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Royal Society, 2020, doi:<a href=\"https://doi.org/10.6084/m9.figshare.5973013.v1\">10.6084/m9.figshare.5973013.v1</a>."},"date_updated":"2023-10-18T06:36:00Z","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","month":"10","date_published":"2020-10-15T00:00:00Z","doi":"10.6084/m9.figshare.5973013.v1","related_material":{"record":[{"relation":"used_in_publication","id":"198","status":"public"}]},"author":[{"first_name":"Rasmus","orcid":"0000-0003-4783-0389","last_name":"Ibsen-Jensen","id":"3B699956-F248-11E8-B48F-1D18A9856A87","full_name":"Ibsen-Jensen, Rasmus"},{"id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","first_name":"Josef","last_name":"Tkadlec","orcid":"0000-0002-1097-9684","full_name":"Tkadlec, Josef"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu"},{"full_name":"Nowak, Martin","first_name":"Martin","last_name":"Nowak"}],"oa_version":"Published Version"},{"month":"05","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_published":"2020-05-20T00:00:00Z","citation":{"ama":"Gupta C, Khaniya U, Chan CK, et al. Movies. 2020. doi:<a href=\"https://doi.org/10.1021/jacs.9b13450.s002\">10.1021/jacs.9b13450.s002</a>","mla":"Gupta, Chitrak, et al. <i>Movies</i>. American Chemical Society, 2020, doi:<a href=\"https://doi.org/10.1021/jacs.9b13450.s002\">10.1021/jacs.9b13450.s002</a>.","ieee":"C. Gupta <i>et al.</i>, “Movies.” American Chemical Society, 2020.","short":"C. Gupta, U. Khaniya, C.K. Chan, F. Dehez, M. Shekhar, M.R. Gunner, L.A. Sazanov, C. Chipot, A. Singharoy, (2020).","apa":"Gupta, C., Khaniya, U., Chan, C. K., Dehez, F., Shekhar, M., Gunner, M. R., … Singharoy, A. (2020). Movies. American Chemical Society. <a href=\"https://doi.org/10.1021/jacs.9b13450.s002\">https://doi.org/10.1021/jacs.9b13450.s002</a>","chicago":"Gupta, Chitrak, Umesh Khaniya, Chun Kit Chan, Francois Dehez, Mrinal Shekhar, M.R. Gunner, Leonid A Sazanov, Christophe Chipot, and Abhishek Singharoy. “Movies.” American Chemical Society, 2020. <a href=\"https://doi.org/10.1021/jacs.9b13450.s002\">https://doi.org/10.1021/jacs.9b13450.s002</a>.","ista":"Gupta C, Khaniya U, Chan CK, Dehez F, Shekhar M, Gunner MR, Sazanov LA, Chipot C, Singharoy A. 2020. Movies, American Chemical Society, <a href=\"https://doi.org/10.1021/jacs.9b13450.s002\">10.1021/jacs.9b13450.s002</a>."},"date_updated":"2023-08-22T07:49:38Z","type":"research_data_reference","_id":"9878","oa_version":"Published Version","related_material":{"record":[{"relation":"used_in_publication","id":"8040","status":"public"}]},"author":[{"last_name":"Gupta","first_name":"Chitrak","full_name":"Gupta, Chitrak"},{"full_name":"Khaniya, Umesh","last_name":"Khaniya","first_name":"Umesh"},{"full_name":"Chan, Chun Kit","first_name":"Chun Kit","last_name":"Chan"},{"last_name":"Dehez","first_name":"Francois","full_name":"Dehez, Francois"},{"full_name":"Shekhar, Mrinal","last_name":"Shekhar","first_name":"Mrinal"},{"last_name":"Gunner","first_name":"M.R.","full_name":"Gunner, M.R."},{"first_name":"Leonid A","orcid":"0000-0002-0977-7989","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","full_name":"Sazanov, Leonid A"},{"last_name":"Chipot","first_name":"Christophe","full_name":"Chipot, Christophe"},{"full_name":"Singharoy, Abhishek","first_name":"Abhishek","last_name":"Singharoy"}],"doi":"10.1021/jacs.9b13450.s002","title":"Movies","day":"20","department":[{"_id":"LeSa"}],"status":"public","date_created":"2021-08-11T09:18:54Z","year":"2020","publisher":"American Chemical Society","article_processing_charge":"No"},{"article_processing_charge":"No","publisher":"American Chemical Society ","date_created":"2021-08-11T13:16:03Z","status":"public","year":"2020","day":"08","department":[{"_id":"EdHa"}],"title":"MURL_Dataz","doi":"10.1021/acs.nanolett.9b04445.s002","author":[{"full_name":"Ucar, Mehmet C","id":"50B2A802-6007-11E9-A42B-EB23E6697425","first_name":"Mehmet C","last_name":"Ucar","orcid":"0000-0003-0506-4217"},{"first_name":"Reinhard","last_name":"Lipowsky","full_name":"Lipowsky, Reinhard"}],"related_material":{"record":[{"id":"7166","relation":"used_in_publication","status":"public"}]},"oa_version":"Published Version","type":"research_data_reference","date_updated":"2023-08-17T14:07:52Z","abstract":[{"lang":"eng","text":"Data obtained from the fine-grained simulations used in Figures 2-5, data obtained from the coarse-grained numerical calculations used in Figure 6, and a sample script for the fine-grained simulation as a Jupyter notebook (ZIP)"}],"citation":{"apa":"Ucar, M. C., &#38; Lipowsky, R. (2020). MURL_Dataz. American Chemical Society . <a href=\"https://doi.org/10.1021/acs.nanolett.9b04445.s002\">https://doi.org/10.1021/acs.nanolett.9b04445.s002</a>","short":"M.C. Ucar, R. Lipowsky, (2020).","ista":"Ucar MC, Lipowsky R. 2020. MURL_Dataz, American Chemical Society , <a href=\"https://doi.org/10.1021/acs.nanolett.9b04445.s002\">10.1021/acs.nanolett.9b04445.s002</a>.","chicago":"Ucar, Mehmet C, and Reinhard Lipowsky. “MURL_Dataz.” American Chemical Society , 2020. <a href=\"https://doi.org/10.1021/acs.nanolett.9b04445.s002\">https://doi.org/10.1021/acs.nanolett.9b04445.s002</a>.","ama":"Ucar MC, Lipowsky R. MURL_Dataz. 2020. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.9b04445.s002\">10.1021/acs.nanolett.9b04445.s002</a>","ieee":"M. C. Ucar and R. Lipowsky, “MURL_Dataz.” American Chemical Society , 2020.","mla":"Ucar, Mehmet C., and Reinhard Lipowsky. <i>MURL_Dataz</i>. American Chemical Society , 2020, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.9b04445.s002\">10.1021/acs.nanolett.9b04445.s002</a>."},"_id":"9885","date_published":"2020-01-08T00:00:00Z","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","month":"01"},{"year":"2019","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"publication":"arXiv","article_processing_charge":"No","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1910.05841"}],"title":"Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits","acknowledgement":"We thank Matthias Brauns for helpful discussions and careful proofreading of the manuscript. This project has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No 844511 and from the FWF project P30207. The research was supported by the Scientific Service Units of IST Austria through resources provided by the MIBA machine shop and the nanofabrication\r\nfacility.","oa_version":"Preprint","ec_funded":1,"related_material":{"record":[{"id":"10058","relation":"dissertation_contains","status":"public"}]},"doi":"10.48550/arXiv.1910.05841","date_published":"2019-10-13T00:00:00Z","month":"10","article_number":"1910.05841","date_updated":"2024-03-25T23:30:14Z","citation":{"ieee":"A. C. Hofmann <i>et al.</i>, “Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits,” <i>arXiv</i>. .","mla":"Hofmann, Andrea C., et al. “Assessing the Potential of Ge/SiGe Quantum Dots as Hosts for Singlet-Triplet Qubits.” <i>ArXiv</i>, 1910.05841, doi:<a href=\"https://doi.org/10.48550/arXiv.1910.05841\">10.48550/arXiv.1910.05841</a>.","ama":"Hofmann AC, Jirovec D, Borovkov M, et al. Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.1910.05841\">10.48550/arXiv.1910.05841</a>","ista":"Hofmann AC, Jirovec D, Borovkov M, Prieto Gonzalez I, Ballabio A, Frigerio J, Chrastina D, Isella G, Katsaros G. Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits. arXiv, 1910.05841.","chicago":"Hofmann, Andrea C, Daniel Jirovec, Maxim Borovkov, Ivan Prieto Gonzalez, Andrea Ballabio, Jacopo Frigerio, Daniel Chrastina, Giovanni Isella, and Georgios Katsaros. “Assessing the Potential of Ge/SiGe Quantum Dots as Hosts for Singlet-Triplet Qubits.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.1910.05841\">https://doi.org/10.48550/arXiv.1910.05841</a>.","apa":"Hofmann, A. C., Jirovec, D., Borovkov, M., Prieto Gonzalez, I., Ballabio, A., Frigerio, J., … Katsaros, G. (n.d.). Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.1910.05841\">https://doi.org/10.48550/arXiv.1910.05841</a>","short":"A.C. Hofmann, D. Jirovec, M. Borovkov, I. Prieto Gonzalez, A. Ballabio, J. Frigerio, D. Chrastina, G. Isella, G. Katsaros, ArXiv (n.d.)."},"type":"preprint","status":"public","date_created":"2021-10-01T12:14:51Z","arxiv":1,"oa":1,"department":[{"_id":"GeKa"}],"day":"13","project":[{"name":"Majorana bound states in Ge/SiGe heterostructures","_id":"26A151DA-B435-11E9-9278-68D0E5697425","grant_number":"844511","call_identifier":"H2020"},{"_id":"2641CE5E-B435-11E9-9278-68D0E5697425","name":"Hole spin orbit qubits in Ge quantum wells","grant_number":"P30207","call_identifier":"FWF"}],"author":[{"last_name":"Hofmann","first_name":"Andrea C","id":"340F461A-F248-11E8-B48F-1D18A9856A87","full_name":"Hofmann, Andrea C"},{"full_name":"Jirovec, Daniel","id":"4C473F58-F248-11E8-B48F-1D18A9856A87","first_name":"Daniel","orcid":"0000-0002-7197-4801","last_name":"Jirovec"},{"first_name":"Maxim","last_name":"Borovkov","full_name":"Borovkov, Maxim"},{"first_name":"Ivan","orcid":"0000-0002-7370-5357","last_name":"Prieto Gonzalez","id":"2A307FE2-F248-11E8-B48F-1D18A9856A87","full_name":"Prieto Gonzalez, Ivan"},{"first_name":"Andrea","last_name":"Ballabio","full_name":"Ballabio, Andrea"},{"last_name":"Frigerio","first_name":"Jacopo","full_name":"Frigerio, Jacopo"},{"first_name":"Daniel","last_name":"Chrastina","full_name":"Chrastina, Daniel"},{"full_name":"Isella, Giovanni","first_name":"Giovanni","last_name":"Isella"},{"full_name":"Katsaros, Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8342-202X","last_name":"Katsaros","first_name":"Georgios"}],"external_id":{"arxiv":["1910.05841"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"submitted","_id":"10065","abstract":[{"lang":"eng","text":"We study double quantum dots in a Ge/SiGe heterostructure and test their maturity towards singlet-triplet ($S-T_0$) qubits. We demonstrate a large range of tunability, from two single quantum dots to a double quantum dot. We measure Pauli spin blockade and study the anisotropy of the $g$-factor. We use an adjacent quantum dot for sensing charge transitions in the double quantum dot at interest. In conclusion, Ge/SiGe possesses all ingredients necessary for building a singlet-triplet qubit."}]},{"intvolume":"         3","title":"Value-centric dynamic partial order reduction","main_file_link":[{"url":"https://dl.acm.org/doi/10.1145/3360550","open_access":"1"}],"acknowledgement":"The authors would also like to thank anonymous referees for their valuable comments and helpful suggestions. This work is supported by the Austrian Science Fund (FWF) NFN grants S11407-N23 (RiSE/SHiNE) and S11402-N23 (RiSE/SHiNE), by the Vienna Science and Technology Fund (WWTF) Project ICT15-003, and by the Austrian Science Fund (FWF) Schrodinger grant J-4220.\r\n","year":"2019","language":[{"iso":"eng"}],"article_processing_charge":"No","publication":"Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"month":"10","date_published":"2019-10-10T00:00:00Z","ddc":["000"],"article_number":"124","has_accepted_license":"1","date_updated":"2025-07-14T09:10:15Z","citation":{"apa":"Chatterjee, K., Pavlogiannis, A., &#38; Toman, V. (2019). Value-centric dynamic partial order reduction. In <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i> (Vol. 3). Athens, Greece: ACM. <a href=\"https://doi.org/10.1145/3360550\">https://doi.org/10.1145/3360550</a>","short":"K. Chatterjee, A. Pavlogiannis, V. Toman, in:, Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications, ACM, 2019.","ista":"Chatterjee K, Pavlogiannis A, Toman V. 2019. Value-centric dynamic partial order reduction. Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications. OOPSLA: Object-oriented Programming, Systems, Languages and Applications vol. 3, 124.","chicago":"Chatterjee, Krishnendu, Andreas Pavlogiannis, and Viktor Toman. “Value-Centric Dynamic Partial Order Reduction.” In <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, Vol. 3. ACM, 2019. <a href=\"https://doi.org/10.1145/3360550\">https://doi.org/10.1145/3360550</a>.","ama":"Chatterjee K, Pavlogiannis A, Toman V. Value-centric dynamic partial order reduction. In: <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>. Vol 3. ACM; 2019. doi:<a href=\"https://doi.org/10.1145/3360550\">10.1145/3360550</a>","ieee":"K. Chatterjee, A. Pavlogiannis, and V. Toman, “Value-centric dynamic partial order reduction,” in <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, Athens, Greece, 2019, vol. 3.","mla":"Chatterjee, Krishnendu, et al. “Value-Centric Dynamic Partial Order Reduction.” <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, vol. 3, 124, ACM, 2019, doi:<a href=\"https://doi.org/10.1145/3360550\">10.1145/3360550</a>."},"type":"conference","file_date_updated":"2021-11-12T11:41:56Z","oa_version":"Published Version","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"10199"}]},"doi":"10.1145/3360550","conference":{"location":"Athens, Greece","end_date":"2019-10-25","start_date":"2019-10-23","name":"OOPSLA: Object-oriented Programming, Systems, Languages and Applications"},"arxiv":1,"oa":1,"quality_controlled":"1","department":[{"_id":"GradSch"},{"_id":"KrCh"}],"keyword":["safety","risk","reliability and quality","software"],"day":"10","status":"public","date_created":"2021-10-27T14:57:06Z","publisher":"ACM","file":[{"relation":"main_file","file_id":"10278","file_size":570829,"content_type":"application/pdf","creator":"cchlebak","date_updated":"2021-11-12T11:41:56Z","success":1,"checksum":"2149979c46964c4d117af06ccb6c0834","date_created":"2021-11-12T11:41:56Z","file_name":"2019_ACM_Chatterjee.pdf","access_level":"open_access"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication_status":"published","_id":"10190","abstract":[{"lang":"eng","text":"The verification of concurrent programs remains an open challenge, as thread interaction has to be accounted for, which leads to state-space explosion. Stateless model checking battles this problem by exploring traces rather than states of the program. As there are exponentially many traces, dynamic partial-order reduction (DPOR) techniques are used to partition the trace space into equivalence classes, and explore a few representatives from each class. The standard equivalence that underlies most DPOR techniques is the happens-before equivalence, however recent works have spawned a vivid interest towards coarser equivalences. The efficiency of such approaches is a product of two parameters: (i) the size of the partitioning induced by the equivalence, and (ii) the time spent by the exploration algorithm in each class of the partitioning. In this work, we present a new equivalence, called value-happens-before and show that it has two appealing features. First, value-happens-before is always at least as coarse as the happens-before equivalence, and can be even exponentially coarser. Second, the value-happens-before partitioning is efficiently explorable when the number of threads is bounded. We present an algorithm called value-centric DPOR (VCDPOR), which explores the underlying partitioning using polynomial time per class. Finally, we perform an experimental evaluation of VCDPOR on various benchmarks, and compare it against other state-of-the-art approaches. Our results show that value-happens-before typically induces a significant reduction in the size of the underlying partitioning, which leads to a considerable reduction in the running time for exploring the whole partitioning."}],"volume":3,"publication_identifier":{"eissn":["2475-1421"]},"project":[{"grant_number":"ICT15-003","_id":"25892FC0-B435-11E9-9278-68D0E5697425","name":"Efficient Algorithms for Computer Aided Verification"},{"grant_number":"S11407","call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory"},{"name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF"},{"_id":"25F5A88A-B435-11E9-9278-68D0E5697425","name":"Moderne Concurrency Paradigms","call_identifier":"FWF","grant_number":"S11402-N23"}],"author":[{"first_name":"Krishnendu","orcid":"0000-0002-4561-241X","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu"},{"full_name":"Pavlogiannis, Andreas","last_name":"Pavlogiannis","orcid":"0000-0002-8943-0722","first_name":"Andreas","id":"49704004-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Toman, Viktor","id":"3AF3DA7C-F248-11E8-B48F-1D18A9856A87","last_name":"Toman","orcid":"0000-0001-9036-063X","first_name":"Viktor"}],"external_id":{"arxiv":["1909.00989"]}},{"article_processing_charge":"No","publication":"European Journal of Human Genetics","language":[{"iso":"eng"}],"year":"2019","acknowledgement":"This work was supported by EuroGentest2 (Unit 2: “Genetic testing as part of health care”), a Coordination Action under FP7 (Grant Agreement Number 261469) and the European Society of Human Genetics. We acknowledge the participation of the patients and their families in these studies, as well as the generous financial support of the Lefroy and Handbury families. APLM was supported by an Australian Postgraduate Award. PJL is supported by an NHMRC Career Development Fellowship (GNT1032364). RJL is supported by a Melbourne Children’s Clinician Scientist Fellowship.","intvolume":"        27","title":"CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63","main_file_link":[{"url":"https://doi.org/10.1038/s41431-018-0231-2","open_access":"1"}],"doi":"10.1038/s41431-018-0231-2","article_type":"original","publist_id":"7949","oa_version":"Published Version","citation":{"short":"A. Marsh, G. Novarino, P. Lockhart, R. Leventer, European Journal of Human Genetics 27 (2019) 161–166.","apa":"Marsh, A., Novarino, G., Lockhart, P., &#38; Leventer, R. (2019). CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63. <i>European Journal of Human Genetics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41431-018-0231-2\">https://doi.org/10.1038/s41431-018-0231-2</a>","chicago":"Marsh, Ashley, Gaia Novarino, Paul Lockhart, and Richard Leventer. “CUGC for Pontocerebellar Hypoplasia Type 9 and Spastic Paraplegia-63.” <i>European Journal of Human Genetics</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41431-018-0231-2\">https://doi.org/10.1038/s41431-018-0231-2</a>.","ista":"Marsh A, Novarino G, Lockhart P, Leventer R. 2019. CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63. European Journal of Human Genetics. 27, 161–166.","ama":"Marsh A, Novarino G, Lockhart P, Leventer R. CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63. <i>European Journal of Human Genetics</i>. 2019;27:161-166. doi:<a href=\"https://doi.org/10.1038/s41431-018-0231-2\">10.1038/s41431-018-0231-2</a>","mla":"Marsh, Ashley, et al. “CUGC for Pontocerebellar Hypoplasia Type 9 and Spastic Paraplegia-63.” <i>European Journal of Human Genetics</i>, vol. 27, Springer Nature, 2019, pp. 161–66, doi:<a href=\"https://doi.org/10.1038/s41431-018-0231-2\">10.1038/s41431-018-0231-2</a>.","ieee":"A. Marsh, G. Novarino, P. Lockhart, and R. Leventer, “CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63,” <i>European Journal of Human Genetics</i>, vol. 27. Springer Nature, pp. 161–166, 2019."},"date_updated":"2023-08-24T14:28:24Z","type":"journal_article","pmid":1,"scopus_import":"1","date_published":"2019-01-01T00:00:00Z","month":"01","page":"161-166","publisher":"Springer Nature","status":"public","date_created":"2018-12-11T11:44:39Z","department":[{"_id":"GaNo"}],"isi":1,"day":"01","oa":1,"quality_controlled":"1","external_id":{"pmid":["30089829"],"isi":["000454111500019"]},"author":[{"last_name":"Marsh","first_name":"Ashley","full_name":"Marsh, Ashley"},{"full_name":"Novarino, Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","last_name":"Novarino","orcid":"0000-0002-7673-7178","first_name":"Gaia"},{"first_name":"Paul","last_name":"Lockhart","full_name":"Lockhart, Paul"},{"first_name":"Richard","last_name":"Leventer","full_name":"Leventer, Richard"}],"volume":27,"_id":"105","abstract":[{"text":"Clinical Utility Gene Card. 1. Name of Disease (Synonyms): Pontocerebellar hypoplasia type 9 (PCH9) and spastic paraplegia-63 (SPG63). 2. OMIM# of the Disease: 615809 and 615686. 3. Name of the Analysed Genes or DNA/Chromosome Segments: AMPD2 at 1p13.3. 4. OMIM# of the Gene(s): 102771.","lang":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_status":"published"},{"language":[{"iso":"eng"}],"year":"2019","article_processing_charge":"No","publication":"Research in Number Theory","intvolume":"         5","main_file_link":[{"url":"https://arxiv.org/abs/1807.08986","open_access":"1"}],"title":"Modular invariants for genus 3 hyperelliptic curves","acknowledgement":"The authors would like to thank the Lorentz Center in Leiden for hosting the Women in Numbers Europe 2 workshop and providing a productive and enjoyable environment for our initial work on this project. We are grateful to the organizers of WIN-E2, Irene Bouw, Rachel Newton and Ekin Ozman, for making this conference and this collaboration possible. We\r\nthank Irene Bouw and Christophe Ritzenhaler for helpful discussions. Ionica acknowledges support from the Thomas Jefferson Fund of the Embassy of France in the United States and the FACE Foundation. Most of Kılıçer’s work was carried out during her stay in Universiteit Leiden and Carl von Ossietzky Universität Oldenburg. Massierer was supported by the Australian Research Council (DP150101689). Vincent is supported by the National Science Foundation under Grant No. DMS-1802323 and by the Thomas Jefferson Fund of the Embassy of France in the United States and the FACE Foundation. ","oa_version":"Preprint","article_type":"original","doi":"10.1007/s40993-018-0146-6","date_published":"2019-01-02T00:00:00Z","month":"01","scopus_import":"1","date_updated":"2023-09-05T15:39:31Z","citation":{"ieee":"S. Ionica <i>et al.</i>, “Modular invariants for genus 3 hyperelliptic curves,” <i>Research in Number Theory</i>, vol. 5. Springer Nature, 2019.","mla":"Ionica, Sorina, et al. “Modular Invariants for Genus 3 Hyperelliptic Curves.” <i>Research in Number Theory</i>, vol. 5, 9, Springer Nature, 2019, doi:<a href=\"https://doi.org/10.1007/s40993-018-0146-6\">10.1007/s40993-018-0146-6</a>.","ama":"Ionica S, Kılıçer P, Lauter K, et al. Modular invariants for genus 3 hyperelliptic curves. <i>Research in Number Theory</i>. 2019;5. doi:<a href=\"https://doi.org/10.1007/s40993-018-0146-6\">10.1007/s40993-018-0146-6</a>","ista":"Ionica S, Kılıçer P, Lauter K, Lorenzo García E, Manzateanu M-A, Massierer M, Vincent C. 2019. Modular invariants for genus 3 hyperelliptic curves. Research in Number Theory. 5, 9.","chicago":"Ionica, Sorina, Pınar Kılıçer, Kristin Lauter, Elisa Lorenzo García, Maria-Adelina Manzateanu, Maike Massierer, and Christelle Vincent. “Modular Invariants for Genus 3 Hyperelliptic Curves.” <i>Research in Number Theory</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1007/s40993-018-0146-6\">https://doi.org/10.1007/s40993-018-0146-6</a>.","apa":"Ionica, S., Kılıçer, P., Lauter, K., Lorenzo García, E., Manzateanu, M.-A., Massierer, M., &#38; Vincent, C. (2019). Modular invariants for genus 3 hyperelliptic curves. <i>Research in Number Theory</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s40993-018-0146-6\">https://doi.org/10.1007/s40993-018-0146-6</a>","short":"S. Ionica, P. Kılıçer, K. Lauter, E. Lorenzo García, M.-A. Manzateanu, M. Massierer, C. Vincent, Research in Number Theory 5 (2019)."},"type":"journal_article","article_number":"9","status":"public","date_created":"2022-03-18T12:09:48Z","publisher":"Springer Nature","quality_controlled":"1","arxiv":1,"oa":1,"day":"02","keyword":["Algebra and Number Theory"],"department":[{"_id":"TiBr"}],"volume":5,"publication_identifier":{"issn":["2522-0160"],"eissn":["2363-9555"]},"external_id":{"arxiv":["1807.08986"]},"author":[{"first_name":"Sorina","last_name":"Ionica","full_name":"Ionica, Sorina"},{"first_name":"Pınar","last_name":"Kılıçer","full_name":"Kılıçer, Pınar"},{"full_name":"Lauter, Kristin","first_name":"Kristin","last_name":"Lauter"},{"first_name":"Elisa","last_name":"Lorenzo García","full_name":"Lorenzo García, Elisa"},{"full_name":"Manzateanu, Maria-Adelina","id":"be8d652e-a908-11ec-82a4-e2867729459c","last_name":"Manzateanu","first_name":"Maria-Adelina"},{"first_name":"Maike","last_name":"Massierer","full_name":"Massierer, Maike"},{"full_name":"Vincent, Christelle","last_name":"Vincent","first_name":"Christelle"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","abstract":[{"lang":"eng","text":"In this article we prove an analogue of a theorem of Lachaud, Ritzenthaler, and Zykin, which allows us to connect invariants of binary octics to Siegel modular forms of genus 3. We use this connection to show that certain modular functions, when restricted to the hyperelliptic locus, assume values whose denominators are products of powers of primes of bad reduction for the associated hyperelliptic curves. We illustrate our theorem with explicit computations. This work is motivated by the study of the values of these modular functions at CM points of the Siegel upper half-space, which, if their denominators are known, can be used to effectively compute models of (hyperelliptic, in our case) curves with CM."}],"_id":"10874"},{"acknowledgement":"The authors gratefully acknowledge \fnancial support by the European Commission project\r\nUnCoVerCPS under grant number 643921. Lei Bu is supported by the National Natural Science\r\nFoundation of China (No.61572249).","intvolume":"        61","title":"ARCH-COMP19 Category Report: Hybrid systems with piecewise constant dynamics","article_processing_charge":"No","publication":"ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems","year":"2019","language":[{"iso":"eng"}],"has_accepted_license":"1","date_updated":"2022-05-17T07:09:47Z","citation":{"ista":"Frehse G, Abate A, Adzkiya D, Becchi A, Bu L, Cimatti A, Giacobbe M, Griggio A, Mover S, Mufid MS, Riouak I, Tonetta S, Zaffanella E. 2019. ARCH-COMP19 Category Report: Hybrid systems with piecewise constant dynamics. ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems. ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems, EPiC Series in Computing, vol. 61, 1–13.","chicago":"Frehse, Goran, Alessandro Abate, Dieky Adzkiya, Anna Becchi, Lei Bu, Alessandro Cimatti, Mirco Giacobbe, et al. “ARCH-COMP19 Category Report: Hybrid Systems with Piecewise Constant Dynamics.” In <i>ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems</i>, edited by Goran Frehse and Matthias Althoff, 61:1–13. EasyChair, 2019. <a href=\"https://doi.org/10.29007/rjwn\">https://doi.org/10.29007/rjwn</a>.","apa":"Frehse, G., Abate, A., Adzkiya, D., Becchi, A., Bu, L., Cimatti, A., … Zaffanella, E. (2019). ARCH-COMP19 Category Report: Hybrid systems with piecewise constant dynamics. In G. Frehse &#38; M. Althoff (Eds.), <i>ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems</i> (Vol. 61, pp. 1–13). Montreal, Canada: EasyChair. <a href=\"https://doi.org/10.29007/rjwn\">https://doi.org/10.29007/rjwn</a>","short":"G. Frehse, A. Abate, D. Adzkiya, A. Becchi, L. Bu, A. Cimatti, M. Giacobbe, A. Griggio, S. Mover, M.S. Mufid, I. Riouak, S. Tonetta, E. Zaffanella, in:, G. Frehse, M. Althoff (Eds.), ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems, EasyChair, 2019, pp. 1–13.","ieee":"G. Frehse <i>et al.</i>, “ARCH-COMP19 Category Report: Hybrid systems with piecewise constant dynamics,” in <i>ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems</i>, Montreal, Canada, 2019, vol. 61, pp. 1–13.","mla":"Frehse, Goran, et al. “ARCH-COMP19 Category Report: Hybrid Systems with Piecewise Constant Dynamics.” <i>ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems</i>, edited by Goran Frehse and Matthias Althoff, vol. 61, EasyChair, 2019, pp. 1–13, doi:<a href=\"https://doi.org/10.29007/rjwn\">10.29007/rjwn</a>.","ama":"Frehse G, Abate A, Adzkiya D, et al. ARCH-COMP19 Category Report: Hybrid systems with piecewise constant dynamics. In: Frehse G, Althoff M, eds. <i>ARCH19. 6th International Workshop on Applied Verification of Continuous and Hybrid Systems</i>. Vol 61. EasyChair; 2019:1-13. doi:<a href=\"https://doi.org/10.29007/rjwn\">10.29007/rjwn</a>"},"type":"conference","scopus_import":"1","date_published":"2019-05-25T00:00:00Z","month":"05","ddc":["000"],"alternative_title":["EPiC Series in Computing"],"conference":{"location":"Montreal, Canada","end_date":"2019-04-15","start_date":"2019-04-15","name":"ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems"},"editor":[{"full_name":"Frehse, Goran","last_name":"Frehse","first_name":"Goran"},{"last_name":"Althoff","first_name":"Matthias","full_name":"Althoff, Matthias"}],"doi":"10.29007/rjwn","file_date_updated":"2022-05-17T06:55:49Z","oa_version":"Published Version","department":[{"_id":"ToHe"}],"day":"25","oa":1,"quality_controlled":"1","publisher":"EasyChair","page":"1-13","file":[{"success":1,"date_created":"2022-05-17T06:55:49Z","checksum":"4b92e333db7b4e2349501a804dfede69","access_level":"open_access","file_name":"2019_EPiCs_Frehse.pdf","file_id":"11391","relation":"main_file","content_type":"application/pdf","file_size":346415,"creator":"dernst","date_updated":"2022-05-17T06:55:49Z"}],"status":"public","date_created":"2022-03-18T12:29:23Z","_id":"10877","abstract":[{"lang":"eng","text":"This report presents the results of a friendly competition for formal verification of continuous and hybrid systems with piecewise constant dynamics. The friendly competition took place as part of the workshop Applied Verification for Continuous and Hybrid Systems (ARCH) in 2019. In this third edition, six tools have been applied to solve five different benchmark problems in the category for piecewise constant dynamics: BACH, Lyse, Hy- COMP, PHAVer/SX, PHAVerLite, and VeriSiMPL. Compared to last year, a new tool has participated (HyCOMP) and PHAVerLite has replaced PHAVer-lite. The result is a snap- shot of the current landscape of tools and the types of benchmarks they are particularly suited for. Due to the diversity of problems, we are not ranking tools, yet the presented results probably provide the most complete assessment of tools for the safety verification of continuous and hybrid systems with piecewise constant dynamics up to this date."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","author":[{"full_name":"Frehse, Goran","last_name":"Frehse","first_name":"Goran"},{"full_name":"Abate, Alessandro","first_name":"Alessandro","last_name":"Abate"},{"first_name":"Dieky","last_name":"Adzkiya","full_name":"Adzkiya, Dieky"},{"last_name":"Becchi","first_name":"Anna","full_name":"Becchi, Anna"},{"last_name":"Bu","first_name":"Lei","full_name":"Bu, Lei"},{"full_name":"Cimatti, Alessandro","first_name":"Alessandro","last_name":"Cimatti"},{"full_name":"Giacobbe, Mirco","id":"3444EA5E-F248-11E8-B48F-1D18A9856A87","first_name":"Mirco","last_name":"Giacobbe","orcid":"0000-0001-8180-0904"},{"last_name":"Griggio","first_name":"Alberto","full_name":"Griggio, Alberto"},{"full_name":"Mover, Sergio","last_name":"Mover","first_name":"Sergio"},{"full_name":"Mufid, Muhammad Syifa'ul","first_name":"Muhammad Syifa'ul","last_name":"Mufid"},{"first_name":"Idriss","last_name":"Riouak","full_name":"Riouak, Idriss"},{"first_name":"Stefano","last_name":"Tonetta","full_name":"Tonetta, Stefano"},{"last_name":"Zaffanella","first_name":"Enea","full_name":"Zaffanella, Enea"}],"volume":61,"publication_identifier":{"issn":["2398-7340"]}},{"status":"public","date_created":"2022-03-18T12:33:34Z","publisher":"American Institute of Mathematical Sciences","page":"3037-3067","arxiv":1,"oa":1,"issue":"6","quality_controlled":"1","department":[{"_id":"JaMa"}],"keyword":["Applied Mathematics","Discrete Mathematics and Combinatorics","Analysis"],"isi":1,"day":"01","volume":39,"publication_identifier":{"issn":["1553-5231"]},"project":[{"name":"Taming Complexity in Partial Differential Systems","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2","grant_number":"F6504"}],"author":[{"full_name":"Flandoli, Franco","last_name":"Flandoli","first_name":"Franco"},{"full_name":"Priola, Enrico","last_name":"Priola","first_name":"Enrico"},{"full_name":"Zanco, Giovanni A","last_name":"Zanco","first_name":"Giovanni A","id":"47491882-F248-11E8-B48F-1D18A9856A87"}],"external_id":{"arxiv":["1708.04156"],"isi":["000459954800003"]},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","_id":"10878","abstract":[{"lang":"eng","text":"Starting from a microscopic model for a system of neurons evolving in time which individually follow a stochastic integrate-and-fire type model, we study a mean-field limit of the system. Our model is described by a system of SDEs with discontinuous coefficients for the action potential of each neuron and takes into account the (random) spatial configuration of neurons allowing the interaction to depend on it. In the limit as the number of particles tends to infinity, we obtain a nonlinear Fokker-Planck type PDE in two variables, with derivatives only with respect to one variable and discontinuous coefficients. We also study strong well-posedness of the system of SDEs and prove the existence and uniqueness of a weak measure-valued solution to the PDE, obtained as the limit of the laws of the empirical measures for the system of particles."}],"language":[{"iso":"eng"}],"year":"2019","article_processing_charge":"No","publication":"Discrete and Continuous Dynamical Systems","intvolume":"        39","title":"A mean-field model with discontinuous coefficients for neurons with spatial interaction","main_file_link":[{"url":"https://arxiv.org/abs/1708.04156","open_access":"1"}],"acknowledgement":"The second author has been partially supported by INdAM through the GNAMPA Research\r\nProject (2017) “Sistemi stocastici singolari: buona posizione e problemi di controllo”. The third\r\nauthor was partly funded by the Austrian Science Fund (FWF) project F 65.","oa_version":"Preprint","doi":"10.3934/dcds.2019126","article_type":"original","scopus_import":"1","date_published":"2019-06-01T00:00:00Z","month":"06","citation":{"ista":"Flandoli F, Priola E, Zanco GA. 2019. A mean-field model with discontinuous coefficients for neurons with spatial interaction. Discrete and Continuous Dynamical Systems. 39(6), 3037–3067.","chicago":"Flandoli, Franco, Enrico Priola, and Giovanni A Zanco. “A Mean-Field Model with Discontinuous Coefficients for Neurons with Spatial Interaction.” <i>Discrete and Continuous Dynamical Systems</i>. American Institute of Mathematical Sciences, 2019. <a href=\"https://doi.org/10.3934/dcds.2019126\">https://doi.org/10.3934/dcds.2019126</a>.","apa":"Flandoli, F., Priola, E., &#38; Zanco, G. A. (2019). A mean-field model with discontinuous coefficients for neurons with spatial interaction. <i>Discrete and Continuous Dynamical Systems</i>. American Institute of Mathematical Sciences. <a href=\"https://doi.org/10.3934/dcds.2019126\">https://doi.org/10.3934/dcds.2019126</a>","short":"F. Flandoli, E. Priola, G.A. Zanco, Discrete and Continuous Dynamical Systems 39 (2019) 3037–3067.","ieee":"F. Flandoli, E. Priola, and G. A. Zanco, “A mean-field model with discontinuous coefficients for neurons with spatial interaction,” <i>Discrete and Continuous Dynamical Systems</i>, vol. 39, no. 6. American Institute of Mathematical Sciences, pp. 3037–3067, 2019.","mla":"Flandoli, Franco, et al. “A Mean-Field Model with Discontinuous Coefficients for Neurons with Spatial Interaction.” <i>Discrete and Continuous Dynamical Systems</i>, vol. 39, no. 6, American Institute of Mathematical Sciences, 2019, pp. 3037–67, doi:<a href=\"https://doi.org/10.3934/dcds.2019126\">10.3934/dcds.2019126</a>.","ama":"Flandoli F, Priola E, Zanco GA. A mean-field model with discontinuous coefficients for neurons with spatial interaction. <i>Discrete and Continuous Dynamical Systems</i>. 2019;39(6):3037-3067. doi:<a href=\"https://doi.org/10.3934/dcds.2019126\">10.3934/dcds.2019126</a>"},"date_updated":"2023-09-08T11:34:45Z","type":"journal_article"},{"page":"921-965","publisher":"European Mathematical Society Publishing House","status":"public","date_created":"2022-03-18T12:36:42Z","department":[{"_id":"LaEr"}],"keyword":["Random Schrödinger operators","spectral shift function","Anderson orthogonality"],"isi":1,"day":"01","arxiv":1,"oa":1,"issue":"3","quality_controlled":"1","author":[{"first_name":"Adrian M","last_name":"Dietlein","id":"317CB464-F248-11E8-B48F-1D18A9856A87","full_name":"Dietlein, Adrian M"},{"full_name":"Gebert, Martin","first_name":"Martin","last_name":"Gebert"},{"last_name":"Müller","first_name":"Peter","full_name":"Müller, Peter"}],"external_id":{"arxiv":["1701.02956"],"isi":["000484709400006"]},"volume":9,"publication_identifier":{"issn":["1664-039X"]},"_id":"10879","abstract":[{"lang":"eng","text":"We study effects of a bounded and compactly supported perturbation on multidimensional continuum random Schrödinger operators in the region of complete localisation. Our main emphasis is on Anderson orthogonality for random Schrödinger operators. Among others, we prove that Anderson orthogonality does occur for Fermi energies in the region of complete localisation with a non-zero probability. This partially confirms recent non-rigorous findings [V. Khemani et al., Nature Phys. 11 (2015), 560–565]. The spectral shift function plays an important role in our analysis of Anderson orthogonality. We identify it with the index of the corresponding pair of spectral projections and explore the consequences thereof. All our results rely on the main technical estimate of this paper which guarantees separate exponential decay of the disorder-averaged Schatten p-norm of χa(f(H)−f(Hτ))χb in a and b. Here, Hτ is a perturbation of the random Schrödinger operator H, χa is the multiplication operator corresponding to the indicator function of a unit cube centred about a∈Rd, and f is in a suitable class of functions of bounded variation with distributional derivative supported in the region of complete localisation for H."}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","article_processing_charge":"No","publication":"Journal of Spectral Theory","year":"2019","language":[{"iso":"eng"}],"acknowledgement":"M.G. was supported by the DFG under grant GE 2871/1-1.","intvolume":"         9","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1701.02956"}],"title":"Perturbations of continuum random Schrödinger operators with applications to Anderson orthogonality and the spectral shift function","doi":"10.4171/jst/267","article_type":"original","oa_version":"Preprint","citation":{"short":"A.M. Dietlein, M. Gebert, P. Müller, Journal of Spectral Theory 9 (2019) 921–965.","apa":"Dietlein, A. M., Gebert, M., &#38; Müller, P. (2019). Perturbations of continuum random Schrödinger operators with applications to Anderson orthogonality and the spectral shift function. <i>Journal of Spectral Theory</i>. European Mathematical Society Publishing House. <a href=\"https://doi.org/10.4171/jst/267\">https://doi.org/10.4171/jst/267</a>","chicago":"Dietlein, Adrian M, Martin Gebert, and Peter Müller. “Perturbations of Continuum Random Schrödinger Operators with Applications to Anderson Orthogonality and the Spectral Shift Function.” <i>Journal of Spectral Theory</i>. European Mathematical Society Publishing House, 2019. <a href=\"https://doi.org/10.4171/jst/267\">https://doi.org/10.4171/jst/267</a>.","ista":"Dietlein AM, Gebert M, Müller P. 2019. Perturbations of continuum random Schrödinger operators with applications to Anderson orthogonality and the spectral shift function. Journal of Spectral Theory. 9(3), 921–965.","ama":"Dietlein AM, Gebert M, Müller P. Perturbations of continuum random Schrödinger operators with applications to Anderson orthogonality and the spectral shift function. <i>Journal of Spectral Theory</i>. 2019;9(3):921-965. doi:<a href=\"https://doi.org/10.4171/jst/267\">10.4171/jst/267</a>","mla":"Dietlein, Adrian M., et al. “Perturbations of Continuum Random Schrödinger Operators with Applications to Anderson Orthogonality and the Spectral Shift Function.” <i>Journal of Spectral Theory</i>, vol. 9, no. 3, European Mathematical Society Publishing House, 2019, pp. 921–65, doi:<a href=\"https://doi.org/10.4171/jst/267\">10.4171/jst/267</a>.","ieee":"A. M. Dietlein, M. Gebert, and P. Müller, “Perturbations of continuum random Schrödinger operators with applications to Anderson orthogonality and the spectral shift function,” <i>Journal of Spectral Theory</i>, vol. 9, no. 3. European Mathematical Society Publishing House, pp. 921–965, 2019."},"date_updated":"2023-09-08T11:35:31Z","type":"journal_article","scopus_import":"1","month":"03","date_published":"2019-03-01T00:00:00Z"},{"publication":"Intrinsic Activity","article_processing_charge":"No","language":[{"iso":"eng"}],"year":"2019","acknowledgement":"This work was supported by the ERC and EU Horizon 2020 (ERC 692692; MSC-IF 708497) and FWF Z 312-B27 Wittgenstein award; W 1205-B09).","title":"Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy","main_file_link":[{"open_access":"1","url":"https://www.intrinsicactivity.org/2019/7/S1/A3.27/"}],"intvolume":"         7","conference":{"location":"Innsbruck, Austria","end_date":"2019-09-27","name":"ANA: Austrian Neuroscience Association ; APHAR: Austrian Pharmacological Society","start_date":"2019-09-25"},"doi":"10.25006/ia.7.s1-a3.27","related_material":{"record":[{"relation":"dissertation_contains","id":"11196","status":"public"}]},"ec_funded":1,"oa_version":"Published Version","type":"conference_abstract","citation":{"ama":"Kim O, Borges Merjane C, Jonas PM. Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy. In: <i>Intrinsic Activity</i>. Vol 7. Austrian Pharmacological Society; 2019. doi:<a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">10.25006/ia.7.s1-a3.27</a>","ieee":"O. Kim, C. Borges Merjane, and P. M. Jonas, “Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy,” in <i>Intrinsic Activity</i>, Innsbruck, Austria, 2019, vol. 7, no. Suppl. 1.","mla":"Kim, Olena, et al. “Functional Analysis of the Docked Vesicle Pool in Hippocampal Mossy Fiber Terminals by Electron Microscopy.” <i>Intrinsic Activity</i>, vol. 7, no. Suppl. 1, A3.27, Austrian Pharmacological Society, 2019, doi:<a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">10.25006/ia.7.s1-a3.27</a>.","apa":"Kim, O., Borges Merjane, C., &#38; Jonas, P. M. (2019). Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy. In <i>Intrinsic Activity</i> (Vol. 7). Innsbruck, Austria: Austrian Pharmacological Society. <a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">https://doi.org/10.25006/ia.7.s1-a3.27</a>","short":"O. Kim, C. Borges Merjane, P.M. Jonas, in:, Intrinsic Activity, Austrian Pharmacological Society, 2019.","ista":"Kim O, Borges Merjane C, Jonas PM. 2019. Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy. Intrinsic Activity. ANA: Austrian Neuroscience Association ; APHAR: Austrian Pharmacological Society vol. 7, A3.27.","chicago":"Kim, Olena, Carolina Borges Merjane, and Peter M Jonas. “Functional Analysis of the Docked Vesicle Pool in Hippocampal Mossy Fiber Terminals by Electron Microscopy.” In <i>Intrinsic Activity</i>, Vol. 7. Austrian Pharmacological Society, 2019. <a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">https://doi.org/10.25006/ia.7.s1-a3.27</a>."},"date_updated":"2024-03-25T23:30:04Z","article_number":"A3.27","date_published":"2019-09-11T00:00:00Z","month":"09","publisher":"Austrian Pharmacological Society","date_created":"2022-04-20T15:06:05Z","status":"public","day":"11","keyword":["hippocampus","mossy fibers","readily releasable pool","electron microscopy"],"department":[{"_id":"PeJo"}],"quality_controlled":"1","oa":1,"issue":"Suppl. 1","author":[{"id":"3F8ABDDA-F248-11E8-B48F-1D18A9856A87","first_name":"Olena","last_name":"Kim","full_name":"Kim, Olena"},{"id":"4305C450-F248-11E8-B48F-1D18A9856A87","last_name":"Borges Merjane","orcid":"0000-0003-0005-401X","first_name":"Carolina","full_name":"Borges Merjane, Carolina"},{"id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","last_name":"Jonas","first_name":"Peter M","full_name":"Jonas, Peter M"}],"project":[{"call_identifier":"H2020","grant_number":"692692","name":"Biophysics and circuit function of a giant cortical glumatergic synapse","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425"},{"grant_number":"708497","call_identifier":"H2020","name":"Presynaptic calcium channels distribution and impact on coupling at the hippocampal mossy fiber synapse","_id":"25BAF7B2-B435-11E9-9278-68D0E5697425"},{"_id":"25C3DBB6-B435-11E9-9278-68D0E5697425","name":"Zellkommunikation in Gesundheit und Krankheit","call_identifier":"FWF","grant_number":"W01205"},{"_id":"25C5A090-B435-11E9-9278-68D0E5697425","name":"The Wittgenstein Prize","grant_number":"Z00312","call_identifier":"FWF"}],"publication_identifier":{"issn":["2309-8503"]},"volume":7,"_id":"11222","publication_status":"published","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9"},{"scopus_import":"1","date_published":"2019-08-19T00:00:00Z","month":"08","pmid":1,"type":"journal_article","date_updated":"2023-05-08T10:54:54Z","citation":{"ista":"Lawrence EJ, Gao H, Tock AJ, Lambing C, Blackwell AR, Feng X, Henderson IR. 2019. Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. 29(16), 2676–2686.e3.","chicago":"Lawrence, Emma J., Hongbo Gao, Andrew J. Tock, Christophe Lambing, Alexander R. Blackwell, Xiaoqi Feng, and Ian R. Henderson. “Natural Variation in TBP-ASSOCIATED FACTOR 4b Controls Meiotic Crossover and Germline Transcription in Arabidopsis.” <i>Current Biology</i>. Elsevier BV, 2019. <a href=\"https://doi.org/10.1016/j.cub.2019.06.084\">https://doi.org/10.1016/j.cub.2019.06.084</a>.","apa":"Lawrence, E. J., Gao, H., Tock, A. J., Lambing, C., Blackwell, A. R., Feng, X., &#38; Henderson, I. R. (2019). Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. <i>Current Biology</i>. Elsevier BV. <a href=\"https://doi.org/10.1016/j.cub.2019.06.084\">https://doi.org/10.1016/j.cub.2019.06.084</a>","short":"E.J. Lawrence, H. Gao, A.J. Tock, C. Lambing, A.R. Blackwell, X. Feng, I.R. Henderson, Current Biology 29 (2019) 2676–2686.e3.","ieee":"E. J. Lawrence <i>et al.</i>, “Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis,” <i>Current Biology</i>, vol. 29, no. 16. Elsevier BV, p. 2676–2686.e3, 2019.","mla":"Lawrence, Emma J., et al. “Natural Variation in TBP-ASSOCIATED FACTOR 4b Controls Meiotic Crossover and Germline Transcription in Arabidopsis.” <i>Current Biology</i>, vol. 29, no. 16, Elsevier BV, 2019, p. 2676–2686.e3, doi:<a href=\"https://doi.org/10.1016/j.cub.2019.06.084\">10.1016/j.cub.2019.06.084</a>.","ama":"Lawrence EJ, Gao H, Tock AJ, et al. Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. <i>Current Biology</i>. 2019;29(16):2676-2686.e3. doi:<a href=\"https://doi.org/10.1016/j.cub.2019.06.084\">10.1016/j.cub.2019.06.084</a>"},"oa_version":"None","doi":"10.1016/j.cub.2019.06.084","article_type":"original","title":"Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis","intvolume":"        29","acknowledgement":"We thank Gregory Copenhaver (University of North Carolina), Avraham Levy (The Weizmann Institute), and Scott Poethig (University of Pennsylvania) for FTLs; Piotr Ziolkowski for Col-420/Bur seed; Sureshkumar Balasubramanian\r\n(Monash University) for providing British and Irish Arabidopsis accessions; Mathilde Grelon (INRA, Versailles) for providing the MLH1 antibody; and the Gurdon Institute for access to microscopes. This work was supported by a BBSRC DTP studentship (E.J.L.), European Research Area Network for Coordinating Action in Plant Sciences/BBSRC ‘‘DeCOP’’ (BB/M004937/1; C.L.), a BBSRC David Phillips Fellowship (BB/L025043/1; H.G. and X.F.), the European Research Council (CoG ‘‘SynthHotspot,’’ A.J.T., C.L., and I.R.H.; StG ‘‘SexMeth,’’ X.F.), and a Sainsbury Charitable Foundation Studentship (A.R.B.).","language":[{"iso":"eng"}],"year":"2019","publication":"Current Biology","article_processing_charge":"No","extern":"1","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12190","abstract":[{"lang":"eng","text":"Meiotic crossover frequency varies within genomes, which influences genetic diversity and adaptation. In turn, genetic variation within populations can act to modify crossover frequency in cis and trans. To identify genetic variation that controls meiotic crossover frequency, we screened Arabidopsis accessions using fluorescent recombination reporters. We mapped a genetic modifier of crossover frequency in Col × Bur populations of Arabidopsis to a premature stop codon within TBP-ASSOCIATED FACTOR 4b (TAF4b), which encodes a subunit of the RNA polymerase II general transcription factor TFIID. The Arabidopsis taf4b mutation is a rare variant found in the British Isles, originating in South-West Ireland. Using genetics, genomics, and immunocytology, we demonstrate a genome-wide decrease in taf4b crossovers, with strongest reduction in the sub-telomeric regions. Using RNA sequencing (RNA-seq) from purified meiocytes, we show that TAF4b expression is meiocyte enriched, whereas its paralog TAF4 is broadly expressed. Consistent with the role of TFIID in promoting gene expression, RNA-seq of wild-type and taf4b meiocytes identified widespread transcriptional changes, including in genes that regulate the meiotic cell cycle and recombination. Therefore, TAF4b duplication is associated with acquisition of meiocyte-specific expression and promotion of germline transcription, which act directly or indirectly to elevate crossovers. This identifies a novel mode of meiotic recombination control via a general transcription factor."}],"publication_identifier":{"issn":["0960-9822"]},"volume":29,"external_id":{"pmid":["31378616"]},"author":[{"first_name":"Emma J.","last_name":"Lawrence","full_name":"Lawrence, Emma J."},{"last_name":"Gao","first_name":"Hongbo","full_name":"Gao, Hongbo"},{"first_name":"Andrew J.","last_name":"Tock","full_name":"Tock, Andrew J."},{"full_name":"Lambing, Christophe","first_name":"Christophe","last_name":"Lambing"},{"full_name":"Blackwell, Alexander R.","last_name":"Blackwell","first_name":"Alexander R."},{"id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234","last_name":"Feng","first_name":"Xiaoqi","full_name":"Feng, Xiaoqi"},{"last_name":"Henderson","first_name":"Ian R.","full_name":"Henderson, Ian R."}],"issue":"16","quality_controlled":"1","department":[{"_id":"XiFe"}],"keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"day":"19","date_created":"2023-01-16T09:16:33Z","status":"public","publisher":"Elsevier BV","page":"2676-2686.e3"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","month":"05","date_published":"2019-05-28T00:00:00Z","ddc":["580"],"article_number":"42530","has_accepted_license":"1","citation":{"ama":"He S, Vickers M, Zhang J, Feng X. Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation. <i>eLife</i>. 2019;8. doi:<a href=\"https://doi.org/10.7554/elife.42530\">10.7554/elife.42530</a>","mla":"He, Shengbo, et al. “Natural Depletion of Histone H1 in Sex Cells Causes DNA Demethylation, Heterochromatin Decondensation and Transposon Activation.” <i>ELife</i>, vol. 8, 42530, eLife Sciences Publications, Ltd, 2019, doi:<a href=\"https://doi.org/10.7554/elife.42530\">10.7554/elife.42530</a>.","ieee":"S. He, M. Vickers, J. Zhang, and X. Feng, “Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation,” <i>eLife</i>, vol. 8. eLife Sciences Publications, Ltd, 2019.","short":"S. He, M. Vickers, J. Zhang, X. Feng, ELife 8 (2019).","apa":"He, S., Vickers, M., Zhang, J., &#38; Feng, X. (2019). Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation. <i>ELife</i>. eLife Sciences Publications, Ltd. <a href=\"https://doi.org/10.7554/elife.42530\">https://doi.org/10.7554/elife.42530</a>","chicago":"He, Shengbo, Martin Vickers, Jingyi Zhang, and Xiaoqi Feng. “Natural Depletion of Histone H1 in Sex Cells Causes DNA Demethylation, Heterochromatin Decondensation and Transposon Activation.” <i>ELife</i>. eLife Sciences Publications, Ltd, 2019. <a href=\"https://doi.org/10.7554/elife.42530\">https://doi.org/10.7554/elife.42530</a>.","ista":"He S, Vickers M, Zhang J, Feng X. 2019. Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation. eLife. 8, 42530."},"date_updated":"2023-05-08T10:54:12Z","type":"journal_article","file_date_updated":"2023-02-07T09:42:46Z","oa_version":"Published Version","doi":"10.7554/elife.42530","article_type":"original","intvolume":"         8","title":"Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6594752/"}],"acknowledgement":"We thank David Twell for the pDONR-P4-P1R-pLAT52 and pDONR-P2R-P3-mRFP vectors, the John Innes Centre Bioimaging Facility (Elaine Barclay and Grant Calder) for their assistance with microscopy, and the Norwich BioScience Institute Partnership Computing infrastructure for Science Group for High Performance Computing resources. This work was funded by a Biotechnology and Biological Sciences Research Council (BBSRC) David Phillips Fellowship (BB/L025043/1; SH, JZ and XF), a European Research Council Starting Grant ('SexMeth' 804981; XF) and a Grant to Exceptional Researchers by the Gatsby Charitable Foundation (SH and XF).","year":"2019","language":[{"iso":"eng"}],"publication":"eLife","article_processing_charge":"No","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","_id":"12192","abstract":[{"text":"Transposable elements (TEs), the movement of which can damage the genome, are epigenetically silenced in eukaryotes. Intriguingly, TEs are activated in the sperm companion cell – vegetative cell (VC) – of the flowering plant Arabidopsis thaliana. However, the extent and mechanism of this activation are unknown. Here we show that about 100 heterochromatic TEs are activated in VCs, mostly by DEMETER-catalyzed DNA demethylation. We further demonstrate that DEMETER access to some of these TEs is permitted by the natural depletion of linker histone H1 in VCs. Ectopically expressed H1 suppresses TEs in VCs by reducing DNA demethylation and via a methylation-independent mechanism. We demonstrate that H1 is required for heterochromatin condensation in plant cells and show that H1 overexpression creates heterochromatic foci in the VC progenitor cell. Taken together, our results demonstrate that the natural depletion of H1 during male gametogenesis facilitates DEMETER-directed DNA demethylation, heterochromatin relaxation, and TE activation.","lang":"eng"}],"volume":8,"publication_identifier":{"issn":["2050-084X"]},"author":[{"first_name":"Shengbo","last_name":"He","full_name":"He, Shengbo"},{"full_name":"Vickers, Martin","last_name":"Vickers","first_name":"Martin"},{"full_name":"Zhang, Jingyi","first_name":"Jingyi","last_name":"Zhang"},{"first_name":"Xiaoqi","orcid":"0000-0002-4008-1234","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","full_name":"Feng, Xiaoqi"}],"external_id":{"unknown":["31135340"]},"oa":1,"quality_controlled":"1","keyword":["General Immunology and Microbiology","General Biochemistry","Genetics and Molecular Biology","General Medicine","General Neuroscience"],"department":[{"_id":"XiFe"}],"day":"28","status":"public","date_created":"2023-01-16T09:17:21Z","publisher":"eLife Sciences Publications, Ltd","file":[{"file_name":"2019_elife_He.pdf","access_level":"open_access","success":1,"checksum":"ea6b89c20d59e5eb3646916fe5d568ad","date_created":"2023-02-07T09:42:46Z","file_size":2493837,"content_type":"application/pdf","creator":"alisjak","date_updated":"2023-02-07T09:42:46Z","relation":"main_file","file_id":"12525"}]}]