[{"article_processing_charge":"No","date_created":"2021-08-08T22:01:28Z","_id":"9820","acknowledgement":"This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie, grant agreement Nº 765911 (RealVision) and from the European Research Council (ERC), grant agreement Nº 804226 (PERDY).","author":[{"first_name":"Ana","last_name":"Serrano","full_name":"Serrano, Ana"},{"last_name":"Chen","first_name":"Bin","full_name":"Chen, Bin"},{"full_name":"Wang, Chao","last_name":"Wang","first_name":"Chao"},{"last_name":"Piovarci","first_name":"Michael","id":"62E473F4-5C99-11EA-A40E-AF823DDC885E","orcid":"0000-0002-5062-4474","full_name":"Piovarci, Michael"},{"last_name":"Seidel","first_name":"Hans Peter","full_name":"Seidel, Hans Peter"},{"first_name":"Piotr","last_name":"Didyk","full_name":"Didyk, Piotr"},{"full_name":"Myszkowski, Karol","last_name":"Myszkowski","first_name":"Karol"}],"intvolume":"        40","external_id":{"isi":["000674930900090"]},"date_published":"2021-08-01T00:00:00Z","quality_controlled":"1","issue":"4","title":"The effect of shape and illumination on material perception: Model and applications","publisher":"Association for Computing Machinery","type":"journal_article","doi":"10.1145/3450626.3459813","department":[{"_id":"BeBi"}],"publication_status":"published","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","day":"01","language":[{"iso":"eng"}],"article_type":"original","month":"08","isi":1,"year":"2021","abstract":[{"text":"Material appearance hinges on material reflectance properties but also surface geometry and illumination. The unlimited number of potential combinations between these factors makes understanding and predicting material appearance a very challenging task. In this work, we collect a large-scale dataset of perceptual ratings of appearance attributes with more than 215,680 responses for 42,120 distinct combinations of material, shape, and illumination. The goal of this dataset is twofold. First, we analyze for the first time the effects of illumination and geometry in material perception across such a large collection of varied appearances. We connect our findings to those of the literature, discussing how previous knowledge generalizes across very diverse materials, shapes, and illuminations. Second, we use the collected dataset to train a deep learning architecture for predicting perceptual attributes that correlate with human judgments. We demonstrate the consistent and robust behavior of our predictor in various challenging scenarios, which, for the first time, enables estimating perceived material attributes from general 2D images. Since our predictor relies on the final appearance in an image, it can compare appearance properties across different geometries and illumination conditions. Finally, we demonstrate several applications that use our predictor, including appearance reproduction using 3D printing, BRDF editing by integrating our predictor in a differentiable renderer, illumination design, or material recommendations for scene design.","lang":"eng"}],"publication":"ACM Transactions on Graphics","date_updated":"2026-04-16T08:20:28Z","citation":{"mla":"Serrano, Ana, et al. “The Effect of Shape and Illumination on Material Perception: Model and Applications.” <i>ACM Transactions on Graphics</i>, vol. 40, no. 4, 125, Association for Computing Machinery, 2021, doi:<a href=\"https://doi.org/10.1145/3450626.3459813\">10.1145/3450626.3459813</a>.","ama":"Serrano A, Chen B, Wang C, et al. The effect of shape and illumination on material perception: Model and applications. <i>ACM Transactions on Graphics</i>. 2021;40(4). doi:<a href=\"https://doi.org/10.1145/3450626.3459813\">10.1145/3450626.3459813</a>","chicago":"Serrano, Ana, Bin Chen, Chao Wang, Michael Piovarci, Hans Peter Seidel, Piotr Didyk, and Karol Myszkowski. “The Effect of Shape and Illumination on Material Perception: Model and Applications.” <i>ACM Transactions on Graphics</i>. Association for Computing Machinery, 2021. <a href=\"https://doi.org/10.1145/3450626.3459813\">https://doi.org/10.1145/3450626.3459813</a>.","ista":"Serrano A, Chen B, Wang C, Piovarci M, Seidel HP, Didyk P, Myszkowski K. 2021. The effect of shape and illumination on material perception: Model and applications. ACM Transactions on Graphics. 40(4), 125.","ieee":"A. Serrano <i>et al.</i>, “The effect of shape and illumination on material perception: Model and applications,” <i>ACM Transactions on Graphics</i>, vol. 40, no. 4. Association for Computing Machinery, 2021.","apa":"Serrano, A., Chen, B., Wang, C., Piovarci, M., Seidel, H. P., Didyk, P., &#38; Myszkowski, K. (2021). The effect of shape and illumination on material perception: Model and applications. <i>ACM Transactions on Graphics</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3450626.3459813\">https://doi.org/10.1145/3450626.3459813</a>","short":"A. Serrano, B. Chen, C. Wang, M. Piovarci, H.P. Seidel, P. Didyk, K. Myszkowski, ACM Transactions on Graphics 40 (2021)."},"volume":40,"oa_version":"Submitted Version","oa":1,"main_file_link":[{"open_access":"1","url":"https://zaguan.unizar.es/record/110704/files/texto_completo.pdf"}],"publication_identifier":{"eissn":["1557-7368"],"issn":["0730-0301"]},"scopus_import":"1","article_number":"125","status":"public"},{"publication":"PLoS ONE","date_updated":"2026-04-02T13:56:42Z","isi":1,"year":"2021","abstract":[{"text":"Heart rate variability (hrv) is a physiological phenomenon of the variation in the length of the time interval between consecutive heartbeats. In many cases it could be an indicator of the development of pathological states. The classical approach to the analysis of hrv includes time domain methods and frequency domain methods. However, attempts are still being made to define new and more effective hrv assessment tools. Persistent homology is a novel data analysis tool developed in the recent decades that is rooted at algebraic topology. The Topological Data Analysis (TDA) approach focuses on examining the shape of the data in terms of connectedness and holes, and has recently proved to be very effective in various fields of research. In this paper we propose the use of persistent homology to the hrv analysis. We recall selected topological descriptors used in the literature and we introduce some new topological descriptors that reflect the specificity of hrv, and we discuss their relation to the standard hrv measures. In particular, we show that this novel approach provides a collection of indices that might be at least as useful as the classical parameters in differentiating between series of beat-to-beat intervals (RR-intervals) in healthy subjects and patients suffering from a stroke episode.","lang":"eng"}],"month":"07","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","day":"01","file_date_updated":"2021-08-09T09:25:41Z","language":[{"iso":"eng"}],"article_type":"original","scopus_import":"1","publication_identifier":{"eissn":["1932-6203"]},"article_number":"e0253851","status":"public","oa_version":"Published Version","oa":1,"has_accepted_license":"1","citation":{"ista":"Graff G, Graff B, Pilarczyk P, Jablonski G, Gąsecki D, Narkiewicz K. 2021. Persistent homology as a new method of the assessment of heart rate variability. PLoS ONE. 16(7), e0253851.","short":"G. Graff, B. Graff, P. Pilarczyk, G. Jablonski, D. Gąsecki, K. Narkiewicz, PLoS ONE 16 (2021).","apa":"Graff, G., Graff, B., Pilarczyk, P., Jablonski, G., Gąsecki, D., &#38; Narkiewicz, K. (2021). Persistent homology as a new method of the assessment of heart rate variability. <i>PLoS ONE</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0253851\">https://doi.org/10.1371/journal.pone.0253851</a>","ieee":"G. Graff, B. Graff, P. Pilarczyk, G. Jablonski, D. Gąsecki, and K. Narkiewicz, “Persistent homology as a new method of the assessment of heart rate variability,” <i>PLoS ONE</i>, vol. 16, no. 7. Public Library of Science, 2021.","ama":"Graff G, Graff B, Pilarczyk P, Jablonski G, Gąsecki D, Narkiewicz K. Persistent homology as a new method of the assessment of heart rate variability. <i>PLoS ONE</i>. 2021;16(7). doi:<a href=\"https://doi.org/10.1371/journal.pone.0253851\">10.1371/journal.pone.0253851</a>","mla":"Graff, Grzegorz, et al. “Persistent Homology as a New Method of the Assessment of Heart Rate Variability.” <i>PLoS ONE</i>, vol. 16, no. 7, e0253851, Public Library of Science, 2021, doi:<a href=\"https://doi.org/10.1371/journal.pone.0253851\">10.1371/journal.pone.0253851</a>.","chicago":"Graff, Grzegorz, Beata Graff, Pawel Pilarczyk, Grzegorz Jablonski, Dariusz Gąsecki, and Krzysztof Narkiewicz. “Persistent Homology as a New Method of the Assessment of Heart Rate Variability.” <i>PLoS ONE</i>. Public Library of Science, 2021. <a href=\"https://doi.org/10.1371/journal.pone.0253851\">https://doi.org/10.1371/journal.pone.0253851</a>."},"volume":16,"ddc":["006"],"pmid":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"external_id":{"pmid":["34292957"],"isi":["000678124900050"]},"date_published":"2021-07-01T00:00:00Z","quality_controlled":"1","author":[{"full_name":"Graff, Grzegorz","last_name":"Graff","first_name":"Grzegorz"},{"first_name":"Beata","last_name":"Graff","full_name":"Graff, Beata"},{"last_name":"Pilarczyk","first_name":"Pawel","id":"3768D56A-F248-11E8-B48F-1D18A9856A87","full_name":"Pilarczyk, Pawel"},{"first_name":"Grzegorz","id":"4483EF78-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3536-9866","last_name":"Jablonski","full_name":"Jablonski, Grzegorz"},{"last_name":"Gąsecki","first_name":"Dariusz","full_name":"Gąsecki, Dariusz"},{"first_name":"Krzysztof","last_name":"Narkiewicz","full_name":"Narkiewicz, Krzysztof"}],"intvolume":"        16","_id":"9821","acknowledgement":"We express our gratitude to the anonymous referees who provided constructive comments that helped us improve the quality of the paper.","article_processing_charge":"Yes","date_created":"2021-08-08T22:01:28Z","department":[{"_id":"HeEd"}],"publication_status":"published","publisher":"Public Library of Science","doi":"10.1371/journal.pone.0253851","type":"journal_article","license":"https://creativecommons.org/licenses/by/4.0/","title":"Persistent homology as a new method of the assessment of heart rate variability","file":[{"file_id":"9832","access_level":"open_access","creator":"asandaue","file_size":2706919,"date_created":"2021-08-09T09:25:41Z","content_type":"application/pdf","file_name":"2021_PLoSONE_Graff.pdf","date_updated":"2021-08-09T09:25:41Z","checksum":"0277aa155d5db1febd2cb384768bba5f","relation":"main_file","success":1}],"issue":"7"},{"month":"08","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2021-08-09T09:44:03Z","day":"04","language":[{"iso":"eng"}],"article_type":"original","publication":"ACS Applied Materials and Interfaces","date_updated":"2025-07-10T12:02:02Z","isi":1,"year":"2021","abstract":[{"text":"Attachment of adhesive molecules on cell culture surfaces to restrict cell adhesion to defined areas and shapes has been vital for the progress of in vitro research. In currently existing patterning methods, a combination of pattern properties such as stability, precision, specificity, high-throughput outcome, and spatiotemporal control is highly desirable but challenging to achieve. Here, we introduce a versatile and high-throughput covalent photoimmobilization technique, comprising a light-dose-dependent patterning step and a subsequent functionalization of the pattern via click chemistry. This two-step process is feasible on arbitrary surfaces and allows for generation of sustainable patterns and gradients. The method is validated in different biological systems by patterning adhesive ligands on cell-repellent surfaces, thereby constraining the growth and migration of cells to the designated areas. We then implement a sequential photopatterning approach by adding a second switchable patterning step, allowing for spatiotemporal control over two distinct surface patterns. As a proof of concept, we reconstruct the dynamics of the tip/stalk cell switch during angiogenesis. Our results show that the spatiotemporal control provided by our “sequential photopatterning” system is essential for mimicking dynamic biological processes and that our innovative approach has great potential for further applications in cell science.","lang":"eng"}],"citation":{"ista":"Zisis T, Schwarz J, Balles M, Kretschmer M, Nemethova M, Chait RP, Hauschild R, Lange J, Guet CC, Sixt MK, Zahler S. 2021. Sequential and switchable patterning for studying cellular processes under spatiotemporal control. ACS Applied Materials and Interfaces. 13(30), 35545–35560.","short":"T. Zisis, J. Schwarz, M. Balles, M. Kretschmer, M. Nemethova, R.P. Chait, R. Hauschild, J. Lange, C.C. Guet, M.K. Sixt, S. Zahler, ACS Applied Materials and Interfaces 13 (2021) 35545–35560.","ieee":"T. Zisis <i>et al.</i>, “Sequential and switchable patterning for studying cellular processes under spatiotemporal control,” <i>ACS Applied Materials and Interfaces</i>, vol. 13, no. 30. American Chemical Society, pp. 35545–35560, 2021.","apa":"Zisis, T., Schwarz, J., Balles, M., Kretschmer, M., Nemethova, M., Chait, R. P., … Zahler, S. (2021). Sequential and switchable patterning for studying cellular processes under spatiotemporal control. <i>ACS Applied Materials and Interfaces</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsami.1c09850\">https://doi.org/10.1021/acsami.1c09850</a>","ama":"Zisis T, Schwarz J, Balles M, et al. Sequential and switchable patterning for studying cellular processes under spatiotemporal control. <i>ACS Applied Materials and Interfaces</i>. 2021;13(30):35545–35560. doi:<a href=\"https://doi.org/10.1021/acsami.1c09850\">10.1021/acsami.1c09850</a>","mla":"Zisis, Themistoklis, et al. “Sequential and Switchable Patterning for Studying Cellular Processes under Spatiotemporal Control.” <i>ACS Applied Materials and Interfaces</i>, vol. 13, no. 30, American Chemical Society, 2021, pp. 35545–35560, doi:<a href=\"https://doi.org/10.1021/acsami.1c09850\">10.1021/acsami.1c09850</a>.","chicago":"Zisis, Themistoklis, Jan Schwarz, Miriam Balles, Maibritt Kretschmer, Maria Nemethova, Remy P Chait, Robert Hauschild, et al. “Sequential and Switchable Patterning for Studying Cellular Processes under Spatiotemporal Control.” <i>ACS Applied Materials and Interfaces</i>. American Chemical Society, 2021. <a href=\"https://doi.org/10.1021/acsami.1c09850\">https://doi.org/10.1021/acsami.1c09850</a>."},"volume":13,"ec_funded":1,"ddc":["620","570"],"pmid":1,"publication_identifier":{"eissn":["1944-8252"],"issn":["1944-8244"]},"scopus_import":"1","status":"public","has_accepted_license":"1","oa_version":"Published Version","oa":1,"_id":"9822","acknowledgement":"We would like to thank Charlott Leu for the production of our chromium wafers, Louise Ritter for her contribution of the IF stainings in Figure 4, Shokoufeh Teymouri for her help with the Bioinert coated slides, and finally Prof. Dr. Joachim Rädler for his valuable scientific guidance.","page":"35545–35560","article_processing_charge":"Yes (in subscription journal)","corr_author":"1","date_created":"2021-08-08T22:01:28Z","external_id":{"isi":["000683741400026"],"pmid":["34283577"]},"tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"date_published":"2021-08-04T00:00:00Z","quality_controlled":"1","author":[{"last_name":"Zisis","first_name":"Themistoklis","full_name":"Zisis, Themistoklis"},{"id":"346C1EC6-F248-11E8-B48F-1D18A9856A87","first_name":"Jan","last_name":"Schwarz","full_name":"Schwarz, Jan"},{"full_name":"Balles, Miriam","first_name":"Miriam","last_name":"Balles"},{"first_name":"Maibritt","last_name":"Kretschmer","full_name":"Kretschmer, Maibritt"},{"first_name":"Maria","id":"34E27F1C-F248-11E8-B48F-1D18A9856A87","last_name":"Nemethova","full_name":"Nemethova, Maria"},{"full_name":"Chait, Remy P","id":"3464AE84-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0876-3187","first_name":"Remy P","last_name":"Chait"},{"full_name":"Hauschild, Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522","first_name":"Robert"},{"last_name":"Lange","first_name":"Janina","full_name":"Lange, Janina"},{"first_name":"Calin C","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6220-2052","last_name":"Guet","full_name":"Guet, Calin C"},{"full_name":"Sixt, Michael K","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","first_name":"Michael K"},{"first_name":"Stefan","last_name":"Zahler","full_name":"Zahler, Stefan"}],"intvolume":"        13","title":"Sequential and switchable patterning for studying cellular processes under spatiotemporal control","project":[{"call_identifier":"H2020","_id":"25FE9508-B435-11E9-9278-68D0E5697425","grant_number":"724373","name":"Cellular Navigation Along Spatial Gradients"}],"file":[{"date_created":"2021-08-09T09:44:03Z","file_name":"2021_ACSAppliedMaterialsAndInterfaces_Zisis.pdf","content_type":"application/pdf","file_id":"9833","file_size":7123293,"creator":"asandaue","access_level":"open_access","success":1,"date_updated":"2021-08-09T09:44:03Z","relation":"main_file","checksum":"b043a91d9f9200e467b970b692687ed3"}],"issue":"30","department":[{"_id":"MiSi"},{"_id":"GaTk"},{"_id":"Bio"},{"_id":"CaGu"}],"publication_status":"published","publisher":"American Chemical Society","type":"journal_article","doi":"10.1021/acsami.1c09850","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/"},{"_id":"9823","page":"87-105","date_created":"2021-08-08T22:01:29Z","article_processing_charge":"No","date_published":"2021-06-20T00:00:00Z","external_id":{"arxiv":["2103.08949"],"isi":["001292788400006"]},"conference":{"name":"SIROCCO: Structural Information and Communication Complexity","location":"Wrocław, Poland","end_date":"2021-07-01","start_date":"2021-06-28"},"quality_controlled":"1","intvolume":"     12810","author":[{"id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X","first_name":"Dan-Adrian","last_name":"Alistarh","full_name":"Alistarh, Dan-Adrian"},{"last_name":"Ellen","first_name":"Faith","full_name":"Ellen, Faith"},{"full_name":"Rybicki, Joel","last_name":"Rybicki","first_name":"Joel","id":"334EFD2E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6432-6646"}],"title":"Wait-free approximate agreement on graphs","department":[{"_id":"DaAl"}],"publication_status":"published","doi":"10.1007/978-3-030-79527-6_6","type":"conference","publisher":"Springer Nature","month":"06","day":"20","alternative_title":["LNCS"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","language":[{"iso":"eng"}],"publication":"Structural Information and Communication Complexity","date_updated":"2026-04-16T09:26:11Z","year":"2021","isi":1,"abstract":[{"lang":"eng","text":"Approximate agreement is one of the few variants of consensus that can be solved in a wait-free manner in asynchronous systems where processes communicate by reading and writing to shared memory. In this work, we consider a natural generalisation of approximate agreement on arbitrary undirected connected graphs. Each process is given a vertex of the graph as input and, if non-faulty, must output a vertex such that\r\nall the outputs are within distance 1 of one another, and\r\n\r\neach output value lies on a shortest path between two input values.\r\n\r\nFrom prior work, it is known that there is no wait-free algorithm among   𝑛≥3  processes for this problem on any cycle of length   𝑐≥4 , by reduction from 2-set agreement (Castañeda et al. 2018).\r\n\r\nIn this work, we investigate the solvability and complexity of this task on general graphs. We give a new, direct proof of the impossibility of approximate agreement on cycles of length   𝑐≥4 , via a generalisation of Sperner’s Lemma to convex polygons. We also extend the reduction from 2-set agreement to a larger class of graphs, showing that approximate agreement on these graphs is unsolvable. On the positive side, we present a wait-free algorithm for a class of graphs that properly contains the class of chordal graphs."}],"citation":{"mla":"Alistarh, Dan-Adrian, et al. “Wait-Free Approximate Agreement on Graphs.” <i>Structural Information and Communication Complexity</i>, vol. 12810, Springer Nature, 2021, pp. 87–105, doi:<a href=\"https://doi.org/10.1007/978-3-030-79527-6_6\">10.1007/978-3-030-79527-6_6</a>.","ama":"Alistarh D-A, Ellen F, Rybicki J. Wait-free approximate agreement on graphs. In: <i>Structural Information and Communication Complexity</i>. Vol 12810. Springer Nature; 2021:87-105. doi:<a href=\"https://doi.org/10.1007/978-3-030-79527-6_6\">10.1007/978-3-030-79527-6_6</a>","chicago":"Alistarh, Dan-Adrian, Faith Ellen, and Joel Rybicki. “Wait-Free Approximate Agreement on Graphs.” In <i>Structural Information and Communication Complexity</i>, 12810:87–105. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-79527-6_6\">https://doi.org/10.1007/978-3-030-79527-6_6</a>.","ista":"Alistarh D-A, Ellen F, Rybicki J. 2021. Wait-free approximate agreement on graphs. Structural Information and Communication Complexity. SIROCCO: Structural Information and Communication Complexity, LNCS, vol. 12810, 87–105.","apa":"Alistarh, D.-A., Ellen, F., &#38; Rybicki, J. (2021). Wait-free approximate agreement on graphs. In <i>Structural Information and Communication Complexity</i> (Vol. 12810, pp. 87–105). Wrocław, Poland: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-79527-6_6\">https://doi.org/10.1007/978-3-030-79527-6_6</a>","ieee":"D.-A. Alistarh, F. Ellen, and J. Rybicki, “Wait-free approximate agreement on graphs,” in <i>Structural Information and Communication Complexity</i>, Wrocław, Poland, 2021, vol. 12810, pp. 87–105.","short":"D.-A. Alistarh, F. Ellen, J. Rybicki, in:, Structural Information and Communication Complexity, Springer Nature, 2021, pp. 87–105."},"volume":12810,"scopus_import":"1","publication_identifier":{"isbn":["9783030795269"],"eissn":["1611-3349"],"issn":["0302-9743"]},"status":"public","oa_version":"Preprint","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/2103.08949","open_access":"1"}],"arxiv":1},{"volume":12708,"ec_funded":1,"citation":{"ieee":"L. Čomić, R. Zrour, G. Largeteau-Skapin, R. Biswas, and E. Andres, “Body centered cubic grid - coordinate system and discrete analytical plane definition,” in <i>Discrete Geometry and Mathematical Morphology</i>, Uppsala, Sweden, 2021, vol. 12708, pp. 152–163.","apa":"Čomić, L., Zrour, R., Largeteau-Skapin, G., Biswas, R., &#38; Andres, E. (2021). Body centered cubic grid - coordinate system and discrete analytical plane definition. In <i>Discrete Geometry and Mathematical Morphology</i> (Vol. 12708, pp. 152–163). Uppsala, Sweden: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-76657-3_10\">https://doi.org/10.1007/978-3-030-76657-3_10</a>","short":"L. Čomić, R. Zrour, G. Largeteau-Skapin, R. Biswas, E. Andres, in:, Discrete Geometry and Mathematical Morphology, Springer Nature, 2021, pp. 152–163.","ista":"Čomić L, Zrour R, Largeteau-Skapin G, Biswas R, Andres E. 2021. Body centered cubic grid - coordinate system and discrete analytical plane definition. Discrete Geometry and Mathematical Morphology. DGMM: International Conference on Discrete Geometry and Mathematical Morphology, LNCS, vol. 12708, 152–163.","chicago":"Čomić, Lidija, Rita Zrour, Gaëlle Largeteau-Skapin, Ranita Biswas, and Eric Andres. “Body Centered Cubic Grid - Coordinate System and Discrete Analytical Plane Definition.” In <i>Discrete Geometry and Mathematical Morphology</i>, 12708:152–63. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-76657-3_10\">https://doi.org/10.1007/978-3-030-76657-3_10</a>.","mla":"Čomić, Lidija, et al. “Body Centered Cubic Grid - Coordinate System and Discrete Analytical Plane Definition.” <i>Discrete Geometry and Mathematical Morphology</i>, vol. 12708, Springer Nature, 2021, pp. 152–63, doi:<a href=\"https://doi.org/10.1007/978-3-030-76657-3_10\">10.1007/978-3-030-76657-3_10</a>.","ama":"Čomić L, Zrour R, Largeteau-Skapin G, Biswas R, Andres E. Body centered cubic grid - coordinate system and discrete analytical plane definition. In: <i>Discrete Geometry and Mathematical Morphology</i>. Vol 12708. Springer Nature; 2021:152-163. doi:<a href=\"https://doi.org/10.1007/978-3-030-76657-3_10\">10.1007/978-3-030-76657-3_10</a>"},"oa_version":"None","status":"public","scopus_import":"1","publication_identifier":{"eissn":["1611-3349"],"isbn":["9783030766566"],"issn":["0302-9743"]},"language":[{"iso":"eng"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","alternative_title":["LNCS"],"day":"16","month":"05","abstract":[{"lang":"eng","text":"We define a new compact coordinate system in which each integer triplet addresses a voxel in the BCC grid, and we investigate some of its properties. We propose a characterization of 3D discrete analytical planes with their topological features (in the Cartesian and in the new coordinate system) such as the interrelation between the thickness of the plane and the separability constraint we aim to obtain."}],"isi":1,"year":"2021","date_updated":"2026-04-16T09:26:30Z","publication":"Discrete Geometry and Mathematical Morphology","title":"Body centered cubic grid - coordinate system and discrete analytical plane definition","project":[{"name":"Alpha Shape Theory Extended","call_identifier":"H2020","grant_number":"788183","_id":"266A2E9E-B435-11E9-9278-68D0E5697425"},{"name":"Persistence and stability of geometric complexes","grant_number":"I02979-N35","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"publisher":"Springer Nature","doi":"10.1007/978-3-030-76657-3_10","type":"conference","publication_status":"published","department":[{"_id":"HeEd"}],"article_processing_charge":"No","date_created":"2021-08-08T22:01:29Z","page":"152-163","acknowledgement":"This work has been partially supported by the Ministry of Education, Science and Technological Development of the Republic of Serbia through the project no. 451-03-68/2020-14/200156: “Innovative scientific and artistic research from the FTS (activity) domain” (LČ), the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme, grant no. 788183 (RB), and the DFG Collaborative Research Center TRR 109, ‘Discretization in Geometry and Dynamics’, Austrian Science Fund (FWF), grant no. I 02979-N35 (RB).","_id":"9824","author":[{"first_name":"Lidija","last_name":"Čomić","full_name":"Čomić, Lidija"},{"full_name":"Zrour, Rita","last_name":"Zrour","first_name":"Rita"},{"full_name":"Largeteau-Skapin, Gaëlle","last_name":"Largeteau-Skapin","first_name":"Gaëlle"},{"last_name":"Biswas","first_name":"Ranita","id":"3C2B033E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5372-7890","full_name":"Biswas, Ranita"},{"full_name":"Andres, Eric","last_name":"Andres","first_name":"Eric"}],"intvolume":"     12708","quality_controlled":"1","conference":{"name":"DGMM: International Conference on Discrete Geometry and Mathematical Morphology","end_date":"2021-05-27","start_date":"2021-05-24","location":"Uppsala, Sweden"},"external_id":{"isi":["001286400400010"]},"date_published":"2021-05-16T00:00:00Z"},{"status":"public","publication_identifier":{"issn":["0302-9743"],"isbn":["9783030755386"],"eissn":["1611-3349"]},"scopus_import":"1","main_file_link":[{"url":"https://eprint.iacr.org/2021/557","open_access":"1"}],"oa":1,"oa_version":"Preprint","volume":12704,"citation":{"chicago":"Laarhoven, Thijs, and Michael Walter. “Dual Lattice Attacks for Closest Vector Problems (with Preprocessing).” In <i>Topics in Cryptology – CT-RSA 2021</i>, 12704:478–502. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-75539-3_20\">https://doi.org/10.1007/978-3-030-75539-3_20</a>.","ama":"Laarhoven T, Walter M. Dual lattice attacks for closest vector problems (with preprocessing). In: <i>Topics in Cryptology – CT-RSA 2021</i>. Vol 12704. Springer Nature; 2021:478-502. doi:<a href=\"https://doi.org/10.1007/978-3-030-75539-3_20\">10.1007/978-3-030-75539-3_20</a>","mla":"Laarhoven, Thijs, and Michael Walter. “Dual Lattice Attacks for Closest Vector Problems (with Preprocessing).” <i>Topics in Cryptology – CT-RSA 2021</i>, vol. 12704, Springer Nature, 2021, pp. 478–502, doi:<a href=\"https://doi.org/10.1007/978-3-030-75539-3_20\">10.1007/978-3-030-75539-3_20</a>.","ieee":"T. Laarhoven and M. Walter, “Dual lattice attacks for closest vector problems (with preprocessing),” in <i>Topics in Cryptology – CT-RSA 2021</i>, Virtual Event, 2021, vol. 12704, pp. 478–502.","apa":"Laarhoven, T., &#38; Walter, M. (2021). Dual lattice attacks for closest vector problems (with preprocessing). In <i>Topics in Cryptology – CT-RSA 2021</i> (Vol. 12704, pp. 478–502). Virtual Event: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-75539-3_20\">https://doi.org/10.1007/978-3-030-75539-3_20</a>","short":"T. Laarhoven, M. Walter, in:, Topics in Cryptology – CT-RSA 2021, Springer Nature, 2021, pp. 478–502.","ista":"Laarhoven T, Walter M. 2021. Dual lattice attacks for closest vector problems (with preprocessing). Topics in Cryptology – CT-RSA 2021. CT-RSA: Cryptographers’ Track at the RSA Conference, LNCS, vol. 12704, 478–502."},"date_updated":"2026-04-16T09:28:30Z","publication":"Topics in Cryptology – CT-RSA 2021","abstract":[{"text":"The dual attack has long been considered a relevant attack on lattice-based cryptographic schemes relying on the hardness of learning with errors (LWE) and its structured variants. As solving LWE corresponds to finding a nearest point on a lattice, one may naturally wonder how efficient this dual approach is for solving more general closest vector problems, such as the classical closest vector problem (CVP), the variants bounded distance decoding (BDD) and approximate CVP, and preprocessing versions of these problems. While primal, sieving-based solutions to these problems (with preprocessing) were recently studied in a series of works on approximate Voronoi cells [Laa16b, DLdW19, Laa20, DLvW20], for the dual attack no such overview exists, especially for problems with preprocessing. With one of the take-away messages of the approximate Voronoi cell line of work being that primal attacks work well for approximate CVP(P) but scale poorly for BDD(P), one may further wonder if the dual attack suffers the same drawbacks, or if it is perhaps a better solution when trying to solve BDD(P).\r\n\r\nIn this work we provide an overview of cost estimates for dual algorithms for solving these “classical” closest lattice vector problems. Heuristically we expect to solve the search version of average-case CVPP in time and space   20.293𝑑+𝑜(𝑑)  in the single-target model. The distinguishing version of average-case CVPP, where we wish to distinguish between random targets and targets planted at distance (say)   0.99⋅𝑔𝑑  from the lattice, has the same complexity in the single-target model, but can be solved in time and space   20.195𝑑+𝑜(𝑑)  in the multi-target setting, when given a large number of targets from either target distribution. This suggests an inequivalence between distinguishing and searching, as we do not expect a similar improvement in the multi-target setting to hold for search-CVPP. We analyze three slightly different decoders, both for distinguishing and searching, and experimentally obtain concrete cost estimates for the dual attack in dimensions 50 to 80, which confirm our heuristic assumptions, and show that the hidden order terms in the asymptotic estimates are quite small.\r\n\r\nOur main take-away message is that the dual attack appears to mirror the approximate Voronoi cell line of work – whereas using approximate Voronoi cells works well for approximate CVP(P) but scales poorly for BDD(P), the dual approach scales well for BDD(P) instances but performs poorly on approximate CVP(P).","lang":"eng"}],"year":"2021","month":"05","language":[{"iso":"eng"}],"day":"11","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","alternative_title":["LNCS"],"publication_status":"published","department":[{"_id":"KrPi"}],"type":"conference","doi":"10.1007/978-3-030-75539-3_20","publisher":"Springer Nature","title":"Dual lattice attacks for closest vector problems (with preprocessing)","quality_controlled":"1","date_published":"2021-05-11T00:00:00Z","conference":{"name":"CT-RSA: Cryptographers’ Track at the RSA Conference","start_date":"2021-05-17","location":"Virtual Event","end_date":"2021-05-20"},"intvolume":"     12704","author":[{"first_name":"Thijs","last_name":"Laarhoven","full_name":"Laarhoven, Thijs"},{"full_name":"Walter, Michael","last_name":"Walter","id":"488F98B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3186-2482","first_name":"Michael"}],"acknowledgement":"The authors thank Sauvik Bhattacharya, L´eo Ducas, Rachel Player, and Christine van Vredendaal for early discussions on this topic and on preliminary results. The authors further thank the reviewers of CT-RSA 2021 for their valuable feedback.","_id":"9825","date_created":"2021-08-08T22:01:30Z","article_processing_charge":"No","page":"478-502"},{"author":[{"last_name":"Auerbach","first_name":"Benedikt","id":"D33D2B18-E445-11E9-ABB7-15F4E5697425","orcid":"0000-0002-7553-6606","full_name":"Auerbach, Benedikt"},{"full_name":"Chakraborty, Suvradip","last_name":"Chakraborty","id":"B9CD0494-D033-11E9-B219-A439E6697425","first_name":"Suvradip"},{"last_name":"Klein","first_name":"Karen","id":"3E83A2F8-F248-11E8-B48F-1D18A9856A87","full_name":"Klein, Karen"},{"last_name":"Pascual Perez","first_name":"Guillermo","id":"2D7ABD02-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8630-415X","full_name":"Pascual Perez, Guillermo"},{"full_name":"Pietrzak, Krzysztof Z","first_name":"Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","last_name":"Pietrzak"},{"full_name":"Walter, Michael","last_name":"Walter","id":"488F98B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3186-2482","first_name":"Michael"},{"last_name":"Yeo","id":"2D82B818-F248-11E8-B48F-1D18A9856A87","orcid":"0009-0001-3676-4809","first_name":"Michelle X","full_name":"Yeo, Michelle X"}],"intvolume":"     12704","conference":{"name":"CT-RSA: Cryptographers’ Track at the RSA Conference","location":"Virtual Event","end_date":"2021-05-20","start_date":"2021-05-17"},"date_published":"2021-05-11T00:00:00Z","quality_controlled":"1","page":"399-421","corr_author":"1","article_processing_charge":"No","date_created":"2021-08-08T22:01:30Z","_id":"9826","acknowledgement":"Guillermo Pascual-Perez and Michelle Yeo were funded by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska–Curie Grant Agreement No. 665385; the remaining contributors to this project have received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (682815 - TOCNeT).","publisher":"Springer Nature","type":"conference","doi":"10.1007/978-3-030-75539-3_17","department":[{"_id":"KrPi"},{"_id":"GradSch"}],"publication_status":"published","project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020","name":"International IST Doctoral Program"},{"name":"Teaching Old Crypto New Tricks","call_identifier":"H2020","grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425"}],"title":"Inverse-Sybil attacks in automated contact tracing","year":"2021","abstract":[{"lang":"eng","text":"Automated contract tracing aims at supporting manual contact tracing during pandemics by alerting users of encounters with infected people. There are currently many proposals for protocols (like the “decentralized” DP-3T and PACT or the “centralized” ROBERT and DESIRE) to be run on mobile phones, where the basic idea is to regularly broadcast (using low energy Bluetooth) some values, and at the same time store (a function of) incoming messages broadcasted by users in their proximity. In the existing proposals one can trigger false positives on a massive scale by an “inverse-Sybil” attack, where a large number of devices (malicious users or hacked phones) pretend to be the same user, such that later, just a single person needs to be diagnosed (and allowed to upload) to trigger an alert for all users who were in proximity to any of this large group of devices.\r\n\r\nWe propose the first protocols that do not succumb to such attacks assuming the devices involved in the attack do not constantly communicate, which we observe is a necessary assumption. The high level idea of the protocols is to derive the values to be broadcasted by a hash chain, so that two (or more) devices who want to launch an inverse-Sybil attack will not be able to connect their respective chains and thus only one of them will be able to upload. Our protocols also achieve security against replay, belated replay, and one of them even against relay attacks."}],"publication":"Topics in Cryptology – CT-RSA 2021","date_updated":"2026-04-16T09:28:46Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","alternative_title":["LNCS"],"day":"11","language":[{"iso":"eng"}],"month":"05","oa_version":"Submitted Version","oa":1,"main_file_link":[{"url":"https://eprint.iacr.org/2020/670","open_access":"1"}],"publication_identifier":{"eissn":["1611-3349"],"isbn":["9783030755386"],"issn":["0302-9743"]},"scopus_import":"1","status":"public","citation":{"ieee":"B. Auerbach <i>et al.</i>, “Inverse-Sybil attacks in automated contact tracing,” in <i>Topics in Cryptology – CT-RSA 2021</i>, Virtual Event, 2021, vol. 12704, pp. 399–421.","apa":"Auerbach, B., Chakraborty, S., Klein, K., Pascual Perez, G., Pietrzak, K. Z., Walter, M., &#38; Yeo, M. X. (2021). Inverse-Sybil attacks in automated contact tracing. In <i>Topics in Cryptology – CT-RSA 2021</i> (Vol. 12704, pp. 399–421). Virtual Event: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-030-75539-3_17\">https://doi.org/10.1007/978-3-030-75539-3_17</a>","short":"B. Auerbach, S. Chakraborty, K. Klein, G. Pascual Perez, K.Z. Pietrzak, M. Walter, M.X. Yeo, in:, Topics in Cryptology – CT-RSA 2021, Springer Nature, 2021, pp. 399–421.","ista":"Auerbach B, Chakraborty S, Klein K, Pascual Perez G, Pietrzak KZ, Walter M, Yeo MX. 2021. Inverse-Sybil attacks in automated contact tracing. Topics in Cryptology – CT-RSA 2021. CT-RSA: Cryptographers’ Track at the RSA Conference, LNCS, vol. 12704, 399–421.","chicago":"Auerbach, Benedikt, Suvradip Chakraborty, Karen Klein, Guillermo Pascual Perez, Krzysztof Z Pietrzak, Michael Walter, and Michelle X Yeo. “Inverse-Sybil Attacks in Automated Contact Tracing.” In <i>Topics in Cryptology – CT-RSA 2021</i>, 12704:399–421. Springer Nature, 2021. <a href=\"https://doi.org/10.1007/978-3-030-75539-3_17\">https://doi.org/10.1007/978-3-030-75539-3_17</a>.","mla":"Auerbach, Benedikt, et al. “Inverse-Sybil Attacks in Automated Contact Tracing.” <i>Topics in Cryptology – CT-RSA 2021</i>, vol. 12704, Springer Nature, 2021, pp. 399–421, doi:<a href=\"https://doi.org/10.1007/978-3-030-75539-3_17\">10.1007/978-3-030-75539-3_17</a>.","ama":"Auerbach B, Chakraborty S, Klein K, et al. Inverse-Sybil attacks in automated contact tracing. In: <i>Topics in Cryptology – CT-RSA 2021</i>. Vol 12704. Springer Nature; 2021:399-421. doi:<a href=\"https://doi.org/10.1007/978-3-030-75539-3_17\">10.1007/978-3-030-75539-3_17</a>"},"volume":12704,"ec_funded":1},{"citation":{"ista":"Chatterjee B, Walulya I, Tsigas P. 2021. Concurrent linearizable nearest neighbour search in LockFree-kD-tree. Theoretical Computer Science. 886, 27–48.","short":"B. Chatterjee, I. Walulya, P. Tsigas, Theoretical Computer Science 886 (2021) 27–48.","apa":"Chatterjee, B., Walulya, I., &#38; Tsigas, P. (2021). Concurrent linearizable nearest neighbour search in LockFree-kD-tree. <i>Theoretical Computer Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tcs.2021.06.041\">https://doi.org/10.1016/j.tcs.2021.06.041</a>","ieee":"B. Chatterjee, I. Walulya, and P. Tsigas, “Concurrent linearizable nearest neighbour search in LockFree-kD-tree,” <i>Theoretical Computer Science</i>, vol. 886. Elsevier, pp. 27–48, 2021.","mla":"Chatterjee, Bapi, et al. “Concurrent Linearizable Nearest Neighbour Search in LockFree-KD-Tree.” <i>Theoretical Computer Science</i>, vol. 886, Elsevier, 2021, pp. 27–48, doi:<a href=\"https://doi.org/10.1016/j.tcs.2021.06.041\">10.1016/j.tcs.2021.06.041</a>.","ama":"Chatterjee B, Walulya I, Tsigas P. Concurrent linearizable nearest neighbour search in LockFree-kD-tree. <i>Theoretical Computer Science</i>. 2021;886:27-48. doi:<a href=\"https://doi.org/10.1016/j.tcs.2021.06.041\">10.1016/j.tcs.2021.06.041</a>","chicago":"Chatterjee, Bapi, Ivan Walulya, and Philippas Tsigas. “Concurrent Linearizable Nearest Neighbour Search in LockFree-KD-Tree.” <i>Theoretical Computer Science</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.tcs.2021.06.041\">https://doi.org/10.1016/j.tcs.2021.06.041</a>."},"volume":886,"scopus_import":"1","publication_identifier":{"issn":["0304-3975"]},"status":"public","oa":1,"oa_version":"Submitted Version","main_file_link":[{"url":"https://publications.lib.chalmers.se/records/fulltext/232185/232185.pdf","open_access":"1"}],"month":"09","day":"13","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_type":"original","language":[{"iso":"eng"}],"publication":"Theoretical Computer Science","date_updated":"2024-10-09T21:00:45Z","year":"2021","isi":1,"abstract":[{"text":"The Nearest neighbour search (NNS) is a fundamental problem in many application domains dealing with multidimensional data. In a concurrent setting, where dynamic modifications are allowed, a linearizable implementation of the NNS is highly desirable.This paper introduces the LockFree-kD-tree (LFkD-tree ): a lock-free concurrent kD-tree, which implements an abstract data type (ADT) that provides the operations Add, Remove, Contains, and NNS. Our implementation is linearizable. The operations in the LFkD-tree use single-word read and compare-and-swap (Image 1 ) atomic primitives, which are readily supported on available multi-core processors. We experimentally evaluate the LFkD-tree using several benchmarks comprising real-world and synthetic datasets. The experiments show that the presented design is scalable and achieves significant speed-up compared to the implementations of an existing sequential kD-tree and a recently proposed multidimensional indexing structure, PH-tree.","lang":"eng"}],"title":"Concurrent linearizable nearest neighbour search in LockFree-kD-tree","department":[{"_id":"DaAl"}],"publication_status":"published","doi":"10.1016/j.tcs.2021.06.041","type":"journal_article","publisher":"Elsevier","_id":"9827","page":"27-48","keyword":["Concurrent data structure","kD-tree","Nearest neighbor search","Similarity search","Lock-free","Linearizability"],"date_created":"2021-08-08T22:01:31Z","corr_author":"1","article_processing_charge":"No","date_published":"2021-09-13T00:00:00Z","external_id":{"isi":["000694718900004"]},"quality_controlled":"1","intvolume":"       886","author":[{"full_name":"Chatterjee, Bapi","last_name":"Chatterjee","orcid":"0000-0002-2742-4028","id":"3C41A08A-F248-11E8-B48F-1D18A9856A87","first_name":"Bapi"},{"full_name":"Walulya, Ivan","first_name":"Ivan","last_name":"Walulya"},{"last_name":"Tsigas","first_name":"Philippas","full_name":"Tsigas, Philippas"}]},{"doi":"10.1021/acsnano.1c03276","type":"journal_article","publisher":"American Chemical Society","department":[{"_id":"MaIb"}],"publication_status":"published","issue":"7","title":"News in Nanocrystals seminar: Self-assembly of early career researchers toward globally accessible nanoscience","intvolume":"        15","author":[{"last_name":"Baranov","first_name":"Dmitry","full_name":"Baranov, Dmitry"},{"first_name":"Tara","last_name":"Šverko","full_name":"Šverko, Tara"},{"last_name":"Moot","first_name":"Taylor","full_name":"Moot, Taylor"},{"full_name":"Keller, Helena R.","last_name":"Keller","first_name":"Helena R."},{"full_name":"Klein, Megan D.","last_name":"Klein","first_name":"Megan D."},{"full_name":"Vishnu, E. K.","first_name":"E. K.","last_name":"Vishnu"},{"first_name":"Daniel","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","orcid":"0000-0001-7597-043X","last_name":"Balazs","full_name":"Balazs, Daniel"},{"full_name":"Shulenberger, Katherine E.","last_name":"Shulenberger","first_name":"Katherine E."}],"date_published":"2021-07-06T00:00:00Z","external_id":{"isi":["000679406500002"],"pmid":["34228432"]},"quality_controlled":"1","page":"10743–10747","date_created":"2021-08-08T22:01:31Z","article_processing_charge":"No","_id":"9829","acknowledgement":"K. E. Shulenberger, M. D. Klein, T. Šverko, and H. R. Keller would like to thank Professors Moungi Bawendi (MIT) and Gordana Dukovic (CU Boulder) for their feedback and support of the News in Nanocrystals initiative. The authors thank Madison Jilek (CU Boulder) and Dhananjeya Kumaar (ETH Zurich) for their help in the organization of the seminar, and Professors Brandi Cossairt (University of Washington) and Gordana Dukovic for their feedback on an earlier version of this manuscript. The authors thank all the seminar speakers and attendees for their interest and continuing participation in the seminar series.","oa_version":"Published Version","oa":1,"main_file_link":[{"url":"https://doi.org/10.1021/acsnano.1c03276","open_access":"1"}],"scopus_import":"1","publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"status":"public","ddc":["540"],"pmid":1,"citation":{"chicago":"Baranov, Dmitry, Tara Šverko, Taylor Moot, Helena R. Keller, Megan D. Klein, E. K. Vishnu, Daniel Balazs, and Katherine E. Shulenberger. “News in Nanocrystals Seminar: Self-Assembly of Early Career Researchers toward Globally Accessible Nanoscience.” <i>ACS Nano</i>. American Chemical Society, 2021. <a href=\"https://doi.org/10.1021/acsnano.1c03276\">https://doi.org/10.1021/acsnano.1c03276</a>.","ama":"Baranov D, Šverko T, Moot T, et al. News in Nanocrystals seminar: Self-assembly of early career researchers toward globally accessible nanoscience. <i>ACS Nano</i>. 2021;15(7):10743–10747. doi:<a href=\"https://doi.org/10.1021/acsnano.1c03276\">10.1021/acsnano.1c03276</a>","mla":"Baranov, Dmitry, et al. “News in Nanocrystals Seminar: Self-Assembly of Early Career Researchers toward Globally Accessible Nanoscience.” <i>ACS Nano</i>, vol. 15, no. 7, American Chemical Society, 2021, pp. 10743–10747, doi:<a href=\"https://doi.org/10.1021/acsnano.1c03276\">10.1021/acsnano.1c03276</a>.","short":"D. Baranov, T. Šverko, T. Moot, H.R. Keller, M.D. Klein, E.K. Vishnu, D. Balazs, K.E. Shulenberger, ACS Nano 15 (2021) 10743–10747.","apa":"Baranov, D., Šverko, T., Moot, T., Keller, H. R., Klein, M. D., Vishnu, E. K., … Shulenberger, K. E. (2021). News in Nanocrystals seminar: Self-assembly of early career researchers toward globally accessible nanoscience. <i>ACS Nano</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsnano.1c03276\">https://doi.org/10.1021/acsnano.1c03276</a>","ieee":"D. Baranov <i>et al.</i>, “News in Nanocrystals seminar: Self-assembly of early career researchers toward globally accessible nanoscience,” <i>ACS Nano</i>, vol. 15, no. 7. American Chemical Society, pp. 10743–10747, 2021.","ista":"Baranov D, Šverko T, Moot T, Keller HR, Klein MD, Vishnu EK, Balazs D, Shulenberger KE. 2021. News in Nanocrystals seminar: Self-assembly of early career researchers toward globally accessible nanoscience. ACS Nano. 15(7), 10743–10747."},"volume":15,"year":"2021","isi":1,"abstract":[{"lang":"eng","text":"In 2020, many in-person scientific events were canceled due to the COVID-19 pandemic, creating a vacuum in networking and knowledge exchange between scientists. To fill this void in scientific communication, a group of early career nanocrystal enthusiasts launched the virtual seminar series, News in Nanocrystals, in the summer of 2020. By the end of the year, the series had attracted over 850 participants from 46 countries. In this Nano Focus, we describe the process of organizing the News in Nanocrystals seminar series; discuss its growth, emphasizing what the organizers have learned in terms of diversity and accessibility; and provide an outlook for the next steps and future opportunities. This summary and analysis of experiences and learned lessons are intended to inform the broader scientific community, especially those who are looking for avenues to continue fostering discussion and scientific engagement virtually, both during the pandemic and after."}],"publication":"ACS Nano","date_updated":"2026-06-18T19:58:29Z","day":"06","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","language":[{"iso":"eng"}],"month":"07"},{"_id":"6965","date_created":"2019-10-24T08:04:09Z","article_processing_charge":"No","corr_author":"1","page":"560-574","quality_controlled":"1","date_published":"2021-04-01T00:00:00Z","external_id":{"isi":["000594805800001"],"arxiv":["1910.10435"]},"intvolume":"        53","author":[{"last_name":"Rychlewicz","first_name":"Kamil P","id":"85A07246-A8BF-11E9-B4FA-D9E3E5697425","full_name":"Rychlewicz, Kamil P"}],"title":"The positivity of local equivariant Hirzebruch class for toric varieties","issue":"2","publication_status":"published","department":[{"_id":"TaHa"}],"doi":"10.1112/blms.12442","type":"journal_article","publisher":"Wiley","month":"04","article_type":"original","language":[{"iso":"eng"}],"day":"01","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2024-10-09T20:59:03Z","publication":"Bulletin of the London Mathematical Society","abstract":[{"text":"The central object of investigation of this paper is the Hirzebruch class, a deformation of the Todd class, given by Hirzebruch (for smooth varieties). The generalization for singular varieties is due to Brasselet–Schürmann–Yokura. Following the work of Weber, we investigate its equivariant version for (possibly singular) toric varieties. The local decomposition of the Hirzebruch class to the fixed points of the torus action and a formula for the local class in terms of the defining fan are recalled. After this review part, we prove the positivity of local Hirzebruch classes for all toric varieties, thus proving false the alleged counterexample given by Weber.","lang":"eng"}],"year":"2021","isi":1,"volume":53,"citation":{"ista":"Rychlewicz KP. 2021. The positivity of local equivariant Hirzebruch class for toric varieties. Bulletin of the London Mathematical Society. 53(2), 560–574.","short":"K.P. Rychlewicz, Bulletin of the London Mathematical Society 53 (2021) 560–574.","ieee":"K. P. Rychlewicz, “The positivity of local equivariant Hirzebruch class for toric varieties,” <i>Bulletin of the London Mathematical Society</i>, vol. 53, no. 2. Wiley, pp. 560–574, 2021.","apa":"Rychlewicz, K. P. (2021). The positivity of local equivariant Hirzebruch class for toric varieties. <i>Bulletin of the London Mathematical Society</i>. Wiley. <a href=\"https://doi.org/10.1112/blms.12442\">https://doi.org/10.1112/blms.12442</a>","mla":"Rychlewicz, Kamil P. “The Positivity of Local Equivariant Hirzebruch Class for Toric Varieties.” <i>Bulletin of the London Mathematical Society</i>, vol. 53, no. 2, Wiley, 2021, pp. 560–74, doi:<a href=\"https://doi.org/10.1112/blms.12442\">10.1112/blms.12442</a>.","ama":"Rychlewicz KP. The positivity of local equivariant Hirzebruch class for toric varieties. <i>Bulletin of the London Mathematical Society</i>. 2021;53(2):560-574. doi:<a href=\"https://doi.org/10.1112/blms.12442\">10.1112/blms.12442</a>","chicago":"Rychlewicz, Kamil P. “The Positivity of Local Equivariant Hirzebruch Class for Toric Varieties.” <i>Bulletin of the London Mathematical Society</i>. Wiley, 2021. <a href=\"https://doi.org/10.1112/blms.12442\">https://doi.org/10.1112/blms.12442</a>."},"status":"public","scopus_import":"1","publication_identifier":{"eissn":["1469-2120"],"issn":["0024-6093"]},"main_file_link":[{"url":"https://arxiv.org/abs/1910.10435","open_access":"1"}],"arxiv":1,"oa":1,"oa_version":"Preprint"},{"publication":"Nature Neuroscience","date_updated":"2025-07-09T09:00:12Z","year":"2021","isi":1,"abstract":[{"lang":"eng","text":"Human brain organoids represent a powerful tool for the study of human neurological diseases particularly those that impact brain growth and structure. However, many neurological diseases lack obvious anatomical abnormalities, yet significantly impact neural network functions, raising the question of whether organoids possess sufficient neural network architecture and complexity to model these conditions. Here, we explore the network level functions of brain organoids using calcium sensor imaging and extracellular recording approaches that together reveal the existence of complex oscillatory network behaviors reminiscent of intact brain preparations. We further demonstrate strikingly abnormal epileptiform network activity in organoids derived from a Rett Syndrome patient despite only modest anatomical differences from isogenically matched controls, and rescue with an unconventional neuromodulatory drug Pifithrin-α. Together, these findings provide an essential foundation for the utilization of human brain organoids to study intact and disordered human brain network formation and illustrate their utility in therapeutic discovery."}],"month":"08","day":"23","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"review","language":[{"iso":"eng"}],"publication_identifier":{"issn":["1097-6256"],"eissn":["1546-1726"]},"scopus_import":"1","status":"public","oa":1,"oa_version":"Preprint","OA_place":"publisher","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/820183"}],"citation":{"chicago":"Samarasinghe, Ranmal A., Osvaldo Miranda, Jessie E. Buth, Simon Mitchell, Isabella Ferando, Momoko Watanabe, Arinnae Kurdian, et al. “Identification of Neural Oscillations and Epileptiform Changes in Human Brain Organoids.” <i>Nature Neuroscience</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41593-021-00906-5\">https://doi.org/10.1038/s41593-021-00906-5</a>.","ama":"Samarasinghe RA, Miranda O, Buth JE, et al. Identification of neural oscillations and epileptiform changes in human brain organoids. <i>Nature Neuroscience</i>. 2021;24:32. doi:<a href=\"https://doi.org/10.1038/s41593-021-00906-5\">10.1038/s41593-021-00906-5</a>","mla":"Samarasinghe, Ranmal A., et al. “Identification of Neural Oscillations and Epileptiform Changes in Human Brain Organoids.” <i>Nature Neuroscience</i>, vol. 24, Springer Nature, 2021, p. 32, doi:<a href=\"https://doi.org/10.1038/s41593-021-00906-5\">10.1038/s41593-021-00906-5</a>.","short":"R.A. Samarasinghe, O. Miranda, J.E. Buth, S. Mitchell, I. Ferando, M. Watanabe, A. Kurdian, P. Golshani, K. Plath, W.E. Lowry, J.M. Parent, I. Mody, B.G. Novitch, Nature Neuroscience 24 (2021) 32.","apa":"Samarasinghe, R. A., Miranda, O., Buth, J. E., Mitchell, S., Ferando, I., Watanabe, M., … Novitch, B. G. (2021). Identification of neural oscillations and epileptiform changes in human brain organoids. <i>Nature Neuroscience</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41593-021-00906-5\">https://doi.org/10.1038/s41593-021-00906-5</a>","ieee":"R. A. Samarasinghe <i>et al.</i>, “Identification of neural oscillations and epileptiform changes in human brain organoids,” <i>Nature Neuroscience</i>, vol. 24. Springer Nature, p. 32, 2021.","ista":"Samarasinghe RA, Miranda O, Buth JE, Mitchell S, Ferando I, Watanabe M, Kurdian A, Golshani P, Plath K, Lowry WE, Parent JM, Mody I, Novitch BG. 2021. Identification of neural oscillations and epileptiform changes in human brain organoids. Nature Neuroscience. 24, 32."},"volume":24,"pmid":1,"date_published":"2021-08-23T00:00:00Z","external_id":{"isi":["000687516300001"],"pmid":["34426698 "]},"OA_type":"green","quality_controlled":"1","intvolume":"        24","author":[{"full_name":"Samarasinghe, Ranmal A.","first_name":"Ranmal A.","last_name":"Samarasinghe"},{"orcid":"0000-0001-6618-6889","id":"862A3C56-A8BF-11E9-B4FA-D9E3E5697425","first_name":"Osvaldo","last_name":"Miranda","full_name":"Miranda, Osvaldo"},{"full_name":"Buth, Jessie E.","last_name":"Buth","first_name":"Jessie E."},{"full_name":"Mitchell, Simon","first_name":"Simon","last_name":"Mitchell"},{"first_name":"Isabella","last_name":"Ferando","full_name":"Ferando, Isabella"},{"full_name":"Watanabe, Momoko","last_name":"Watanabe","first_name":"Momoko"},{"full_name":"Kurdian, Arinnae","first_name":"Arinnae","last_name":"Kurdian"},{"first_name":"Peyman","last_name":"Golshani","full_name":"Golshani, Peyman"},{"full_name":"Plath, Kathrin","last_name":"Plath","first_name":"Kathrin"},{"full_name":"Lowry, William E.","first_name":"William E.","last_name":"Lowry"},{"full_name":"Parent, Jack M.","first_name":"Jack M.","last_name":"Parent"},{"full_name":"Mody, Istvan","first_name":"Istvan","last_name":"Mody"},{"full_name":"Novitch, Bennett G.","first_name":"Bennett G.","last_name":"Novitch"}],"_id":"6995","acknowledgement":"We thank S. Butler, T. Carmichael and members of the laboratory of B.G.N. for helpful discussions and comments on the manuscript; N. Vishlaghi and F. Turcios-Hernandez for technical assistance, and J. Lee, S.-K. Lee, H. Shinagawa and K. Yoshikawa for valuable reagents. We also thank the UCLA Eli and Edythe Broad Stem Cell Research Center (BSCRC) and Intellectual and Developmental Disabilities Research Center microscopy cores for access to imaging facilities. This work was supported by grants from the California Institute for Regenerative Medicine (CIRM) (DISC1-08819 to B.G.N.), the National Institute of Health (R01NS089817, R01DA051897 and P50HD103557 to B.G.N.; K08NS119747 to R.A.S.; K99HD096105 to M.W.; R01MH123922, R01MH121521 and P50HD103557 to M.J.G.; R01GM099134 to K.P.; R01NS103788 to W.E.L.; R01NS088571 to J.M.P.; R01NS030549 and R01AG050474 to I.M.), and research awards from the UCLA Jonsson Comprehensive Cancer Center and BSCRC Ablon Scholars Program (to B.G.N.), the BSCRC Innovation Program (to B.G.N., K.P. and W.E.L.), the UCLA BSCRC Steffy Brain Aging Research Fund (to B.G.N. and W.E.L.) and the UCLA Clinical and Translational Science Institute (to B.G.N.), Paul Allen Family Foundation Frontiers Group (to K.P. and W.E.L.), the March of Dimes Foundation (to W.E.L.) and the Simons Foundation Autism Research Initiative Bridge to Independence Program (to R.A.S. and M.J.G.). R.A.S. was also supported by the UCLA/NINDS Translational Neuroscience Training Grant (R25NS065723), a Research and Training Fellowship from the American Epilepsy Society, a Taking Flight Award from CURE Epilepsy and a Clinician Scientist training award from the UCLA BSCRC. J.E.B. was supported by the UCLA BSCRC Rose Hills Foundation Graduate Scholarship Training Program. M.W. was supported by postdoctoral training awards provided by the UCLA BSCRC and the Uehara Memorial Foundation. O.A.M. and A.K. were supported in part by the UCLA-California State University Northridge CIRM-Bridges training program (EDUC2-08411). We also acknowledge the support of the IDDRC Cells, Circuits and Systems Analysis, Microscopy and Genetics and Genomics Cores of the Semel Institute of Neuroscience at UCLA, which are supported by the NICHD (U54HD087101 and P50HD10355701). We lastly acknowledge support from a Quantitative and Computational Biosciences Collaboratory Postdoctoral Fellowship to S.M. and the Quantitative and Computational Biosciences Collaboratory community, directed by M. Pellegrini.","page":"32","date_created":"2019-11-10T11:23:58Z","article_processing_charge":"No","department":[{"_id":"GradSch"},{"_id":"SiHi"}],"publication_status":"published","type":"journal_article","doi":"10.1038/s41593-021-00906-5","publisher":"Springer Nature","title":"Identification of neural oscillations and epileptiform changes in human brain organoids"},{"quality_controlled":"1","date_published":"2021-05-13T00:00:00Z","external_id":{"isi":["000704086300015"]},"intvolume":"       461","author":[{"full_name":"Lombardi, Fabrizio","orcid":"0000-0003-2623-5249","id":"A057D288-3E88-11E9-986D-0CF4E5697425","first_name":"Fabrizio","last_name":"Lombardi"},{"full_name":"Shriki, Oren","first_name":"Oren","last_name":"Shriki"},{"full_name":"Herrmann, Hans J","last_name":"Herrmann","first_name":"Hans J"},{"full_name":"de Arcangelis, Lucilla","last_name":"de Arcangelis","first_name":"Lucilla"}],"acknowledgement":"LdA would like to acknowledge the financial support from MIUR-PRIN2017 WZFTZP and VALERE:VAnviteLli pEr la RicErca 2019. FL acknowledges support from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie Grant Agreement No. 754411. HJH would like to thank the Agencies CAPES and FUNCAP for financial support.","_id":"7463","date_created":"2020-02-06T16:09:14Z","article_processing_charge":"No","page":"657-666","publication_status":"published","department":[{"_id":"GaTk"}],"doi":"10.1016/j.neucom.2020.05.126","type":"journal_article","publisher":"Elsevier","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"title":"Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches","date_updated":"2025-04-14T07:44:02Z","publication":"Neurocomputing","abstract":[{"lang":"eng","text":"Resting-state brain activity is characterized by the presence of neuronal avalanches showing absence of characteristic size. Such evidence has been interpreted in the context of criticality and associated with the normal functioning of the brain. A distinctive attribute of systems at criticality is the presence of long-range correlations. Thus, to verify the hypothesis that the brain operates close to a critical point and consequently assess deviations from criticality for diagnostic purposes, it is of primary importance to robustly and reliably characterize correlations in resting-state brain activity. Recent works focused on the analysis of narrow-band electroencephalography (EEG) and magnetoencephalography (MEG) signal amplitude envelope, showing evidence of long-range temporal correlations (LRTC) in neural oscillations. However, brain activity is a broadband phenomenon, and a significant piece of information useful to precisely discriminate between normal (critical) and pathological behavior (non-critical), may be encoded in the broadband spatio-temporal cortical dynamics. Here we propose to characterize the temporal correlations in the broadband brain activity through the lens of neuronal avalanches. To this end, we consider resting-state EEG and long-term MEG recordings, extract the corresponding neuronal avalanche sequences, and study their temporal correlations. We demonstrate that the broadband resting-state brain activity consistently exhibits long-range power-law correlations in both EEG and MEG recordings, with similar values of the scaling exponents. Importantly, although we observe that the avalanche size distribution depends on scale parameters, scaling exponents characterizing long-range correlations are quite robust. In particular, they are independent of the temporal binning (scale of analysis), indicating that our analysis captures intrinsic characteristics of the underlying dynamics. Because neuronal avalanches constitute a fundamental feature of neural systems with universal characteristics, the proposed approach may serve as a general, systems- and experiment-independent procedure to infer the existence of underlying long-range correlations in extended neural systems, and identify pathological behaviors in the complex spatio-temporal interplay of cortical rhythms."}],"year":"2021","isi":1,"month":"05","article_type":"original","language":[{"iso":"eng"}],"day":"13","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","publication_identifier":{"eissn":["1872-8286"],"issn":["0925-2312"]},"scopus_import":"1","main_file_link":[{"url":"https://doi.org/10.1101/2020.02.03.930966","open_access":"1"}],"oa":1,"oa_version":"Preprint","ec_funded":1,"volume":461,"citation":{"apa":"Lombardi, F., Shriki, O., Herrmann, H. J., &#38; de Arcangelis, L. (2021). Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches. <i>Neurocomputing</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neucom.2020.05.126\">https://doi.org/10.1016/j.neucom.2020.05.126</a>","ieee":"F. Lombardi, O. Shriki, H. J. Herrmann, and L. de Arcangelis, “Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches,” <i>Neurocomputing</i>, vol. 461. Elsevier, pp. 657–666, 2021.","short":"F. Lombardi, O. Shriki, H.J. Herrmann, L. de Arcangelis, Neurocomputing 461 (2021) 657–666.","ista":"Lombardi F, Shriki O, Herrmann HJ, de Arcangelis L. 2021. Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches. Neurocomputing. 461, 657–666.","chicago":"Lombardi, Fabrizio, Oren Shriki, Hans J Herrmann, and Lucilla de Arcangelis. “Long-Range Temporal Correlations in the Broadband Resting State Activity of the Human Brain Revealed by Neuronal Avalanches.” <i>Neurocomputing</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.neucom.2020.05.126\">https://doi.org/10.1016/j.neucom.2020.05.126</a>.","ama":"Lombardi F, Shriki O, Herrmann HJ, de Arcangelis L. Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches. <i>Neurocomputing</i>. 2021;461:657-666. doi:<a href=\"https://doi.org/10.1016/j.neucom.2020.05.126\">10.1016/j.neucom.2020.05.126</a>","mla":"Lombardi, Fabrizio, et al. “Long-Range Temporal Correlations in the Broadband Resting State Activity of the Human Brain Revealed by Neuronal Avalanches.” <i>Neurocomputing</i>, vol. 461, Elsevier, 2021, pp. 657–66, doi:<a href=\"https://doi.org/10.1016/j.neucom.2020.05.126\">10.1016/j.neucom.2020.05.126</a>."}},{"publisher":"Elsevier","type":"journal_article","doi":"10.1016/j.cub.2020.09.074","department":[{"_id":"MaJö"},{"_id":"RySh"}],"publication_status":"published","file":[{"date_updated":"2020-10-19T13:31:28Z","checksum":"b7b9c8bc84a08befce365c675229a7d1","relation":"main_file","success":1,"file_id":"8678","access_level":"open_access","creator":"dernst","file_size":4915964,"date_created":"2020-10-19T13:31:28Z","content_type":"application/pdf","file_name":"2021_CurrentBiology_Fredes.pdf"}],"issue":"1","project":[{"_id":"25CA28EA-B435-11E9-9278-68D0E5697425","grant_number":"694539","call_identifier":"H2020","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour"}],"title":"Ventro-dorsal hippocampal pathway gates novelty-induced contextual memory formation","author":[{"full_name":"Fredes Tolorza, Felipe A","last_name":"Fredes Tolorza","first_name":"Felipe A","id":"384825DA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Silva Sifuentes","id":"371B3D6E-F248-11E8-B48F-1D18A9856A87","first_name":"Maria A","full_name":"Silva Sifuentes, Maria A"},{"last_name":"Koppensteiner","first_name":"Peter","id":"3B8B25A8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3509-1948","full_name":"Koppensteiner, Peter"},{"full_name":"Kobayashi, Kenta","last_name":"Kobayashi","first_name":"Kenta"},{"full_name":"Jösch, Maximilian A","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3937-1330","first_name":"Maximilian A","last_name":"Jösch"},{"full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","last_name":"Shigemoto"}],"intvolume":"        31","tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"external_id":{"isi":["000614361000020"],"pmid":["33065009"]},"date_published":"2021-01-11T00:00:00Z","quality_controlled":"1","page":"P25-38.E5","article_processing_charge":"No","date_created":"2020-02-28T10:56:18Z","related_material":{"link":[{"url":"https://ist.ac.at/en/news/remembering-novelty/","relation":"press_release","description":"News on IST Homepage"}]},"_id":"7551","acknowledgement":"We thank Peter Jonas and Peter Somogyi for critically reading the manuscript, Satoshi Kida for helpful discussion, Taijia Makinen for providing the Prox1-creERT2 mouse line, and Hiromu Yawo for the VAMP2-Venus construct. We also thank Vivek Jayaraman, Ph.D.; Rex A. Kerr, Ph.D.; Douglas S. Kim, Ph.D.; Loren L. Looger, Ph.D.; and Karel Svoboda, Ph.D. from the GENIE Project, Janelia Farm Research Campus, Howard Hughes Medical Institute for the viral constructs used for GCaMP6s expression. We also thank Jacqueline Montanaro, Vanessa Zheden, David Kleindienst, and Laura Burnett for technical assistance, as well as Robert Beattie for imaging assistance. This work was supported by a European Research Council Advanced Grant 694539 to R.S.","oa_version":"Published Version","oa":1,"has_accepted_license":"1","scopus_import":"1","status":"public","ddc":["570"],"pmid":1,"citation":{"ista":"Fredes Tolorza FA, Silva Sifuentes MA, Koppensteiner P, Kobayashi K, Jösch MA, Shigemoto R. 2021. Ventro-dorsal hippocampal pathway gates novelty-induced contextual memory formation. Current Biology. 31(1), P25–38.E5.","apa":"Fredes Tolorza, F. A., Silva Sifuentes, M. A., Koppensteiner, P., Kobayashi, K., Jösch, M. A., &#38; Shigemoto, R. (2021). Ventro-dorsal hippocampal pathway gates novelty-induced contextual memory formation. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2020.09.074\">https://doi.org/10.1016/j.cub.2020.09.074</a>","ieee":"F. A. Fredes Tolorza, M. A. Silva Sifuentes, P. Koppensteiner, K. Kobayashi, M. A. Jösch, and R. Shigemoto, “Ventro-dorsal hippocampal pathway gates novelty-induced contextual memory formation,” <i>Current Biology</i>, vol. 31, no. 1. Elsevier, p. P25–38.E5, 2021.","short":"F.A. Fredes Tolorza, M.A. Silva Sifuentes, P. Koppensteiner, K. Kobayashi, M.A. Jösch, R. Shigemoto, Current Biology 31 (2021) P25–38.E5.","ama":"Fredes Tolorza FA, Silva Sifuentes MA, Koppensteiner P, Kobayashi K, Jösch MA, Shigemoto R. Ventro-dorsal hippocampal pathway gates novelty-induced contextual memory formation. <i>Current Biology</i>. 2021;31(1):P25-38.E5. doi:<a href=\"https://doi.org/10.1016/j.cub.2020.09.074\">10.1016/j.cub.2020.09.074</a>","mla":"Fredes Tolorza, Felipe A., et al. “Ventro-Dorsal Hippocampal Pathway Gates Novelty-Induced Contextual Memory Formation.” <i>Current Biology</i>, vol. 31, no. 1, Elsevier, 2021, p. P25–38.E5, doi:<a href=\"https://doi.org/10.1016/j.cub.2020.09.074\">10.1016/j.cub.2020.09.074</a>.","chicago":"Fredes Tolorza, Felipe A, Maria A Silva Sifuentes, Peter Koppensteiner, Kenta Kobayashi, Maximilian A Jösch, and Ryuichi Shigemoto. “Ventro-Dorsal Hippocampal Pathway Gates Novelty-Induced Contextual Memory Formation.” <i>Current Biology</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.cub.2020.09.074\">https://doi.org/10.1016/j.cub.2020.09.074</a>."},"volume":31,"ec_funded":1,"isi":1,"year":"2021","abstract":[{"lang":"eng","text":"Novelty facilitates formation of memories. The detection of novelty and storage of contextual memories are both mediated by the hippocampus, yet the mechanisms that link these two functions remain to be defined. Dentate granule cells (GCs) of the dorsal hippocampus fire upon novelty exposure forming engrams of contextual memory. However, their key excitatory inputs from the entorhinal cortex are not responsive to novelty and are insufficient to make dorsal GCs fire reliably. Here we uncover a powerful glutamatergic pathway to dorsal GCs from ventral hippocampal mossy cells (MCs) that relays novelty, and is necessary and sufficient for driving dorsal GCs activation. Furthermore, manipulation of ventral MCs activity bidirectionally regulates novelty-induced contextual memory acquisition. Our results show that ventral MCs activity controls memory formation through an intra-hippocampal interaction mechanism gated by novelty."}],"publication":"Current Biology","date_updated":"2025-06-12T06:54:22Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"11","file_date_updated":"2020-10-19T13:31:28Z","language":[{"iso":"eng"}],"article_type":"original","month":"01"},{"main_file_link":[{"url":"https://doi.org/10.1101/848374","open_access":"1"}],"oa_version":"Preprint","oa":1,"status":"public","scopus_import":"1","pmid":1,"ec_funded":1,"volume":109,"citation":{"chicago":"Mlynarski, Wiktor F, Michal Hledik, Thomas R Sokolowski, and Gašper Tkačik. “Statistical Analysis and Optimality of Neural Systems.” <i>Neuron</i>. Cell Press, 2021. <a href=\"https://doi.org/10.1016/j.neuron.2021.01.020\">https://doi.org/10.1016/j.neuron.2021.01.020</a>.","ama":"Mlynarski WF, Hledik M, Sokolowski TR, Tkačik G. Statistical analysis and optimality of neural systems. <i>Neuron</i>. 2021;109(7):1227-1241.e5. doi:<a href=\"https://doi.org/10.1016/j.neuron.2021.01.020\">10.1016/j.neuron.2021.01.020</a>","mla":"Mlynarski, Wiktor F., et al. “Statistical Analysis and Optimality of Neural Systems.” <i>Neuron</i>, vol. 109, no. 7, Cell Press, 2021, p. 1227–1241.e5, doi:<a href=\"https://doi.org/10.1016/j.neuron.2021.01.020\">10.1016/j.neuron.2021.01.020</a>.","short":"W.F. Mlynarski, M. Hledik, T.R. Sokolowski, G. Tkačik, Neuron 109 (2021) 1227–1241.e5.","ieee":"W. F. Mlynarski, M. Hledik, T. R. Sokolowski, and G. Tkačik, “Statistical analysis and optimality of neural systems,” <i>Neuron</i>, vol. 109, no. 7. Cell Press, p. 1227–1241.e5, 2021.","apa":"Mlynarski, W. F., Hledik, M., Sokolowski, T. R., &#38; Tkačik, G. (2021). Statistical analysis and optimality of neural systems. <i>Neuron</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.neuron.2021.01.020\">https://doi.org/10.1016/j.neuron.2021.01.020</a>","ista":"Mlynarski WF, Hledik M, Sokolowski TR, Tkačik G. 2021. Statistical analysis and optimality of neural systems. Neuron. 109(7), 1227–1241.e5."},"abstract":[{"lang":"eng","text":"Normative theories and statistical inference provide complementary approaches for the study of biological systems. A normative theory postulates that organisms have adapted to efficiently solve essential tasks, and proceeds to mathematically work out testable consequences of such optimality; parameters that maximize the hypothesized organismal function can be derived ab initio, without reference to experimental data. In contrast, statistical inference focuses on efficient utilization of data to learn model parameters, without reference to any a priori notion of biological function, utility, or fitness. Traditionally, these two approaches were developed independently and applied separately. Here we unify them in a coherent Bayesian framework that embeds a normative theory into a family of maximum-entropy “optimization priors.” This family defines a smooth interpolation between a data-rich inference regime (characteristic of “bottom-up” statistical models), and a data-limited ab inito prediction regime (characteristic of “top-down” normative theory). We demonstrate the applicability of our framework using data from the visual cortex, and argue that the flexibility it affords is essential to address a number of fundamental challenges relating to inference and prediction in complex, high-dimensional biological problems."}],"year":"2021","isi":1,"date_updated":"2026-04-07T12:59:24Z","publication":"Neuron","language":[{"iso":"eng"}],"day":"07","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"04","doi":"10.1016/j.neuron.2021.01.020","type":"journal_article","publisher":"Cell Press","publication_status":"published","department":[{"_id":"GaTk"}],"issue":"7","title":"Statistical analysis and optimality of neural systems","project":[{"call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships"}],"intvolume":"       109","author":[{"full_name":"Mlynarski, Wiktor F","last_name":"Mlynarski","id":"358A453A-F248-11E8-B48F-1D18A9856A87","first_name":"Wiktor F"},{"first_name":"Michal","id":"4171253A-F248-11E8-B48F-1D18A9856A87","last_name":"Hledik","full_name":"Hledik, Michal"},{"first_name":"Thomas R","id":"3E999752-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1287-3779","last_name":"Sokolowski","full_name":"Sokolowski, Thomas R"},{"last_name":"Tkačik","first_name":"Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Tkačik, Gašper"}],"quality_controlled":"1","date_published":"2021-04-07T00:00:00Z","external_id":{"isi":["000637809600006"],"pmid":["33592180"]},"related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/can-evolution-be-predicted/"}],"record":[{"relation":"dissertation_contains","status":"public","id":"15020"}]},"date_created":"2020-02-28T11:00:12Z","article_processing_charge":"No","corr_author":"1","page":"1227-1241.e5","acknowledgement":"The authors thank Dario Ringach for providing the V1 receptive fields and Olivier Marre for providing the retinal receptive fields. W.M. was funded by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 754411. M.H. was funded in part by Human Frontiers Science grant no. HFSP RGP0032/2018.","_id":"7553"},{"acknowledgement":"E.D. is supported by a VENI award 916-150-16 from the Netherlands Organization for Health Research and Development (ZonMW), an EMBO Long-term Fellowship (EMBO ALTF 848-2013) and a FP7 Marie Curie Intra-European Fellowship (Project number 627539). V.S.P. was funded by a fellowship from the FCT/ Ministério da Ciência, Tecnologia e Inovação SFRH/BD/111799/2015. P.D.C.M. is an Established Investigator of the Dutch Heart Foundation. L.D.W. acknowledges support from the Dutch CardioVascular Alliance (ARENA-PRIME). L.D.W. was further supported by grant 311549 from the European Research Council (ERC), a VICI award 918-156-47 from the Dutch Research Council and Marie Sklodowska-Curie grant agreement no. 813716 (TRAIN-HEART).","_id":"9874","related_material":{"link":[{"url":"https://doi.org/10.1038/s41467-022-32785-0","relation":"erratum"}]},"date_created":"2021-08-10T11:49:20Z","article_processing_charge":"Yes","quality_controlled":"1","date_published":"2021-08-10T00:00:00Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"external_id":{"isi":["000683910200042"],"pmid":["34376683"]},"intvolume":"        12","author":[{"full_name":"Raso, Andrea","last_name":"Raso","first_name":"Andrea"},{"last_name":"Dirkx","first_name":"Ellen","full_name":"Dirkx, Ellen"},{"full_name":"Sampaio-Pinto, Vasco","last_name":"Sampaio-Pinto","first_name":"Vasco"},{"last_name":"el Azzouzi","first_name":"Hamid","full_name":"el Azzouzi, Hamid"},{"last_name":"Cubero","first_name":"Ryan J","id":"850B2E12-9CD4-11E9-837F-E719E6697425","orcid":"0000-0003-0002-1867","full_name":"Cubero, Ryan J"},{"last_name":"Sorensen","first_name":"Daniel W.","full_name":"Sorensen, Daniel W."},{"full_name":"Ottaviani, Lara","first_name":"Lara","last_name":"Ottaviani"},{"first_name":"Servé","last_name":"Olieslagers","full_name":"Olieslagers, Servé"},{"first_name":"Manon M.","last_name":"Huibers","full_name":"Huibers, Manon M."},{"full_name":"de Weger, Roel","last_name":"de Weger","first_name":"Roel"},{"full_name":"Siddiqi, Sailay","last_name":"Siddiqi","first_name":"Sailay"},{"full_name":"Moimas, Silvia","first_name":"Silvia","last_name":"Moimas"},{"full_name":"Torrini, Consuelo","first_name":"Consuelo","last_name":"Torrini"},{"last_name":"Zentillin","first_name":"Lorena","full_name":"Zentillin, Lorena"},{"last_name":"Braga","first_name":"Luca","full_name":"Braga, Luca"},{"full_name":"Nascimento, Diana S.","first_name":"Diana S.","last_name":"Nascimento"},{"last_name":"da Costa Martins","first_name":"Paula A.","full_name":"da Costa Martins, Paula A."},{"first_name":"Jop H.","last_name":"van Berlo","full_name":"van Berlo, Jop H."},{"first_name":"Serena","last_name":"Zacchigna","full_name":"Zacchigna, Serena"},{"first_name":"Mauro","last_name":"Giacca","full_name":"Giacca, Mauro"},{"full_name":"De Windt, Leon J.","last_name":"De Windt","first_name":"Leon J."}],"title":"A microRNA program regulates the balance between cardiomyocyte hyperplasia and hypertrophy and stimulates cardiac regeneration","file":[{"checksum":"48d8562e8229e4282f3f354b329722c5","relation":"main_file","date_updated":"2021-08-10T12:29:59Z","success":1,"access_level":"open_access","file_size":4364333,"creator":"asandaue","file_id":"9876","content_type":"application/pdf","file_name":"2021_NatureCommunications_Raso.pdf","date_created":"2021-08-10T12:29:59Z"}],"publication_status":"published","department":[{"_id":"SaSi"}],"type":"journal_article","doi":"10.1038/s41467-021-25211-4","publisher":"Springer Nature","month":"08","genbank":["GSE178867"],"article_type":"original","language":[{"iso":"eng"}],"day":"10","file_date_updated":"2021-08-10T12:29:59Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-11T10:27:03Z","publication":"Nature Communications","abstract":[{"lang":"eng","text":"Myocardial regeneration is restricted to early postnatal life, when mammalian cardiomyocytes still retain the ability to proliferate. The molecular cues that induce cell cycle arrest of neonatal cardiomyocytes towards terminally differentiated adult heart muscle cells remain obscure. Here we report that the miR-106b~25 cluster is higher expressed in the early postnatal myocardium and decreases in expression towards adulthood, especially under conditions of overload, and orchestrates the transition of cardiomyocyte hyperplasia towards cell cycle arrest and hypertrophy by virtue of its targetome. In line, gene delivery of miR-106b~25 to the mouse heart provokes cardiomyocyte proliferation by targeting a network of negative cell cycle regulators including E2f5, Cdkn1c, Ccne1 and Wee1. Conversely, gene-targeted miR-106b~25 null mice display spontaneous hypertrophic remodeling and exaggerated remodeling to overload by derepression of the prohypertrophic transcription factors Hand2 and Mef2d. Taking advantage of the regulatory function of miR-106b~25 on cardiomyocyte hyperplasia and hypertrophy, viral gene delivery of miR-106b~25 provokes nearly complete regeneration of the adult myocardium after ischemic injury. Our data demonstrate that exploitation of conserved molecular programs can enhance the regenerative capacity of the injured heart."}],"year":"2021","isi":1,"volume":12,"citation":{"short":"A. Raso, E. Dirkx, V. Sampaio-Pinto, H. el Azzouzi, R.J. Cubero, D.W. Sorensen, L. Ottaviani, S. Olieslagers, M.M. Huibers, R. de Weger, S. Siddiqi, S. Moimas, C. Torrini, L. Zentillin, L. Braga, D.S. Nascimento, P.A. da Costa Martins, J.H. van Berlo, S. Zacchigna, M. Giacca, L.J. De Windt, Nature Communications 12 (2021).","ieee":"A. Raso <i>et al.</i>, “A microRNA program regulates the balance between cardiomyocyte hyperplasia and hypertrophy and stimulates cardiac regeneration,” <i>Nature Communications</i>, vol. 12. Springer Nature, 2021.","apa":"Raso, A., Dirkx, E., Sampaio-Pinto, V., el Azzouzi, H., Cubero, R. J., Sorensen, D. W., … De Windt, L. J. (2021). A microRNA program regulates the balance between cardiomyocyte hyperplasia and hypertrophy and stimulates cardiac regeneration. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-021-25211-4\">https://doi.org/10.1038/s41467-021-25211-4</a>","ista":"Raso A, Dirkx E, Sampaio-Pinto V, el Azzouzi H, Cubero RJ, Sorensen DW, Ottaviani L, Olieslagers S, Huibers MM, de Weger R, Siddiqi S, Moimas S, Torrini C, Zentillin L, Braga L, Nascimento DS, da Costa Martins PA, van Berlo JH, Zacchigna S, Giacca M, De Windt LJ. 2021. A microRNA program regulates the balance between cardiomyocyte hyperplasia and hypertrophy and stimulates cardiac regeneration. Nature Communications. 12, 4808.","chicago":"Raso, Andrea, Ellen Dirkx, Vasco Sampaio-Pinto, Hamid el Azzouzi, Ryan J Cubero, Daniel W. Sorensen, Lara Ottaviani, et al. “A MicroRNA Program Regulates the Balance between Cardiomyocyte Hyperplasia and Hypertrophy and Stimulates Cardiac Regeneration.” <i>Nature Communications</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41467-021-25211-4\">https://doi.org/10.1038/s41467-021-25211-4</a>.","ama":"Raso A, Dirkx E, Sampaio-Pinto V, et al. A microRNA program regulates the balance between cardiomyocyte hyperplasia and hypertrophy and stimulates cardiac regeneration. <i>Nature Communications</i>. 2021;12. doi:<a href=\"https://doi.org/10.1038/s41467-021-25211-4\">10.1038/s41467-021-25211-4</a>","mla":"Raso, Andrea, et al. “A MicroRNA Program Regulates the Balance between Cardiomyocyte Hyperplasia and Hypertrophy and Stimulates Cardiac Regeneration.” <i>Nature Communications</i>, vol. 12, 4808, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-021-25211-4\">10.1038/s41467-021-25211-4</a>."},"pmid":1,"ddc":["610","570"],"status":"public","article_number":"4808","publication_identifier":{"eissn":["2041-1723"]},"scopus_import":"1","oa":1,"has_accepted_license":"1","oa_version":"Published Version"},{"acknowledgement":"We thank W. Schackwitz, M. Joel, and the Joint Genome Institute sequencing team for generating the IR64 genome sequence and initial analysis; L. Bartley and E. Marvinney for genomic DNA preparation for IR64 resequencing; and the University of California (UC), Berkeley Sanger sequencing team for technical advice and service. This work was partially funded by NSF Grant IOS-1025890 (to R.L.F. and D.Z.), NIH Grant GM69415 (to R.L.F. and D.Z.), NIH Grant GM122968 (to P.C.R.), a Young Investigator Grant from the Arnold and Mabel Beckman Foundation (to D.Z.), an International Fulbright Science and Technology Award (to J.A.R.), and a Taiwan Ministry of Education Studying Abroad Scholarship (to P.-H.H.). This work used the Vincent J. Coates Genomics Sequencing Laboratory at UC Berkeley, supported by NIH Instrumentation Grant S10 OD018174.","_id":"9877","date_created":"2021-08-10T19:30:41Z","article_processing_charge":"Yes (in subscription journal)","quality_controlled":"1","date_published":"2021-07-16T00:00:00Z","external_id":{"pmid":["34272287"],"isi":["000685037700012"]},"tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"intvolume":"       118","author":[{"first_name":"Jessica A.","last_name":"Rodrigues","full_name":"Rodrigues, Jessica A."},{"last_name":"Hsieh","first_name":"Ping-Hung","full_name":"Hsieh, Ping-Hung"},{"full_name":"Ruan, Deling","first_name":"Deling","last_name":"Ruan"},{"first_name":"Toshiro","last_name":"Nishimura","full_name":"Nishimura, Toshiro"},{"last_name":"Sharma","first_name":"Manoj K.","full_name":"Sharma, Manoj K."},{"first_name":"Rita","last_name":"Sharma","full_name":"Sharma, Rita"},{"first_name":"XinYi","last_name":"Ye","full_name":"Ye, XinYi"},{"last_name":"Nguyen","first_name":"Nicholas D.","full_name":"Nguyen, Nicholas D."},{"full_name":"Nijjar, Sukhranjan","first_name":"Sukhranjan","last_name":"Nijjar"},{"full_name":"Ronald, Pamela C.","last_name":"Ronald","first_name":"Pamela C."},{"last_name":"Fischer","first_name":"Robert L.","full_name":"Fischer, Robert L."},{"id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","orcid":"0000-0002-0123-8649","first_name":"Daniel","last_name":"Zilberman","full_name":"Zilberman, Daniel"}],"title":"Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting","issue":"29","file":[{"date_updated":"2021-08-11T09:31:41Z","relation":"main_file","checksum":"19e84ad8c03c60222744ee8e16cd6998","success":1,"file_id":"9879","file_size":1898360,"creator":"asandaue","access_level":"open_access","date_created":"2021-08-11T09:31:41Z","file_name":"2021_ProceedingsOfTheNationalAcademyOfSciences_Rodrigues.pdf","content_type":"application/pdf"}],"publication_status":"published","department":[{"_id":"DaZi"}],"doi":"10.1073/pnas.2104445118","type":"journal_article","publisher":"National Academy of Sciences","month":"07","article_type":"original","language":[{"iso":"eng"}],"file_date_updated":"2021-08-11T09:31:41Z","day":"16","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2025-05-14T10:59:43Z","publication":"Proceedings of the National Academy of Sciences of the United States of America","abstract":[{"lang":"eng","text":"Parent-of-origin–dependent gene expression in mammals and flowering plants results from differing chromatin imprints (genomic imprinting) between maternally and paternally inherited alleles. Imprinted gene expression in the endosperm of seeds is associated with localized hypomethylation of maternally but not paternally inherited DNA, with certain small RNAs also displaying parent-of-origin–specific expression. To understand the evolution of imprinting mechanisms in Oryza sativa (rice), we analyzed imprinting divergence among four cultivars that span both japonica and indica subspecies: Nipponbare, Kitaake, 93-11, and IR64. Most imprinted genes are imprinted across cultivars and enriched for functions in chromatin and transcriptional regulation, development, and signaling. However, 4 to 11% of imprinted genes display divergent imprinting. Analyses of DNA methylation and small RNAs revealed that endosperm-specific 24-nt small RNA–producing loci show weak RNA-directed DNA methylation, frequently overlap genes, and are imprinted four times more often than genes. However, imprinting divergence most often correlated with local DNA methylation epimutations (9 of 17 assessable loci), which were largely stable within subspecies. Small insertion/deletion events and transposable element insertions accompanied 4 of the 9 locally epimutated loci and associated with imprinting divergence at another 4 of the remaining 8 loci. Correlating epigenetic and genetic variation occurred at key regulatory regions—the promoter and transcription start site of maternally biased genes, and the promoter and gene body of paternally biased genes. Our results reinforce models for the role of maternal-specific DNA hypomethylation in imprinting of both maternally and paternally biased genes, and highlight the role of transposition and epimutation in rice imprinting evolution."}],"year":"2021","isi":1,"volume":118,"citation":{"short":"J.A. Rodrigues, P.-H. Hsieh, D. Ruan, T. Nishimura, M.K. Sharma, R. Sharma, X. Ye, N.D. Nguyen, S. Nijjar, P.C. Ronald, R.L. Fischer, D. Zilberman, Proceedings of the National Academy of Sciences of the United States of America 118 (2021).","apa":"Rodrigues, J. A., Hsieh, P.-H., Ruan, D., Nishimura, T., Sharma, M. K., Sharma, R., … Zilberman, D. (2021). Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2104445118\">https://doi.org/10.1073/pnas.2104445118</a>","ieee":"J. A. Rodrigues <i>et al.</i>, “Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 118, no. 29. National Academy of Sciences, 2021.","ista":"Rodrigues JA, Hsieh P-H, Ruan D, Nishimura T, Sharma MK, Sharma R, Ye X, Nguyen ND, Nijjar S, Ronald PC, Fischer RL, Zilberman D. 2021. Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting. Proceedings of the National Academy of Sciences of the United States of America. 118(29), e2104445118.","chicago":"Rodrigues, Jessica A., Ping-Hung Hsieh, Deling Ruan, Toshiro Nishimura, Manoj K. Sharma, Rita Sharma, XinYi Ye, et al. “Divergence among Rice Cultivars Reveals Roles for Transposition and Epimutation in Ongoing Evolution of Genomic Imprinting.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2021. <a href=\"https://doi.org/10.1073/pnas.2104445118\">https://doi.org/10.1073/pnas.2104445118</a>.","ama":"Rodrigues JA, Hsieh P-H, Ruan D, et al. Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2021;118(29). doi:<a href=\"https://doi.org/10.1073/pnas.2104445118\">10.1073/pnas.2104445118</a>","mla":"Rodrigues, Jessica A., et al. “Divergence among Rice Cultivars Reveals Roles for Transposition and Epimutation in Ongoing Evolution of Genomic Imprinting.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 118, no. 29, e2104445118, National Academy of Sciences, 2021, doi:<a href=\"https://doi.org/10.1073/pnas.2104445118\">10.1073/pnas.2104445118</a>."},"pmid":1,"ddc":["580","570"],"status":"public","article_number":"e2104445118","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"scopus_import":"1","has_accepted_license":"1","oa_version":"Published Version","oa":1},{"keyword":["Mathematical Physics","Statistical and Nonlinear Physics"],"date_created":"2021-08-12T07:08:36Z","corr_author":"1","article_processing_charge":"No","_id":"9891","acknowledgement":"The author would like to thank Robert Seiringer for guidance and many helpful comments on this project. The author would also like to thank Mathieu Lewin for his comments on the manuscript and Lorenzo Portinale for providing his lecture notes for the course “Mathematics of quantum many-body systems” in spring 2020, taught by Robert Seiringer. The Proof of Theorem III.1 is inspired by these lecture notes.","intvolume":"        62","author":[{"last_name":"Lauritsen","id":"e1a2682f-dc8d-11ea-abe3-81da9ac728f1","orcid":"0000-0003-4476-2288","first_name":"Asbjørn Bækgaard","full_name":"Lauritsen, Asbjørn Bækgaard"}],"date_published":"2021-08-01T00:00:00Z","external_id":{"arxiv":["2103.07975"],"isi":["000683960800003"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"quality_controlled":"1","file":[{"access_level":"open_access","creator":"cziletti","file_size":4352640,"file_id":"10188","content_type":"application/pdf","file_name":"2021_JMathPhy_Lauritsen.pdf","date_created":"2021-10-27T12:57:06Z","checksum":"d035be2b894c4d50d90ac5ce252e27cd","relation":"main_file","date_updated":"2021-10-27T12:57:06Z","success":1}],"issue":"8","title":"Floating Wigner crystal and periodic jellium configurations","type":"journal_article","doi":"10.1063/5.0053494","publisher":"AIP Publishing","department":[{"_id":"GradSch"},{"_id":"RoSe"}],"publication_status":"published","day":"01","file_date_updated":"2021-10-27T12:57:06Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_type":"original","language":[{"iso":"eng"}],"month":"08","year":"2021","isi":1,"abstract":[{"text":"Extending on ideas of Lewin, Lieb, and Seiringer [Phys. Rev. B 100, 035127 (2019)], we present a modified “floating crystal” trial state for jellium (also known as the classical homogeneous electron gas) with density equal to a characteristic function. This allows us to show that three definitions of the jellium energy coincide in dimensions d ≥ 2, thus extending the result of Cotar and Petrache [“Equality of the Jellium and uniform electron gas next-order asymptotic terms for Coulomb and Riesz potentials,” arXiv: 1707.07664 (2019)] and Lewin, Lieb, and Seiringer [Phys. Rev. B 100, 035127 (2019)] that the three definitions coincide in dimension d ≥ 3. We show that the jellium energy is also equivalent to a “renormalized energy” studied in a series of papers by Serfaty and others, and thus, by the work of Bétermin and Sandier [Constr. Approximation 47, 39–74 (2018)], we relate the jellium energy to the order n term in the logarithmic energy of n points on the unit 2-sphere. We improve upon known lower bounds for this renormalized energy. Additionally, we derive formulas for the jellium energy of periodic configurations.","lang":"eng"}],"publication":"Journal of Mathematical Physics","date_updated":"2024-10-09T21:00:48Z","ddc":["530"],"citation":{"ieee":"A. B. Lauritsen, “Floating Wigner crystal and periodic jellium configurations,” <i>Journal of Mathematical Physics</i>, vol. 62, no. 8. AIP Publishing, 2021.","apa":"Lauritsen, A. B. (2021). Floating Wigner crystal and periodic jellium configurations. <i>Journal of Mathematical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0053494\">https://doi.org/10.1063/5.0053494</a>","short":"A.B. Lauritsen, Journal of Mathematical Physics 62 (2021).","ista":"Lauritsen AB. 2021. Floating Wigner crystal and periodic jellium configurations. Journal of Mathematical Physics. 62(8), 083305.","chicago":"Lauritsen, Asbjørn Bækgaard. “Floating Wigner Crystal and Periodic Jellium Configurations.” <i>Journal of Mathematical Physics</i>. AIP Publishing, 2021. <a href=\"https://doi.org/10.1063/5.0053494\">https://doi.org/10.1063/5.0053494</a>.","mla":"Lauritsen, Asbjørn Bækgaard. “Floating Wigner Crystal and Periodic Jellium Configurations.” <i>Journal of Mathematical Physics</i>, vol. 62, no. 8, 083305, AIP Publishing, 2021, doi:<a href=\"https://doi.org/10.1063/5.0053494\">10.1063/5.0053494</a>.","ama":"Lauritsen AB. Floating Wigner crystal and periodic jellium configurations. <i>Journal of Mathematical Physics</i>. 2021;62(8). doi:<a href=\"https://doi.org/10.1063/5.0053494\">10.1063/5.0053494</a>"},"volume":62,"has_accepted_license":"1","oa_version":"Published Version","oa":1,"arxiv":1,"scopus_import":"1","publication_identifier":{"eissn":["1089-7658"],"issn":["0022-2488"]},"status":"public","article_number":"083305"},{"publication":"Physical Review Letters","date_updated":"2026-04-07T11:48:53Z","isi":1,"year":"2021","abstract":[{"lang":"eng","text":"Eigenstate thermalization in quantum many-body systems implies that eigenstates at high energy are similar to random vectors. Identifying systems where at least some eigenstates are nonthermal is an outstanding question. In this Letter we show that interacting quantum models that have a nullspace—a degenerate subspace of eigenstates at zero energy (zero modes), which corresponds to infinite temperature, provide a route to nonthermal eigenstates. We analytically show the existence of a zero mode which can be represented as a matrix product state for a certain class of local Hamiltonians. In the more general case we use a subspace disentangling algorithm to generate an orthogonal basis of zero modes characterized by increasing entanglement entropy. We show evidence for an area-law entanglement scaling of the least-entangled zero mode in the broad parameter regime, leading to a conjecture that all local Hamiltonians with the nullspace feature zero modes with area-law entanglement scaling and, as such, break the strong thermalization hypothesis. Finally, we find zero modes in constrained models and propose a setup for observing their experimental signatures."}],"month":"08","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file_date_updated":"2021-08-13T09:28:08Z","day":"06","language":[{"iso":"eng"}],"article_type":"letter_note","publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"scopus_import":"1","article_number":"060602","status":"public","oa_version":"Published Version","has_accepted_license":"1","oa":1,"arxiv":1,"citation":{"chicago":"Karle, Volker, Maksym Serbyn, and Alexios Michailidis. “Area-Law Entangled Eigenstates from Nullspaces of Local Hamiltonians.” <i>Physical Review Letters</i>. American Physical Society, 2021. <a href=\"https://doi.org/10.1103/physrevlett.127.060602\">https://doi.org/10.1103/physrevlett.127.060602</a>.","mla":"Karle, Volker, et al. “Area-Law Entangled Eigenstates from Nullspaces of Local Hamiltonians.” <i>Physical Review Letters</i>, vol. 127, no. 6, 060602, American Physical Society, 2021, doi:<a href=\"https://doi.org/10.1103/physrevlett.127.060602\">10.1103/physrevlett.127.060602</a>.","ama":"Karle V, Serbyn M, Michailidis A. Area-law entangled eigenstates from nullspaces of local Hamiltonians. <i>Physical Review Letters</i>. 2021;127(6). doi:<a href=\"https://doi.org/10.1103/physrevlett.127.060602\">10.1103/physrevlett.127.060602</a>","apa":"Karle, V., Serbyn, M., &#38; Michailidis, A. (2021). Area-law entangled eigenstates from nullspaces of local Hamiltonians. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevlett.127.060602\">https://doi.org/10.1103/physrevlett.127.060602</a>","ieee":"V. Karle, M. Serbyn, and A. Michailidis, “Area-law entangled eigenstates from nullspaces of local Hamiltonians,” <i>Physical Review Letters</i>, vol. 127, no. 6. American Physical Society, 2021.","short":"V. Karle, M. Serbyn, A. Michailidis, Physical Review Letters 127 (2021).","ista":"Karle V, Serbyn M, Michailidis A. 2021. Area-law entangled eigenstates from nullspaces of local Hamiltonians. Physical Review Letters. 127(6), 060602."},"volume":127,"ec_funded":1,"ddc":["539"],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"external_id":{"arxiv":["2102.13633"],"isi":["000684276000002"]},"date_published":"2021-08-06T00:00:00Z","quality_controlled":"1","author":[{"full_name":"Karle, Volker","last_name":"Karle","orcid":"0000-0002-6963-0129","id":"D7C012AE-D7ED-11E9-95E8-1EC5E5697425","first_name":"Volker"},{"last_name":"Serbyn","first_name":"Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2399-5827","full_name":"Serbyn, Maksym"},{"full_name":"Michailidis, Alexios","orcid":"0000-0002-8443-1064","id":"36EBAD38-F248-11E8-B48F-1D18A9856A87","first_name":"Alexios","last_name":"Michailidis"}],"intvolume":"       127","_id":"9903","acknowledgement":"We acknowledge useful discussions with V. Gritsev and A. Garkun and suggestions on implementation of the\r\nPPXPP model by D. Bluvstein. A. M. and M. S. were supported by the European Research Council (ERC) under\r\nthe European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 850899)","article_processing_charge":"Yes (in subscription journal)","date_created":"2021-08-13T09:27:39Z","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"19393"}]},"department":[{"_id":"MaSe"},{"_id":"GradSch"},{"_id":"MiLe"}],"publication_status":"published","publisher":"American Physical Society","type":"journal_article","doi":"10.1103/physrevlett.127.060602","title":"Area-law entangled eigenstates from nullspaces of local Hamiltonians","project":[{"name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","grant_number":"850899","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","call_identifier":"H2020"}],"file":[{"date_updated":"2021-08-13T09:28:08Z","relation":"main_file","checksum":"51218f302dcef99d90d1209809fcc874","success":1,"file_id":"9904","file_size":5064231,"creator":"mserbyn","access_level":"open_access","date_created":"2021-08-13T09:28:08Z","file_name":"PhysRevLett.127.060602_SOM.pdf","content_type":"application/pdf"}],"issue":"6"},{"volume":22,"citation":{"ama":"Yotova I, Hudson QJ, Pauler F, et al. LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. <i>International Journal of Molecular Sciences</i>. 2021;22(16). doi:<a href=\"https://doi.org/10.3390/ijms22168385\">10.3390/ijms22168385</a>","mla":"Yotova, Iveta, et al. “LINC01133 Inhibits Invasion and Promotes Proliferation in an Endometriosis Epithelial Cell Line.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 16, 8385, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22168385\">10.3390/ijms22168385</a>.","chicago":"Yotova, Iveta, Quanah J. Hudson, Florian Pauler, Katharina Proestling, Isabella Haslinger, Lorenz Kuessel, Alexandra Perricos, Heinrich Husslein, and René Wenzl. “LINC01133 Inhibits Invasion and Promotes Proliferation in an Endometriosis Epithelial Cell Line.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22168385\">https://doi.org/10.3390/ijms22168385</a>.","ista":"Yotova I, Hudson QJ, Pauler F, Proestling K, Haslinger I, Kuessel L, Perricos A, Husslein H, Wenzl R. 2021. LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. International Journal of Molecular Sciences. 22(16), 8385.","short":"I. Yotova, Q.J. Hudson, F. Pauler, K. Proestling, I. Haslinger, L. Kuessel, A. Perricos, H. Husslein, R. Wenzl, International Journal of Molecular Sciences 22 (2021).","ieee":"I. Yotova <i>et al.</i>, “LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 16. MDPI, 2021.","apa":"Yotova, I., Hudson, Q. J., Pauler, F., Proestling, K., Haslinger, I., Kuessel, L., … Wenzl, R. (2021). LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22168385\">https://doi.org/10.3390/ijms22168385</a>"},"pmid":1,"ddc":["570"],"article_number":"8385","status":"public","scopus_import":"1","publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"oa_version":"Published Version","has_accepted_license":"1","oa":1,"month":"08","language":[{"iso":"eng"}],"article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"04","file_date_updated":"2021-08-16T09:29:17Z","date_updated":"2025-06-12T06:29:07Z","publication":"International Journal of Molecular Sciences","abstract":[{"text":"Endometriosis is a common gynecological disorder characterized by ectopic growth of endometrium outside the uterus and is associated with chronic pain and infertility. We investigated the role of the long intergenic noncoding RNA 01133 (LINC01133) in endometriosis, an lncRNA that has been implicated in several types of cancer. We found that LINC01133 is upregulated in ectopic endometriotic lesions. As expression appeared higher in the epithelial endometrial layer, we performed a siRNA knockdown of LINC01133 in an endometriosis epithelial cell line. Phenotypic assays indicated that LINC01133 may promote proliferation and suppress cellular migration, and affect the cytoskeleton and morphology of the cells. Gene ontology analysis of differentially expressed genes indicated that cell proliferation and migration pathways were affected in line with the observed phenotype. We validated upregulation of p21 and downregulation of Cyclin A at the protein level, which together with the quantification of the DNA content using fluorescence-activated cell sorting (FACS) analysis indicated that the observed effects on cellular proliferation may be due to changes in cell cycle. Further, we found testis-specific protein kinase 1 (TESK1) kinase upregulation corresponding with phosphorylation and inactivation of actin severing protein Cofilin, which could explain changes in the cytoskeleton and cellular migration. These results indicate that endometriosis is associated with LINC01133 upregulation, which may affect pathogenesis via the cellular proliferation and migration pathways.","lang":"eng"}],"isi":1,"year":"2021","title":"LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line","issue":"16","file":[{"date_created":"2021-08-16T09:29:17Z","content_type":"application/pdf","file_name":"2021_InternationalJournalOfMolecularSciences_Yotova.pdf","file_id":"9922","access_level":"open_access","file_size":2646018,"creator":"asandaue","success":1,"date_updated":"2021-08-16T09:29:17Z","checksum":"be7f0042607ca60549cb27513c19c6af","relation":"main_file"}],"publication_status":"published","department":[{"_id":"SiHi"}],"publisher":"MDPI","doi":"10.3390/ijms22168385","type":"journal_article","acknowledgement":"Open access funding provided by Medical University of Vienna. The authors would like to thank all the participants and health professionals involved in the present study. We want to thank our technical assistants Barbara Widmar and Matthias Witzmann-Stern for their diligent work and constant assistance. We would like to thank Simon Hippenmeyer for access to\r\nbioinformatic infrastructure and resources.","_id":"9906","article_processing_charge":"Yes","date_created":"2021-08-15T22:01:27Z","quality_controlled":"1","external_id":{"pmid":["34445100"],"isi":["000689147400001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"date_published":"2021-08-04T00:00:00Z","author":[{"full_name":"Yotova, Iveta","first_name":"Iveta","last_name":"Yotova"},{"full_name":"Hudson, Quanah J.","last_name":"Hudson","first_name":"Quanah J."},{"orcid":"0000-0002-7462-0048","id":"48EA0138-F248-11E8-B48F-1D18A9856A87","first_name":"Florian","last_name":"Pauler","full_name":"Pauler, Florian"},{"first_name":"Katharina","last_name":"Proestling","full_name":"Proestling, Katharina"},{"full_name":"Haslinger, Isabella","last_name":"Haslinger","first_name":"Isabella"},{"full_name":"Kuessel, Lorenz","first_name":"Lorenz","last_name":"Kuessel"},{"full_name":"Perricos, Alexandra","first_name":"Alexandra","last_name":"Perricos"},{"full_name":"Husslein, Heinrich","last_name":"Husslein","first_name":"Heinrich"},{"full_name":"Wenzl, René","first_name":"René","last_name":"Wenzl"}],"intvolume":"        22"},{"article_type":"original","language":[{"iso":"eng"}],"day":"01","file_date_updated":"2021-08-16T09:35:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"08","abstract":[{"lang":"eng","text":"DivIVA is a protein initially identified as a spatial regulator of cell division in the model organism Bacillus subtilis, but its homologues are present in many other Gram-positive bacteria, including Clostridia species. Besides its role as topological regulator of the Min system during bacterial cell division, DivIVA is involved in chromosome segregation during sporulation, genetic competence, and cell wall synthesis. DivIVA localizes to regions of high membrane curvature, such as the cell poles and cell division site, where it recruits distinct binding partners. Previously, it was suggested that negative curvature sensing is the main mechanism by which DivIVA binds to these specific regions. Here, we show that Clostridioides difficile DivIVA binds preferably to membranes containing negatively charged phospholipids, especially cardiolipin. Strikingly, we observed that upon binding, DivIVA modifies the lipid distribution and induces changes to lipid bilayers containing cardiolipin. Our observations indicate that DivIVA might play a more complex and so far unknown active role during the formation of the cell division septal membrane. "}],"year":"2021","isi":1,"date_updated":"2025-07-10T12:02:05Z","publication":"International Journal of Molecular Sciences","pmid":1,"ddc":["570"],"ec_funded":1,"volume":22,"citation":{"ista":"Labajová N, Baranova NS, Jurásek M, Vácha R, Loose M, Barák I. 2021. Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. International Journal of Molecular Sciences. 22(15), 8350.","apa":"Labajová, N., Baranova, N. S., Jurásek, M., Vácha, R., Loose, M., &#38; Barák, I. (2021). Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22158350\">https://doi.org/10.3390/ijms22158350</a>","ieee":"N. Labajová, N. S. Baranova, M. Jurásek, R. Vácha, M. Loose, and I. Barák, “Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 15. MDPI, 2021.","short":"N. Labajová, N.S. Baranova, M. Jurásek, R. Vácha, M. Loose, I. Barák, International Journal of Molecular Sciences 22 (2021).","mla":"Labajová, Naďa, et al. “Cardiolipin-Containing Lipid Membranes Attract the Bacterial Cell Division Protein Diviva.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 15, 8350, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22158350\">10.3390/ijms22158350</a>.","ama":"Labajová N, Baranova NS, Jurásek M, Vácha R, Loose M, Barák I. Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. <i>International Journal of Molecular Sciences</i>. 2021;22(15). doi:<a href=\"https://doi.org/10.3390/ijms22158350\">10.3390/ijms22158350</a>","chicago":"Labajová, Naďa, Natalia S. Baranova, Miroslav Jurásek, Robert Vácha, Martin Loose, and Imrich Barák. “Cardiolipin-Containing Lipid Membranes Attract the Bacterial Cell Division Protein Diviva.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22158350\">https://doi.org/10.3390/ijms22158350</a>."},"has_accepted_license":"1","oa_version":"Published Version","oa":1,"status":"public","article_number":"8350","scopus_import":"1","publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"date_created":"2021-08-15T22:01:27Z","article_processing_charge":"Yes","acknowledgement":"We thank Daniela Krajˇcíkova, Katarína Muchová, Zuzana Chromíkova and other members of Barák’s laboratory for useful discussions, suggestions and help. Special thanks also to Emília Chovancová for technical support. We are grateful to Juraj Labaj for drawing the model and for help with graphics. Many thanks to all members of Loose’s laboratory: Maria del Mar\r\nLópez, Paulo Caldas, Philipp Radler, and other members of the Loose’s laboratory for sharing their knowledge of SLB preparation and TIRF experiment chambers, for sharing coverslips and for help with the TIRF microscope and data analysis. We also thank the members of the Dept. of Biochemistry of Biomembranes at the Institute of Animal Biochemistry and Genetics, CBs SAS for their help with preparing the lipid mixtures. We thank J. Bauer for critically reading the manuscript.","_id":"9907","intvolume":"        22","author":[{"full_name":"Labajová, Naďa","last_name":"Labajová","first_name":"Naďa"},{"last_name":"Baranova","id":"38661662-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3086-9124","first_name":"Natalia S.","full_name":"Baranova, Natalia S."},{"first_name":"Miroslav","last_name":"Jurásek","full_name":"Jurásek, Miroslav"},{"last_name":"Vácha","first_name":"Robert","full_name":"Vácha, Robert"},{"last_name":"Loose","first_name":"Martin","id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724","full_name":"Loose, Martin"},{"full_name":"Barák, Imrich","last_name":"Barák","first_name":"Imrich"}],"quality_controlled":"1","date_published":"2021-08-01T00:00:00Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"external_id":{"pmid":["34361115"],"isi":["000681815400001"]},"issue":"15","file":[{"creator":"asandaue","file_size":6132410,"access_level":"open_access","file_id":"9923","file_name":"2021_InternationalJournalOfMolecularSciences_Labajová .pdf","content_type":"application/pdf","date_created":"2021-08-16T09:35:56Z","relation":"main_file","checksum":"a4bc06e9a2c803ceff5a91f10b174054","date_updated":"2021-08-16T09:35:56Z","success":1}],"title":"Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva","project":[{"name":"Self-Organization of the Bacterial Cell","_id":"2595697A-B435-11E9-9278-68D0E5697425","grant_number":"679239","call_identifier":"H2020"}],"type":"journal_article","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"doi":"10.3390/ijms22158350","publisher":"MDPI","publication_status":"published","department":[{"_id":"MaLo"}]}]