[{"oa":1,"volume":43,"ec_funded":1,"acknowledgement":"This work was supported by The Institute of Science and Technology (IST) Austria, the European Union's Horizon 2020 Research and Innovation Program under the Marie Skłodowska-Curie Grant Agreement No. 793482 (to K.E.) and by the European Research Council (ERC) Grant Agreement No. 694539 (to R.S.). We thank Nicoleta Condruz (IST Austria, Klosterneuburg, Austria) for technical assistance with sample preparation, the Electron Microscopy Facility of IST Austria (Klosterneuburg, Austria) for technical support with EM works, Natalia Baranova (University of Vienna, Vienna, Austria) and Martin Loose (IST Austria, Klosterneuburg, Austria) for advice on liposome preparation, and Yugo Fukazawa (University of Fukui, Fukui, Japan) for comments.","has_accepted_license":"1","publication":"The Journal of Neuroscience","issue":"23","date_created":"2023-07-09T22:01:12Z","pmid":1,"publication_identifier":{"eissn":["1529-2401"],"issn":["0270-6474"]},"isi":1,"page":"4197-4216","publisher":"Society for Neuroscience","type":"journal_article","date_updated":"2025-04-14T07:27:15Z","file":[{"creator":"alisjak","relation":"main_file","checksum":"70b2141870e0bf1c94fd343e18fdbc32","file_size":7794425,"content_type":"application/pdf","access_level":"open_access","success":1,"date_created":"2023-07-10T09:04:58Z","date_updated":"2023-07-10T09:04:58Z","file_id":"13205","file_name":"2023_JN_Eguchi.pdf"}],"article_type":"original","publication_status":"published","department":[{"_id":"RySh"}],"file_date_updated":"2023-07-10T09:04:58Z","acknowledged_ssus":[{"_id":"EM-Fac"}],"project":[{"name":"Ultrastructural analysis of phosphoinositides in nerve terminals: distribution, dynamics and physiological roles in synaptic transmission","_id":"2659CC84-B435-11E9-9278-68D0E5697425","grant_number":"793482","call_identifier":"H2020"},{"call_identifier":"H2020","grant_number":"694539","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","_id":"25CA28EA-B435-11E9-9278-68D0E5697425"}],"day":"07","language":[{"iso":"eng"}],"abstract":[{"text":"Phosphatidylinositol-4,5-bisphosphate (PI(4,5)P2) plays an essential role in neuronal activities through interaction with various proteins involved in signaling at membranes. However, the distribution pattern of PI(4,5)P2 and the association with these proteins on the neuronal cell membranes remain elusive. In this study, we established a method for visualizing PI(4,5)P2 by SDS-digested freeze-fracture replica labeling (SDS-FRL) to investigate the quantitative nanoscale distribution of PI(4,5)P2 in cryo-fixed brain. We demonstrate that PI(4,5)P2 forms tiny clusters with a mean size of ∼1000 nm2 rather than randomly distributed in cerebellar neuronal membranes in male C57BL/6J mice. These clusters show preferential accumulation in specific membrane compartments of different cell types, in particular, in Purkinje cell (PC) spines and granule cell (GC) presynaptic active zones. Furthermore, we revealed extensive association of PI(4,5)P2 with CaV2.1 and GIRK3 across different membrane compartments, whereas its association with mGluR1α was compartment specific. These results suggest that our SDS-FRL method provides valuable insights into the physiological functions of PI(4,5)P2 in neurons.","lang":"eng"}],"date_published":"2023-06-07T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons","month":"06","citation":{"chicago":"Eguchi, Kohgaku, Elodie Le Monnier, and Ryuichi Shigemoto. “Nanoscale Phosphoinositide Distribution on Cell Membranes of Mouse Cerebellar Neurons.” <i>The Journal of Neuroscience</i>. Society for Neuroscience, 2023. <a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">https://doi.org/10.1523/JNEUROSCI.1514-22.2023</a>.","ama":"Eguchi K, Le Monnier E, Shigemoto R. Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. <i>The Journal of Neuroscience</i>. 2023;43(23):4197-4216. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">10.1523/JNEUROSCI.1514-22.2023</a>","short":"K. Eguchi, E. Le Monnier, R. Shigemoto, The Journal of Neuroscience 43 (2023) 4197–4216.","ieee":"K. Eguchi, E. Le Monnier, and R. Shigemoto, “Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons,” <i>The Journal of Neuroscience</i>, vol. 43, no. 23. Society for Neuroscience, pp. 4197–4216, 2023.","apa":"Eguchi, K., Le Monnier, E., &#38; Shigemoto, R. (2023). Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. <i>The Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">https://doi.org/10.1523/JNEUROSCI.1514-22.2023</a>","mla":"Eguchi, Kohgaku, et al. “Nanoscale Phosphoinositide Distribution on Cell Membranes of Mouse Cerebellar Neurons.” <i>The Journal of Neuroscience</i>, vol. 43, no. 23, Society for Neuroscience, 2023, pp. 4197–216, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1514-22.2023\">10.1523/JNEUROSCI.1514-22.2023</a>.","ista":"Eguchi K, Le Monnier E, Shigemoto R. 2023. Nanoscale phosphoinositide distribution on cell membranes of mouse cerebellar neurons. The Journal of Neuroscience. 43(23), 4197–4216."},"year":"2023","ddc":["570"],"fulldoi":"https://doi.org/10.1523/JNEUROSCI.1514-22.2023","quality_controlled":"1","_id":"13202","author":[{"orcid":"0000-0002-6170-2546","id":"2B7846DC-F248-11E8-B48F-1D18A9856A87","last_name":"Eguchi","first_name":"Kohgaku","full_name":"Eguchi, Kohgaku"},{"id":"3B59276A-F248-11E8-B48F-1D18A9856A87","last_name":"Le Monnier","first_name":"Elodie","full_name":"Le Monnier, Elodie"},{"full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","last_name":"Shigemoto","orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"}],"status":"public","intvolume":"        43","doi":"10.1523/JNEUROSCI.1514-22.2023","oa_version":"Published Version","corr_author":"1","article_processing_charge":"No","scopus_import":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"pmid":["37160366"],"isi":["001020132100005"]}},{"abstract":[{"text":"We consider the linear BCS equation, determining the BCS critical temperature, in the presence of a boundary, where Dirichlet boundary conditions are imposed. In the one-dimensional case with point interactions, we prove that the critical temperature is strictly larger than the bulk value, at least at weak coupling. In particular, the Cooper-pair wave function localizes near the boundary, an effect that cannot be modeled by effective Neumann boundary conditions on the order parameter as often imposed in Ginzburg–Landau theory. We also show that the relative shift in critical temperature vanishes if the coupling constant either goes to zero or to infinity.","lang":"eng"}],"date_published":"2023-05-18T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Boundary superconductivity in the BCS model","month":"05","citation":{"mla":"Hainzl, Christian, et al. “Boundary Superconductivity in the BCS Model.” <i>Journal of Spectral Theory</i>, vol. 12, no. 4, EMS Press, 2023, pp. 1507–1540, doi:<a href=\"https://doi.org/10.4171/JST/439\">10.4171/JST/439</a>.","ista":"Hainzl C, Roos B, Seiringer R. 2023. Boundary superconductivity in the BCS model. Journal of Spectral Theory. 12(4), 1507–1540.","ieee":"C. Hainzl, B. Roos, and R. Seiringer, “Boundary superconductivity in the BCS model,” <i>Journal of Spectral Theory</i>, vol. 12, no. 4. EMS Press, pp. 1507–1540, 2023.","short":"C. Hainzl, B. Roos, R. Seiringer, Journal of Spectral Theory 12 (2023) 1507–1540.","apa":"Hainzl, C., Roos, B., &#38; Seiringer, R. (2023). Boundary superconductivity in the BCS model. <i>Journal of Spectral Theory</i>. EMS Press. <a href=\"https://doi.org/10.4171/JST/439\">https://doi.org/10.4171/JST/439</a>","ama":"Hainzl C, Roos B, Seiringer R. Boundary superconductivity in the BCS model. <i>Journal of Spectral Theory</i>. 2023;12(4):1507–1540. doi:<a href=\"https://doi.org/10.4171/JST/439\">10.4171/JST/439</a>","chicago":"Hainzl, Christian, Barbara Roos, and Robert Seiringer. “Boundary Superconductivity in the BCS Model.” <i>Journal of Spectral Theory</i>. EMS Press, 2023. <a href=\"https://doi.org/10.4171/JST/439\">https://doi.org/10.4171/JST/439</a>."},"year":"2023","publication_status":"published","file_date_updated":"2023-07-11T08:19:15Z","department":[{"_id":"GradSch"},{"_id":"RoSe"}],"project":[{"grant_number":"694227","call_identifier":"H2020","name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425"}],"language":[{"iso":"eng"}],"day":"18","arxiv":1,"article_processing_charge":"No","scopus_import":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"isi":["000997933500008"],"arxiv":["2201.08090"]},"ddc":["530"],"fulldoi":"https://doi.org/10.4171/JST/439","_id":"13207","quality_controlled":"1","status":"public","author":[{"full_name":"Hainzl, Christian","first_name":"Christian","last_name":"Hainzl"},{"full_name":"Roos, Barbara","first_name":"Barbara","last_name":"Roos","id":"5DA90512-D80F-11E9-8994-2E2EE6697425","orcid":"0000-0002-9071-5880"},{"full_name":"Seiringer, Robert","first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521"}],"intvolume":"        12","doi":"10.4171/JST/439","oa_version":"Published Version","corr_author":"1","volume":12,"ec_funded":1,"has_accepted_license":"1","acknowledgement":"We thank Egor Babaev for encouraging us to study this problem, and Rupert Frank for many fruitful discussions. scussions. Funding. Funding from the European Union’s Horizon 2020 research and innovation programme under the ERC grant agreement No. 694227 (Barbara Roos and Robert Seiringer) is gratefully acknowledged.","publication":"Journal of Spectral Theory","issue":"4","date_created":"2023-07-10T16:35:45Z","oa":1,"date_updated":"2026-04-07T13:27:39Z","file":[{"access_level":"open_access","success":1,"file_size":304619,"content_type":"application/pdf","checksum":"5501da33be010b5c81440438287584d5","creator":"alisjak","relation":"main_file","file_name":"2023_EMS_Hainzl.pdf","file_id":"13208","date_updated":"2023-07-11T08:19:15Z","date_created":"2023-07-11T08:19:15Z"}],"article_type":"original","isi":1,"publication_identifier":{"issn":["1664-039X"],"eissn":["1664-0403"]},"related_material":{"record":[{"relation":"dissertation_contains","id":"14374","status":"public"}]},"page":"1507–1540","publisher":"EMS Press","type":"journal_article"},{"publication_status":"published","department":[{"_id":"JiFr"}],"file_date_updated":"2023-07-13T13:26:33Z","language":[{"iso":"eng"}],"day":"01","date_published":"2023-07-01T00:00:00Z","abstract":[{"lang":"eng","text":"The primary cell wall is a fundamental plant constituent that is flexible but sufficiently rigid to support the plant cell shape. Although many studies have demonstrated that reactive oxygen species (ROS) serve as important signaling messengers to modify the cell wall structure and affect cellular growth, the regulatory mechanism underlying the spatial-temporal regulation of ROS activity for cell wall maintenance remains largely unclear. Here, we demonstrate the role of the Arabidopsis (Arabidopsis thaliana) multicopper oxidase-like protein skewed 5 (SKU5) and its homolog SKU5-similar 1 (SKS1) in root cell wall formation through modulating ROS homeostasis. Loss of SKU5 and SKS1 function resulted in aberrant division planes, protruding cell walls, ectopic deposition of iron, and reduced nicotinamide adeninedinucleotide phosphate (NADPH) oxidase-dependent ROS overproduction in the root epidermis–cortex and cortex–endodermis junctions. A decrease in ROS level or inhibition of NADPH oxidase activity rescued the cell wall defects of sku5 sks1 double mutants. SKU5 and SKS1 proteins were activated by iron treatment, and iron over-accumulated in the walls between the root epidermis and cortex cell layers of sku5 sks1. The glycosylphosphatidylinositol-anchored motif was crucial for membrane association and functionality of SKU5 and SKS1. Overall, our results identified SKU5 and SKS1 as regulators of ROS at the cell surface for regulation of cell wall structure and root cell growth."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"07","citation":{"mla":"Chen, C., et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based Reactions in Roots.” <i>Plant Physiology</i>, vol. 192, no. 3, American Society of Plant Biologists, 2023, pp. 2243–60, doi:<a href=\"https://doi.org/10.1093/plphys/kiad207\">10.1093/plphys/kiad207</a>.","ista":"Chen C, Zhang Y, Cai J, Qiu Y, Li L, Gao C, Gao Y, Ke M, Wu S, Wei C, Chen J, Xu T, Friml J, Wang J, Li R, Chao D, Zhang B, Chen X, Gao Z. 2023. Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. Plant Physiology. 192(3), 2243–2260.","chicago":"Chen, C, Y Zhang, J Cai, Y Qiu, L Li, C Gao, Y Gao, et al. “Multi-Copper Oxidases SKU5 and SKS1 Coordinate Cell Wall Formation Using Apoplastic Redox-Based Reactions in Roots.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2023. <a href=\"https://doi.org/10.1093/plphys/kiad207\">https://doi.org/10.1093/plphys/kiad207</a>.","ama":"Chen C, Zhang Y, Cai J, et al. Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. <i>Plant Physiology</i>. 2023;192(3):2243-2260. doi:<a href=\"https://doi.org/10.1093/plphys/kiad207\">10.1093/plphys/kiad207</a>","short":"C. Chen, Y. Zhang, J. Cai, Y. Qiu, L. Li, C. Gao, Y. Gao, M. Ke, S. Wu, C. Wei, J. Chen, T. Xu, J. Friml, J. Wang, R. Li, D. Chao, B. Zhang, X. Chen, Z. Gao, Plant Physiology 192 (2023) 2243–2260.","apa":"Chen, C., Zhang, Y., Cai, J., Qiu, Y., Li, L., Gao, C., … Gao, Z. (2023). Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plphys/kiad207\">https://doi.org/10.1093/plphys/kiad207</a>","ieee":"C. Chen <i>et al.</i>, “Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots,” <i>Plant Physiology</i>, vol. 192, no. 3. American Society of Plant Biologists, pp. 2243–2260, 2023."},"title":"Multi-copper oxidases SKU5 and SKS1 coordinate cell wall formation using apoplastic redox-based reactions in roots","year":"2023","ddc":["575"],"fulldoi":"https://doi.org/10.1093/plphys/kiad207","status":"public","_id":"13213","author":[{"first_name":"C","full_name":"Chen, C","last_name":"Chen"},{"first_name":"Y","full_name":"Zhang, Y","last_name":"Zhang"},{"last_name":"Cai","full_name":"Cai, J","first_name":"J"},{"last_name":"Qiu","full_name":"Qiu, Y","first_name":"Y"},{"first_name":"L","full_name":"Li, L","last_name":"Li"},{"first_name":"C","full_name":"Gao, C","last_name":"Gao"},{"last_name":"Gao","full_name":"Gao, Y","first_name":"Y"},{"last_name":"Ke","full_name":"Ke, M","first_name":"M"},{"first_name":"S","full_name":"Wu, S","last_name":"Wu"},{"last_name":"Wei","first_name":"C","full_name":"Wei, C"},{"full_name":"Chen, J","first_name":"J","last_name":"Chen"},{"first_name":"T","full_name":"Xu, T","last_name":"Xu"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří"},{"last_name":"Wang","full_name":"Wang, J","first_name":"J"},{"first_name":"R","full_name":"Li, R","last_name":"Li"},{"last_name":"Chao","full_name":"Chao, D","first_name":"D"},{"full_name":"Zhang, B","first_name":"B","last_name":"Zhang"},{"last_name":"Chen","first_name":"X","full_name":"Chen, X"},{"last_name":"Gao","first_name":"Z","full_name":"Gao, Z"}],"quality_controlled":"1","doi":"10.1093/plphys/kiad207","intvolume":"       192","oa_version":"Published Version","article_processing_charge":"No","scopus_import":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"pmid":["37010107"],"isi":["000971795800001"]},"oa":1,"volume":192,"acknowledgement":"We thank Dong liu for offering iron staining technique; ZhiChang Chen and Zhenbiao Yang for discussion; Dandan Zheng for earlier attempt; Liwen Jiang and Dingquan Huang for initial tests of the TEM experiment; John C. Sedbrook for a donation of sku5 and pSKU5::SKU5-GFP seeds; Catherine Perrot-Rechenmann and Ke Zhou for the donation of sks1, sks2, and sku5 sks1 seeds; Zengyu Liu and Zhongquan Lin for live-imaging microscopy assistance. We are grateful to Can Peng, and Xixia Li for helping with sample preparation, and taking TEM images, at the Center for Biological Imaging (CBI), Institute of Biophysics, Chinese Academy of Science.","has_accepted_license":"1","publication":"Plant Physiology","issue":"3","date_created":"2023-07-12T07:32:58Z","pmid":1,"publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"isi":1,"page":"2243-2260","publisher":"American Society of Plant Biologists","type":"journal_article","date_updated":"2024-10-21T06:01:27Z","file":[{"date_updated":"2023-07-13T13:26:33Z","file_id":"13220","file_name":"2023_PlantPhys_Chen.pdf","date_created":"2023-07-13T13:26:33Z","file_size":2076977,"content_type":"application/pdf","success":1,"access_level":"open_access","relation":"main_file","creator":"cchlebak","checksum":"5492e1d18ac3eaf202633d210fa0fb75"}],"article_type":"original"},{"type":"journal_article","publisher":"MDPI","pmid":1,"publication_identifier":{"issn":["2073-4409"]},"isi":1,"file":[{"checksum":"6dc9df5f4f59fc27c509c275060354a5","relation":"main_file","creator":"alisjak","success":1,"access_level":"open_access","content_type":"application/pdf","file_size":1066802,"date_created":"2023-07-12T10:01:54Z","file_name":"2023_cells_Abualia.pdf","file_id":"13218","date_updated":"2023-07-12T10:01:54Z"}],"article_type":"review","date_updated":"2025-04-15T06:27:18Z","oa":1,"date_created":"2023-07-12T07:41:25Z","issue":"12","volume":12,"publication":"Cells","acknowledgement":"This work was supported by the Austrian Academy of Sciences ÖAW: Doc fellowship (26130) to Stefan Riegler.","has_accepted_license":"1","intvolume":"        12","doi":"10.3390/cells12121613","author":[{"full_name":"Abualia, R","first_name":"R","last_name":"Abualia"},{"full_name":"Riegler, Stefan","first_name":"Stefan","last_name":"Riegler","id":"FF6018E0-D806-11E9-8E43-0B14E6697425","orcid":"0000-0003-3413-1343"},{"full_name":"Benková, Eva","first_name":"Eva","last_name":"Benková","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"_id":"13214","status":"public","quality_controlled":"1","corr_author":"1","oa_version":"Published Version","ddc":["570"],"fulldoi":"https://doi.org/10.3390/cells12121613","external_id":{"pmid":["37371083"],"isi":["001017033600001"]},"article_number":"1613","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes","scopus_import":"1","day":"13","language":[{"iso":"eng"}],"project":[{"name":"Functional asymmetry of medial habenula outputs in mice","_id":"62883ed7-2b32-11ec-9570-93580204e56b","grant_number":"26130"}],"publication_status":"published","file_date_updated":"2023-07-12T10:01:54Z","department":[{"_id":"EvBe"}],"year":"2023","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Nitrogen is an important macronutrient required for plant growth and development, thus directly impacting agricultural productivity. In recent years, numerous studies have shown that nitrogen-driven growth depends on pathways that control nitrate/nitrogen homeostasis and hormonal networks that act both locally and systemically to coordinate growth and development of plant organs. In this review, we will focus on recent advances in understanding the role of the plant hormones auxin and cytokinin and their crosstalk in nitrate-regulated growth and discuss the significance of novel findings and possible missing links."}],"date_published":"2023-06-13T00:00:00Z","citation":{"short":"R. Abualia, S. Riegler, E. Benková, Cells 12 (2023).","ieee":"R. Abualia, S. Riegler, and E. Benková, “Nitrate, auxin and cytokinin - a trio to tango,” <i>Cells</i>, vol. 12, no. 12. MDPI, 2023.","apa":"Abualia, R., Riegler, S., &#38; Benková, E. (2023). Nitrate, auxin and cytokinin - a trio to tango. <i>Cells</i>. MDPI. <a href=\"https://doi.org/10.3390/cells12121613\">https://doi.org/10.3390/cells12121613</a>","chicago":"Abualia, R, Stefan Riegler, and Eva Benková. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” <i>Cells</i>. MDPI, 2023. <a href=\"https://doi.org/10.3390/cells12121613\">https://doi.org/10.3390/cells12121613</a>.","ama":"Abualia R, Riegler S, Benková E. Nitrate, auxin and cytokinin - a trio to tango. <i>Cells</i>. 2023;12(12). doi:<a href=\"https://doi.org/10.3390/cells12121613\">10.3390/cells12121613</a>","mla":"Abualia, R., et al. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” <i>Cells</i>, vol. 12, no. 12, 1613, MDPI, 2023, doi:<a href=\"https://doi.org/10.3390/cells12121613\">10.3390/cells12121613</a>.","ista":"Abualia R, Riegler S, Benková E. 2023. Nitrate, auxin and cytokinin - a trio to tango. Cells. 12(12), 1613."},"title":"Nitrate, auxin and cytokinin - a trio to tango","month":"06"},{"fulldoi":"https://doi.org/10.1007/s00205-023-01893-6","ddc":["510"],"oa_version":"Published Version","author":[{"first_name":"Niels P","full_name":"Benedikter, Niels P","orcid":"0000-0002-1071-6091","id":"3DE6C32A-F248-11E8-B48F-1D18A9856A87","last_name":"Benedikter"},{"last_name":"Porta","first_name":"Marcello","full_name":"Porta, Marcello"},{"last_name":"Schlein","full_name":"Schlein, Benjamin","first_name":"Benjamin"},{"orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert","full_name":"Seiringer, Robert"}],"_id":"13225","status":"public","quality_controlled":"1","doi":"10.1007/s00205-023-01893-6","intvolume":"       247","scopus_import":"1","arxiv":1,"article_processing_charge":"Yes (via OA deal)","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"65","external_id":{"isi":["001024369000001"],"arxiv":["2106.13185"]},"department":[{"_id":"RoSe"}],"file_date_updated":"2023-11-14T13:12:12Z","publication_status":"published","project":[{"name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"694227"}],"day":"01","language":[{"iso":"eng"}],"title":"Correlation energy of a weakly interacting Fermi gas with large interaction potential","citation":{"mla":"Benedikter, Niels P., et al. “Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.” <i>Archive for Rational Mechanics and Analysis</i>, vol. 247, no. 4, 65, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00205-023-01893-6\">10.1007/s00205-023-01893-6</a>.","ista":"Benedikter NP, Porta M, Schlein B, Seiringer R. 2023. Correlation energy of a weakly interacting Fermi gas with large interaction potential. Archive for Rational Mechanics and Analysis. 247(4), 65.","chicago":"Benedikter, Niels P, Marcello Porta, Benjamin Schlein, and Robert Seiringer. “Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.” <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00205-023-01893-6\">https://doi.org/10.1007/s00205-023-01893-6</a>.","ama":"Benedikter NP, Porta M, Schlein B, Seiringer R. Correlation energy of a weakly interacting Fermi gas with large interaction potential. <i>Archive for Rational Mechanics and Analysis</i>. 2023;247(4). doi:<a href=\"https://doi.org/10.1007/s00205-023-01893-6\">10.1007/s00205-023-01893-6</a>","short":"N.P. Benedikter, M. Porta, B. Schlein, R. Seiringer, Archive for Rational Mechanics and Analysis 247 (2023).","ieee":"N. P. Benedikter, M. Porta, B. Schlein, and R. Seiringer, “Correlation energy of a weakly interacting Fermi gas with large interaction potential,” <i>Archive for Rational Mechanics and Analysis</i>, vol. 247, no. 4. Springer Nature, 2023.","apa":"Benedikter, N. P., Porta, M., Schlein, B., &#38; Seiringer, R. (2023). Correlation energy of a weakly interacting Fermi gas with large interaction potential. <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00205-023-01893-6\">https://doi.org/10.1007/s00205-023-01893-6</a>"},"month":"08","date_published":"2023-08-01T00:00:00Z","abstract":[{"text":"Recently the leading order of the correlation energy of a Fermi gas in a coupled mean-field and semiclassical scaling regime has been derived, under the assumption of an interaction potential with a small norm and with compact support in Fourier space. We generalize this result to large interaction potentials, requiring only |⋅|V^∈ℓ1(Z3). Our proof is based on approximate, collective bosonization in three dimensions. Significant improvements compared to recent work include stronger bounds on non-bosonizable terms and more efficient control on the bosonization of the kinetic energy.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","isi":1,"publication_identifier":{"eissn":["1432-0673"],"issn":["0003-9527"]},"publisher":"Springer Nature","type":"journal_article","date_updated":"2025-04-14T07:26:58Z","article_type":"original","file":[{"file_size":851626,"content_type":"application/pdf","success":1,"access_level":"open_access","relation":"main_file","creator":"dernst","checksum":"2b45828d854a253b14bf7aa196ec55e9","date_updated":"2023-11-14T13:12:12Z","file_id":"14535","file_name":"2023_ArchiveRationalMechAnalysis_Benedikter.pdf","date_created":"2023-11-14T13:12:12Z"}],"oa":1,"has_accepted_license":"1","acknowledgement":"RS was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227). MP acknowledges financial support from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (ERC StG MaMBoQ, Grant Agreement No. 802901). BS acknowledges financial support from the NCCR SwissMAP, from the Swiss National Science Foundation through the Grant “Dynamical and energetic properties of Bose-Einstein condensates” and from the European Research Council through the ERC AdG CLaQS (Grant Agreement No. 834782). NB and MP were supported by Gruppo Nazionale per la Fisica Matematica (GNFM) of Italy. NB was supported by the European Research Council’s Starting Grant FERMIMATH (Grant Agreement No. 101040991).\r\nOpen access funding provided by Università degli Studi di Milano within the CRUI-CARE Agreement.","publication":"Archive for Rational Mechanics and Analysis","volume":247,"ec_funded":1,"issue":"4","date_created":"2023-07-16T22:01:08Z"},{"year":"2023","title":"Weak Edgeworth expansion for the mean-field Bose gas","month":"07","citation":{"mla":"Bossmann, Lea, and Sören P. Petrat. “Weak Edgeworth Expansion for the Mean-Field Bose Gas.” <i>Letters in Mathematical Physics</i>, vol. 113, no. 4, 77, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s11005-023-01698-4\">10.1007/s11005-023-01698-4</a>.","ista":"Bossmann L, Petrat SP. 2023. Weak Edgeworth expansion for the mean-field Bose gas. Letters in Mathematical Physics. 113(4), 77.","chicago":"Bossmann, Lea, and Sören P Petrat. “Weak Edgeworth Expansion for the Mean-Field Bose Gas.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s11005-023-01698-4\">https://doi.org/10.1007/s11005-023-01698-4</a>.","ama":"Bossmann L, Petrat SP. Weak Edgeworth expansion for the mean-field Bose gas. <i>Letters in Mathematical Physics</i>. 2023;113(4). doi:<a href=\"https://doi.org/10.1007/s11005-023-01698-4\">10.1007/s11005-023-01698-4</a>","ieee":"L. Bossmann and S. P. Petrat, “Weak Edgeworth expansion for the mean-field Bose gas,” <i>Letters in Mathematical Physics</i>, vol. 113, no. 4. Springer Nature, 2023.","short":"L. Bossmann, S.P. Petrat, Letters in Mathematical Physics 113 (2023).","apa":"Bossmann, L., &#38; Petrat, S. P. (2023). Weak Edgeworth expansion for the mean-field Bose gas. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-023-01698-4\">https://doi.org/10.1007/s11005-023-01698-4</a>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-07-03T00:00:00Z","abstract":[{"lang":"eng","text":"We consider the ground state and the low-energy excited states of a system of N identical bosons with interactions in the mean-field scaling regime. For the ground state, we derive a weak Edgeworth expansion for the fluctuations of bounded one-body operators, which yields corrections to a central limit theorem to any order in 1/N−−√. For suitable excited states, we show that the limiting distribution is a polynomial times a normal distribution, and that higher-order corrections are given by an Edgeworth-type expansion."}],"OA_type":"hybrid","language":[{"iso":"eng"}],"day":"03","project":[{"call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"file_date_updated":"2025-06-25T06:20:02Z","department":[{"_id":"RoSe"}],"publication_status":"published","external_id":{"isi":["001022878900002"],"arxiv":["2208.00199"]},"article_number":"77","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","OA_place":"publisher","article_processing_charge":"Yes (via OA deal)","arxiv":1,"corr_author":"1","oa_version":"Published Version","intvolume":"       113","doi":"10.1007/s11005-023-01698-4","status":"public","_id":"13226","author":[{"id":"A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425","orcid":"0000-0002-6854-1343","last_name":"Bossmann","first_name":"Lea","full_name":"Bossmann, Lea"},{"orcid":"0000-0002-9166-5889","id":"40AC02DC-F248-11E8-B48F-1D18A9856A87","last_name":"Petrat","first_name":"Sören P","full_name":"Petrat, Sören P"}],"quality_controlled":"1","fulldoi":"https://doi.org/10.1007/s11005-023-01698-4","ddc":["510"],"date_created":"2023-07-16T22:01:08Z","issue":"4","publication":"Letters in Mathematical Physics","has_accepted_license":"1","acknowledgement":"It is a pleasure to thank Martin Kolb, Simone Rademacher, Robert Seiringer and Stefan Teufel for helpful discussions. Moreover, we thank the referee for many constructive comments. L.B. gratefully acknowledges funding from the German Research Foundation within the Munich Center of Quantum Science and Technology (EXC 2111) and from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. We thank the Mathematical Research Institute Oberwolfach, where part of this work was done, for their hospitality.\r\nOpen Access funding enabled and organized by Projekt DEAL.","ec_funded":1,"volume":113,"oa":1,"article_type":"original","file":[{"checksum":"995c902a989a6769fd3db456cfd41111","relation":"main_file","creator":"dernst","success":1,"access_level":"open_access","file_size":586698,"content_type":"application/pdf","date_created":"2025-06-25T06:20:02Z","file_name":"2023_LettersMathPhysics_Bossmann.pdf","file_id":"19898","date_updated":"2025-06-25T06:20:02Z"}],"date_updated":"2025-06-25T06:20:15Z","type":"journal_article","publisher":"Springer Nature","publication_identifier":{"eissn":["1573-0530"],"issn":["0377-9017"]},"isi":1},{"file_date_updated":"2023-07-18T07:59:58Z","department":[{"_id":"CaHe"}],"publication_status":"published","language":[{"iso":"eng"}],"day":"08","project":[{"name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","_id":"260F1432-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"742573"}],"citation":{"ista":"Shamipour S, Hofmann L, Steccari I, Kardos R, Heisenberg C-PJ. 2023. Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes. PLoS Biology. 21(6), e3002146.","mla":"Shamipour, Shayan, et al. “Yolk Granule Fusion and Microtubule Aster Formation Regulate Cortical Granule Translocation and Exocytosis in Zebrafish Oocytes.” <i>PLoS Biology</i>, vol. 21, no. 6, Public Library of Science, 2023, p. e3002146, doi:<a href=\"https://doi.org/10.1371/journal.pbio.3002146\">10.1371/journal.pbio.3002146</a>.","apa":"Shamipour, S., Hofmann, L., Steccari, I., Kardos, R., &#38; Heisenberg, C.-P. J. (2023). Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes. <i>PLoS Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pbio.3002146\">https://doi.org/10.1371/journal.pbio.3002146</a>","short":"S. Shamipour, L. Hofmann, I. Steccari, R. Kardos, C.-P.J. Heisenberg, PLoS Biology 21 (2023) e3002146.","ieee":"S. Shamipour, L. Hofmann, I. Steccari, R. Kardos, and C.-P. J. Heisenberg, “Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes,” <i>PLoS Biology</i>, vol. 21, no. 6. Public Library of Science, p. e3002146, 2023.","ama":"Shamipour S, Hofmann L, Steccari I, Kardos R, Heisenberg C-PJ. Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes. <i>PLoS Biology</i>. 2023;21(6):e3002146. doi:<a href=\"https://doi.org/10.1371/journal.pbio.3002146\">10.1371/journal.pbio.3002146</a>","chicago":"Shamipour, Shayan, Laura Hofmann, Irene Steccari, Roland Kardos, and Carl-Philipp J Heisenberg. “Yolk Granule Fusion and Microtubule Aster Formation Regulate Cortical Granule Translocation and Exocytosis in Zebrafish Oocytes.” <i>PLoS Biology</i>. Public Library of Science, 2023. <a href=\"https://doi.org/10.1371/journal.pbio.3002146\">https://doi.org/10.1371/journal.pbio.3002146</a>."},"month":"06","title":"Yolk granule fusion and microtubule aster formation regulate cortical granule translocation and exocytosis in zebrafish oocytes","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2023-06-08T00:00:00Z","abstract":[{"lang":"eng","text":"Dynamic reorganization of the cytoplasm is key to many core cellular processes, such as cell division, cell migration, and cell polarization. Cytoskeletal rearrangements are thought to constitute the main drivers of cytoplasmic flows and reorganization. In contrast, remarkably little is known about how dynamic changes in size and shape of cell organelles affect cytoplasmic organization. Here, we show that within the maturing zebrafish oocyte, the surface localization of exocytosis-competent cortical granules (Cgs) upon germinal vesicle breakdown (GVBD) is achieved by the combined activities of yolk granule (Yg) fusion and microtubule aster formation and translocation. We find that Cgs are moved towards the oocyte surface through radially outward cytoplasmic flows induced by Ygs fusing and compacting towards the oocyte center in response to GVBD. We further show that vesicles decorated with the small Rab GTPase Rab11, a master regulator of vesicular trafficking and exocytosis, accumulate together with Cgs at the oocyte surface. This accumulation is achieved by Rab11-positive vesicles being transported by acentrosomal microtubule asters, the formation of which is induced by the release of CyclinB/Cdk1 upon GVBD, and which display a net movement towards the oocyte surface by preferentially binding to the oocyte actin cortex. We finally demonstrate that the decoration of Cgs by Rab11 at the oocyte surface is needed for Cg exocytosis and subsequent chorion elevation, a process central in egg activation. Collectively, these findings unravel a yet unrecognized role of organelle fusion, functioning together with cytoskeletal rearrangements, in orchestrating cytoplasmic organization during oocyte maturation."}],"year":"2023","fulldoi":"https://doi.org/10.1371/journal.pbio.3002146","ddc":["570"],"corr_author":"1","oa_version":"Published Version","intvolume":"        21","doi":"10.1371/journal.pbio.3002146","author":[{"id":"40B34FE2-F248-11E8-B48F-1D18A9856A87","last_name":"Shamipour","first_name":"Shayan","full_name":"Shamipour, Shayan"},{"last_name":"Hofmann","id":"b88d43f2-dc74-11ea-a0a7-e41b7912e031","full_name":"Hofmann, Laura","first_name":"Laura"},{"full_name":"Steccari, Irene","first_name":"Irene","last_name":"Steccari","id":"2705C766-9FE2-11EA-B224-C6773DDC885E"},{"full_name":"Kardos, Roland","first_name":"Roland","last_name":"Kardos","id":"4039350E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Heisenberg","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J"}],"_id":"13229","quality_controlled":"1","status":"public","scopus_import":"1","article_processing_charge":"No","external_id":{"pmid":["37289834"],"isi":["001003199100005"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa":1,"publication":"PLoS Biology","acknowledgement":"This work was supported by funding from the European Union (European Research Council Advanced grant 742573) to C.-P.H. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.","has_accepted_license":"1","ec_funded":1,"volume":21,"date_created":"2023-07-16T22:01:09Z","issue":"6","isi":1,"publication_identifier":{"eissn":["1545-7885"]},"pmid":1,"type":"journal_article","publisher":"Public Library of Science","page":"e3002146","date_updated":"2025-04-14T07:46:59Z","article_type":"original","file":[{"file_name":"2023_PloSBiology_Shamipour.pdf","file_id":"13246","date_updated":"2023-07-18T07:59:58Z","date_created":"2023-07-18T07:59:58Z","access_level":"open_access","success":1,"file_size":4431723,"content_type":"application/pdf","checksum":"8e88cb0e5a6433a2f1939a9030bed384","creator":"dernst","relation":"main_file"}]},{"ddc":["570"],"fulldoi":"https://doi.org/10.1371/journal.pcbi.1011104","intvolume":"        19","doi":"10.1371/journal.pcbi.1011104","author":[{"last_name":"Charlton","first_name":"Julie A.","full_name":"Charlton, Julie A."},{"full_name":"Mlynarski, Wiktor F","first_name":"Wiktor F","last_name":"Mlynarski","id":"358A453A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Yoon H.","full_name":"Bai, Yoon H.","last_name":"Bai"},{"last_name":"Hermundstad","first_name":"Ann M.","full_name":"Hermundstad, Ann M."},{"last_name":"Goris","first_name":"Robbe L.T.","full_name":"Goris, Robbe L.T."}],"_id":"13230","quality_controlled":"1","status":"public","oa_version":"Published Version","article_processing_charge":"No","scopus_import":"1","external_id":{"pmid":["37289753"],"isi":["001003410200003"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"e1011104","publication_status":"published","file_date_updated":"2023-07-18T08:07:59Z","department":[{"_id":"MaJö"}],"day":"08","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2023-06-08T00:00:00Z","abstract":[{"lang":"eng","text":"To interpret the sensory environment, the brain combines ambiguous sensory measurements with knowledge that reflects context-specific prior experience. But environmental contexts can change abruptly and unpredictably, resulting in uncertainty about the current context. Here we address two questions: how should context-specific prior knowledge optimally guide the interpretation of sensory stimuli in changing environments, and do human decision-making strategies resemble this optimum? We probe these questions with a task in which subjects report the orientation of ambiguous visual stimuli that were drawn from three dynamically switching distributions, representing different environmental contexts. We derive predictions for an ideal Bayesian observer that leverages knowledge about the statistical structure of the task to maximize decision accuracy, including knowledge about the dynamics of the environment. We show that its decisions are biased by the dynamically changing task context. The magnitude of this decision bias depends on the observer’s continually evolving belief about the current context. The model therefore not only predicts that decision bias will grow as the context is indicated more reliably, but also as the stability of the environment increases, and as the number of trials since the last context switch grows. Analysis of human choice data validates all three predictions, suggesting that the brain leverages knowledge of the statistical structure of environmental change when interpreting ambiguous sensory signals."}],"citation":{"mla":"Charlton, Julie A., et al. “Environmental Dynamics Shape Perceptual Decision Bias.” <i>PLoS Computational Biology</i>, vol. 19, no. 6, e1011104, Public Library of Science, 2023, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">10.1371/journal.pcbi.1011104</a>.","ista":"Charlton JA, Mlynarski WF, Bai YH, Hermundstad AM, Goris RLT. 2023. Environmental dynamics shape perceptual decision bias. PLoS Computational Biology. 19(6), e1011104.","chicago":"Charlton, Julie A., Wiktor F Mlynarski, Yoon H. Bai, Ann M. Hermundstad, and Robbe L.T. Goris. “Environmental Dynamics Shape Perceptual Decision Bias.” <i>PLoS Computational Biology</i>. Public Library of Science, 2023. <a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">https://doi.org/10.1371/journal.pcbi.1011104</a>.","ama":"Charlton JA, Mlynarski WF, Bai YH, Hermundstad AM, Goris RLT. Environmental dynamics shape perceptual decision bias. <i>PLoS Computational Biology</i>. 2023;19(6). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">10.1371/journal.pcbi.1011104</a>","short":"J.A. Charlton, W.F. Mlynarski, Y.H. Bai, A.M. Hermundstad, R.L.T. Goris, PLoS Computational Biology 19 (2023).","ieee":"J. A. Charlton, W. F. Mlynarski, Y. H. Bai, A. M. Hermundstad, and R. L. T. Goris, “Environmental dynamics shape perceptual decision bias,” <i>PLoS Computational Biology</i>, vol. 19, no. 6. Public Library of Science, 2023.","apa":"Charlton, J. A., Mlynarski, W. F., Bai, Y. H., Hermundstad, A. M., &#38; Goris, R. L. T. (2023). Environmental dynamics shape perceptual decision bias. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1011104\">https://doi.org/10.1371/journal.pcbi.1011104</a>"},"month":"06","title":"Environmental dynamics shape perceptual decision bias","year":"2023","pmid":1,"publication_identifier":{"eissn":["1553-7358"]},"isi":1,"type":"journal_article","publisher":"Public Library of Science","date_updated":"2023-08-02T06:33:50Z","file":[{"creator":"dernst","relation":"main_file","checksum":"800761fa2c647fabd6ad034589bc526e","content_type":"application/pdf","file_size":2281868,"access_level":"open_access","success":1,"date_created":"2023-07-18T08:07:59Z","date_updated":"2023-07-18T08:07:59Z","file_id":"13247","file_name":"2023_PloSCompBio_Charlton.pdf"}],"article_type":"original","oa":1,"volume":19,"publication":"PLoS Computational Biology","has_accepted_license":"1","acknowledgement":"The authors thank Corey Ziemba and Zoe Boundy-Singer for valuable discussion and feedback.","date_created":"2023-07-16T22:01:09Z","issue":"6"},{"scopus_import":"1","article_processing_charge":"No","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"1014","external_id":{"isi":["001017740000001"],"pmid":["37376403"]},"fulldoi":"https://doi.org/10.3390/vaccines11061014","ddc":["570"],"oa_version":"Published Version","_id":"13232","quality_controlled":"1","author":[{"full_name":"Dormeshkin, Dmitri","first_name":"Dmitri","last_name":"Dormeshkin"},{"last_name":"Katsin","full_name":"Katsin, Mikalai","first_name":"Mikalai"},{"last_name":"Stegantseva","full_name":"Stegantseva, Maria","first_name":"Maria"},{"last_name":"Golenchenko","first_name":"Sergey","full_name":"Golenchenko, Sergey"},{"full_name":"Shapira, Michail","first_name":"Michail","last_name":"Shapira"},{"first_name":"Simon","full_name":"Dubovik, Simon","last_name":"Dubovik"},{"full_name":"Lutskovich, Dzmitry","first_name":"Dzmitry","last_name":"Lutskovich"},{"full_name":"Kavaleuski, Anton","first_name":"Anton","last_name":"Kavaleuski","orcid":"0000-0003-2091-526X","id":"62304f89-eb97-11eb-a6c2-8903dd183976"},{"first_name":"Alexander","full_name":"Meleshko, Alexander","last_name":"Meleshko"}],"status":"public","intvolume":"        11","doi":"10.3390/vaccines11061014","citation":{"mla":"Dormeshkin, Dmitri, et al. “Design and Immunogenicity of SARS-CoV-2 DNA Vaccine Encoding RBD-PVXCP Fusion Protein.” <i>Vaccines</i>, vol. 11, no. 6, 1014, MDPI, 2023, doi:<a href=\"https://doi.org/10.3390/vaccines11061014\">10.3390/vaccines11061014</a>.","ista":"Dormeshkin D, Katsin M, Stegantseva M, Golenchenko S, Shapira M, Dubovik S, Lutskovich D, Kavaleuski A, Meleshko A. 2023. Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. Vaccines. 11(6), 1014.","ama":"Dormeshkin D, Katsin M, Stegantseva M, et al. Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. <i>Vaccines</i>. 2023;11(6). doi:<a href=\"https://doi.org/10.3390/vaccines11061014\">10.3390/vaccines11061014</a>","chicago":"Dormeshkin, Dmitri, Mikalai Katsin, Maria Stegantseva, Sergey Golenchenko, Michail Shapira, Simon Dubovik, Dzmitry Lutskovich, Anton Kavaleuski, and Alexander Meleshko. “Design and Immunogenicity of SARS-CoV-2 DNA Vaccine Encoding RBD-PVXCP Fusion Protein.” <i>Vaccines</i>. MDPI, 2023. <a href=\"https://doi.org/10.3390/vaccines11061014\">https://doi.org/10.3390/vaccines11061014</a>.","apa":"Dormeshkin, D., Katsin, M., Stegantseva, M., Golenchenko, S., Shapira, M., Dubovik, S., … Meleshko, A. (2023). Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein. <i>Vaccines</i>. MDPI. <a href=\"https://doi.org/10.3390/vaccines11061014\">https://doi.org/10.3390/vaccines11061014</a>","short":"D. Dormeshkin, M. Katsin, M. Stegantseva, S. Golenchenko, M. Shapira, S. Dubovik, D. Lutskovich, A. Kavaleuski, A. Meleshko, Vaccines 11 (2023).","ieee":"D. Dormeshkin <i>et al.</i>, “Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein,” <i>Vaccines</i>, vol. 11, no. 6. MDPI, 2023."},"title":"Design and immunogenicity of SARS-CoV-2 DNA vaccine encoding RBD-PVXCP fusion protein","month":"06","date_published":"2023-06-01T00:00:00Z","abstract":[{"lang":"eng","text":"The potential of immune-evasive mutation accumulation in the SARS-CoV-2 virus has led to its rapid spread, causing over 600 million confirmed cases and more than 6.5 million confirmed deaths. The huge demand for the rapid development and deployment of low-cost and effective vaccines against emerging variants has renewed interest in DNA vaccine technology. Here, we report the rapid generation and immunological evaluation of novel DNA vaccine candidates against the Wuhan-Hu-1 and Omicron variants based on the RBD protein fused with the Potato virus X coat protein (PVXCP). The delivery of DNA vaccines using electroporation in a two-dose regimen induced high-antibody titers and profound cellular responses in mice. The antibody titers induced against the Omicron variant of the vaccine were sufficient for effective protection against both Omicron and Wuhan-Hu-1 virus infections. The PVXCP protein in the vaccine construct shifted the immune response to the favorable Th1-like type and provided the oligomerization of RBD-PVXCP protein. Naked DNA delivery by needle-free injection allowed us to achieve antibody titers comparable with mRNA-LNP delivery in rabbits. These data identify the RBD-PVXCP DNA vaccine platform as a promising solution for robust and effective SARS-CoV-2 protection, supporting further translational study."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","department":[{"_id":"LeSa"}],"file_date_updated":"2023-07-18T07:25:43Z","publication_status":"published","day":"01","language":[{"iso":"eng"}],"date_updated":"2025-04-23T13:01:23Z","article_type":"original","file":[{"checksum":"8f484c0f30f8699c589b1c29a0fd7d7f","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"content_type":"application/pdf","file_size":2339746,"date_created":"2023-07-18T07:25:43Z","file_name":"2023_Vaccines_Dormeshkin.pdf","file_id":"13244","date_updated":"2023-07-18T07:25:43Z"}],"publication_identifier":{"eissn":["2076-393X"]},"isi":1,"pmid":1,"publisher":"MDPI","type":"journal_article","has_accepted_license":"1","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. The authors express their gratitude to the Institute of Physiology of the National Academy of Sciences of Belarus for providing assistance in keeping laboratory animals.","publication":"Vaccines","volume":11,"issue":"6","date_created":"2023-07-16T22:01:10Z","oa":1},{"date_updated":"2025-04-15T06:55:00Z","article_type":"original","file":[{"date_created":"2024-01-30T12:06:07Z","date_updated":"2024-01-30T12:06:07Z","file_name":"2023_JourSoftwareTools_Kueffner.pdf","file_id":"14903","creator":"dernst","relation":"main_file","checksum":"3c4b347f39412a76872f9a6f30101f94","file_size":13387667,"content_type":"application/pdf","access_level":"open_access","success":1}],"isi":1,"publication_identifier":{"issn":["1433-2779"],"eissn":["1433-2787"]},"publisher":"Springer Nature","type":"journal_article","related_material":{"record":[{"status":"public","id":"10206","relation":"shorter_version"}]},"page":"575-592","acknowledgement":"This work was supported in part by the ERC-2020-AdG 101020093, by DIREC - Digital Research Centre Denmark, and by the Villum Investigator Grant S4OS.","has_accepted_license":"1","publication":"International Journal on Software Tools for Technology Transfer","volume":25,"ec_funded":1,"date_created":"2023-07-16T22:01:11Z","oa":1,"scopus_import":"1","arxiv":1,"article_processing_charge":"Yes (in subscription journal)","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"arxiv":["2009.06429"],"isi":["001020160000001"]},"fulldoi":"https://doi.org/10.1007/s10009-023-00711-4","ddc":["000"],"oa_version":"Published Version","corr_author":"1","quality_controlled":"1","_id":"13234","status":"public","author":[{"orcid":"0000-0001-8974-2542","id":"8121a2d0-dc85-11ea-9058-af578f3b4515","last_name":"Kueffner","first_name":"Konstantin","full_name":"Kueffner, Konstantin"},{"full_name":"Lukina, Anna","first_name":"Anna","last_name":"Lukina","id":"CBA4D1A8-0FE8-11E9-BDE6-07BFE5697425"},{"last_name":"Schilling","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3658-1065","full_name":"Schilling, Christian","first_name":"Christian"},{"orcid":"0000-0002-2985-7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","first_name":"Thomas A","full_name":"Henzinger, Thomas A"}],"doi":"10.1007/s10009-023-00711-4","intvolume":"        25","month":"08","citation":{"short":"K. Kueffner, A. Lukina, C. Schilling, T.A. Henzinger, International Journal on Software Tools for Technology Transfer 25 (2023) 575–592.","ieee":"K. Kueffner, A. Lukina, C. Schilling, and T. A. Henzinger, “Into the unknown: Active monitoring of neural networks (extended version),” <i>International Journal on Software Tools for Technology Transfer</i>, vol. 25. Springer Nature, pp. 575–592, 2023.","apa":"Kueffner, K., Lukina, A., Schilling, C., &#38; Henzinger, T. A. (2023). Into the unknown: Active monitoring of neural networks (extended version). <i>International Journal on Software Tools for Technology Transfer</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10009-023-00711-4\">https://doi.org/10.1007/s10009-023-00711-4</a>","ama":"Kueffner K, Lukina A, Schilling C, Henzinger TA. Into the unknown: Active monitoring of neural networks (extended version). <i>International Journal on Software Tools for Technology Transfer</i>. 2023;25:575-592. doi:<a href=\"https://doi.org/10.1007/s10009-023-00711-4\">10.1007/s10009-023-00711-4</a>","chicago":"Kueffner, Konstantin, Anna Lukina, Christian Schilling, and Thomas A Henzinger. “Into the Unknown: Active Monitoring of Neural Networks (Extended Version).” <i>International Journal on Software Tools for Technology Transfer</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s10009-023-00711-4\">https://doi.org/10.1007/s10009-023-00711-4</a>.","mla":"Kueffner, Konstantin, et al. “Into the Unknown: Active Monitoring of Neural Networks (Extended Version).” <i>International Journal on Software Tools for Technology Transfer</i>, vol. 25, Springer Nature, 2023, pp. 575–92, doi:<a href=\"https://doi.org/10.1007/s10009-023-00711-4\">10.1007/s10009-023-00711-4</a>.","ista":"Kueffner K, Lukina A, Schilling C, Henzinger TA. 2023. Into the unknown: Active monitoring of neural networks (extended version). International Journal on Software Tools for Technology Transfer. 25, 575–592."},"title":"Into the unknown: Active monitoring of neural networks (extended version)","date_published":"2023-08-01T00:00:00Z","abstract":[{"text":"Neural-network classifiers achieve high accuracy when predicting the class of an input that they were trained to identify. Maintaining this accuracy in dynamic environments, where inputs frequently fall outside the fixed set of initially known classes, remains a challenge. We consider the problem of monitoring the classification decisions of neural networks in the presence of novel classes. For this purpose, we generalize our recently proposed abstraction-based monitor from binary output to real-valued quantitative output. This quantitative output enables new applications, two of which we investigate in the paper. As our first application, we introduce an algorithmic framework for active monitoring of a neural network, which allows us to learn new classes dynamically and yet maintain high monitoring performance. As our second application, we present an offline procedure to retrain the neural network to improve the monitor’s detection performance without deteriorating the network’s classification accuracy. Our experimental evaluation demonstrates both the benefits of our active monitoring framework in dynamic scenarios and the effectiveness of the retraining procedure.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","file_date_updated":"2024-01-30T12:06:07Z","department":[{"_id":"ToHe"}],"publication_status":"published","project":[{"call_identifier":"H2020","grant_number":"101020093","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","name":"Vigilant Algorithmic Monitoring of Software"}],"language":[{"iso":"eng"}],"day":"01"},{"publication_status":"published","department":[{"_id":"MaIb"}],"language":[{"iso":"eng"}],"day":"13","project":[{"name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery","_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"text":"AgSbSe2 is a promising thermoelectric (TE) p-type material for applications in the middle-temperature range. AgSbSe2 is characterized by relatively low thermal conductivities and high Seebeck coefficients, but its main limitation is moderate electrical conductivity. Herein, we detail an efficient and scalable hot-injection synthesis route to produce AgSbSe2 nanocrystals (NCs). To increase the carrier concentration and improve the electrical conductivity, these NCs are doped with Sn2+ on Sb3+ sites. Upon processing, the Sn2+ chemical state is conserved using a reducing NaBH4 solution to displace the organic ligand and anneal the material under a forming gas flow. The TE properties of the dense materials obtained from the consolidation of the NCs using a hot pressing are then characterized. The presence of Sn2+ ions replacing Sb3+ significantly increases the charge carrier concentration and, consequently, the electrical conductivity. Opportunely, the measured Seebeck coefficient varied within a small range upon Sn doping. The excellent performance obtained when Sn2+ ions are prevented from oxidation is rationalized by modeling the system. Calculated band structures disclosed that Sn doping induces convergence of the AgSbSe2 valence bands, accounting for an enhanced electronic effective mass. The dramatically enhanced carrier transport leads to a maximized power factor for AgSb0.98Sn0.02Se2 of 0.63 mW m–1 K–2 at 640 K. Thermally, phonon scattering is significantly enhanced in the NC-based materials, yielding an ultralow thermal conductivity of 0.3 W mK–1 at 666 K. Overall, a record-high figure of merit (zT) is obtained at 666 K for AgSb0.98Sn0.02Se2 at zT = 1.37, well above the values obtained for undoped AgSbSe2, at zT = 0.58 and state-of-art Pb- and Te-free materials, which makes AgSb0.98Sn0.02Se2 an excellent p-type candidate for medium-temperature TE applications.","lang":"eng"}],"date_published":"2023-06-13T00:00:00Z","title":"Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance","citation":{"apa":"Liu, Y., Li, M., Wan, S., Lim, K. H., Zhang, Y., Li, M., … Cabot, A. (2023). Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.3c03541\">https://doi.org/10.1021/acsnano.3c03541</a>","short":"Y. Liu, M. Li, S. Wan, K.H. Lim, Y. Zhang, M. Li, J. Li, M. Ibáñez, M. Hong, A. Cabot, ACS Nano 17 (2023) 11923–11934.","ieee":"Y. Liu <i>et al.</i>, “Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance,” <i>ACS Nano</i>, vol. 17, no. 12. American Chemical Society, pp. 11923–11934, 2023.","ama":"Liu Y, Li M, Wan S, et al. Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance. <i>ACS Nano</i>. 2023;17(12):11923–11934. doi:<a href=\"https://doi.org/10.1021/acsnano.3c03541\">10.1021/acsnano.3c03541</a>","chicago":"Liu, Yu, Mingquan Li, Shanhong Wan, Khak Ho Lim, Yu Zhang, Mengyao Li, Junshan Li, Maria Ibáñez, Min Hong, and Andreu Cabot. “Surface Chemistry and Band Engineering in AgSbSe₂: Toward High Thermoelectric Performance.” <i>ACS Nano</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acsnano.3c03541\">https://doi.org/10.1021/acsnano.3c03541</a>.","ista":"Liu Y, Li M, Wan S, Lim KH, Zhang Y, Li M, Li J, Ibáñez M, Hong M, Cabot A. 2023. Surface chemistry and band engineering in AgSbSe₂: Toward high thermoelectric performance. ACS Nano. 17(12), 11923–11934.","mla":"Liu, Yu, et al. “Surface Chemistry and Band Engineering in AgSbSe₂: Toward High Thermoelectric Performance.” <i>ACS Nano</i>, vol. 17, no. 12, American Chemical Society, 2023, pp. 11923–11934, doi:<a href=\"https://doi.org/10.1021/acsnano.3c03541\">10.1021/acsnano.3c03541</a>."},"month":"06","year":"2023","fulldoi":"https://doi.org/10.1021/acsnano.3c03541","doi":"10.1021/acsnano.3c03541","intvolume":"        17","author":[{"first_name":"Yu","full_name":"Liu, Yu","id":"2A70014E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7313-6740","last_name":"Liu"},{"last_name":"Li","first_name":"Mingquan","full_name":"Li, Mingquan"},{"first_name":"Shanhong","full_name":"Wan, Shanhong","last_name":"Wan"},{"last_name":"Lim","full_name":"Lim, Khak Ho","first_name":"Khak Ho"},{"full_name":"Zhang, Yu","first_name":"Yu","last_name":"Zhang"},{"last_name":"Li","full_name":"Li, Mengyao","first_name":"Mengyao"},{"first_name":"Junshan","full_name":"Li, Junshan","last_name":"Li"},{"last_name":"Ibáñez","id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843","full_name":"Ibáñez, Maria","first_name":"Maria"},{"last_name":"Hong","full_name":"Hong, Min","first_name":"Min"},{"last_name":"Cabot","first_name":"Andreu","full_name":"Cabot, Andreu"}],"_id":"13235","quality_controlled":"1","status":"public","oa_version":"None","article_processing_charge":"No","scopus_import":"1","external_id":{"pmid":["37310395"],"isi":["001008564800001"]},"volume":17,"publication":"ACS Nano","acknowledgement":"Y.L. acknowledges funding from the National Natural Science Foundation of China (NSFC) (Grants No. 22209034), the Innovation and Entrepreneurship Project of Overseas Returnees in Anhui Province (Grant No. 2022LCX002). K.H.L. acknowledges financial support from the National Natural Science Foundation of China (Grant No. 22208293). Y.Z. acknowledges support from the SBIR program NanoOhmics. J.L. is grateful for the project supported by the Natural Science Foundation of Sichuan (2022NSFSC1229). M.I. acknowledges financial support from ISTA and the Werner Siemens Foundation.","date_created":"2023-07-16T22:01:11Z","issue":"12","pmid":1,"publication_identifier":{"issn":["1936-0851"],"eissn":["1936-086X"]},"isi":1,"page":"11923–11934","type":"journal_article","publisher":"American Chemical Society","date_updated":"2025-04-15T06:36:40Z","article_type":"original"},{"fulldoi":"https://doi.org/10.1038/s42254-023-00598-9","oa_version":"None","intvolume":"         5","doi":"10.1038/s42254-023-00598-9","_id":"13237","status":"public","quality_controlled":"1","author":[{"last_name":"Michaels","first_name":"Thomas C.T.","full_name":"Michaels, Thomas C.T."},{"last_name":"Qian","full_name":"Qian, Daoyuan","first_name":"Daoyuan"},{"first_name":"Anđela","full_name":"Šarić, Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","last_name":"Šarić"},{"last_name":"Vendruscolo","first_name":"Michele","full_name":"Vendruscolo, Michele"},{"last_name":"Linse","full_name":"Linse, Sara","first_name":"Sara"},{"last_name":"Knowles","first_name":"Tuomas P.J.","full_name":"Knowles, Tuomas P.J."}],"scopus_import":"1","article_processing_charge":"No","external_id":{"isi":["001017539800001"]},"department":[{"_id":"AnSa"}],"publication_status":"published","day":"01","language":[{"iso":"eng"}],"citation":{"chicago":"Michaels, Thomas C.T., Daoyuan Qian, Anđela Šarić, Michele Vendruscolo, Sara Linse, and Tuomas P.J. Knowles. “Amyloid Formation as a Protein Phase Transition.” <i>Nature Reviews Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s42254-023-00598-9\">https://doi.org/10.1038/s42254-023-00598-9</a>.","ama":"Michaels TCT, Qian D, Šarić A, Vendruscolo M, Linse S, Knowles TPJ. Amyloid formation as a protein phase transition. <i>Nature Reviews Physics</i>. 2023;5:379–397. doi:<a href=\"https://doi.org/10.1038/s42254-023-00598-9\">10.1038/s42254-023-00598-9</a>","short":"T.C.T. Michaels, D. Qian, A. Šarić, M. Vendruscolo, S. Linse, T.P.J. Knowles, Nature Reviews Physics 5 (2023) 379–397.","apa":"Michaels, T. C. T., Qian, D., Šarić, A., Vendruscolo, M., Linse, S., &#38; Knowles, T. P. J. (2023). Amyloid formation as a protein phase transition. <i>Nature Reviews Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42254-023-00598-9\">https://doi.org/10.1038/s42254-023-00598-9</a>","ieee":"T. C. T. Michaels, D. Qian, A. Šarić, M. Vendruscolo, S. Linse, and T. P. J. Knowles, “Amyloid formation as a protein phase transition,” <i>Nature Reviews Physics</i>, vol. 5. Springer Nature, pp. 379–397, 2023.","ista":"Michaels TCT, Qian D, Šarić A, Vendruscolo M, Linse S, Knowles TPJ. 2023. Amyloid formation as a protein phase transition. Nature Reviews Physics. 5, 379–397.","mla":"Michaels, Thomas C. T., et al. “Amyloid Formation as a Protein Phase Transition.” <i>Nature Reviews Physics</i>, vol. 5, Springer Nature, 2023, pp. 379–397, doi:<a href=\"https://doi.org/10.1038/s42254-023-00598-9\">10.1038/s42254-023-00598-9</a>."},"month":"07","title":"Amyloid formation as a protein phase transition","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2023-07-01T00:00:00Z","abstract":[{"text":"The formation of amyloid fibrils is a general class of protein self-assembly behaviour, which is associated with both functional biology and the development of a number of disorders, such as Alzheimer and Parkinson diseases. In this Review, we discuss how general physical concepts from the study of phase transitions can be used to illuminate the fundamental mechanisms of amyloid self-assembly. We summarize progress in the efforts to describe the essential biophysical features of amyloid self-assembly as a nucleation-and-growth process and discuss how master equation approaches can reveal the key molecular pathways underlying this process, including the role of secondary nucleation. Additionally, we outline how non-classical aspects of aggregate formation involving oligomers or biomolecular condensates have emerged, inspiring developments in understanding, modelling and modulating complex protein assembly pathways. Finally, we consider how these concepts can be applied to kinetics-based drug discovery and therapeutic design to develop treatments for protein aggregation diseases.","lang":"eng"}],"year":"2023","isi":1,"publication_identifier":{"eissn":["2522-5820"]},"type":"journal_article","publisher":"Springer Nature","page":"379–397","date_updated":"2023-08-02T06:28:38Z","article_type":"original","publication":"Nature Reviews Physics","acknowledgement":"The authors acknowledge support from the Institute for the Physics of Living Systems, University College London (T.C.T.M.), the Swedish Research Council (2015-00143) (S.L.), the European Research Council under the European Union’s Seventh Framework Programme (FP7/2007-2013) through the ERC grant PhysProt (agreement no. 337969) (T.P.J.K.), the BBSRC (T.P.J.K.), the Newman Foundation (T.P.J.K.) and the Wellcome Trust Collaborative Award 203249/Z/16/Z (T.P.J.K.). The authors thank C. Flandoli for help with illustrations.","volume":5,"date_created":"2023-07-16T22:01:12Z"},{"keyword":["General Materials Science","Physical and Theoretical Chemistry"],"page":"6309-6314","type":"journal_article","publisher":"American Chemical Society","pmid":1,"isi":1,"publication_identifier":{"eissn":["1948-7185"]},"file":[{"date_created":"2023-07-19T06:55:39Z","date_updated":"2023-07-19T06:55:39Z","file_id":"13253","file_name":"2023_JourPhysChemistry_Wei.pdf","relation":"main_file","creator":"dernst","checksum":"c0c040063f06a51b9c463adc504f1a23","content_type":"application/pdf","file_size":2121252,"success":1,"access_level":"open_access"}],"article_type":"original","date_updated":"2025-04-23T13:01:50Z","oa":1,"date_created":"2023-07-18T11:13:17Z","issue":"27","ec_funded":1,"volume":14,"publication":"The Journal of Physical Chemistry Letters","has_accepted_license":"1","acknowledgement":"We thank Bingqing Cheng and Hong-Zhou Ye for valuable discussions; Y.W.’s work at IST Austria was supported through ISTernship summer internship program funded by OeADGmbH; D.L. and Z.A. acknowledge support by IST Austria (ISTA); M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON).\r\nA.A.Z. and O.M.B. acknowledge support by KAUST.","doi":"10.1021/acs.jpclett.3c01158","intvolume":"        14","_id":"13251","status":"public","quality_controlled":"1","author":[{"first_name":"Yujing","full_name":"Wei, Yujing","id":"0c5ff007-2600-11ee-b896-98bd8d663294","orcid":"0000-0001-8913-9719","last_name":"Wei"},{"orcid":"0000-0003-0393-5525","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","last_name":"Volosniev","first_name":"Artem","full_name":"Volosniev, Artem"},{"first_name":"Dusan","full_name":"Lorenc, Dusan","id":"40D8A3E6-F248-11E8-B48F-1D18A9856A87","last_name":"Lorenc"},{"last_name":"Zhumekenov","full_name":"Zhumekenov, Ayan A.","first_name":"Ayan A."},{"full_name":"Bakr, Osman M.","first_name":"Osman M.","last_name":"Bakr"},{"first_name":"Mikhail","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko"},{"full_name":"Alpichshev, Zhanybek","first_name":"Zhanybek","last_name":"Alpichshev","id":"45E67A2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7183-5203"}],"corr_author":"1","oa_version":"Published Version","ddc":["530"],"fulldoi":"https://doi.org/10.1021/acs.jpclett.3c01158","external_id":{"isi":["001022811500001"],"pmid":["37405449"],"arxiv":["2304.14198"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes (via OA deal)","arxiv":1,"scopus_import":"1","day":"05","language":[{"iso":"eng"}],"project":[{"_id":"2688CF98-B435-11E9-9278-68D0E5697425","name":"Angulon: physics and applications of a new quasiparticle","grant_number":"801770","call_identifier":"H2020"}],"publication_status":"published","department":[{"_id":"MiLe"},{"_id":"ZhAl"}],"file_date_updated":"2023-07-19T06:55:39Z","year":"2023","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-07-05T00:00:00Z","abstract":[{"text":"A rotating organic cation and a dynamically disordered soft inorganic cage are the hallmark features of organic-inorganic lead-halide perovskites. Understanding the interplay between these two subsystems is a challenging problem, but it is this coupling that is widely conjectured to be responsible for the unique behavior of photocarriers in these materials. In this work, we use the fact that the polarizability of the organic cation strongly depends on the ambient electrostatic environment to put the molecule forward as a sensitive probe of the local crystal fields inside the lattice cell. We measure the average polarizability of the C/N–H bond stretching mode by means of infrared spectroscopy, which allows us to deduce the character of the motion of the cation molecule, find the magnitude of the local crystal field, and place an estimate on the strength of the hydrogen bond between the hydrogen and halide atoms. Our results pave the way for understanding electric fields in lead-halide perovskites using infrared bond spectroscopy.","lang":"eng"}],"title":"Bond polarizability as a probe of local crystal fields in hybrid lead-halide perovskites","month":"07","citation":{"mla":"Wei, Yujing, et al. “Bond Polarizability as a Probe of Local Crystal Fields in Hybrid Lead-Halide Perovskites.” <i>The Journal of Physical Chemistry Letters</i>, vol. 14, no. 27, American Chemical Society, 2023, pp. 6309–14, doi:<a href=\"https://doi.org/10.1021/acs.jpclett.3c01158\">10.1021/acs.jpclett.3c01158</a>.","ista":"Wei Y, Volosniev A, Lorenc D, Zhumekenov AA, Bakr OM, Lemeshko M, Alpichshev Z. 2023. Bond polarizability as a probe of local crystal fields in hybrid lead-halide perovskites. The Journal of Physical Chemistry Letters. 14(27), 6309–6314.","apa":"Wei, Y., Volosniev, A., Lorenc, D., Zhumekenov, A. A., Bakr, O. M., Lemeshko, M., &#38; Alpichshev, Z. (2023). Bond polarizability as a probe of local crystal fields in hybrid lead-halide perovskites. <i>The Journal of Physical Chemistry Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.jpclett.3c01158\">https://doi.org/10.1021/acs.jpclett.3c01158</a>","ieee":"Y. Wei <i>et al.</i>, “Bond polarizability as a probe of local crystal fields in hybrid lead-halide perovskites,” <i>The Journal of Physical Chemistry Letters</i>, vol. 14, no. 27. American Chemical Society, pp. 6309–6314, 2023.","short":"Y. Wei, A. Volosniev, D. Lorenc, A.A. Zhumekenov, O.M. Bakr, M. Lemeshko, Z. Alpichshev, The Journal of Physical Chemistry Letters 14 (2023) 6309–6314.","ama":"Wei Y, Volosniev A, Lorenc D, et al. Bond polarizability as a probe of local crystal fields in hybrid lead-halide perovskites. <i>The Journal of Physical Chemistry Letters</i>. 2023;14(27):6309-6314. doi:<a href=\"https://doi.org/10.1021/acs.jpclett.3c01158\">10.1021/acs.jpclett.3c01158</a>","chicago":"Wei, Yujing, Artem Volosniev, Dusan Lorenc, Ayan A. Zhumekenov, Osman M. Bakr, Mikhail Lemeshko, and Zhanybek Alpichshev. “Bond Polarizability as a Probe of Local Crystal Fields in Hybrid Lead-Halide Perovskites.” <i>The Journal of Physical Chemistry Letters</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acs.jpclett.3c01158\">https://doi.org/10.1021/acs.jpclett.3c01158</a>."}},{"date_created":"2023-07-23T22:01:10Z","publication":"npj Climate and Atmospheric Science","has_accepted_license":"1","acknowledgement":"This work was supported by National Research Foundation of Korea (NRF) grants funded by the Korean government (MSIT) (NRF-2018R1A5A1024958, RS-2023-00208000). Model simulation and data transfer were supported by the National Supercomputing Center with supercomputing resources including technical support (KSC-2019-CHA-0005), the National Center for Meteorological Supercomputer of the Korea Meteorological Administration (KMA), and by the Korea Research Environment Open NETwork (KREONET), respectively. We sincerely thank Dr. Jongsoo Shin of Pohang University of Science and Technology, Pohang, South Korea for the model simulations.","volume":6,"oa":1,"article_type":"original","file":[{"file_name":"2023_npjclimate_Goswami.pdf","file_id":"13326","date_updated":"2023-07-31T08:00:01Z","date_created":"2023-07-31T08:00:01Z","access_level":"open_access","success":1,"file_size":1750712,"content_type":"application/pdf","checksum":"e9967d436a83b8ffcc6f58782e1f7500","creator":"dernst","relation":"main_file"}],"date_updated":"2023-08-02T06:38:07Z","type":"journal_article","publisher":"Springer Nature","publication_identifier":{"eissn":["2397-3722"]},"isi":1,"year":"2023","citation":{"mla":"GOSWAMI, BIDYUT B., and Soon Il An. “An Assessment of the ENSO-Monsoon Teleconnection in a Warming Climate.” <i>Npj Climate and Atmospheric Science</i>, vol. 6, 82, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41612-023-00411-5\">10.1038/s41612-023-00411-5</a>.","ista":"GOSWAMI BB, An SI. 2023. An assessment of the ENSO-monsoon teleconnection in a warming climate. npj Climate and Atmospheric Science. 6, 82.","short":"B.B. GOSWAMI, S.I. An, Npj Climate and Atmospheric Science 6 (2023).","ieee":"B. B. GOSWAMI and S. I. An, “An assessment of the ENSO-monsoon teleconnection in a warming climate,” <i>npj Climate and Atmospheric Science</i>, vol. 6. Springer Nature, 2023.","apa":"GOSWAMI, B. B., &#38; An, S. I. (2023). An assessment of the ENSO-monsoon teleconnection in a warming climate. <i>Npj Climate and Atmospheric Science</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41612-023-00411-5\">https://doi.org/10.1038/s41612-023-00411-5</a>","ama":"GOSWAMI BB, An SI. An assessment of the ENSO-monsoon teleconnection in a warming climate. <i>npj Climate and Atmospheric Science</i>. 2023;6. doi:<a href=\"https://doi.org/10.1038/s41612-023-00411-5\">10.1038/s41612-023-00411-5</a>","chicago":"GOSWAMI, BIDYUT B, and Soon Il An. “An Assessment of the ENSO-Monsoon Teleconnection in a Warming Climate.” <i>Npj Climate and Atmospheric Science</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41612-023-00411-5\">https://doi.org/10.1038/s41612-023-00411-5</a>."},"month":"07","title":"An assessment of the ENSO-monsoon teleconnection in a warming climate","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2023-07-08T00:00:00Z","abstract":[{"lang":"eng","text":"The El Niño-Southern Oscillation (ENSO) and the Indian summer monsoon (ISM, or monsoon) are two giants of tropical climate. Here we assess the future evolution of the ENSO-monsoon teleconnection in climate simulations with idealized forcing of CO2 increment at a rate of 1% year-1 starting from a present-day condition (367 p.p.m.) until quadrupling. We find a monotonous weakening of the ENSO-monsoon teleconnection with the increase in CO2. Increased co-occurrences of El Niño and positive Indian Ocean Dipoles (pIODs) in a warmer climate weaken the teleconnection. Co-occurrences of El Niño and pIOD are attributable to mean sea surface temperature (SST) warming that resembles a pIOD-type warming pattern in the Indian Ocean and an El Niño-type warming in the Pacific. Since ENSO is a critical precursor of the strength of the Indian monsoon, a weakening of this relation may mean a less predictable Indian monsoon in a warmer climate."}],"day":"08","language":[{"iso":"eng"}],"file_date_updated":"2023-07-31T08:00:01Z","department":[{"_id":"CaMu"}],"publication_status":"published","external_id":{"isi":["001024920300002"]},"article_number":"82","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","article_processing_charge":"Yes","oa_version":"Published Version","doi":"10.1038/s41612-023-00411-5","intvolume":"         6","_id":"13256","status":"public","quality_controlled":"1","author":[{"first_name":"Bidyut B","full_name":"Goswami, Bidyut B","id":"3a4ac09c-6d61-11ec-bf66-884cde66b64b","last_name":"Goswami"},{"last_name":"An","first_name":"Soon Il","full_name":"An, Soon Il"}],"fulldoi":"https://doi.org/10.1038/s41612-023-00411-5","ddc":["550"]},{"oa_version":"Preprint","author":[{"last_name":"Shekhter","first_name":"A.","full_name":"Shekhter, A."},{"first_name":"R. D.","full_name":"Mcdonald, R. D.","last_name":"Mcdonald"},{"full_name":"Ramshaw, B. J.","first_name":"B. J.","last_name":"Ramshaw"},{"id":"13C26AC0-EB69-11E9-87C6-5F3BE6697425","orcid":"0000-0001-9760-3147","last_name":"Modic","first_name":"Kimberly A","full_name":"Modic, Kimberly A"}],"_id":"13257","quality_controlled":"1","status":"public","intvolume":"       108","doi":"10.1103/PhysRevB.108.035111","fulldoi":"https://doi.org/10.1103/PhysRevB.108.035111","article_number":"035111","external_id":{"arxiv":["2208.10038"],"isi":["001062708600002"]},"scopus_import":"1","arxiv":1,"article_processing_charge":"No","language":[{"iso":"eng"}],"day":"15","department":[{"_id":"KiMo"}],"publication_status":"published","year":"2023","title":"Magnetotropic susceptibility","month":"07","citation":{"mla":"Shekhter, A., et al. “Magnetotropic Susceptibility.” <i>Physical Review B</i>, vol. 108, no. 3, 035111, American Physical Society, 2023, doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.035111\">10.1103/PhysRevB.108.035111</a>.","ista":"Shekhter A, Mcdonald RD, Ramshaw BJ, Modic KA. 2023. Magnetotropic susceptibility. Physical Review B. 108(3), 035111.","short":"A. Shekhter, R.D. Mcdonald, B.J. Ramshaw, K.A. Modic, Physical Review B 108 (2023).","apa":"Shekhter, A., Mcdonald, R. D., Ramshaw, B. J., &#38; Modic, K. A. (2023). Magnetotropic susceptibility. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.108.035111\">https://doi.org/10.1103/PhysRevB.108.035111</a>","ieee":"A. Shekhter, R. D. Mcdonald, B. J. Ramshaw, and K. A. Modic, “Magnetotropic susceptibility,” <i>Physical Review B</i>, vol. 108, no. 3. American Physical Society, 2023.","chicago":"Shekhter, A., R. D. Mcdonald, B. J. Ramshaw, and Kimberly A Modic. “Magnetotropic Susceptibility.” <i>Physical Review B</i>. American Physical Society, 2023. <a href=\"https://doi.org/10.1103/PhysRevB.108.035111\">https://doi.org/10.1103/PhysRevB.108.035111</a>.","ama":"Shekhter A, Mcdonald RD, Ramshaw BJ, Modic KA. Magnetotropic susceptibility. <i>Physical Review B</i>. 2023;108(3). doi:<a href=\"https://doi.org/10.1103/PhysRevB.108.035111\">10.1103/PhysRevB.108.035111</a>"},"abstract":[{"text":"The magnetotropic susceptibility is the thermodynamic coefficient associated with the rotational anisotropy of the free energy in an external magnetic field and is closely related to the magnetic susceptibility. It emerges naturally in frequency-shift measurements of oscillating mechanical cantilevers, which are becoming an increasingly important tool in the quantitative study of the thermodynamics of modern condensed-matter systems. Here we discuss the basic properties of the magnetotropic susceptibility as they relate to the experimental aspects of frequency-shift measurements, as well as to the interpretation of those experiments in terms of the intrinsic properties of the system under study.","lang":"eng"}],"date_published":"2023-07-15T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"American Physical Society","type":"journal_article","isi":1,"publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"article_type":"original","date_updated":"2023-12-13T11:58:57Z","oa":1,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2208.10038","open_access":"1"}],"issue":"3","date_created":"2023-07-23T22:01:10Z","acknowledgement":"We thank Aharon Kapitulnik, Philip Moll, and Andreas Rydh for illuminating discussions. The work at the Los Alamos National Laboratory is supported by National Science Foundation Cooperative Agreements No. DMR-1157490 and No. DMR-1644779, the state of Florida, and the U.S. Department of Energy. A.S. acknowledges support from the DOE/BES Science of 100T grant. B.J.R. acknowledges funding from the National Science Foundation under Grant No.\r\nDMR-1752784.","publication":"Physical Review B","volume":108},{"article_processing_charge":"Yes","scopus_import":"1","article_number":"4153","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"pmid":["37438341"],"isi":["001029450400031"]},"ddc":["000"],"fulldoi":"https://doi.org/10.1038/s41467-023-39625-9","quality_controlled":"1","_id":"13258","status":"public","author":[{"full_name":"Kleshnina, Maria","first_name":"Maria","last_name":"Kleshnina","id":"4E21749C-F248-11E8-B48F-1D18A9856A87"},{"id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5116-955X","last_name":"Hilbe","first_name":"Christian","full_name":"Hilbe, Christian"},{"last_name":"Simsa","orcid":"0000-0001-6687-1210","id":"409d615c-2f95-11ee-b934-90a352102c1e","full_name":"Simsa, Stepan","first_name":"Stepan"},{"first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","last_name":"Chatterjee"},{"full_name":"Nowak, Martin A.","first_name":"Martin A.","last_name":"Nowak"}],"doi":"10.1038/s41467-023-39625-9","intvolume":"        14","oa_version":"Published Version","corr_author":"1","date_published":"2023-07-12T00:00:00Z","abstract":[{"text":"Many human interactions feature the characteristics of social dilemmas where individual actions have consequences for the group and the environment. The feedback between behavior and environment can be studied with the framework of stochastic games. In stochastic games, the state of the environment can change, depending on the choices made by group members. Past work suggests that such feedback can reinforce cooperative behaviors. In particular, cooperation can evolve in stochastic games even if it is infeasible in each separate repeated game. In stochastic games, participants have an interest in conditioning their strategies on the state of the environment. Yet in many applications, precise information about the state could be scarce. Here, we study how the availability of information (or lack thereof) shapes evolution of cooperation. Already for simple examples of two state games we find surprising effects. In some cases, cooperation is only possible if there is precise information about the state of the environment. In other cases, cooperation is most abundant when there is no information about the state of the environment. We systematically analyze all stochastic games of a given complexity class, to determine when receiving information about the environment is better, neutral, or worse for evolution of cooperation.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"The effect of environmental information on evolution of cooperation in stochastic games","citation":{"mla":"Kleshnina, Maria, et al. “The Effect of Environmental Information on Evolution of Cooperation in Stochastic Games.” <i>Nature Communications</i>, vol. 14, 4153, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-39625-9\">10.1038/s41467-023-39625-9</a>.","ista":"Kleshnina M, Hilbe C, Simsa S, Chatterjee K, Nowak MA. 2023. The effect of environmental information on evolution of cooperation in stochastic games. Nature Communications. 14, 4153.","ieee":"M. Kleshnina, C. Hilbe, S. Simsa, K. Chatterjee, and M. A. Nowak, “The effect of environmental information on evolution of cooperation in stochastic games,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","apa":"Kleshnina, M., Hilbe, C., Simsa, S., Chatterjee, K., &#38; Nowak, M. A. (2023). The effect of environmental information on evolution of cooperation in stochastic games. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-39625-9\">https://doi.org/10.1038/s41467-023-39625-9</a>","short":"M. Kleshnina, C. Hilbe, S. Simsa, K. Chatterjee, M.A. Nowak, Nature Communications 14 (2023).","ama":"Kleshnina M, Hilbe C, Simsa S, Chatterjee K, Nowak MA. The effect of environmental information on evolution of cooperation in stochastic games. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-39625-9\">10.1038/s41467-023-39625-9</a>","chicago":"Kleshnina, Maria, Christian Hilbe, Stepan Simsa, Krishnendu Chatterjee, and Martin A. Nowak. “The Effect of Environmental Information on Evolution of Cooperation in Stochastic Games.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-39625-9\">https://doi.org/10.1038/s41467-023-39625-9</a>."},"month":"07","year":"2023","publication_status":"published","file_date_updated":"2023-07-31T11:32:36Z","department":[{"_id":"KrCh"}],"project":[{"call_identifier":"H2020","grant_number":"863818","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","name":"Formal Methods for Stochastic Models: Algorithms and Applications"},{"grant_number":"754411","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships"}],"language":[{"iso":"eng"}],"day":"12","date_updated":"2025-04-14T07:43:55Z","file":[{"date_created":"2023-07-31T11:32:36Z","file_name":"2023_NatureComm_Kleshnina.pdf","file_id":"13337","date_updated":"2023-07-31T11:32:36Z","checksum":"5aceefdfe76686267b93ae4fe81899f1","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"content_type":"application/pdf","file_size":1601682}],"article_type":"original","pmid":1,"isi":1,"publication_identifier":{"eissn":["2041-1723"]},"related_material":{"record":[{"relation":"research_data","status":"public","id":"13336"}]},"publisher":"Springer Nature","type":"journal_article","volume":14,"ec_funded":1,"has_accepted_license":"1","acknowledgement":"This work was supported by the European Research Council CoG 863818 (ForM-SMArt) (to K.C.), the European Research Council Starting Grant 850529: E-DIRECT (to C.H.), the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant Agreement #754411 and the French Agence Nationale de la Recherche (under the Investissement d’Avenir programme, ANR-17-EURE-0010) (to M.K.).","publication":"Nature Communications","date_created":"2023-07-23T22:01:11Z","oa":1},{"oa":1,"volume":9,"publication":"Science Advances","acknowledgement":"Wethank Y.Iwayama, K.Ohtawa, K.Fukumoto,andN. Mataga (RIKENRRD) for technical assistance in Quartz-Seq2analyses; M. Mouri(RIKENCSRS)for technical support with plasmid construction and transactivation assay; Y. Ikeda (NAIST) for technical support with tissue culture; and A. Furuta for technical support in bulk RNA-seq analysis. We also thank the Single-cell Omics Laboratory for technical consultation in scRNA-seq analyses, the members of the Laboratory for Bioinformatics Research at the RIKEN Center for Biosystems Dynamics Research, and A. Matsushima and T. Ichikawa for IT infrastructure management. This work was supported by JSPS KAKENHI(17K15146,19H05670,20K06712,20H04894,20H05431,and 22H04713 to M.I. and 20H03284 and 20H05911 to K.S.), by the JST FOREST Program (JPMJFR214H to M.I.), by The Naito Foundation to M.I.; by Takeda Science Foundation to M.I,and by the Shiseido Female Researcher Science Grant to M.I. This work was partially supported by RIKENE pigenome Control Program, Medical Research Center Initiative for High Depth Omics, and JST CREST(JPMJCR16G3and JPMJCR1926)to I.N.","has_accepted_license":"1","date_created":"2023-07-23T22:01:11Z","issue":"27","pmid":1,"publication_identifier":{"eissn":["2375-2548"]},"isi":1,"page":"eadg6983","type":"journal_article","publisher":"American Association for the Advancement of Science","date_updated":"2023-12-13T11:59:29Z","file":[{"date_created":"2023-08-01T06:40:35Z","file_id":"13338","file_name":"2023_ScienceAdvance_Ogura.pdf","date_updated":"2023-08-01T06:40:35Z","checksum":"f59217e1083767777318b5d0cc5e141d","relation":"main_file","creator":"dernst","success":1,"access_level":"open_access","content_type":"application/pdf","file_size":1759993}],"article_type":"original","publication_status":"published","file_date_updated":"2023-08-01T06:40:35Z","language":[{"iso":"eng"}],"day":"07","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-07-07T00:00:00Z","abstract":[{"lang":"eng","text":"Plants can regenerate their bodies via de novo establishment of shoot apical meristems (SAMs) from pluripotent callus. Only a small fraction of callus cells is eventually specified into SAMs but the molecular mechanisms underlying fate specification remain obscure. The expression of WUSCHEL (WUS) is an early hallmark of SAM fate acquisition. Here, we show that a WUS paralog, WUSCHEL-RELATED HOMEOBOX 13 (WOX13), negatively regulates SAM formation from callus in Arabidopsis thaliana. WOX13 promotes non-meristematic cell fate via transcriptional repression of WUS and other SAM regulators and activation of cell wall modifiers. Our Quartz-Seq2–based single cell transcriptome revealed that WOX13 plays key roles in determining cellular identity of callus cell population. We propose that reciprocal inhibition between WUS and WOX13 mediates critical cell fate determination in pluripotent cell population, which has a major impact on regeneration efficiency."}],"title":"WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via cell fate control of pluripotent callus","citation":{"ista":"Ogura N, Sasagawa Y, Ito T, Tameshige T, Kawai S, Sano M, Doll Y, Iwase A, Kawamura A, Suzuki T, Nikaido I, Sugimoto K, Ikeuchi M. 2023. WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via cell fate control of pluripotent callus. Science Advances. 9(27), eadg6983.","mla":"Ogura, Nao, et al. “WUSCHEL-RELATED HOMEOBOX 13 Suppresses de Novo Shoot Regeneration via Cell Fate Control of Pluripotent Callus.” <i>Science Advances</i>, vol. 9, no. 27, American Association for the Advancement of Science, 2023, p. eadg6983, doi:<a href=\"https://doi.org/10.1126/sciadv.adg6983\">10.1126/sciadv.adg6983</a>.","chicago":"Ogura, Nao, Yohei Sasagawa, Tasuku Ito, Toshiaki Tameshige, Satomi Kawai, Masaki Sano, Yuki Doll, et al. “WUSCHEL-RELATED HOMEOBOX 13 Suppresses de Novo Shoot Regeneration via Cell Fate Control of Pluripotent Callus.” <i>Science Advances</i>. American Association for the Advancement of Science, 2023. <a href=\"https://doi.org/10.1126/sciadv.adg6983\">https://doi.org/10.1126/sciadv.adg6983</a>.","ama":"Ogura N, Sasagawa Y, Ito T, et al. WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via cell fate control of pluripotent callus. <i>Science Advances</i>. 2023;9(27):eadg6983. doi:<a href=\"https://doi.org/10.1126/sciadv.adg6983\">10.1126/sciadv.adg6983</a>","apa":"Ogura, N., Sasagawa, Y., Ito, T., Tameshige, T., Kawai, S., Sano, M., … Ikeuchi, M. (2023). WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via cell fate control of pluripotent callus. <i>Science Advances</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/sciadv.adg6983\">https://doi.org/10.1126/sciadv.adg6983</a>","short":"N. Ogura, Y. Sasagawa, T. Ito, T. Tameshige, S. Kawai, M. Sano, Y. Doll, A. Iwase, A. Kawamura, T. Suzuki, I. Nikaido, K. Sugimoto, M. Ikeuchi, Science Advances 9 (2023) eadg6983.","ieee":"N. Ogura <i>et al.</i>, “WUSCHEL-RELATED HOMEOBOX 13 suppresses de novo shoot regeneration via cell fate control of pluripotent callus,” <i>Science Advances</i>, vol. 9, no. 27. American Association for the Advancement of Science, p. eadg6983, 2023."},"month":"07","year":"2023","ddc":["580"],"fulldoi":"https://doi.org/10.1126/sciadv.adg6983","doi":"10.1126/sciadv.adg6983","intvolume":"         9","author":[{"full_name":"Ogura, Nao","first_name":"Nao","last_name":"Ogura"},{"first_name":"Yohei","full_name":"Sasagawa, Yohei","last_name":"Sasagawa"},{"full_name":"Ito, Tasuku","first_name":"Tasuku","last_name":"Ito","orcid":"0000-0002-2482-9089","id":"d5a17a4a-e534-11eb-93ec-91fa2aa9bd57"},{"last_name":"Tameshige","first_name":"Toshiaki","full_name":"Tameshige, Toshiaki"},{"first_name":"Satomi","full_name":"Kawai, Satomi","last_name":"Kawai"},{"full_name":"Sano, Masaki","first_name":"Masaki","last_name":"Sano"},{"full_name":"Doll, Yuki","first_name":"Yuki","last_name":"Doll"},{"last_name":"Iwase","full_name":"Iwase, Akira","first_name":"Akira"},{"last_name":"Kawamura","full_name":"Kawamura, Ayako","first_name":"Ayako"},{"full_name":"Suzuki, Takamasa","first_name":"Takamasa","last_name":"Suzuki"},{"full_name":"Nikaido, Itoshi","first_name":"Itoshi","last_name":"Nikaido"},{"last_name":"Sugimoto","full_name":"Sugimoto, Keiko","first_name":"Keiko"},{"full_name":"Ikeuchi, Momoko","first_name":"Momoko","last_name":"Ikeuchi"}],"_id":"13259","status":"public","quality_controlled":"1","oa_version":"Published Version","article_processing_charge":"Yes","scopus_import":"1","external_id":{"pmid":["37418524"],"isi":["001030983100012"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"abstract":[{"lang":"eng","text":"Experimental evolution studies are powerful approaches to examine the evolutionary history of lab populations. Such studies have shed light on how selection changes phenotypes and genotypes. Most of these studies have not examined the time course of adaptation under sexual selection manipulation, by resequencing the populations’ genomes at multiple time points. Here, we analyze allele frequency trajectories in Drosophila pseudoobscura where we altered their sexual selection regime for 200 generations and sequenced pooled populations at 5 time points. The intensity of sexual selection was either relaxed in monogamous populations (M) or elevated in polyandrous lines (E). We present a comprehensive study of how selection alters population genetics parameters at the chromosome and gene level. We investigate differences in the effective population size—Ne—between the treatments, and perform a genome-wide scan to identify signatures of selection from the time-series data. We found genomic signatures of adaptation to both regimes in D. pseudoobscura. There are more significant variants in E lines as expected from stronger sexual selection. However, we found that the response on the X chromosome was substantial in both treatments, more pronounced in E and restricted to the more recently sex-linked chromosome arm XR in M. In the first generations of experimental evolution, we estimate Ne to be lower on the X in E lines, which might indicate a swift adaptive response at the onset of selection. Additionally, the third chromosome was affected by elevated polyandry whereby its distal end harbors a region showing a strong signal of adaptive evolution especially in E lines."}],"date_published":"2023-07-01T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Selection on the fly: Short-term adaptation to an altered sexual selection regime in Drosophila pseudoobscura","citation":{"short":"C. de Castro Barbosa Rodrigues Barata, R.R. Snook, M.G. Ritchie, C. Kosiol, Genome Biology and Evolution 15 (2023).","ieee":"C. de Castro Barbosa Rodrigues Barata, R. R. Snook, M. G. Ritchie, and C. Kosiol, “Selection on the fly: Short-term adaptation to an altered sexual selection regime in Drosophila pseudoobscura,” <i>Genome biology and evolution</i>, vol. 15, no. 7. Oxford University Press, 2023.","apa":"de Castro Barbosa Rodrigues Barata, C., Snook, R. R., Ritchie, M. G., &#38; Kosiol, C. (2023). Selection on the fly: Short-term adaptation to an altered sexual selection regime in Drosophila pseudoobscura. <i>Genome Biology and Evolution</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/gbe/evad113\">https://doi.org/10.1093/gbe/evad113</a>","chicago":"Castro Barbosa Rodrigues Barata, Carolina de, Rhonda R. Snook, Michael G. Ritchie, and Carolin Kosiol. “Selection on the Fly: Short-Term Adaptation to an Altered Sexual Selection Regime in Drosophila Pseudoobscura.” <i>Genome Biology and Evolution</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/gbe/evad113\">https://doi.org/10.1093/gbe/evad113</a>.","ama":"de Castro Barbosa Rodrigues Barata C, Snook RR, Ritchie MG, Kosiol C. Selection on the fly: Short-term adaptation to an altered sexual selection regime in Drosophila pseudoobscura. <i>Genome biology and evolution</i>. 2023;15(7). doi:<a href=\"https://doi.org/10.1093/gbe/evad113\">10.1093/gbe/evad113</a>","mla":"de Castro Barbosa Rodrigues Barata, Carolina, et al. “Selection on the Fly: Short-Term Adaptation to an Altered Sexual Selection Regime in Drosophila Pseudoobscura.” <i>Genome Biology and Evolution</i>, vol. 15, no. 7, evad113, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/gbe/evad113\">10.1093/gbe/evad113</a>.","ista":"de Castro Barbosa Rodrigues Barata C, Snook RR, Ritchie MG, Kosiol C. 2023. Selection on the fly: Short-term adaptation to an altered sexual selection regime in Drosophila pseudoobscura. Genome biology and evolution. 15(7), evad113."},"month":"07","year":"2023","publication_status":"published","department":[{"_id":"BeVi"}],"file_date_updated":"2023-08-01T06:58:34Z","language":[{"iso":"eng"}],"day":"01","article_processing_charge":"Yes","scopus_import":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"evad113","external_id":{"isi":["001023444700003"],"pmid":["37341535"]},"ddc":["570"],"fulldoi":"https://doi.org/10.1093/gbe/evad113","_id":"13260","quality_controlled":"1","author":[{"first_name":"Carolina","full_name":"De Castro Barbosa Rodrigues Barata, Carolina","orcid":"0000-0003-1945-2245","id":"20565186-803f-11ed-ab7e-96a4ff7694ef","last_name":"De Castro Barbosa Rodrigues Barata"},{"last_name":"Snook","full_name":"Snook, Rhonda R.","first_name":"Rhonda R."},{"first_name":"Michael G.","full_name":"Ritchie, Michael G.","last_name":"Ritchie"},{"last_name":"Kosiol","first_name":"Carolin","full_name":"Kosiol, Carolin"}],"status":"public","doi":"10.1093/gbe/evad113","intvolume":"        15","oa_version":"Published Version","corr_author":"1","volume":15,"acknowledgement":"This work was supported by the Vienna Science and Technology Fund (WWTF)(10.47379/MA16061). C.K. received funding from the Royal Society (RG170315) and the Carnegie Trust (RIG007474). M.G.R. and R.R.S. have been supported by NERC (UK) grants NE/I014632/1 and NE/V001566/1. Bioinformatics analyses were performed on the computer cluster at the University of St Andrews Bioinformatics Unit, which is funded by Wellcome Trust ISSF awards 105621/Z/14/Z. Complementary data parsing was carried out with the computational resources provided by the Research/Scientific Computing teams at The James Hutton Institute and the National Institute of Agricultural Botany (NIAB)—UK’s Crop Diversity Bioinformatics HPC, BBSRC grant BB/S019669/1. We are thankful to Paris Veltsos and R. Axel W. Wiberg for useful discussions about the project as well as providing us with the resequencing data they had produced as a result of previous work on this experiment. We are especially grateful to Tanya Sneddon for her help with the DNA extraction process and shipping.","has_accepted_license":"1","publication":"Genome biology and evolution","issue":"7","date_created":"2023-07-23T22:01:11Z","oa":1,"date_updated":"2025-05-14T11:08:37Z","file":[{"content_type":"application/pdf","file_size":2382587,"access_level":"open_access","success":1,"creator":"dernst","relation":"main_file","checksum":"70de3c4878de6efe00dc56de2df8812f","date_updated":"2023-08-01T06:58:34Z","file_name":"2023_GBE_Barata.pdf","file_id":"13339","date_created":"2023-08-01T06:58:34Z"}],"article_type":"original","pmid":1,"publication_identifier":{"eissn":["1759-6653"]},"isi":1,"related_material":{"link":[{"url":"https://github.com/carolbarata/dpseudo-n-beyond","relation":"software"}]},"publisher":"Oxford University Press","type":"journal_article"},{"title":"Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome","month":"06","citation":{"ista":"Brückner D, Chen H, Barinov L, Zoller B, Gregor T. 2023. Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome. Science. 380(6652), 1357–1362.","mla":"Brückner, David, et al. “Stochastic Motion and Transcriptional Dynamics of Pairs of Distal DNA Loci on a Compacted Chromosome.” <i>Science</i>, vol. 380, no. 6652, American Association for the Advancement of Science, 2023, pp. 1357–62, doi:<a href=\"https://doi.org/10.1126/science.adf5568\">10.1126/science.adf5568</a>.","ama":"Brückner D, Chen H, Barinov L, Zoller B, Gregor T. Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome. <i>Science</i>. 2023;380(6652):1357-1362. doi:<a href=\"https://doi.org/10.1126/science.adf5568\">10.1126/science.adf5568</a>","chicago":"Brückner, David, Hongtao Chen, Lev Barinov, Benjamin Zoller, and Thomas Gregor. “Stochastic Motion and Transcriptional Dynamics of Pairs of Distal DNA Loci on a Compacted Chromosome.” <i>Science</i>. American Association for the Advancement of Science, 2023. <a href=\"https://doi.org/10.1126/science.adf5568\">https://doi.org/10.1126/science.adf5568</a>.","short":"D. Brückner, H. Chen, L. Barinov, B. Zoller, T. Gregor, Science 380 (2023) 1357–1362.","apa":"Brückner, D., Chen, H., Barinov, L., Zoller, B., &#38; Gregor, T. (2023). Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.adf5568\">https://doi.org/10.1126/science.adf5568</a>","ieee":"D. Brückner, H. Chen, L. Barinov, B. Zoller, and T. Gregor, “Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome,” <i>Science</i>, vol. 380, no. 6652. American Association for the Advancement of Science, pp. 1357–1362, 2023."},"abstract":[{"text":"Chromosomes in the eukaryotic nucleus are highly compacted. However, for many functional processes, including transcription initiation, the pairwise motion of distal chromosomal elements such as enhancers and promoters is essential and necessitates dynamic fluidity. Here, we used a live-imaging assay to simultaneously measure the positions of pairs of enhancers and promoters and their transcriptional output while systematically varying the genomic separation between these two DNA loci. Our analysis reveals the coexistence of a compact globular organization and fast subdiffusive dynamics. These combined features cause an anomalous scaling of polymer relaxation times with genomic separation leading to long-ranged correlations. Thus, encounter times of DNA loci are much less dependent on genomic distance than predicted by existing polymer models, with potential consequences for eukaryotic gene expression.","lang":"eng"}],"date_published":"2023-06-29T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2023","department":[{"_id":"EdHa"}],"publication_status":"published","project":[{"grant_number":"ALTF 343-2022","_id":"34e2a5b5-11ca-11ed-8bc3-b2265616ef0b","name":"A mechano-chemical theory for stem cell fate decisions in organoid development"}],"language":[{"iso":"eng"}],"day":"29","scopus_import":"1","article_processing_charge":"No","external_id":{"isi":["001106405600028"]},"fulldoi":"https://doi.org/10.1126/science.adf5568","oa_version":"Preprint","_id":"13261","status":"public","quality_controlled":"1","author":[{"first_name":"David","full_name":"Brückner, David","id":"e1e86031-6537-11eb-953a-f7ab92be508d","orcid":"0000-0001-7205-2975","last_name":"Brückner"},{"last_name":"Chen","full_name":"Chen, Hongtao","first_name":"Hongtao"},{"first_name":"Lev","full_name":"Barinov, Lev","last_name":"Barinov"},{"full_name":"Zoller, Benjamin","first_name":"Benjamin","last_name":"Zoller"},{"last_name":"Gregor","first_name":"Thomas","full_name":"Gregor, Thomas"}],"doi":"10.1126/science.adf5568","intvolume":"       380","acknowledgement":"This work was supported in part by the U.S. National Science Foundation, the Center for the Physics of Biological Function (grant PHY-1734030), and the National Institutes of Health (grants R01GM097275, U01DA047730, and U01DK127429). D.B.B. was supported by the NOMIS Foundation as a fellow and by an EMBO postdoctoral fellowship (ALTF 343-2022). H.C. was supported by a Charles H. Revson Biomedical Science Fellowship.","publication":"Science","volume":380,"issue":"6652","date_created":"2023-07-23T22:01:12Z","main_file_link":[{"url":"https://doi.org/10.1126/science.adf5568","open_access":"1"}],"oa":1,"date_updated":"2025-04-14T08:55:54Z","article_type":"original","isi":1,"publication_identifier":{"eissn":["1095-9203"]},"publisher":"American Association for the Advancement of Science","type":"journal_article","page":"1357-1362"},{"publication":"Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures","has_accepted_license":"1","date_created":"2023-07-23T22:01:12Z","oa":1,"date_updated":"2025-09-09T12:43:18Z","file":[{"date_created":"2023-07-31T10:53:08Z","file_id":"13334","file_name":"2023_SPAA_Fedorov.pdf","date_updated":"2023-07-31T10:53:08Z","checksum":"72e312aabf0c5248c99b5cd3a88e4c88","creator":"dernst","relation":"main_file","access_level":"open_access","success":1,"file_size":2087937,"content_type":"application/pdf"}],"publication_identifier":{"isbn":["9781450395458"]},"isi":1,"type":"conference","publisher":"Association for Computing Machinery","page":"261-271","citation":{"ista":"Fedorov A, Hashemi D, Nadiradze G, Alistarh D-A. 2023. Provably-efficient and internally-deterministic parallel Union-Find. Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures. SPAA: Symposium on Parallelism in Algorithms and Architectures, 261–271.","mla":"Fedorov, Alexander, et al. “Provably-Efficient and Internally-Deterministic Parallel Union-Find.” <i>Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures</i>, Association for Computing Machinery, 2023, pp. 261–71, doi:<a href=\"https://doi.org/10.1145/3558481.3591082\">10.1145/3558481.3591082</a>.","short":"A. Fedorov, D. Hashemi, G. Nadiradze, D.-A. Alistarh, in:, Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures, Association for Computing Machinery, 2023, pp. 261–271.","ieee":"A. Fedorov, D. Hashemi, G. Nadiradze, and D.-A. Alistarh, “Provably-efficient and internally-deterministic parallel Union-Find,” in <i>Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures</i>, Orlando, FL, United States, 2023, pp. 261–271.","apa":"Fedorov, A., Hashemi, D., Nadiradze, G., &#38; Alistarh, D.-A. (2023). Provably-efficient and internally-deterministic parallel Union-Find. In <i>Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures</i> (pp. 261–271). Orlando, FL, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3558481.3591082\">https://doi.org/10.1145/3558481.3591082</a>","chicago":"Fedorov, Alexander, Diba Hashemi, Giorgi Nadiradze, and Dan-Adrian Alistarh. “Provably-Efficient and Internally-Deterministic Parallel Union-Find.” In <i>Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures</i>, 261–71. Association for Computing Machinery, 2023. <a href=\"https://doi.org/10.1145/3558481.3591082\">https://doi.org/10.1145/3558481.3591082</a>.","ama":"Fedorov A, Hashemi D, Nadiradze G, Alistarh D-A. Provably-efficient and internally-deterministic parallel Union-Find. In: <i>Proceedings of the 35th ACM Symposium on Parallelism in Algorithms and Architectures</i>. Association for Computing Machinery; 2023:261-271. doi:<a href=\"https://doi.org/10.1145/3558481.3591082\">10.1145/3558481.3591082</a>"},"title":"Provably-efficient and internally-deterministic parallel Union-Find","month":"06","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"lang":"eng","text":"Determining the degree of inherent parallelism in classical sequential algorithms and leveraging it for fast parallel execution is a key topic in parallel computing, and detailed analyses are known for a wide range of classical algorithms. In this paper, we perform the first such analysis for the fundamental Union-Find problem, in which we are given a graph as a sequence of edges, and must maintain its connectivity structure under edge additions. We prove that classic sequential algorithms for this problem are well-parallelizable under reasonable assumptions, addressing a conjecture by [Blelloch, 2017]. More precisely, we show via a new potential argument that, under uniform random edge ordering, parallel union-find operations are unlikely to interfere: T concurrent threads processing the graph in parallel will encounter memory contention O(T2 · log |V| · log |E|) times in expectation, where |E| and |V| are the number of edges and nodes in the graph, respectively. We leverage this result to design a new parallel Union-Find algorithm that is both internally deterministic, i.e., its results are guaranteed to match those of a sequential execution, but also work-efficient and scalable, as long as the number of threads T is O(|E|1 over 3 - ε), for an arbitrarily small constant ε > 0, which holds for most large real-world graphs. We present lower bounds which show that our analysis is close to optimal, and experimental results suggesting that the performance cost of internal determinism is limited."}],"date_published":"2023-06-17T00:00:00Z","year":"2023","department":[{"_id":"DaAl"},{"_id":"GradSch"}],"file_date_updated":"2023-07-31T10:53:08Z","publication_status":"published","day":"17","language":[{"iso":"eng"}],"scopus_import":"1","article_processing_charge":"Yes (via OA deal)","arxiv":1,"external_id":{"arxiv":["2304.09331"],"isi":["001108889000024"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"conference":{"name":"SPAA: Symposium on Parallelism in Algorithms and Architectures","start_date":"2023-06-17","end_date":"2023-06-19","location":"Orlando, FL, United States"},"fulldoi":"https://doi.org/10.1145/3558481.3591082","ddc":["000"],"corr_author":"1","oa_version":"Published Version","doi":"10.1145/3558481.3591082","quality_controlled":"1","_id":"13262","status":"public","author":[{"id":"2e711909-896a-11ed-bdf8-eb0f5a2984c6","last_name":"Fedorov","first_name":"Alexander","full_name":"Fedorov, Alexander"},{"id":"ed9595ea-2f8f-11ee-ba95-d2b546540783","last_name":"Hashemi","first_name":"Diba","full_name":"Hashemi, Diba"},{"orcid":"0000-0001-5634-0731","id":"3279A00C-F248-11E8-B48F-1D18A9856A87","last_name":"Nadiradze","first_name":"Giorgi","full_name":"Nadiradze, Giorgi"},{"orcid":"0000-0003-3650-940X","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","last_name":"Alistarh","first_name":"Dan-Adrian","full_name":"Alistarh, Dan-Adrian"}]}]