[{"quality_controlled":"1","year":"2021","date_published":"2021-06-20T00:00:00Z","date_created":"2021-07-01T11:04:43Z","acknowledgement":"Peter Davies is supported by the European Union’s Horizon2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411.","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","department":[{"_id":"DaAl"}],"volume":12810,"isi":1,"publication_status":"published","oa":1,"scopus_import":"1","month":"06","language":[{"iso":"eng"}],"conference":{"location":"Wrocław, Poland","start_date":"2021-06-28","end_date":"2021-07-01","name":"SIROCCO: International Colloquium on Structural Information and Communication Complexity"},"oa_version":"Preprint","has_accepted_license":"1","publisher":"Springer Nature","alternative_title":["LNCS"],"title":"Collecting coupons is faster with friends","publication":"Structural Information and Communication Complexity","day":"20","ec_funded":1,"intvolume":"     12810","status":"public","ddc":["000"],"abstract":[{"text":"In this note, we introduce a distributed twist on the classic coupon collector problem: a set of m collectors wish to each obtain a set of n coupons; for this, they can each sample coupons uniformly at random, but can also meet in pairwise interactions, during which they can exchange coupons. By doing so, they hope to reduce the number of coupons that must be sampled by each collector in order to obtain a full set. This extension is natural when considering real-world manifestations of the coupon collector phenomenon, and has been remarked upon and studied empirically (Hayes and Hannigan 2006, Ahmad et al. 2014, Delmarcelle 2019).\r\n\r\nWe provide the first theoretical analysis for such a scenario. We find that “coupon collecting with friends” can indeed significantly reduce the number of coupons each collector must sample, and raises interesting connections to the more traditional variants of the problem. While our analysis is in most cases asymptotically tight, there are several open questions raised, regarding finer-grained analysis of both “coupon collecting with friends,” and of a long-studied variant of the original problem in which a collector requires multiple full sets of coupons.","lang":"eng"}],"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"}],"author":[{"full_name":"Alistarh, Dan-Adrian","first_name":"Dan-Adrian","last_name":"Alistarh","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X"},{"full_name":"Davies, Peter","first_name":"Peter","last_name":"Davies","id":"11396234-BB50-11E9-B24C-90FCE5697425","orcid":"0000-0002-5646-9524"}],"type":"conference","page":"3-12","article_processing_charge":"No","file":[{"date_updated":"2021-07-01T11:21:40Z","file_size":319728,"content_type":"application/pdf","relation":"main_file","checksum":"fe37fb9af3f5016c1084af9d6e7109bd","file_id":"9621","date_created":"2021-07-01T11:21:40Z","creator":"pdavies","access_level":"open_access","file_name":"Population_Coupon_Collector.pdf"}],"file_date_updated":"2021-07-01T11:21:40Z","_id":"9620","citation":{"ista":"Alistarh D-A, Davies P. 2021. Collecting coupons is faster with friends. Structural Information and Communication Complexity. SIROCCO: International Colloquium on Structural Information and Communication Complexity, LNCS, vol. 12810, 3–12.","ieee":"D.-A. Alistarh and P. Davies, “Collecting coupons is faster with friends,” in <i>Structural Information and Communication Complexity</i>, Wrocław, Poland, 2021, vol. 12810, pp. 3–12.","short":"D.-A. Alistarh, P. Davies, in:, Structural Information and Communication Complexity, Springer Nature, 2021, pp. 3–12.","chicago":"Alistarh, Dan-Adrian, and Peter Davies. “Collecting Coupons Is Faster with Friends.” In <i>Structural Information and Communication Complexity</i>, 12810:3–12. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-79527-6_1\">https://doi.org/10.1007/978-3-030-79527-6_1</a>.","mla":"Alistarh, Dan-Adrian, and Peter Davies. “Collecting Coupons Is Faster with Friends.” <i>Structural Information and Communication Complexity</i>, vol. 12810, Springer Nature, 2021, pp. 3–12, doi:<a href=\"https://doi.org/10.1007/978-3-030-79527-6_1\">10.1007/978-3-030-79527-6_1</a>.","ama":"Alistarh D-A, Davies P. Collecting coupons is faster with friends. In: <i>Structural Information and Communication Complexity</i>. Vol 12810. Springer Nature; 2021:3-12. doi:<a href=\"https://doi.org/10.1007/978-3-030-79527-6_1\">10.1007/978-3-030-79527-6_1</a>","apa":"Alistarh, D.-A., &#38; Davies, P. (2021). Collecting coupons is faster with friends. In <i>Structural Information and Communication Complexity</i> (Vol. 12810, pp. 3–12). Wrocław, Poland: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-79527-6_1\">https://doi.org/10.1007/978-3-030-79527-6_1</a>"},"publication_identifier":{"issn":["0302-9743"],"isbn":["9783030795269"],"eissn":["1611-3349"],"eisbn":["9783030795276"]},"doi":"10.1007/978-3-030-79527-6_1","external_id":{"isi":["001292788400001"]},"date_updated":"2025-09-10T10:04:46Z"},{"scopus_import":"1","month":"06","volume":20,"isi":1,"publication_status":"published","department":[{"_id":"MaIb"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_created":"2021-07-04T22:01:24Z","acknowledgement":"This work was supported by National Natural Science Foundation of China (51772012), National Key Research and Development Program of China (2018YFA0702100 and 2018YFB0703600), the Beijing Natural Science Foundation (JQ18004). This work was also supported by Lise Meitner Project (M2889-N) and the National Postdoctoral Program for Innovative Talents (BX20200028). L.D.Z. appreciates the support of the High Performance Computing (HPC) resources at Beihang University, the National Science Fund for Distinguished Young Scholars (51925101), and center for High Pressure Science and Technology Advanced Research (HPSTAR) for SEM measurements.","date_published":"2021-06-03T00:00:00Z","article_type":"original","quality_controlled":"1","year":"2021","external_id":{"isi":["000703159600010"]},"date_updated":"2024-10-09T21:00:40Z","article_processing_charge":"No","citation":{"ista":"Su L, Hong T, Wang D, Wang S, Qin B, Zhang M, Gao X, Chang C, Zhao LD. 2021. Realizing high doping efficiency and thermoelectric performance in n-type SnSe polycrystals via bandgap engineering and vacancy compensation. Materials Today Physics. 20, 100452.","ieee":"L. Su <i>et al.</i>, “Realizing high doping efficiency and thermoelectric performance in n-type SnSe polycrystals via bandgap engineering and vacancy compensation,” <i>Materials Today Physics</i>, vol. 20. Elsevier, 2021.","chicago":"Su, Lizhong, Tao Hong, Dongyang Wang, Sining Wang, Bingchao Qin, Mengmeng Zhang, Xiang Gao, Cheng Chang, and Li Dong Zhao. “Realizing High Doping Efficiency and Thermoelectric Performance in N-Type SnSe Polycrystals via Bandgap Engineering and Vacancy Compensation.” <i>Materials Today Physics</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.mtphys.2021.100452\">https://doi.org/10.1016/j.mtphys.2021.100452</a>.","short":"L. Su, T. Hong, D. Wang, S. Wang, B. Qin, M. Zhang, X. Gao, C. Chang, L.D. Zhao, Materials Today Physics 20 (2021).","mla":"Su, Lizhong, et al. “Realizing High Doping Efficiency and Thermoelectric Performance in N-Type SnSe Polycrystals via Bandgap Engineering and Vacancy Compensation.” <i>Materials Today Physics</i>, vol. 20, 100452, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.mtphys.2021.100452\">10.1016/j.mtphys.2021.100452</a>.","apa":"Su, L., Hong, T., Wang, D., Wang, S., Qin, B., Zhang, M., … Zhao, L. D. (2021). Realizing high doping efficiency and thermoelectric performance in n-type SnSe polycrystals via bandgap engineering and vacancy compensation. <i>Materials Today Physics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.mtphys.2021.100452\">https://doi.org/10.1016/j.mtphys.2021.100452</a>","ama":"Su L, Hong T, Wang D, et al. Realizing high doping efficiency and thermoelectric performance in n-type SnSe polycrystals via bandgap engineering and vacancy compensation. <i>Materials Today Physics</i>. 2021;20. doi:<a href=\"https://doi.org/10.1016/j.mtphys.2021.100452\">10.1016/j.mtphys.2021.100452</a>"},"_id":"9626","doi":"10.1016/j.mtphys.2021.100452","publication_identifier":{"eissn":["2542-5293"]},"author":[{"last_name":"Su","full_name":"Su, Lizhong","first_name":"Lizhong"},{"first_name":"Tao","full_name":"Hong, Tao","last_name":"Hong"},{"last_name":"Wang","first_name":"Dongyang","full_name":"Wang, Dongyang"},{"full_name":"Wang, Sining","first_name":"Sining","last_name":"Wang"},{"full_name":"Qin, Bingchao","first_name":"Bingchao","last_name":"Qin"},{"last_name":"Zhang","first_name":"Mengmeng","full_name":"Zhang, Mengmeng"},{"last_name":"Gao","full_name":"Gao, Xiang","first_name":"Xiang"},{"full_name":"Chang, Cheng","first_name":"Cheng","last_name":"Chang","id":"9E331C2E-9F27-11E9-AE48-5033E6697425","orcid":"0000-0002-9515-4277"},{"full_name":"Zhao, Li Dong","first_name":"Li Dong","last_name":"Zhao"}],"type":"journal_article","abstract":[{"text":"SnSe, a wide-bandgap semiconductor, has attracted significant attention from the thermoelectric (TE) community due to its outstanding TE performance deriving from the ultralow thermal conductivity and advantageous electronic structures. Here, we promoted the TE performance of n-type SnSe polycrystals through bandgap engineering and vacancy compensation. We found that PbTe can significantly reduce the wide bandgap of SnSe to reduce the impurity transition energy, largely enhancing the carrier concentration. Also, PbTe-induced crystal symmetry promotion increases the carrier mobility, preserving large Seebeck coefficient. Consequently, a maximum ZT of ∼1.4 at 793 K is obtained in Br doped SnSe–13%PbTe. Furthermore, we found that extra Sn in n-type SnSe can compensate for the intrinsic Sn vacancies and form electron donor-like metallic Sn nanophases. The Sn nanophases near the grain boundary could also reduce the intergrain energy barrier which largely enhances the carrier mobility. As a result, a maximum ZT value of ∼1.7 at 793 K and an average ZT (ZTave) of ∼0.58 in 300–793 K are achieved in Br doped Sn1.08Se–13%PbTe. Our findings provide a novel strategy to promote the TE performance in wide-bandgap semiconductors.","lang":"eng"}],"corr_author":"1","day":"03","status":"public","intvolume":"        20","publisher":"Elsevier","article_number":"100452","title":"Realizing high doping efficiency and thermoelectric performance in n-type SnSe polycrystals via bandgap engineering and vacancy compensation","publication":"Materials Today Physics","language":[{"iso":"eng"}],"oa_version":"None"},{"status":"public","intvolume":"        64","day":"01","arxiv":1,"abstract":[{"text":"We compute the deficiency spaces of operators of the form 𝐻𝐴⊗̂ 𝐼+𝐼⊗̂ 𝐻𝐵, for symmetric 𝐻𝐴 and self-adjoint 𝐻𝐵. This enables us to construct self-adjoint extensions (if they exist) by means of von Neumann's theory. The structure of the deficiency spaces for this case was asserted already in Ibort et al. [Boundary dynamics driven entanglement, J. Phys. A: Math. Theor. 47(38) (2014) 385301], but only proven under the restriction of 𝐻𝐵 having discrete, non-degenerate spectrum.","lang":"eng"}],"corr_author":"1","oa_version":"Published Version","language":[{"iso":"eng"}],"title":"Self-adjoint extensions of bipartite Hamiltonians","publication":"Proceedings of the Edinburgh Mathematical Society","publisher":"Cambridge University Press","doi":"10.1017/S0013091521000080","publication_identifier":{"issn":["0013-0915"],"eissn":["1464-3839"]},"article_processing_charge":"No","page":"443-447","citation":{"ista":"Lenz D, Weinmann T, Wirth M. 2021. Self-adjoint extensions of bipartite Hamiltonians. Proceedings of the Edinburgh Mathematical Society. 64(3), 443–447.","apa":"Lenz, D., Weinmann, T., &#38; Wirth, M. (2021). Self-adjoint extensions of bipartite Hamiltonians. <i>Proceedings of the Edinburgh Mathematical Society</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/S0013091521000080\">https://doi.org/10.1017/S0013091521000080</a>","ama":"Lenz D, Weinmann T, Wirth M. Self-adjoint extensions of bipartite Hamiltonians. <i>Proceedings of the Edinburgh Mathematical Society</i>. 2021;64(3):443-447. doi:<a href=\"https://doi.org/10.1017/S0013091521000080\">10.1017/S0013091521000080</a>","ieee":"D. Lenz, T. Weinmann, and M. Wirth, “Self-adjoint extensions of bipartite Hamiltonians,” <i>Proceedings of the Edinburgh Mathematical Society</i>, vol. 64, no. 3. Cambridge University Press, pp. 443–447, 2021.","chicago":"Lenz, Daniel, Timon Weinmann, and Melchior Wirth. “Self-Adjoint Extensions of Bipartite Hamiltonians.” <i>Proceedings of the Edinburgh Mathematical Society</i>. Cambridge University Press, 2021. <a href=\"https://doi.org/10.1017/S0013091521000080\">https://doi.org/10.1017/S0013091521000080</a>.","short":"D. Lenz, T. Weinmann, M. Wirth, Proceedings of the Edinburgh Mathematical Society 64 (2021) 443–447.","mla":"Lenz, Daniel, et al. “Self-Adjoint Extensions of Bipartite Hamiltonians.” <i>Proceedings of the Edinburgh Mathematical Society</i>, vol. 64, no. 3, Cambridge University Press, 2021, pp. 443–47, doi:<a href=\"https://doi.org/10.1017/S0013091521000080\">10.1017/S0013091521000080</a>."},"_id":"9627","date_updated":"2024-10-09T21:05:06Z","external_id":{"arxiv":["1912.03670"],"isi":["000721363700003"]},"author":[{"first_name":"Daniel","full_name":"Lenz, Daniel","last_name":"Lenz"},{"last_name":"Weinmann","full_name":"Weinmann, Timon","first_name":"Timon"},{"id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","last_name":"Wirth","orcid":"0000-0002-0519-4241","full_name":"Wirth, Melchior","first_name":"Melchior"}],"type":"journal_article","acknowledgement":"M. W. gratefully acknowledges financial support by the German Academic Scholarship Foundation (Studienstiftung des deutschen Volkes). T.W. thanks PAO Gazprom Neft, the Euler International Mathematical Institute in Saint Petersburg and ORISA GmbH for their financial support in the form of scholarships during his Master's and Bachelor's studies respectively. The authors want to thank Mark Malamud for pointing out the reference [1] to them. This work was supported by the Ministry of Science and Higher Education of the Russian Federation, agreement No 075-15-2019-1619.","date_created":"2021-07-04T22:01:24Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1017/S0013091521000080"}],"quality_controlled":"1","year":"2021","date_published":"2021-08-01T00:00:00Z","article_type":"original","issue":"3","oa":1,"scopus_import":"1","month":"08","department":[{"_id":"JaMa"}],"publication_status":"published","isi":1,"volume":64},{"month":"06","scopus_import":"1","oa":1,"publication_status":"published","volume":23,"isi":1,"department":[{"_id":"EdHa"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","acknowledgement":"We acknowledge the members of the Lennon-Duménil laboratory for sharing the mouse line of Myh9-GFP. We are grateful to the members of the Liberali laboratory and the FMI facilities for their support. We thank E. Tagliavini for IT support; L. Gelman for assistance and training; S. Bichet and A. Bogucki for helping with histology of mouse tissues; H. Kohler for fluorescence-activated cell sorting; G. Q. G. de Medeiros for maintenance of light-sheet microscopy; M. G. Stadler for scRNA-seq analysis; G. Gay for discussions on the 3D vertex model; the members of the Liberali laboratory, C. P. Heisenberg and C. Tsiairis for reading and providing feedback on the manuscript. Funding: Q.Y. is supported by a Postdoc fellowship from Peter und Taul Engelhorn Stiftung (PTES). This work received funding from the European Research Council (ERC) under the EU Horizon 2020 research and Innovation Programme Grant Agreement no. 758617 (to P.L.), the Swiss National Foundation (SNF) (POOP3_157531, to P.L.) and from the ERC under the EU Horizon 2020 Research and Innovation Program Grant Agreements 851288 (to E.H.) and the Austrian Science Fund (FWF) (P31639, to E.H.).","date_created":"2021-07-04T22:01:25Z","article_type":"original","date_published":"2021-06-21T00:00:00Z","main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/10.1101/2020.05.13.094359"}],"quality_controlled":"1","year":"2021","date_updated":"2025-04-14T07:52:26Z","external_id":{"isi":["000664016300003"],"pmid":["34155381"]},"doi":"10.1038/s41556-021-00700-2","publication_identifier":{"eissn":["1476-4679"],"issn":["1465-7392"]},"article_processing_charge":"No","page":"733–744","_id":"9629","citation":{"ista":"Yang Q, Xue S, Chan CJ, Rempfler M, Vischi D, Maurer-Gutierrez F, Hiiragi T, Hannezo EB, Liberali P. 2021. Cell fate coordinates mechano-osmotic forces in intestinal crypt formation. Nature Cell Biology. 23, 733–744.","mla":"Yang, Qiutan, et al. “Cell Fate Coordinates Mechano-Osmotic Forces in Intestinal Crypt Formation.” <i>Nature Cell Biology</i>, vol. 23, Springer Nature, 2021, pp. 733–744, doi:<a href=\"https://doi.org/10.1038/s41556-021-00700-2\">10.1038/s41556-021-00700-2</a>.","chicago":"Yang, Qiutan, Shi-lei Xue, Chii Jou Chan, Markus Rempfler, Dario Vischi, Francisca Maurer-Gutierrez, Takashi Hiiragi, Edouard B Hannezo, and Prisca Liberali. “Cell Fate Coordinates Mechano-Osmotic Forces in Intestinal Crypt Formation.” <i>Nature Cell Biology</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41556-021-00700-2\">https://doi.org/10.1038/s41556-021-00700-2</a>.","short":"Q. Yang, S. Xue, C.J. Chan, M. Rempfler, D. Vischi, F. Maurer-Gutierrez, T. Hiiragi, E.B. Hannezo, P. Liberali, Nature Cell Biology 23 (2021) 733–744.","ieee":"Q. Yang <i>et al.</i>, “Cell fate coordinates mechano-osmotic forces in intestinal crypt formation,” <i>Nature Cell Biology</i>, vol. 23. Springer Nature, pp. 733–744, 2021.","ama":"Yang Q, Xue S, Chan CJ, et al. Cell fate coordinates mechano-osmotic forces in intestinal crypt formation. <i>Nature Cell Biology</i>. 2021;23:733–744. doi:<a href=\"https://doi.org/10.1038/s41556-021-00700-2\">10.1038/s41556-021-00700-2</a>","apa":"Yang, Q., Xue, S., Chan, C. J., Rempfler, M., Vischi, D., Maurer-Gutierrez, F., … Liberali, P. (2021). Cell fate coordinates mechano-osmotic forces in intestinal crypt formation. <i>Nature Cell Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41556-021-00700-2\">https://doi.org/10.1038/s41556-021-00700-2</a>"},"pmid":1,"author":[{"first_name":"Qiutan","full_name":"Yang, Qiutan","last_name":"Yang"},{"id":"31D2C804-F248-11E8-B48F-1D18A9856A87","last_name":"Xue","full_name":"Xue, Shi-lei","first_name":"Shi-lei"},{"last_name":"Chan","full_name":"Chan, Chii Jou","first_name":"Chii Jou"},{"last_name":"Rempfler","full_name":"Rempfler, Markus","first_name":"Markus"},{"first_name":"Dario","full_name":"Vischi, Dario","last_name":"Vischi"},{"full_name":"Maurer-Gutierrez, Francisca","first_name":"Francisca","last_name":"Maurer-Gutierrez"},{"full_name":"Hiiragi, Takashi","first_name":"Takashi","last_name":"Hiiragi"},{"orcid":"0000-0001-6005-1561","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","first_name":"Edouard B","full_name":"Hannezo, Edouard B"},{"first_name":"Prisca","full_name":"Liberali, Prisca","last_name":"Liberali"}],"type":"journal_article","project":[{"call_identifier":"H2020","name":"Design Principles of Branching Morphogenesis","grant_number":"851288","_id":"05943252-7A3F-11EA-A408-12923DDC885E"},{"grant_number":"P31639","call_identifier":"FWF","name":"Active mechano-chemical description of the cell cytoskeleton","_id":"268294B6-B435-11E9-9278-68D0E5697425"}],"corr_author":"1","abstract":[{"text":"Intestinal organoids derived from single cells undergo complex crypt–villus patterning and morphogenesis. However, the nature and coordination of the underlying forces remains poorly characterized. Here, using light-sheet microscopy and large-scale imaging quantification, we demonstrate that crypt formation coincides with a stark reduction in lumen volume. We develop a 3D biophysical model to computationally screen different mechanical scenarios of crypt morphogenesis. Combining this with live-imaging data and multiple mechanical perturbations, we show that actomyosin-driven crypt apical contraction and villus basal tension work synergistically with lumen volume reduction to drive crypt morphogenesis, and demonstrate the existence of a critical point in differential tensions above which crypt morphology becomes robust to volume changes. Finally, we identified a sodium/glucose cotransporter that is specific to differentiated enterocytes that modulates lumen volume reduction through cell swelling in the villus region. Together, our study uncovers the cellular basis of how cell fate modulates osmotic and actomyosin forces to coordinate robust morphogenesis.","lang":"eng"}],"status":"public","intvolume":"        23","day":"21","ec_funded":1,"title":"Cell fate coordinates mechano-osmotic forces in intestinal crypt formation","publication":"Nature Cell Biology","publisher":"Springer Nature","oa_version":"Preprint","language":[{"iso":"eng"}]},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"year":"2021","oa_version":"Submitted Version","has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","date_published":"2021-01-01T00:00:00Z","title":"Data for \"Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid\"","date_created":"2021-07-07T20:43:10Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"AnHi"}],"license":"https://creativecommons.org/licenses/by-nc/4.0/","author":[{"first_name":"Andrew P","full_name":"Higginbotham, Andrew P","orcid":"0000-0003-2607-2363","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","last_name":"Higginbotham"}],"related_material":{"record":[{"id":"10029","relation":"used_in_publication","status":"public"}]},"type":"research_data","file_date_updated":"2021-07-07T20:37:28Z","file":[{"creator":"ahigginb","access_level":"open_access","success":1,"file_name":"figures_data.zip","content_type":"application/zip","date_updated":"2021-07-07T20:37:28Z","file_size":3345244,"checksum":"18e90687ec7bbd75f8bfea4d8293fb30","file_id":"9637","date_created":"2021-07-07T20:37:28Z","relation":"main_file"}],"article_processing_charge":"No","_id":"9636","oa":1,"citation":{"ista":"Higginbotham AP. 2021. Data for ‘Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid’, Institute of Science and Technology Austria.","ama":"Higginbotham AP. Data for “Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid.” 2021.","apa":"Higginbotham, A. P. (2021). Data for “Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid.” Institute of Science and Technology Austria.","ieee":"A. P. Higginbotham, “Data for ‘Breakdown of induced p ± ip pairing in a superconductor-semiconductor hybrid.’” Institute of Science and Technology Austria, 2021.","mla":"Higginbotham, Andrew P. <i>Data for “Breakdown of Induced p ± Ip Pairing in a Superconductor-Semiconductor Hybrid.”</i> Institute of Science and Technology Austria, 2021.","short":"A.P. Higginbotham, (2021).","chicago":"Higginbotham, Andrew P. “Data for ‘Breakdown of Induced p ± Ip Pairing in a Superconductor-Semiconductor Hybrid.’” Institute of Science and Technology Austria, 2021."},"date_updated":"2025-04-15T06:54:43Z"},{"article_number":"107486","title":"The role of hippocampal mossy cells in novelty detection","publication":"Neurobiology of Learning and Memory","has_accepted_license":"1","publisher":"Elsevier","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"language":[{"iso":"eng"}],"ddc":["610"],"abstract":[{"text":"At the encounter with a novel environment, contextual memory formation is greatly enhanced, accompanied with increased arousal and active exploration. Although this phenomenon has been widely observed in animal and human daily life, how the novelty in the environment is detected and contributes to contextual memory formation has lately started to be unveiled. The hippocampus has been studied for many decades for its largely known roles in encoding spatial memory, and a growing body of evidence indicates a differential involvement of dorsal and ventral hippocampal divisions in novelty detection. In this brief review article, we discuss the recent findings of the role of mossy cells in the ventral hippocampal moiety in novelty detection and put them in perspective with other novelty-related pathways in the hippocampus. We propose a mechanism for novelty-driven memory acquisition in the dentate gyrus by the direct projection of ventral mossy cells to dorsal dentate granule cells. By this projection, the ventral hippocampus sends novelty signals to the dorsal hippocampus, opening a gate for memory encoding in dentate granule cells based on information coming from the entorhinal cortex. We conclude that, contrary to the presently accepted functional independence, the dorsal and ventral hippocampi cooperate to link the novelty and contextual information, and this dorso-ventral interaction is crucial for the novelty-dependent memory formation.","lang":"eng"}],"status":"public","intvolume":"       183","day":"30","ec_funded":1,"author":[{"last_name":"Fredes","first_name":"Felipe","full_name":"Fredes, Felipe"},{"orcid":"0000-0001-8761-9444","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","first_name":"Ryuichi","full_name":"Shigemoto, Ryuichi"}],"type":"journal_article","project":[{"_id":"25CA28EA-B435-11E9-9278-68D0E5697425","grant_number":"694539","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","call_identifier":"H2020"}],"date_updated":"2025-07-10T12:02:00Z","external_id":{"isi":["000677694900004"],"pmid":["34214666"]},"publication_identifier":{"issn":["1074-7427"],"eissn":["1095-9564"]},"doi":"10.1016/j.nlm.2021.107486","article_processing_charge":"No","file_date_updated":"2021-07-19T13:46:06Z","file":[{"relation":"main_file","checksum":"8e8298a9e8c7df146ad23f32c2a63929","file_id":"9694","date_created":"2021-07-19T13:46:06Z","date_updated":"2021-07-19T13:46:06Z","file_size":1994793,"content_type":"application/pdf","success":1,"file_name":"2021_NeurobLearnMemory_Fredes.pdf","access_level":"open_access","creator":"cziletti"}],"pmid":1,"_id":"9641","citation":{"ista":"Fredes F, Shigemoto R. 2021. The role of hippocampal mossy cells in novelty detection. Neurobiology of Learning and Memory. 183, 107486.","ama":"Fredes F, Shigemoto R. The role of hippocampal mossy cells in novelty detection. <i>Neurobiology of Learning and Memory</i>. 2021;183. doi:<a href=\"https://doi.org/10.1016/j.nlm.2021.107486\">10.1016/j.nlm.2021.107486</a>","apa":"Fredes, F., &#38; Shigemoto, R. (2021). The role of hippocampal mossy cells in novelty detection. <i>Neurobiology of Learning and Memory</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.nlm.2021.107486\">https://doi.org/10.1016/j.nlm.2021.107486</a>","ieee":"F. Fredes and R. Shigemoto, “The role of hippocampal mossy cells in novelty detection,” <i>Neurobiology of Learning and Memory</i>, vol. 183. Elsevier, 2021.","mla":"Fredes, Felipe, and Ryuichi Shigemoto. “The Role of Hippocampal Mossy Cells in Novelty Detection.” <i>Neurobiology of Learning and Memory</i>, vol. 183, 107486, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.nlm.2021.107486\">10.1016/j.nlm.2021.107486</a>.","chicago":"Fredes, Felipe, and Ryuichi Shigemoto. “The Role of Hippocampal Mossy Cells in Novelty Detection.” <i>Neurobiology of Learning and Memory</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.nlm.2021.107486\">https://doi.org/10.1016/j.nlm.2021.107486</a>.","short":"F. Fredes, R. Shigemoto, Neurobiology of Learning and Memory 183 (2021)."},"article_type":"original","date_published":"2021-06-30T00:00:00Z","quality_controlled":"1","year":"2021","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"This work was supported by a European Research Council Advanced Grant 694539 to Ryuichi Shigemoto.","date_created":"2021-07-11T22:01:16Z","publication_status":"published","isi":1,"volume":183,"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","department":[{"_id":"RySh"}],"month":"06","scopus_import":"1","oa":1},{"date_created":"2021-07-11T22:01:17Z","acknowledgement":"This research was partially supported by the ERC CoG 863818 (ForM-SMArt), the National Natural Science Foundation of China (NSFC) Grant No. 61802254, the Huawei Innovation Research Program, the Facebook PhD Fellowship Program, and DOC Fellowship No. 24956 of the Austrian Academy of Sciences (ÖAW).","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2021","main_file_link":[{"open_access":"1","url":"https://hal.archives-ouvertes.fr/hal-03183862/"}],"quality_controlled":"1","date_published":"2021-06-01T00:00:00Z","oa":1,"scopus_import":"1","month":"06","department":[{"_id":"KrCh"}],"isi":1,"publication_status":"published","ec_funded":1,"day":"01","status":"public","abstract":[{"lang":"eng","text":"We consider the fundamental problem of reachability analysis over imperative programs with real variables. Previous works that tackle reachability are either unable to handle programs consisting of general loops (e.g. symbolic execution), or lack completeness guarantees (e.g. abstract interpretation), or are not automated (e.g. incorrectness logic). In contrast, we propose a novel approach for reachability analysis that can handle general and complex loops, is complete, and can be entirely automated for a wide family of programs. Through the notion of Inductive Reachability Witnesses (IRWs), our approach extends ideas from both invariant generation and termination to reachability analysis.\r\n\r\nWe first show that our IRW-based approach is sound and complete for reachability analysis of imperative programs. Then, we focus on linear and polynomial programs and develop automated methods for synthesizing linear and polynomial IRWs. In the linear case, we follow the well-known approaches using Farkas' Lemma. Our main contribution is in the polynomial case, where we present a push-button semi-complete algorithm. We achieve this using a novel combination of classical theorems in real algebraic geometry, such as Putinar's Positivstellensatz and Hilbert's Strong Nullstellensatz. Finally, our experimental results show we can prove complex reachability objectives over various benchmarks that were beyond the reach of previous methods."}],"language":[{"iso":"eng"}],"oa_version":"Submitted Version","conference":{"start_date":"2021-06-20","end_date":"2021-06-26","name":"PLDI: Programming Language Design and Implementation","location":"Online"},"publisher":"Association for Computing Machinery","publication":"Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation","title":"Polynomial reachability witnesses via Stellensätze","citation":{"ista":"Asadi A, Chatterjee K, Fu H, Goharshady AK, Mahdavi M. 2021. Polynomial reachability witnesses via Stellensätze. Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation. PLDI: Programming Language Design and Implementation, 772–787.","ieee":"A. Asadi, K. Chatterjee, H. Fu, A. K. Goharshady, and M. Mahdavi, “Polynomial reachability witnesses via Stellensätze,” in <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>, Online, 2021, pp. 772–787.","short":"A. Asadi, K. Chatterjee, H. Fu, A.K. Goharshady, M. Mahdavi, in:, Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation, Association for Computing Machinery, 2021, pp. 772–787.","chicago":"Asadi, Ali, Krishnendu Chatterjee, Hongfei Fu, Amir Kafshdar Goharshady, and Mohammad Mahdavi. “Polynomial Reachability Witnesses via Stellensätze.” In <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>, 772–87. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3453483.3454076\">https://doi.org/10.1145/3453483.3454076</a>.","mla":"Asadi, Ali, et al. “Polynomial Reachability Witnesses via Stellensätze.” <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>, Association for Computing Machinery, 2021, pp. 772–87, doi:<a href=\"https://doi.org/10.1145/3453483.3454076\">10.1145/3453483.3454076</a>.","ama":"Asadi A, Chatterjee K, Fu H, Goharshady AK, Mahdavi M. Polynomial reachability witnesses via Stellensätze. In: <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>. Association for Computing Machinery; 2021:772-787. doi:<a href=\"https://doi.org/10.1145/3453483.3454076\">10.1145/3453483.3454076</a>","apa":"Asadi, A., Chatterjee, K., Fu, H., Goharshady, A. K., &#38; Mahdavi, M. (2021). Polynomial reachability witnesses via Stellensätze. In <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i> (pp. 772–787). Online: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3453483.3454076\">https://doi.org/10.1145/3453483.3454076</a>"},"_id":"9645","article_processing_charge":"No","page":"772-787","doi":"10.1145/3453483.3454076","publication_identifier":{"isbn":["9781450383912"]},"external_id":{"isi":["000723661700050"]},"date_updated":"2025-07-10T12:02:00Z","project":[{"_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","grant_number":"863818","name":"Formal Methods for Stochastic Models: Algorithms and Applications","call_identifier":"H2020"},{"name":"Quantitative Analysis of Probabilistic Systems with a focus on Crypto-Currencies","_id":"267066CE-B435-11E9-9278-68D0E5697425"}],"type":"conference","author":[{"last_name":"Asadi","first_name":"Ali","full_name":"Asadi, Ali"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu"},{"first_name":"Hongfei","full_name":"Fu, Hongfei","last_name":"Fu","id":"3AAD03D6-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Amir Kafshdar","full_name":"Goharshady, Amir Kafshdar","orcid":"0000-0003-1702-6584","last_name":"Goharshady","id":"391365CE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Mohammad","full_name":"Mahdavi, Mohammad","last_name":"Mahdavi"}]},{"arxiv":1,"abstract":[{"text":"We consider the fundamental problem of deriving quantitative bounds on the probability that a given assertion is violated in a probabilistic program. We provide automated algorithms that obtain both lower and upper bounds on the assertion violation probability. The main novelty of our approach is that we prove new and dedicated fixed-point theorems which serve as the theoretical basis of our algorithms and enable us to reason about assertion violation bounds in terms of pre and post fixed-point functions. To synthesize such fixed-points, we devise algorithms that utilize a wide range of mathematical tools, including repulsing ranking supermartingales, Hoeffding's lemma, Minkowski decompositions, Jensen's inequality, and convex optimization. On the theoretical side, we provide (i) the first automated algorithm for lower-bounds on assertion violation probabilities, (ii) the first complete algorithm for upper-bounds of exponential form in affine programs, and (iii) provably and significantly tighter upper-bounds than the previous approaches. On the practical side, we show our algorithms can handle a wide variety of programs from the literature and synthesize bounds that are remarkably tighter than previous results, in some cases by thousands of orders of magnitude.","lang":"eng"}],"day":"01","ec_funded":1,"status":"public","publisher":"Association for Computing Machinery","title":"Quantitative analysis of assertion violations in probabilistic programs","publication":"Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation","language":[{"iso":"eng"}],"conference":{"location":"Online","end_date":"2021-06-26","name":"PLDI: Programming Language Design and Implementation","start_date":"2021-06-20"},"oa_version":"Preprint","external_id":{"arxiv":["2011.14617"],"isi":["000723661700076"]},"date_updated":"2025-04-15T07:55:05Z","page":"1171-1186","article_processing_charge":"No","_id":"9646","citation":{"ista":"Wang J, Sun Y, Fu H, Chatterjee K, Goharshady AK. 2021. Quantitative analysis of assertion violations in probabilistic programs. Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation. PLDI: Programming Language Design and Implementation, 1171–1186.","apa":"Wang, J., Sun, Y., Fu, H., Chatterjee, K., &#38; Goharshady, A. K. (2021). Quantitative analysis of assertion violations in probabilistic programs. In <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i> (pp. 1171–1186). Online: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3453483.3454102\">https://doi.org/10.1145/3453483.3454102</a>","ama":"Wang J, Sun Y, Fu H, Chatterjee K, Goharshady AK. Quantitative analysis of assertion violations in probabilistic programs. In: <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>. Association for Computing Machinery; 2021:1171-1186. doi:<a href=\"https://doi.org/10.1145/3453483.3454102\">10.1145/3453483.3454102</a>","mla":"Wang, Jinyi, et al. “Quantitative Analysis of Assertion Violations in Probabilistic Programs.” <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>, Association for Computing Machinery, 2021, pp. 1171–86, doi:<a href=\"https://doi.org/10.1145/3453483.3454102\">10.1145/3453483.3454102</a>.","short":"J. Wang, Y. Sun, H. Fu, K. Chatterjee, A.K. Goharshady, in:, Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation, Association for Computing Machinery, 2021, pp. 1171–1186.","chicago":"Wang, Jinyi, Yican Sun, Hongfei Fu, Krishnendu Chatterjee, and Amir Kafshdar Goharshady. “Quantitative Analysis of Assertion Violations in Probabilistic Programs.” In <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>, 1171–86. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3453483.3454102\">https://doi.org/10.1145/3453483.3454102</a>.","ieee":"J. Wang, Y. Sun, H. Fu, K. Chatterjee, and A. K. Goharshady, “Quantitative analysis of assertion violations in probabilistic programs,” in <i>Proceedings of the 42nd ACM SIGPLAN International Conference on Programming Language Design and Implementation</i>, Online, 2021, pp. 1171–1186."},"publication_identifier":{"isbn":["9781450383912"]},"doi":"10.1145/3453483.3454102","project":[{"call_identifier":"H2020","name":"Formal Methods for Stochastic Models: Algorithms and Applications","grant_number":"863818","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E"},{"_id":"267066CE-B435-11E9-9278-68D0E5697425","name":"Quantitative Analysis of Probabilistic Systems with a focus on Crypto-Currencies"}],"author":[{"last_name":"Wang","full_name":"Wang, Jinyi","first_name":"Jinyi"},{"last_name":"Sun","first_name":"Yican","full_name":"Sun, Yican"},{"last_name":"Fu","id":"3AAD03D6-F248-11E8-B48F-1D18A9856A87","full_name":"Fu, Hongfei","first_name":"Hongfei"},{"first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee"},{"full_name":"Goharshady, Amir Kafshdar","first_name":"Amir Kafshdar","id":"391365CE-F248-11E8-B48F-1D18A9856A87","last_name":"Goharshady","orcid":"0000-0003-1702-6584"}],"type":"conference","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_created":"2021-07-11T22:01:18Z","acknowledgement":"We are very thankful to the anonymous reviewers for the helpful and valuable comments. The work was partially supported by the National Natural Science Foundation of China (NSFC) Grant No. 61802254, the Huawei Innovation Research Program, the ERC CoG 863818 (ForM-SMArt), the Facebook PhD Fellowship Program and DOC Fellowship #24956 of the Austrian Academy of Sciences (ÖAW).","date_published":"2021-06-01T00:00:00Z","quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/2011.14617","open_access":"1"}],"year":"2021","month":"06","scopus_import":"1","oa":1,"isi":1,"publication_status":"published","department":[{"_id":"KrCh"}]},{"acknowledgement":"Tatjana Petrov’s research was supported in part by SNSF Advanced Postdoctoral Mobility Fellowship grant number P300P2 161067, the Ministry of Science, Research and the Arts of the state of Baden-Wurttemberg, and the DFG Centre of Excellence 2117 ‘Centre for the Advanced Study of Collective Behaviour’ (ID: 422037984). Claudia Igler is the recipient of a DOC Fellowship of the Austrian Academy of Sciences. Thomas A. Henzinger’s research was supported in part by the Austrian Science Fund (FWF) under grant Z211-N23 (Wittgenstein Award).","date_created":"2021-07-11T22:01:18Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","year":"2021","article_type":"original","date_published":"2021-06-04T00:00:00Z","oa":1,"month":"06","scopus_import":"1","department":[{"_id":"ToHe"},{"_id":"CaGu"}],"publication_status":"published","volume":893,"isi":1,"intvolume":"       893","status":"public","day":"04","ddc":["004"],"corr_author":"1","abstract":[{"lang":"eng","text":"Gene expression is regulated by the set of transcription factors (TFs) that bind to the promoter. The ensuing regulating function is often represented as a combinational logic circuit, where output (gene expression) is determined by current input values (promoter bound TFs) only. However, the simultaneous arrival of TFs is a strong assumption, since transcription and translation of genes introduce intrinsic time delays and there is no global synchronisation among the arrival times of different molecular species at their targets. We present an experimentally implementable genetic circuit with two inputs and one output, which in the presence of small delays in input arrival, exhibits qualitatively distinct population-level phenotypes, over timescales that are longer than typical cell doubling times. From a dynamical systems point of view, these phenotypes represent long-lived transients: although they converge to the same value eventually, they do so after a very long time span. The key feature of this toy model genetic circuit is that, despite having only two inputs and one output, it is regulated by twenty-three distinct DNA-TF configurations, two of which are more stable than others (DNA looped states), one promoting and another blocking the expression of the output gene. Small delays in input arrival time result in a majority of cells in the population quickly reaching the stable state associated with the first input, while exiting of this stable state occurs at a slow timescale. In order to mechanistically model the behaviour of this genetic circuit, we used a rule-based modelling language, and implemented a grid-search to find parameter combinations giving rise to long-lived transients. Our analysis shows that in the absence of feedback, there exist path-dependent gene regulatory mechanisms based on the long timescale of transients. The behaviour of this toy model circuit suggests that gene regulatory networks can exploit event timing to create phenotypes, and it opens the possibility that they could use event timing to memorise events, without regulatory feedback. The model reveals the importance of (i) mechanistically modelling the transitions between the different DNA-TF states, and (ii) employing transient analysis thereof."}],"oa_version":"Published Version","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"title":"Long lived transients in gene regulation","publication":"Theoretical Computer Science","has_accepted_license":"1","publisher":"Elsevier","doi":"10.1016/j.tcs.2021.05.023","publication_identifier":{"issn":["0304-3975"]},"file":[{"date_updated":"2022-05-12T12:13:27Z","file_size":2566504,"content_type":"application/pdf","relation":"main_file","checksum":"d3aef34cfb13e53bba4cf44d01680793","file_id":"11364","date_created":"2022-05-12T12:13:27Z","creator":"dernst","access_level":"open_access","success":1,"file_name":"2021_TheoreticalComputerScience_Petrov.pdf"}],"article_processing_charge":"No","file_date_updated":"2022-05-12T12:13:27Z","page":"1-16","citation":{"ista":"Petrov T, Igler C, Sezgin A, Henzinger TA, Guet CC. 2021. Long lived transients in gene regulation. Theoretical Computer Science. 893, 1–16.","ieee":"T. Petrov, C. Igler, A. Sezgin, T. A. Henzinger, and C. C. Guet, “Long lived transients in gene regulation,” <i>Theoretical Computer Science</i>, vol. 893. Elsevier, pp. 1–16, 2021.","mla":"Petrov, Tatjana, et al. “Long Lived Transients in Gene Regulation.” <i>Theoretical Computer Science</i>, vol. 893, Elsevier, 2021, pp. 1–16, doi:<a href=\"https://doi.org/10.1016/j.tcs.2021.05.023\">10.1016/j.tcs.2021.05.023</a>.","short":"T. Petrov, C. Igler, A. Sezgin, T.A. Henzinger, C.C. Guet, Theoretical Computer Science 893 (2021) 1–16.","chicago":"Petrov, Tatjana, Claudia Igler, Ali Sezgin, Thomas A Henzinger, and Calin C Guet. “Long Lived Transients in Gene Regulation.” <i>Theoretical Computer Science</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.tcs.2021.05.023\">https://doi.org/10.1016/j.tcs.2021.05.023</a>.","ama":"Petrov T, Igler C, Sezgin A, Henzinger TA, Guet CC. Long lived transients in gene regulation. <i>Theoretical Computer Science</i>. 2021;893:1-16. doi:<a href=\"https://doi.org/10.1016/j.tcs.2021.05.023\">10.1016/j.tcs.2021.05.023</a>","apa":"Petrov, T., Igler, C., Sezgin, A., Henzinger, T. A., &#38; Guet, C. C. (2021). Long lived transients in gene regulation. <i>Theoretical Computer Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tcs.2021.05.023\">https://doi.org/10.1016/j.tcs.2021.05.023</a>"},"_id":"9647","date_updated":"2025-04-15T06:25:56Z","external_id":{"isi":["000710180500002"]},"author":[{"full_name":"Petrov, Tatjana","first_name":"Tatjana","last_name":"Petrov"},{"last_name":"Igler","id":"46613666-F248-11E8-B48F-1D18A9856A87","first_name":"Claudia","full_name":"Igler, Claudia"},{"last_name":"Sezgin","id":"4C7638DA-F248-11E8-B48F-1D18A9856A87","full_name":"Sezgin, Ali","first_name":"Ali"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","orcid":"0000-0002-2985-7724","full_name":"Henzinger, Thomas A","first_name":"Thomas A"},{"full_name":"Guet, Calin C","first_name":"Calin C","last_name":"Guet","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6220-2052"}],"type":"journal_article","project":[{"call_identifier":"FWF","name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425"}]},{"date_updated":"2025-04-14T07:45:00Z","external_id":{"pmid":["34254313"],"isi":["000680587100001"]},"doi":"10.1111/nph.17617","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"pmid":1,"_id":"9656","citation":{"apa":"Han, H., Adamowski, M., Qi, L., Alotaibi, S., &#38; Friml, J. (2021). PIN-mediated polar auxin transport regulations in plant tropic responses. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.17617\">https://doi.org/10.1111/nph.17617</a>","ama":"Han H, Adamowski M, Qi L, Alotaibi S, Friml J. PIN-mediated polar auxin transport regulations in plant tropic responses. <i>New Phytologist</i>. 2021;232(2):510-522. doi:<a href=\"https://doi.org/10.1111/nph.17617\">10.1111/nph.17617</a>","mla":"Han, Huibin, et al. “PIN-Mediated Polar Auxin Transport Regulations in Plant Tropic Responses.” <i>New Phytologist</i>, vol. 232, no. 2, Wiley, 2021, pp. 510–22, doi:<a href=\"https://doi.org/10.1111/nph.17617\">10.1111/nph.17617</a>.","short":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, J. Friml, New Phytologist 232 (2021) 510–522.","chicago":"Han, Huibin, Maciek Adamowski, Linlin Qi, SS Alotaibi, and Jiří Friml. “PIN-Mediated Polar Auxin Transport Regulations in Plant Tropic Responses.” <i>New Phytologist</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/nph.17617\">https://doi.org/10.1111/nph.17617</a>.","ieee":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, and J. Friml, “PIN-mediated polar auxin transport regulations in plant tropic responses,” <i>New Phytologist</i>, vol. 232, no. 2. Wiley, pp. 510–522, 2021.","ista":"Han H, Adamowski M, Qi L, Alotaibi S, Friml J. 2021. PIN-mediated polar auxin transport regulations in plant tropic responses. New Phytologist. 232(2), 510–522."},"article_processing_charge":"Yes (via OA deal)","file":[{"creator":"kschuh","access_level":"open_access","success":1,"file_name":"2021_NewPhytologist_Han.pdf","file_size":1939800,"date_updated":"2021-10-07T13:42:47Z","content_type":"application/pdf","relation":"main_file","file_id":"10105","date_created":"2021-10-07T13:42:47Z","checksum":"6422a6eb329b52d96279daaee0fcf189"}],"file_date_updated":"2021-10-07T13:42:47Z","page":"510-522","type":"journal_article","author":[{"id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han","full_name":"Han, Huibin","first_name":"Huibin"},{"first_name":"Maciek","full_name":"Adamowski, Maciek","orcid":"0000-0001-6463-5257","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","last_name":"Adamowski"},{"full_name":"Qi, Linlin","first_name":"Linlin","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","last_name":"Qi","orcid":"0000-0001-5187-8401"},{"last_name":"Alotaibi","first_name":"SS","full_name":"Alotaibi, SS"},{"first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","grant_number":"I03630"}],"abstract":[{"lang":"eng","text":"Tropisms, growth responses to environmental stimuli such as light or gravity, are spectacular examples of adaptive plant development. The plant hormone auxin serves as a major coordinative signal. The PIN auxin exporters, through their dynamic polar subcellular localizations, redirect auxin fluxes in response to environmental stimuli and the resulting auxin gradients across organs underly differential cell elongation and bending. In this review, we discuss recent advances concerning regulations of PIN polarity during tropisms, focusing on PIN phosphorylation and trafficking. We also cover how environmental cues regulate PIN actions during tropisms, and a crucial role of auxin feedback on PIN polarity during bending termination. Finally, the interactions between different tropisms are reviewed to understand plant adaptive growth in the natural environment."}],"corr_author":"1","ddc":["580"],"intvolume":"       232","status":"public","ec_funded":1,"day":"01","publication":"New Phytologist","title":"PIN-mediated polar auxin transport regulations in plant tropic responses","has_accepted_license":"1","publisher":"Wiley","oa_version":"Published Version","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","month":"10","oa":1,"publication_status":"published","volume":232,"isi":1,"license":"https://creativecommons.org/licenses/by/4.0/","department":[{"_id":"JiFr"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","acknowledgement":"We are grateful to Lukas Fiedler, Alexandra Mally (IST Austria) and Dr. Bartel Vanholme (VIB, Ghent) for their critical comments on the manuscript. We apologize to those researchers whose great work was not cited. This work is supported by the European Research Council under the European Union’s Horizon 2020 research and innovation Programme (ERC grant agreement number 742985), and the Austrian Science Fund (FWF, grant number I 3630-B25) to JF. HH is supported by the China Scholarship Council (CSC scholarship, 201506870018) and a starting grant from Jiangxi Agriculture University (9232308314).","date_created":"2021-07-14T15:29:14Z","article_type":"original","date_published":"2021-10-01T00:00:00Z","issue":"2","year":"2021","quality_controlled":"1"},{"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"language":[{"iso":"eng"}],"oa_version":"Published Version","publisher":"American Society of Plant Biologists","has_accepted_license":"1","publication":"Plant Cell","title":"GmPIN-dependent polar auxin transport is involved in soybean nodule development","day":"07","status":"public","intvolume":"        33","abstract":[{"lang":"eng","text":"To overcome nitrogen deficiency, legume roots establish symbiotic interactions with nitrogen-fixing rhizobia that is fostered in specialized organs (nodules). Similar to other organs, nodule formation is determined by a local maximum of the phytohormone auxin at the primordium site. However, how auxin regulates nodule development remains poorly understood. Here, we found that in soybean, (Glycine max), dynamic auxin transport driven by PIN-FORMED (PIN) transporter GmPIN1 is involved in nodule primordium formation. GmPIN1 was specifically expressed in nodule primordium cells and GmPIN1 was polarly localized in these cells. Two nodulation regulators, (iso)flavonoids trigger expanded distribution of GmPIN1b to root cortical cells, and cytokinin rearranges GmPIN1b polarity. Gmpin1abc triple mutants generated with CRISPR-Cas9 showed impaired establishment of auxin maxima in nodule meristems and aberrant divisions in the nodule primordium cells. Moreover, overexpression of GmPIN1 suppressed nodule primordium initiation. GmPIN9d, an ortholog of Arabidopsis thaliana PIN2, acts together with GmPIN1 later in nodule development to acropetally transport auxin in vascular bundles, fine-tuning the auxin supply for nodule enlargement. Our findings reveal how PIN-dependent auxin transport modulates different aspects of soybean nodule development and suggest that establishment of auxin gradient is a prerequisite for the proper interaction between legumes and rhizobia."}],"ddc":["580"],"type":"journal_article","author":[{"full_name":"Gao, Z","first_name":"Z","last_name":"Gao"},{"last_name":"Chen","full_name":"Chen, Z","first_name":"Z"},{"first_name":"Y","full_name":"Cui, Y","last_name":"Cui"},{"last_name":"Ke","first_name":"M","full_name":"Ke, M"},{"first_name":"H","full_name":"Xu, H","last_name":"Xu"},{"first_name":"Q","full_name":"Xu, Q","last_name":"Xu"},{"first_name":"J","full_name":"Chen, J","last_name":"Chen"},{"full_name":"Li, Y","first_name":"Y","last_name":"Li"},{"full_name":"Huang, L","first_name":"L","last_name":"Huang"},{"last_name":"Zhao","full_name":"Zhao, H","first_name":"H"},{"last_name":"Huang","first_name":"D","full_name":"Huang, D"},{"last_name":"Mai","full_name":"Mai, S","first_name":"S"},{"first_name":"T","full_name":"Xu, T","last_name":"Xu"},{"full_name":"Liu, X","first_name":"X","last_name":"Liu"},{"last_name":"Li","full_name":"Li, S","first_name":"S"},{"last_name":"Guan","full_name":"Guan, Y","first_name":"Y"},{"first_name":"W","full_name":"Yang, W","last_name":"Yang"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"},{"first_name":"J","full_name":"Petrášek, J","last_name":"Petrášek"},{"last_name":"Zhang","first_name":"J","full_name":"Zhang, J"},{"first_name":"X","full_name":"Chen, X","last_name":"Chen"}],"_id":"9657","pmid":1,"citation":{"ieee":"Z. Gao <i>et al.</i>, “GmPIN-dependent polar auxin transport is involved in soybean nodule development,” <i>Plant Cell</i>, vol. 33, no. 9. American Society of Plant Biologists, pp. 2981–3003, 2021.","chicago":"Gao, Z, Z Chen, Y Cui, M Ke, H Xu, Q Xu, J Chen, et al. “GmPIN-Dependent Polar Auxin Transport Is Involved in Soybean Nodule Development.” <i>Plant Cell</i>. American Society of Plant Biologists, 2021. <a href=\"https://doi.org/10.1093/plcell/koab183\">https://doi.org/10.1093/plcell/koab183</a>.","mla":"Gao, Z., et al. “GmPIN-Dependent Polar Auxin Transport Is Involved in Soybean Nodule Development.” <i>Plant Cell</i>, vol. 33, no. 9, American Society of Plant Biologists, 2021, pp. 2981–3003, doi:<a href=\"https://doi.org/10.1093/plcell/koab183\">10.1093/plcell/koab183</a>.","short":"Z. Gao, Z. Chen, Y. Cui, M. Ke, H. Xu, Q. Xu, J. Chen, Y. Li, L. Huang, H. Zhao, D. Huang, S. Mai, T. Xu, X. Liu, S. Li, Y. Guan, W. Yang, J. Friml, J. Petrášek, J. Zhang, X. Chen, Plant Cell 33 (2021) 2981–3003.","ama":"Gao Z, Chen Z, Cui Y, et al. GmPIN-dependent polar auxin transport is involved in soybean nodule development. <i>Plant Cell</i>. 2021;33(9):2981–3003. doi:<a href=\"https://doi.org/10.1093/plcell/koab183\">10.1093/plcell/koab183</a>","apa":"Gao, Z., Chen, Z., Cui, Y., Ke, M., Xu, H., Xu, Q., … Chen, X. (2021). GmPIN-dependent polar auxin transport is involved in soybean nodule development. <i>Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plcell/koab183\">https://doi.org/10.1093/plcell/koab183</a>","ista":"Gao Z, Chen Z, Cui Y, Ke M, Xu H, Xu Q, Chen J, Li Y, Huang L, Zhao H, Huang D, Mai S, Xu T, Liu X, Li S, Guan Y, Yang W, Friml J, Petrášek J, Zhang J, Chen X. 2021. GmPIN-dependent polar auxin transport is involved in soybean nodule development. Plant Cell. 33(9), 2981–3003."},"page":"2981–3003","article_processing_charge":"No","file_date_updated":"2021-07-19T12:13:34Z","file":[{"file_name":"2021_PlantCell_Gao.pdf","success":1,"creator":"cziletti","access_level":"open_access","relation":"main_file","checksum":"6715712ec306c321f0204c817b7f8ae7","file_id":"9691","date_created":"2021-07-19T12:13:34Z","date_updated":"2021-07-19T12:13:34Z","file_size":10566921,"content_type":"application/pdf"}],"doi":"10.1093/plcell/koab183","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298x"]},"external_id":{"pmid":["34240197"],"isi":["000702165300012"]},"date_updated":"2024-10-21T06:02:03Z","year":"2021","quality_controlled":"1","issue":"9","article_type":"original","date_published":"2021-07-07T00:00:00Z","date_created":"2021-07-14T15:32:43Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JiFr"}],"isi":1,"volume":33,"publication_status":"published","oa":1,"month":"07","scopus_import":"1"},{"date_published":"2021-01-26T00:00:00Z","article_type":"original","issue":"1","quality_controlled":"1","year":"2021","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_created":"2021-07-15T13:48:13Z","publication_status":"published","volume":12,"scopus_import":"1","month":"01","oa":1,"article_number":"588","title":"Quantum-mechanical exploration of the phase diagram of water","publication":"Nature Communications","has_accepted_license":"1","publisher":"Springer Nature","oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"language":[{"iso":"eng"}],"arxiv":1,"ddc":["530","540"],"abstract":[{"text":"The set of known stable phases of water may not be complete, and some of the phase boundaries between them are fuzzy. Starting from liquid water and a comprehensive set of 50 ice structures, we compute the phase diagram at three hybrid density-functional-theory levels of approximation, accounting for thermal and nuclear fluctuations as well as proton disorder. Such calculations are only made tractable because we combine machine-learning methods and advanced free-energy techniques. The computed phase diagram is in qualitative agreement with experiment, particularly at pressures ≲ 8000 bar, and the discrepancy in chemical potential is comparable with the subtle uncertainties introduced by proton disorder and the spread between the three hybrid functionals. None of the hypothetical ice phases considered is thermodynamically stable in our calculations, suggesting the completeness of the experimental water phase diagram in the region considered. Our work demonstrates the feasibility of predicting the phase diagram of a polymorphic system from first principles and provides a thermodynamic way of testing the limits of quantum-mechanical calculations.","lang":"eng"}],"status":"public","intvolume":"        12","day":"26","author":[{"last_name":"Reinhardt","full_name":"Reinhardt, Aleks","first_name":"Aleks"},{"full_name":"Cheng, Bingqing","first_name":"Bingqing","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","orcid":"0000-0002-3584-9632"}],"type":"journal_article","date_updated":"2023-02-23T14:04:20Z","extern":"1","external_id":{"arxiv":["2010.13729"],"pmid":["33500405"]},"doi":"10.1038/s41467-020-20821-w","publication_identifier":{"eissn":["2041-1723"]},"article_processing_charge":"No","file":[{"access_level":"open_access","creator":"asandaue","file_name":"2021_NatureCommunications_Reinhardt.pdf","success":1,"content_type":"application/pdf","date_updated":"2021-07-15T13:55:46Z","file_size":1180227,"checksum":"8b5e1fbe2f1ab936047008043150e894","date_created":"2021-07-15T13:55:46Z","file_id":"9670","relation":"main_file"}],"file_date_updated":"2021-07-15T13:55:46Z","citation":{"ieee":"A. Reinhardt and B. Cheng, “Quantum-mechanical exploration of the phase diagram of water,” <i>Nature Communications</i>, vol. 12, no. 1. Springer Nature, 2021.","mla":"Reinhardt, Aleks, and Bingqing Cheng. “Quantum-Mechanical Exploration of the Phase Diagram of Water.” <i>Nature Communications</i>, vol. 12, no. 1, 588, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-020-20821-w\">10.1038/s41467-020-20821-w</a>.","short":"A. Reinhardt, B. Cheng, Nature Communications 12 (2021).","chicago":"Reinhardt, Aleks, and Bingqing Cheng. “Quantum-Mechanical Exploration of the Phase Diagram of Water.” <i>Nature Communications</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41467-020-20821-w\">https://doi.org/10.1038/s41467-020-20821-w</a>.","apa":"Reinhardt, A., &#38; Cheng, B. (2021). Quantum-mechanical exploration of the phase diagram of water. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-20821-w\">https://doi.org/10.1038/s41467-020-20821-w</a>","ama":"Reinhardt A, Cheng B. Quantum-mechanical exploration of the phase diagram of water. <i>Nature Communications</i>. 2021;12(1). doi:<a href=\"https://doi.org/10.1038/s41467-020-20821-w\">10.1038/s41467-020-20821-w</a>","ista":"Reinhardt A, Cheng B. 2021. Quantum-mechanical exploration of the phase diagram of water. Nature Communications. 12(1), 588."},"_id":"9669","pmid":1},{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2005.07761"}],"quality_controlled":"1","year":"2021","date_published":"2021-07-06T00:00:00Z","acknowledgement":"We thank Orr Fischer, Juho Hirvonen, and Tuomo Lempiäinen for valuable discussions. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 840605.","date_created":"2021-07-18T22:01:22Z","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","department":[{"_id":"DaAl"}],"publication_status":"published","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"15074"}]},"oa":1,"month":"07","scopus_import":"1","conference":{"start_date":"2021-07-06","end_date":"2021-07-08","name":"SPAA: Symposium on Parallelism in Algorithms and Architectures ","location":" Virtual Event, United States"},"oa_version":"Preprint","language":[{"iso":"eng"}],"title":"Efficient load-balancing through distributed token dropping","publication":"Annual ACM Symposium on Parallelism in Algorithms and Architectures","status":"public","day":"06","ec_funded":1,"arxiv":1,"abstract":[{"text":"We introduce a new graph problem, the token dropping game, and we show how to solve it efficiently in a distributed setting. We use the token dropping game as a tool to design an efficient distributed algorithm for stable orientations and more generally for locally optimal semi-matchings. The prior work by Czygrinow et al. (DISC 2012) finds a stable orientation in O(Δ^5) rounds in graphs of maximum degree Δ, while we improve it to O(Δ^4) and also prove a lower bound of Ω(Δ). For the more general problem of locally optimal semi-matchings, the prior upper bound is O(S^5) and our new algorithm runs in O(C · S^4) rounds, which is an improvement for C = o(S); here C and S are the maximum degrees of customers and servers, respectively.","lang":"eng"}],"author":[{"last_name":"Brandt","first_name":"Sebastian","full_name":"Brandt, Sebastian"},{"last_name":"Keller","full_name":"Keller, Barbara","first_name":"Barbara"},{"last_name":"Rybicki","id":"334EFD2E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6432-6646","full_name":"Rybicki, Joel","first_name":"Joel"},{"full_name":"Suomela, Jukka","first_name":"Jukka","last_name":"Suomela"},{"first_name":"Jara","full_name":"Uitto, Jara","last_name":"Uitto"}],"type":"conference","project":[{"_id":"26A5D39A-B435-11E9-9278-68D0E5697425","name":"Coordination in constrained and natural distributed systems","call_identifier":"H2020","grant_number":"840605"}],"doi":"10.1145/3409964.3461785","publication_identifier":{"isbn":["9781450380706"]},"page":"129-139","article_processing_charge":"No","citation":{"ista":"Brandt S, Keller B, Rybicki J, Suomela J, Uitto J. 2021. Efficient load-balancing through distributed token dropping. Annual ACM Symposium on Parallelism in Algorithms and Architectures. SPAA: Symposium on Parallelism in Algorithms and Architectures , 129–139.","apa":"Brandt, S., Keller, B., Rybicki, J., Suomela, J., &#38; Uitto, J. (2021). Efficient load-balancing through distributed token dropping. In <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i> (pp. 129–139).  Virtual Event, United States. <a href=\"https://doi.org/10.1145/3409964.3461785\">https://doi.org/10.1145/3409964.3461785</a>","ama":"Brandt S, Keller B, Rybicki J, Suomela J, Uitto J. Efficient load-balancing through distributed token dropping. In: <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>. ; 2021:129-139. doi:<a href=\"https://doi.org/10.1145/3409964.3461785\">10.1145/3409964.3461785</a>","mla":"Brandt, Sebastian, et al. “Efficient Load-Balancing through Distributed Token Dropping.” <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>, 2021, pp. 129–39, doi:<a href=\"https://doi.org/10.1145/3409964.3461785\">10.1145/3409964.3461785</a>.","short":"S. Brandt, B. Keller, J. Rybicki, J. Suomela, J. Uitto, in:, Annual ACM Symposium on Parallelism in Algorithms and Architectures, 2021, pp. 129–139.","chicago":"Brandt, Sebastian, Barbara Keller, Joel Rybicki, Jukka Suomela, and Jara Uitto. “Efficient Load-Balancing through Distributed Token Dropping.” In <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>, 129–39, 2021. <a href=\"https://doi.org/10.1145/3409964.3461785\">https://doi.org/10.1145/3409964.3461785</a>.","ieee":"S. Brandt, B. Keller, J. Rybicki, J. Suomela, and J. Uitto, “Efficient load-balancing through distributed token dropping,” in <i>Annual ACM Symposium on Parallelism in Algorithms and Architectures</i>,  Virtual Event, United States, 2021, pp. 129–139."},"_id":"9678","date_updated":"2025-04-14T07:50:55Z","external_id":{"arxiv":["2005.07761"]}},{"status":"public","date_created":"2021-07-20T06:42:29Z","day":"16","arxiv":1,"abstract":[{"lang":"eng","text":"Most water in the universe may be superionic, and its thermodynamic and transport properties are crucial for planetary science but difficult to probe experimentally or theoretically. We use machine learning and free energy methods to overcome the limitations of quantum mechanical simulations, and characterize hydrogen diffusion, superionic transitions, and phase behaviors of water at extreme conditions. We predict that a close-packed superionic phase with mixed stacking is stable over a wide temperature and pressure range, while a body-centered cubic phase is only thermodynamically stable in a small window but is kinetically favored. Our phase boundaries, which are consistent with the existing-albeit scarce-experimental observations, help resolve the fractions of insulating ice, different superionic phases, and liquid water inside of ice giants."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2103.09035"}],"oa_version":"Preprint","year":"2021","language":[{"iso":"eng"}],"title":"Predicting the phase behaviors of superionic water at planetary conditions","date_published":"2021-03-16T00:00:00Z","article_number":"2103.09035","publication":"arXiv","doi":"10.48550/arXiv.2103.09035","article_processing_charge":"No","_id":"9696","oa":1,"citation":{"ista":"Cheng B, Bethkenhagen M, Pickard CJ, Hamel S. Predicting the phase behaviors of superionic water at planetary conditions. arXiv, 2103.09035.","ama":"Cheng B, Bethkenhagen M, Pickard CJ, Hamel S. Predicting the phase behaviors of superionic water at planetary conditions. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2103.09035\">10.48550/arXiv.2103.09035</a>","apa":"Cheng, B., Bethkenhagen, M., Pickard, C. J., &#38; Hamel, S. (n.d.). Predicting the phase behaviors of superionic water at planetary conditions. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2103.09035\">https://doi.org/10.48550/arXiv.2103.09035</a>","short":"B. Cheng, M. Bethkenhagen, C.J. Pickard, S. Hamel, ArXiv (n.d.).","mla":"Cheng, Bingqing, et al. “Predicting the Phase Behaviors of Superionic Water at Planetary Conditions.” <i>ArXiv</i>, 2103.09035, doi:<a href=\"https://doi.org/10.48550/arXiv.2103.09035\">10.48550/arXiv.2103.09035</a>.","chicago":"Cheng, Bingqing, Mandy Bethkenhagen, Chris J. Pickard, and Sebastien Hamel. “Predicting the Phase Behaviors of Superionic Water at Planetary Conditions.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2103.09035\">https://doi.org/10.48550/arXiv.2103.09035</a>.","ieee":"B. Cheng, M. Bethkenhagen, C. J. Pickard, and S. Hamel, “Predicting the phase behaviors of superionic water at planetary conditions,” <i>arXiv</i>. ."},"date_updated":"2025-06-26T11:49:07Z","extern":"1","month":"03","external_id":{"arxiv":["2103.09035"]},"publication_status":"submitted","related_material":{"record":[{"relation":"later_version","status":"public","id":"19909"}]},"author":[{"first_name":"Bingqing","full_name":"Cheng, Bingqing","orcid":"0000-0002-3584-9632","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9"},{"last_name":"Bethkenhagen","first_name":"Mandy","full_name":"Bethkenhagen, Mandy"},{"first_name":"Chris J.","full_name":"Pickard, Chris J.","last_name":"Pickard"},{"last_name":"Hamel","full_name":"Hamel, Sebastien","first_name":"Sebastien"}],"type":"preprint"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2021-07-20T11:18:37Z","issue":"16","article_type":"review","date_published":"2021-07-07T00:00:00Z","year":"2021","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1021/acs.chemrev.1c00107"}],"quality_controlled":"1","scopus_import":"1","month":"07","oa":1,"volume":121,"publication_status":"published","abstract":[{"text":"Machine learning models are poised to make a transformative impact on chemical sciences by dramatically accelerating computational algorithms and amplifying insights available from computational chemistry methods. However, achieving this requires a confluence and coaction of expertise in computer science and physical sciences. This review is written for new and experienced researchers working at the intersection of both fields. We first provide concise tutorials of computational chemistry and machine learning methods, showing how insights involving both can be achieved. We then follow with a critical review of noteworthy applications that demonstrate how computational chemistry and machine learning can be used together to provide insightful (and useful) predictions in molecular and materials modeling, retrosyntheses, catalysis, and drug design.","lang":"eng"}],"arxiv":1,"day":"07","status":"public","intvolume":"       121","publisher":"American Chemical Society","publication":"Chemical Reviews","title":"Combining machine learning and computational chemistry for predictive insights into chemical systems","language":[{"iso":"eng"}],"oa_version":"Published Version","external_id":{"arxiv":["2102.06321"]},"extern":"1","date_updated":"2023-05-08T11:31:03Z","citation":{"ista":"Keith JA, Valentin Vassilev-Galindo V, Cheng B, Chmiela S, Gastegger M, Müller K-R, Tkatchenko A. 2021. Combining machine learning and computational chemistry for predictive insights into chemical systems. Chemical Reviews. 121(16), 9816–9872.","ama":"Keith JA, Valentin Vassilev-Galindo V, Cheng B, et al. Combining machine learning and computational chemistry for predictive insights into chemical systems. <i>Chemical Reviews</i>. 2021;121(16):9816-9872. doi:<a href=\"https://doi.org/10.1021/acs.chemrev.1c00107\">10.1021/acs.chemrev.1c00107</a>","apa":"Keith, J. A., Valentin Vassilev-Galindo, V., Cheng, B., Chmiela, S., Gastegger, M., Müller, K.-R., &#38; Tkatchenko, A. (2021). Combining machine learning and computational chemistry for predictive insights into chemical systems. <i>Chemical Reviews</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.chemrev.1c00107\">https://doi.org/10.1021/acs.chemrev.1c00107</a>","ieee":"J. A. Keith <i>et al.</i>, “Combining machine learning and computational chemistry for predictive insights into chemical systems,” <i>Chemical Reviews</i>, vol. 121, no. 16. American Chemical Society, pp. 9816–9872, 2021.","chicago":"Keith, John A., Valentin Valentin Vassilev-Galindo, Bingqing Cheng, Stefan Chmiela, Michael Gastegger, Klaus-Robert Müller, and Alexandre Tkatchenko. “Combining Machine Learning and Computational Chemistry for Predictive Insights into Chemical Systems.” <i>Chemical Reviews</i>. American Chemical Society, 2021. <a href=\"https://doi.org/10.1021/acs.chemrev.1c00107\">https://doi.org/10.1021/acs.chemrev.1c00107</a>.","mla":"Keith, John A., et al. “Combining Machine Learning and Computational Chemistry for Predictive Insights into Chemical Systems.” <i>Chemical Reviews</i>, vol. 121, no. 16, American Chemical Society, 2021, pp. 9816–72, doi:<a href=\"https://doi.org/10.1021/acs.chemrev.1c00107\">10.1021/acs.chemrev.1c00107</a>.","short":"J.A. Keith, V. Valentin Vassilev-Galindo, B. Cheng, S. Chmiela, M. Gastegger, K.-R. Müller, A. Tkatchenko, Chemical Reviews 121 (2021) 9816–9872."},"_id":"9698","article_processing_charge":"No","page":"9816-9872","doi":"10.1021/acs.chemrev.1c00107","publication_identifier":{"eissn":["1520-6890"],"issn":["0009-2665"]},"type":"journal_article","author":[{"last_name":"Keith","first_name":"John A.","full_name":"Keith, John A."},{"last_name":"Valentin Vassilev-Galindo","first_name":"Valentin","full_name":"Valentin Vassilev-Galindo, Valentin"},{"orcid":"0000-0002-3584-9632","last_name":"Cheng","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","first_name":"Bingqing","full_name":"Cheng, Bingqing"},{"last_name":"Chmiela","first_name":"Stefan","full_name":"Chmiela, Stefan"},{"full_name":"Gastegger, Michael","first_name":"Michael","last_name":"Gastegger"},{"last_name":"Müller","first_name":"Klaus-Robert","full_name":"Müller, Klaus-Robert"},{"first_name":"Alexandre","full_name":"Tkatchenko, Alexandre","last_name":"Tkatchenko"}]},{"main_file_link":[{"open_access":"1","url":"https://doi.org/10.7554/eLife.68876"}],"quality_controlled":"1","year":"2021","date_published":"2021-07-28T00:00:00Z","article_type":"original","date_created":"2021-07-28T13:36:57Z","acknowledgement":"We would like to thank Leif Tueffers and João Botelho for discussions and suggestions as well as Kira Haas and Julia Bunk for technical support. We acknowledge financial support from the German Science Foundation (grant SCHU 1415/12-2 to HS, and funding under Germany’s Excellence Strategy EXC 2167–390884018 as well as the Research Training Group 2501 TransEvo to HS and SN), the Max Planck Society (IMPRS scholarship to AB; Max-Planck fellowship to HS), and the Leibniz Science Campus Evolutionary Medicine of the Lung (EvoLUNG, to HS and SN). This work was further supported by the German Science Foundation Research Infrastructure NGS_CC (project 407495230) as part of the Next Generation Sequencing Competence Network (project 423957469). NGS analyses were carried out at the Competence Centre for Genomic Analysis Kiel (CCGA Kiel).","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"CaGu"}],"isi":1,"volume":10,"publication_status":"published","oa":1,"month":"07","scopus_import":"1","language":[{"iso":"eng"}],"oa_version":"Published Version","publisher":"eLife Sciences Publications","article_number":"e68876","title":"High potency of sequential therapy with only beta-lactam antibiotics","publication":"eLife","day":"28","intvolume":"        10","status":"public","abstract":[{"lang":"eng","text":"Evolutionary adaptation is a major source of antibiotic resistance in bacterial pathogens. Evolution-informed therapy aims to constrain resistance by accounting for bacterial evolvability. Sequential treatments with antibiotics that target different bacterial processes were previously shown to limit adaptation through genetic resistance trade-offs and negative hysteresis. Treatment with homogeneous sets of antibiotics is generally viewed to be disadvantageous, as it should rapidly lead to cross-resistance. We here challenged this assumption by determining the evolutionary response of Pseudomonas aeruginosa to experimental sequential treatments involving both heterogenous and homogeneous antibiotic sets. To our surprise, we found that fast switching between only β-lactam antibiotics resulted in increased extinction of bacterial populations. We demonstrate that extinction is favored by low rates of spontaneous resistance emergence and low levels of spontaneous cross-resistance among the antibiotics in sequence. The uncovered principles may help to guide the optimized use of available antibiotics in highly potent, evolution-informed treatment designs."}],"author":[{"first_name":"Aditi","full_name":"Batra, Aditi","last_name":"Batra"},{"orcid":"0000-0001-9480-5261","id":"68E56E44-62B0-11EA-B963-444F3DDC885E","last_name":"Römhild","first_name":"Roderich","full_name":"Römhild, Roderich"},{"last_name":"Rousseau","first_name":"Emilie","full_name":"Rousseau, Emilie"},{"last_name":"Franzenburg","first_name":"Sören","full_name":"Franzenburg, Sören"},{"first_name":"Stefan","full_name":"Niemann, Stefan","last_name":"Niemann"},{"full_name":"Schulenburg, Hinrich","first_name":"Hinrich","last_name":"Schulenburg"}],"type":"journal_article","article_processing_charge":"No","_id":"9746","pmid":1,"citation":{"ista":"Batra A, Römhild R, Rousseau E, Franzenburg S, Niemann S, Schulenburg H. 2021. High potency of sequential therapy with only beta-lactam antibiotics. eLife. 10, e68876.","ama":"Batra A, Römhild R, Rousseau E, Franzenburg S, Niemann S, Schulenburg H. High potency of sequential therapy with only beta-lactam antibiotics. <i>eLife</i>. 2021;10. doi:<a href=\"https://doi.org/10.7554/elife.68876\">10.7554/elife.68876</a>","apa":"Batra, A., Römhild, R., Rousseau, E., Franzenburg, S., Niemann, S., &#38; Schulenburg, H. (2021). High potency of sequential therapy with only beta-lactam antibiotics. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/elife.68876\">https://doi.org/10.7554/elife.68876</a>","ieee":"A. Batra, R. Römhild, E. Rousseau, S. Franzenburg, S. Niemann, and H. Schulenburg, “High potency of sequential therapy with only beta-lactam antibiotics,” <i>eLife</i>, vol. 10. eLife Sciences Publications, 2021.","short":"A. Batra, R. Römhild, E. Rousseau, S. Franzenburg, S. Niemann, H. Schulenburg, ELife 10 (2021).","mla":"Batra, Aditi, et al. “High Potency of Sequential Therapy with Only Beta-Lactam Antibiotics.” <i>ELife</i>, vol. 10, e68876, eLife Sciences Publications, 2021, doi:<a href=\"https://doi.org/10.7554/elife.68876\">10.7554/elife.68876</a>.","chicago":"Batra, Aditi, Roderich Römhild, Emilie Rousseau, Sören Franzenburg, Stefan Niemann, and Hinrich Schulenburg. “High Potency of Sequential Therapy with Only Beta-Lactam Antibiotics.” <i>ELife</i>. eLife Sciences Publications, 2021. <a href=\"https://doi.org/10.7554/elife.68876\">https://doi.org/10.7554/elife.68876</a>."},"doi":"10.7554/elife.68876","publication_identifier":{"eissn":["2050-084X"]},"external_id":{"isi":["000692027800001"],"pmid":["34318749"]},"date_updated":"2023-08-11T10:26:29Z"},{"publication_identifier":{"issn":["1553-734X"],"eissn":["1553-7358"]},"doi":"10.1371/journal.pcbi.1009124","file":[{"checksum":"e56d91f0eeadb36f143a90e2c1b3ab63","date_created":"2021-08-05T12:06:49Z","file_id":"9771","relation":"main_file","content_type":"application/pdf","date_updated":"2021-08-05T12:06:49Z","file_size":693633,"file_name":"2021_PlosCompBio_Bartlett.pdf","access_level":"open_access","creator":"cchlebak"}],"article_processing_charge":"Yes","file_date_updated":"2021-08-05T12:06:49Z","_id":"9759","citation":{"ista":"Bartlett MJ, Arslan FN, Bankston A, Sarabipour S. 2021. Ten simple rules to improve academic work- life balance. PLoS Computational Biology. 17(7), e1009124.","chicago":"Bartlett, Michael John, Feyza N Arslan, Adriana Bankston, and Sarvenaz Sarabipour. “Ten Simple Rules to Improve Academic Work- Life Balance.” <i>PLoS Computational Biology</i>. Public Library of Science, 2021. <a href=\"https://doi.org/10.1371/journal.pcbi.1009124\">https://doi.org/10.1371/journal.pcbi.1009124</a>.","short":"M.J. Bartlett, F.N. Arslan, A. Bankston, S. Sarabipour, PLoS Computational Biology 17 (2021).","mla":"Bartlett, Michael John, et al. “Ten Simple Rules to Improve Academic Work- Life Balance.” <i>PLoS Computational Biology</i>, vol. 17, no. 7, e1009124, Public Library of Science, 2021, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1009124\">10.1371/journal.pcbi.1009124</a>.","ieee":"M. J. Bartlett, F. N. Arslan, A. Bankston, and S. Sarabipour, “Ten simple rules to improve academic work- life balance,” <i>PLoS Computational Biology</i>, vol. 17, no. 7. Public Library of Science, 2021.","ama":"Bartlett MJ, Arslan FN, Bankston A, Sarabipour S. Ten simple rules to improve academic work- life balance. <i>PLoS Computational Biology</i>. 2021;17(7). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1009124\">10.1371/journal.pcbi.1009124</a>","apa":"Bartlett, M. J., Arslan, F. N., Bankston, A., &#38; Sarabipour, S. (2021). Ten simple rules to improve academic work- life balance. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1009124\">https://doi.org/10.1371/journal.pcbi.1009124</a>"},"pmid":1,"date_updated":"2025-07-10T12:02:02Z","external_id":{"pmid":["34264932"],"isi":["000677713500008"]},"author":[{"full_name":"Bartlett, Michael John","first_name":"Michael John","last_name":"Bartlett"},{"full_name":"Arslan, Feyza N","first_name":"Feyza N","last_name":"Arslan","id":"49DA7910-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5809-9566"},{"first_name":"Adriana","full_name":"Bankston, Adriana","last_name":"Bankston"},{"last_name":"Sarabipour","first_name":"Sarvenaz","full_name":"Sarabipour, Sarvenaz"}],"type":"journal_article","intvolume":"        17","status":"public","day":"15","ddc":["613"],"oa_version":"Published Version","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"e1009124","title":"Ten simple rules to improve academic work- life balance","publication":"PLoS Computational Biology","publisher":"Public Library of Science","has_accepted_license":"1","oa":1,"scopus_import":"1","month":"07","department":[{"_id":"CaHe"}],"publication_status":"published","isi":1,"volume":17,"acknowledgement":"The authors thank Inez Lam of Johns Hopkins University for valuable comments on an earlier version of the manuscript. We also thank the facilitators of the 2019–2020 eLife Community Ambassador program.","date_created":"2021-08-01T22:01:21Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2021","date_published":"2021-07-15T00:00:00Z","article_type":"letter_note","issue":"7"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"language":[{"iso":"eng"}],"oa_version":"Published Version","has_accepted_license":"1","publisher":"SciPost Foundation","publication":"SciPost Physics","article_number":"008","title":"Impurities in a one-dimensional Bose gas: The flow equation approach","ec_funded":1,"day":"13","status":"public","intvolume":"        11","abstract":[{"text":"A few years ago, flow equations were introduced as a technique for calculating the ground-state energies of cold Bose gases with and without impurities. In this paper, we extend this approach to compute observables other than the energy. As an example, we calculate the densities, and phase fluctuations of one-dimensional Bose gases with one and two impurities. For a single mobile impurity, we use flow equations to validate the mean-field results obtained upon the Lee-Low-Pines transformation. We show that the mean-field approximation is accurate for all values of the boson-impurity interaction strength as long as the phase coherence length is much larger than the healing length of the condensate. For two static impurities, we calculate impurity-impurity interactions induced by the Bose gas. We find that leading order perturbation theory fails when boson-impurity interactions are stronger than boson-boson interactions. The mean-field approximation reproduces the flow equation results for all values of the boson-impurity interaction strength as long as boson-boson interactions are weak.","lang":"eng"}],"ddc":["530"],"arxiv":1,"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411"},{"_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770","call_identifier":"H2020","name":"Angulon: physics and applications of a new quasiparticle"}],"type":"journal_article","author":[{"last_name":"Brauneis","first_name":"Fabian","full_name":"Brauneis, Fabian"},{"last_name":"Hammer","full_name":"Hammer, Hans-Werner","first_name":"Hans-Werner"},{"full_name":"Lemeshko, Mikhail","first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","orcid":"0000-0002-6990-7802"},{"first_name":"Artem","full_name":"Volosniev, Artem","orcid":"0000-0003-0393-5525","last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87"}],"citation":{"ista":"Brauneis F, Hammer H-W, Lemeshko M, Volosniev A. 2021. Impurities in a one-dimensional Bose gas: The flow equation approach. SciPost Physics. 11(1), 008.","ama":"Brauneis F, Hammer H-W, Lemeshko M, Volosniev A. Impurities in a one-dimensional Bose gas: The flow equation approach. <i>SciPost Physics</i>. 2021;11(1). doi:<a href=\"https://doi.org/10.21468/scipostphys.11.1.008\">10.21468/scipostphys.11.1.008</a>","apa":"Brauneis, F., Hammer, H.-W., Lemeshko, M., &#38; Volosniev, A. (2021). Impurities in a one-dimensional Bose gas: The flow equation approach. <i>SciPost Physics</i>. SciPost Foundation. <a href=\"https://doi.org/10.21468/scipostphys.11.1.008\">https://doi.org/10.21468/scipostphys.11.1.008</a>","short":"F. Brauneis, H.-W. Hammer, M. Lemeshko, A. Volosniev, SciPost Physics 11 (2021).","chicago":"Brauneis, Fabian, Hans-Werner Hammer, Mikhail Lemeshko, and Artem Volosniev. “Impurities in a One-Dimensional Bose Gas: The Flow Equation Approach.” <i>SciPost Physics</i>. SciPost Foundation, 2021. <a href=\"https://doi.org/10.21468/scipostphys.11.1.008\">https://doi.org/10.21468/scipostphys.11.1.008</a>.","mla":"Brauneis, Fabian, et al. “Impurities in a One-Dimensional Bose Gas: The Flow Equation Approach.” <i>SciPost Physics</i>, vol. 11, no. 1, 008, SciPost Foundation, 2021, doi:<a href=\"https://doi.org/10.21468/scipostphys.11.1.008\">10.21468/scipostphys.11.1.008</a>.","ieee":"F. Brauneis, H.-W. Hammer, M. Lemeshko, and A. Volosniev, “Impurities in a one-dimensional Bose gas: The flow equation approach,” <i>SciPost Physics</i>, vol. 11, no. 1. SciPost Foundation, 2021."},"_id":"9769","article_processing_charge":"Yes","file_date_updated":"2021-08-10T11:44:59Z","file":[{"date_updated":"2021-08-10T11:44:59Z","file_size":1085300,"content_type":"application/pdf","relation":"main_file","checksum":"eaa847346b1a023d97bbb291779610ed","date_created":"2021-08-10T11:44:59Z","file_id":"9875","creator":"asandaue","access_level":"open_access","file_name":"2021_SciPostPhysics_Brauneis.pdf","success":1}],"doi":"10.21468/scipostphys.11.1.008","publication_identifier":{"eissn":["2542-4653"]},"external_id":{"isi":["000680039500013"],"arxiv":["2101.10958"]},"date_updated":"2025-05-14T10:51:56Z","year":"2021","quality_controlled":"1","issue":"1","date_published":"2021-07-13T00:00:00Z","article_type":"original","date_created":"2021-08-04T15:00:55Z","acknowledgement":"We thank Matthias Heinz and Volker Karle for helpful comments on the manuscript; Zoran Ristivojevic for useful correspondence regarding mean-field calculations of induced impurity-impurity interactions; Fabian Grusdt for sharing with us the data for the densities presented in Ref. [14]. This work has received funding from the DFG Project No. 413495248 [VO 2437/1-1] (F. B., H.-W. H., A. G. V.) and European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411 (A. G. V.). M. L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). H.-W.H. thanks the ECT* for hospitality during the workshop “Universal physics in Many-Body Quantum Systems – From Atoms to Quarks\". This infrastructure is part of a project that has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 824093. H.-W.H. was supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) - Project-ID 279384907 - SFB 1245.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"MiLe"}],"volume":11,"isi":1,"publication_status":"published","oa":1,"scopus_import":"1","month":"07"},{"type":"journal_article","author":[{"last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem","first_name":"Artem"},{"last_name":"Alpern","full_name":"Alpern, Hen","first_name":"Hen"},{"full_name":"Paltiel, Yossi","first_name":"Yossi","last_name":"Paltiel"},{"first_name":"Oded","full_name":"Millo, Oded","last_name":"Millo"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","first_name":"Mikhail","full_name":"Lemeshko, Mikhail"},{"last_name":"Ghazaryan","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9666-3543","full_name":"Ghazaryan, Areg","first_name":"Areg"}],"project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"_id":"2688CF98-B435-11E9-9278-68D0E5697425","name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020","grant_number":"801770"}],"date_updated":"2025-04-14T07:43:49Z","external_id":{"arxiv":["2101.05173"],"isi":["000678780800003"]},"publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"doi":"10.1103/physrevb.104.024430","citation":{"apa":"Volosniev, A., Alpern, H., Paltiel, Y., Millo, O., Lemeshko, M., &#38; Ghazaryan, A. (2021). Interplay between friction and spin-orbit coupling as a source of spin polarization. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevb.104.024430\">https://doi.org/10.1103/physrevb.104.024430</a>","ama":"Volosniev A, Alpern H, Paltiel Y, Millo O, Lemeshko M, Ghazaryan A. Interplay between friction and spin-orbit coupling as a source of spin polarization. <i>Physical Review B</i>. 2021;104(2). doi:<a href=\"https://doi.org/10.1103/physrevb.104.024430\">10.1103/physrevb.104.024430</a>","ieee":"A. Volosniev, H. Alpern, Y. Paltiel, O. Millo, M. Lemeshko, and A. Ghazaryan, “Interplay between friction and spin-orbit coupling as a source of spin polarization,” <i>Physical Review B</i>, vol. 104, no. 2. American Physical Society, 2021.","chicago":"Volosniev, Artem, Hen Alpern, Yossi Paltiel, Oded Millo, Mikhail Lemeshko, and Areg Ghazaryan. “Interplay between Friction and Spin-Orbit Coupling as a Source of Spin Polarization.” <i>Physical Review B</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/physrevb.104.024430\">https://doi.org/10.1103/physrevb.104.024430</a>.","short":"A. Volosniev, H. Alpern, Y. Paltiel, O. Millo, M. Lemeshko, A. Ghazaryan, Physical Review B 104 (2021).","mla":"Volosniev, Artem, et al. “Interplay between Friction and Spin-Orbit Coupling as a Source of Spin Polarization.” <i>Physical Review B</i>, vol. 104, no. 2, 024430, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/physrevb.104.024430\">10.1103/physrevb.104.024430</a>.","ista":"Volosniev A, Alpern H, Paltiel Y, Millo O, Lemeshko M, Ghazaryan A. 2021. Interplay between friction and spin-orbit coupling as a source of spin polarization. Physical Review B. 104(2), 024430."},"_id":"9770","article_processing_charge":"No","publication":"Physical Review B","article_number":"024430","title":"Interplay between friction and spin-orbit coupling as a source of spin polarization","publisher":"American Physical Society","oa_version":"Preprint","language":[{"iso":"eng"}],"abstract":[{"text":"We study an effective one-dimensional quantum model that includes friction and spin-orbit coupling (SOC), and show that the model exhibits spin polarization when both terms are finite. Most important, strong spin polarization can be observed even for moderate SOC, provided that the friction is strong. Our findings might help to explain the pronounced effect of chirality on spin distribution and transport in chiral molecules. In particular, our model implies static magnetic properties of a chiral molecule, which lead to Shiba-like states when a molecule is placed on a superconductor, in accordance with recent experimental data.","lang":"eng"}],"arxiv":1,"intvolume":"       104","status":"public","day":"01","ec_funded":1,"publication_status":"published","isi":1,"volume":104,"department":[{"_id":"MiLe"}],"scopus_import":"1","month":"07","oa":1,"article_type":"original","date_published":"2021-07-01T00:00:00Z","issue":"2","year":"2021","main_file_link":[{"url":"https://arxiv.org/abs/2101.05173","open_access":"1"}],"quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","acknowledgement":"We thank Rafael Barfknecht for useful discussions. This work has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411 (A.G.\r\nand A.G.V.). M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). Y.P. and O.M. acknowledge funding from the Nidersachsen Ministry of Science and Culture, and from the\r\nAcademia Sinica Research Program. O.M. is thankful for support through the Harry de Jur Chair in Applied Science.","date_created":"2021-08-04T15:05:32Z"},{"oa_version":"Published Version","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"language":[{"iso":"eng"}],"publication":"Nature Communications","keyword":["general physics and astronomy","general biochemistry","genetics and molecular biology","general chemistry"],"article_number":"2912","title":"Transsynaptic modulation of presynaptic short-term plasticity in hippocampal mossy fiber synapses","publisher":"Springer","has_accepted_license":"1","status":"public","intvolume":"        12","ec_funded":1,"day":"18","abstract":[{"text":"The hippocampal mossy fiber synapse is a key synapse of the trisynaptic circuit. Post-tetanic potentiation (PTP) is the most powerful form of plasticity at this synaptic connection. It is widely believed that mossy fiber PTP is an entirely presynaptic phenomenon, implying that PTP induction is input-specific, and requires neither activity of multiple inputs nor stimulation of postsynaptic neurons. To directly test cooperativity and associativity, we made paired recordings between single mossy fiber terminals and postsynaptic CA3 pyramidal neurons in rat brain slices. By stimulating non-overlapping mossy fiber inputs converging onto single CA3 neurons, we confirm that PTP is input-specific and non-cooperative. Unexpectedly, mossy fiber PTP exhibits anti-associative induction properties. EPSCs show only minimal PTP after combined pre- and postsynaptic high-frequency stimulation with intact postsynaptic Ca2+ signaling, but marked PTP in the absence of postsynaptic spiking and after suppression of postsynaptic Ca2+ signaling (10 mM EGTA). PTP is largely recovered by inhibitors of voltage-gated R- and L-type Ca2+ channels, group II mGluRs, and vacuolar-type H+-ATPase, suggesting the involvement of retrograde vesicular glutamate signaling. Transsynaptic regulation of PTP extends the repertoire of synaptic computations, implementing a brake on mossy fiber detonation and a “smart teacher” function of hippocampal mossy fiber synapses.","lang":"eng"}],"corr_author":"1","ddc":["570"],"type":"journal_article","OA_type":"gold","author":[{"id":"3AE48E0A-F248-11E8-B48F-1D18A9856A87","last_name":"Vandael","orcid":"0000-0001-7577-1676","full_name":"Vandael, David H","first_name":"David H"},{"orcid":"0000-0003-0408-6094","id":"3337E116-F248-11E8-B48F-1D18A9856A87","last_name":"Okamoto","first_name":"Yuji","full_name":"Okamoto, Yuji"},{"first_name":"Peter M","full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","last_name":"Jonas","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"}],"project":[{"_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","grant_number":"692692","call_identifier":"H2020","name":"Biophysics and circuit function of a giant cortical glutamatergic synapse"},{"call_identifier":"FWF","name":"Synaptic communication in neuronal microcircuits","grant_number":"Z00312","_id":"25C5A090-B435-11E9-9278-68D0E5697425"}],"doi":"10.1038/s41467-021-23153-5","publication_identifier":{"issn":["2041-1723"]},"_id":"9778","citation":{"ista":"Vandael DH, Okamoto Y, Jonas PM. 2021. Transsynaptic modulation of presynaptic short-term plasticity in hippocampal mossy fiber synapses. Nature Communications. 12(1), 2912.","ama":"Vandael DH, Okamoto Y, Jonas PM. Transsynaptic modulation of presynaptic short-term plasticity in hippocampal mossy fiber synapses. <i>Nature Communications</i>. 2021;12(1). doi:<a href=\"https://doi.org/10.1038/s41467-021-23153-5\">10.1038/s41467-021-23153-5</a>","apa":"Vandael, D. H., Okamoto, Y., &#38; Jonas, P. M. (2021). Transsynaptic modulation of presynaptic short-term plasticity in hippocampal mossy fiber synapses. <i>Nature Communications</i>. Springer. <a href=\"https://doi.org/10.1038/s41467-021-23153-5\">https://doi.org/10.1038/s41467-021-23153-5</a>","ieee":"D. H. Vandael, Y. Okamoto, and P. M. Jonas, “Transsynaptic modulation of presynaptic short-term plasticity in hippocampal mossy fiber synapses,” <i>Nature Communications</i>, vol. 12, no. 1. Springer, 2021.","mla":"Vandael, David H., et al. “Transsynaptic Modulation of Presynaptic Short-Term Plasticity in Hippocampal Mossy Fiber Synapses.” <i>Nature Communications</i>, vol. 12, no. 1, 2912, Springer, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-021-23153-5\">10.1038/s41467-021-23153-5</a>.","chicago":"Vandael, David H, Yuji Okamoto, and Peter M Jonas. “Transsynaptic Modulation of Presynaptic Short-Term Plasticity in Hippocampal Mossy Fiber Synapses.” <i>Nature Communications</i>. Springer, 2021. <a href=\"https://doi.org/10.1038/s41467-021-23153-5\">https://doi.org/10.1038/s41467-021-23153-5</a>.","short":"D.H. Vandael, Y. Okamoto, P.M. Jonas, Nature Communications 12 (2021)."},"pmid":1,"file":[{"date_updated":"2021-12-17T11:34:50Z","file_size":3108845,"content_type":"application/pdf","relation":"main_file","checksum":"6036a8cdae95e1707c2a04d54e325ff4","file_id":"10563","date_created":"2021-12-17T11:34:50Z","creator":"kschuh","access_level":"open_access","file_name":"2021_NatureCommunications_Vandael.pdf","success":1}],"OA_place":"publisher","file_date_updated":"2021-12-17T11:34:50Z","article_processing_charge":"Yes","date_updated":"2025-06-12T06:28:45Z","external_id":{"isi":["000655481800014"],"pmid":["34006874"]},"year":"2021","quality_controlled":"1","date_published":"2021-05-18T00:00:00Z","article_type":"original","issue":"1","acknowledgement":"We thank Drs. Carolina Borges-Merjane and Jose Guzman for critically reading the manuscript, and Pablo Castillo for discussions. We are grateful to Alois Schlögl for help with analysis, Florian Marr for excellent technical assistance and cell reconstruction, Christina Altmutter for technical help, Eleftheria Kralli-Beller for manuscript editing, and the Scientific Service Units of IST Austria for support. This project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement No 692692) and the Fond zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award), both to P.J.","date_created":"2021-08-06T07:22:55Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"PeJo"}],"publication_status":"published","related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/synaptic-transmission-not-a-one-way-street/","relation":"press_release"}]},"acknowledged_ssus":[{"_id":"SSU"}],"volume":12,"isi":1,"oa":1,"scopus_import":"1","month":"05"}]