[{"external_id":{"arxiv":["2506.01599"]},"related_material":{"link":[{"url":" https://github.com/marc0git/RelativeGeodesics","relation":"software"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2026-09-17T07:09:28Z","article_processing_charge":"No","title":"Connecting neural models latent geometries with relative geodesic representations","conference":{"name":"NeurIPS: Neural Information Processing Systems","end_date":"2025-12-07","start_date":"2025-12-02","location":"San Diego, CA, United States"},"author":[{"full_name":"Yu, Hanlin","first_name":"Hanlin","last_name":"Yu"},{"full_name":"Inal, Berfin","first_name":"Berfin","last_name":"Inal"},{"last_name":"Arvanitidis","first_name":"Georgios","full_name":"Arvanitidis, Georgios"},{"full_name":"Hauberg, Søren","first_name":"Søren","last_name":"Hauberg"},{"id":"26cfd52f-2483-11ee-8040-88983bcc06d4","full_name":"Locatello, Francesco","orcid":"0000-0002-4850-0683","last_name":"Locatello","first_name":"Francesco"},{"full_name":"Fumero, Marco","id":"1c1593eb-393f-11ef-bb8e-ab4f1e979650","first_name":"Marco","last_name":"Fumero"}],"_id":"22831","scopus_import":"1","volume":38,"department":[{"_id":"FrLo"}],"alternative_title":["Advances in Neural Information Processing Systems"],"date_published":"2025-12-01T00:00:00Z","researchdata_availability":"yes","ec_funded":1,"quality_controlled":"1","doi":"10.52202/085713-3769","status":"public","publication":"39th Conference on Neural Information Processing Systems","month":"12","intvolume":"        38","fulldoi":"https://doi.org/10.52202/085713-3769","oa_version":"None","arxiv":1,"type":"conference","date_created":"2026-09-06T22:02:01Z","project":[{"call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program"}],"citation":{"mla":"Yu, Hanlin, et al. “Connecting Neural Models Latent Geometries with Relative Geodesic Representations.” <i>39th Conference on Neural Information Processing Systems</i>, vol. 38, Neural Information Processing Systems Foundation, 2025, pp. 125316–60, doi:<a href=\"https://doi.org/10.52202/085713-3769\">10.52202/085713-3769</a>.","ama":"Yu H, Inal B, Arvanitidis G, Hauberg S, Locatello F, Fumero M. Connecting neural models latent geometries with relative geodesic representations. In: <i>39th Conference on Neural Information Processing Systems</i>. Vol 38. Neural Information Processing Systems Foundation; 2025:125316-125360. doi:<a href=\"https://doi.org/10.52202/085713-3769\">10.52202/085713-3769</a>","short":"H. Yu, B. Inal, G. Arvanitidis, S. Hauberg, F. Locatello, M. Fumero, in:, 39th Conference on Neural Information Processing Systems, Neural Information Processing Systems Foundation, 2025, pp. 125316–125360.","chicago":"Yu, Hanlin, Berfin Inal, Georgios Arvanitidis, Søren Hauberg, Francesco Locatello, and Marco Fumero. “Connecting Neural Models Latent Geometries with Relative Geodesic Representations.” In <i>39th Conference on Neural Information Processing Systems</i>, 38:125316–60. Neural Information Processing Systems Foundation, 2025. <a href=\"https://doi.org/10.52202/085713-3769\">https://doi.org/10.52202/085713-3769</a>.","ieee":"H. Yu, B. Inal, G. Arvanitidis, S. Hauberg, F. Locatello, and M. Fumero, “Connecting neural models latent geometries with relative geodesic representations,” in <i>39th Conference on Neural Information Processing Systems</i>, San Diego, CA, United States, 2025, vol. 38, pp. 125316–125360.","apa":"Yu, H., Inal, B., Arvanitidis, G., Hauberg, S., Locatello, F., &#38; Fumero, M. (2025). Connecting neural models latent geometries with relative geodesic representations. In <i>39th Conference on Neural Information Processing Systems</i> (Vol. 38, pp. 125316–125360). San Diego, CA, United States: Neural Information Processing Systems Foundation. <a href=\"https://doi.org/10.52202/085713-3769\">https://doi.org/10.52202/085713-3769</a>","ista":"Yu H, Inal B, Arvanitidis G, Hauberg S, Locatello F, Fumero M. 2025. Connecting neural models latent geometries with relative geodesic representations. 39th Conference on Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems, Advances in Neural Information Processing Systems, vol. 38, 125316–125360."},"publication_status":"published","acknowledgement":"We thank Gregor Krzmanc, German Magai, Vital Fernandez for insightful discussions in the early\r\nstages of the project. HY was supported by the Research Council of Finland Flagship programme:\r\nFinnish Center for Artificial Intelligence FCAI. HY wishes to acknowledge CSC - IT Center for\r\nScience, Finland, for computational resources. GA was supported by the DFF Sapere Aude Starting\r\nGrant “GADL”. SH was supported by a research grant (42062) from VILLUM FONDEN and partly\r\nfunded by the Novo Nordisk Foundation through the Center for Basic Research in Life Science\r\n(NNF20OC0062606). SH received funding from the European Research Council (ERC) under the\r\nEuropean Union’s Horizon Programme (grant agreement 101125003). MF is supported by the MSCA\r\nIST-Bridge fellowship which has received funding from the European Union’s Horizon 2020 research\r\nand innovation program under the Marie Skłodowska-Curie grant agreement No 101034413.","language":[{"iso":"eng"}],"publisher":"Neural Information Processing Systems Foundation","supplementarymaterial":"yes","page":"125316-125360","das_tickbox":"0","abstract":[{"lang":"eng","text":"Neural models learn representations of high-dimensional data on low-dimensional\r\nmanifolds. Multiple factors, including stochasticities in the training process, model\r\narchitectures, and additional inductive biases, may induce different representations,\r\neven when learning the same task on the same data. However, it has recently been\r\nshown that when a latent structure is shared between distinct latent spaces, relative\r\ndistances between representations can be preserved, up to distortions. Building\r\non this idea, we demonstrate that exploiting the differential-geometric structure of\r\nlatent spaces of neural models, it is possible to capture precisely the transformations\r\nbetween representational spaces trained on similar data distributions. Specifically,\r\nwe assume that distinct neural models parametrize approximately the same underlying manifold, and introduce a representation based on the pullback metric\r\nthat captures the intrinsic structure of the latent space, while scaling efficiently\r\nto large models. We validate experimentally our method on model stitching and\r\nretrieval tasks, covering autoencoders and vision foundation discriminative models,\r\nacross diverse architectures, datasets, pretraining schemes and modalities. Code is\r\navailable at https://github.com/marc0git/RelativeGeodesics."}],"corr_author":"1","year":"2025","day":"01","publication_identifier":{"eissn":["1049-5258"],"isbn":["9798331338275"]}},{"OA_type":"green","_id":"22929","scopus_import":"1","volume":58,"author":[{"first_name":"Margaret","last_name":"Bilu","full_name":"Bilu, Margaret","id":"98C47862-10D5-11EA-BEDD-0F6F3DDC885E"},{"id":"35827D50-F248-11E8-B48F-1D18A9856A87","full_name":"Browning, Timothy D","orcid":"0000-0002-8314-0177","last_name":"Browning","first_name":"Timothy D"}],"date_updated":"2026-09-17T08:22:39Z","article_processing_charge":"No","title":"A motivic circle method","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"arxiv":["2304.09645"]},"month":"05","publication":"Annales Scientifiques de l’École Normale Supérieure","doi":"10.24033/asens.2628","status":"public","quality_controlled":"1","keyword":["Circle method","moduli spaces of curves","hypersurfaces","Grothendieck ring of varieties","motivic integration"],"ec_funded":1,"date_published":"2025-05-01T00:00:00Z","article_type":"original","researchdata_availability":"no","department":[{"_id":"TiBr"}],"acknowledgement":"The authors are grateful to Yohan Brunebarbe, Tom Burel, Antoine\r\nChambert-Loir, Loïs Faisant, Mirko Mauri and Will Sawin for useful comments. Thanks are\r\nalso due to the anonymous referees for numerous helpful remarks. M.B. received funding\r\nfrom the European Union’s Horizon 2020 research and innovation programme under the\r\nMarie Skłodowska-Curie Grant agreement No. 893012. T.B. was supported by a FWF grant\r\n(DOI 10.55776/P36278) and by a grant from the Institute for Advanced Study School of\r\nMathematics.","citation":{"ama":"Bilu M, Browning TD. A motivic circle method. <i>Annales Scientifiques de l’École Normale Supérieure</i>. 2025;58(5):1179-1242. doi:<a href=\"https://doi.org/10.24033/asens.2628\">10.24033/asens.2628</a>","mla":"Bilu, Margaret, and Timothy D. Browning. “A Motivic Circle Method.” <i>Annales Scientifiques de l’École Normale Supérieure</i>, vol. 58, no. 5, Société Mathématique de France, 2025, pp. 1179–242, doi:<a href=\"https://doi.org/10.24033/asens.2628\">10.24033/asens.2628</a>.","chicago":"Bilu, Margaret, and Timothy D Browning. “A Motivic Circle Method.” <i>Annales Scientifiques de l’École Normale Supérieure</i>. Société Mathématique de France, 2025. <a href=\"https://doi.org/10.24033/asens.2628\">https://doi.org/10.24033/asens.2628</a>.","short":"M. Bilu, T.D. Browning, Annales Scientifiques de l’École Normale Supérieure 58 (2025) 1179–1242.","ieee":"M. Bilu and T. D. Browning, “A motivic circle method,” <i>Annales Scientifiques de l’École Normale Supérieure</i>, vol. 58, no. 5. Société Mathématique de France, pp. 1179–1242, 2025.","ista":"Bilu M, Browning TD. 2025. A motivic circle method. Annales Scientifiques de l’École Normale Supérieure. 58(5), 1179–1242.","apa":"Bilu, M., &#38; Browning, T. D. (2025). A motivic circle method. <i>Annales Scientifiques de l’École Normale Supérieure</i>. Société Mathématique de France. <a href=\"https://doi.org/10.24033/asens.2628\">https://doi.org/10.24033/asens.2628</a>"},"publication_status":"published","project":[{"_id":"05A4F6F0-7A3F-11EA-A408-12923DDC885E","grant_number":"893012","name":"A motivic circle method","call_identifier":"H2020"},{"grant_number":"P36278","name":"Rational curves via function field analytic number theory","_id":"bd8a4fdc-d553-11ed-ba76-80a0167441a3"}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2304.09645","open_access":"1"}],"date_created":"2026-09-13T22:01:57Z","issue":"5","oa_version":"Preprint","type":"journal_article","arxiv":1,"fulldoi":"https://doi.org/10.24033/asens.2628","intvolume":"        58","oa":1,"publication_identifier":{"issn":["0012-9593"],"eissn":["1873-2151"]},"year":"2025","corr_author":"1","day":"01","abstract":[{"lang":"eng","text":"The circle method has been successfully used over the last century to study rational points on hypersurfaces. More recently, a version of the method over function fields, combined with spreading out techniques, has led to a range of results about moduli spaces of rational curves on hypersurfaces. In this paper a version of the circle method is implemented in the setting of the Grothendieck ring of varieties. This allows us to approximate the classes of these moduli spaces directly, without relying on point counting, and leads to a deeper understanding of their geometry."},{"text":"La méthode du cercle a été utilisée avec succès au cours du siècle dernier pour l’étude\r\ndes points rationnels sur les hypersurfaces. Plus récemment, une version fonctionnelle de cette méthode,\r\ncombinée à des techniques d’étalement, a mené à une série de résultats sur les espaces de modules de\r\ncourbes sur les hypersurfaces. Dans cet article on implémente une version de la méthode du cercle dans\r\nle cadre de l’anneau de Grothendieck des variétés. Cela permet d’approximer les classes de ces espaces\r\nde modules directement, sans recours au comptage de points, ce qui donne accès à une compréhension\r\nplus profonde de leur géométrie.","lang":"fre"}],"OA_place":"repository","das_tickbox":"0","language":[{"iso":"eng"}],"supplementarymaterial":"yes","publisher":"Société Mathématique de France","page":"1179-1242"},{"month":"07","publication":"Wiener Klinische Wochenschrift","doi":"10.1007/s00508-024-02462-x","status":"public","quality_controlled":"1","PlanS_conform":"1","article_type":"original","date_published":"2025-07-01T00:00:00Z","researchdata_availability":"no","department":[{"_id":"PreCl"}],"OA_type":"hybrid","scopus_import":"1","_id":"18449","volume":137,"author":[{"full_name":"Schober, Sophie","id":"80b0a0ef-4b9f-11ec-b119-8d9d94c4a1d8","first_name":"Sophie","last_name":"Schober"},{"last_name":"Klee","first_name":"Sascha","full_name":"Klee, Sascha"},{"first_name":"Franz","last_name":"Trautinger","full_name":"Trautinger, Franz"}],"ddc":["570"],"isi":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"has_accepted_license":"1","date_updated":"2026-09-17T10:27:37Z","title":"The role of institutional ethics committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023","article_processing_charge":"Yes (via OA deal)","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","file_date_updated":"2025-12-30T06:54:03Z","external_id":{"isi":["001329812000001"]},"publication_identifier":{"eissn":["1613-7671"],"issn":["0043-5325"]},"corr_author":"1","license":"https://creativecommons.org/licenses/by/4.0/","year":"2025","day":"01","file":[{"success":1,"creator":"dernst","checksum":"321be8a584117feaea9f3feaa28caabd","file_id":"20880","access_level":"open_access","date_created":"2025-12-30T06:54:03Z","date_updated":"2025-12-30T06:54:03Z","relation":"main_file","file_name":"2025_WrKlinischeWochenschrift_Schober.pdf","content_type":"application/pdf","file_size":580791}],"abstract":[{"text":"Research involving human subjects or identifiable human material and data must be assessed by an ethics committee. The Karl Landsteiner University of Health Sciences has established a Commission on Ethics and Scientific Integrity to evaluate medical research conducted by its faculty and students and at its affiliated hospitals.\r\nAll projects submitted to the Commission on Ethics and Scientific Integrity between 2018 and 2023 were analyzed regarding their major characteristics, the duration of the evaluation process, and votes issued.\r\nA total of 520 applications were electronically submitted during the observation period. Most of the studies were retrospective data analyses in the field of oncology, psychology and surgery. Most studies included less than 100 volunteers. Of the applications 50% received a final vote within 5 months, during which several revision rounds took place. Overall, about 77% of votes issued during the observation period were positive and 2% were rejections. In 11% files were closed due to withdrawal. In 11% final votes were pending at the end of the observation period due to requests for revisions.\r\nOur results emphasize the importance of institutional ethics committees using the example of the Commission on Ethics and Scientific Integrity at the Karl Landsteiner University. Such committees fill a gap in evaluating research not covered by Austrian legal regulations. Continuous development of standards, operating procedures, and national and international collaborations are required to assess and minimize risks to trial subjects and to provide a safe and productive environment for research in human medicine and related fields.","lang":"eng"}],"OA_place":"publisher","das_tickbox":"0","language":[{"iso":"eng"}],"supplementarymaterial":"no","page":"432-437","publisher":"Springer Nature","acknowledgement":"Open access funding provided by Karl Landsteiner University.","citation":{"chicago":"Schober, Sophie, Sascha Klee, and Franz Trautinger. “The Role of Institutional Ethics Committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023.” <i>Wiener Klinische Wochenschrift</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s00508-024-02462-x\">https://doi.org/10.1007/s00508-024-02462-x</a>.","short":"S. Schober, S. Klee, F. Trautinger, Wiener Klinische Wochenschrift 137 (2025) 432–437.","mla":"Schober, Sophie, et al. “The Role of Institutional Ethics Committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023.” <i>Wiener Klinische Wochenschrift</i>, vol. 137, Springer Nature, 2025, pp. 432–37, doi:<a href=\"https://doi.org/10.1007/s00508-024-02462-x\">10.1007/s00508-024-02462-x</a>.","ama":"Schober S, Klee S, Trautinger F. The role of institutional ethics committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023. <i>Wiener Klinische Wochenschrift</i>. 2025;137:432-437. doi:<a href=\"https://doi.org/10.1007/s00508-024-02462-x\">10.1007/s00508-024-02462-x</a>","ieee":"S. Schober, S. Klee, and F. Trautinger, “The role of institutional ethics committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023,” <i>Wiener Klinische Wochenschrift</i>, vol. 137. Springer Nature, pp. 432–437, 2025.","apa":"Schober, S., Klee, S., &#38; Trautinger, F. (2025). The role of institutional ethics committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023. <i>Wiener Klinische Wochenschrift</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00508-024-02462-x\">https://doi.org/10.1007/s00508-024-02462-x</a>","ista":"Schober S, Klee S, Trautinger F. 2025. The role of institutional ethics committees in Austria: Report of the Commission on Ethics and Scientific Integrity of the Karl Landsteiner University of Health Sciences 2018–2023. Wiener Klinische Wochenschrift. 137, 432–437."},"publication_status":"published","date_created":"2024-10-20T22:02:07Z","oa_version":"Published Version","type":"journal_article","fulldoi":"https://doi.org/10.1007/s00508-024-02462-x","intvolume":"       137","oa":1},{"date_published":"2025-01-01T00:00:00Z","article_type":"original","researchdata_availability":"no","department":[{"_id":"RoSe"}],"PlanS_conform":"1","doi":"10.1007/s00023-024-01450-1","status":"public","quality_controlled":"1","month":"01","publication":"Annales Henri Poincare","related_material":{"record":[{"status":"public","id":"18135","relation":"dissertation_contains"}]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","file_date_updated":"2025-08-05T11:42:27Z","external_id":{"isi":["001261197700002"],"pmid":["39926012"]},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"has_accepted_license":"1","date_updated":"2026-09-17T11:02:45Z","article_processing_charge":"Yes (via OA deal)","title":"Almost optimal upper bound for the ground state energy of a dilute Fermi gas via cluster expansion","author":[{"last_name":"Lauritsen","first_name":"Asbjørn Bækgaard","id":"e1a2682f-dc8d-11ea-abe3-81da9ac728f1","full_name":"Lauritsen, Asbjørn Bækgaard","orcid":"0000-0003-4476-2288"}],"ddc":["510"],"isi":1,"OA_type":"hybrid","scopus_import":"1","_id":"17240","volume":26,"language":[{"iso":"eng"}],"page":"203-243","publisher":"Springer Nature","supplementarymaterial":"no","abstract":[{"lang":"eng","text":"We prove an upper bound on the energy density of the dilute spin-\\(\\frac {1}{2}\\) Fermi gas capturing the leading correction to the kinetic energy\\(8\\pi a\\rho _\\uparrow\\rho _\\downarrow\\) with an error of size smaller than\\(a\\rho^{2}(a^ 3\\rho)^{1/3-\\varepsilon}\\) for any\\(\\varepsilon> 0\\), where a denotes the scattering length of the interaction. The result is valid for a large class of interactions including interactions with a hard core. A central ingredient in the proof is a rigorous version of a fermionic cluster expansion adapted from the formal expansion of Gaudin et al. (Nucl Phys A 176(2):237–260, 1971. https://doi.org/10.1016/0375-9474(71)90267-3)."}],"OA_place":"publisher","das_tickbox":"0","year":"2025","corr_author":"1","day":"01","file":[{"file_name":"2025_AnnalesHenriPoincare_Lauritsen.pdf","content_type":"application/pdf","file_size":797241,"access_level":"open_access","date_created":"2025-08-05T11:42:27Z","date_updated":"2025-08-05T11:42:27Z","relation":"main_file","success":1,"file_id":"20125","creator":"dernst","checksum":"01b6572f55f721e97498522c85072ed2"}],"publication_identifier":{"issn":["1424-0637"]},"oa_version":"Published Version","type":"journal_article","fulldoi":"https://doi.org/10.1007/s00023-024-01450-1","intvolume":"        26","oa":1,"date_created":"2024-07-14T22:01:12Z","project":[{"grant_number":"I06427","name":"Mathematical Challenges in BCS Theory of Superconductivity","_id":"bda63fe5-d553-11ed-ba76-a16e3d2f256b"}],"acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria).\r\nWe thank Alessandro Giuliani and Robert Seiringer for helpful discussions and Robert Seiringer for his comments on the manuscript. Financial support by the Austrian Science Fund (FWF) through Grant https://doi.org/10.55776/I6427 (as part of the SFB/TRR 352) is gratefully acknowledged.","citation":{"ama":"Lauritsen AB. Almost optimal upper bound for the ground state energy of a dilute Fermi gas via cluster expansion. <i>Annales Henri Poincare</i>. 2025;26:203-243. doi:<a href=\"https://doi.org/10.1007/s00023-024-01450-1\">10.1007/s00023-024-01450-1</a>","mla":"Lauritsen, Asbjørn Bækgaard. “Almost Optimal Upper Bound for the Ground State Energy of a Dilute Fermi Gas via Cluster Expansion.” <i>Annales Henri Poincare</i>, vol. 26, Springer Nature, 2025, pp. 203–43, doi:<a href=\"https://doi.org/10.1007/s00023-024-01450-1\">10.1007/s00023-024-01450-1</a>.","chicago":"Lauritsen, Asbjørn Bækgaard. “Almost Optimal Upper Bound for the Ground State Energy of a Dilute Fermi Gas via Cluster Expansion.” <i>Annales Henri Poincare</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s00023-024-01450-1\">https://doi.org/10.1007/s00023-024-01450-1</a>.","short":"A.B. Lauritsen, Annales Henri Poincare 26 (2025) 203–243.","ieee":"A. B. Lauritsen, “Almost optimal upper bound for the ground state energy of a dilute Fermi gas via cluster expansion,” <i>Annales Henri Poincare</i>, vol. 26. Springer Nature, pp. 203–243, 2025.","apa":"Lauritsen, A. B. (2025). Almost optimal upper bound for the ground state energy of a dilute Fermi gas via cluster expansion. <i>Annales Henri Poincare</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00023-024-01450-1\">https://doi.org/10.1007/s00023-024-01450-1</a>","ista":"Lauritsen AB. 2025. Almost optimal upper bound for the ground state energy of a dilute Fermi gas via cluster expansion. Annales Henri Poincare. 26, 203–243."},"publication_status":"published","pmid":1},{"date_created":"2024-09-15T22:01:42Z","fulldoi":"https://doi.org/10.1007/s00023-024-01482-7","intvolume":"        26","oa":1,"oa_version":"Published Version","arxiv":1,"type":"journal_article","citation":{"short":"M. Fialova, Annales Henri Poincare 26 (2025) 2859–2900.","chicago":"Fialova, Marie. “Aharonov–Casher Theorems for Dirac Operators on Manifolds with Boundary and APS Boundary Condition.” <i>Annales Henri Poincare</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s00023-024-01482-7\">https://doi.org/10.1007/s00023-024-01482-7</a>.","ama":"Fialova M. Aharonov–Casher theorems for Dirac operators on manifolds with boundary and APS boundary condition. <i>Annales Henri Poincare</i>. 2025;26:2859-2900. doi:<a href=\"https://doi.org/10.1007/s00023-024-01482-7\">10.1007/s00023-024-01482-7</a>","mla":"Fialova, Marie. “Aharonov–Casher Theorems for Dirac Operators on Manifolds with Boundary and APS Boundary Condition.” <i>Annales Henri Poincare</i>, vol. 26, Springer Nature, 2025, pp. 2859–900, doi:<a href=\"https://doi.org/10.1007/s00023-024-01482-7\">10.1007/s00023-024-01482-7</a>.","apa":"Fialova, M. (2025). Aharonov–Casher theorems for Dirac operators on manifolds with boundary and APS boundary condition. <i>Annales Henri Poincare</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00023-024-01482-7\">https://doi.org/10.1007/s00023-024-01482-7</a>","ista":"Fialova M. 2025. Aharonov–Casher theorems for Dirac operators on manifolds with boundary and APS boundary condition. Annales Henri Poincare. 26, 2859–2900.","ieee":"M. Fialova, “Aharonov–Casher theorems for Dirac operators on manifolds with boundary and APS boundary condition,” <i>Annales Henri Poincare</i>, vol. 26. Springer Nature, pp. 2859–2900, 2025."},"publication_status":"published","acknowledgement":"First and foremost I am grateful to Jan Philip Solovej for fruitful meetings during (and after) my PhD programme, when this work was done. Further I would like to thank Joshua Hunt, Anna Sisak, Jakub Löwit, Błażej Ruba, Volodymir Riabov, Lukas Schimmer and Georgios Koutentakis for valuable discussions. Many thanks belong to Rafael Benguria for hosting my visit, during which some of the work has been done. I am also grateful to Marina Prokhorova who first initiated the discussion of this project topic and to Annemarie Luger for her valuable comments during my PhD defence and in particular pointing out the qualitative difference in our two main results. I would like to acknowledge support for research on this paper from VILLUM FONDEN through the QMATH Centre of Excellence grant. nr. 10059. This project also received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413. I am grateful to the two reviewers for reading carefully my manuscript and pointing out several issues contributing thus significantly to the readability and clarity of this paper.\r\nOpen access funding provided by Institute of Science and Technology (IST Austria).","project":[{"name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020"}],"das_tickbox":"0","abstract":[{"text":"The Aharonov–Casher theorem is a result on the number of the so-called zero modes of a system described by the magnetic Pauli operator in R2. In this paper we address the same question for the Dirac operator on a flat two-dimensional manifold with boundary and Atiyah–Patodi–Singer boundary condition. More concretely we are interested in the plane and a disc with a finite number of circular holes cut out. We consider a smooth compactly supported magnetic field on the manifold and an arbitrary magnetic field inside the holes.","lang":"eng"}],"OA_place":"publisher","language":[{"iso":"eng"}],"page":"2859-2900","supplementarymaterial":"yes","publisher":"Springer Nature","publication_identifier":{"issn":["1424-0637"]},"file":[{"content_type":"application/pdf","file_name":"2025_AnnalesHenriPoincare_Fialova.pdf","file_size":728124,"success":1,"creator":"dernst","checksum":"d8d2d6dbce293c9ee6eaa9262e597147","file_id":"20124","access_level":"open_access","date_updated":"2025-08-05T11:24:25Z","relation":"main_file","date_created":"2025-08-05T11:24:25Z"}],"corr_author":"1","year":"2025","day":"01","date_updated":"2026-09-17T11:06:35Z","title":"Aharonov–Casher theorems for Dirac operators on manifolds with boundary and APS boundary condition","article_processing_charge":"Yes (via OA deal)","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"has_accepted_license":"1","file_date_updated":"2025-08-05T11:24:25Z","external_id":{"arxiv":["2304.13373"],"isi":["001304370000001"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","scopus_import":"1","_id":"18074","volume":26,"OA_type":"hybrid","isi":1,"author":[{"full_name":"Fialova, Marie","id":"e9c9844d-9e21-11ec-b482-f96fc09f7c4d","first_name":"Marie","last_name":"Fialova"}],"ddc":["510"],"PlanS_conform":"1","ec_funded":1,"department":[{"_id":"RoSe"}],"date_published":"2025-08-01T00:00:00Z","article_type":"original","researchdata_availability":"no","publication":"Annales Henri Poincare","month":"08","quality_controlled":"1","doi":"10.1007/s00023-024-01482-7","status":"public"},{"type":"journal_article","oa_version":"Published Version","oa":1,"fulldoi":"https://doi.org/10.1111/bpa.13279","intvolume":"        35","date_created":"2024-07-22T07:48:20Z","issue":"2","dataavailabilitystatement":"All data used and/or analyzed during the current study are available from the corresponding author on reasonable request.","acknowledgement":"Funding sources were Spanish Ministerio de Economía y Competitividad, Junta de Comunidades de Castilla-La Mancha (Spain), Life Science Innovation Center at University of Fukui and German Research Foundation.\r\nGrants RTI2018-095812-B-I00 and PID2021-125875OB-I00 funded by MCIN/AEI/10.13039/501100011033 and by “ERDF A way of making Europe” to Rafael Luján. This study was also supported by a grant from Junta de Comunidades de Castilla-La Mancha (SBPLY/17/180501/000229 and SBPLY/21/180501/000064) and Universidad de Castilla-La Mancha (2023-GRIN-34187) to Rafael Luján, and Life Science Innovation Center (Research and Education Program for Life Science) at University of Fukui and JSPS KAKENHI Grant Numbers 16H04662, 17K19446, 18H05120 to Yugo Fukazawa and Margarita Salas fellowship from Ministerio de Universidades and Universidad de Castilla-La Mancha to Alejandro Martín-Belmonte. German Research Foundation (DFG FOR 2143) and BIOSS-2 to Akos Kulik.","publication_status":"published","pmid":1,"citation":{"apa":"Martín‐Belmonte, A., Aguado, C., Alfaro‐Ruiz, R., Kulik, A., de la Ossa, L., Moreno‐Martínez, A. E., … Luján, R. (2025). Nanoarchitecture of CaV&#62;2.1 channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology. <i>Brain Pathology</i>. Wiley. <a href=\"https://doi.org/10.1111/bpa.13279\">https://doi.org/10.1111/bpa.13279</a>","ista":"Martín‐Belmonte A, Aguado C, Alfaro‐Ruiz R, Kulik A, de la Ossa L, Moreno‐Martínez AE, Alberquilla S, García‐Carracedo L, Fernández M, Fajardo‐Serrano A, Aso E, Shigemoto R, Martín ED, Fukazawa Y, Ciruela F, Luján R. 2025. Nanoarchitecture of CaV&#62;2.1 channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology. Brain Pathology. 35(2), e13279.","ieee":"A. Martín‐Belmonte <i>et al.</i>, “Nanoarchitecture of CaV&#62;2.1 channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology,” <i>Brain Pathology</i>, vol. 35, no. 2. Wiley, 2025.","mla":"Martín‐Belmonte, Alejandro, et al. “Nanoarchitecture of CaV&#62;2.1 Channels and GABAB Receptors in the Mouse Hippocampus: Impact of APP/PS1 Pathology.” <i>Brain Pathology</i>, vol. 35, no. 2, e13279, Wiley, 2025, doi:<a href=\"https://doi.org/10.1111/bpa.13279\">10.1111/bpa.13279</a>.","ama":"Martín‐Belmonte A, Aguado C, Alfaro‐Ruiz R, et al. Nanoarchitecture of CaV&#62;2.1 channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology. <i>Brain Pathology</i>. 2025;35(2). doi:<a href=\"https://doi.org/10.1111/bpa.13279\">10.1111/bpa.13279</a>","chicago":"Martín‐Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro‐Ruiz, Akos Kulik, Luis de la Ossa, Ana Esther Moreno‐Martínez, Samuel Alberquilla, et al. “Nanoarchitecture of CaV&#62;2.1 Channels and GABAB Receptors in the Mouse Hippocampus: Impact of APP/PS1 Pathology.” <i>Brain Pathology</i>. Wiley, 2025. <a href=\"https://doi.org/10.1111/bpa.13279\">https://doi.org/10.1111/bpa.13279</a>.","short":"A. Martín‐Belmonte, C. Aguado, R. Alfaro‐Ruiz, A. Kulik, L. de la Ossa, A.E. Moreno‐Martínez, S. Alberquilla, L. García‐Carracedo, M. Fernández, A. Fajardo‐Serrano, E. Aso, R. Shigemoto, E.D. Martín, Y. Fukazawa, F. Ciruela, R. Luján, Brain Pathology 35 (2025)."},"publisher":"Wiley","supplementarymaterial":"yes","language":[{"iso":"eng"}],"OA_place":"publisher","article_number":"e13279","abstract":[{"text":"Voltage-gated CaV2.1 (P/Q-type) Ca2+ channels play a crucial role in regulating neurotransmitter release, thus contributing to synaptic plasticity and to processes such as learning and memory. Despite their recognized importance in neural function, there is limited information on their potential involvement in neurodegenerative conditions such as Alzheimer's disease (AD). Here, we aimed to explore the impact of AD pathology on the density and nanoscale compartmentalization of CaV2.1 channels in the hippocampus in association with GABAB receptors. Histoblotting experiments showed that the density of CaV2.1 channel was significantly reduced in the hippocampus of APP/PS1 mice in a laminar-dependent manner. CaV2.1 channel was enriched in the active zone of the axon terminals and was present at a very low density over the surface of dendritic tree of the CA1 pyramidal cells, as shown by quantitative SDS-digested freeze-fracture replica labelling (SDS-FRL). In APP/PS1 mice, the density of CaV2.1 channel in the active zone was significantly reduced in the strata radiatum and lacunosum-moleculare, while it remained unaltered in the stratum oriens. The decline in Cav2.1 channel density was found to be associated with a corresponding impairment in the GABAergic synaptic function, as evidenced by electrophysiological experiments carried out in the hippocampus of APP/PS1 mice. Remarkably, double SDS-FRL showed a co-clustering of CaV2.1 channel and GABAB1 receptor in nanodomains (~40–50 nm) in wild type mice, while in APP/PS1 mice this nanoarchitecture was absent. Together, these findings suggest that the AD pathology-induced reduction in CaV2.1 channel density and CaV2.1-GABAB1 de-clustering may play a role in the synaptic transmission alterations shown in the AD hippocampus. Therefore, uncovering these layer-dependent changes in P/Q calcium currents associated with AD pathology can benefit the development of future strategies for AD management.","lang":"eng"}],"das_tickbox":"1","day":"01","year":"2025","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","file":[{"file_name":"2025_BrainPathology_MartinBelmonte.pdf","content_type":"application/pdf","file_size":8767863,"access_level":"open_access","date_created":"2025-04-16T09:56:08Z","relation":"main_file","date_updated":"2025-04-16T09:56:08Z","success":1,"checksum":"75a172800ab2e949abb66fba97cf70f0","file_id":"19582","creator":"dernst"}],"DOAJ_listed":"1","publication_identifier":{"issn":["1015-6305"],"eissn":["1750-3639"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","external_id":{"isi":["001250034200001"],"pmid":["38887180"]},"file_date_updated":"2025-04-16T09:56:08Z","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"article_processing_charge":"Yes","title":"Nanoarchitecture of CaV>2.1 channels and GABAB receptors in the mouse hippocampus: Impact of APP/PS1 pathology","date_updated":"2026-09-17T11:10:34Z","author":[{"full_name":"Martín‐Belmonte, Alejandro","last_name":"Martín‐Belmonte","first_name":"Alejandro"},{"last_name":"Aguado","first_name":"Carolina","full_name":"Aguado, Carolina"},{"first_name":"Rocío","last_name":"Alfaro‐Ruiz","full_name":"Alfaro‐Ruiz, Rocío"},{"first_name":"Akos","last_name":"Kulik","full_name":"Kulik, Akos"},{"full_name":"de la Ossa, Luis","last_name":"de la Ossa","first_name":"Luis"},{"full_name":"Moreno‐Martínez, Ana Esther","first_name":"Ana Esther","last_name":"Moreno‐Martínez"},{"full_name":"Alberquilla, Samuel","last_name":"Alberquilla","first_name":"Samuel"},{"last_name":"García‐Carracedo","first_name":"Lucía","full_name":"García‐Carracedo, Lucía"},{"first_name":"Miriam","last_name":"Fernández","full_name":"Fernández, Miriam"},{"first_name":"Ana","last_name":"Fajardo‐Serrano","full_name":"Fajardo‐Serrano, Ana"},{"first_name":"Ester","last_name":"Aso","full_name":"Aso, Ester"},{"orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","first_name":"Ryuichi","last_name":"Shigemoto"},{"first_name":"Eduardo D.","last_name":"Martín","full_name":"Martín, Eduardo D."},{"full_name":"Fukazawa, Yugo","first_name":"Yugo","last_name":"Fukazawa"},{"first_name":"Francisco","last_name":"Ciruela","full_name":"Ciruela, Francisco"},{"first_name":"Rafael","last_name":"Luján","full_name":"Luján, Rafael"}],"ddc":["570"],"isi":1,"OA_type":"gold","volume":35,"_id":"17293","scopus_import":"1","researchdata_availability":"upon request","article_type":"original","date_published":"2025-03-01T00:00:00Z","department":[{"_id":"RySh"}],"status":"public","doi":"10.1111/bpa.13279","quality_controlled":"1","month":"03","publication":"Brain Pathology"},{"article_processing_charge":"No","title":"Monitoring robustness and individual fairness","date_updated":"2026-09-18T07:41:29Z","has_accepted_license":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"external_id":{"arxiv":["2506.00496"]},"file_date_updated":"2025-09-08T08:46:31Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"22808"}],"link":[{"url":"https://github.com/ariez-xyz/clemont","relation":"software"}]},"volume":2,"scopus_import":"1","_id":"20292","conference":{"location":"Toronto, Canada","end_date":"2025-08-07","start_date":"2025-08-03","name":"KDD: Conference on Knowledge Discovery and Data Mining"},"ddc":["000"],"author":[{"full_name":"Gupta, Ashutosh","id":"335E5684-F248-11E8-B48F-1D18A9856A87","first_name":"Ashutosh","last_name":"Gupta"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A","orcid":"0000-0002-2985-7724","last_name":"Henzinger","first_name":"Thomas A"},{"id":"8121a2d0-dc85-11ea-9058-af578f3b4515","full_name":"Kueffner, Konstantin","orcid":"0000-0001-8974-2542","last_name":"Kueffner","first_name":"Konstantin"},{"last_name":"Mallik","first_name":"Kaushik","id":"0834ff3c-6d72-11ec-94e0-b5b0a4fb8598","orcid":"0000-0001-9864-7475","full_name":"Mallik, Kaushik"},{"last_name":"Pape","first_name":"David","full_name":"Pape, David"}],"ec_funded":1,"department":[{"_id":"ToHe"}],"date_published":"2025-08-03T00:00:00Z","publication":"Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining","month":"08","quality_controlled":"1","status":"public","doi":"10.1145/3711896.3737054","date_created":"2025-09-07T22:01:33Z","oa":1,"fulldoi":"https://doi.org/10.1145/3711896.3737054","intvolume":"         2","arxiv":1,"type":"conference","oa_version":"Published Version","publication_status":"published","citation":{"apa":"Gupta, A., Henzinger, T. A., Kueffner, K., Mallik, K., &#38; Pape, D. (2025). Monitoring robustness and individual fairness. In <i>Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining</i> (Vol. 2, pp. 790–801). Toronto, Canada: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3711896.3737054\">https://doi.org/10.1145/3711896.3737054</a>","ista":"Gupta A, Henzinger TA, Kueffner K, Mallik K, Pape D. 2025. Monitoring robustness and individual fairness. Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining. KDD: Conference on Knowledge Discovery and Data Mining vol. 2, 790–801.","ieee":"A. Gupta, T. A. Henzinger, K. Kueffner, K. Mallik, and D. Pape, “Monitoring robustness and individual fairness,” in <i>Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining</i>, Toronto, Canada, 2025, vol. 2, pp. 790–801.","mla":"Gupta, Ashutosh, et al. “Monitoring Robustness and Individual Fairness.” <i>Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining</i>, vol. 2, Association for Computing Machinery, 2025, pp. 790–801, doi:<a href=\"https://doi.org/10.1145/3711896.3737054\">10.1145/3711896.3737054</a>.","ama":"Gupta A, Henzinger TA, Kueffner K, Mallik K, Pape D. Monitoring robustness and individual fairness. In: <i>Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining</i>. Vol 2. Association for Computing Machinery; 2025:790-801. doi:<a href=\"https://doi.org/10.1145/3711896.3737054\">10.1145/3711896.3737054</a>","short":"A. Gupta, T.A. Henzinger, K. Kueffner, K. Mallik, D. Pape, in:, Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining, Association for Computing Machinery, 2025, pp. 790–801.","chicago":"Gupta, Ashutosh, Thomas A Henzinger, Konstantin Kueffner, Kaushik Mallik, and David Pape. “Monitoring Robustness and Individual Fairness.” In <i>Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining</i>, 2:790–801. Association for Computing Machinery, 2025. <a href=\"https://doi.org/10.1145/3711896.3737054\">https://doi.org/10.1145/3711896.3737054</a>."},"acknowledgement":"This work was supported in part by the ERC project ERC-2020-AdG 101020093 and the SBI Foundation Hub for Data Science &Analytics, IIT Bombay.","project":[{"call_identifier":"H2020","grant_number":"101020093","name":"Vigilant Algorithmic Monitoring of Software","_id":"62781420-2b32-11ec-9570-8d9b63373d4d"}],"OA_place":"publisher","abstract":[{"lang":"eng","text":"In automated decision-making, it is desirable that outputs of decision-makers be robust to slight perturbations in their inputs, a property that may be called input-output robustness. Input-output robustness appears in various different forms in the literature, such as robustness of AI models to adversarial or semantic perturbations and individual fairness of AI models that make decisions about humans. We propose runtime monitoring of input-output robustness of deployed, black-box AI models, where the goal is to design monitors that would observe one long execution sequence of the model, and would raise an alarm whenever it is detected that two similar inputs from the past led to dissimilar outputs. This way, monitoring will complement existing offline ''robustification'' approaches to increase the trustworthiness of AI decision-makers. We show that the monitoring problem can be cast as the fixed-radius nearest neighbor (FRNN) search problem, which, despite being well-studied, lacks suitable online solutions. We present our tool Clemont, which offers a number of lightweight monitors, some of which use upgraded online variants of existing FRNN algorithms, and one uses a novel algorithm based on binary decision diagrams--a data-structure commonly used in software and hardware verification. We have also developed an efficient parallelization technique that can substantially cut down the computation time of monitors for which the distance between input-output pairs is measured using the L∞norm. Using standard benchmarks from the literature of adversarial and semantic robustness and individual fairness, we perform a comparative study of different monitors in Clemont, and demonstrate their effectiveness in correctly detecting robustness violations at runtime."}],"page":"790-801","publisher":"Association for Computing Machinery","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2154-817X"],"isbn":["9798400714542"]},"file":[{"file_name":"2025_KDD_Gupta.pdf","content_type":"application/pdf","file_size":7745940,"success":1,"checksum":"81e18cdf9ca5f6dfa79425b326ea9725","file_id":"20310","creator":"dernst","access_level":"open_access","date_created":"2025-09-08T08:46:31Z","date_updated":"2025-09-08T08:46:31Z","relation":"main_file"}],"day":"03","year":"2025","corr_author":"1"},{"OA_place":"repository","abstract":[{"lang":"eng","text":"Fairness in AI is traditionally studied as a static property evaluated once, over a fixed dataset. However, real-world AI systems operate sequentially, with outcomes and environments evolving over time. This paper proposes a framework for analysing fairness as a runtime property. Using a minimal yet expressive model based on sequences of coin tosses with possibly evolving biases, we study the problems of monitoring and enforcing fairness expressed in either toss outcomes or coin biases. Since there is no one-size-fits-all solution for either problem, we provide a summary of monitoring and enforcement strategies, parametrised by environment dynamics, prediction horizon, and confidence thresholds. For both problems, we present general results under simple or minimal assumptions. We survey existing solutions for the monitoring problem for Markovian and additive dynamics, and existing solutions for the enforcement problem in static settings with known dynamics."}],"page":"1-21","publisher":"Springer Nature","language":[{"iso":"eng"}],"publication_identifier":{"eisbn":["9783032054357"],"eissn":["1611-3349"],"issn":["0302-9743"]},"day":"13","corr_author":"1","year":"2025","date_created":"2026-01-29T16:01:41Z","oa":1,"fulldoi":"https://doi.org/10.1007/978-3-032-05435-7_1","intvolume":"     16087","arxiv":1,"type":"conference","oa_version":"Preprint","publication_status":"published","citation":{"mla":"Cano Cordoba, Filip, et al. “Algorithmic Fairness: A Runtime Perspective.” <i>25th International Conference on Runtime Verification</i>, vol. 16087, Springer Nature, 2025, pp. 1–21, doi:<a href=\"https://doi.org/10.1007/978-3-032-05435-7_1\">10.1007/978-3-032-05435-7_1</a>.","ama":"Cano Cordoba F, Henzinger TA, Kueffner K. Algorithmic fairness: A runtime perspective. In: <i>25th International Conference on Runtime Verification</i>. Vol 16087. Springer Nature; 2025:1-21. doi:<a href=\"https://doi.org/10.1007/978-3-032-05435-7_1\">10.1007/978-3-032-05435-7_1</a>","chicago":"Cano Cordoba, Filip, Thomas A Henzinger, and Konstantin Kueffner. “Algorithmic Fairness: A Runtime Perspective.” In <i>25th International Conference on Runtime Verification</i>, 16087:1–21. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/978-3-032-05435-7_1\">https://doi.org/10.1007/978-3-032-05435-7_1</a>.","short":"F. Cano Cordoba, T.A. Henzinger, K. Kueffner, in:, 25th International Conference on Runtime Verification, Springer Nature, 2025, pp. 1–21.","ieee":"F. Cano Cordoba, T. A. Henzinger, and K. Kueffner, “Algorithmic fairness: A runtime perspective,” in <i>25th International Conference on Runtime Verification</i>, Graz, Austria, 2025, vol. 16087, pp. 1–21.","apa":"Cano Cordoba, F., Henzinger, T. A., &#38; Kueffner, K. (2025). Algorithmic fairness: A runtime perspective. In <i>25th International Conference on Runtime Verification</i> (Vol. 16087, pp. 1–21). Graz, Austria: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-032-05435-7_1\">https://doi.org/10.1007/978-3-032-05435-7_1</a>","ista":"Cano Cordoba F, Henzinger TA, Kueffner K. 2025. Algorithmic fairness: A runtime perspective. 25th International Conference on Runtime Verification. RV: Runtime Verification, LNCS, vol. 16087, 1–21."},"acknowledgement":"This work is supported by the European Research Council under Grant No.: ERC-2020-AdG 101020093.","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2507.20711"}],"project":[{"call_identifier":"H2020","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","grant_number":"101020093","name":"Vigilant Algorithmic Monitoring of Software"}],"ec_funded":1,"alternative_title":["LNCS"],"department":[{"_id":"ToHe"}],"date_published":"2025-09-13T00:00:00Z","publication":"25th International Conference on Runtime Verification","month":"09","quality_controlled":"1","status":"public","doi":"10.1007/978-3-032-05435-7_1","article_processing_charge":"No","title":"Algorithmic fairness: A runtime perspective","date_updated":"2026-09-18T07:41:29Z","external_id":{"arxiv":["2507.20711"]},"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"22808"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":16087,"_id":"21090","OA_type":"green","conference":{"location":"Graz, Austria","name":"RV: Runtime Verification","start_date":"2025-09-15","end_date":"2025-09-19"},"author":[{"id":"708cad98-e86a-11ef-8098-bdae2d7c6af1","orcid":"0000-0002-0783-904X","full_name":"Cano Cordoba, Filip","last_name":"Cano Cordoba","first_name":"Filip"},{"orcid":"0000-0002-2985-7724","full_name":"Henzinger, Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","last_name":"Henzinger"},{"id":"8121a2d0-dc85-11ea-9058-af578f3b4515","full_name":"Kueffner, Konstantin","orcid":"0000-0001-8974-2542","last_name":"Kueffner","first_name":"Konstantin"}]},{"keyword":["gene regulation","networks","omnigenic model","pancreas","collective behaviour"],"department":[{"_id":"GradSch"},{"_id":"GaTk"}],"supervisor":[{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gašper","last_name":"Tkačik"}],"alternative_title":["ISTA Thesis"],"date_published":"2025-09-15T00:00:00Z","month":"09","doi":"10.15479/AT-ISTA-20357","status":"public","date_updated":"2026-09-15T22:30:03Z","title":"Effect propagation in biological networks","article_processing_charge":"No","has_accepted_license":"1","file_date_updated":"2026-09-15T22:30:02Z","related_material":{"record":[{"status":"public","id":"18525","relation":"part_of_dissertation"}]},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"20357","ddc":["570","530"],"author":[{"id":"D2761128-D73D-11E9-A1BF-BA0DE6697425","full_name":"Ruzickova, Natalia","last_name":"Ruzickova","first_name":"Natalia"}],"degree_awarded":"PhD","OA_place":"publisher","language":[{"iso":"eng"}],"publisher":"Institute of Science and Technology Austria","page":"156","doi_confirm":"1","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-066-4"]},"file":[{"relation":"source_file","date_updated":"2026-09-15T22:30:02Z","date_created":"2026-08-07T10:57:05Z","access_level":"closed","embargo_to":"open_access","checksum":"0582508d439b233497384f83a8307398","file_id":"22661","creator":"cchlebak","file_size":56464803,"content_type":"application/x-zip-compressed","file_name":"2025_Ruzickova_Natalia_Thesis.zip"},{"access_level":"open_access","relation":"main_file","date_updated":"2026-09-15T22:30:02Z","date_created":"2026-08-07T10:57:34Z","file_id":"22662","creator":"cchlebak","checksum":"b722289fd550abede63adc27b9c61784","embargo":"2026-09-15","content_type":"application/pdf","file_name":"2025_Ruzickova_Natalia_Thesis.pdf","file_size":30634378}],"corr_author":"1","year":"2025","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"E-Lib"}],"day":"15","date_created":"2025-09-15T17:04:48Z","fulldoi":"https://doi.org/10.15479/AT-ISTA-20357","oa":1,"oa_version":"Published Version","type":"dissertation","citation":{"short":"N. Ruzickova, Effect Propagation in Biological Networks, Institute of Science and Technology Austria, 2025.","chicago":"Ruzickova, Natalia. “Effect Propagation in Biological Networks.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20357\">https://doi.org/10.15479/AT-ISTA-20357</a>.","mla":"Ruzickova, Natalia. <i>Effect Propagation in Biological Networks</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20357\">10.15479/AT-ISTA-20357</a>.","ama":"Ruzickova N. Effect propagation in biological networks. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20357\">10.15479/AT-ISTA-20357</a>","ista":"Ruzickova N. 2025. Effect propagation in biological networks. Institute of Science and Technology Austria.","apa":"Ruzickova, N. (2025). <i>Effect propagation in biological networks</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20357\">https://doi.org/10.15479/AT-ISTA-20357</a>","ieee":"N. Ruzickova, “Effect propagation in biological networks,” Institute of Science and Technology Austria, 2025."},"publication_status":"published","acknowledgement":"I would also like to acknowledge the Austrian Academy of Sciences for funding through the\r\nDOC Fellowship program (fellowship number 26917), the Grants Office at ISTA for their\r\nassistance with the application, and the Scientific Computing Unit for their support regarding\r\nhigh-performance computation.\r\n","project":[{"name":"Collective behaviour of cells in pancreatic Islets of Langerhans","_id":"7bec9174-9f16-11ee-852c-ded9fe5f810e"}]},{"department":[{"_id":"GradSch"},{"_id":"EdHa"},{"_id":"MiSi"},{"_id":"NanoFab"},{"_id":"AnSa"}],"date_published":"2025-09-25T00:00:00Z","publication":"bioRxiv","month":"09","doi":"10.1101/2025.05.20.655037","status":"public","date_updated":"2026-09-20T22:30:09Z","article_processing_charge":"No","title":"Substrate heterogeneity promotes cancer cell dissemination through interface roughening","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"relation":"research_data","id":"21439","status":"public"},{"relation":"dissertation_contains","id":"21423","status":"public"}]},"_id":"21427","ddc":["539","570"],"author":[{"full_name":"Dunajova, Zuzana","id":"4B39F286-F248-11E8-B48F-1D18A9856A87","first_name":"Zuzana","last_name":"Dunajova"},{"first_name":"Saren","last_name":"Tasciyan","orcid":"0000-0003-1671-393X","full_name":"Tasciyan, Saren","id":"4323B49C-F248-11E8-B48F-1D18A9856A87"},{"id":"3e6d9473-f38e-11ec-8ae0-c4e05a8aa9e1","full_name":"Majek, Juraj","last_name":"Majek","first_name":"Juraj"},{"id":"4515C308-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack","last_name":"Merrin","first_name":"Jack"},{"full_name":"Sahai, Erik","first_name":"Erik","last_name":"Sahai"},{"first_name":"Michael K","last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Edouard B","last_name":"Hannezo","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"}],"das_tickbox":"1","abstract":[{"lang":"eng","text":"While tumor malignancy has been extensively studied under the prism of genetic and epigenetic heterogeneity, tumor cell states also critically depend on reciprocal interactions with the microenvironment. This raises the hitherto untested possibility that heterogeneity of the untransformed tumor stroma can actively fuel malignant progression. As biological heterogeneity is inherently difficult to control, we adopted a reductionist approach and let tumor cells invade micro-engineered environments harboring obstacles with precision-controlled geometry. We find that not only the presence of obstacles, but more surprisingly their spatial disorder, causes a drastic shift from a collective to a single-cell mode of invasion – comparable in strength to cadherin loss. Combining live-imaging and perturbation experiments with minimal biophysical modeling, we demonstrate that cell detachments result both from local geometrical constraints and a global integration of spatial disorder over time. We show that different types of microenvironments map onto different universality classes of invasion dynamics - homogeneous substrates follow Kardar–Parisi–Zhang (KPZ) scaling, while disordered ones exhibit exponents consistent with KPZ with quenched disorder (KPZq). Our findings highlight generic physical principles for how the mode of cancer cell invasion depends on environmental heterogeneity, with potential implications to understand tumor evolution in vivo."}],"OA_place":"repository","language":[{"iso":"eng"}],"year":"2025","corr_author":"1","day":"25","date_created":"2026-03-11T08:40:06Z","fulldoi":"https://doi.org/10.1101/2025.05.20.655037","oa":1,"oa_version":"Preprint","type":"preprint","citation":{"short":"Z. Dunajova, S. Tasciyan, J. Majek, J. Merrin, E. Sahai, M.K. Sixt, E.B. Hannezo, BioRxiv (n.d.).","chicago":"Dunajova, Zuzana, Saren Tasciyan, Juraj Majek, Jack Merrin, Erik Sahai, Michael K Sixt, and Edouard B Hannezo. “Substrate Heterogeneity Promotes Cancer Cell Dissemination through Interface Roughening.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2025.05.20.655037\">https://doi.org/10.1101/2025.05.20.655037</a>.","ama":"Dunajova Z, Tasciyan S, Majek J, et al. Substrate heterogeneity promotes cancer cell dissemination through interface roughening. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2025.05.20.655037\">10.1101/2025.05.20.655037</a>","mla":"Dunajova, Zuzana, et al. “Substrate Heterogeneity Promotes Cancer Cell Dissemination through Interface Roughening.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2025.05.20.655037\">10.1101/2025.05.20.655037</a>.","ieee":"Z. Dunajova <i>et al.</i>, “Substrate heterogeneity promotes cancer cell dissemination through interface roughening,” <i>bioRxiv</i>. .","apa":"Dunajova, Z., Tasciyan, S., Majek, J., Merrin, J., Sahai, E., Sixt, M. K., &#38; Hannezo, E. B. (n.d.). Substrate heterogeneity promotes cancer cell dissemination through interface roughening. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2025.05.20.655037\">https://doi.org/10.1101/2025.05.20.655037</a>","ista":"Dunajova Z, Tasciyan S, Majek J, Merrin J, Sahai E, Sixt MK, Hannezo EB. Substrate heterogeneity promotes cancer cell dissemination through interface roughening. bioRxiv, <a href=\"https://doi.org/10.1101/2025.05.20.655037\">10.1101/2025.05.20.655037</a>."},"publication_status":"draft","acknowledgement":"European Research Council, https://ror.org/0472cxd90, 101071793\r\nAustrian Academy of Sciences, 26360","main_file_link":[{"url":"https://doi.org/10.1101/2025.05.20.655037","open_access":"1"}],"project":[{"_id":"bd91e723-d553-11ed-ba76-fe7eeb2185fd","grant_number":"101071793","name":"Pushing from within: Control of cell shape, integrity and motility by cytoskeletal pushing forces"},{"name":"Motile active matter models of migrating cells and chiral filaments","grant_number":"26360","_id":"34d75525-11ca-11ed-8bc3-89b6307fee9d"}]},{"acknowledgement":"I would also like to acknowledge the invaluable assistance provided by the Plant\r\nFacility, Imaging & Optics Facility, and the Lab Support Facility. The technical support and\r\nresources offered by these facilities were indispensable to the successful completion of my\r\nexperiments.","citation":{"apa":"Wang, Y. (2025). <i>The role of dynamin related protein 2A in cytokinin regulated plant growth and development</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20117\">https://doi.org/10.15479/AT-ISTA-20117</a>","ista":"Wang Y. 2025. The role of dynamin related protein 2A in cytokinin regulated plant growth and development. Institute of Science and Technology Austria.","ieee":"Y. Wang, “The role of dynamin related protein 2A in cytokinin regulated plant growth and development,” Institute of Science and Technology Austria, 2025.","mla":"Wang, Yiqun. <i>The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20117\">10.15479/AT-ISTA-20117</a>.","ama":"Wang Y. The role of dynamin related protein 2A in cytokinin regulated plant growth and development. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20117\">10.15479/AT-ISTA-20117</a>","chicago":"Wang, Yiqun. “The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20117\">https://doi.org/10.15479/AT-ISTA-20117</a>.","short":"Y. Wang, The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development, Institute of Science and Technology Austria, 2025."},"publication_status":"published","date_created":"2025-08-04T15:24:21Z","oa_version":"Published Version","type":"dissertation","fulldoi":"https://doi.org/10.15479/AT-ISTA-20117","oa":1,"publication_identifier":{"issn":["2663-337X"]},"corr_author":"1","year":"2025","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"PreCl"}],"day":"04","file":[{"file_id":"20209","checksum":"36b87c17d12c7bf5955d6d812acb8d77","creator":"yiqwang","relation":"source_file","date_updated":"2026-09-03T22:30:03Z","date_created":"2025-08-22T08:22:10Z","access_level":"closed","embargo_to":"open_access","file_size":25798848,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"2025_Wang_Yiqun_Thesis.docx"},{"access_level":"open_access","date_updated":"2026-09-03T22:30:03Z","relation":"main_file","date_created":"2025-08-22T10:32:30Z","creator":"yiqwang","file_id":"20211","checksum":"8d7a2383f66377da675d379ec30ea0fe","embargo":"2026-09-03","content_type":"application/pdf","file_name":"2025_Wang_Yiqun_Thesis.pdf","file_size":12628313}],"OA_place":"publisher","degree_awarded":"PhD","language":[{"iso":"eng"}],"publisher":"Institute of Science and Technology Austria","page":"108","_id":"20117","author":[{"full_name":"Wang, Yiqun","id":"82F537F2-B517-11E9-84D7-6433E6697425","first_name":"Yiqun","last_name":"Wang"}],"ddc":["580"],"has_accepted_license":"1","date_updated":"2026-09-03T22:30:04Z","article_processing_charge":"No","title":"The role of dynamin related protein 2A in cytokinin regulated plant growth and development","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"18063"}]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file_date_updated":"2026-09-03T22:30:03Z","month":"08","doi":"10.15479/AT-ISTA-20117","status":"public","date_published":"2025-08-04T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"EvBe"}],"supervisor":[{"first_name":"Eva","last_name":"Benková","full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"alternative_title":["ISTA Thesis"]},{"has_accepted_license":"1","date_updated":"2026-08-26T22:30:03Z","article_processing_charge":"No","title":"Unraveling the role of Pten in cortical stem cell lineage progression using MADM","related_material":{"record":[{"status":"public","id":"17425","relation":"part_of_dissertation"}]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file_date_updated":"2026-08-26T22:30:02Z","_id":"20212","ddc":["570"],"author":[{"id":"862A3C56-A8BF-11E9-B4FA-D9E3E5697425","orcid":"0000-0001-6618-6889","full_name":"Miranda, Osvaldo","last_name":"Miranda","first_name":"Osvaldo"}],"keyword":["Pten","mtor","cortical development","MADM","Mapk"],"date_published":"2025-08-22T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"SiHi"}],"alternative_title":["ISTA Thesis"],"supervisor":[{"first_name":"Simon","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061","id":"37B36620-F248-11E8-B48F-1D18A9856A87"}],"month":"08","doi":"10.15479/AT-ISTA-20212","status":"public","date_created":"2025-08-22T14:07:00Z","oa_version":"Published Version","type":"dissertation","fulldoi":"https://doi.org/10.15479/AT-ISTA-20212","oa":1,"acknowledgement":"I would also like to\r\nthank the Austrian Academy of Sciences for awarding me a 2-year DOC fellowship\r\n(DOC26253).","citation":{"ista":"Miranda O. 2025. Unraveling the role of Pten in cortical stem cell lineage progression using MADM. Institute of Science and Technology Austria.","apa":"Miranda, O. (2025). <i>Unraveling the role of Pten in cortical stem cell lineage progression using MADM</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20212\">https://doi.org/10.15479/AT-ISTA-20212</a>","ieee":"O. Miranda, “Unraveling the role of Pten in cortical stem cell lineage progression using MADM,” Institute of Science and Technology Austria, 2025.","mla":"Miranda, Osvaldo. <i>Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression Using MADM</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20212\">10.15479/AT-ISTA-20212</a>.","ama":"Miranda O. Unraveling the role of Pten in cortical stem cell lineage progression using MADM. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20212\">10.15479/AT-ISTA-20212</a>","short":"O. Miranda, Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression Using MADM, Institute of Science and Technology Austria, 2025.","chicago":"Miranda, Osvaldo. “Unraveling the Role of Pten in Cortical Stem Cell Lineage Progression Using MADM.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20212\">https://doi.org/10.15479/AT-ISTA-20212</a>."},"publication_status":"published","project":[{"_id":"34c9fbcb-11ca-11ed-8bc3-98fa5658610d","grant_number":"26253","name":"Molecular Mechanisms Regulating Cortical Neural Stem Cell Lineage Progression and Astrocyte Development"}],"OA_place":"publisher","degree_awarded":"PhD","language":[{"iso":"eng"}],"publisher":"Institute of Science and Technology Austria","page":"119","publication_identifier":{"isbn":["978-3-99078-063-3"],"issn":["2663-337X"]},"corr_author":"1","year":"2025","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"day":"22","file":[{"file_name":"2025_MirandaRomero_OsvaldoAntonio_Thesis.docx","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":32887334,"checksum":"3331f76bbef74ff4908e2d2c9262045c","file_id":"20230","creator":"omiranda","embargo_to":"open_access","access_level":"closed","date_created":"2025-08-26T09:03:50Z","relation":"source_file","date_updated":"2026-08-26T22:30:02Z"},{"checksum":"02509d50cff8e35c5bcbf71e8d658176","file_id":"20231","creator":"omiranda","access_level":"open_access","date_updated":"2026-08-26T22:30:02Z","relation":"main_file","date_created":"2025-08-26T09:05:55Z","embargo":"2026-08-26","content_type":"application/pdf","file_name":"2025_MirandaRomero_OsvaldoAntonio_Thesis.pdf","file_size":28636240}]},{"author":[{"first_name":"Marwan N","last_name":"Elkrewi","orcid":"0000-0002-5328-7231","full_name":"Elkrewi, Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425"}],"ddc":["570","576"],"_id":"19386","file_date_updated":"2026-03-26T23:30:03Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","related_material":{"record":[{"status":"public","id":"12248","relation":"part_of_dissertation"},{"status":"public","relation":"part_of_dissertation","id":"10767"},{"status":"public","relation":"part_of_dissertation","id":"15009"},{"id":"14613","relation":"part_of_dissertation","status":"public"},{"relation":"part_of_dissertation","id":"17890","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"10167"}]},"title":"Evolution of sex chromosomes, sex determination and asexuality in Artemia brine shrimp","article_processing_charge":"No","date_updated":"2026-07-06T13:48:33Z","has_accepted_license":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","doi":"10.15479/AT-ISTA-19386","OA_embargo":"12","month":"03","supervisor":[{"last_name":"Vicoso","first_name":"Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306"}],"alternative_title":["ISTA Thesis"],"department":[{"_id":"GradSch"},{"_id":"BeVi"}],"date_published":"2025-03-14T00:00:00Z","project":[{"name":"The highjacking of meiosis for asexual reproduction","grant_number":"F8810","_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396"}],"publication_status":"published","citation":{"apa":"Elkrewi, M. N. (2025). <i>Evolution of sex chromosomes, sex determination and asexuality in Artemia brine shrimp</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19386\">https://doi.org/10.15479/AT-ISTA-19386</a>","ista":"Elkrewi MN. 2025. Evolution of sex chromosomes, sex determination and asexuality in Artemia brine shrimp. Institute of Science and Technology Austria.","ieee":"M. N. Elkrewi, “Evolution of sex chromosomes, sex determination and asexuality in Artemia brine shrimp,” Institute of Science and Technology Austria, 2025.","ama":"Elkrewi MN. Evolution of sex chromosomes, sex determination and asexuality in Artemia brine shrimp. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19386\">10.15479/AT-ISTA-19386</a>","mla":"Elkrewi, Marwan N. <i>Evolution of Sex Chromosomes, Sex Determination and Asexuality in Artemia Brine Shrimp</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19386\">10.15479/AT-ISTA-19386</a>.","chicago":"Elkrewi, Marwan N. “Evolution of Sex Chromosomes, Sex Determination and Asexuality in Artemia Brine Shrimp.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19386\">https://doi.org/10.15479/AT-ISTA-19386</a>.","short":"M.N. Elkrewi, Evolution of Sex Chromosomes, Sex Determination and Asexuality in Artemia Brine Shrimp, Institute of Science and Technology Austria, 2025."},"acknowledgement":"My PhD work was funded by the Austrian science fund (FWF), as part of the SFB Meiosis consortium (https://sfbmeiosis.org/, grant ID FWF SFB F88-10).","oa":1,"fulldoi":"https://doi.org/10.15479/AT-ISTA-19386","type":"dissertation","oa_version":"Published Version","date_created":"2025-03-11T12:54:31Z","file":[{"access_level":"closed","embargo_to":"open_access","relation":"source_file","date_updated":"2026-03-26T23:30:03Z","date_created":"2025-03-26T07:06:56Z","file_id":"19462","creator":"melkrewi","checksum":"5549a8216c07e4c39281648912d72246","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"Thesis_Marwan_Elkrewi.docx","file_size":25019680},{"access_level":"open_access","date_created":"2025-03-26T07:06:22Z","relation":"main_file","date_updated":"2026-03-26T23:30:03Z","checksum":"aed2ba9965aa89b3414deae1ae9f4321","file_id":"19463","creator":"melkrewi","file_name":"Thesis_Marwan_Elkrewi.pdf","embargo":"2026-03-26","content_type":"application/pdf","file_size":17294844}],"day":"14","acknowledged_ssus":[{"_id":"ScienComp"}],"year":"2025","corr_author":"1","publication_identifier":{"eissn":["2663-337X"],"isbn":["9783990780534"]},"publisher":"Institute of Science and Technology Austria","page":"170","language":[{"iso":"eng"}],"degree_awarded":"PhD","OA_place":"publisher","abstract":[{"lang":"eng","text":"Crustaceans are a large group of arthropods with a great diversity of species and\r\ndifferent types of sex determination systems and reproductive modes (Subramoniam, 2017).\r\nThis makes them a great model for exploring the evolution of sex chromosomes and sexual\r\ndimorphism and investigating the evolutionary mechanisms driving and maintaining the\r\ndiversity of reproductive systems. Within this taxon, Brine shrimp of the genus Artemia, a\r\nbranchiopod crustacean, are well suited for such explorations, as they have both highly\r\ndimorphic traits and closely related sexual and asexual species. Although brine shrimp are\r\nknown to have ZW sex chromosomes (Bowen, 1963; Parraguez et al., 2009), the sex\r\nchromosomes are still not well characterized at the genomic level, the sex-determination gene\r\nis unknown, and it is still unclear whether the same sex chromosomes as shared by the\r\ndifferent species.\r\nThe first part of this thesis was to characterize the Z and W chromosomes in Artemia\r\nusing an array of methods, from generating multiple chromosome and contig level genome\r\nassemblies to identifying W-linked scaffolds and transcripts in multiple species using k-mer\r\nbased approaches.\r\nThe second part tackles the conservation of the cell type specific regulatory pathways\r\nin the female reproductive system between Artemia and Drosophila, and the expression of the\r\nZ-specific region throughout meiosis using single-nucleus RNA-seq data. Our results show\r\nthat germline cells lack dosage compensation, with a subset of cells showing evidence of\r\nextreme repression of the Z chromosome.\r\nWith multiple sexual species and several asexual lineages of parthenogenetic females\r\nthat produce rare males at low frequencies, Brine shrimp present the perfect opportunity to\r\nexplore the transition to asexuality and shed light on the prerequisites and repercussions of\r\nthe form of modified meiosis maintaining the asexual lineages. The last chapter is an\r\ninvestigation of the molecular pathways involved in asexual reproduction in Artemia using\r\nnewly generated single nucleus RNAseq and WGS data and previously published data. "}]},{"title":"Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry","article_processing_charge":"No","date_updated":"2026-07-24T08:07:28Z","has_accepted_license":"1","tmp":{"image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"file_date_updated":"2026-06-15T22:30:03Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","related_material":{"record":[{"relation":"part_of_dissertation","id":"14759","status":"public"}]},"_id":"20798","author":[{"first_name":"Sebastian","last_name":"Wald","full_name":"Wald, Sebastian","orcid":"0000-0002-5869-1604","id":"133F200A-B015-11E9-AD41-0EDAE5697425"}],"ddc":["530"],"keyword":["entanglement-enhanced atom interferometry","cavity QED","spin-squeezing","dipole trap","quantum optics"],"supervisor":[{"full_name":"Hosten, Onur","orcid":"0000-0002-2031-204X","id":"4C02D85E-F248-11E8-B48F-1D18A9856A87","first_name":"Onur","last_name":"Hosten"}],"alternative_title":["ISTA Thesis"],"department":[{"_id":"GradSch"},{"_id":"OnHo"}],"date_published":"2025-12-11T00:00:00Z","OA_embargo":"6","month":"12","status":"public","doi":"10.15479/AT-ISTA-20798","date_created":"2025-12-11T11:48:11Z","oa":1,"fulldoi":"https://doi.org/10.15479/AT-ISTA-20798","type":"dissertation","oa_version":"Published Version","publication_status":"published","citation":{"ieee":"S. Wald, “Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry,” Institute of Science and Technology Austria, 2025.","ista":"Wald S. 2025. Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry. Institute of Science and Technology Austria.","apa":"Wald, S. (2025). <i>Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20798\">https://doi.org/10.15479/AT-ISTA-20798</a>","short":"S. Wald, Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom Interferometry, Institute of Science and Technology Austria, 2025.","chicago":"Wald, Sebastian. “Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom Interferometry.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20798\">https://doi.org/10.15479/AT-ISTA-20798</a>.","ama":"Wald S. Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20798\">10.15479/AT-ISTA-20798</a>","mla":"Wald, Sebastian. <i>Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom Interferometry</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20798\">10.15479/AT-ISTA-20798</a>."},"degree_awarded":"PhD","das_tickbox":"1","OA_place":"publisher","abstract":[{"lang":"eng","text":"Atom interferometers measure the relative phase shifts between coherent matter-wave paths\r\nthat arise from interactions with external fields or inertial forces. Due to their exceptional\r\nphase sensitivity, atom interferometers became an essential tool for precision measurements\r\nand fundamental physics experiments, finding applications in geodesy, gravimetry, and inertial\r\nnavigation. However, their measurement precision is limited by quantum projection noise,\r\nwhich arises from the Heisenberg uncertainty principle, preventing the measurement of atomic\r\nstates with absolute precision. The generation of entanglement between the atoms offers a\r\npath to surpass this so-called standard quantum limit, thereby enhancing the interferometer’s\r\nphase sensitivity beyond classical measurement bounds.\r\nThis thesis reports on the development of an atom interferometer experiment designed to\r\nrealize cavity-mediated, squeezed Mach-Zehnder-type interferometry with ultra-cold 87Rb atoms.\r\nThe experiment combines cavity-aided spin-squeezing with cavity-mediated Mach-Zehnder\r\ninterferometry to demonstrate entanglement-enhanced phase sensitivity. The experiment is\r\ncentered on a triangular optical cavity that mediates all relevant atom-light interactions. The\r\ncavity provides optical trapping, spin-squeezing, and Raman beam-splitter operations, enabling\r\nto perform interferometry on a continuously trapped atomic ensemble.\r\nThe thesis elaborates on the fundamental theoretical framework, the cavity design, and the full\r\noptical setup, including the detailed configuration of the developed laser stabilization methods.\r\nExperimentally, continuous loading methods were explored, resulting in an accumulation of\r\nup to 4 × 106\r\natoms in the dipole trap within a cycle time of 500 ms. The AC Stark shift\r\ncompensation method developed for continuous loading was further applied for in-trap cooling\r\nto 10 µK, and optical pumping for efficient atomic state preparation. Coherent state control\r\nwas verified via observation of microwave-driven Rabi oscillations, and used to characterize\r\natom-cavity coupling.\r\nThese presented results establish the experimental groundwork for the future development of\r\ncavity-mediated, entanglement-enhanced Mach-Zehnder-type atom interferometry."}],"page":"152","publisher":"Institute of Science and Technology Austria","language":[{"iso":"eng"}],"doi_confirm":"1","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-075-6"]},"file":[{"file_name":"2025_Wald_Sebastian_Thesis.pdf","content_type":"application/pdf","embargo":"2026-06-15","file_size":47536855,"access_level":"open_access","date_created":"2025-12-12T11:53:42Z","relation":"main_file","date_updated":"2026-06-15T22:30:03Z","checksum":"1be72faf529a5e8a2d03cb3d5f808b77","creator":"swald","file_id":"20809"},{"file_id":"20810","creator":"swald","checksum":"8c3a1904dceb4bcd04bc9f14b2594bab","relation":"source_file","date_updated":"2026-06-15T22:30:03Z","date_created":"2025-12-12T11:54:55Z","access_level":"closed","embargo_to":"open_access","file_size":40127601,"content_type":"application/x-zip-compressed","file_name":"2025_Wald_Sebastian_Thesis.zip"}],"day":"11","corr_author":"1","license":"https://creativecommons.org/licenses/by-nc/4.0/","year":"2025"},{"type":"journal_article","oa_version":"Published Version","oa":1,"intvolume":"        45","fulldoi":"https://doi.org/10.1523/JNEUROSCI.1767-23.2024","issue":"13","date_created":"2025-04-06T22:01:32Z","acknowledgement":"P.L. is a research associate of the Belgian National Fund for Scientific Research (FRS-FNRS). K.S., M.S.-G., S.S., and P.L. are supported by grants from the FRS-FNRS. This work was supported by an Advanced ERC Grant (269058 ACMO) to M.D.B. We thank the team of Alexander Gottschalk for the snn-1(S9A) strain. We thank the Imaging Facility of the Faculty of Medicine (LiMiF) of the Universite Libre de Bruxelles, supported by FRS-FNRS. This work made use of instruments in the Electron Microscopy Core of the University of Illinois Chicago Research Resources Center as well as the BioCryo facility of Northwestern University's NUANCE Center, which has received support from the SHyNE Resource (NSF ECCS-2025633), the IIN, and Northwestern's MRSEC program (NSF DMR-2308691). Some strains were provided by the CGC, which is funded by NIH Office of Research Infrastructure Programs (P40 OD010440).","pmid":1,"publication_status":"published","citation":{"apa":"Stratigi, A., Soler-García, M., Krout, M., Shukla, S., de Bono, M., Richmond, J. E., &#38; Laurent, P. (2025). Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans. <i>Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1767-23.2024\">https://doi.org/10.1523/JNEUROSCI.1767-23.2024</a>","ista":"Stratigi A, Soler-García M, Krout M, Shukla S, de Bono M, Richmond JE, Laurent P. 2025. Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans. Journal of Neuroscience. 45(13), e1767232024.","ieee":"A. Stratigi <i>et al.</i>, “Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans,” <i>Journal of Neuroscience</i>, vol. 45, no. 13. Society for Neuroscience, 2025.","chicago":"Stratigi, Aikaterini, Miguel Soler-García, Mia Krout, Shikha Shukla, Mario de Bono, Janet E. Richmond, and Patrick Laurent. “Neuroendocrine Control of Synaptic Transmission by PHAC-1 in C. Elegans.” <i>Journal of Neuroscience</i>. Society for Neuroscience, 2025. <a href=\"https://doi.org/10.1523/JNEUROSCI.1767-23.2024\">https://doi.org/10.1523/JNEUROSCI.1767-23.2024</a>.","short":"A. Stratigi, M. Soler-García, M. Krout, S. Shukla, M. de Bono, J.E. Richmond, P. Laurent, Journal of Neuroscience 45 (2025).","ama":"Stratigi A, Soler-García M, Krout M, et al. Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans. <i>Journal of Neuroscience</i>. 2025;45(13). doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1767-23.2024\">10.1523/JNEUROSCI.1767-23.2024</a>","mla":"Stratigi, Aikaterini, et al. “Neuroendocrine Control of Synaptic Transmission by PHAC-1 in C. Elegans.” <i>Journal of Neuroscience</i>, vol. 45, no. 13, e1767232024, Society for Neuroscience, 2025, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1767-23.2024\">10.1523/JNEUROSCI.1767-23.2024</a>."},"publisher":"Society for Neuroscience","language":[{"iso":"eng"}],"OA_place":"publisher","article_number":"e1767232024","abstract":[{"text":"A dynamic interplay between fast synaptic signals and slower neuromodulatory signals controls the excitatory/inhibitory (E/I) balance within neuronal circuits. The mechanisms by which neuropeptide signaling is regulated to maintain E/I balance remain uncertain. We designed a genetic screen to isolate genes involved in the peptidergic maintenance of the E/I balance in the C. elegans motor circuit. This screen identified the C. elegans orthologs of the presynaptic phosphoprotein synapsin (snn-1) and the protein phosphatase 1 (PP1) regulatory subunit PHACTR1 (phac-1). We demonstrate that both phac-1 and snn-1 alter the motor behavior of C. elegans, and genetic interactions suggest that SNN-1 contributes to PP1-PHAC-1 holoenzyme signaling. De novo variants of human PHACTR1, associated with early-onset epilepsies [developmental and epileptic encephalopathy 70 (DEE70)], when expressed in C. elegans resulted in constitutive PP1-PHAC-1 holoenzyme activity. Unregulated PP1-PHAC-1 signaling alters the synapsin and actin cytoskeleton and increases neuropeptide release by cholinergic motor neurons, which secondarily affects the presynaptic vesicle cycle. Together, these results clarify the dominant mechanisms of action of the DEE70 alleles and suggest that altered neuropeptide release may alter E/I balance in DEE70.","lang":"eng"}],"day":"26","year":"2025","file":[{"date_updated":"2025-09-27T22:30:02Z","relation":"main_file","date_created":"2025-04-07T11:57:19Z","access_level":"open_access","file_id":"19525","checksum":"7befc0168f4cd5bd2b0fcff9e2a94784","creator":"dernst","file_size":3111735,"content_type":"application/pdf","embargo":"2025-09-27","file_name":"2025_JourNeuroscience_Stratigi.pdf"}],"publication_identifier":{"eissn":["1529-2401"],"issn":["0270-6474"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["001460952700001"],"pmid":["39919830"]},"file_date_updated":"2025-09-27T22:30:02Z","has_accepted_license":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"title":"Neuroendocrine control of synaptic transmission by PHAC-1 in C. elegans","article_processing_charge":"No","date_updated":"2026-07-28T11:30:41Z","ddc":["570"],"author":[{"full_name":"Stratigi, Aikaterini","last_name":"Stratigi","first_name":"Aikaterini"},{"full_name":"Soler-García, Miguel","first_name":"Miguel","last_name":"Soler-García"},{"full_name":"Krout, Mia","last_name":"Krout","first_name":"Mia"},{"last_name":"Shukla","first_name":"Shikha","full_name":"Shukla, Shikha"},{"id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8347-0443","full_name":"De Bono, Mario","last_name":"De Bono","first_name":"Mario"},{"last_name":"Richmond","first_name":"Janet E.","full_name":"Richmond, Janet E."},{"full_name":"Laurent, Patrick","last_name":"Laurent","first_name":"Patrick"}],"isi":1,"OA_type":"hybrid","volume":45,"scopus_import":"1","_id":"19498","date_published":"2025-03-26T00:00:00Z","article_type":"original","department":[{"_id":"MaDe"}],"status":"public","doi":"10.1523/JNEUROSCI.1767-23.2024","quality_controlled":"1","OA_embargo":"6 months","month":"03","publication":"Journal of Neuroscience"},{"author":[{"id":"3770C838-F248-11E8-B48F-1D18A9856A87","full_name":"Arnold, Georg M","orcid":"0000-0003-1397-7876","last_name":"Arnold","first_name":"Georg M"}],"ddc":["530"],"_id":"18871","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"6609","relation":"part_of_dissertation","status":"public"},{"id":"8529","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"18953"},{"id":"10924","relation":"part_of_dissertation","status":"public"},{"id":"9114","relation":"part_of_dissertation","status":"public"},{"id":"13200","relation":"part_of_dissertation","status":"public"}]},"file_date_updated":"2026-01-29T23:30:03Z","has_accepted_license":"1","tmp":{"short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)"},"title":"Microwave-optic interconnects for superconducting circuits","article_processing_charge":"No","date_updated":"2026-04-16T12:20:43Z","status":"public","doi":"10.15479/at:ista:18871","month":"01","date_published":"2025-01-24T00:00:00Z","supervisor":[{"last_name":"Fink","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X"}],"alternative_title":["ISTA Thesis"],"department":[{"_id":"JoFi"},{"_id":"GradSch"}],"ec_funded":1,"project":[{"_id":"26336814-B435-11E9-9278-68D0E5697425","grant_number":"758053","name":"A Fiber Optic Transceiver for Superconducting Qubits","call_identifier":"H2020"},{"call_identifier":"H2020","_id":"9B868D20-BA93-11EA-9121-9846C619BF3A","grant_number":"899354","name":"Quantum Local Area Networks with Superconducting Qubits"},{"_id":"2671EB66-B435-11E9-9278-68D0E5697425","name":"Coherent on-chip conversion of superconducting qubit signals from microwaves to optical frequencies"},{"_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f","grant_number":"F07105","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits"}],"acknowledgement":"This work was supported by the European Research Council under grant agreement no. 758053\r\n(ERC StG QUNNECT) and the European Union’s Horizon 2020 research, innovation program\r\nunder grant agreement no. 899354 (FETopen SuperQuLAN) and the Austrian Science Fund\r\n(FWF) through BeyondC (F7105). I want to acknowledge generous support from the Austrian\r\nAcademy of Sciences from a DOC [Doctoral program of the Austrian Academy of Sciences]\r\nfellowship (no. 25129).\r\n","publication_status":"published","citation":{"ieee":"G. M. Arnold, “Microwave-optic interconnects for superconducting circuits,” Institute of Science and Technology Austria, 2025.","ista":"Arnold GM. 2025. Microwave-optic interconnects for superconducting circuits. Institute of Science and Technology Austria.","apa":"Arnold, G. M. (2025). <i>Microwave-optic interconnects for superconducting circuits</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:18871\">https://doi.org/10.15479/at:ista:18871</a>","chicago":"Arnold, Georg M. “Microwave-Optic Interconnects for Superconducting Circuits.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/at:ista:18871\">https://doi.org/10.15479/at:ista:18871</a>.","short":"G.M. Arnold, Microwave-Optic Interconnects for Superconducting Circuits, Institute of Science and Technology Austria, 2025.","mla":"Arnold, Georg M. <i>Microwave-Optic Interconnects for Superconducting Circuits</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/at:ista:18871\">10.15479/at:ista:18871</a>.","ama":"Arnold GM. Microwave-optic interconnects for superconducting circuits. 2025. doi:<a href=\"https://doi.org/10.15479/at:ista:18871\">10.15479/at:ista:18871</a>"},"type":"dissertation","oa_version":"Published Version","oa":1,"fulldoi":"https://doi.org/10.15479/at:ista:18871","date_created":"2025-01-24T10:28:39Z","acknowledged_ssus":[{"_id":"SSU"},{"_id":"M-Shop"},{"_id":"NanoFab"}],"day":"24","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","year":"2025","corr_author":"1","file":[{"file_size":18856130,"content_type":"application/x-zip-compressed","file_name":"tex for upload.zip","date_updated":"2026-01-29T23:30:03Z","relation":"source_file","date_created":"2025-01-29T08:38:08Z","access_level":"closed","embargo_to":"open_access","creator":"cchlebak","checksum":"71872702e8f46c275eaea44efc4d304f","file_id":"18946"},{"date_updated":"2026-01-29T23:30:03Z","relation":"main_file","date_created":"2025-01-29T08:38:34Z","access_level":"open_access","checksum":"dfaa06591970f4bff163705802fad56d","file_id":"18947","creator":"cchlebak","file_size":17344760,"embargo":"2026-01-29","content_type":"application/pdf","file_name":"ISTThesisGA2022_final.pdf"}],"publication_identifier":{"issn":["2663-337X"]},"page":"135","publisher":"Institute of Science and Technology Austria","language":[{"iso":"eng"}],"OA_place":"publisher","abstract":[{"lang":"eng","text":"\"Can we do this with a new type of computer - a quantum computer?\". This famous\r\nquotation of the brilliant Richard Feynman within a conference talk on \"Simulating physics\r\nwith computers.” is often reverently praised as the origin of the field of quantum computing.\r\nThe idea was to use quantum mechanical systems itself to simulate \"Nature\", which is\r\ninherently quantum mechanical. Now, 43 years later, the theoretical framework of how such\r\na computer can operate has been developed. Two main important concepts for a potential\r\nquantum supremacy, superposition and entanglement, have been exploited to design quantum\r\nalgorithms to significantly speed up certain tasks. Yet, the specific hardware implementation\r\nis still far from being certain, in fact the race between the most promising platforms such as\r\nsuperconducting qubits, bosonic codes, cold atoms, trapped ions, optical computing as well\r\nas spin qubits has recently intensified. If one also includes the most mature applications of\r\nquantum communication technologies, secure quantum key distribution and quantum random\r\nnumber generators, as part of a quantum information technology ecosystem, we are confronted\r\nwith a plethora of different materials, concepts, and also operation frequencies. While\r\nsuperconducting qubits, bosonic codes and spin qubits work in the regime of approximately 5\r\nGHz and are controlled by electrical fields, trapped ions, cold atoms, and optical quantum\r\ncomputing operate with light in the infrared or visible range.\r\nConsequently, a quantum frequency converter or microwave-optic transducer is required\r\nto interface the different frequency domains or establish a long-range network connection\r\nwith suitable telecom fibers. In fact, the combination of different frequency regimes is also\r\nan essential part in our classical modern communication network, where computations are\r\nperformed in electrical circuits and the information exchange over longer distances happens\r\nvia optical fibers. However, the specific challenges specific to building a quantum computer,\r\nalso apply to the development of such a quantum frequency transducer: 1) As we deal with\r\nsingle excitations as the carrier of information, i.e. the smallest possible quantity, the signal\r\ncan easily be corrupted by other noise sources which needs to be avoided by all means. This\r\nis also the reason why microwave quantum computers operate at temperature environments\r\nclose to zero temperature (< 0.1 Kelvin) to avoid corruption by thermal noise. 2) The\r\nfrequency interface generally needs to preserve the phase of the signal as an essential part\r\nof the quantum state. And 3) Quantum signals cannot be copied which would be a typical\r\nstrategy to account for errors in classical computers. And finally, there is a challenge specific to\r\nmicrowave-optic transducers: While quantum computers are operating in one specific frequency\r\ndomain, microwave-optic transducers combine microwave and optical fields in one device.\r\nThis results in the particular challenge that high-energy optical radiation, which is usually\r\nwell-shielded from superconducting microwave quantum processors, are now an essential part\r\nof the device. The concomitant optical radiation in the operating transducer will inevitably\r\nhave a detrimental effect on the superconducting microwave components. Together with the\r\nrequirement of minimal background noise for quantum-limited operation as described above,\r\nv\r\nheating from the absorption of optical photons within the same device where single microwave\r\nexcitations are processed forms a formidable challenge.\r\nThis thesis aims to address this challenge by developing microwave-optic transducers where\r\nthe impact of optical absorption on superconducting circuits in general and superconducting\r\nqubits specifically can be mitigated. In our first approach, we developed a compact device\r\nwith optimized interaction strengths between the different frequency domains. This minimizes\r\nthe optical powers used for transducer operation and thus the optical absorption heating. This\r\nwork was - to the best of our knowledge - the first comprehensive noise study, in an integrated\r\nmicrowave-optic transducer. Unfortunately, we saw that the optical absorption heating added\r\nnoise way above a single excitation. Consequently, a potential quantum signal would have\r\nbeen buried in the noise, added by the transduction.\r\nBuilding on this insight, we utilized a three-dimensional microwave-optic transducer instead\r\nof an integrated device. The larger heat capacity of the macroscopic device with a size\r\nof a few millimeters can absorb a larger fraction of the optical heating before it increases\r\nthe temperature of the device. This allowed us to interface the transducer directly with a\r\nsuperconducting qubit to readout the qubit state in a novel all-optical manner. We showed\r\nthat the microwave-optic transducer can be operated in a regime in which optical fields don’t\r\nharm the sensitive qubit. This is an important prerequisite for the operation of microwave-optic\r\ntransducers in conjunction with microwave quantum processors and brings the integration and\r\nseamless orchestration of different frequency components in a quantum network a step closer.\r\n"}],"degree_awarded":"PhD"},{"month":"05","OA_embargo":"6","doi":"10.15479/AT-ISTA-19745","status":"public","ec_funded":1,"date_published":"2025-05-27T00:00:00Z","department":[{"_id":"MiSi"},{"_id":"GradSch"}],"supervisor":[{"first_name":"Michael K","last_name":"Sixt","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"alternative_title":["ISTA Thesis"],"_id":"19745","author":[{"orcid":"0000-0002-8518-5926","full_name":"Canigova, Nikola","id":"3795523E-F248-11E8-B48F-1D18A9856A87","first_name":"Nikola","last_name":"Canigova"}],"ddc":["570"],"has_accepted_license":"1","date_updated":"2026-06-18T17:34:48Z","title":"Adaptive strategies of dendritic cell migration in response to environmental cues","article_processing_charge":"No","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","related_material":{"record":[{"id":"14274","relation":"part_of_dissertation","status":"public"}]},"file_date_updated":"2025-11-27T23:30:02Z","publication_identifier":{"isbn":["978-3-99078-058-9"],"issn":["2663-337X"]},"corr_author":"1","year":"2025","day":"27","file":[{"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"NikolaCanigova_Thesis_final.docx","file_size":103879193,"access_level":"closed","embargo_to":"open_access","relation":"source_file","date_updated":"2025-11-27T23:30:02Z","date_created":"2025-05-28T07:38:17Z","creator":"cchlebak","file_id":"19748","checksum":"1a2d1525d19347fbb879ef57c02951bf"},{"file_name":"NikolaCanigova_Thesis_final_PDFA2a_fixed.pdf","content_type":"application/pdf","embargo":"2025-11-27","file_size":194530600,"access_level":"open_access","date_created":"2025-05-28T07:39:53Z","date_updated":"2025-11-27T23:30:02Z","relation":"main_file","checksum":"c1d8f9a40a8e19fcf895373f4b773a46","file_id":"19749","creator":"cchlebak"}],"abstract":[{"text":"Cell migration is a crucial process in animal development and maintenance. It is incredibly\r\nheterogeneous, with different cell types utilizing fundamentally distinct migration strategies.\r\nThe strategies also depend on the cellular microenvironment, where cells can switch between\r\nmigration modes as they encounter new environmental cues. In this thesis, we investigated\r\nhow dendritic cells adapt their migration strategy when encountering geometrically,\r\nmechanically and chemically distinct environments.\r\nWhen dendritic cells are embedded in a homogeneous fibrous network, they migrate in a fast\r\nand directional amoeboid manner. In this migration strategy, extracellular proteolysis and\r\nintegrin-mediated adhesions are dispensable. Instead, the cells use topography of the\r\nenvironment to propel their cell body forward. To migrate efficiently in the maze of different\r\npore sizes, they position the nucleus ahead of the microtubule organizing center (MTOC) and\r\nuse it to gauge the pores to identify the path of least resistance. Our aim was to identify\r\nwhether dendritic cells adapt their migration strategy when encountering asymmetrical\r\ntransitions into much denser environments with limited choice of large pores. In such invasive\r\ntransitions it is unclear if the cells can cross tight pores without the use of adhesions and\r\nextracellular proteolysis and whether they maintain the nucleus in the cell front.\r\nUsing various cell migration assays such as fibrous 3D collagen gels, geometrically defined\r\nmicrochannels with constrictions and simplistic under agarose migration assay, we provide\r\na comprehensive characterization of invasive migration of dendritic cells. We show that\r\nduring invasion the cells stall and stretch, reflecting the difficulty to translocate the bulky cell\r\nbody into the dense environment. In collagen gels, we show that dendritic cells can invade\r\nwithout proteolysis and adhesions. Instead, they utilize contractility, which can lead to largescale collagen compressions. During invasion, the nucleus stalls at tight constrictions, leading\r\nto a transient organelle reorientation. To resolve the stalling, upregulated rear contractility is\r\nrequired. This contractile force is simultaneously necessary for reverting the nucleus back to\r\nthe cell front after invasion and maintaining this positioning during permissive migration.\r\nA functional role of the reorientation was uncovered in the first collaboration project.\r\nA prominent central actin pool was identified around the MTOC, especially pronounced in\r\ndense and compressive environments. The actin pool was shown to generate pushing forces\r\nto dilate the space for cell translocation. These forces are only necessary in non-permissive\r\nenvironments, where the nucleus reorients to the cell rear, allowing the actin pool to\r\ngenerate space. In permissive environments where space generation is dispensable, the\r\nMTOC is located behind the nucleus and the actin cloud has reduced intensity, allowing more\r\nactin to be incorporated into the lamellipodium, speeding up migration.\r\nIn the second collaboration project, we investigated the effects of distinct chemical\r\nenvironments on dendritic cell migration. The strikingly persistent migration of these cells\r\nwas explained by their ability to modulate and even self-generate chemokine gradients. This\r\nallows the cells to migrate faster and more persistent in uniform chemokine fields compared\r\nto imposed chemokine gradients. The chemokine receptor CCR7 was identified as a crucial\r\nplayer in this process, both sensing the signal and internalizing the chemokine to create a sink.","lang":"eng"}],"OA_place":"publisher","degree_awarded":"PhD","language":[{"iso":"eng"}],"publisher":"Institute of Science and Technology Austria","page":"133","acknowledgement":"This project has received funding from the Austrian Science Fund (FWF) via the doctorate\r\ncollege DK NanoCell and from the European Union’s Horizon 2020 research and innovation\r\nprogramme under the Marie Skłodowska-Curie Grant Agreement No. 665385.\r\n","citation":{"ieee":"N. Canigova, “Adaptive strategies of dendritic cell migration in response to environmental cues,” Institute of Science and Technology Austria, 2025.","ista":"Canigova N. 2025. Adaptive strategies of dendritic cell migration in response to environmental cues. Institute of Science and Technology Austria.","apa":"Canigova, N. (2025). <i>Adaptive strategies of dendritic cell migration in response to environmental cues</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19745\">https://doi.org/10.15479/AT-ISTA-19745</a>","short":"N. Canigova, Adaptive Strategies of Dendritic Cell Migration in Response to Environmental Cues, Institute of Science and Technology Austria, 2025.","chicago":"Canigova, Nikola. “Adaptive Strategies of Dendritic Cell Migration in Response to Environmental Cues.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19745\">https://doi.org/10.15479/AT-ISTA-19745</a>.","mla":"Canigova, Nikola. <i>Adaptive Strategies of Dendritic Cell Migration in Response to Environmental Cues</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19745\">10.15479/AT-ISTA-19745</a>.","ama":"Canigova N. Adaptive strategies of dendritic cell migration in response to environmental cues. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19745\">10.15479/AT-ISTA-19745</a>"},"publication_status":"published","project":[{"call_identifier":"H2020","grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"name":"Nano-Analytics of Cellular Systems","grant_number":"W01250-B20","_id":"265E2996-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"date_created":"2025-05-26T08:49:00Z","oa_version":"Published Version","type":"dissertation","fulldoi":"https://doi.org/10.15479/AT-ISTA-19745","oa":1},{"ec_funded":1,"date_published":"2025-03-04T00:00:00Z","department":[{"_id":"GradSch"},{"_id":"RySh"}],"alternative_title":["ISTA Thesis"],"supervisor":[{"id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444","last_name":"Shigemoto","first_name":"Ryuichi"}],"month":"03","doi":"10.15479/AT-ISTA-19271","status":"public","tmp":{"image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"has_accepted_license":"1","date_updated":"2026-04-07T12:40:42Z","article_processing_charge":"No","title":"Asymmetrical modulation of fear expression via GABAB receptors in the mouse medial habenula","related_material":{"record":[{"id":"9437","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"15084"}]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file_date_updated":"2026-02-01T23:30:02Z","_id":"19271","author":[{"last_name":"Önal","first_name":"Hüseyin C","id":"4659D740-F248-11E8-B48F-1D18A9856A87","full_name":"Önal, Hüseyin C","orcid":"0000-0002-2771-2011"}],"ddc":["570","571","573","599"],"abstract":[{"text":"The medial habenula (MHb) is implicated in regulating emotional responses\r\nto aversive events. Studies in zebrafish have identified a remarkable morphological\r\nleft-right asymmetry in the dorsal habenula (zebrafish equivalent of mammalian\r\nMHb)-to-interpeduncular nucleus (IPN) pathway and its left-side specific role in\r\nmodulating fear responses. However, there is little evidence for structural or\r\nfunctional lateralization in the mammalian MHb-IPN pathway.\r\nHere, I investigated the synaptic properties of the left and right MHb\r\nafferents to the IPN in mice and addressed whether these synaptic connections\r\nselectively influence the expression of conditioned fear in mice. My findings reveal\r\nthat each individual IPN neuron receives inputs from both left and right MHb.\r\nElectrophysiological recordings from the same postsynaptic IPN neurons\r\ndemonstrate that the left MHb-originating synapses exhibit lower release\r\nprobability and higher 𝛾-aminobutyric acid type B receptor (GABABR)-mediated\r\npotentiation compared to the right MHb-originating synapses. Interestingly,\r\nchemogenetic inhibition of cholinergic neurons in the left but not the right MHb\r\nsignificantly attenuated cue-dependent fear recall. Furthermore, conditional\r\ndeletion of GABABR in the left MHb interfered with the recall of cued fear memory,\r\nwhereas that in the right MHb neurons spared fear memory expression.\r\nCollectively, I demonstrate a functional asymmetry of the MHb in mice,\r\nrevealing a predominant role for GABABR-mediated signaling in the left MHb-IPN\r\npathway in the modulation of fear memories. These findings suggest that\r\nlateralized pathways could represent a fundamental principle in the neural\r\nregulation of emotion across species.","lang":"eng"}],"OA_place":"publisher","degree_awarded":"PhD","language":[{"iso":"eng"}],"publisher":"Institute of Science and Technology Austria","publication_identifier":{"eissn":["2663-337X"]},"corr_author":"1","year":"2025","acknowledged_ssus":[{"_id":"PreCl"},{"_id":"M-Shop"}],"day":"04","file":[{"file_name":"Cihan_Onal_Thesis_Final.docx","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":25869143,"embargo_to":"open_access","access_level":"closed","date_created":"2025-02-28T13:57:01Z","date_updated":"2026-02-01T23:30:02Z","relation":"source_file","file_id":"19272","creator":"hoenal","checksum":"c1a4d75a7471de9f954697b06cd18d28"},{"access_level":"open_access","date_updated":"2026-02-01T23:30:02Z","relation":"main_file","date_created":"2025-02-28T13:57:04Z","checksum":"de4e62147ab9f04098dc8cd898c630da","creator":"hoenal","file_id":"19273","embargo":"2026-02-01","content_type":"application/pdf","file_name":"Cihan_Onal_Thesis_Final_pdfa.pdf","file_size":12077596}],"date_created":"2025-02-28T14:15:53Z","oa_version":"Published Version","type":"dissertation","fulldoi":"https://doi.org/10.15479/AT-ISTA-19271","oa":1,"acknowledgement":"I would like to thank the European Research Council and European Commission, under the European Union’s Horizon 2020 research and innovation program (ERC grant agreement no. 694539 to Ryuichi Shigemoto and the Marie Skłodowska-Curie grant agreement no. 665385 to Cihan Önal), and the Austrian Neuroscience Association for providing financial support and opportunities, which were important in allowing me to present my work. I also wish to thank the\r\nPreclinical Facility, especially Michael Schunn, for always welcoming me from my earliest days as an intern. My gratitude goes as well to the Miba Machine Shop, in particular Todor Asenov, Astrit Arslani, and Thomas Menner, whose technical expertise often saved the day.","citation":{"chicago":"Önal, Cihan. “Asymmetrical Modulation of Fear Expression via GABAB Receptors in the Mouse Medial Habenula.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19271\">https://doi.org/10.15479/AT-ISTA-19271</a>.","short":"C. Önal, Asymmetrical Modulation of Fear Expression via GABAB Receptors in the Mouse Medial Habenula, Institute of Science and Technology Austria, 2025.","ama":"Önal C. Asymmetrical modulation of fear expression via GABAB receptors in the mouse medial habenula. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19271\">10.15479/AT-ISTA-19271</a>","mla":"Önal, Cihan. <i>Asymmetrical Modulation of Fear Expression via GABAB Receptors in the Mouse Medial Habenula</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19271\">10.15479/AT-ISTA-19271</a>.","apa":"Önal, C. (2025). <i>Asymmetrical modulation of fear expression via GABAB receptors in the mouse medial habenula</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19271\">https://doi.org/10.15479/AT-ISTA-19271</a>","ista":"Önal C. 2025. Asymmetrical modulation of fear expression via GABAB receptors in the mouse medial habenula. Institute of Science and Technology Austria.","ieee":"C. Önal, “Asymmetrical modulation of fear expression via GABAB receptors in the mouse medial habenula,” Institute of Science and Technology Austria, 2025."},"publication_status":"published","project":[{"call_identifier":"H2020","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","grant_number":"694539","_id":"25CA28EA-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"International IST Doctoral Program","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}]},{"status":"public","doi":"10.15479/10.15479/AT-ISTA-19431","month":"03","alternative_title":["ISTA Thesis"],"supervisor":[{"first_name":"Carrie A","last_name":"Bernecky","full_name":"Bernecky, Carrie A","orcid":"0000-0003-0893-7036","id":"2CB9DFE2-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"GradSch"},{"_id":"CaBe"}],"date_published":"2025-03-20T00:00:00Z","author":[{"first_name":"Annamaria","last_name":"Hlavata","full_name":"Hlavata, Annamaria","id":"36062FEC-F248-11E8-B48F-1D18A9856A87"}],"ddc":["572"],"_id":"19431","file_date_updated":"2026-03-20T23:30:04Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"Regulation of Cytoplasmic RNA Polymerase II","article_processing_charge":"No","date_updated":"2026-04-07T11:46:32Z","has_accepted_license":"1","file":[{"date_updated":"2026-03-20T23:30:04Z","relation":"source_file","date_created":"2025-03-24T12:48:36Z","access_level":"closed","embargo_to":"open_access","creator":"ahlavata","file_id":"19448","checksum":"b7ddf424ffe95f8c767c53c8bb62d4f3","file_size":23506747,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"PhD_Thesis_Hlavata_final_submission.docx"},{"content_type":"application/pdf","embargo":"2026-03-20","file_name":"PhD_Thesis_Hlavata_final_submission_update.pdf","file_size":9478591,"access_level":"open_access","relation":"main_file","date_updated":"2026-03-20T23:30:04Z","date_created":"2025-03-24T12:51:10Z","checksum":"6c5a59c9bac467c3d0b3ffb8ea6d9fd4","file_id":"19449","creator":"ahlavata"}],"day":"20","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"EM-Fac"},{"_id":"ScienComp"}],"corr_author":"1","year":"2025","publication_identifier":{"eissn":["2663-337X"],"isbn":["978-3-99078-055-8"]},"publisher":"Institute of Science and Technology Austria","page":"83","language":[{"iso":"eng"}],"degree_awarded":"PhD","OA_place":"publisher","abstract":[{"lang":"eng","text":"Gene expression is crucial for cell differentiation, development and survival of\r\norganisms. It consists of several steps, starting with transcription that is mediated by\r\nRNA polymerases. These are protein machineries transcribing and producing different\r\ntypes of RNAs. Although, the individual steps of transcription by RNA polymerase II\r\n(Pol II) as well as the structure of Pol II has been extensively studied, surprisingly,\r\nthere is still little known about its regulation and assembly in cytoplasm. Among the\r\nproteins that are important in biogenesis of Pol II are RNA polymerase II associating\r\nproteins (RPAP) and small GPN-loop GTPases (GPN). Both of these protein groups\r\nwere shown to take essential part in assembly of Pol II.\r\nThe aim of this project was to deepen our knowledge in regulation of Pol II in\r\nthe cytoplasm as well as the proteins involved in this process. Techniques of structural\r\nbiology, biochemistry and cell biology were employed to study and characterize cytoplasmic Pol II and its interacting partners.\r\nThis study shows for the first time the structure of cytoplasmic Pol II at high\r\nresolution. The structure also reveals proteins interacting with Pol II in cytoplasm,\r\nnamely GDOWN1, RPAP2. Comparing the structure of cytoplasmic Pol II with transcribing Pol II revealed striking difference in clamp region that is not in closed state.\r\nFurthermore, GDOWN1 and RPAP2 make steric clashes with various transcription\r\nfactors bound to Pol II during different stages of transcription. Even though GPN1 and\r\nGPN3 proteins were not resolved in the cytoplasmic Pol II structure, they are part of\r\nthe complex and their interaction with Pol II was confirmed in vitro. RPAP2 stabilizes\r\nthese proteins on Pol II and several experiments suggest that they interact with the\r\nclamp region. In addition, GDOWN1, RPAP2 and GPNs might keep clamp in open or\r\npartially open state. Based on these results I propose a novel model of regulation of\r\nPol II in cytoplasm. GDOWN1, RPAP2, GPN1 and GPN3 bind to Pol II in cytoplasm\r\nand doing so they can prevent pre-mature binding of DNA or RNA and different transcription factors to Pol II in cytoplasm or before engaging in transcription nucleus.\r\nThis research contributes to the current knowledge of molecular mechanisms\r\nof Pol II regulation in cytoplasm."}],"publication_status":"published","citation":{"ista":"Hlavata A. 2025. Regulation of Cytoplasmic RNA Polymerase II. Institute of Science and Technology Austria.","apa":"Hlavata, A. (2025). <i>Regulation of Cytoplasmic RNA Polymerase II</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/10.15479/AT-ISTA-19431\">https://doi.org/10.15479/10.15479/AT-ISTA-19431</a>","ieee":"A. Hlavata, “Regulation of Cytoplasmic RNA Polymerase II,” Institute of Science and Technology Austria, 2025.","short":"A. Hlavata, Regulation of Cytoplasmic RNA Polymerase II, Institute of Science and Technology Austria, 2025.","chicago":"Hlavata, Annamaria. “Regulation of Cytoplasmic RNA Polymerase II.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/10.15479/AT-ISTA-19431\">https://doi.org/10.15479/10.15479/AT-ISTA-19431</a>.","mla":"Hlavata, Annamaria. <i>Regulation of Cytoplasmic RNA Polymerase II</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/10.15479/AT-ISTA-19431\">10.15479/10.15479/AT-ISTA-19431</a>.","ama":"Hlavata A. Regulation of Cytoplasmic RNA Polymerase II. 2025. doi:<a href=\"https://doi.org/10.15479/10.15479/AT-ISTA-19431\">10.15479/10.15479/AT-ISTA-19431</a>"},"acknowledgement":"I would also like to acknowledge the ISTA Facilities: Lab Support Facility, Protein Services and Electron Microscopy Facility (EMF) and Scientific Computing. EMF for their support during data collections and troubleshooting, especially Valentin. Scientific Computing for solving quickly any issues related with cluster.","oa":1,"fulldoi":"https://doi.org/10.15479/10.15479/AT-ISTA-19431","type":"dissertation","oa_version":"Published Version","date_created":"2025-03-20T12:52:47Z"},{"publisher":"Institute of Science and Technology Austria","page":"85","language":[{"iso":"eng"}],"degree_awarded":"PhD","abstract":[{"lang":"eng","text":"Social interaction networks of insect colonies facilitate efficient information exchange and\r\ndemonstrate adaptive changes to mitigate disease transmission. While circadian rhythms\r\ninfluence individual behaviour, their role in shaping colony-level defences against pathogens\r\nremains unexplored. Here, we investigate whether social networks of the black garden ant,\r\nLasius niger, exhibit circadian rhythms and how these rhythms influence disease vulnerability\r\nwhen colonies are exposed to a pathogen during the day or the night.\r\nWe first establish baseline daily variations in activity and network dynamics in pathogen-free\r\ncolonies, revealing constitutive daily fluctuations in disease susceptibility. Subsequently, we\r\nexamine pathogen-induced changes in sanitary care and network dynamics by exposing\r\nforagers to a natural pathogen (Metarhizium brunneum) during either the day or the night.\r\nIndividual pathogen loads were measured after a nine-hour post-exposure period to evaluate\r\ntransmission outcomes.\r\nOur results demonstrate that diurnal ant colonies maintain robust circadian patterns in network\r\nproperties while flexibly adapting to pathogen exposure. Ants upregulate sanitary care\r\nirrespective of exposure timing, prioritising the protection of the valuable colony centre\r\nconsisting of nurses and the queen. These findings underscore the robustness and adaptability\r\nof ant colonies in balancing circadian rhythms with effective social immune responses."}],"file":[{"file_name":"Thesis_Linda_Sartoris.docx","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":7129583,"file_id":"19310","creator":"lsartori","checksum":"7e9466dcf3681454211b74b5107e9f7b","embargo_to":"open_access","access_level":"closed","date_created":"2025-03-07T10:16:11Z","relation":"source_file","date_updated":"2026-02-23T23:30:03Z"},{"creator":"lsartori","checksum":"2ccfcf32f0590bb0ec1a488e606a73f5","file_id":"19384","embargo_to":"open_access","description":"for printing purposes only","access_level":"closed","date_created":"2025-03-11T10:42:20Z","date_updated":"2026-03-02T23:31:13Z","relation":"other","file_name":"thesis_Sartoris_for_print.pdf","content_type":"application/pdf","file_size":3199703},{"file_name":"Thesis_Linda_Sartoris.pdf","embargo":"2026-02-23","content_type":"application/pdf","file_size":3183186,"creator":"lsartori","checksum":"1d1f3c1279065b1a7f407ff6d1ee1503","file_id":"19385","access_level":"open_access","date_created":"2025-03-11T10:52:00Z","date_updated":"2026-02-23T23:30:03Z","relation":"main_file"}],"acknowledged_ssus":[{"_id":"LifeSc"}],"day":"24","year":"2025","corr_author":"1","publication_identifier":{"eissn":["2663-337X"]},"oa":1,"fulldoi":"https://doi.org/10.15479/AT-ISTA-19302","type":"dissertation","oa_version":"Published Version","date_created":"2025-03-06T12:16:54Z","project":[{"call_identifier":"H2020","name":"Epidemics in ant societies on a chip","grant_number":"771402","_id":"2649B4DE-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","citation":{"mla":"Sartoris, Linda. <i>The Effect of Circadian Rhythm on Organisational Immunity of Ant Colonies</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19302\">10.15479/AT-ISTA-19302</a>.","ama":"Sartoris L. The effect of circadian rhythm on organisational immunity of ant colonies. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19302\">10.15479/AT-ISTA-19302</a>","chicago":"Sartoris, Linda. “The Effect of Circadian Rhythm on Organisational Immunity of Ant Colonies.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19302\">https://doi.org/10.15479/AT-ISTA-19302</a>.","short":"L. Sartoris, The Effect of Circadian Rhythm on Organisational Immunity of Ant Colonies, Institute of Science and Technology Austria, 2025.","apa":"Sartoris, L. (2025). <i>The effect of circadian rhythm on organisational immunity of ant colonies</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19302\">https://doi.org/10.15479/AT-ISTA-19302</a>","ista":"Sartoris L. 2025. The effect of circadian rhythm on organisational immunity of ant colonies. Institute of Science and Technology Austria.","ieee":"L. Sartoris, “The effect of circadian rhythm on organisational immunity of ant colonies,” Institute of Science and Technology Austria, 2025."},"acknowledgement":"Thank you to the Lab Support Facility at ISTA. Thank you to the European Research Council (ERC) for their funding under the European Union’s Horizon 2020 research and innovation program (ERC Consolidator Grant EPIDEMICSonCHIP, No. 771402, to Sylvia Cremer, and ERC Starting Grant DISEASE, No. 802628, to Nathalie Stroeymeyt).","supervisor":[{"id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2193-3868","full_name":"Cremer, Sylvia","last_name":"Cremer","first_name":"Sylvia"}],"alternative_title":["ISTA Thesis"],"department":[{"_id":"GradSch"},{"_id":"SyCr"}],"date_published":"2025-02-24T00:00:00Z","ec_funded":1,"status":"public","doi":"10.15479/AT-ISTA-19302","month":"02","file_date_updated":"2026-03-02T23:31:13Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","title":"The effect of circadian rhythm on organisational immunity of ant colonies","article_processing_charge":"No","date_updated":"2026-03-02T23:31:14Z","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"ddc":["577"],"author":[{"id":"2B9284CA-F248-11E8-B48F-1D18A9856A87","full_name":"Sartoris, Linda","last_name":"Sartoris","first_name":"Linda"}],"_id":"19302","OA_type":"closed access"}]