access_level":"open_access","checksum":"f8f5d8110710033d0532e7e08bf9dad4","file_name":"2022_FrontiersImmunology_Dormeshkin.pdf","creator":"dernst","file_size":5695892,"success":1,"date_created":"2023-01-30T09:22:26Z","content_type":"application/pdf","file_id":"12443","relation":"main_file"}],"article_number":"965446","date_published":"2022-09-16T00:00:00Z","_id":"12252","abstract":[{"lang":"eng","text":"The COVID−19 pandemic not only resulted in a global crisis, but also accelerated vaccine development and antibody discovery. Herein we report a synthetic humanized VHH library development pipeline for nanomolar-range affinity VHH binders to SARS-CoV-2 variants of concern (VoC) receptor binding domains (RBD) isolation. Trinucleotide-based randomization of CDRs by Kunkel mutagenesis with the subsequent rolling-cycle amplification resulted in more than 10<jats:sup>11</jats:sup> diverse phage display library in a manageable for a single person number of electroporation reactions. We identified a number of nanomolar-range affinity VHH binders to SARS-CoV-2 variants of concern (VoC) receptor binding domains (RBD) by screening a novel synthetic humanized antibody library. In order to explore the most robust and fast method for affinity improvement, we performed affinity maturation by CDR1 and CDR2 shuffling and avidity engineering by multivalent trimeric VHH fusion protein construction. As a result, H7-Fc and G12x3-Fc binders were developed with the affinities in nM and pM range respectively. Importantly, these affinities are weakly influenced by most of SARS-CoV-2 VoC mutations and they retain moderate binding to BA.4\\5. The plaque reduction neutralization test (PRNT) resulted in IC50 = 100 ng\\ml and 9.6 ng\\ml for H7-Fc and G12x3-Fc antibodies, respectively, for the emerging Omicron BA.1 variant. Therefore, these VHH could expand the present landscape of SARS-CoV-2 neutralization binders with the therapeutic potential for present and future SARS-CoV-2 variants."}],"publication_status":"published","oa":1,"file_date_updated":"2023-01-30T09:22:26Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":13},{"language":[{"iso":"eng"}],"ddc":["570"],"doi":"10.1126/sciadv.add2488","project":[{"grant_number":"851288","name":"Design Principles of Branching Morphogenesis","call_identifier":"H2020","_id":"05943252-7A3F-11EA-A408-12923DDC885E"}],"pmid":1,"acknowledgement":"We thank K. Aumayer and the team of the biooptics facility at the Vienna Biocenter, particularly P. Pasierbek and T. Müller, for support with microscopy; K. Panser, C. Pribitzer, and the animal facility personnel for taking care of zebrafish; M. Binner and A. Bandura for help with genotyping; M. Codina Tobias for help with establishing the conditions for the Toddler overexpression compensation experiment; T. Lubiana Alves for sharing the code for scRNA-Seq analyses; the Heisenberg laboratory, particularly D. Pinheiro, for joint laboratory meetings, discussions on the project, and providing the tg(gsc:CAAX-GFP) fish line; the Raz laboratory for providing the Lifeact-GFP plasmid; A. Andersen, A. Schier, C.-P. Heisenberg, and E. Tanaka for comments on the manuscript; and the entire Pauli laboratory, particularly K. Gert and V. Deneke, for valuable discussions and feedback on the manuscript. Funding: Work in A.P.’s laboratory has been supported by the IMP, which receives institutional funding from Boehringer Ingelheim and the Austrian Research Promotion Agency (Headquarter grant FFG-852936), as well as the FWF START program (Y 1031-B28 to A.P.), the Human Frontier Science Program (HFSP) Career Development Award (CDA00066/2015 to A.P.) and Young Investigator Grant (RGY0079/2020 to A.P.), the SFB RNA-Deco (project number F 80 to A.P.), a Whitman Center Fellowship from the Marine Biological Laboratory (to A.P.), and EMBO-YIP funds (to A.P.). This work was supported by the European Union (European Research Council Starting Grant 851288 to E.H.). For the purpose of Open Access, the authors have applied a CC BY public copyright license to any Author Accepted Manuscript (AAM) version arising from this submission.","day":"14","author":[{"last_name":"Stock","full_name":"Stock, Jessica","first_name":"Jessica"},{"last_name":"Kazmar","first_name":"Tomas","full_name":"Kazmar, Tomas"},{"first_name":"Friederike","full_name":"Schlumm, Friederike","last_name":"Schlumm"},{"full_name":"Hannezo, Edouard B","first_name":"Edouard B","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561"},{"last_name":"Pauli","full_name":"Pauli, Andrea","first_name":"Andrea"}],"type":"journal_article","citation":{"mla":"Stock, Jessica, et al. “A Self-Generated Toddler Gradient Guides Mesodermal Cell Migration.” <i>Science Advances</i>, vol. 8, no. 37, eadd2488, American Association for the Advancement of Science, 2022, doi:<a href=\"https://doi.org/10.1126/sciadv.add2488\">10.1126/sciadv.add2488</a>.","chicago":"Stock, Jessica, Tomas Kazmar, Friederike Schlumm, Edouard B Hannezo, and Andrea Pauli. “A Self-Generated Toddler Gradient Guides Mesodermal Cell Migration.” <i>Science Advances</i>. American Association for the Advancement of Science, 2022. <a href=\"https://doi.org/10.1126/sciadv.add2488\">https://doi.org/10.1126/sciadv.add2488</a>.","ieee":"J. Stock, T. Kazmar, F. Schlumm, E. B. Hannezo, and A. Pauli, “A self-generated Toddler gradient guides mesodermal cell migration,” <i>Science Advances</i>, vol. 8, no. 37. American Association for the Advancement of Science, 2022.","ista":"Stock J, Kazmar T, Schlumm F, Hannezo EB, Pauli A. 2022. A self-generated Toddler gradient guides mesodermal cell migration. Science Advances. 8(37), eadd2488.","ama":"Stock J, Kazmar T, Schlumm F, Hannezo EB, Pauli A. A self-generated Toddler gradient guides mesodermal cell migration. <i>Science Advances</i>. 2022;8(37). doi:<a href=\"https://doi.org/10.1126/sciadv.add2488\">10.1126/sciadv.add2488</a>","apa":"Stock, J., Kazmar, T., Schlumm, F., Hannezo, E. B., &#38; Pauli, A. (2022). A self-generated Toddler gradient guides mesodermal cell migration. <i>Science Advances</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/sciadv.add2488\">https://doi.org/10.1126/sciadv.add2488</a>","short":"J. Stock, T. Kazmar, F. Schlumm, E.B. Hannezo, A. Pauli, Science Advances 8 (2022)."},"ec_funded":1,"title":"A self-generated Toddler gradient guides mesodermal cell migration","publication":"Science Advances","department":[{"_id":"EdHa"}],"quality_controlled":"1","status":"public","intvolume":"         8","publisher":"American Association for the Advancement of Science","isi":1,"month":"09","date_created":"2023-01-16T09:57:10Z","external_id":{"pmid":["36103529"],"isi":["000888875000009"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:49:59Z","publication_identifier":{"issn":["2375-2548"]},"article_type":"original","year":"2022","has_accepted_license":"1","oa_version":"Published Version","file_date_updated":"2023-01-30T09:27:49Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":8,"publication_status":"published","oa":1,"file":[{"success":1,"date_created":"2023-01-30T09:27:49Z","relation":"main_file","file_id":"12444","content_type":"application/pdf","access_level":"open_access","date_updated":"2023-01-30T09:27:49Z","checksum":"f59cdb824e5d4221045def81f46f6c65","file_size":1636732,"creator":"dernst","file_name":"2022_ScienceAdvances_Stock.pdf"}],"article_number":"eadd2488","date_published":"2022-09-14T00:00:00Z","_id":"12253","abstract":[{"text":"The sculpting of germ layers during gastrulation relies on the coordinated migration of progenitor cells, yet the cues controlling these long-range directed movements remain largely unknown. While directional migration often relies on a chemokine gradient generated from a localized source, we find that zebrafish ventrolateral mesoderm is guided by a self-generated gradient of the initially uniformly expressed and secreted protein Toddler/ELABELA/Apela. We show that the Apelin receptor, which is specifically expressed in mesodermal cells, has a dual role during gastrulation, acting as a scavenger receptor to generate a Toddler gradient, and as a chemokine receptor to sense this guidance cue. Thus, we uncover a single receptor–based self-generated gradient as the enigmatic guidance cue that can robustly steer the directional migration of mesoderm through the complex and continuously changing environment of the gastrulating embryo.","lang":"eng"}],"article_processing_charge":"No","issue":"37"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2025-07-14T09:09:49Z","external_id":{"arxiv":["2210.02394"],"isi":["000870243100001"]},"scopus_import":"1","publication_identifier":{"issn":["2470-0045"],"eissn":["2470-0053"]},"article_type":"original","oa_version":"Preprint","year":"2022","publication_status":"published","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2210.02394"}],"volume":106,"arxiv":1,"issue":"3","article_processing_charge":"No","article_number":"034321","abstract":[{"text":"Structural balance theory is an established framework for studying social relationships of friendship and enmity. These relationships are modeled by a signed network whose energy potential measures the level of imbalance, while stochastic dynamics drives the network toward a state of minimum energy that captures social balance. It is known that this energy landscape has local minima that can trap socially aware dynamics, preventing it from reaching balance. Here we first study the robustness and attractor properties of these local minima. We show that a stochastic process can reach them from an abundance of initial states and that some local minima cannot be escaped by mild perturbations of the network. Motivated by these anomalies, we introduce best-edge dynamics (BED), a new plausible stochastic process. We prove that BED always reaches balance and that it does so fast in various interesting settings.","lang":"eng"}],"_id":"12257","date_published":"2022-09-29T00:00:00Z","acknowledgement":"K.C. acknowledges support from ERC Start Grant No. (279307: Graph Games), ERC Consolidator Grant No. (863818: ForM-SMart), and Austrian Science Fund (FWF)\r\nGrants No. P23499-N23 and No. S11407-N23 (RiSE). This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie\r\nSkłodowska-Curie Grant Agreement No. 665385.","project":[{"grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"call_identifier":"H2020","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","grant_number":"863818","name":"Formal Methods for Stochastic Models: Algorithms and Applications"},{"_id":"2584A770-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification"},{"grant_number":"S11407","name":"Game Theory","_id":"25863FF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"language":[{"iso":"eng"}],"doi":"10.1103/physreve.106.034321","ec_funded":1,"citation":{"ama":"Chatterjee K, Svoboda J, Zikelic D, Pavlogiannis A, Tkadlec J. Social balance on networks: Local minima and best-edge dynamics. <i>Physical Review E</i>. 2022;106(3). doi:<a href=\"https://doi.org/10.1103/physreve.106.034321\">10.1103/physreve.106.034321</a>","apa":"Chatterjee, K., Svoboda, J., Zikelic, D., Pavlogiannis, A., &#38; Tkadlec, J. (2022). Social balance on networks: Local minima and best-edge dynamics. <i>Physical Review E</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physreve.106.034321\">https://doi.org/10.1103/physreve.106.034321</a>","short":"K. Chatterjee, J. Svoboda, D. Zikelic, A. Pavlogiannis, J. Tkadlec, Physical Review E 106 (2022).","mla":"Chatterjee, Krishnendu, et al. “Social Balance on Networks: Local Minima and Best-Edge Dynamics.” <i>Physical Review E</i>, vol. 106, no. 3, 034321, American Physical Society, 2022, doi:<a href=\"https://doi.org/10.1103/physreve.106.034321\">10.1103/physreve.106.034321</a>.","chicago":"Chatterjee, Krishnendu, Jakub Svoboda, Dorde Zikelic, Andreas Pavlogiannis, and Josef Tkadlec. “Social Balance on Networks: Local Minima and Best-Edge Dynamics.” <i>Physical Review E</i>. American Physical Society, 2022. <a href=\"https://doi.org/10.1103/physreve.106.034321\">https://doi.org/10.1103/physreve.106.034321</a>.","ieee":"K. Chatterjee, J. Svoboda, D. Zikelic, A. Pavlogiannis, and J. Tkadlec, “Social balance on networks: Local minima and best-edge dynamics,” <i>Physical Review E</i>, vol. 106, no. 3. American Physical Society, 2022.","ista":"Chatterjee K, Svoboda J, Zikelic D, Pavlogiannis A, Tkadlec J. 2022. Social balance on networks: Local minima and best-edge dynamics. Physical Review E. 106(3), 034321."},"title":"Social balance on networks: Local minima and best-edge dynamics","day":"29","author":[{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Svoboda","first_name":"Jakub","full_name":"Svoboda, Jakub","orcid":"0000-0002-1419-3267","id":"130759D2-D7DD-11E9-87D2-DE0DE6697425"},{"last_name":"Zikelic","full_name":"Zikelic, Dorde","first_name":"Dorde","orcid":"0000-0002-4681-1699","id":"294AA7A6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pavlogiannis, Andreas","first_name":"Andreas","last_name":"Pavlogiannis","orcid":"0000-0002-8943-0722","id":"49704004-F248-11E8-B48F-1D18A9856A87"},{"id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1097-9684","first_name":"Josef","full_name":"Tkadlec, Josef","last_name":"Tkadlec"}],"type":"journal_article","publisher":"American Physical Society","isi":1,"department":[{"_id":"KrCh"}],"quality_controlled":"1","publication":"Physical Review E","status":"public","intvolume":"       106","month":"09","date_created":"2023-01-16T09:57:57Z"},{"keyword":["Applied Mathematics","General Physics and Astronomy","Mathematical Physics","Statistical and Nonlinear Physics"],"language":[{"iso":"eng"}],"ddc":["530"],"doi":"10.1063/5.0102904","acknowledgement":"This work was partially funded by the Institute of Science and Technology Austria Interdisciplinary Project Committee Grant “Pilot-Wave Hydrodynamics: Chaos and Quantum Analogies.”","day":"26","author":[{"id":"448BD5BC-F248-11E8-B48F-1D18A9856A87","first_name":"George H","full_name":"Choueiri, George H","last_name":"Choueiri"},{"id":"47A5E706-F248-11E8-B48F-1D18A9856A87","last_name":"Suri","first_name":"Balachandra","full_name":"Suri, Balachandra"},{"first_name":"Jack","full_name":"Merrin, Jack","last_name":"Merrin","id":"4515C308-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5145-4609"},{"last_name":"Serbyn","full_name":"Serbyn, Maksym","first_name":"Maksym","orcid":"0000-0002-2399-5827","id":"47809E7E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hof, Björn","first_name":"Björn","last_name":"Hof","orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Budanur, Nazmi B","first_name":"Nazmi B","last_name":"Budanur","id":"3EA1010E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0423-5010"}],"type":"journal_article","citation":{"mla":"Choueiri, George H., et al. “Crises and Chaotic Scattering in Hydrodynamic Pilot-Wave Experiments.” <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>, vol. 32, no. 9, 093138, AIP Publishing, 2022, doi:<a href=\"https://doi.org/10.1063/5.0102904\">10.1063/5.0102904</a>.","chicago":"Choueiri, George H, Balachandra Suri, Jack Merrin, Maksym Serbyn, Björn Hof, and Nazmi B Budanur. “Crises and Chaotic Scattering in Hydrodynamic Pilot-Wave Experiments.” <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>. AIP Publishing, 2022. <a href=\"https://doi.org/10.1063/5.0102904\">https://doi.org/10.1063/5.0102904</a>.","ieee":"G. H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, and N. B. Budanur, “Crises and chaotic scattering in hydrodynamic pilot-wave experiments,” <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>, vol. 32, no. 9. AIP Publishing, 2022.","ista":"Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. 2022. Crises and chaotic scattering in hydrodynamic pilot-wave experiments. Chaos: An Interdisciplinary Journal of Nonlinear Science. 32(9), 093138.","ama":"Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. Crises and chaotic scattering in hydrodynamic pilot-wave experiments. <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>. 2022;32(9). doi:<a href=\"https://doi.org/10.1063/5.0102904\">10.1063/5.0102904</a>","apa":"Choueiri, G. H., Suri, B., Merrin, J., Serbyn, M., Hof, B., &#38; Budanur, N. B. (2022). Crises and chaotic scattering in hydrodynamic pilot-wave experiments. <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0102904\">https://doi.org/10.1063/5.0102904</a>","short":"G.H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, N.B. Budanur, Chaos: An Interdisciplinary Journal of Nonlinear Science 32 (2022)."},"title":"Crises and chaotic scattering in hydrodynamic pilot-wave experiments","publication":"Chaos: An Interdisciplinary Journal of Nonlinear Science","quality_controlled":"1","department":[{"_id":"MaSe"},{"_id":"BjHo"},{"_id":"NanoFab"}],"status":"public","intvolume":"        32","publisher":"AIP Publishing","isi":1,"month":"09","date_created":"2023-01-16T09:58:16Z","external_id":{"isi":["000861009600005"],"arxiv":["2206.01531"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-04T09:51:17Z","publication_identifier":{"issn":["1054-1500"],"eissn":["1089-7682"]},"article_type":"original","year":"2022","has_accepted_license":"1","oa_version":"Published Version","file_date_updated":"2023-01-30T09:41:12Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":32,"publication_status":"published","oa":1,"file":[{"date_updated":"2023-01-30T09:41:12Z","access_level":"open_access","checksum":"17881eff8b21969359a2dd64620120ba","file_name":"2022_Chaos_Choueiri.pdf","file_size":3209644,"creator":"dernst","success":1,"date_created":"2023-01-30T09:41:12Z","content_type":"application/pdf","file_id":"12445","relation":"main_file"}],"article_number":"093138","abstract":[{"text":"Theoretical foundations of chaos have been predominantly laid out for finite-dimensional dynamical systems, such as the three-body problem in classical mechanics and the Lorenz model in dissipative systems. In contrast, many real-world chaotic phenomena, e.g., weather, arise in systems with many (formally infinite) degrees of freedom, which limits direct quantitative analysis of such systems using chaos theory. In the present work, we demonstrate that the hydrodynamic pilot-wave systems offer a bridge between low- and high-dimensional chaotic phenomena by allowing for a systematic study of how the former connects to the latter. Specifically, we present experimental results, which show the formation of low-dimensional chaotic attractors upon destabilization of regular dynamics and a final transition to high-dimensional chaos via the merging of distinct chaotic regions through a crisis bifurcation. Moreover, we show that the post-crisis dynamics of the system can be rationalized as consecutive scatterings from the nonattracting chaotic sets with lifetimes following exponential distributions. ","lang":"eng"}],"_id":"12259","date_published":"2022-09-26T00:00:00Z","arxiv":1,"article_processing_charge":"No","issue":"9"}]