[{"language":[{"iso":"eng"}],"arxiv":1,"quality_controlled":"1","date_updated":"2023-08-11T10:29:48Z","date_created":"2021-08-12T07:08:36Z","date_published":"2021-08-01T00:00:00Z","isi":1,"article_number":"083305","publication_status":"published","article_processing_charge":"No","ddc":["530"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"issn":["0022-2488"],"eissn":["1089-7658"]},"month":"08","day":"01","volume":62,"status":"public","_id":"9891","year":"2021","publication":"Journal of Mathematical Physics","title":"Floating Wigner crystal and periodic jellium configurations","file_date_updated":"2021-10-27T12:57:06Z","doi":"10.1063/5.0053494","intvolume":" 62","abstract":[{"lang":"eng","text":"Extending on ideas of Lewin, Lieb, and Seiringer [Phys. Rev. B 100, 035127 (2019)], we present a modified “floating crystal” trial state for jellium (also known as the classical homogeneous electron gas) with density equal to a characteristic function. This allows us to show that three definitions of the jellium energy coincide in dimensions d ≥ 2, thus extending the result of Cotar and Petrache [“Equality of the Jellium and uniform electron gas next-order asymptotic terms for Coulomb and Riesz potentials,” arXiv: 1707.07664 (2019)] and Lewin, Lieb, and Seiringer [Phys. Rev. B 100, 035127 (2019)] that the three definitions coincide in dimension d ≥ 3. We show that the jellium energy is also equivalent to a “renormalized energy” studied in a series of papers by Serfaty and others, and thus, by the work of Bétermin and Sandier [Constr. Approximation 47, 39–74 (2018)], we relate the jellium energy to the order n term in the logarithmic energy of n points on the unit 2-sphere. We improve upon known lower bounds for this renormalized energy. Additionally, we derive formulas for the jellium energy of periodic configurations."}],"has_accepted_license":"1","department":[{"_id":"GradSch"},{"_id":"RoSe"}],"external_id":{"isi":["000683960800003"],"arxiv":["2103.07975"]},"keyword":["Mathematical Physics","Statistical and Nonlinear Physics"],"scopus_import":"1","acknowledgement":"The author would like to thank Robert Seiringer for guidance and many helpful comments on this project. The author would also like to thank Mathieu Lewin for his comments on the manuscript and Lorenzo Portinale for providing his lecture notes for the course “Mathematics of quantum many-body systems” in spring 2020, taught by Robert Seiringer. The Proof of Theorem III.1 is inspired by these lecture notes.","citation":{"ista":"Lauritsen AB. 2021. Floating Wigner crystal and periodic jellium configurations. Journal of Mathematical Physics. 62(8), 083305.","mla":"Lauritsen, Asbjørn Bækgaard. “Floating Wigner Crystal and Periodic Jellium Configurations.” Journal of Mathematical Physics, vol. 62, no. 8, 083305, AIP Publishing, 2021, doi:10.1063/5.0053494.","ieee":"A. B. Lauritsen, “Floating Wigner crystal and periodic jellium configurations,” Journal of Mathematical Physics, vol. 62, no. 8. AIP Publishing, 2021.","short":"A.B. Lauritsen, Journal of Mathematical Physics 62 (2021).","chicago":"Lauritsen, Asbjørn Bækgaard. “Floating Wigner Crystal and Periodic Jellium Configurations.” Journal of Mathematical Physics. AIP Publishing, 2021. https://doi.org/10.1063/5.0053494.","apa":"Lauritsen, A. B. (2021). Floating Wigner crystal and periodic jellium configurations. Journal of Mathematical Physics. AIP Publishing. https://doi.org/10.1063/5.0053494","ama":"Lauritsen AB. Floating Wigner crystal and periodic jellium configurations. Journal of Mathematical Physics. 2021;62(8). doi:10.1063/5.0053494"},"author":[{"last_name":"Lauritsen","id":"e1a2682f-dc8d-11ea-abe3-81da9ac728f1","orcid":"0000-0003-4476-2288","full_name":"Lauritsen, Asbjørn Bækgaard","first_name":"Asbjørn Bækgaard"}],"file":[{"file_name":"2021_JMathPhy_Lauritsen.pdf","file_id":"10188","creator":"cziletti","success":1,"access_level":"open_access","date_updated":"2021-10-27T12:57:06Z","relation":"main_file","date_created":"2021-10-27T12:57:06Z","file_size":4352640,"checksum":"d035be2b894c4d50d90ac5ce252e27cd","content_type":"application/pdf"}],"article_type":"original","publisher":"AIP Publishing","oa":1,"issue":"8","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version"},{"date_updated":"2023-08-11T10:43:27Z","date_created":"2021-08-13T09:27:39Z","date_published":"2021-08-06T00:00:00Z","language":[{"iso":"eng"}],"arxiv":1,"quality_controlled":"1","ddc":["539"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"isi":1,"article_number":"060602","publication_status":"published","article_processing_charge":"Yes (in subscription journal)","day":"06","volume":127,"status":"public","month":"08","doi":"10.1103/physrevlett.127.060602","_id":"9903","year":"2021","publication":"Physical Review Letters","title":"Area-law entangled eigenstates from nullspaces of local Hamiltonians","file_date_updated":"2021-08-13T09:28:08Z","department":[{"_id":"MaSe"},{"_id":"GradSch"},{"_id":"MiLe"}],"external_id":{"arxiv":["2102.13633"],"isi":["000684276000002"]},"intvolume":" 127","has_accepted_license":"1","abstract":[{"text":"Eigenstate thermalization in quantum many-body systems implies that eigenstates at high energy are similar to random vectors. Identifying systems where at least some eigenstates are nonthermal is an outstanding question. In this Letter we show that interacting quantum models that have a nullspace—a degenerate subspace of eigenstates at zero energy (zero modes), which corresponds to infinite temperature, provide a route to nonthermal eigenstates. We analytically show the existence of a zero mode which can be represented as a matrix product state for a certain class of local Hamiltonians. In the more general case we use a subspace disentangling algorithm to generate an orthogonal basis of zero modes characterized by increasing entanglement entropy. We show evidence for an area-law entanglement scaling of the least-entangled zero mode in the broad parameter regime, leading to a conjecture that all local Hamiltonians with the nullspace feature zero modes with area-law entanglement scaling and, as such, break the strong thermalization hypothesis. Finally, we find zero modes in constrained models and propose a setup for observing their experimental signatures.","lang":"eng"}],"project":[{"grant_number":"850899","call_identifier":"H2020","name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E"}],"citation":{"ista":"Karle V, Serbyn M, Michailidis A. 2021. Area-law entangled eigenstates from nullspaces of local Hamiltonians. Physical Review Letters. 127(6), 060602.","mla":"Karle, Volker, et al. “Area-Law Entangled Eigenstates from Nullspaces of Local Hamiltonians.” Physical Review Letters, vol. 127, no. 6, 060602, American Physical Society, 2021, doi:10.1103/physrevlett.127.060602.","ieee":"V. Karle, M. Serbyn, and A. Michailidis, “Area-law entangled eigenstates from nullspaces of local Hamiltonians,” Physical Review Letters, vol. 127, no. 6. American Physical Society, 2021.","short":"V. Karle, M. Serbyn, A. Michailidis, Physical Review Letters 127 (2021).","chicago":"Karle, Volker, Maksym Serbyn, and Alexios Michailidis. “Area-Law Entangled Eigenstates from Nullspaces of Local Hamiltonians.” Physical Review Letters. American Physical Society, 2021. https://doi.org/10.1103/physrevlett.127.060602.","apa":"Karle, V., Serbyn, M., & Michailidis, A. (2021). Area-law entangled eigenstates from nullspaces of local Hamiltonians. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.127.060602","ama":"Karle V, Serbyn M, Michailidis A. Area-law entangled eigenstates from nullspaces of local Hamiltonians. Physical Review Letters. 2021;127(6). doi:10.1103/physrevlett.127.060602"},"acknowledgement":"We acknowledge useful discussions with V. Gritsev and A. Garkun and suggestions on implementation of the\r\nPPXPP model by D. Bluvstein. A. M. and M. S. were supported by the European Research Council (ERC) under\r\nthe European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 850899)","file":[{"content_type":"application/pdf","checksum":"51218f302dcef99d90d1209809fcc874","relation":"main_file","date_created":"2021-08-13T09:28:08Z","date_updated":"2021-08-13T09:28:08Z","access_level":"open_access","file_size":5064231,"creator":"mserbyn","success":1,"file_id":"9904","file_name":"PhysRevLett.127.060602_SOM.pdf"}],"article_type":"letter_note","ec_funded":1,"author":[{"full_name":"Karle, Volker","first_name":"Volker","last_name":"Karle","id":"D7C012AE-D7ED-11E9-95E8-1EC5E5697425","orcid":"0000-0002-6963-0129"},{"id":"47809E7E-F248-11E8-B48F-1D18A9856A87","last_name":"Serbyn","orcid":"0000-0002-2399-5827","first_name":"Maksym","full_name":"Serbyn, Maksym"},{"first_name":"Alexios","full_name":"Michailidis, Alexios","last_name":"Michailidis","id":"36EBAD38-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8443-1064"}],"oa_version":"Published Version","publisher":"American Physical Society","oa":1,"issue":"6","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article"},{"abstract":[{"text":"Vaccines are thought to be the best available solution for controlling the ongoing SARS-CoV-2 pandemic. However, the emergence of vaccine-resistant strains may come too rapidly for current vaccine developments to alleviate the health, economic and social consequences of the pandemic. To quantify and characterize the risk of such a scenario, we created a SIR-derived model with initial stochastic dynamics of the vaccine-resistant strain to study the probability of its emergence and establishment. Using parameters realistically resembling SARS-CoV-2 transmission, we model a wave-like pattern of the pandemic and consider the impact of the rate of vaccination and the strength of non-pharmaceutical intervention measures on the probability of emergence of a resistant strain. As expected, we found that a fast rate of vaccination decreases the probability of emergence of a resistant strain. Counterintuitively, when a relaxation of non-pharmaceutical interventions happened at a time when most individuals of the population have already been vaccinated the probability of emergence of a resistant strain was greatly increased. Consequently, we show that a period of transmission reduction close to the end of the vaccination campaign can substantially reduce the probability of resistant strain establishment. Our results suggest that policymakers and individuals should consider maintaining non-pharmaceutical interventions and transmission-reducing behaviours throughout the entire vaccination period.","lang":"eng"}],"has_accepted_license":"1","intvolume":" 11","external_id":{"pmid":["34330988"],"isi":["000683329100001"]},"department":[{"_id":"FyKo"}],"citation":{"ieee":"S. Rella, Y. A. Kulikova, E. T. Dermitzakis, and F. Kondrashov, “Rates of SARS-CoV-2 transmission and vaccination impact the fate of vaccine-resistant strains,” Scientific Reports, vol. 11, no. 1. Springer Nature, 2021.","mla":"Rella, Simon, et al. “Rates of SARS-CoV-2 Transmission and Vaccination Impact the Fate of Vaccine-Resistant Strains.” Scientific Reports, vol. 11, no. 1, 15729, Springer Nature, 2021, doi:10.1038/s41598-021-95025-3.","ista":"Rella S, Kulikova YA, Dermitzakis ET, Kondrashov F. 2021. Rates of SARS-CoV-2 transmission and vaccination impact the fate of vaccine-resistant strains. Scientific Reports. 11(1), 15729.","ama":"Rella S, Kulikova YA, Dermitzakis ET, Kondrashov F. Rates of SARS-CoV-2 transmission and vaccination impact the fate of vaccine-resistant strains. Scientific Reports. 2021;11(1). doi:10.1038/s41598-021-95025-3","apa":"Rella, S., Kulikova, Y. A., Dermitzakis, E. T., & Kondrashov, F. (2021). Rates of SARS-CoV-2 transmission and vaccination impact the fate of vaccine-resistant strains. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-021-95025-3","chicago":"Rella, Simon, Yuliya A. Kulikova, Emmanouil T. Dermitzakis, and Fyodor Kondrashov. “Rates of SARS-CoV-2 Transmission and Vaccination Impact the Fate of Vaccine-Resistant Strains.” Scientific Reports. Springer Nature, 2021. https://doi.org/10.1038/s41598-021-95025-3.","short":"S. Rella, Y.A. Kulikova, E.T. Dermitzakis, F. Kondrashov, Scientific Reports 11 (2021)."},"acknowledgement":"We thank Alexey Kondrashov, Nick Machnik, Raimundo Julian Saona Urmeneta, Gasper Tkacik and Nick Barton for fruitful discussions. We also thank participants of EvoLunch seminar at IST Austria and the internal seminar at the Banco de España for useful comments. The opinions expressed in this document are exclusively of the authors and, therefore, do not necessarily coincide with those of the Banco de España or the Eurosystem. ETD is supported by the Swiss National Science and Louis Jeantet Foundation. The work of FAK was in part supported by the ERC Consolidator Grant (771209-CharFL).","scopus_import":"1","related_material":{"link":[{"url":"https://ist.ac.at/en/news/counterintuitive-dynamics-threaten-the-end-of-the-pandemic/","relation":"press_release","description":"News on IST Website"}]},"project":[{"_id":"26580278-B435-11E9-9278-68D0E5697425","name":"Characterizing the fitness landscape on population and global scales","grant_number":"771209","call_identifier":"H2020"}],"author":[{"first_name":"Simon","full_name":"Rella, Simon","last_name":"Rella","id":"B4765ACA-AA38-11E9-AC9A-0930E6697425"},{"first_name":"Yuliya A.","full_name":"Kulikova, Yuliya A.","last_name":"Kulikova"},{"last_name":"Dermitzakis","first_name":"Emmanouil T.","full_name":"Dermitzakis, Emmanouil T."},{"full_name":"Kondrashov, Fyodor","first_name":"Fyodor","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8243-4694","last_name":"Kondrashov"}],"ec_funded":1,"article_type":"original","file":[{"file_id":"9927","file_name":"2021_ScientificReports_Rella.pdf","date_created":"2021-08-16T11:36:49Z","access_level":"open_access","relation":"main_file","date_updated":"2021-08-16T11:36:49Z","file_size":3432001,"content_type":"application/pdf","checksum":"ac86892ed17e6724c7251844da5cef5c","success":1,"creator":"asandaue"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","oa":1,"issue":"1","publisher":"Springer Nature","oa_version":"Published Version","quality_controlled":"1","language":[{"iso":"eng"}],"date_published":"2021-07-30T00:00:00Z","date_created":"2021-08-15T22:01:26Z","date_updated":"2023-08-11T10:42:58Z","article_processing_charge":"Yes","publication_status":"published","article_number":"15729","isi":1,"publication_identifier":{"eissn":["20452322"]},"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["570","610"],"month":"07","status":"public","day":"30","volume":11,"file_date_updated":"2021-08-16T11:36:49Z","title":"Rates of SARS-CoV-2 transmission and vaccination impact the fate of vaccine-resistant strains","publication":"Scientific Reports","_id":"9905","year":"2021","doi":"10.1038/s41598-021-95025-3","pmid":1},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","oa":1,"issue":"16","publisher":"MDPI","oa_version":"Published Version","author":[{"last_name":"Yotova","first_name":"Iveta","full_name":"Yotova, Iveta"},{"last_name":"Hudson","first_name":"Quanah J.","full_name":"Hudson, Quanah J."},{"full_name":"Pauler, Florian","first_name":"Florian","last_name":"Pauler","orcid":"0000-0002-7462-0048","id":"48EA0138-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Proestling","first_name":"Katharina","full_name":"Proestling, Katharina"},{"last_name":"Haslinger","first_name":"Isabella","full_name":"Haslinger, Isabella"},{"last_name":"Kuessel","full_name":"Kuessel, Lorenz","first_name":"Lorenz"},{"first_name":"Alexandra","full_name":"Perricos, Alexandra","last_name":"Perricos"},{"full_name":"Husslein, Heinrich","first_name":"Heinrich","last_name":"Husslein"},{"first_name":"René","full_name":"Wenzl, René","last_name":"Wenzl"}],"article_type":"original","file":[{"content_type":"application/pdf","checksum":"be7f0042607ca60549cb27513c19c6af","relation":"main_file","access_level":"open_access","date_created":"2021-08-16T09:29:17Z","date_updated":"2021-08-16T09:29:17Z","file_size":2646018,"success":1,"creator":"asandaue","file_id":"9922","file_name":"2021_InternationalJournalOfMolecularSciences_Yotova.pdf"}],"acknowledgement":"Open access funding provided by Medical University of Vienna. The authors would like to thank all the participants and health professionals involved in the present study. We want to thank our technical assistants Barbara Widmar and Matthias Witzmann-Stern for their diligent work and constant assistance. We would like to thank Simon Hippenmeyer for access to\r\nbioinformatic infrastructure and resources.","citation":{"chicago":"Yotova, Iveta, Quanah J. Hudson, Florian Pauler, Katharina Proestling, Isabella Haslinger, Lorenz Kuessel, Alexandra Perricos, Heinrich Husslein, and René Wenzl. “LINC01133 Inhibits Invasion and Promotes Proliferation in an Endometriosis Epithelial Cell Line.” International Journal of Molecular Sciences. MDPI, 2021. https://doi.org/10.3390/ijms22168385.","short":"I. Yotova, Q.J. Hudson, F. Pauler, K. Proestling, I. Haslinger, L. Kuessel, A. Perricos, H. Husslein, R. Wenzl, International Journal of Molecular Sciences 22 (2021).","ama":"Yotova I, Hudson QJ, Pauler F, et al. LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. International Journal of Molecular Sciences. 2021;22(16). doi:10.3390/ijms22168385","apa":"Yotova, I., Hudson, Q. J., Pauler, F., Proestling, K., Haslinger, I., Kuessel, L., … Wenzl, R. (2021). LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. International Journal of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms22168385","ista":"Yotova I, Hudson QJ, Pauler F, Proestling K, Haslinger I, Kuessel L, Perricos A, Husslein H, Wenzl R. 2021. LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. International Journal of Molecular Sciences. 22(16), 8385.","mla":"Yotova, Iveta, et al. “LINC01133 Inhibits Invasion and Promotes Proliferation in an Endometriosis Epithelial Cell Line.” International Journal of Molecular Sciences, vol. 22, no. 16, 8385, MDPI, 2021, doi:10.3390/ijms22168385.","ieee":"I. Yotova et al., “LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line,” International Journal of Molecular Sciences, vol. 22, no. 16. MDPI, 2021."},"scopus_import":"1","abstract":[{"text":"Endometriosis is a common gynecological disorder characterized by ectopic growth of endometrium outside the uterus and is associated with chronic pain and infertility. We investigated the role of the long intergenic noncoding RNA 01133 (LINC01133) in endometriosis, an lncRNA that has been implicated in several types of cancer. We found that LINC01133 is upregulated in ectopic endometriotic lesions. As expression appeared higher in the epithelial endometrial layer, we performed a siRNA knockdown of LINC01133 in an endometriosis epithelial cell line. Phenotypic assays indicated that LINC01133 may promote proliferation and suppress cellular migration, and affect the cytoskeleton and morphology of the cells. Gene ontology analysis of differentially expressed genes indicated that cell proliferation and migration pathways were affected in line with the observed phenotype. We validated upregulation of p21 and downregulation of Cyclin A at the protein level, which together with the quantification of the DNA content using fluorescence-activated cell sorting (FACS) analysis indicated that the observed effects on cellular proliferation may be due to changes in cell cycle. Further, we found testis-specific protein kinase 1 (TESK1) kinase upregulation corresponding with phosphorylation and inactivation of actin severing protein Cofilin, which could explain changes in the cytoskeleton and cellular migration. These results indicate that endometriosis is associated with LINC01133 upregulation, which may affect pathogenesis via the cellular proliferation and migration pathways.","lang":"eng"}],"has_accepted_license":"1","intvolume":" 22","external_id":{"isi":["000689147400001"]},"department":[{"_id":"SiHi"}],"file_date_updated":"2021-08-16T09:29:17Z","title":"LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line","publication":"International Journal of Molecular Sciences","_id":"9906","year":"2021","doi":"10.3390/ijms22168385","month":"08","status":"public","day":"04","volume":22,"article_processing_charge":"Yes","article_number":"8385","publication_status":"published","isi":1,"publication_identifier":{"issn":["16616596"],"eissn":["14220067"]},"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["570"],"quality_controlled":"1","language":[{"iso":"eng"}],"date_published":"2021-08-04T00:00:00Z","date_updated":"2023-08-11T10:34:13Z","date_created":"2021-08-15T22:01:27Z"},{"department":[{"_id":"MaLo"}],"external_id":{"isi":["000681815400001"],"pmid":["34361115"]},"intvolume":" 22","abstract":[{"text":"DivIVA is a protein initially identified as a spatial regulator of cell division in the model organism Bacillus subtilis, but its homologues are present in many other Gram-positive bacteria, including Clostridia species. Besides its role as topological regulator of the Min system during bacterial cell division, DivIVA is involved in chromosome segregation during sporulation, genetic competence, and cell wall synthesis. DivIVA localizes to regions of high membrane curvature, such as the cell poles and cell division site, where it recruits distinct binding partners. Previously, it was suggested that negative curvature sensing is the main mechanism by which DivIVA binds to these specific regions. Here, we show that Clostridioides difficile DivIVA binds preferably to membranes containing negatively charged phospholipids, especially cardiolipin. Strikingly, we observed that upon binding, DivIVA modifies the lipid distribution and induces changes to lipid bilayers containing cardiolipin. Our observations indicate that DivIVA might play a more complex and so far unknown active role during the formation of the cell division septal membrane. ","lang":"eng"}],"has_accepted_license":"1","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"scopus_import":"1","acknowledgement":"We thank Daniela Krajˇcíkova, Katarína Muchová, Zuzana Chromíkova and other members of Barák’s laboratory for useful discussions, suggestions and help. Special thanks also to Emília Chovancová for technical support. We are grateful to Juraj Labaj for drawing the model and for help with graphics. Many thanks to all members of Loose’s laboratory: Maria del Mar\r\nLópez, Paulo Caldas, Philipp Radler, and other members of the Loose’s laboratory for sharing their knowledge of SLB preparation and TIRF experiment chambers, for sharing coverslips and for help with the TIRF microscope and data analysis. We also thank the members of the Dept. of Biochemistry of Biomembranes at the Institute of Animal Biochemistry and Genetics, CBs SAS for their help with preparing the lipid mixtures. We thank J. Bauer for critically reading the manuscript.","citation":{"ista":"Labajová N, Baranova NS, Jurásek M, Vácha R, Loose M, Barák I. 2021. Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. International Journal of Molecular Sciences. 22(15), 8350.","mla":"Labajová, Naďa, et al. “Cardiolipin-Containing Lipid Membranes Attract the Bacterial Cell Division Protein Diviva.” International Journal of Molecular Sciences, vol. 22, no. 15, 8350, MDPI, 2021, doi:10.3390/ijms22158350.","ieee":"N. Labajová, N. S. Baranova, M. Jurásek, R. Vácha, M. Loose, and I. Barák, “Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva,” International Journal of Molecular Sciences, vol. 22, no. 15. MDPI, 2021.","chicago":"Labajová, Naďa, Natalia S. Baranova, Miroslav Jurásek, Robert Vácha, Martin Loose, and Imrich Barák. “Cardiolipin-Containing Lipid Membranes Attract the Bacterial Cell Division Protein Diviva.” International Journal of Molecular Sciences. MDPI, 2021. https://doi.org/10.3390/ijms22158350.","short":"N. Labajová, N.S. Baranova, M. Jurásek, R. Vácha, M. Loose, I. Barák, International Journal of Molecular Sciences 22 (2021).","apa":"Labajová, N., Baranova, N. S., Jurásek, M., Vácha, R., Loose, M., & Barák, I. (2021). Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. International Journal of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms22158350","ama":"Labajová N, Baranova NS, Jurásek M, Vácha R, Loose M, Barák I. Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. International Journal of Molecular Sciences. 2021;22(15). doi:10.3390/ijms22158350"},"project":[{"grant_number":"679239","call_identifier":"H2020","name":"Self-Organization of the Bacterial Cell","_id":"2595697A-B435-11E9-9278-68D0E5697425"}],"file":[{"file_size":6132410,"access_level":"open_access","date_created":"2021-08-16T09:35:56Z","relation":"main_file","date_updated":"2021-08-16T09:35:56Z","checksum":"a4bc06e9a2c803ceff5a91f10b174054","content_type":"application/pdf","creator":"asandaue","success":1,"file_id":"9923","file_name":"2021_InternationalJournalOfMolecularSciences_Labajová .pdf"}],"article_type":"original","author":[{"last_name":"Labajová","full_name":"Labajová, Naďa","first_name":"Naďa"},{"first_name":"Natalia S.","full_name":"Baranova, Natalia S.","id":"38661662-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3086-9124","last_name":"Baranova"},{"full_name":"Jurásek, Miroslav","first_name":"Miroslav","last_name":"Jurásek"},{"first_name":"Robert","full_name":"Vácha, Robert","last_name":"Vácha"},{"first_name":"Martin","full_name":"Loose, Martin","orcid":"0000-0001-7309-9724","last_name":"Loose","id":"462D4284-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Barák","first_name":"Imrich","full_name":"Barák, Imrich"}],"ec_funded":1,"oa_version":"Published Version","issue":"15","oa":1,"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"MDPI","date_published":"2021-08-01T00:00:00Z","date_created":"2021-08-15T22:01:27Z","date_updated":"2023-08-11T10:34:44Z","quality_controlled":"1","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["14220067"],"issn":["16616596"]},"ddc":["570"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes","isi":1,"publication_status":"published","article_number":"8350","status":"public","day":"01","volume":22,"month":"08","pmid":1,"doi":"10.3390/ijms22158350","title":"Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva","file_date_updated":"2021-08-16T09:35:56Z","year":"2021","_id":"9907","publication":"International Journal of Molecular Sciences"},{"ec_funded":1,"author":[{"first_name":"Marion A L","full_name":"Picard, Marion A L","id":"2C921A7A-F248-11E8-B48F-1D18A9856A87","last_name":"Picard","orcid":"0000-0002-8101-2518"},{"last_name":"Vicoso","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","full_name":"Vicoso, Beatriz"},{"first_name":"Stéphanie","full_name":"Bertrand, Stéphanie","last_name":"Bertrand"},{"last_name":"Escriva","first_name":"Hector","full_name":"Escriva, Hector"}],"file":[{"file_id":"9926","file_name":"2021_Genes_Picard.pdf","content_type":"application/pdf","checksum":"744e60e56d290a96da3c91a9779f886f","file_size":2297655,"date_updated":"2021-08-16T09:49:35Z","relation":"main_file","date_created":"2021-08-16T09:49:35Z","access_level":"open_access","creator":"asandaue","success":1}],"article_type":"review","publisher":"MDPI","oa":1,"issue":"8","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","oa_version":"Published Version","intvolume":" 12","has_accepted_license":"1","abstract":[{"text":"About eight million animal species are estimated to live on Earth, and all except those belonging to one subphylum are invertebrates. Invertebrates are incredibly diverse in their morphologies, life histories, and in the range of the ecological niches that they occupy. A great variety of modes of reproduction and sex determination systems is also observed among them, and their mosaic-distribution across the phylogeny shows that transitions between them occur frequently and rapidly. Genetic conflict in its various forms is a long-standing theory to explain what drives those evolutionary transitions. Here, we review (1) the different modes of reproduction among invertebrate species, highlighting sexual reproduction as the probable ancestral state; (2) the paradoxical diversity of sex determination systems; (3) the different types of genetic conflicts that could drive the evolution of such different systems.","lang":"eng"}],"department":[{"_id":"BeVi"}],"external_id":{"isi":["000690475900001"]},"project":[{"_id":"250BDE62-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"715257","name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution"}],"scopus_import":"1","citation":{"ama":"Picard MAL, Vicoso B, Bertrand S, Escriva H. Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict. Genes. 2021;12(8). doi:10.3390/genes12081136","apa":"Picard, M. A. L., Vicoso, B., Bertrand, S., & Escriva, H. (2021). Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict. Genes. MDPI. https://doi.org/10.3390/genes12081136","short":"M.A.L. Picard, B. Vicoso, S. Bertrand, H. Escriva, Genes 12 (2021).","chicago":"Picard, Marion A L, Beatriz Vicoso, Stéphanie Bertrand, and Hector Escriva. “Diversity of Modes of Reproduction and Sex Determination Systems in Invertebrates, and the Putative Contribution of Genetic Conflict.” Genes. MDPI, 2021. https://doi.org/10.3390/genes12081136.","ieee":"M. A. L. Picard, B. Vicoso, S. Bertrand, and H. Escriva, “Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict,” Genes, vol. 12, no. 8. MDPI, 2021.","mla":"Picard, Marion A. L., et al. “Diversity of Modes of Reproduction and Sex Determination Systems in Invertebrates, and the Putative Contribution of Genetic Conflict.” Genes, vol. 12, no. 8, 1136, MDPI, 2021, doi:10.3390/genes12081136.","ista":"Picard MAL, Vicoso B, Bertrand S, Escriva H. 2021. Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict. Genes. 12(8), 1136."},"month":"08","day":"01","volume":12,"status":"public","_id":"9908","year":"2021","publication":"Genes","title":"Diversity of modes of reproduction and sex determination systems in invertebrates, and the putative contribution of genetic conflict","file_date_updated":"2021-08-16T09:49:35Z","doi":"10.3390/genes12081136","language":[{"iso":"eng"}],"quality_controlled":"1","date_created":"2021-08-15T22:01:27Z","date_updated":"2023-08-11T10:42:32Z","date_published":"2021-08-01T00:00:00Z","isi":1,"article_number":"1136","publication_status":"published","article_processing_charge":"Yes","ddc":["570"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"eissn":["20734425"]}},{"publisher":"MDPI","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","oa":1,"issue":"8","oa_version":"Published Version","author":[{"full_name":"Zeng, Yinwei","first_name":"Yinwei","last_name":"Zeng"},{"orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","last_name":"Verstraeten","first_name":"Inge","full_name":"Verstraeten, Inge"},{"first_name":"Hoang Khai","full_name":"Trinh, Hoang Khai","last_name":"Trinh"},{"first_name":"Thomas","full_name":"Heugebaert, Thomas","last_name":"Heugebaert"},{"last_name":"Stevens","first_name":"Christian V.","full_name":"Stevens, Christian V."},{"last_name":"Garcia-Maquilon","first_name":"Irene","full_name":"Garcia-Maquilon, Irene"},{"last_name":"Rodriguez","first_name":"Pedro L.","full_name":"Rodriguez, Pedro L."},{"first_name":"Steffen","full_name":"Vanneste, Steffen","last_name":"Vanneste"},{"last_name":"Geelen","full_name":"Geelen, Danny","first_name":"Danny"}],"article_type":"original","file":[{"date_created":"2021-08-16T09:02:40Z","relation":"main_file","access_level":"open_access","date_updated":"2021-08-16T09:02:40Z","file_size":1340305,"checksum":"3d99535618cf9a5b14d264408fa52e97","content_type":"application/pdf","creator":"asandaue","success":1,"file_id":"9919","file_name":"2021_Genes_Zeng.pdf"}],"citation":{"ama":"Zeng Y, Verstraeten I, Trinh HK, et al. Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling. Genes. 2021;12(8). doi:10.3390/genes12081141","apa":"Zeng, Y., Verstraeten, I., Trinh, H. K., Heugebaert, T., Stevens, C. V., Garcia-Maquilon, I., … Geelen, D. (2021). Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling. Genes. MDPI. https://doi.org/10.3390/genes12081141","chicago":"Zeng, Yinwei, Inge Verstraeten, Hoang Khai Trinh, Thomas Heugebaert, Christian V. Stevens, Irene Garcia-Maquilon, Pedro L. Rodriguez, Steffen Vanneste, and Danny Geelen. “Arabidopsis Hypocotyl Adventitious Root Formation Is Suppressed by ABA Signaling.” Genes. MDPI, 2021. https://doi.org/10.3390/genes12081141.","short":"Y. Zeng, I. Verstraeten, H.K. Trinh, T. Heugebaert, C.V. Stevens, I. Garcia-Maquilon, P.L. Rodriguez, S. Vanneste, D. Geelen, Genes 12 (2021).","mla":"Zeng, Yinwei, et al. “Arabidopsis Hypocotyl Adventitious Root Formation Is Suppressed by ABA Signaling.” Genes, vol. 12, no. 8, 1141, MDPI, 2021, doi:10.3390/genes12081141.","ieee":"Y. Zeng et al., “Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling,” Genes, vol. 12, no. 8. MDPI, 2021.","ista":"Zeng Y, Verstraeten I, Trinh HK, Heugebaert T, Stevens CV, Garcia-Maquilon I, Rodriguez PL, Vanneste S, Geelen D. 2021. Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling. Genes. 12(8), 1141."},"acknowledgement":"We thank S. Cutler (Riverside, USA) for providing the ABA biosynthesis mutants and ABA signaling mutants.","scopus_import":"1","abstract":[{"text":"Roots are composed of different root types and, in the dicotyledonous Arabidopsis, typically consist of a primary root that branches into lateral roots. Adventitious roots emerge from non-root tissue and are formed upon wounding or other types of abiotic stress. Here, we investigated adventitious root (AR) formation in Arabidopsis hypocotyls under conditions of altered abscisic acid (ABA) signaling. Exogenously applied ABA suppressed AR formation at 0.25 µM or higher doses. AR formation was less sensitive to the synthetic ABA analog pyrabactin (PB). However, PB was a more potent inhibitor at concentrations above 1 µM, suggesting that it was more selective in triggering a root inhibition response. Analysis of a series of phosphonamide and phosphonate pyrabactin analogs suggested that adventitious root formation and lateral root branching are differentially regulated by ABA signaling. ABA biosynthesis and signaling mutants affirmed a general inhibitory role of ABA and point to PYL1 and PYL2 as candidate ABA receptors that regulate AR inhibition.","lang":"eng"}],"has_accepted_license":"1","intvolume":" 12","external_id":{"isi":["000690558000001"]},"department":[{"_id":"JiFr"}],"publication":"Genes","_id":"9909","year":"2021","file_date_updated":"2021-08-16T09:02:40Z","title":"Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling","doi":"10.3390/genes12081141","month":"07","day":"27","volume":12,"status":"public","publication_status":"published","article_number":"1141","isi":1,"article_processing_charge":"Yes","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["580","570"],"publication_identifier":{"eissn":["20734425"]},"language":[{"iso":"eng"}],"quality_controlled":"1","date_updated":"2023-08-11T10:32:21Z","date_created":"2021-08-15T22:01:28Z","date_published":"2021-07-27T00:00:00Z"},{"file":[{"file_name":"2021_EuropeanJournalOfHumanGenetics_Slavskii.pdf","file_id":"9921","success":1,"creator":"asandaue","file_size":1079395,"date_created":"2021-08-16T09:14:36Z","access_level":"open_access","relation":"main_file","date_updated":"2021-08-16T09:14:36Z","checksum":"a676d76f91b0dbe0504c63e469129c2a","content_type":"application/pdf"}],"article_type":"original","ec_funded":1,"author":[{"last_name":"Slavskii","first_name":"Sergei A.","full_name":"Slavskii, Sergei A."},{"first_name":"Ivan A.","full_name":"Kuznetsov, Ivan A.","last_name":"Kuznetsov"},{"first_name":"Tatiana I.","full_name":"Shashkova, Tatiana I.","last_name":"Shashkova"},{"first_name":"Georgii A.","full_name":"Bazykin, Georgii A.","last_name":"Bazykin"},{"first_name":"Tatiana I.","full_name":"Axenovich, Tatiana I.","last_name":"Axenovich"},{"last_name":"Kondrashov","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8243-4694","full_name":"Kondrashov, Fyodor","first_name":"Fyodor"},{"last_name":"Aulchenko","first_name":"Yurii S.","full_name":"Aulchenko, Yurii S."}],"oa_version":"Published Version","publisher":"Springer Nature","issue":"7","oa":1,"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"FyKo"}],"external_id":{"isi":["000625853200001"],"pmid":["33664501"]},"intvolume":" 29","abstract":[{"text":"Adult height inspired the first biometrical and quantitative genetic studies and is a test-case trait for understanding heritability. The studies of height led to formulation of the classical polygenic model, that has a profound influence on the way we view and analyse complex traits. An essential part of the classical model is an assumption of additivity of effects and normality of the distribution of the residuals. However, it may be expected that the normal approximation will become insufficient in bigger studies. Here, we demonstrate that when the height of hundreds of thousands of individuals is analysed, the model complexity needs to be increased to include non-additive interactions between sex, environment and genes. Alternatively, the use of log-normal approximation allowed us to still use the additive effects model. These findings are important for future genetic and methodologic studies that make use of adult height as an exemplar trait.","lang":"eng"}],"has_accepted_license":"1","project":[{"name":"Characterizing the fitness landscape on population and global scales","call_identifier":"H2020","grant_number":"771209","_id":"26580278-B435-11E9-9278-68D0E5697425"}],"scopus_import":"1","acknowledgement":"We are grateful to Marianna Bevova and Pavel Borodin for fruitful discussion and help with conceptualising our findings and to Lennart C. Karssen for help with handling the UK Biobank data.\r\n\r\nFunding\r\nThis research has been conducted using the UK Biobank Resource (project # 41601, “Non-additive effects in control of complex human traits”). The work of SAS, IAK, and TIS were supported by Russian Ministry of Science and Education under the 5–100 Excellence Programme. The work of YSA and TIA was supported by the Ministry of Education and Science of the RF via the Institute of Cytology and Genetics SB RAS (project number 0324-2019-0040-C-01/AAAA-A17-117092070032-4). FAK is supported by the ERC Consolidator Grant (ChrFL: 771209).","citation":{"apa":"Slavskii, S. A., Kuznetsov, I. A., Shashkova, T. I., Bazykin, G. A., Axenovich, T. I., Kondrashov, F., & Aulchenko, Y. S. (2021). The limits of normal approximation for adult height. European Journal of Human Genetics. Springer Nature. https://doi.org/10.1038/s41431-021-00836-7","ama":"Slavskii SA, Kuznetsov IA, Shashkova TI, et al. The limits of normal approximation for adult height. European Journal of Human Genetics. 2021;29(7):1082-1091. doi:10.1038/s41431-021-00836-7","chicago":"Slavskii, Sergei A., Ivan A. Kuznetsov, Tatiana I. Shashkova, Georgii A. Bazykin, Tatiana I. Axenovich, Fyodor Kondrashov, and Yurii S. Aulchenko. “The Limits of Normal Approximation for Adult Height.” European Journal of Human Genetics. Springer Nature, 2021. https://doi.org/10.1038/s41431-021-00836-7.","short":"S.A. Slavskii, I.A. Kuznetsov, T.I. Shashkova, G.A. Bazykin, T.I. Axenovich, F. Kondrashov, Y.S. Aulchenko, European Journal of Human Genetics 29 (2021) 1082–1091.","ieee":"S. A. Slavskii et al., “The limits of normal approximation for adult height,” European Journal of Human Genetics, vol. 29, no. 7. Springer Nature, pp. 1082–1091, 2021.","mla":"Slavskii, Sergei A., et al. “The Limits of Normal Approximation for Adult Height.” European Journal of Human Genetics, vol. 29, no. 7, Springer Nature, 2021, pp. 1082–91, doi:10.1038/s41431-021-00836-7.","ista":"Slavskii SA, Kuznetsov IA, Shashkova TI, Bazykin GA, Axenovich TI, Kondrashov F, Aulchenko YS. 2021. The limits of normal approximation for adult height. European Journal of Human Genetics. 29(7), 1082–1091."},"day":"01","volume":29,"status":"public","month":"07","pmid":1,"doi":"10.1038/s41431-021-00836-7","_id":"9910","year":"2021","publication":"European Journal of Human Genetics","title":"The limits of normal approximation for adult height","file_date_updated":"2021-08-16T09:14:36Z","date_updated":"2023-08-11T10:33:42Z","date_created":"2021-08-15T22:01:28Z","date_published":"2021-07-01T00:00:00Z","page":"1082-1091","language":[{"iso":"eng"}],"quality_controlled":"1","ddc":["576"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"eissn":["14765438"],"issn":["10184813"]},"isi":1,"publication_status":"published","article_processing_charge":"Yes (in subscription journal)"},{"volume":284,"day":"11","status":"public","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1111/jmi.13041"}],"month":"08","doi":"10.1111/jmi.13041","_id":"9911","year":"2021","publication":"Journal of Microscopy","title":"QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy","date_created":"2021-08-15T22:01:29Z","date_updated":"2023-08-11T10:30:40Z","date_published":"2021-08-11T00:00:00Z","page":"56-73","language":[{"iso":"eng"}],"quality_controlled":"1","publication_identifier":{"eissn":["1365-2818"],"issn":["0022-2720"]},"isi":1,"publication_status":"published","article_processing_charge":"Yes","article_type":"original","author":[{"first_name":"Glyn","full_name":"Nelson, Glyn","last_name":"Nelson"},{"last_name":"Boehm","full_name":"Boehm, Ulrike","first_name":"Ulrike"},{"full_name":"Bagley, Steve","first_name":"Steve","last_name":"Bagley"},{"full_name":"Bajcsy, Peter","first_name":"Peter","last_name":"Bajcsy"},{"first_name":"Johanna","full_name":"Bischof, Johanna","last_name":"Bischof"},{"first_name":"Claire M.","full_name":"Brown, Claire M.","last_name":"Brown"},{"full_name":"Dauphin, Aurélien","first_name":"Aurélien","last_name":"Dauphin"},{"last_name":"Dobbie","first_name":"Ian M.","full_name":"Dobbie, Ian M."},{"last_name":"Eriksson","full_name":"Eriksson, John E.","first_name":"John E."},{"first_name":"Orestis","full_name":"Faklaris, Orestis","last_name":"Faklaris"},{"full_name":"Fernandez-Rodriguez, Julia","first_name":"Julia","last_name":"Fernandez-Rodriguez"},{"full_name":"Ferrand, Alexia","first_name":"Alexia","last_name":"Ferrand"},{"last_name":"Gelman","full_name":"Gelman, Laurent","first_name":"Laurent"},{"full_name":"Gheisari, Ali","first_name":"Ali","last_name":"Gheisari"},{"last_name":"Hartmann","full_name":"Hartmann, Hella","first_name":"Hella"},{"first_name":"Christian","full_name":"Kukat, Christian","last_name":"Kukat"},{"full_name":"Laude, Alex","first_name":"Alex","last_name":"Laude"},{"last_name":"Mitkovski","first_name":"Miso","full_name":"Mitkovski, Miso"},{"full_name":"Munck, Sebastian","first_name":"Sebastian","last_name":"Munck"},{"first_name":"Alison J.","full_name":"North, Alison J.","last_name":"North"},{"first_name":"Tobias M.","full_name":"Rasse, Tobias M.","last_name":"Rasse"},{"last_name":"Resch-Genger","first_name":"Ute","full_name":"Resch-Genger, Ute"},{"full_name":"Schuetz, Lucas C.","first_name":"Lucas C.","last_name":"Schuetz"},{"last_name":"Seitz","full_name":"Seitz, Arne","first_name":"Arne"},{"last_name":"Strambio-De-Castillia","first_name":"Caterina","full_name":"Strambio-De-Castillia, Caterina"},{"last_name":"Swedlow","first_name":"Jason R.","full_name":"Swedlow, Jason R."},{"full_name":"Alexopoulos, Ioannis","first_name":"Ioannis","last_name":"Alexopoulos"},{"first_name":"Karin","full_name":"Aumayr, Karin","last_name":"Aumayr"},{"full_name":"Avilov, Sergiy","first_name":"Sergiy","last_name":"Avilov"},{"last_name":"Bakker","first_name":"Gert Jan","full_name":"Bakker, Gert Jan"},{"first_name":"Rodrigo R.","full_name":"Bammann, Rodrigo R.","last_name":"Bammann"},{"full_name":"Bassi, Andrea","first_name":"Andrea","last_name":"Bassi"},{"last_name":"Beckert","full_name":"Beckert, Hannes","first_name":"Hannes"},{"last_name":"Beer","full_name":"Beer, Sebastian","first_name":"Sebastian"},{"last_name":"Belyaev","first_name":"Yury","full_name":"Belyaev, Yury"},{"last_name":"Bierwagen","first_name":"Jakob","full_name":"Bierwagen, Jakob"},{"first_name":"Konstantin A.","full_name":"Birngruber, Konstantin A.","last_name":"Birngruber"},{"last_name":"Bosch","full_name":"Bosch, Manel","first_name":"Manel"},{"last_name":"Breitlow","full_name":"Breitlow, Juergen","first_name":"Juergen"},{"full_name":"Cameron, Lisa A.","first_name":"Lisa A.","last_name":"Cameron"},{"full_name":"Chalfoun, Joe","first_name":"Joe","last_name":"Chalfoun"},{"first_name":"James J.","full_name":"Chambers, James J.","last_name":"Chambers"},{"last_name":"Chen","full_name":"Chen, Chieh Li","first_name":"Chieh Li"},{"full_name":"Conde-Sousa, Eduardo","first_name":"Eduardo","last_name":"Conde-Sousa"},{"full_name":"Corbett, Alexander D.","first_name":"Alexander D.","last_name":"Corbett"},{"last_name":"Cordelieres","first_name":"Fabrice P.","full_name":"Cordelieres, Fabrice P."},{"last_name":"Nery","full_name":"Nery, Elaine Del","first_name":"Elaine Del"},{"last_name":"Dietzel","full_name":"Dietzel, Ralf","first_name":"Ralf"},{"first_name":"Frank","full_name":"Eismann, Frank","last_name":"Eismann"},{"last_name":"Fazeli","first_name":"Elnaz","full_name":"Fazeli, Elnaz"},{"last_name":"Felscher","full_name":"Felscher, Andreas","first_name":"Andreas"},{"last_name":"Fried","full_name":"Fried, Hans","first_name":"Hans"},{"full_name":"Gaudreault, Nathalie","first_name":"Nathalie","last_name":"Gaudreault"},{"last_name":"Goh","full_name":"Goh, Wah Ing","first_name":"Wah Ing"},{"full_name":"Guilbert, Thomas","first_name":"Thomas","last_name":"Guilbert"},{"last_name":"Hadleigh","first_name":"Roland","full_name":"Hadleigh, Roland"},{"last_name":"Hemmerich","full_name":"Hemmerich, Peter","first_name":"Peter"},{"full_name":"Holst, Gerhard A.","first_name":"Gerhard A.","last_name":"Holst"},{"full_name":"Itano, Michelle S.","first_name":"Michelle S.","last_name":"Itano"},{"last_name":"Jaffe","first_name":"Claudia B.","full_name":"Jaffe, Claudia B."},{"last_name":"Jambor","first_name":"Helena K.","full_name":"Jambor, Helena K."},{"last_name":"Jarvis","full_name":"Jarvis, Stuart C.","first_name":"Stuart C."},{"full_name":"Keppler, Antje","first_name":"Antje","last_name":"Keppler"},{"first_name":"David","full_name":"Kirchenbuechler, David","last_name":"Kirchenbuechler"},{"full_name":"Kirchner, Marcel","first_name":"Marcel","last_name":"Kirchner"},{"last_name":"Kobayashi","first_name":"Norio","full_name":"Kobayashi, Norio"},{"id":"2B819732-F248-11E8-B48F-1D18A9856A87","last_name":"Krens","orcid":"0000-0003-4761-5996","first_name":"Gabriel","full_name":"Krens, Gabriel"},{"full_name":"Kunis, Susanne","first_name":"Susanne","last_name":"Kunis"},{"full_name":"Lacoste, Judith","first_name":"Judith","last_name":"Lacoste"},{"last_name":"Marcello","full_name":"Marcello, Marco","first_name":"Marco"},{"first_name":"Gabriel G.","full_name":"Martins, Gabriel G.","last_name":"Martins"},{"last_name":"Metcalf","first_name":"Daniel J.","full_name":"Metcalf, Daniel J."},{"full_name":"Mitchell, Claire A.","first_name":"Claire A.","last_name":"Mitchell"},{"last_name":"Moore","full_name":"Moore, Joshua","first_name":"Joshua"},{"first_name":"Tobias","full_name":"Mueller, Tobias","last_name":"Mueller"},{"last_name":"Nelson","full_name":"Nelson, Michael S.","first_name":"Michael S."},{"first_name":"Stephen","full_name":"Ogg, Stephen","last_name":"Ogg"},{"full_name":"Onami, Shuichi","first_name":"Shuichi","last_name":"Onami"},{"last_name":"Palmer","first_name":"Alexandra L.","full_name":"Palmer, Alexandra L."},{"full_name":"Paul-Gilloteaux, Perrine","first_name":"Perrine","last_name":"Paul-Gilloteaux"},{"full_name":"Pimentel, Jaime A.","first_name":"Jaime A.","last_name":"Pimentel"},{"first_name":"Laure","full_name":"Plantard, Laure","last_name":"Plantard"},{"last_name":"Podder","first_name":"Santosh","full_name":"Podder, Santosh"},{"last_name":"Rexhepaj","first_name":"Elton","full_name":"Rexhepaj, Elton"},{"last_name":"Royon","first_name":"Arnaud","full_name":"Royon, Arnaud"},{"last_name":"Saari","full_name":"Saari, Markku A.","first_name":"Markku A."},{"full_name":"Schapman, Damien","first_name":"Damien","last_name":"Schapman"},{"last_name":"Schoonderwoert","first_name":"Vincent","full_name":"Schoonderwoert, Vincent"},{"last_name":"Schroth-Diez","full_name":"Schroth-Diez, Britta","first_name":"Britta"},{"first_name":"Stanley","full_name":"Schwartz, Stanley","last_name":"Schwartz"},{"last_name":"Shaw","first_name":"Michael","full_name":"Shaw, Michael"},{"last_name":"Spitaler","first_name":"Martin","full_name":"Spitaler, Martin"},{"last_name":"Stoeckl","first_name":"Martin T.","full_name":"Stoeckl, Martin T."},{"last_name":"Sudar","full_name":"Sudar, Damir","first_name":"Damir"},{"first_name":"Jeremie","full_name":"Teillon, Jeremie","last_name":"Teillon"},{"full_name":"Terjung, Stefan","first_name":"Stefan","last_name":"Terjung"},{"full_name":"Thuenauer, Roland","first_name":"Roland","last_name":"Thuenauer"},{"last_name":"Wilms","first_name":"Christian D.","full_name":"Wilms, Christian D."},{"last_name":"Wright","full_name":"Wright, Graham D.","first_name":"Graham D."},{"last_name":"Nitschke","first_name":"Roland","full_name":"Nitschke, Roland"}],"oa_version":"Published Version","publisher":"Wiley","issue":"1","oa":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","department":[{"_id":"Bio"}],"external_id":{"isi":["000683702700001"]},"intvolume":" 284","abstract":[{"lang":"eng","text":"A modern day light microscope has evolved from a tool devoted to making primarily empirical observations to what is now a sophisticated , quantitative device that is an integral part of both physical and life science research. Nowadays, microscopes are found in nearly every experimental laboratory. However, despite their prevalent use in capturing and quantifying scientific phenomena, neither a thorough understanding of the principles underlying quantitative imaging techniques nor appropriate knowledge of how to calibrate, operate and maintain microscopes can be taken for granted. This is clearly demonstrated by the well-documented and widespread difficulties that are routinely encountered in evaluating acquired data and reproducing scientific experiments. Indeed, studies have shown that more than 70% of researchers have tried and failed to repeat another scientist's experiments, while more than half have even failed to reproduce their own experiments. One factor behind the reproducibility crisis of experiments published in scientific journals is the frequent underreporting of imaging methods caused by a lack of awareness and/or a lack of knowledge of the applied technique. Whereas quality control procedures for some methods used in biomedical research, such as genomics (e.g. DNA sequencing, RNA-seq) or cytometry, have been introduced (e.g. ENCODE), this issue has not been tackled for optical microscopy instrumentation and images. Although many calibration standards and protocols have been published, there is a lack of awareness and agreement on common standards and guidelines for quality assessment and reproducibility. In April 2020, the QUality Assessment and REProducibility for instruments and images in Light Microscopy (QUAREP-LiMi) initiative was formed. This initiative comprises imaging scientists from academia and industry who share a common interest in achieving a better understanding of the performance and limitations of microscopes and improved quality control (QC) in light microscopy. The ultimate goal of the QUAREP-LiMi initiative is to establish a set of common QC standards, guidelines, metadata models and tools, including detailed protocols, with the ultimate aim of improving reproducible advances in scientific research. This White Paper (1) summarizes the major obstacles identified in the field that motivated the launch of the QUAREP-LiMi initiative; (2) identifies the urgent need to address these obstacles in a grassroots manner, through a community of stakeholders including, researchers, imaging scientists, bioimage analysts, bioimage informatics developers, corporate partners, funding agencies, standards organizations, scientific publishers and observers of such; (3) outlines the current actions of the QUAREP-LiMi initiative and (4) proposes future steps that can be taken to improve the dissemination and acceptance of the proposed guidelines to manage QC. To summarize, the principal goal of the QUAREP-LiMi initiative is to improve the overall quality and reproducibility of light microscope image data by introducing broadly accepted standard practices and accurately captured image data metrics."}],"scopus_import":"1","citation":{"apa":"Nelson, G., Boehm, U., Bagley, S., Bajcsy, P., Bischof, J., Brown, C. M., … Nitschke, R. (2021). QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy. Journal of Microscopy. Wiley. https://doi.org/10.1111/jmi.13041","ama":"Nelson G, Boehm U, Bagley S, et al. QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy. Journal of Microscopy. 2021;284(1):56-73. doi:10.1111/jmi.13041","short":"G. Nelson, U. Boehm, S. Bagley, P. Bajcsy, J. Bischof, C.M. Brown, A. Dauphin, I.M. Dobbie, J.E. Eriksson, O. Faklaris, J. Fernandez-Rodriguez, A. Ferrand, L. Gelman, A. Gheisari, H. Hartmann, C. Kukat, A. Laude, M. Mitkovski, S. Munck, A.J. North, T.M. Rasse, U. Resch-Genger, L.C. Schuetz, A. Seitz, C. Strambio-De-Castillia, J.R. Swedlow, I. Alexopoulos, K. Aumayr, S. Avilov, G.J. Bakker, R.R. Bammann, A. Bassi, H. Beckert, S. Beer, Y. Belyaev, J. Bierwagen, K.A. Birngruber, M. Bosch, J. Breitlow, L.A. Cameron, J. Chalfoun, J.J. Chambers, C.L. Chen, E. Conde-Sousa, A.D. Corbett, F.P. Cordelieres, E.D. Nery, R. Dietzel, F. Eismann, E. Fazeli, A. Felscher, H. Fried, N. Gaudreault, W.I. Goh, T. Guilbert, R. Hadleigh, P. Hemmerich, G.A. Holst, M.S. Itano, C.B. Jaffe, H.K. Jambor, S.C. Jarvis, A. Keppler, D. Kirchenbuechler, M. Kirchner, N. Kobayashi, G. Krens, S. Kunis, J. Lacoste, M. Marcello, G.G. Martins, D.J. Metcalf, C.A. Mitchell, J. Moore, T. Mueller, M.S. Nelson, S. Ogg, S. Onami, A.L. Palmer, P. Paul-Gilloteaux, J.A. Pimentel, L. Plantard, S. Podder, E. Rexhepaj, A. Royon, M.A. Saari, D. Schapman, V. Schoonderwoert, B. Schroth-Diez, S. Schwartz, M. Shaw, M. Spitaler, M.T. Stoeckl, D. Sudar, J. Teillon, S. Terjung, R. Thuenauer, C.D. Wilms, G.D. Wright, R. Nitschke, Journal of Microscopy 284 (2021) 56–73.","chicago":"Nelson, Glyn, Ulrike Boehm, Steve Bagley, Peter Bajcsy, Johanna Bischof, Claire M. Brown, Aurélien Dauphin, et al. “QUAREP-LiMi: A Community-Driven Initiative to Establish Guidelines for Quality Assessment and Reproducibility for Instruments and Images in Light Microscopy.” Journal of Microscopy. Wiley, 2021. https://doi.org/10.1111/jmi.13041.","ieee":"G. Nelson et al., “QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy,” Journal of Microscopy, vol. 284, no. 1. Wiley, pp. 56–73, 2021.","mla":"Nelson, Glyn, et al. “QUAREP-LiMi: A Community-Driven Initiative to Establish Guidelines for Quality Assessment and Reproducibility for Instruments and Images in Light Microscopy.” Journal of Microscopy, vol. 284, no. 1, Wiley, 2021, pp. 56–73, doi:10.1111/jmi.13041.","ista":"Nelson G et al. 2021. QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy. Journal of Microscopy. 284(1), 56–73."},"acknowledgement":"We thank https://www.somersault1824.com/somersault18:24 BV (Leuven, Belgium) for help with Figure 1. E. C.-S. was supported by the project PPBI-POCI-01-0145-FEDER-022122, in the scope of Fundação para a Ciência e Tecnologia, Portugal (FCT) National Roadmap of Research Infrastructures. R.N. was funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) Grant number Ni 451/9-1 - MIAP-Freiburg."},{"acknowledgement":"The authors are very grateful to Yan Fyodorov for discussions on the physical background and for providing references, and to the anonymous referee for numerous valuable remarks.","citation":{"ista":"Erdös L, Krüger TH, Nemish Y. 2021. Scattering in quantum dots via noncommutative rational functions. Annales Henri Poincaré . 22, 4205–4269.","ieee":"L. Erdös, T. H. Krüger, and Y. Nemish, “Scattering in quantum dots via noncommutative rational functions,” Annales Henri Poincaré , vol. 22. Springer Nature, pp. 4205–4269, 2021.","mla":"Erdös, László, et al. “Scattering in Quantum Dots via Noncommutative Rational Functions.” Annales Henri Poincaré , vol. 22, Springer Nature, 2021, pp. 4205–4269, doi:10.1007/s00023-021-01085-6.","short":"L. Erdös, T.H. Krüger, Y. Nemish, Annales Henri Poincaré 22 (2021) 4205–4269.","chicago":"Erdös, László, Torben H Krüger, and Yuriy Nemish. “Scattering in Quantum Dots via Noncommutative Rational Functions.” Annales Henri Poincaré . Springer Nature, 2021. https://doi.org/10.1007/s00023-021-01085-6.","apa":"Erdös, L., Krüger, T. H., & Nemish, Y. (2021). Scattering in quantum dots via noncommutative rational functions. Annales Henri Poincaré . Springer Nature. https://doi.org/10.1007/s00023-021-01085-6","ama":"Erdös L, Krüger TH, Nemish Y. Scattering in quantum dots via noncommutative rational functions. Annales Henri Poincaré . 2021;22:4205–4269. doi:10.1007/s00023-021-01085-6"},"scopus_import":"1","project":[{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","grant_number":"338804","call_identifier":"FP7"}],"external_id":{"isi":["000681531500001"],"arxiv":["1911.05112"]},"department":[{"_id":"LaEr"}],"abstract":[{"lang":"eng","text":"In the customary random matrix model for transport in quantum dots with M internal degrees of freedom coupled to a chaotic environment via 𝑁≪𝑀 channels, the density 𝜌 of transmission eigenvalues is computed from a specific invariant ensemble for which explicit formula for the joint probability density of all eigenvalues is available. We revisit this problem in the large N regime allowing for (i) arbitrary ratio 𝜙:=𝑁/𝑀≤1; and (ii) general distributions for the matrix elements of the Hamiltonian of the quantum dot. In the limit 𝜙→0, we recover the formula for the density 𝜌 that Beenakker (Rev Mod Phys 69:731–808, 1997) has derived for a special matrix ensemble. We also prove that the inverse square root singularity of the density at zero and full transmission in Beenakker’s formula persists for any 𝜙<1 but in the borderline case 𝜙=1 an anomalous 𝜆−2/3 singularity arises at zero. To access this level of generality, we develop the theory of global and local laws on the spectral density of a large class of noncommutative rational expressions in large random matrices with i.i.d. entries."}],"has_accepted_license":"1","intvolume":" 22","oa_version":"Published Version","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"publisher":"Springer Nature","article_type":"original","file":[{"file_id":"11365","file_name":"2021_AnnHenriPoincare_Erdoes.pdf","relation":"main_file","access_level":"open_access","date_created":"2022-05-12T12:50:27Z","date_updated":"2022-05-12T12:50:27Z","file_size":1162454,"content_type":"application/pdf","checksum":"8d6bac0e2b0a28539608b0538a8e3b38","creator":"dernst","success":1}],"author":[{"first_name":"László","full_name":"Erdös, László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603","last_name":"Erdös"},{"id":"3020C786-F248-11E8-B48F-1D18A9856A87","last_name":"Krüger","orcid":"0000-0002-4821-3297","full_name":"Krüger, Torben H","first_name":"Torben H"},{"full_name":"Nemish, Yuriy","first_name":"Yuriy","id":"4D902E6A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7327-856X","last_name":"Nemish"}],"ec_funded":1,"publication_identifier":{"eissn":["1424-0661"],"issn":["1424-0637"]},"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["510"],"article_processing_charge":"Yes (in subscription journal)","publication_status":"published","isi":1,"page":"4205–4269","date_published":"2021-12-01T00:00:00Z","date_created":"2021-08-15T22:01:29Z","date_updated":"2023-08-11T10:31:48Z","arxiv":1,"quality_controlled":"1","language":[{"iso":"eng"}],"doi":"10.1007/s00023-021-01085-6","file_date_updated":"2022-05-12T12:50:27Z","title":"Scattering in quantum dots via noncommutative rational functions","publication":"Annales Henri Poincaré ","_id":"9912","year":"2021","status":"public","volume":22,"day":"01","month":"12"},{"article_processing_charge":"Yes","isi":1,"publication_status":"published","article_number":"e51813","publication_identifier":{"eissn":["1469-3178"],"issn":["1469-221X"]},"ddc":["580"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"quality_controlled":"1","language":[{"iso":"eng"}],"date_published":"2021-09-06T00:00:00Z","date_created":"2021-08-15T22:01:30Z","date_updated":"2024-03-25T23:30:22Z","title":"Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture","file_date_updated":"2021-10-05T13:36:42Z","_id":"9913","year":"2021","publication":"EMBO Reports","pmid":1,"doi":"10.15252/embr.202051813","month":"09","status":"public","volume":22,"day":"06","scopus_import":"1","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10303"}]},"acknowledgement":"This work was supported by ANID—Millennium Science Initiative Program—ICN17_022, Fondo de Desarrollo de Areas Prioritarias (FONDAP) Center for Genome Regulation (15090007), ANID—Fondo Nacional de Desarrollo Científico y Tecnológico (FONDECYT) 1180759 (to RAG) and 1171631 (to AV). We would like to thank Unidad de Microscopía Avanzada UC (UMA UC).","citation":{"ama":"Vega A, Fredes I, O’Brien J, et al. Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture. EMBO Reports. 2021;22(9). doi:10.15252/embr.202051813","apa":"Vega, A., Fredes, I., O’Brien, J., Shen, Z., Ötvös, K., Abualia, R., … Gutiérrez, R. A. (2021). Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture. EMBO Reports. Wiley. https://doi.org/10.15252/embr.202051813","short":"A. Vega, I. Fredes, J. O’Brien, Z. Shen, K. Ötvös, R. Abualia, E. Benková, S.P. Briggs, R.A. Gutiérrez, EMBO Reports 22 (2021).","chicago":"Vega, Andrea, Isabel Fredes, José O’Brien, Zhouxin Shen, Krisztina Ötvös, Rashed Abualia, Eva Benková, Steven P. Briggs, and Rodrigo A. Gutiérrez. “Nitrate Triggered Phosphoproteome Changes and a PIN2 Phosphosite Modulating Root System Architecture.” EMBO Reports. Wiley, 2021. https://doi.org/10.15252/embr.202051813.","mla":"Vega, Andrea, et al. “Nitrate Triggered Phosphoproteome Changes and a PIN2 Phosphosite Modulating Root System Architecture.” EMBO Reports, vol. 22, no. 9, e51813, Wiley, 2021, doi:10.15252/embr.202051813.","ieee":"A. Vega et al., “Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture,” EMBO Reports, vol. 22, no. 9. Wiley, 2021.","ista":"Vega A, Fredes I, O’Brien J, Shen Z, Ötvös K, Abualia R, Benková E, Briggs SP, Gutiérrez RA. 2021. Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture. EMBO Reports. 22(9), e51813."},"intvolume":" 22","abstract":[{"text":"Nitrate commands genome-wide gene expression changes that impact metabolism, physiology, plant growth, and development. In an effort to identify new components involved in nitrate responses in plants, we analyze the Arabidopsis thaliana root phosphoproteome in response to nitrate treatments via liquid chromatography coupled to tandem mass spectrometry. 176 phosphoproteins show significant changes at 5 or 20 min after nitrate treatments. Proteins identified by 5 min include signaling components such as kinases or transcription factors. In contrast, by 20 min, proteins identified were associated with transporter activity or hormone metabolism functions, among others. The phosphorylation profile of NITRATE TRANSPORTER 1.1 (NRT1.1) mutant plants was significantly altered as compared to wild-type plants, confirming its key role in nitrate signaling pathways that involves phosphorylation changes. Integrative bioinformatics analysis highlights auxin transport as an important mechanism modulated by nitrate signaling at the post-translational level. We validated a new phosphorylation site in PIN2 and provide evidence that it functions in primary and lateral root growth responses to nitrate.","lang":"eng"}],"has_accepted_license":"1","department":[{"_id":"EvBe"},{"_id":"GradSch"}],"external_id":{"pmid":["34357701 "],"isi":["000681754200001"]},"issue":"9","oa":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","publisher":"Wiley","oa_version":"Published Version","author":[{"first_name":"Andrea","full_name":"Vega, Andrea","last_name":"Vega"},{"first_name":"Isabel","full_name":"Fredes, Isabel","last_name":"Fredes"},{"last_name":"O’Brien","first_name":"José","full_name":"O’Brien, José"},{"full_name":"Shen, Zhouxin","first_name":"Zhouxin","last_name":"Shen"},{"last_name":"Ötvös","id":"29B901B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5503-4983","full_name":"Ötvös, Krisztina","first_name":"Krisztina"},{"full_name":"Abualia, Rashed","first_name":"Rashed","orcid":"0000-0002-9357-9415","last_name":"Abualia","id":"4827E134-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Benková, Eva","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739","last_name":"Benková"},{"last_name":"Briggs","first_name":"Steven P.","full_name":"Briggs, Steven P."},{"full_name":"Gutiérrez, Rodrigo A.","first_name":"Rodrigo A.","last_name":"Gutiérrez"}],"file":[{"content_type":"application/pdf","checksum":"750de03dc3b715c37090126c1548ba13","access_level":"open_access","date_created":"2021-10-05T13:36:42Z","relation":"main_file","date_updated":"2021-10-05T13:36:42Z","file_size":3144854,"creator":"cchlebak","success":1,"file_id":"10090","file_name":"2021_EmboR_Vega.pdf"}],"article_type":"original"},{"related_material":{"record":[{"relation":"part_of_dissertation","id":"9928","status":"public"},{"relation":"part_of_dissertation","status":"public","id":"8755"}]},"citation":{"ista":"Peruzzo M. 2021. Geometric superinductors and their applications in circuit quantum electrodynamics. Institute of Science and Technology Austria.","mla":"Peruzzo, Matilda. Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:9920.","ieee":"M. Peruzzo, “Geometric superinductors and their applications in circuit quantum electrodynamics,” Institute of Science and Technology Austria, 2021.","chicago":"Peruzzo, Matilda. “Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9920.","short":"M. Peruzzo, Geometric Superinductors and Their Applications in Circuit Quantum Electrodynamics, Institute of Science and Technology Austria, 2021.","apa":"Peruzzo, M. (2021). Geometric superinductors and their applications in circuit quantum electrodynamics. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9920","ama":"Peruzzo M. Geometric superinductors and their applications in circuit quantum electrodynamics. 2021. doi:10.15479/at:ista:9920"},"acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"has_accepted_license":"1","abstract":[{"text":"This work is concerned with two fascinating circuit quantum electrodynamics components, the Josephson junction and the geometric superinductor, and the interesting experiments that can be done by combining the two. The Josephson junction has revolutionized the field of superconducting circuits as a non-linear dissipation-less circuit element and is used in almost all superconducting qubit implementations since the 90s. On the other hand, the superinductor is a relatively new circuit element introduced as a key component of the fluxonium qubit in 2009. This is an inductor with characteristic impedance larger than the resistance quantum and self-resonance frequency in the GHz regime. The combination of these two elements can occur in two fundamental ways: in parallel and in series. When connected in parallel the two create the fluxonium qubit, a loop with large inductance and a rich energy spectrum reliant on quantum tunneling. On the other hand placing the two elements in series aids with the measurement of the IV curve of a single Josephson junction in a high impedance environment. In this limit theory predicts that the junction will behave as its dual element: the phase-slip junction. While the Josephson junction acts as a non-linear inductor the phase-slip junction has the behavior of a non-linear capacitance and can be used to measure new Josephson junction phenomena, namely Coulomb blockade of Cooper pairs and phase-locked Bloch oscillations. The latter experiment allows for a direct link between frequency and current which is an elusive connection in quantum metrology. This work introduces the geometric superinductor, a superconducting circuit element where the high inductance is due to the geometry rather than the material properties of the superconductor, realized from a highly miniaturized superconducting planar coil. These structures will be described and characterized as resonators and qubit inductors and progress towards the measurement of phase-locked Bloch oscillations will be presented.","lang":"eng"}],"department":[{"_id":"GradSch"},{"_id":"JoFi"}],"keyword":["quantum computing","superinductor","quantum metrology"],"alternative_title":["ISTA Thesis"],"publisher":"Institute of Science and Technology Austria","oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","type":"dissertation","oa_version":"Published Version","author":[{"id":"3F920B30-F248-11E8-B48F-1D18A9856A87","last_name":"Peruzzo","orcid":"0000-0002-3415-4628","first_name":"Matilda","full_name":"Peruzzo, Matilda"}],"file":[{"file_id":"9924","file_name":"GeometricSuperinductorsForCQED.zip","checksum":"3cd1986efde5121d7581f6fcf9090da8","content_type":"application/x-zip-compressed","file_size":151387283,"access_level":"closed","relation":"source_file","date_updated":"2021-09-06T08:39:47Z","date_created":"2021-08-16T09:33:21Z","creator":"mperuzzo"},{"file_name":"GeometricSuperinductorsAndTheirApplicationsIncQED-1b.pdf","file_id":"9939","creator":"mperuzzo","access_level":"open_access","date_created":"2021-08-18T14:20:06Z","date_updated":"2021-09-06T08:39:47Z","relation":"main_file","file_size":17596344,"content_type":"application/pdf","checksum":"50928c621cdf0775d7a5906b9dc8602c"},{"file_id":"9940","description":"Extra copy of the thesis as PDF/A-2b","file_name":"GeometricSuperinductorsAndTheirApplicationsIncQED-2b.pdf","relation":"other","access_level":"closed","date_updated":"2021-09-06T08:39:47Z","date_created":"2021-08-18T14:20:09Z","file_size":17592425,"checksum":"37f486aa1b622fe44af00d627ec13f6c","content_type":"application/pdf","creator":"mperuzzo"}],"publication_status":"published","article_processing_charge":"No","ddc":["539"],"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-013-8"]},"language":[{"iso":"eng"}],"date_updated":"2024-09-10T12:23:56Z","date_created":"2021-08-16T09:44:09Z","supervisor":[{"first_name":"Johannes M","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink"}],"date_published":"2021-08-19T00:00:00Z","page":"149","year":"2021","_id":"9920","title":"Geometric superinductors and their applications in circuit quantum electrodynamics","degree_awarded":"PhD","file_date_updated":"2021-09-06T08:39:47Z","doi":"10.15479/at:ista:9920","month":"08","day":"19","status":"public"},{"author":[{"full_name":"Peruzzo, Matilda","first_name":"Matilda","last_name":"Peruzzo","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3415-4628"},{"full_name":"Hassani, Farid","first_name":"Farid","last_name":"Hassani","orcid":"0000-0001-6937-5773","id":"2AED110C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Gregory","full_name":"Szep, Gregory","last_name":"Szep"},{"full_name":"Trioni, Andrea","first_name":"Andrea","last_name":"Trioni","id":"42F71B44-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Elena","full_name":"Redchenko, Elena","last_name":"Redchenko","id":"2C21D6E8-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Martin","full_name":"Zemlicka, Martin","last_name":"Zemlicka","id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Fink, Johannes M","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X","last_name":"Fink"}],"ec_funded":1,"file":[{"creator":"cchlebak","success":1,"file_size":4247422,"date_created":"2022-01-18T11:29:33Z","access_level":"open_access","relation":"main_file","date_updated":"2022-01-18T11:29:33Z","content_type":"application/pdf","checksum":"36eb41ea43d8ca22b0efab12419e4eb2","file_name":"2021_PRXQuantum_Peruzzo.pdf","file_id":"10641"}],"article_type":"original","oa":1,"issue":"4","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"American Physical Society","oa_version":"Published Version","intvolume":" 2","has_accepted_license":"1","abstract":[{"text":"There are two elementary superconducting qubit types that derive directly from the quantum harmonic oscillator. In one, the inductor is replaced by a nonlinear Josephson junction to realize the widely used charge qubits with a compact phase variable and a discrete charge wave function. In the other, the junction is added in parallel, which gives rise to an extended phase variable, continuous wave functions, and a rich energy-level structure due to the loop topology. While the corresponding rf superconducting quantum interference device Hamiltonian was introduced as a quadratic quasi-one-dimensional potential approximation to describe the fluxonium qubit implemented with long Josephson-junction arrays, in this work we implement it directly using a linear superinductor formed by a single uninterrupted aluminum wire. We present a large variety of qubits, all stemming from the same circuit but with drastically different characteristic energy scales. This includes flux and fluxonium qubits but also the recently introduced quasicharge qubit with strongly enhanced zero-point phase fluctuations and a heavily suppressed flux dispersion. The use of a geometric inductor results in high reproducibility of the inductive energy as guaranteed by top-down lithography—a key ingredient for intrinsically protected superconducting qubits.","lang":"eng"}],"acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"keyword":["quantum physics","mesoscale and nanoscale physics"],"department":[{"_id":"JoFi"},{"_id":"NanoFab"},{"_id":"M-Shop"}],"external_id":{"arxiv":["2106.05882"],"isi":["000723015100001"]},"related_material":{"record":[{"id":"13057","status":"public","relation":"research_data"},{"relation":"dissertation_contains","status":"public","id":"9920"}]},"scopus_import":"1","citation":{"short":"M. Peruzzo, F. Hassani, G. Szep, A. Trioni, E. Redchenko, M. Zemlicka, J.M. Fink, PRX Quantum 2 (2021) 040341.","chicago":"Peruzzo, Matilda, Farid Hassani, Gregory Szep, Andrea Trioni, Elena Redchenko, Martin Zemlicka, and Johannes M Fink. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” PRX Quantum. American Physical Society, 2021. https://doi.org/10.1103/PRXQuantum.2.040341.","ama":"Peruzzo M, Hassani F, Szep G, et al. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. 2021;2(4):040341. doi:10.1103/PRXQuantum.2.040341","apa":"Peruzzo, M., Hassani, F., Szep, G., Trioni, A., Redchenko, E., Zemlicka, M., & Fink, J. M. (2021). Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. American Physical Society. https://doi.org/10.1103/PRXQuantum.2.040341","ista":"Peruzzo M, Hassani F, Szep G, Trioni A, Redchenko E, Zemlicka M, Fink JM. 2021. Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction. PRX Quantum. 2(4), 040341.","mla":"Peruzzo, Matilda, et al. “Geometric Superinductance Qubits: Controlling Phase Delocalization across a Single Josephson Junction.” PRX Quantum, vol. 2, no. 4, American Physical Society, 2021, p. 040341, doi:10.1103/PRXQuantum.2.040341.","ieee":"M. Peruzzo et al., “Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction,” PRX Quantum, vol. 2, no. 4. American Physical Society, p. 040341, 2021."},"acknowledgement":"We thank W. Hughes for analytic and numerical modeling during the early stages of this work, J. Koch for discussions and support with the scqubits package, R. Sett, P. Zielinski, and L. Drmic for software development, and G. Katsaros for equipment support, as well as the MIBA workshop and the Institute of Science and Technology Austria nanofabrication facility. We thank I. Pop, S. Deleglise, and E. Flurin for discussions. This work was supported by a NOMIS Foundation research grant, the Austrian Science Fund (FWF) through BeyondC (F7105), and IST Austria. M.P. is the recipient of a Pöttinger scholarship at IST Austria. E.R. is the recipient of a DOC fellowship of the Austrian Academy of Sciences at IST Austria.","project":[{"_id":"26927A52-B435-11E9-9278-68D0E5697425","name":"Integrating superconducting quantum circuits","grant_number":"F07105","call_identifier":"FWF"},{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020"},{"_id":"2622978C-B435-11E9-9278-68D0E5697425","name":"Hybrid Semiconductor - Superconductor Quantum Devices"}],"month":"11","status":"public","day":"24","volume":2,"title":"Geometric superinductance qubits: Controlling phase delocalization across a single Josephson junction","file_date_updated":"2022-01-18T11:29:33Z","_id":"9928","year":"2021","publication":"PRX Quantum","doi":"10.1103/PRXQuantum.2.040341","quality_controlled":"1","arxiv":1,"language":[{"iso":"eng"}],"date_published":"2021-11-24T00:00:00Z","page":"040341","date_updated":"2023-09-07T13:31:22Z","date_created":"2021-08-17T08:14:18Z","article_processing_charge":"No","isi":1,"publication_status":"published","publication_identifier":{"eissn":["2691-3399"]},"ddc":["530"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"publication_identifier":{"isbn":["9781450385480"]},"article_processing_charge":"No","publication_status":"published","isi":1,"page":"481–491","date_published":"2021-07-21T00:00:00Z","date_created":"2021-08-17T18:11:16Z","date_updated":"2023-08-17T07:11:32Z","arxiv":1,"quality_controlled":"1","language":[{"iso":"eng"}],"doi":"10.1145/3465084.3467903","conference":{"name":"PODC: Principles of Distributed Computing","start_date":"2021-07-26","end_date":"2021-07-30","location":"Virtual, Italy"},"title":"Component stability in low-space massively parallel computation","publication":"Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing","year":"2021","_id":"9933","status":"public","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2106.01880"}],"day":"21","month":"07","acknowledgement":"This work is partially supported by a Weizmann-UK Making Connections Grant, the Centre for Discrete Mathematics and its Applications (DIMAP), IBM Faculty Award, EPSRC award EP/V01305X/1, European Research Council (ERC) Grant No. 949083, the Minerva foundation with funding from the Federal German Ministry for Education and Research No. 713238, and the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No 754411.","citation":{"ama":"Czumaj A, Davies P, Parter M. Component stability in low-space massively parallel computation. In: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. Association for Computing Machinery; 2021:481–491. doi:10.1145/3465084.3467903","apa":"Czumaj, A., Davies, P., & Parter, M. (2021). Component stability in low-space massively parallel computation. In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing (pp. 481–491). Virtual, Italy: Association for Computing Machinery. https://doi.org/10.1145/3465084.3467903","chicago":"Czumaj, Artur, Peter Davies, and Merav Parter. “Component Stability in Low-Space Massively Parallel Computation.” In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, 481–491. Association for Computing Machinery, 2021. https://doi.org/10.1145/3465084.3467903.","short":"A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 481–491.","mla":"Czumaj, Artur, et al. “Component Stability in Low-Space Massively Parallel Computation.” Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 481–491, doi:10.1145/3465084.3467903.","ieee":"A. Czumaj, P. Davies, and M. Parter, “Component stability in low-space massively parallel computation,” in Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Virtual, Italy, 2021, pp. 481–491.","ista":"Czumaj A, Davies P, Parter M. 2021. Component stability in low-space massively parallel computation. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Principles of Distributed Computing, 481–491."},"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411"}],"external_id":{"arxiv":["2106.01880"],"isi":["000744439800049"]},"department":[{"_id":"DaAl"}],"abstract":[{"text":"In this paper, we study the power and limitations of component-stable algorithms in the low-space model of Massively Parallel Computation (MPC). Recently Ghaffari, Kuhn and Uitto (FOCS 2019) introduced the class of component-stable low-space MPC algorithms, which are, informally, defined as algorithms for which the outputs reported by the nodes in different connected components are required to be independent. This very natural notion was introduced to capture most (if not all) of the known efficient MPC algorithms to date, and it was the first general class of MPC algorithms for which one can show non-trivial conditional lower bounds. In this paper we enhance the framework of component-stable algorithms and investigate its effect on the complexity of randomized and deterministic low-space MPC. Our key contributions include: 1) We revise and formalize the lifting approach of Ghaffari, Kuhn and Uitto. This requires a very delicate amendment of the notion of component stability, which allows us to fill in gaps in the earlier arguments. 2) We also extend the framework to obtain conditional lower bounds for deterministic algorithms and fine-grained lower bounds that depend on the maximum degree Δ. 3) We demonstrate a collection of natural graph problems for which non-component-stable algorithms break the conditional lower bound obtained for component-stable algorithms. This implies that, for both deterministic and randomized algorithms, component-stable algorithms are conditionally weaker than the non-component-stable ones.\r\n\r\nAltogether our results imply that component-stability might limit the computational power of the low-space MPC model, paving the way for improved upper bounds that escape the conditional lower bound setting of Ghaffari, Kuhn, and Uitto.","lang":"eng"}],"oa_version":"Submitted Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"conference","oa":1,"publisher":"Association for Computing Machinery","author":[{"last_name":"Czumaj","first_name":"Artur","full_name":"Czumaj, Artur"},{"first_name":"Peter","full_name":"Davies, Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425","orcid":"0000-0002-5646-9524","last_name":"Davies"},{"last_name":"Parter","first_name":"Merav","full_name":"Parter, Merav"}],"ec_funded":1},{"publication_status":"published","isi":1,"article_processing_charge":"No","publication_identifier":{"isbn":["978-1-4503-8548-0"]},"language":[{"iso":"eng"}],"quality_controlled":"1","date_created":"2021-08-17T18:14:15Z","date_updated":"2023-08-17T07:11:03Z","page":"469–479","date_published":"2021-07-21T00:00:00Z","publication":"Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing","_id":"9935","year":"2021","title":"Improved deterministic (Δ+1) coloring in low-space MPC","conference":{"name":"PODC: Symposium on Principles of Distributed Computing","end_date":"2021-07-30","start_date":"2021-07-26","location":"Virtual, Italy"},"doi":"10.1145/3465084.3467937","month":"07","day":"21","status":"public","main_file_link":[{"open_access":"1","url":"http://wrap.warwick.ac.uk/153753"}],"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","call_identifier":"H2020"}],"acknowledgement":"This work is partially supported by a Weizmann-UK Making Connections Grant, the Centre for Discrete Mathematics and its Applications (DIMAP), IBM Faculty Award, EPSRC award EP/V01305X/1, European Research Council (ERC) Grant No. 949083, the Minerva foundation with funding from the Federal German Ministry for Education and Research No. 713238, and the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie grant agreement No 754411.","citation":{"ieee":"A. Czumaj, P. Davies, and M. Parter, “Improved deterministic (Δ+1) coloring in low-space MPC,” in Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Virtual, Italy, 2021, pp. 469–479.","mla":"Czumaj, Artur, et al. “Improved Deterministic (Δ+1) Coloring in Low-Space MPC.” Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 469–479, doi:10.1145/3465084.3467937.","ista":"Czumaj A, Davies P, Parter M. 2021. Improved deterministic (Δ+1) coloring in low-space MPC. Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. PODC: Symposium on Principles of Distributed Computing, 469–479.","apa":"Czumaj, A., Davies, P., & Parter, M. (2021). Improved deterministic (Δ+1) coloring in low-space MPC. In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing (pp. 469–479). Virtual, Italy: Association for Computing Machinery. https://doi.org/10.1145/3465084.3467937","ama":"Czumaj A, Davies P, Parter M. Improved deterministic (Δ+1) coloring in low-space MPC. In: Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing. Association for Computing Machinery; 2021:469–479. doi:10.1145/3465084.3467937","short":"A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2021, pp. 469–479.","chicago":"Czumaj, Artur, Peter Davies, and Merav Parter. “Improved Deterministic (Δ+1) Coloring in Low-Space MPC.” In Proceedings of the 2021 ACM Symposium on Principles of Distributed Computing, 469–479. Association for Computing Machinery, 2021. https://doi.org/10.1145/3465084.3467937."},"abstract":[{"lang":"eng","text":"We present a deterministic O(log log log n)-round low-space Massively Parallel Computation (MPC) algorithm for the classical problem of (Δ+1)-coloring on n-vertex graphs. In this model, every machine has sublinear local space of size n^φ for any arbitrary constant φ \\in (0,1). Our algorithm works under the relaxed setting where each machine is allowed to perform exponential local computations, while respecting the n^φ space and bandwidth limitations.\r\n\r\nOur key technical contribution is a novel derandomization of the ingenious (Δ+1)-coloring local algorithm by Chang-Li-Pettie (STOC 2018, SIAM J. Comput. 2020). The Chang-Li-Pettie algorithm runs in T_local =poly(loglog n) rounds, which sets the state-of-the-art randomized round complexity for the problem in the local model. Our derandomization employs a combination of tools, notably pseudorandom generators (PRG) and bounded-independence hash functions.\r\n\r\nThe achieved round complexity of O(logloglog n) rounds matches the bound of log(T_local ), which currently serves an upper bound barrier for all known randomized algorithms for locally-checkable problems in this model. Furthermore, no deterministic sublogarithmic low-space MPC algorithms for the (Δ+1)-coloring problem have been known before."}],"external_id":{"isi":["000744439800048"]},"department":[{"_id":"DaAl"}],"publisher":"Association for Computing Machinery","type":"conference","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"oa_version":"Submitted Version","ec_funded":1,"author":[{"last_name":"Czumaj","first_name":"Artur","full_name":"Czumaj, Artur"},{"full_name":"Davies, Peter","first_name":"Peter","id":"11396234-BB50-11E9-B24C-90FCE5697425","last_name":"Davies","orcid":"0000-0002-5646-9524"},{"last_name":"Parter","full_name":"Parter, Merav","first_name":"Merav"}]},{"date_updated":"2023-08-14T07:20:29Z","date_created":"2021-08-20T20:00:37Z","date_published":"2021-09-01T00:00:00Z","page":"17","language":[{"iso":"eng"}],"ddc":["005"],"publication_identifier":{"issn":["2664-1690"]},"publication_status":"published","article_processing_charge":"No","day":"01","status":"public","month":"09","doi":"10.15479/AT:ISTA:9946","year":"2021","_id":"9946","title":"Differential monitoring","file_date_updated":"2021-09-03T12:34:28Z","department":[{"_id":"ToHe"}],"keyword":["run-time verification","software engineering","implicit specification"],"has_accepted_license":"1","abstract":[{"lang":"eng","text":"We argue that the time is ripe to investigate differential monitoring, in which the specification of a program's behavior is implicitly given by a second program implementing the same informal specification. Similar ideas have been proposed before, and are currently implemented in restricted form for testing and specialized run-time analyses, aspects of which we combine. We discuss the challenges of implementing differential monitoring as a general-purpose, black-box run-time monitoring framework, and present promising results of a preliminary implementation, showing low monitoring overheads for diverse programs."}],"project":[{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211","call_identifier":"FWF","name":"The Wittgenstein Prize"}],"related_material":{"record":[{"status":"public","id":"9281","relation":"other"},{"relation":"shorter_version","id":"10108","status":"public"}]},"citation":{"apa":"Mühlböck, F., & Henzinger, T. A. (2021). Differential monitoring. IST Austria. https://doi.org/10.15479/AT:ISTA:9946","ama":"Mühlböck F, Henzinger TA. Differential Monitoring. IST Austria; 2021. doi:10.15479/AT:ISTA:9946","short":"F. Mühlböck, T.A. Henzinger, Differential Monitoring, IST Austria, 2021.","chicago":"Mühlböck, Fabian, and Thomas A Henzinger. Differential Monitoring. IST Austria, 2021. https://doi.org/10.15479/AT:ISTA:9946.","ieee":"F. Mühlböck and T. A. Henzinger, Differential monitoring. IST Austria, 2021.","mla":"Mühlböck, Fabian, and Thomas A. Henzinger. Differential Monitoring. IST Austria, 2021, doi:10.15479/AT:ISTA:9946.","ista":"Mühlböck F, Henzinger TA. 2021. Differential monitoring, IST Austria, 17p."},"acknowledgement":"The authors would like to thank Borzoo Bonakdarpour, Derek Dreyer, Adrian Francalanza, Owolabi Legunsen, Matthew Milano, Manuel Rigger, Cesar Sanchez, and the members of the IST Verification Seminar for their helpful comments and insights on various stages of this work, as well as the reviewers of RV’21 for their helpful suggestions on the actual paper.","file":[{"relation":"main_file","date_created":"2021-08-20T19:59:44Z","access_level":"open_access","date_updated":"2021-09-03T12:34:28Z","file_size":"320453","content_type":"application/pdf","checksum":"0f9aafd59444cb6bdca6925d163ab946","creator":"fmuehlbo","file_id":"9948","file_name":"differentialmonitoring-techreport.pdf"}],"author":[{"full_name":"Mühlböck, Fabian","first_name":"Fabian","orcid":"0000-0003-1548-0177","last_name":"Mühlböck","id":"6395C5F6-89DF-11E9-9C97-6BDFE5697425"},{"full_name":"Henzinger, Thomas A","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","orcid":"0000-0002-2985-7724"}],"oa_version":"Published Version","alternative_title":["IST Austria Technical Report"],"publisher":"IST Austria","oa":1,"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","type":"technical_report"},{"has_accepted_license":"1","date_created":"2021-08-21T13:44:22Z","date_updated":"2024-02-21T12:40:30Z","department":[{"_id":"BeVi"}],"date_published":"2021-08-24T00:00:00Z","related_material":{"record":[{"id":"10166","status":"public","relation":"used_in_publication"}]},"citation":{"mla":"Vicoso, Beatriz. Data from Hyulmans et Al 2021, “Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.” Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9949.","ieee":"B. Vicoso, “Data from Hyulmans et al 2021, ‘Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.’” Institute of Science and Technology Austria, 2021.","ista":"Vicoso B. 2021. Data from Hyulmans et al 2021, ‘Transitions to asexuality and evolution of gene expression in Artemia brine shrimp’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9949.","apa":"Vicoso, B. (2021). Data from Hyulmans et al 2021, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9949","ama":"Vicoso B. Data from Hyulmans et al 2021, “Transitions to asexuality and evolution of gene expression in Artemia brine shrimp.” 2021. doi:10.15479/AT:ISTA:9949","short":"B. Vicoso, (2021).","chicago":"Vicoso, Beatriz. “Data from Hyulmans et Al 2021, ‘Transitions to Asexuality and Evolution of Gene Expression in Artemia Brine Shrimp.’” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9949."},"article_processing_charge":"No","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"author":[{"last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","first_name":"Beatriz","full_name":"Vicoso, Beatriz"}],"month":"08","day":"24","file":[{"file_id":"9950","file_name":"Data.zip","date_created":"2021-08-21T13:43:59Z","access_level":"open_access","relation":"main_file","date_updated":"2021-08-21T13:43:59Z","file_size":139188306,"content_type":"application/zip","checksum":"90461837eed66beac6fa302993cf0ca9","success":1,"creator":"bvicoso"}],"status":"public","_id":"9949","year":"2021","publisher":"Institute of Science and Technology Austria","oa":1,"title":"Data from Hyulmans et al 2021, \"Transitions to asexuality and evolution of gene expression in Artemia brine shrimp\"","file_date_updated":"2021-08-21T13:43:59Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"research_data","oa_version":"None","doi":"10.15479/AT:ISTA:9949"},{"scopus_import":"1","citation":{"short":"A. Chaigne, M.B. Smith, R.L. Cavestany, E.B. Hannezo, K.J. Chalut, E.K. Paluch, Journal of Cell Science 134 (2021).","chicago":"Chaigne, Agathe, Matthew B. Smith, R. L. Cavestany, Edouard B Hannezo, Kevin J. Chalut, and Ewa K. Paluch. “Three-Dimensional Geometry Controls Division Symmetry in Stem Cell Colonies.” Journal of Cell Science. The Company of Biologists, 2021. https://doi.org/10.1242/jcs.255018.","ama":"Chaigne A, Smith MB, Cavestany RL, Hannezo EB, Chalut KJ, Paluch EK. Three-dimensional geometry controls division symmetry in stem cell colonies. Journal of Cell Science. 2021;134(14). doi:10.1242/jcs.255018","apa":"Chaigne, A., Smith, M. B., Cavestany, R. L., Hannezo, E. B., Chalut, K. J., & Paluch, E. K. (2021). Three-dimensional geometry controls division symmetry in stem cell colonies. Journal of Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.255018","ista":"Chaigne A, Smith MB, Cavestany RL, Hannezo EB, Chalut KJ, Paluch EK. 2021. Three-dimensional geometry controls division symmetry in stem cell colonies. Journal of Cell Science. 134(14), jcs255018.","mla":"Chaigne, Agathe, et al. “Three-Dimensional Geometry Controls Division Symmetry in Stem Cell Colonies.” Journal of Cell Science, vol. 134, no. 14, jcs255018, The Company of Biologists, 2021, doi:10.1242/jcs.255018.","ieee":"A. Chaigne, M. B. Smith, R. L. Cavestany, E. B. Hannezo, K. J. Chalut, and E. K. Paluch, “Three-dimensional geometry controls division symmetry in stem cell colonies,” Journal of Cell Science, vol. 134, no. 14. The Company of Biologists, 2021."},"acknowledgement":"We would like to thank the entire Paluch and Baum laboratories at the MRC-LMCB and the Chalut lab at the Cambridge SCI for discussions and feedback throughout the project, and the MRC-LMCB microscopy platform, in particular Andrew Vaughan, for technical support.","department":[{"_id":"EdHa"}],"external_id":{"isi":["000681395800008"]},"intvolume":" 134","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Proper control of division orientation and symmetry, largely determined by spindle positioning, is essential to development and homeostasis. Spindle positioning has been extensively studied in cells dividing in two-dimensional (2D) environments and in epithelial tissues, where proteins such as NuMA (also known as NUMA1) orient division along the interphase long axis of the cell. However, little is known about how cells control spindle positioning in three-dimensional (3D) environments, such as early mammalian embryos and a variety of adult tissues. Here, we use mouse embryonic stem cells (ESCs), which grow in 3D colonies, as a model to investigate division in 3D. We observe that, at the periphery of 3D colonies, ESCs display high spindle mobility and divide asymmetrically. Our data suggest that enhanced spindle movements are due to unequal distribution of the cell–cell junction protein E-cadherin between future daughter cells. Interestingly, when cells progress towards differentiation, division becomes more symmetric, with more elongated shapes in metaphase and enhanced cortical NuMA recruitment in anaphase. Altogether, this study suggests that in 3D contexts, the geometry of the cell and its contacts with neighbors control division orientation and symmetry."}],"oa_version":"Published Version","issue":"14","oa":1,"type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publisher":"The Company of Biologists","file":[{"content_type":"application/pdf","checksum":"f086f9d7cb63b2474c01921cb060c513","date_updated":"2021-08-23T07:32:20Z","date_created":"2021-08-23T07:32:20Z","access_level":"open_access","relation":"main_file","file_size":8651724,"creator":"asandaue","success":1,"file_id":"9954","file_name":"2021_JournalOfCellScience_Chaigne.pdf"}],"article_type":"original","author":[{"full_name":"Chaigne, Agathe","first_name":"Agathe","last_name":"Chaigne"},{"last_name":"Smith","first_name":"Matthew B.","full_name":"Smith, Matthew B."},{"last_name":"Cavestany","first_name":"R. L.","full_name":"Cavestany, R. L."},{"first_name":"Edouard B","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Chalut","first_name":"Kevin J.","full_name":"Chalut, Kevin J."},{"full_name":"Paluch, Ewa K.","first_name":"Ewa K.","last_name":"Paluch"}],"publication_identifier":{"eissn":["14779137"],"issn":["00219533"]},"ddc":["570"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes (in subscription journal)","isi":1,"article_number":"jcs255018","publication_status":"published","date_published":"2021-07-01T00:00:00Z","date_created":"2021-08-22T22:01:20Z","date_updated":"2023-08-11T10:55:36Z","quality_controlled":"1","language":[{"iso":"eng"}],"doi":"10.1242/jcs.255018","title":"Three-dimensional geometry controls division symmetry in stem cell colonies","file_date_updated":"2021-08-23T07:32:20Z","year":"2021","_id":"9952","publication":"Journal of Cell Science","status":"public","day":"01","volume":134,"month":"07"},{"oa_version":"Submitted Version","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publisher":"Elsevier","article_type":"original","author":[{"full_name":"Picard, Katherine","first_name":"Katherine","last_name":"Picard"},{"last_name":"Bisht","full_name":"Bisht, Kanchan","first_name":"Kanchan"},{"full_name":"Poggini, Silvia","first_name":"Silvia","last_name":"Poggini"},{"first_name":"Stefano","full_name":"Garofalo, Stefano","last_name":"Garofalo"},{"last_name":"Golia","full_name":"Golia, Maria Teresa","first_name":"Maria Teresa"},{"id":"36035796-5ACA-11E9-A75E-7AF2E5697425","last_name":"Basilico","orcid":"0000-0003-1843-3173","full_name":"Basilico, Bernadette","first_name":"Bernadette"},{"last_name":"Abdallah","full_name":"Abdallah, Fatima","first_name":"Fatima"},{"last_name":"Ciano Albanese","first_name":"Naomi","full_name":"Ciano Albanese, Naomi"},{"last_name":"Amrein","first_name":"Irmgard","full_name":"Amrein, Irmgard"},{"first_name":"Nathalie","full_name":"Vernoux, Nathalie","last_name":"Vernoux"},{"first_name":"Kaushik","full_name":"Sharma, Kaushik","last_name":"Sharma"},{"last_name":"Hui","first_name":"Chin Wai","full_name":"Hui, Chin Wai"},{"full_name":"C. Savage, Julie","first_name":"Julie","last_name":"C. Savage"},{"first_name":"Cristina","full_name":"Limatola, Cristina","last_name":"Limatola"},{"full_name":"Ragozzino, Davide","first_name":"Davide","last_name":"Ragozzino"},{"full_name":"Maggi, Laura","first_name":"Laura","last_name":"Maggi"},{"last_name":"Branchi","first_name":"Igor","full_name":"Branchi, Igor"},{"last_name":"Tremblay","full_name":"Tremblay, Marie Ève","first_name":"Marie Ève"}],"scopus_import":"1","citation":{"short":"K. Picard, K. Bisht, S. Poggini, S. Garofalo, M.T. Golia, B. Basilico, F. Abdallah, N. Ciano Albanese, I. Amrein, N. Vernoux, K. Sharma, C.W. Hui, J. C. Savage, C. Limatola, D. Ragozzino, L. Maggi, I. Branchi, M.È. Tremblay, Brain, Behavior, and Immunity 97 (2021) 423–439.","chicago":"Picard, Katherine, Kanchan Bisht, Silvia Poggini, Stefano Garofalo, Maria Teresa Golia, Bernadette Basilico, Fatima Abdallah, et al. “Microglial-Glucocorticoid Receptor Depletion Alters the Response of Hippocampal Microglia and Neurons in a Chronic Unpredictable Mild Stress Paradigm in Female Mice.” Brain, Behavior, and Immunity. Elsevier, 2021. https://doi.org/10.1016/j.bbi.2021.07.022.","apa":"Picard, K., Bisht, K., Poggini, S., Garofalo, S., Golia, M. T., Basilico, B., … Tremblay, M. È. (2021). Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. Elsevier. https://doi.org/10.1016/j.bbi.2021.07.022","ama":"Picard K, Bisht K, Poggini S, et al. Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. 2021;97:423-439. doi:10.1016/j.bbi.2021.07.022","ista":"Picard K, Bisht K, Poggini S, Garofalo S, Golia MT, Basilico B, Abdallah F, Ciano Albanese N, Amrein I, Vernoux N, Sharma K, Hui CW, C. Savage J, Limatola C, Ragozzino D, Maggi L, Branchi I, Tremblay MÈ. 2021. Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice. Brain, Behavior, and Immunity. 97, 423–439.","ieee":"K. Picard et al., “Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice,” Brain, Behavior, and Immunity, vol. 97. Elsevier, pp. 423–439, 2021.","mla":"Picard, Katherine, et al. “Microglial-Glucocorticoid Receptor Depletion Alters the Response of Hippocampal Microglia and Neurons in a Chronic Unpredictable Mild Stress Paradigm in Female Mice.” Brain, Behavior, and Immunity, vol. 97, Elsevier, 2021, pp. 423–39, doi:10.1016/j.bbi.2021.07.022."},"acknowledgement":"We acknowledge that Université Laval stands on the traditional and unceded land of the Huron-Wendat peoples; and that the University of Victoria exists on the territory of the Lekwungen peoples and that the Songhees, Esquimalt and WSÁNEÆ peoples have relationships to this land. We thank Emmanuel Planel for the access to the epifluorescence microscope and Julie-Christine Lévesque at the Bioimaging Platform of CRCHU de Québec-Université Laval for technical assistance. We also thank the Centre for Advanced Materials and Related Technology for the access to the confocal microscope with Airyscan. K.P. was supported by a doctoral scholarship from Fonds de Recherche du Québec – Santé (FRQS), an excellence award from Fondation du CHU de Québec, as well as from Centre Thématique de Recherche en Neurosciences and from Fondation Famille-Choquette. K.B. was supported by excellence scholarships from Université Laval and Fondation du CHU de Québec. S.G. is supported by FIRC-AIRC fellowship for Italy 22329/2018 and by Pilot ARISLA NKINALS 2019. C.W.H. and J.C.S. were supported by postdoctoral fellowships from FRQS. This study was funded by a Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery grant (RGPIN-2014-05308) awarded to M.E.T., by ERANET neuron 2017 MicroSynDep to M.E.T. and I.B., and by the Italian Ministry of Health, grant RF-2018-12367249 to I.B, by PRIN 2017, AIRC 2019 and Ministero della Salute RF2018 to C.L. M.E.T. is a Tier II Canada Research Chair in Neurobiology of Aging and Cognition.","department":[{"_id":"GaNo"}],"external_id":{"pmid":["34343616"],"isi":["000702878400007"]},"intvolume":" 97","abstract":[{"lang":"eng","text":"Chronic psychological stress is one of the most important triggers and environmental risk factors for neuropsychiatric disorders. Chronic stress can influence all organs via the secretion of stress hormones, including glucocorticoids by the adrenal glands, which coordinate the stress response across the body. In the brain, glucocorticoid receptors (GR) are expressed by various cell types including microglia, which are its resident immune cells regulating stress-induced inflammatory processes. To study the roles of microglial GR under normal homeostatic conditions and following chronic stress, we generated a mouse model in which the GR gene is depleted in microglia specifically at adulthood to prevent developmental confounds. We first confirmed that microglia were depleted in GR in our model in males and females among the cingulate cortex and the hippocampus, both stress-sensitive brain regions. Then, cohorts of microglial-GR depleted and wild-type (WT) adult female mice were housed for 3 weeks in a standard or stressful condition, using a chronic unpredictable mild stress (CUMS) paradigm. CUMS induced stress-related behavior in both microglial-GR depleted and WT animals as demonstrated by a decrease of both saccharine preference and progressive ratio breakpoint. Nevertheless, the hippocampal microglial and neural mechanisms underlying the adaptation to stress occurred differently between the two genotypes. Upon CUMS exposure, microglial morphology was altered in the WT controls, without any apparent effect in microglial-GR depleted mice. Furthermore, in the standard environment condition, GR depleted-microglia showed increased expression of pro-inflammatory genes, and genes involved in microglial homeostatic functions (such as Trem2, Cx3cr1 and Mertk). On the contrary, in CUMS condition, GR depleted-microglia showed reduced expression levels of pro-inflammatory genes and increased neuroprotective as well as anti-inflammatory genes compared to WT-microglia. Moreover, in microglial-GR depleted mice, but not in WT mice, CUMS led to a significant reduction of CA1 long-term potentiation and paired-pulse ratio. Lastly, differences in adult hippocampal neurogenesis were observed between the genotypes during normal homeostatic conditions, with microglial-GR deficiency increasing the formation of newborn neurons in the dentate gyrus subgranular zone independently from stress exposure. Together, these findings indicate that, although the deletion of microglial GR did not prevent the animal’s ability to respond to stress, it contributed to modulating hippocampal functions in both standard and stressful conditions, notably by shaping the microglial response to chronic stress."}],"pmid":1,"doi":"10.1016/j.bbi.2021.07.022","title":"Microglial-glucocorticoid receptor depletion alters the response of hippocampal microglia and neurons in a chronic unpredictable mild stress paradigm in female mice","_id":"9953","year":"2021","publication":"Brain, Behavior, and Immunity","main_file_link":[{"url":"https://www.zora.uzh.ch/id/eprint/208855/1/ZORA208855.pdf","open_access":"1"}],"status":"public","volume":97,"day":"01","month":"10","publication_identifier":{"issn":["0889-1591"]},"article_processing_charge":"No","isi":1,"publication_status":"published","date_published":"2021-10-01T00:00:00Z","page":"423-439","date_created":"2021-08-22T22:01:21Z","date_updated":"2023-10-03T09:49:18Z","quality_controlled":"1","language":[{"iso":"eng"}]},{"conference":{"end_date":"2021-06-25","name":"CVPR: Conference on Computer Vision and Pattern Recognition","start_date":"2021-06-20","location":"Nashville, TN, United States; Virtual"},"doi":"10.1109/CVPR46437.2021.00476","publication":"Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition","year":"2021","_id":"9957","file_date_updated":"2021-08-24T06:02:15Z","title":"Monocular reconstruction of neural face reflectance fields","day":"01","status":"public","month":"09","ddc":["000"],"publication_identifier":{"isbn":["978-166544509-2"],"issn":["1063-6919"]},"publication_status":"published","isi":1,"article_processing_charge":"No","date_updated":"2023-08-11T11:08:35Z","date_created":"2021-08-24T06:03:00Z","page":"4791-4800","date_published":"2021-09-01T00:00:00Z","language":[{"iso":"eng"}],"quality_controlled":"1","arxiv":1,"oa_version":"Preprint","publisher":"IEEE","type":"conference","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"file":[{"file_name":"R_Monocular_Reconstruction_of_Neural_Face_Reflectance_Fields_CVPR_2021_paper[1].pdf","file_id":"9958","creator":"bbickel","date_created":"2021-08-24T06:02:15Z","date_updated":"2021-08-24T06:02:15Z","relation":"main_file","access_level":"open_access","file_size":4746649,"checksum":"961db0bde76dd87cf833930080bb9f38","content_type":"application/pdf"}],"author":[{"full_name":"B R, Mallikarjun","first_name":"Mallikarjun","last_name":"B R"},{"first_name":"Ayush","full_name":"Tewari, Ayush","last_name":"Tewari"},{"last_name":"Oh","first_name":"Tae-Hyun","full_name":"Oh, Tae-Hyun"},{"full_name":"Weyrich, Tim","first_name":"Tim","last_name":"Weyrich"},{"id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","last_name":"Bickel","full_name":"Bickel, Bernd","first_name":"Bernd"},{"first_name":"Hans-Peter","full_name":"Seidel, Hans-Peter","last_name":"Seidel"},{"full_name":"Pfister, Hanspeter","first_name":"Hanspeter","last_name":"Pfister"},{"last_name":"Matusik","full_name":"Matusik, Wojciech","first_name":"Wojciech"},{"full_name":"Elgharib, Mohamed","first_name":"Mohamed","last_name":"Elgharib"},{"last_name":"Theobalt","first_name":"Christian","full_name":"Theobalt, Christian"}],"citation":{"ama":"B R M, Tewari A, Oh T-H, et al. Monocular reconstruction of neural face reflectance fields. In: Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition. IEEE; 2021:4791-4800. doi:10.1109/CVPR46437.2021.00476","apa":"B R, M., Tewari, A., Oh, T.-H., Weyrich, T., Bickel, B., Seidel, H.-P., … Theobalt, C. (2021). Monocular reconstruction of neural face reflectance fields. In Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition (pp. 4791–4800). Nashville, TN, United States; Virtual: IEEE. https://doi.org/10.1109/CVPR46437.2021.00476","chicago":"B R, Mallikarjun, Ayush Tewari, Tae-Hyun Oh, Tim Weyrich, Bernd Bickel, Hans-Peter Seidel, Hanspeter Pfister, Wojciech Matusik, Mohamed Elgharib, and Christian Theobalt. “Monocular Reconstruction of Neural Face Reflectance Fields.” In Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, 4791–4800. IEEE, 2021. https://doi.org/10.1109/CVPR46437.2021.00476.","short":"M. B R, A. Tewari, T.-H. Oh, T. Weyrich, B. Bickel, H.-P. Seidel, H. Pfister, W. Matusik, M. Elgharib, C. Theobalt, in:, Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, IEEE, 2021, pp. 4791–4800.","ieee":"M. B R et al., “Monocular reconstruction of neural face reflectance fields,” in Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, Nashville, TN, United States; Virtual, 2021, pp. 4791–4800.","mla":"B R, Mallikarjun, et al. “Monocular Reconstruction of Neural Face Reflectance Fields.” Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, IEEE, 2021, pp. 4791–800, doi:10.1109/CVPR46437.2021.00476.","ista":"B R M, Tewari A, Oh T-H, Weyrich T, Bickel B, Seidel H-P, Pfister H, Matusik W, Elgharib M, Theobalt C. 2021. Monocular reconstruction of neural face reflectance fields. Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition. CVPR: Conference on Computer Vision and Pattern Recognition, 4791–4800."},"acknowledgement":"We thank Tarun Yenamandra and Duarte David for helping us with the comparisons. This work was supported by the\r\nERC Consolidator Grant 4DReply (770784). We also acknowledge support from InterDigital.","scopus_import":"1","external_id":{"isi":["000739917304096"],"arxiv":["2008.10247"]},"department":[{"_id":"BeBi"}],"has_accepted_license":"1","abstract":[{"lang":"eng","text":"The reflectance field of a face describes the reflectance properties responsible for complex lighting effects including diffuse, specular, inter-reflection and self shadowing. Most existing methods for estimating the face reflectance from a monocular image assume faces to be diffuse with very few approaches adding a specular component. This still leaves out important perceptual aspects of reflectance as higher-order global illumination effects and self-shadowing are not modeled. We present a new neural representation for face reflectance where we can estimate all components of the reflectance responsible for the final appearance from a single monocular image. Instead of modeling each component of the reflectance separately using parametric models, our neural representation allows us to generate a basis set of faces in a geometric deformation-invariant space, parameterized by the input light direction, viewpoint and face geometry. We learn to reconstruct this reflectance field of a face just from a monocular image, which can be used to render the face from any viewpoint in any light condition. Our method is trained on a light-stage training dataset, which captures 300 people illuminated with 150 light conditions from 8 viewpoints. We show that our method outperforms existing monocular reflectance reconstruction methods, in terms of photorealism due to better capturing of physical premitives, such as sub-surface scattering, specularities, self-shadows and other higher-order effects."}]}]