[{"type":"conference","publication_status":"published","main_file_link":[{"open_access":"1","url":"https://hal.archives-ouvertes.fr/hal-02860087/document"}],"language":[{"iso":"eng"}],"scopus_import":"1","day":"31","quality_controlled":"1","abstract":[{"lang":"eng","text":"We present the first deterministic wait-free long-lived snapshot algorithm, using only read and write operations, that guarantees polylogarithmic amortized step complexity in all executions. This is the first non-blocking snapshot algorithm, using reads and writes only, that has sub-linear amortized step complexity in executions of arbitrary length. The key to our construction is a novel implementation of a 2-component max array object which may be of independent interest."}],"oa":1,"date_created":"2020-09-13T22:01:17Z","fulldoi":"https://doi.org/10.1145/3382734.3406005","conference":{"location":"Virtual, Italy","start_date":"2020-08-03","end_date":"2020-08-07","name":"PODC: Principles of Distributed Computing"},"external_id":{"isi":["001436693500004"]},"_id":"8382","doi":"10.1145/3382734.3406005","month":"07","article_processing_charge":"No","publication_identifier":{"isbn":["9781450375825"]},"year":"2020","title":"Long-lived snapshots with polylogarithmic amortized step complexity","isi":1,"citation":{"mla":"Baig, Mirza Ahad, et al. “Long-Lived Snapshots with Polylogarithmic Amortized Step Complexity.” <i>Proceedings of the 39th Symposium on Principles of Distributed Computing</i>, Association for Computing Machinery, 2020, pp. 31–40, doi:<a href=\"https://doi.org/10.1145/3382734.3406005\">10.1145/3382734.3406005</a>.","apa":"Baig, M. A., Hendler, D., Milani, A., &#38; Travers, C. (2020). Long-lived snapshots with polylogarithmic amortized step complexity. In <i>Proceedings of the 39th Symposium on Principles of Distributed Computing</i> (pp. 31–40). Virtual, Italy: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3382734.3406005\">https://doi.org/10.1145/3382734.3406005</a>","ieee":"M. A. Baig, D. Hendler, A. Milani, and C. Travers, “Long-lived snapshots with polylogarithmic amortized step complexity,” in <i>Proceedings of the 39th Symposium on Principles of Distributed Computing</i>, Virtual, Italy, 2020, pp. 31–40.","short":"M.A. Baig, D. Hendler, A. Milani, C. Travers, in:, Proceedings of the 39th Symposium on Principles of Distributed Computing, Association for Computing Machinery, 2020, pp. 31–40.","chicago":"Baig, Mirza Ahad, Danny Hendler, Alessia Milani, and Corentin Travers. “Long-Lived Snapshots with Polylogarithmic Amortized Step Complexity.” In <i>Proceedings of the 39th Symposium on Principles of Distributed Computing</i>, 31–40. Association for Computing Machinery, 2020. <a href=\"https://doi.org/10.1145/3382734.3406005\">https://doi.org/10.1145/3382734.3406005</a>.","ama":"Baig MA, Hendler D, Milani A, Travers C. Long-lived snapshots with polylogarithmic amortized step complexity. In: <i>Proceedings of the 39th Symposium on Principles of Distributed Computing</i>. Association for Computing Machinery; 2020:31-40. doi:<a href=\"https://doi.org/10.1145/3382734.3406005\">10.1145/3382734.3406005</a>","ista":"Baig MA, Hendler D, Milani A, Travers C. 2020. Long-lived snapshots with polylogarithmic amortized step complexity. Proceedings of the 39th Symposium on Principles of Distributed Computing. PODC: Principles of Distributed Computing, 31–40."},"publication":"Proceedings of the 39th Symposium on Principles of Distributed Computing","status":"public","publisher":"Association for Computing Machinery","author":[{"full_name":"Baig, Mirza Ahad","id":"3EDE6DE4-AA5A-11E9-986D-341CE6697425","last_name":"Baig","first_name":"Mirza Ahad"},{"full_name":"Hendler, Danny","last_name":"Hendler","first_name":"Danny"},{"last_name":"Milani","first_name":"Alessia","full_name":"Milani, Alessia"},{"full_name":"Travers, Corentin","first_name":"Corentin","last_name":"Travers"}],"page":"31-40","date_updated":"2026-07-28T09:50:30Z","date_published":"2020-07-31T00:00:00Z","department":[{"_id":"GradSch"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","das_tickbox":"1","oa_version":"Preprint"},{"day":"25","project":[{"_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668","call_identifier":"FP7","name":"Provable Security for Physical Cryptography"},{"grant_number":"682815","call_identifier":"H2020","name":"Teaching Old Crypto New Tricks","_id":"258AA5B2-B435-11E9-9278-68D0E5697425"}],"oa":1,"abstract":[{"lang":"eng","text":"A search problem lies in the complexity class FNP if a solution to the given instance of the problem can be verified efficiently. The complexity class TFNP consists of all search problems in FNP that are total in the sense that a solution is guaranteed to exist. TFNP contains a host of interesting problems from fields such as algorithmic game theory, computational topology, number theory and combinatorics. Since TFNP is a semantic class, it is unlikely to have a complete problem. Instead, one studies its syntactic subclasses which are defined based on the combinatorial principle used to argue totality. Of particular interest is the subclass PPAD, which contains important problems\r\nlike computing Nash equilibrium for bimatrix games and computational counterparts of several fixed-point theorems as complete. In the thesis, we undertake the study of averagecase hardness of TFNP, and in particular its subclass PPAD.\r\nAlmost nothing was known about average-case hardness of PPAD before a series of recent results showed how to achieve it using a cryptographic primitive called program obfuscation.\r\nHowever, it is currently not known how to construct program obfuscation from standard cryptographic assumptions. Therefore, it is desirable to relax the assumption under which average-case hardness of PPAD can be shown. In the thesis we take a step in this direction. First, we show that assuming the (average-case) hardness of a numbertheoretic\r\nproblem related to factoring of integers, which we call Iterated-Squaring, PPAD is hard-on-average in the random-oracle model. Then we strengthen this result to show that the average-case hardness of PPAD reduces to the (adaptive) soundness of the Fiat-Shamir Transform, a well-known technique used to compile a public-coin interactive protocol into a non-interactive one. As a corollary, we obtain average-case hardness for PPAD in the random-oracle model assuming the worst-case hardness of #SAT. Moreover, the above results can all be strengthened to obtain average-case hardness for the class CLS ⊆ PPAD.\r\nOur main technical contribution is constructing incrementally-verifiable procedures for computing Iterated-Squaring and #SAT. By incrementally-verifiable, we mean that every intermediate state of the computation includes a proof of its correctness, and the proof can be updated and verified in polynomial time. Previous constructions of such procedures relied on strong, non-standard assumptions. Instead, we introduce a technique called recursive proof-merging to obtain the same from weaker assumptions. "}],"date_created":"2020-05-26T14:08:55Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:7896","degree_awarded":"PhD","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"type":"dissertation","publication_status":"published","file_date_updated":"2020-07-14T12:48:04Z","alternative_title":["ISTA Thesis"],"OA_place":"publisher","language":[{"iso":"eng"}],"citation":{"chicago":"Kamath Hosdurg, Chethan. “On the Average-Case Hardness of Total Search Problems.” Institute of Science and Technology Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7896\">https://doi.org/10.15479/AT:ISTA:7896</a>.","ama":"Kamath Hosdurg C. On the average-case hardness of total search problems. 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7896\">10.15479/AT:ISTA:7896</a>","ista":"Kamath Hosdurg C. 2020. On the average-case hardness of total search problems. Institute of Science and Technology Austria.","apa":"Kamath Hosdurg, C. (2020). <i>On the average-case hardness of total search problems</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7896\">https://doi.org/10.15479/AT:ISTA:7896</a>","short":"C. Kamath Hosdurg, On the Average-Case Hardness of Total Search Problems, Institute of Science and Technology Austria, 2020.","ieee":"C. Kamath Hosdurg, “On the average-case hardness of total search problems,” Institute of Science and Technology Austria, 2020.","mla":"Kamath Hosdurg, Chethan. <i>On the Average-Case Hardness of Total Search Problems</i>. Institute of Science and Technology Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7896\">10.15479/AT:ISTA:7896</a>."},"supervisor":[{"orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof Z","last_name":"Pietrzak"}],"status":"public","author":[{"orcid":"0009-0006-6812-7317","full_name":"Kamath Hosdurg, Chethan","id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87","first_name":"Chethan","last_name":"Kamath Hosdurg"}],"page":"126","date_updated":"2026-07-30T13:43:53Z","ec_funded":1,"publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","date_published":"2020-05-25T00:00:00Z","doi_confirm":"1","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["000"],"department":[{"_id":"KrPi"},{"_id":"GradSch"}],"oa_version":"Published Version","file":[{"date_created":"2020-05-26T14:08:13Z","content_type":"application/pdf","file_id":"7897","access_level":"open_access","creator":"dernst","checksum":"b39e2e1c376f5819b823fb7077491c64","date_updated":"2020-07-14T12:48:04Z","relation":"main_file","file_size":1622742,"file_name":"2020_Thesis_Kamath.pdf"},{"access_level":"closed","date_created":"2020-05-26T14:08:23Z","file_id":"7898","content_type":"application/x-zip-compressed","relation":"source_file","file_size":15301529,"file_name":"Thesis_Kamath.zip","date_updated":"2020-07-14T12:48:04Z","creator":"dernst","checksum":"8b26ba729c1a85ac6bea775f5d73cdc7"}],"_id":"7896","month":"05","doi":"10.15479/AT:ISTA:7896","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","corr_author":"1","year":"2020","title":"On the average-case hardness of total search problems","related_material":{"record":[{"relation":"part_of_dissertation","id":"6677","status":"public"}]}},{"OA_place":"publisher","OA_type":"hybrid","language":[{"iso":"eng"}],"volume":3,"publication_status":"published","type":"conference","file_date_updated":"2021-11-12T11:41:56Z","oa":1,"abstract":[{"lang":"eng","text":"The verification of concurrent programs remains an open challenge, as thread interaction has to be accounted for, which leads to state-space explosion. Stateless model checking battles this problem by exploring traces rather than states of the program. As there are exponentially many traces, dynamic partial-order reduction (DPOR) techniques are used to partition the trace space into equivalence classes, and explore a few representatives from each class. The standard equivalence that underlies most DPOR techniques is the happens-before equivalence, however recent works have spawned a vivid interest towards coarser equivalences. The efficiency of such approaches is a product of two parameters: (i) the size of the partitioning induced by the equivalence, and (ii) the time spent by the exploration algorithm in each class of the partitioning. In this work, we present a new equivalence, called value-happens-before and show that it has two appealing features. First, value-happens-before is always at least as coarse as the happens-before equivalence, and can be even exponentially coarser. Second, the value-happens-before partitioning is efficiently explorable when the number of threads is bounded. We present an algorithm called value-centric DPOR (VCDPOR), which explores the underlying partitioning using polynomial time per class. Finally, we perform an experimental evaluation of VCDPOR on various benchmarks, and compare it against other state-of-the-art approaches. Our results show that value-happens-before typically induces a significant reduction in the size of the underlying partitioning, which leads to a considerable reduction in the running time for exploring the whole partitioning."}],"conference":{"start_date":"2019-10-23","location":"Athens, Greece","name":"OOPSLA: Object-oriented Programming, Systems, Languages and Applications","end_date":"2019-10-25"},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"article_number":"124","fulldoi":"https://doi.org/10.1145/3360550","acknowledgement":"The authors would also like to thank anonymous referees for their valuable comments and helpful suggestions. This work is supported by the Austrian Science Fund (FWF) NFN grants S11407-N23 (RiSE/SHiNE) and S11402-N23 (RiSE/SHiNE), by the Vienna Science and Technology Fund (WWTF) Project ICT15-003, and by the Austrian Science Fund (FWF) Schrodinger grant J-4220.\r\n","date_created":"2021-10-27T14:57:06Z","day":"10","scopus_import":"1","quality_controlled":"1","project":[{"_id":"25892FC0-B435-11E9-9278-68D0E5697425","grant_number":"ICT15-003","name":"Efficient Algorithms for Computer Aided Verification"},{"_id":"25863FF4-B435-11E9-9278-68D0E5697425","grant_number":"S11407","call_identifier":"FWF","name":"Game Theory"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF"},{"grant_number":"S11402-N23","call_identifier":"FWF","name":"Moderne Concurrency Paradigms","_id":"25F5A88A-B435-11E9-9278-68D0E5697425"}],"intvolume":"         3","arxiv":1,"year":"2019","corr_author":"1","title":"Value-centric dynamic partial order reduction","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"10199"}]},"_id":"10190","external_id":{"arxiv":["1909.00989"]},"publication_identifier":{"eissn":["2475-1421"]},"article_processing_charge":"No","month":"10","doi":"10.1145/3360550","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["000"],"department":[{"_id":"GradSch"},{"_id":"KrCh"}],"has_accepted_license":"1","keyword":["safety","risk","reliability and quality","software"],"date_published":"2019-10-10T00:00:00Z","oa_version":"Published Version","file":[{"relation":"main_file","file_size":570829,"file_name":"2019_ACM_Chatterjee.pdf","date_updated":"2021-11-12T11:41:56Z","creator":"cchlebak","checksum":"2149979c46964c4d117af06ccb6c0834","success":1,"access_level":"open_access","date_created":"2021-11-12T11:41:56Z","content_type":"application/pdf","file_id":"10278"}],"publication":"Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications","citation":{"mla":"Chatterjee, Krishnendu, et al. “Value-Centric Dynamic Partial Order Reduction.” <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, vol. 3, 124, ACM, 2019, doi:<a href=\"https://doi.org/10.1145/3360550\">10.1145/3360550</a>.","short":"K. Chatterjee, A. Pavlogiannis, V. Toman, in:, Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications, ACM, 2019.","ieee":"K. Chatterjee, A. Pavlogiannis, and V. Toman, “Value-centric dynamic partial order reduction,” in <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, Athens, Greece, 2019, vol. 3.","apa":"Chatterjee, K., Pavlogiannis, A., &#38; Toman, V. (2019). Value-centric dynamic partial order reduction. In <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i> (Vol. 3). Athens, Greece: ACM. <a href=\"https://doi.org/10.1145/3360550\">https://doi.org/10.1145/3360550</a>","ista":"Chatterjee K, Pavlogiannis A, Toman V. 2019. Value-centric dynamic partial order reduction. Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications. OOPSLA: Object-oriented Programming, Systems, Languages and Applications vol. 3, 124.","ama":"Chatterjee K, Pavlogiannis A, Toman V. Value-centric dynamic partial order reduction. In: <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>. Vol 3. ACM; 2019. doi:<a href=\"https://doi.org/10.1145/3360550\">10.1145/3360550</a>","chicago":"Chatterjee, Krishnendu, Andreas Pavlogiannis, and Viktor Toman. “Value-Centric Dynamic Partial Order Reduction.” In <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, Vol. 3. ACM, 2019. <a href=\"https://doi.org/10.1145/3360550\">https://doi.org/10.1145/3360550</a>."},"author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","last_name":"Chatterjee","first_name":"Krishnendu"},{"last_name":"Pavlogiannis","first_name":"Andreas","full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722","id":"49704004-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Viktor","last_name":"Toman","id":"3AF3DA7C-F248-11E8-B48F-1D18A9856A87","full_name":"Toman, Viktor","orcid":"0000-0001-9036-063X"}],"date_updated":"2026-04-08T07:00:31Z","publisher":"ACM","status":"public"},{"project":[{"call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","grant_number":"338804","_id":"258DCDE6-B435-11E9-9278-68D0E5697425"}],"day":"18","degree_awarded":"PhD","fulldoi":"https://doi.org/10.15479/AT:ISTA:th6179","date_created":"2019-03-28T08:58:59Z","oa":1,"abstract":[{"lang":"eng","text":"In the first part of this thesis we consider large random matrices with arbitrary expectation and a general slowly decaying correlation among its entries. We prove universality of the local eigenvalue statistics and optimal local laws for the resolvent in the bulk and edge regime. The main novel tool is a systematic diagrammatic control of a multivariate cumulant expansion.\r\nIn the second part we consider Wigner-type matrices and show that at any cusp singularity of the limiting eigenvalue distribution the local eigenvalue statistics are uni- versal and form a Pearcey process. Since the density of states typically exhibits only square root or cubic root cusp singularities, our work complements previous results on the bulk and edge universality and it thus completes the resolution of the Wigner- Dyson-Mehta universality conjecture for the last remaining universality type. Our analysis holds not only for exact cusps, but approximate cusps as well, where an ex- tended Pearcey process emerges. As a main technical ingredient we prove an optimal local law at the cusp, and extend the fast relaxation to equilibrium of the Dyson Brow- nian motion to the cusp regime.\r\nIn the third and final part we explore the entrywise linear statistics of Wigner ma- trices and identify the fluctuations for a large class of test functions with little regularity. This enables us to study the rectangular Young diagram obtained from the interlacing eigenvalues of the random matrix and its minor, and we find that, despite having the same limit, the fluctuations differ from those of the algebraic Young tableaux equipped with the Plancharel measure."}],"file_date_updated":"2020-07-14T12:47:21Z","publication_status":"published","type":"dissertation","language":[{"iso":"eng"}],"alternative_title":["ISTA Thesis"],"OA_place":"publisher","page":"375","date_updated":"2026-07-29T13:46:20Z","author":[{"id":"408ED176-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2904-1856","full_name":"Schröder, Dominik J","first_name":"Dominik J","last_name":"Schröder"}],"ec_funded":1,"publisher":"Institute of Science and Technology Austria","status":"public","supervisor":[{"first_name":"László","last_name":"Erdös","orcid":"0000-0001-5366-9603","full_name":"Erdös, László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"}],"citation":{"mla":"Schröder, Dominik J. <i>From Dyson to Pearcey: Universal Statistics in Random Matrix Theory</i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th6179\">10.15479/AT:ISTA:th6179</a>.","short":"D.J. Schröder, From Dyson to Pearcey: Universal Statistics in Random Matrix Theory, Institute of Science and Technology Austria, 2019.","ieee":"D. J. Schröder, “From Dyson to Pearcey: Universal statistics in random matrix theory,” Institute of Science and Technology Austria, 2019.","apa":"Schröder, D. J. (2019). <i>From Dyson to Pearcey: Universal statistics in random matrix theory</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th6179\">https://doi.org/10.15479/AT:ISTA:th6179</a>","ista":"Schröder DJ. 2019. From Dyson to Pearcey: Universal statistics in random matrix theory. Institute of Science and Technology Austria.","ama":"Schröder DJ. From Dyson to Pearcey: Universal statistics in random matrix theory. 2019. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th6179\">10.15479/AT:ISTA:th6179</a>","chicago":"Schröder, Dominik J. “From Dyson to Pearcey: Universal Statistics in Random Matrix Theory.” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/AT:ISTA:th6179\">https://doi.org/10.15479/AT:ISTA:th6179</a>."},"oa_version":"Published Version","file":[{"checksum":"6926f66f28079a81c4937e3764be00fc","creator":"dernst","date_updated":"2020-07-14T12:47:21Z","file_size":7104482,"file_name":"2019_Schroeder_Thesis.tar.gz","relation":"source_file","file_id":"6180","content_type":"application/x-gzip","date_created":"2019-03-28T08:53:52Z","access_level":"closed"},{"date_created":"2019-03-28T08:53:52Z","file_id":"6181","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:47:21Z","creator":"dernst","checksum":"7d0ebb8d1207e89768cdd497a5bf80fb","relation":"main_file","file_size":4228794,"file_name":"2019_Schroeder_Thesis.pdf"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["515","519"],"department":[{"_id":"LaEr"},{"_id":"GradSch"}],"has_accepted_license":"1","date_published":"2019-03-18T00:00:00Z","doi_confirm":"1","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","doi":"10.15479/AT:ISTA:th6179","month":"03","_id":"6179","title":"From Dyson to Pearcey: Universal statistics in random matrix theory","related_material":{"record":[{"status":"public","id":"6184","relation":"part_of_dissertation"},{"status":"public","relation":"part_of_dissertation","id":"6186"},{"status":"public","id":"6185","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"1012","status":"public"},{"id":"1144","relation":"part_of_dissertation","status":"public"},{"status":"public","id":"6182","relation":"part_of_dissertation"}]},"year":"2019","corr_author":"1"},{"date_updated":"2026-04-08T13:56:14Z","page":"89","author":[{"last_name":"Käfer","first_name":"Karola","full_name":"Käfer, Karola","id":"2DAA49AA-F248-11E8-B48F-1D18A9856A87"}],"publisher":"Institute of Science and Technology Austria","status":"public","supervisor":[{"full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","first_name":"Jozsef L","last_name":"Csicsvari"}],"citation":{"ama":"Käfer K. The hippocampus and medial prefrontal cortex during flexible behavior. 2019. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6825\">10.15479/AT:ISTA:6825</a>","ista":"Käfer K. 2019. The hippocampus and medial prefrontal cortex during flexible behavior. Institute of Science and Technology Austria.","chicago":"Käfer, Karola. “The Hippocampus and Medial Prefrontal Cortex during Flexible Behavior.” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/AT:ISTA:6825\">https://doi.org/10.15479/AT:ISTA:6825</a>.","mla":"Käfer, Karola. <i>The Hippocampus and Medial Prefrontal Cortex during Flexible Behavior</i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6825\">10.15479/AT:ISTA:6825</a>.","ieee":"K. Käfer, “The hippocampus and medial prefrontal cortex during flexible behavior,” Institute of Science and Technology Austria, 2019.","short":"K. Käfer, The Hippocampus and Medial Prefrontal Cortex during Flexible Behavior, Institute of Science and Technology Austria, 2019.","apa":"Käfer, K. (2019). <i>The hippocampus and medial prefrontal cortex during flexible behavior</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:6825\">https://doi.org/10.15479/AT:ISTA:6825</a>"},"oa_version":"Published Version","file":[{"date_updated":"2020-09-06T22:30:03Z","creator":"kkaefer","checksum":"2664420e332a33338568f4f3bfc59287","embargo":"2020-09-05","relation":"main_file","file_size":3205202,"file_name":"Thesis_Kaefer_PDFA.pdf","request_a_copy":0,"date_created":"2019-09-03T08:07:13Z","content_type":"application/pdf","file_id":"6846","access_level":"open_access"},{"date_created":"2019-09-03T08:07:17Z","content_type":"application/zip","file_id":"6847","access_level":"closed","date_updated":"2024-04-10T22:30:48Z","creator":"kkaefer","checksum":"9a154eab6f07aa590a3d2651dc0d926a","embargo_to":"open_access","relation":"source_file","file_name":"Thesis_Kaefer.zip","file_size":2506835}],"ddc":["570"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","department":[{"_id":"JoCs"},{"_id":"GradSch"}],"has_accepted_license":"1","date_published":"2019-08-24T00:00:00Z","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","month":"08","doi":"10.15479/AT:ISTA:6825","_id":"6825","title":"The hippocampus and medial prefrontal cortex during flexible behavior","related_material":{"record":[{"status":"public","id":"5949","relation":"part_of_dissertation"}]},"year":"2019","corr_author":"1","day":"24","degree_awarded":"PhD","fulldoi":"https://doi.org/10.15479/AT:ISTA:6825","date_created":"2019-08-21T15:00:57Z","abstract":[{"lang":"eng","text":"The solving of complex tasks requires the functions of more than one brain area and their interaction. Whilst spatial navigation and memory is dependent on the hippocampus, flexible behavior relies on the medial prefrontal cortex (mPFC). To further examine the roles of the hippocampus and mPFC, we recorded their neural activity during a task that depends on both of these brain regions.\r\nWith tetrodes, we recorded the extracellular activity of dorsal hippocampal CA1 (HPC) and mPFC neurons in Long-Evans rats performing a rule-switching task on the plus-maze. The plus-maze task had a spatial component since it required navigation along one of the two start arms and at the maze center a choice between one of the two goal arms. Which goal contained a reward depended on the rule currently in place. After an uncued rule change the animal had to abandon the old strategy and switch to the new rule, testing cognitive flexibility. Investigating the coordination of activity between the HPC and mPFC allows determination during which task stages their interaction is required. Additionally, comparing neural activity patterns in these two brain regions allows delineation of the specialized functions of the HPC and mPFC in this task. We analyzed neural activity in the HPC and mPFC in terms of oscillatory interactions, rule coding and replay.\r\nWe found that theta coherence between the HPC and mPFC is increased at the center and goals of the maze, both when the rule was stable or has changed. Similar results were found for locking of HPC and mPFC neurons to HPC theta oscillations. However, no differences in HPC-mPFC theta coordination were observed between the spatially- and cue-guided rule. Phase locking of HPC and mPFC neurons to HPC gamma oscillations was not modulated by\r\nmaze position or rule type. We found that the HPC coded for the two different rules with cofiring relationships between\r\ncell pairs. However, we could not find conclusive evidence for rule coding in the mPFC. Spatially-selective firing in the mPFC generalized between the two start and two goal arms. With Bayesian positional decoding, we found that the mPFC reactivated non-local positions during awake immobility periods. Replay of these non-local positions could represent entire behavioral trajectories resembling trajectory replay of the HPC. Furthermore, mPFC\r\ntrajectory-replay at the goal positively correlated with rule-switching performance. \r\nFinally, HPC and mPFC trajectory replay occurred independently of each other. These results show that the mPFC can replay ordered patterns of activity during awake immobility, possibly underlying its role in flexible behavior. "}],"oa":1,"file_date_updated":"2024-04-10T22:30:48Z","publication_status":"published","type":"dissertation","language":[{"iso":"eng"}],"OA_place":"publisher","alternative_title":["ISTA Thesis"]},{"file_date_updated":"2021-02-11T11:17:14Z","type":"dissertation","publication_status":"published","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}],"alternative_title":["ISTA Thesis"],"OA_place":"publisher","project":[{"grant_number":"24283","name":"Examination of the role of a MFS transporter in the migration of Drosophila immune cells","_id":"253CDE40-B435-11E9-9278-68D0E5697425"}],"day":"07","date_created":"2019-06-07T12:49:19Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:6546","degree_awarded":"PhD","abstract":[{"text":"Invasive migration plays a crucial role not only during development and homeostasis but also in pathological states, such as tumor metastasis. Drosophila macrophage migration into the extended germband is an interesting system to study invasive migration. It carries similarities to immune cell transmigration and cancer cell invasion, therefore studying this process could also bring new understanding of invasion in higher organisms. In our work, we uncover a highly conserved member of the major facilitator family that plays a role in tissue invasion through regulation of glycosylation on a subgroup of proteins and/or by aiding the precise timing of DN-Cadherin downregulation. \r\n\r\nAberrant display of the truncated core1 O-glycan T-antigen is a common feature of human cancer cells that correlates with metastasis. Here we show that T-antigen in Drosophila melanogaster macrophages is involved in their developmentally programmed tissue invasion. Higher macrophage T-antigen levels require an atypical major facilitator superfamily (MFS) member that we named Minerva which enables macrophage dissemination and invasion. We characterize for the first time the T and Tn glycoform O-glycoproteome of the Drosophila melanogaster embryo, and determine that Minerva increases the presence of T-antigen on proteins in pathways previously linked to cancer, most strongly on the sulfhydryl oxidase Qsox1 which we show is required for macrophage tissue entry. Minerva’s vertebrate ortholog, MFSD1, rescues the minerva mutant’s migration and T-antigen glycosylation defects. We thus identify \r\na key conserved regulator that orchestrates O-glycosylation on a protein subset to activate \r\na program governing migration steps important for both development and cancer metastasis. \r\n","lang":"eng"}],"oa":1,"month":"06","doi":"10.15479/AT:ISTA:6546","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","_id":"6546","title":"The role of a highly conserved major facilitator superfamily member in Drosophila embryonic macrophage migration","related_material":{"record":[{"id":"544","relation":"part_of_dissertation","status":"public"},{"relation":"part_of_dissertation","id":"6187","status":"public"}]},"corr_author":"1","year":"2019","status":"public","author":[{"first_name":"Katarina","last_name":"Valosková","id":"46F146FC-F248-11E8-B48F-1D18A9856A87","full_name":"Valosková, Katarina","orcid":"0000-0002-7926-0221"}],"page":"141","date_updated":"2026-09-03T06:37:27Z","publisher":"Institute of Science and Technology Austria","citation":{"ama":"Valosková K. The role of a highly conserved major facilitator superfamily member in Drosophila embryonic macrophage migration. 2019. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6546\">10.15479/AT:ISTA:6546</a>","ista":"Valosková K. 2019. The role of a highly conserved major facilitator superfamily member in Drosophila embryonic macrophage migration. Institute of Science and Technology Austria.","chicago":"Valosková, Katarina. “The Role of a Highly Conserved Major Facilitator Superfamily Member in Drosophila Embryonic Macrophage Migration.” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/AT:ISTA:6546\">https://doi.org/10.15479/AT:ISTA:6546</a>.","mla":"Valosková, Katarina. <i>The Role of a Highly Conserved Major Facilitator Superfamily Member in Drosophila Embryonic Macrophage Migration</i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6546\">10.15479/AT:ISTA:6546</a>.","short":"K. Valosková, The Role of a Highly Conserved Major Facilitator Superfamily Member in Drosophila Embryonic Macrophage Migration, Institute of Science and Technology Austria, 2019.","ieee":"K. Valosková, “The role of a highly conserved major facilitator superfamily member in Drosophila embryonic macrophage migration,” Institute of Science and Technology Austria, 2019.","apa":"Valosková, K. (2019). <i>The role of a highly conserved major facilitator superfamily member in Drosophila embryonic macrophage migration</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:6546\">https://doi.org/10.15479/AT:ISTA:6546</a>"},"supervisor":[{"first_name":"Daria E","last_name":"Siekhaus","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","full_name":"Siekhaus, Daria E","orcid":"0000-0001-8323-8353"}],"oa_version":"Published Version","file":[{"date_updated":"2020-07-14T12:47:33Z","checksum":"68949c2d96210b45b981a23e9c9cd93c","creator":"khribikova","embargo_to":"open_access","file_size":14110626,"file_name":"Katarina Valoskova_PhD thesis_final version.docx","relation":"source_file","file_id":"6549","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2019-06-07T13:00:04Z","access_level":"closed"},{"file_size":10054156,"file_name":"Katarina Valoskova_PhD thesis_final version.pdf","relation":"main_file","embargo":"2020-06-07","checksum":"555329cd76e196c96f5278c480ee2e6e","creator":"khribikova","date_updated":"2021-02-11T11:17:14Z","access_level":"open_access","file_id":"6550","content_type":"application/pdf","date_created":"2019-06-07T13:00:08Z"}],"has_accepted_license":"1","date_published":"2019-06-07T00:00:00Z","doi_confirm":"1","ddc":["570"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"DaSi"},{"_id":"GradSch"}]},{"supervisor":[{"last_name":"Csicsvari","first_name":"Jozsef L","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5193-4036","full_name":"Csicsvari, Jozsef L"}],"citation":{"chicago":"Rangel Guerrero, Dámaris K. “The Role of CCK-Interneurons in Regulating Hippocampal Network Dynamics.” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/AT:ISTA:6849\">https://doi.org/10.15479/AT:ISTA:6849</a>.","ista":"Rangel Guerrero DK. 2019. The role of CCK-interneurons in regulating hippocampal network dynamics. Institute of Science and Technology Austria.","ama":"Rangel Guerrero DK. The role of CCK-interneurons in regulating hippocampal network dynamics. 2019. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6849\">10.15479/AT:ISTA:6849</a>","mla":"Rangel Guerrero, Dámaris K. <i>The Role of CCK-Interneurons in Regulating Hippocampal Network Dynamics</i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6849\">10.15479/AT:ISTA:6849</a>.","apa":"Rangel Guerrero, D. K. (2019). <i>The role of CCK-interneurons in regulating hippocampal network dynamics</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:6849\">https://doi.org/10.15479/AT:ISTA:6849</a>","short":"D.K. Rangel Guerrero, The Role of CCK-Interneurons in Regulating Hippocampal Network Dynamics, Institute of Science and Technology Austria, 2019.","ieee":"D. K. Rangel Guerrero, “The role of CCK-interneurons in regulating hippocampal network dynamics,” Institute of Science and Technology Austria, 2019."},"publisher":"Institute of Science and Technology Austria","date_updated":"2026-09-03T06:40:36Z","page":"97","author":[{"id":"4871BCE6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8602-4374","full_name":"Rangel Guerrero, Dámaris K","last_name":"Rangel Guerrero","first_name":"Dámaris K"}],"status":"public","department":[{"_id":"JoCs"},{"_id":"GradSch"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["570"],"doi_confirm":"1","date_published":"2019-09-09T00:00:00Z","has_accepted_license":"1","file":[{"embargo_to":"open_access","file_name":"Thesis_Damaris_Rangel_source.docx","file_size":18253100,"relation":"source_file","date_updated":"2021-02-10T23:30:09Z","checksum":"244dc4f74dbfc94f414156092298831f","creator":"drangel","access_level":"closed","file_id":"6865","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2019-09-09T13:09:45Z"},{"embargo":"2020-09-10","file_name":"Thesis_Damaris_Rangel_pdfa.pdf","file_size":2160109,"relation":"main_file","date_updated":"2020-09-11T22:30:04Z","checksum":"59c73be40eeaa1c4db24067270151555","creator":"drangel","access_level":"open_access","request_a_copy":0,"file_id":"6866","content_type":"application/pdf","date_created":"2019-09-09T13:09:52Z"}],"oa_version":"Published Version","_id":"6849","article_processing_charge":"No","publication_identifier":{"isbn":["978-3-99078-003-9"],"issn":["2663-337X"]},"doi":"10.15479/AT:ISTA:6849","month":"09","year":"2019","corr_author":"1","related_material":{"record":[{"status":"public","id":"5914","relation":"part_of_dissertation"}]},"title":"The role of CCK-interneurons in regulating hippocampal network dynamics","day":"09","abstract":[{"text":"Brain function is mediated by complex dynamical interactions between excitatory and inhibitory cell types. The Cholecystokinin-expressing inhibitory cells (CCK-interneurons) are one of the least studied types, despite being suspected to play important roles in cognitive processes. We studied the network effects of optogenetic silencing of CCK-interneurons in the CA1 hippocampal area during exploration and sleep states. The cell firing pattern in response to light pulses allowed us to classify the recorded neurons in 5 classes, including disinhibited and non-responsive pyramidal cell and interneurons, and the inhibited interneurons corresponding to the CCK group. The light application, which inhibited the activity of CCK interneurons triggered wider changes in the firing dynamics of cells. We observed rate changes (i.e. remapping) of pyramidal cells during the exploration session in which the light was applied relative to the previous control session that was not restricted neither in time nor space to the light delivery. Also, the disinhibited pyramidal cells had higher increase in bursting than in single spike firing rate as a result of CCK silencing. In addition, the firing activity patterns during exploratory periods were more weakly reactivated in sleep for those periods in which CCK-interneuron were silenced than in the unaffected periods. Furthermore, light pulses during sleep disrupted the reactivation of recent waking patterns. Hence, silencing CCK neurons during exploration suppressed the reactivation of waking firing patterns in sleep and CCK interneuron activity was also required during sleep for the normal reactivation of waking patterns. These findings demonstrate the involvement of CCK cells in reactivation-related memory consolidation. An important part of our analysis was to test the relationship of the identified CCKinterneurons to brain oscillations. Our findings showed that these cells exhibited different oscillatory behaviour during anaesthesia and natural waking and sleep conditions. We showed that: 1) Contrary to the past studies performed under anaesthesia, the identified CCKinterneurons fired on the descending portion of the theta phase in waking exploration. 2) CCKinterneuron preferred phases around the trough of gamma oscillations. 3) Contrary to anaesthesia conditions, the average firing rate of the CCK-interneurons increased around the peak activity of the sharp-wave ripple (SWR) events in natural sleep, which is congruent with new reports about their functional connectivity. We also found that light driven CCK-interneuron silencing altered the dynamics on the CA1 network oscillatory activity: 1) Pyramidal cells negatively shifted their preferred theta phases when the light was applied, while interneurons responses were less consistent. 2) As a population, pyramidal cells negatively shifted their preferred activity during gamma oscillations, albeit we did not find gamma modulation differences related to the light application when pyramidal cells were subdivided into the disinhibited and unaffected groups. 3) During the peak of SWR events, all but the CCK-interneurons had a reduction in their relative firing rate change during the light application as compared to the change observed at SWR initiation. Finally, regarding to the place field activity of the recorded pyramidal neurons, we showed that the disinhibited pyramidal cells had reduced place field similarity, coherence and spatial information, but only during the light application. The mechanisms behind such observed behaviours might involve eCB signalling and plastic changes in CCK-interneuron synapses. In conclusion, the observed changes related to the light-mediated silencing of CCKinterneurons have unravelled characteristics of this interneuron subpopulation that might change the understanding not only of their particular network interactions, but also of the current theories about the emergence of certain cognitive processes such as place coding needed for navigation or hippocampus-dependent memory consolidation. ","lang":"eng"}],"oa":1,"degree_awarded":"PhD","fulldoi":"https://doi.org/10.15479/AT:ISTA:6849","date_created":"2019-09-06T06:54:16Z","publication_status":"published","type":"dissertation","file_date_updated":"2021-02-10T23:30:09Z","alternative_title":["ISTA Thesis"],"OA_place":"publisher","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"},{"_id":"M-Shop"}],"language":[{"iso":"eng"}]},{"type":"journal_article","publication_status":"published","volume":4,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41420-018-0120-z"}],"extern":"1","pmid":1,"OA_place":"publisher","language":[{"iso":"eng"}],"OA_type":"gold","day":"13","quality_controlled":"1","DOAJ_listed":"1","abstract":[{"text":"Medicinal bioinorganic chemistry is a thriving field of drug research for cancer treatment. Transition metal complexes coordinated to essential biological scaffolds represent a highly promising class of compounds for design of novel target-specific therapeutics. We report here the biological evaluation of a novel Isatin-Schiff base derivative and its Cu(II) complex in several tumor cell lines by assessing their effects on cellular metabolism, real-time cell proliferation and induction of apoptosis. Further, the impact of compounds on the p53 protein and expression of its target genes, including MDM2, p21/CDKN1A, and PUMA was evaluated. Results obtained in this study provide further evidence in support of our prior data suggesting the p53-mediated mechanism of action for Isatin-Schiff base derivatives and their complexes and also shed light on potential use of these compounds for stimulation of apoptosis in breast cancer cells via activation of the pro-apoptotic PUMA gene.","lang":"eng"}],"oa":1,"fulldoi":"https://doi.org/10.1038/s41420-018-0120-z","date_created":"2025-04-11T01:31:42Z","article_number":"103","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"_id":"19544","external_id":{"pmid":["30455989 "]},"doi":"10.1038/s41420-018-0120-z","month":"11","article_processing_charge":"Yes","publication_identifier":{"issn":["2058-7716"]},"year":"2018","intvolume":"         4","title":"Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors","citation":{"ama":"Bulatov E, Sayarova R, Mingaleeva R, et al. Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors. <i>Cell Death Discovery</i>. 2018;4. doi:<a href=\"https://doi.org/10.1038/s41420-018-0120-z\">10.1038/s41420-018-0120-z</a>","ista":"Bulatov E, Sayarova R, Mingaleeva R, Miftakhova R, Gomzikova M, Ignatev I, Petukhov A, Davidovich P, Rizvanov A, Barlev NA. 2018. Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors. Cell Death Discovery. 4, 103.","chicago":"Bulatov, Emil, Regina Sayarova, Rimma Mingaleeva, Regina Miftakhova, Marina Gomzikova, Iurii Ignatev, Alexey Petukhov, Pavel Davidovich, Albert Rizvanov, and Nickolai A. Barlev. “Isatin-Schiff Base-Copper (II) Complex Induces Cell Death in P53-Positive Tumors.” <i>Cell Death Discovery</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1038/s41420-018-0120-z\">https://doi.org/10.1038/s41420-018-0120-z</a>.","mla":"Bulatov, Emil, et al. “Isatin-Schiff Base-Copper (II) Complex Induces Cell Death in P53-Positive Tumors.” <i>Cell Death Discovery</i>, vol. 4, 103, Springer Nature, 2018, doi:<a href=\"https://doi.org/10.1038/s41420-018-0120-z\">10.1038/s41420-018-0120-z</a>.","ieee":"E. Bulatov <i>et al.</i>, “Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors,” <i>Cell Death Discovery</i>, vol. 4. Springer Nature, 2018.","short":"E. Bulatov, R. Sayarova, R. Mingaleeva, R. Miftakhova, M. Gomzikova, I. Ignatev, A. Petukhov, P. Davidovich, A. Rizvanov, N.A. Barlev, Cell Death Discovery 4 (2018).","apa":"Bulatov, E., Sayarova, R., Mingaleeva, R., Miftakhova, R., Gomzikova, M., Ignatev, I., … Barlev, N. A. (2018). Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors. <i>Cell Death Discovery</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41420-018-0120-z\">https://doi.org/10.1038/s41420-018-0120-z</a>"},"publication":"Cell Death Discovery","article_type":"original","status":"public","publisher":"Springer Nature","author":[{"full_name":"Bulatov, Emil","first_name":"Emil","last_name":"Bulatov"},{"first_name":"Regina","last_name":"Sayarova","full_name":"Sayarova, Regina"},{"full_name":"Mingaleeva, Rimma","last_name":"Mingaleeva","first_name":"Rimma"},{"full_name":"Miftakhova, Regina","first_name":"Regina","last_name":"Miftakhova"},{"first_name":"Marina","last_name":"Gomzikova","full_name":"Gomzikova, Marina"},{"id":"2ac71786-dc7d-11ea-9b2f-c5ad4b9faff6","full_name":"Ignatev, Iurii","last_name":"Ignatev","first_name":"Iurii"},{"full_name":"Petukhov, Alexey","last_name":"Petukhov","first_name":"Alexey"},{"last_name":"Davidovich","first_name":"Pavel","full_name":"Davidovich, Pavel"},{"full_name":"Rizvanov, Albert","last_name":"Rizvanov","first_name":"Albert"},{"full_name":"Barlev, Nickolai A.","first_name":"Nickolai A.","last_name":"Barlev"}],"date_updated":"2025-07-10T11:51:52Z","date_published":"2018-11-13T00:00:00Z","has_accepted_license":"1","department":[{"_id":"GradSch"},{"_id":"LoSw"}],"ddc":["570"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version"},{"issue":"10","day":"01","scopus_import":"1","quality_controlled":"1","abstract":[{"text":"The biotrophic pathogen Ustilago maydis, the causative agent of corn smut disease, infects one of the most important crops worldwide – Zea mays. To successfully colonize its host, U. maydis secretes proteins, known as effectors, that suppress plant defense responses and facilitate the establishment of biotrophy. In this work, we describe the U. maydis effector protein Cce1. Cce1 is essential for virulence and is upregulated during infection. Through microscopic analysis and in vitro assays, we show that Cce1 is secreted from hyphae during filamentous growth of the fungus. Strikingly, Δcce1 mutants are blocked at early stages of infection and induce callose deposition as a plant defense response. Cce1 is highly conserved among smut fungi and the Ustilago bromivora ortholog complemented the virulence defect of the SG200Δcce1 deletion strain. These data indicate that Cce1 is a core effector with apoplastic localization that is essential for U. maydis to infect its host.","lang":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"acknowledgement":"the Austrian Science Fund (FWF): [P27429‐B22, P27818‐B22, I 3033‐B22], and the Austrian Academy of Science (OEAW).","fulldoi":"https://doi.org/10.1111/mpp.12698","date_created":"2018-12-11T11:44:39Z","volume":19,"publication_status":"published","type":"journal_article","publist_id":"7950","file_date_updated":"2018-12-18T09:46:00Z","language":[{"iso":"eng"}],"publication":"Molecular Plant Pathology","isi":1,"citation":{"mla":"Seitner, Denise, et al. “The Core Effector Cce1 Is Required for Early Infection of Maize by Ustilago Maydis.” <i>Molecular Plant Pathology</i>, vol. 19, no. 10, Wiley, 2018, pp. 2277–87, doi:<a href=\"https://doi.org/10.1111/mpp.12698\">10.1111/mpp.12698</a>.","apa":"Seitner, D., Uhse, S., Gallei, M. C., &#38; Djamei, A. (2018). The core effector Cce1 is required for early infection of maize by Ustilago maydis. <i>Molecular Plant Pathology</i>. Wiley. <a href=\"https://doi.org/10.1111/mpp.12698\">https://doi.org/10.1111/mpp.12698</a>","short":"D. Seitner, S. Uhse, M.C. Gallei, A. Djamei, Molecular Plant Pathology 19 (2018) 2277–2287.","ieee":"D. Seitner, S. Uhse, M. C. Gallei, and A. Djamei, “The core effector Cce1 is required for early infection of maize by Ustilago maydis,” <i>Molecular Plant Pathology</i>, vol. 19, no. 10. Wiley, pp. 2277–2287, 2018.","chicago":"Seitner, Denise, Simon Uhse, Michelle C Gallei, and Armin Djamei. “The Core Effector Cce1 Is Required for Early Infection of Maize by Ustilago Maydis.” <i>Molecular Plant Pathology</i>. Wiley, 2018. <a href=\"https://doi.org/10.1111/mpp.12698\">https://doi.org/10.1111/mpp.12698</a>.","ama":"Seitner D, Uhse S, Gallei MC, Djamei A. The core effector Cce1 is required for early infection of maize by Ustilago maydis. <i>Molecular Plant Pathology</i>. 2018;19(10):2277-2287. doi:<a href=\"https://doi.org/10.1111/mpp.12698\">10.1111/mpp.12698</a>","ista":"Seitner D, Uhse S, Gallei MC, Djamei A. 2018. The core effector Cce1 is required for early infection of maize by Ustilago maydis. Molecular Plant Pathology. 19(10), 2277–2287."},"publisher":"Wiley","date_updated":"2023-09-19T10:06:42Z","author":[{"full_name":"Seitner, Denise","first_name":"Denise","last_name":"Seitner"},{"full_name":"Uhse, Simon","last_name":"Uhse","first_name":"Simon"},{"id":"35A03822-F248-11E8-B48F-1D18A9856A87","full_name":"Gallei, Michelle C","orcid":"0000-0003-1286-7368","last_name":"Gallei","first_name":"Michelle C"},{"first_name":"Armin","last_name":"Djamei","full_name":"Djamei, Armin"}],"page":"2277 - 2287","status":"public","department":[{"_id":"GradSch"}],"ddc":["580"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_published":"2018-10-01T00:00:00Z","has_accepted_license":"1","file":[{"relation":"main_file","file_name":"2018_MolecPlantPath_Seitner.pdf","file_size":682335,"creator":"dernst","date_updated":"2018-12-18T09:46:00Z","success":1,"access_level":"open_access","date_created":"2018-12-18T09:46:00Z","file_id":"5740","content_type":"application/pdf"}],"oa_version":"Published Version","external_id":{"isi":["000445624100006"]},"_id":"104","article_processing_charge":"No","doi":"10.1111/mpp.12698","month":"10","year":"2018","intvolume":"        19","title":"The core effector Cce1 is required for early infection of maize by Ustilago maydis"},{"day":"01","abstract":[{"text":"A qubit, a unit of quantum information, is essentially any quantum mechanical two-level system which can be coherently controlled. Still, to be used for computation, it has to fulfill criteria. Qubits, regardless of the system in which they are realized, suffer from decoherence. This leads to loss of the information stored in the qubit. The upper bound of the time scale on which decoherence happens is set by the spin relaxation time. In this thesis I studied a two-level system consisting of a Zeeman-split hole spin confined in a quantum dot formed in a Ge hut wire. Such Ge hut wires have emerged as a promising material system for the realization of spin qubits, due to the combination of two significant properties: long spin coherence time as expected for group IV semiconductors due to the low hyperfine interaction and a strong valence band spin-orbit coupling. Here, I present how to fabricate quantum dot devices suitable for electrical transport measurements. Coupled quantum dot devices allowed the realization of a charge sensor, which is electrostatically and tunnel coupled to a quantum dot. By integrating the charge sensor into a radio-frequency reflectometry setup, I performed for the first time single-shot readout measurements of hole spins and extracted the hole spin relaxation times in Ge hut wires.","lang":"eng"}],"oa":1,"fulldoi":"https://doi.org/10.15479/AT:ISTA:TH_1047","date_created":"2018-12-11T11:44:28Z","degree_awarded":"PhD","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"type":"dissertation","publist_id":"7985","publication_status":"published","file_date_updated":"2020-07-14T12:47:44Z","alternative_title":["ISTA Thesis"],"pubrep_id":"1047","OA_place":"publisher","language":[{"iso":"eng"}],"citation":{"chicago":"Vukušić, Lada. “Charge Sensing and Spin Relaxation Times of Holes in Ge Hut Wires.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_1047\">https://doi.org/10.15479/AT:ISTA:TH_1047</a>.","ista":"Vukušić L. 2018. Charge sensing and spin relaxation times of holes in Ge hut wires. Institute of Science and Technology Austria.","ama":"Vukušić L. Charge sensing and spin relaxation times of holes in Ge hut wires. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_1047\">10.15479/AT:ISTA:TH_1047</a>","mla":"Vukušić, Lada. <i>Charge Sensing and Spin Relaxation Times of Holes in Ge Hut Wires</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_1047\">10.15479/AT:ISTA:TH_1047</a>.","apa":"Vukušić, L. (2018). <i>Charge sensing and spin relaxation times of holes in Ge hut wires</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_1047\">https://doi.org/10.15479/AT:ISTA:TH_1047</a>","ieee":"L. Vukušić, “Charge sensing and spin relaxation times of holes in Ge hut wires,” Institute of Science and Technology Austria, 2018.","short":"L. Vukušić, Charge Sensing and Spin Relaxation Times of Holes in Ge Hut Wires, Institute of Science and Technology Austria, 2018."},"supervisor":[{"id":"38DB5788-F248-11E8-B48F-1D18A9856A87","full_name":"Katsaros, Georgios","orcid":"0000-0001-8342-202X","first_name":"Georgios","last_name":"Katsaros"}],"status":"public","author":[{"last_name":"Vukušić","first_name":"Lada","orcid":"0000-0003-2424-8636","full_name":"Vukušić, Lada","id":"31E9F056-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2026-04-08T14:09:47Z","page":"103","publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","date_published":"2018-09-01T00:00:00Z","ddc":["530","600"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","department":[{"_id":"GeKa"},{"_id":"GradSch"}],"oa_version":"Published Version","file":[{"checksum":"c570b656e30749cd65b1c7e13a9ce0a8","creator":"dernst","date_updated":"2020-07-14T12:47:44Z","file_size":28452385,"file_name":"2018_Thesis_Vukusic.pdf","relation":"main_file","file_id":"6247","content_type":"application/pdf","date_created":"2019-04-09T07:00:40Z","access_level":"open_access"},{"creator":"dernst","checksum":"7856771d9cd401fe0b311191076db6e1","date_updated":"2020-07-14T12:47:44Z","relation":"source_file","file_size":53058704,"file_name":"2018_Thesis_Vukusic_source.zip","date_created":"2019-04-09T07:00:40Z","content_type":"application/zip","file_id":"6248","access_level":"closed"}],"_id":"69","month":"09","doi":"10.15479/AT:ISTA:TH_1047","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","corr_author":"1","year":"2018","title":"Charge sensing and spin relaxation times of holes in Ge hut wires","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"23"},{"status":"public","id":"840","relation":"part_of_dissertation"}]}},{"pubrep_id":"1021","OA_place":"publisher","alternative_title":["ISTA Thesis"],"language":[{"iso":"eng"}],"type":"dissertation","publist_id":"7718","publication_status":"published","file_date_updated":"2020-07-14T12:45:22Z","abstract":[{"text":"Modern computer vision systems heavily rely on statistical machine learning models, which typically require large amounts of labeled data to be learned reliably. Moreover, very recently computer vision research widely adopted techniques for representation learning, which further increase the demand for labeled data. However, for many important practical problems there is relatively small amount of labeled data available, so it is problematic to leverage full potential of the representation learning methods. One way to overcome this obstacle is to invest substantial resources into producing large labelled datasets. Unfortunately, this can be prohibitively expensive in practice. In this thesis we focus on the alternative way of tackling the aforementioned issue. We concentrate on methods, which make use of weakly-labeled or even unlabeled data. Specifically, the first half of the thesis is dedicated to the semantic image segmentation task. We develop a technique, which achieves competitive segmentation performance and only requires annotations in a form of global image-level labels instead of dense segmentation masks. Subsequently, we present a new methodology, which further improves segmentation performance by leveraging tiny additional feedback from a human annotator. By using our methods practitioners can greatly reduce the amount of data annotation effort, which is required to learn modern image segmentation models. In the second half of the thesis we focus on methods for learning from unlabeled visual data. We study a family of autoregressive models for modeling structure of natural images and discuss potential applications of these models. Moreover, we conduct in-depth study of one of these applications, where we develop the state-of-the-art model for the probabilistic image colorization task.","lang":"eng"}],"oa":1,"date_created":"2018-12-11T11:45:09Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:th_1021","acknowledgement":"I also gratefully acknowledge the support of NVIDIA Corporation with the donation of the GPUs used for this research.","degree_awarded":"PhD","day":"25","project":[{"_id":"2532554C-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Lifelong Learning of Visual Scene Understanding","grant_number":"308036"}],"corr_author":"1","year":"2018","title":"Weakly-supervised segmentation and unsupervised modeling of natural images","_id":"197","doi":"10.15479/AT:ISTA:th_1021","month":"05","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"date_published":"2018-05-25T00:00:00Z","doi_confirm":"1","has_accepted_license":"1","department":[{"_id":"ChLa"},{"_id":"GradSch"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["004"],"file":[{"content_type":"application/pdf","file_id":"5113","date_created":"2018-12-12T10:14:57Z","access_level":"open_access","checksum":"bc678e02468d8ebc39dc7267dfb0a1c4","creator":"system","date_updated":"2020-07-14T12:45:22Z","file_name":"IST-2018-1021-v1+1_thesis-unsigned-pdfa.pdf","file_size":12918758,"relation":"main_file"},{"relation":"source_file","file_size":55973760,"file_name":"2018_Thesis_Kolesnikov_source.zip","creator":"dernst","checksum":"bc66973b086da5a043f1162dcfb1fde4","date_updated":"2020-07-14T12:45:22Z","access_level":"closed","date_created":"2019-04-05T09:34:49Z","content_type":"application/zip","file_id":"6225"}],"oa_version":"Published Version","citation":{"short":"A. Kolesnikov, Weakly-Supervised Segmentation and Unsupervised Modeling of Natural Images, Institute of Science and Technology Austria, 2018.","ieee":"A. Kolesnikov, “Weakly-supervised segmentation and unsupervised modeling of natural images,” Institute of Science and Technology Austria, 2018.","apa":"Kolesnikov, A. (2018). <i>Weakly-supervised segmentation and unsupervised modeling of natural images</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1021\">https://doi.org/10.15479/AT:ISTA:th_1021</a>","mla":"Kolesnikov, Alexander. <i>Weakly-Supervised Segmentation and Unsupervised Modeling of Natural Images</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1021\">10.15479/AT:ISTA:th_1021</a>.","ama":"Kolesnikov A. Weakly-supervised segmentation and unsupervised modeling of natural images. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1021\">10.15479/AT:ISTA:th_1021</a>","ista":"Kolesnikov A. 2018. Weakly-supervised segmentation and unsupervised modeling of natural images. Institute of Science and Technology Austria.","chicago":"Kolesnikov, Alexander. “Weakly-Supervised Segmentation and Unsupervised Modeling of Natural Images.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1021\">https://doi.org/10.15479/AT:ISTA:th_1021</a>."},"supervisor":[{"id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph","last_name":"Lampert","first_name":"Christoph"}],"status":"public","ec_funded":1,"publisher":"Institute of Science and Technology Austria","page":"113","author":[{"full_name":"Kolesnikov, Alexander","id":"2D157DB6-F248-11E8-B48F-1D18A9856A87","first_name":"Alexander","last_name":"Kolesnikov"}],"date_updated":"2026-07-29T13:22:05Z"},{"day":"11","date_created":"2018-12-11T11:45:10Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:th_1026","degree_awarded":"PhD","abstract":[{"lang":"eng","text":"We describe arrangements of three-dimensional spheres from a geometrical and topological point of view. Real data (fitting this setup) often consist of soft spheres which show certain degree of deformation while strongly packing against each other. In this context, we answer the following questions: If we model a soft packing of spheres by hard spheres that are allowed to overlap, can we measure the volume in the overlapped areas? Can we be more specific about the overlap volume, i.e. quantify how much volume is there covered exactly twice, three times, or k times? What would be a good optimization criteria that rule the arrangement of soft spheres while making a good use of the available space? Fixing a particular criterion, what would be the optimal sphere configuration? The first result of this thesis are short formulas for the computation of volumes covered by at least k of the balls. The formulas exploit information contained in the order-k Voronoi diagrams and its closely related Level-k complex. The used complexes lead to a natural generalization into poset diagrams, a theoretical formalism that contains the order-k and degree-k diagrams as special cases. In parallel, we define different criteria to determine what could be considered an optimal arrangement from a geometrical point of view. Fixing a criterion, we find optimal soft packing configurations in 2D and 3D where the ball centers lie on a lattice. As a last step, we use tools from computational topology on real physical data, to show the potentials of higher-order diagrams in the description of melting crystals. The results of the experiments leaves us with an open window to apply the theories developed in this thesis in real applications."}],"oa":1,"file_date_updated":"2020-07-14T12:45:24Z","type":"dissertation","publist_id":"7712","publication_status":"published","language":[{"iso":"eng"}],"pubrep_id":"1026","OA_place":"publisher","alternative_title":["ISTA Thesis"],"status":"public","publisher":"Institute of Science and Technology Austria","page":"171","date_updated":"2026-07-29T13:24:38Z","author":[{"id":"41B58C0C-F248-11E8-B48F-1D18A9856A87","full_name":"Iglesias Ham, Mabel","first_name":"Mabel","last_name":"Iglesias Ham"}],"citation":{"chicago":"Iglesias Ham, Mabel. “Multiple Covers with Balls.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">https://doi.org/10.15479/AT:ISTA:th_1026</a>.","ista":"Iglesias Ham M. 2018. Multiple covers with balls. Institute of Science and Technology Austria.","ama":"Iglesias Ham M. Multiple covers with balls. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">10.15479/AT:ISTA:th_1026</a>","apa":"Iglesias Ham, M. (2018). <i>Multiple covers with balls</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">https://doi.org/10.15479/AT:ISTA:th_1026</a>","ieee":"M. Iglesias Ham, “Multiple covers with balls,” Institute of Science and Technology Austria, 2018.","short":"M. Iglesias Ham, Multiple Covers with Balls, Institute of Science and Technology Austria, 2018.","mla":"Iglesias Ham, Mabel. <i>Multiple Covers with Balls</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">10.15479/AT:ISTA:th_1026</a>."},"supervisor":[{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","first_name":"Herbert"}],"file":[{"creator":"kschuh","checksum":"dd699303623e96d1478a6ae07210dd05","date_updated":"2020-07-14T12:45:24Z","relation":"source_file","file_size":11827713,"file_name":"IST-2018-1025-v2+5_ist-thesis-iglesias-11June2018(1).zip","date_created":"2019-02-05T07:43:31Z","content_type":"application/zip","file_id":"5918","access_level":"closed"},{"content_type":"application/pdf","file_id":"5919","date_created":"2019-02-05T07:43:45Z","access_level":"open_access","date_updated":"2020-07-14T12:45:24Z","checksum":"ba163849a190d2b41d66fef0e4983294","creator":"kschuh","file_name":"IST-2018-1025-v2+4_ThesisIglesiasFinal11June2018.pdf","file_size":4783846,"relation":"main_file"}],"oa_version":"Published Version","doi_confirm":"1","date_published":"2018-06-11T00:00:00Z","has_accepted_license":"1","department":[{"_id":"HeEd"},{"_id":"GradSch"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["514","516"],"doi":"10.15479/AT:ISTA:th_1026","month":"06","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"_id":"201","title":"Multiple covers with balls","corr_author":"1","year":"2018"},{"abstract":[{"lang":"eng","text":"The most common assumption made in statistical learning theory is the assumption of the independent and identically distributed (i.i.d.) data. While being very convenient mathematically, it is often very clearly violated in practice. This disparity between the machine learning theory and applications underlies a growing demand in the development of algorithms that learn from dependent data and theory that can provide generalization guarantees similar to the independent situations. This thesis is dedicated to two variants of dependencies that can arise in practice. One is a dependence on the level of samples in a single learning task. Another dependency type arises in the multi-task setting when the tasks are dependent on each other even though the data for them can be i.i.d. In both cases we model the data (samples or tasks) as stochastic processes and introduce new algorithms for both settings that take into account and exploit the resulting dependencies. We prove the theoretical guarantees on the performance of the introduced algorithms under different evaluation criteria and, in addition, we compliment the theoretical study by the empirical one, where we evaluate some of the algorithms on two real world datasets to highlight their practical applicability."}],"oa":1,"degree_awarded":"PhD","date_created":"2018-12-11T11:44:27Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:TH1048","day":"01","project":[{"_id":"2532554C-B435-11E9-9278-68D0E5697425","grant_number":"308036","call_identifier":"FP7","name":"Lifelong Learning of Visual Scene Understanding"}],"OA_place":"publisher","alternative_title":["ISTA Thesis"],"pubrep_id":"1048","language":[{"iso":"eng"}],"publication_status":"published","publist_id":"7986","type":"dissertation","file_date_updated":"2020-07-14T12:47:40Z","ddc":["004","519"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"ChLa"},{"_id":"GradSch"}],"has_accepted_license":"1","date_published":"2018-09-01T00:00:00Z","doi_confirm":"1","oa_version":"Published Version","file":[{"date_created":"2019-04-09T07:32:47Z","file_id":"6253","content_type":"application/pdf","access_level":"open_access","creator":"dernst","checksum":"e849dd40a915e4d6c5572b51b517f098","date_updated":"2020-07-14T12:47:40Z","relation":"main_file","file_name":"2018_Thesis_Zimin.pdf","file_size":1036137},{"file_size":637490,"file_name":"2018_Thesis_Zimin_Source.zip","relation":"source_file","date_updated":"2020-07-14T12:47:40Z","checksum":"da092153cec55c97461bd53c45c5d139","creator":"dernst","access_level":"closed","content_type":"application/zip","file_id":"6254","date_created":"2019-04-09T07:32:47Z"}],"supervisor":[{"last_name":"Lampert","first_name":"Christoph","orcid":"0000-0001-8622-7887","full_name":"Lampert, Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87"}],"citation":{"mla":"Zimin, Alexander. <i>Learning from Dependent Data</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH1048\">10.15479/AT:ISTA:TH1048</a>.","short":"A. Zimin, Learning from Dependent Data, Institute of Science and Technology Austria, 2018.","ieee":"A. Zimin, “Learning from dependent data,” Institute of Science and Technology Austria, 2018.","apa":"Zimin, A. (2018). <i>Learning from dependent data</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:TH1048\">https://doi.org/10.15479/AT:ISTA:TH1048</a>","ama":"Zimin A. Learning from dependent data. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH1048\">10.15479/AT:ISTA:TH1048</a>","ista":"Zimin A. 2018. Learning from dependent data. Institute of Science and Technology Austria.","chicago":"Zimin, Alexander. “Learning from Dependent Data.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:TH1048\">https://doi.org/10.15479/AT:ISTA:TH1048</a>."},"author":[{"full_name":"Zimin, Alexander","id":"37099E9C-F248-11E8-B48F-1D18A9856A87","last_name":"Zimin","first_name":"Alexander"}],"page":"92","date_updated":"2026-07-29T13:31:12Z","publisher":"Institute of Science and Technology Austria","ec_funded":1,"status":"public","year":"2018","corr_author":"1","title":"Learning from dependent data","_id":"68","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","month":"09","doi":"10.15479/AT:ISTA:TH1048"},{"project":[{"grant_number":"259668","name":"Provable Security for Physical Cryptography","call_identifier":"FP7","_id":"258C570E-B435-11E9-9278-68D0E5697425"},{"name":"Teaching Old Crypto New Tricks","call_identifier":"H2020","grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425"}],"day":"05","date_created":"2018-12-11T11:44:32Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:TH_1046","degree_awarded":"PhD","abstract":[{"lang":"eng","text":"A proof system is a protocol between a prover and a verifier over a common input in which an honest prover convinces the verifier of the validity of true statements. Motivated by the success of decentralized cryptocurrencies, exemplified by Bitcoin, the focus of this thesis will be on proof systems which found applications in some sustainable alternatives to Bitcoin, such as the Spacemint and Chia cryptocurrencies. In particular, we focus on proofs of space and proofs of sequential work.\r\nProofs of space (PoSpace) were suggested as more ecological, economical, and egalitarian alternative to the energy-wasteful proof-of-work mining of Bitcoin. However, the state-of-the-art constructions of PoSpace are based on sophisticated graph pebbling lower bounds, and are therefore complex. Moreover, when these PoSpace are used in cryptocurrencies like Spacemint, miners can only start mining after ensuring that a commitment to their space is already added in a special transaction to the blockchain. Proofs of sequential work (PoSW) are proof systems in which a prover, upon receiving a statement x and a time parameter T, computes a proof which convinces the verifier that T time units had passed since x was received. Whereas Spacemint assumes synchrony to retain some interesting Bitcoin dynamics, Chia requires PoSW with unique proofs, i.e., PoSW in which it is hard to come up with more than one accepting proof for any true statement. In this thesis we construct simple and practically-efficient PoSpace and PoSW. When using our PoSpace in cryptocurrencies, miners can start mining on the fly, like in Bitcoin, and unlike current constructions of PoSW, which either achieve efficient verification of sequential work, or faster-than-recomputing verification of correctness of proofs, but not both at the same time, ours achieve the best of these two worlds."}],"oa":1,"file_date_updated":"2020-07-14T12:48:11Z","publist_id":"7971","type":"dissertation","publication_status":"published","language":[{"iso":"eng"}],"OA_place":"publisher","pubrep_id":"1046","alternative_title":["ISTA Thesis"],"status":"public","ec_funded":1,"publisher":"Institute of Science and Technology Austria","author":[{"full_name":"Abusalah, Hamza M","id":"40297222-F248-11E8-B48F-1D18A9856A87","first_name":"Hamza M","last_name":"Abusalah"}],"page":"59","date_updated":"2026-07-29T13:38:08Z","citation":{"apa":"Abusalah, H. M. (2018). <i>Proof systems for sustainable decentralized cryptocurrencies</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_1046\">https://doi.org/10.15479/AT:ISTA:TH_1046</a>","short":"H.M. Abusalah, Proof Systems for Sustainable Decentralized Cryptocurrencies, Institute of Science and Technology Austria, 2018.","ieee":"H. M. Abusalah, “Proof systems for sustainable decentralized cryptocurrencies,” Institute of Science and Technology Austria, 2018.","mla":"Abusalah, Hamza M. <i>Proof Systems for Sustainable Decentralized Cryptocurrencies</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_1046\">10.15479/AT:ISTA:TH_1046</a>.","chicago":"Abusalah, Hamza M. “Proof Systems for Sustainable Decentralized Cryptocurrencies.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_1046\">https://doi.org/10.15479/AT:ISTA:TH_1046</a>.","ama":"Abusalah HM. Proof systems for sustainable decentralized cryptocurrencies. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_1046\">10.15479/AT:ISTA:TH_1046</a>","ista":"Abusalah HM. 2018. Proof systems for sustainable decentralized cryptocurrencies. Institute of Science and Technology Austria."},"supervisor":[{"last_name":"Pietrzak","first_name":"Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","full_name":"Pietrzak, Krzysztof Z","orcid":"0000-0002-9139-1654"}],"file":[{"access_level":"open_access","file_id":"6245","content_type":"application/pdf","date_created":"2019-04-09T06:43:41Z","file_size":876241,"file_name":"2018_Thesis_Abusalah.pdf","relation":"main_file","checksum":"c4b5f7d111755d1396787f41886fc674","creator":"dernst","date_updated":"2020-07-14T12:48:11Z"},{"date_created":"2019-04-09T06:43:41Z","file_id":"6246","content_type":"application/x-gzip","access_level":"closed","date_updated":"2020-07-14T12:48:11Z","creator":"dernst","checksum":"0f382ac56b471c48fd907d63eb87dafe","relation":"source_file","file_size":2029190,"file_name":"2018_Thesis_Abusalah_source.tar.gz"}],"oa_version":"Published Version","doi_confirm":"1","date_published":"2018-09-05T00:00:00Z","has_accepted_license":"1","department":[{"_id":"KrPi"},{"_id":"GradSch"}],"ddc":["004"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","doi":"10.15479/AT:ISTA:TH_1046","month":"09","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"_id":"83","related_material":{"record":[{"id":"559","relation":"part_of_dissertation","status":"public"},{"relation":"part_of_dissertation","id":"1236","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"1235"},{"relation":"part_of_dissertation","id":"1229","status":"public"}]},"title":"Proof systems for sustainable decentralized cryptocurrencies","corr_author":"1","year":"2018"},{"_id":"49","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"doi":"10.15479/AT:ISTA:th_1033","month":"07","year":"2018","corr_author":"1","title":"Ge hut wires - from growth to hole spin resonance","supervisor":[{"last_name":"Katsaros","first_name":"Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","full_name":"Katsaros, Georgios","orcid":"0000-0001-8342-202X"}],"citation":{"mla":"Watzinger, Hannes. <i>Ge Hut Wires - from Growth to Hole Spin Resonance</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1033\">10.15479/AT:ISTA:th_1033</a>.","ieee":"H. Watzinger, “Ge hut wires - from growth to hole spin resonance,” Institute of Science and Technology Austria, 2018.","short":"H. Watzinger, Ge Hut Wires - from Growth to Hole Spin Resonance, Institute of Science and Technology Austria, 2018.","apa":"Watzinger, H. (2018). <i>Ge hut wires - from growth to hole spin resonance</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1033\">https://doi.org/10.15479/AT:ISTA:th_1033</a>","ama":"Watzinger H. Ge hut wires - from growth to hole spin resonance. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1033\">10.15479/AT:ISTA:th_1033</a>","ista":"Watzinger H. 2018. Ge hut wires - from growth to hole spin resonance. Institute of Science and Technology Austria.","chicago":"Watzinger, Hannes. “Ge Hut Wires - from Growth to Hole Spin Resonance.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1033\">https://doi.org/10.15479/AT:ISTA:th_1033</a>."},"publisher":"Institute of Science and Technology Austria","author":[{"id":"35DF8E50-F248-11E8-B48F-1D18A9856A87","full_name":"Watzinger, Hannes","first_name":"Hannes","last_name":"Watzinger"}],"date_updated":"2026-07-31T09:15:25Z","page":"77","status":"public","department":[{"_id":"GeKa"},{"_id":"GradSch"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["530"],"doi_confirm":"1","date_published":"2018-07-30T00:00:00Z","has_accepted_license":"1","file":[{"date_updated":"2020-07-14T12:46:35Z","checksum":"b653b5216251f938ddbeafd1de88667c","creator":"dernst","file_size":85539748,"file_name":"2018_Thesis_Watzinger.pdf","relation":"main_file","content_type":"application/pdf","file_id":"6249","date_created":"2019-04-09T07:13:28Z","access_level":"open_access"},{"content_type":"application/zip","file_id":"6250","date_created":"2019-04-09T07:13:27Z","access_level":"closed","checksum":"39bcf8de7ac5b1bb516b11ce2f966785","creator":"dernst","date_updated":"2020-07-14T12:46:35Z","file_size":21830697,"file_name":"2018_Thesis_Watzinger_source.zip","relation":"source_file"}],"oa_version":"Published Version","publication_status":"published","type":"dissertation","publist_id":"8005","file_date_updated":"2020-07-14T12:46:35Z","OA_place":"publisher","alternative_title":["ISTA Thesis"],"pubrep_id":"1033","language":[{"iso":"eng"}],"day":"30","oa":1,"abstract":[{"text":"Nowadays, quantum computation is receiving more and more attention as an alternative to the classical way of computing. For realizing a quantum computer, different devices are investigated as potential quantum bits. In this thesis, the focus is on Ge hut wires, which turned out to be promising candidates for implementing hole spin quantum bits. The advantages of Ge as a material system are the low hyperfine interaction for holes and the strong spin orbit coupling, as well as the compatibility with the highly developed CMOS processes in industry. In addition, Ge can also be isotopically purified which is expected to boost the spin coherence times. The strong spin orbit interaction for holes in Ge on the one hand enables the full electrical control of the quantum bit and on the other hand should allow short spin manipulation times. Starting with a bare Si wafer, this work covers the entire process reaching from growth over the fabrication and characterization of hut wire devices up to the demonstration of hole spin resonance. From experiments with single quantum dots, a large g-factor anisotropy between the in-plane and the out-of-plane direction was found. A comparison to a theoretical model unveiled the heavy-hole character of the lowest energy states. The second part of the thesis addresses double quantum dot devices, which were realized by adding two gate electrodes to a hut wire. In such devices, Pauli spin blockade was observed, which can serve as a read-out mechanism for spin quantum bits. Applying oscillating electric fields in spin blockade allowed the demonstration of continuous spin rotations and the extraction of a lower bound for the spin dephasing time. Despite the strong spin orbit coupling in Ge, the obtained value for the dephasing time is comparable to what has been recently reported for holes in Si. All in all, the presented results point out the high potential of Ge hut wires as a platform for long-lived, fast and fully electrically tunable hole spin quantum bits.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"degree_awarded":"PhD","fulldoi":"https://doi.org/10.15479/AT:ISTA:th_1033","date_created":"2018-12-11T11:44:21Z"},{"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"LifeSc"}],"alternative_title":["ISTA Thesis"],"OA_place":"publisher","language":[{"iso":"eng"}],"type":"dissertation","publication_status":"published","file_date_updated":"2021-02-11T11:17:17Z","oa":1,"abstract":[{"text":"Antibiotic  resistance  can  emerge  spontaneously  through  genomic  mutation  and  render treatment   ineffective.   To   counteract   this process, in   addition   to   the   discovery   and description of resistance mechanisms,a deeper understanding of resistanceevolvabilityand its  determinantsis  needed. To address  this challenge,  this  thesisuncoversnew  genetic determinants   of   resistance   evolvability   using   a   customized   robotic   setup, exploressystematic   ways   in   which   resistance   evolution   is   perturbed   due   to dose-responsecharacteristics  of  drugs and  mutation  rate  differences,and  mathematically  investigates the evolutionary fate of one specific type of evolvability modifier -a stress-induced mutagenesis allele.We  find  severalgenes  which  strongly  inhibit  or  potentiate  resistance  evolution.  In  order to identify   them,   we   first developedan   automated   high-throughput   feedback-controlled protocol whichkeeps the population size and selection pressure approximately constant for hundreds  of  cultures  by  dynamically  re-diluting  the  cultures  and  adjusting  the  antibiotic concentration.  We  implementedthis  protocol  on  a  customized  liquid  handling  robot  and propagated  100  different  gene  deletion  strains  of Escherichia  coliin  triplicate  for  over  100 generations  in  tetracycline  and  in  chloramphenicol,  and  comparedtheir  adaptation  rates.We  find  a  diminishing  returns  pattern,  where  initially  sensitive  strains  adapted  more compared to less sensitive ones.  Our data uncover that deletions of certain genes which do not  affect  mutation  rate,including  efflux  pump  components,  a  chaperone  and severalstructural  and regulatory  genes  can strongly  and  reproducibly  alterresistance  evolution. Sequencing   analysis of   evolved   populations   indicates   that   epistasis   with   resistance mutations  is  the  most  likelyexplanation. This  work  could  inspire  treatment  strategies  in which  targeted  inhibitors  of  evolvability  mechanisms  will  be  given  alongside  antibiotics  to slow down resistance evolution and extend theefficacy of antibiotics.We implemented  astochasticpopulation  genetics  model, toverifyways  in  which  general properties,  namely,  dose-response  characteristics  of  drugs  and  mutation  rates,  influence evolutionary  dynamics.  In  particular,  under  the  exposure  to  antibiotics  with  shallow  dose-response  curves,bacteria  have  narrower  distributions  of  fitness  effects  of  new  mutations. We  show  that in  silicothis  also  leads  to  slower  resistance  evolution.  We see and  confirm with experiments that increased mutation rates, apart from speeding up evolution, also leadto high reproducibility of phenotypic adaptation in a context of continually strong selection pressure.Knowledge  of  these  patterns  can  aid  in  predicting  the  dynamics  of  antibiotic resistance evolutionand adapting treatment schemes accordingly.Focusing on   a   previously   described   type   of   evolvability   modifier –a   stress-induced mutagenesis  allele –we  find  conditions  under  which  it  can  persist  in  a  population  under periodic  selectionakin  to  clinical  treatment. We  set  up  a  deterministic infinite  populationcontinuous  time  model  tracking  the  frequencies  of  a  mutator  and  resistance  allele  and evaluate  various  treatment  schemes  in  how  well  they  maintain  a stress-induced mutator allele. In particular,a high diversity  of stresses  is  crucial  for  the  persistence of the  mutator allele. This leads to a general trade-off where exactly those diversifying treatment schemes which  are  likely  to  decrease  levels  of  resistance  could  lead  to  stronger  selection  of  highly evolvable genotypes.In  the  long  run,  this  work  will  lead  to  a  deeper  understanding  of  the  genetic  and  cellular mechanisms involved in antibiotic resistance evolution and could inspire new strategies for slowing down its rate. ","lang":"eng"}],"date_created":"2019-04-09T13:57:15Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:th1072","degree_awarded":"PhD","day":"28","corr_author":"1","year":"2018","related_material":{"record":[{"status":"public","id":"1027","relation":"part_of_dissertation"},{"status":"public","id":"696","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"1619","status":"public"}]},"title":"Genetic determinants of antibiotic resistance evolution","_id":"6263","month":"12","doi":"10.15479/AT:ISTA:th1072","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"date_published":"2018-12-28T00:00:00Z","doi_confirm":"1","has_accepted_license":"1","department":[{"_id":"ToBo"},{"_id":"GradSch"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["570","576","579"],"file":[{"relation":"main_file","file_size":5656866,"file_name":"2018_Thesis_Lukacisinova.pdf","embargo":"2020-01-25","creator":"dernst","checksum":"fc60585c9eaad868ac007004ef130908","date_updated":"2021-02-11T11:17:17Z","access_level":"open_access","date_created":"2019-04-09T13:49:24Z","file_id":"6264","content_type":"application/pdf"},{"access_level":"closed","date_created":"2019-04-09T13:49:23Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"6265","embargo_to":"open_access","relation":"source_file","file_name":"2018_Thesis_Lukacisinova_source.docx","file_size":5168054,"date_updated":"2020-07-14T12:47:25Z","creator":"dernst","checksum":"264057ec0a92ab348cc83b41f021ba92"}],"oa_version":"Published Version","citation":{"ama":"Lukacisinova M. Genetic determinants of antibiotic resistance evolution. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1072\">10.15479/AT:ISTA:th1072</a>","ista":"Lukacisinova M. 2018. Genetic determinants of antibiotic resistance evolution. Institute of Science and Technology Austria.","chicago":"Lukacisinova, Marta. “Genetic Determinants of Antibiotic Resistance Evolution.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th1072\">https://doi.org/10.15479/AT:ISTA:th1072</a>.","ieee":"M. Lukacisinova, “Genetic determinants of antibiotic resistance evolution,” Institute of Science and Technology Austria, 2018.","short":"M. Lukacisinova, Genetic Determinants of Antibiotic Resistance Evolution, Institute of Science and Technology Austria, 2018.","apa":"Lukacisinova, M. (2018). <i>Genetic determinants of antibiotic resistance evolution</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th1072\">https://doi.org/10.15479/AT:ISTA:th1072</a>","mla":"Lukacisinova, Marta. <i>Genetic Determinants of Antibiotic Resistance Evolution</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1072\">10.15479/AT:ISTA:th1072</a>."},"supervisor":[{"id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","full_name":"Bollenbach, Tobias","orcid":"0000-0003-4398-476X","first_name":"Tobias","last_name":"Bollenbach"}],"status":"public","publisher":"Institute of Science and Technology Austria","page":"91","date_updated":"2026-07-30T14:47:59Z","author":[{"first_name":"Marta","last_name":"Lukacisinova","full_name":"Lukacisinova, Marta","orcid":"0000-0002-2519-8004","id":"4342E402-F248-11E8-B48F-1D18A9856A87"}]},{"file_date_updated":"2021-02-11T23:30:13Z","type":"dissertation","publist_id":"8003","publication_status":"published","language":[{"iso":"eng"}],"pubrep_id":"1032","OA_place":"publisher","alternative_title":["ISTA Thesis"],"day":"27","date_created":"2018-12-11T11:44:22Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:th_1032","degree_awarded":"PhD","oa":1,"abstract":[{"text":"Asymmetries have long been known about in the central nervous system. From gross anatomical differences, such as the presence of the parapineal organ in only one hemisphere of the developing zebrafish, to more subtle differences in activity between both hemispheres, as seen in freely roaming animals or human participants under PET and fMRI imaging analysis. The presence of asymmetries has been demonstrated to have huge behavioural implications, with their disruption often leading to the generation of neurological disorders, memory problems, changes in personality, and in an organism's health and well-being. For my Ph.D. work I aimed to tackle two important avenues of research. The first being the process of input-side dependency in the hippocampus, with the goal of finding a key gene responsible for its development (Gene X). The second project was to do with experience-induced laterality formation in the hippocampus. Specifically, how laterality in the synapse density of the CA1 stratum radiatum (s.r.) could be induced purely through environmental enrichment. Through unilateral tracer injections into the CA3, I was able to selectively measure the properties of synapses within the CA1 and investigate how they differed based upon which hemisphere the presynaptic neurone originated. Having found the existence of a previously unreported reversed (left-isomerism) i.v. mutant, through morpholocal examination of labelled terminals in the CA1 s.r., I aimed to elucidate a key gene responsible for the process of left or right determination of inputs to the CA1 s.r.. This work relates to the previous finding of input-side dependent asymmetry in the wild-type rodent, where the origin of the projecting neurone to the CA1 will determine the morphology of a synapse, to a greater degree than the hemisphere in which the projection terminates. Using left- and right-isomerism i.v. mice, in combination with whole genome sequence analysis, I highlight Ena/VASP-like (Evl) as a potential target for Gene X. In relation to this topic, I also highlight my work in the recently published paper of how knockout of PirB can lead to a lack of input-side dependency in the murine hippocampus. For the second question, I show that the environmental enrichment paradigm will lead to an asymmetry in the synapse densities in the hippocampus of mice. I also highlight that the nature of the enrichment is of less consequence than the process of enrichment itself. I demonstrate that the CA3 region will dramatically alter its projection targets, in relation to environmental stimulation, with the asymmetry in synaptic density, caused by enrichment, relying heavily on commissural fibres. I also highlight the vital importance of input-side dependent asymmetry, as a necessary component of experience-dependent laterality formation in the CA1 s.r.. However, my results suggest that it isn't the only cause, as there appears to be a CA1 dependent mechanism also at play. Upon further investigation, I highlight the significant, and highly important, finding that the changes seen in the CA1 s.r. were predominantly caused through projections from the left-CA3, with the right-CA3 having less involvement in this mechanism.","lang":"eng"}],"month":"06","doi":"10.15479/AT:ISTA:th_1032","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","_id":"51","title":"From the left to the right: A tale of asymmetries, environments, and hippocampal development","related_material":{"record":[{"relation":"part_of_dissertation","id":"682","status":"public"}]},"corr_author":"1","year":"2018","status":"public","author":[{"first_name":"Matthew J","last_name":"Case","full_name":"Case, Matthew J","id":"44B7CA5A-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2026-07-31T09:40:17Z","page":"186","publisher":"Institute of Science and Technology Austria","citation":{"ista":"Case MJ. 2018. From the left to the right: A tale of asymmetries, environments, and hippocampal development. Institute of Science and Technology Austria.","ama":"Case MJ. From the left to the right: A tale of asymmetries, environments, and hippocampal development. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1032\">10.15479/AT:ISTA:th_1032</a>","chicago":"Case, Matthew J. “From the Left to the Right: A Tale of Asymmetries, Environments, and Hippocampal Development.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1032\">https://doi.org/10.15479/AT:ISTA:th_1032</a>.","short":"M.J. Case, From the Left to the Right: A Tale of Asymmetries, Environments, and Hippocampal Development, Institute of Science and Technology Austria, 2018.","ieee":"M. J. Case, “From the left to the right: A tale of asymmetries, environments, and hippocampal development,” Institute of Science and Technology Austria, 2018.","apa":"Case, M. J. (2018). <i>From the left to the right: A tale of asymmetries, environments, and hippocampal development</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1032\">https://doi.org/10.15479/AT:ISTA:th_1032</a>","mla":"Case, Matthew J. <i>From the Left to the Right: A Tale of Asymmetries, Environments, and Hippocampal Development</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1032\">10.15479/AT:ISTA:th_1032</a>."},"supervisor":[{"first_name":"Ryuichi","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"Published Version","file":[{"creator":"dernst","checksum":"dcc7b55619d8509dd62b8e99d6cdee44","date_updated":"2021-02-11T23:30:13Z","relation":"source_file","file_name":"2018_Thesis_Case_Source.doc","file_size":141270528,"embargo_to":"open_access","date_created":"2019-04-09T07:16:26Z","content_type":"application/msword","file_id":"6251","access_level":"closed"},{"file_name":"2018_Thesis_Case.pdf","file_size":15193621,"relation":"main_file","embargo":"2019-07-05","checksum":"f69fdd5c8709c4e618aa8c1a1221153d","creator":"dernst","date_updated":"2021-02-11T11:17:14Z","access_level":"open_access","content_type":"application/pdf","file_id":"6252","date_created":"2019-04-09T07:16:23Z"}],"has_accepted_license":"1","date_published":"2018-06-27T00:00:00Z","doi_confirm":"1","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","ddc":["571","576"],"department":[{"_id":"RySh"},{"_id":"GradSch"}]},{"language":[{"iso":"eng"}],"OA_place":"publisher","pubrep_id":"1057","alternative_title":["ISTA Thesis"],"file_date_updated":"2021-02-11T11:17:16Z","publication_status":"published","publist_id":"8046","type":"dissertation","degree_awarded":"PhD","fulldoi":"https://doi.org/10.15479/AT:ISTA:th1057","date_created":"2018-12-11T11:44:08Z","abstract":[{"lang":"eng","text":"Genomic imprinting is an epigenetic process that leads to parent of origin-specific gene expression in a subset of genes. Imprinted genes are essential for brain development, and deregulation of imprinting is associated with neurodevelopmental diseases and the pathogenesis of psychiatric disorders. However, the cell-type specificity of imprinting at single cell resolution, and how imprinting and thus gene dosage regulates neuronal circuit assembly is still largely unknown. Here, MADM (Mosaic Analysis with Double Markers) technology was employed to assess genomic imprinting at single cell level. By visualizing MADM-induced uniparental disomies (UPDs) in distinct colors at single cell level in genetic mosaic animals, this experimental paradigm provides a unique quantitative platform to systematically assay the UPD-mediated imbalances in imprinted gene expression at unprecedented resolution. An experimental pipeline based on FACS, RNA-seq and bioinformatics analysis was established and applied to systematically map cell-type-specific ‘imprintomes’ in the mouse brain. The results revealed that parental-specific expression of imprinted genes per se is rarely cell-type-specific even at the individual cell level. Conversely, when we extended the comparison to downstream responses resulting from imbalanced imprinted gene expression, we discovered an unexpectedly high degree of cell-type specificity. Furthermore, we determined a novel function of genomic imprinting in cortical astrocyte production and in olfactory bulb (OB) granule cell generation. These results suggest important functional implication of genomic imprinting for generating cell-type diversity in the brain. In addition, MADM provides a powerful tool to study candidate genes by concomitant genetic manipulation and fluorescent labelling of single cells. MADM-based candidate gene approach was utilized to identify potential imprinted genes involved in the generation of cortical astrocytes and OB granule cells. We investigated p57Kip2, a maternally expressed gene and known cell cycle regulator. Although we found that p57Kip2 does not play a role in these processes, we detected an unexpected function of the paternal allele previously thought to be silent. Finally, we took advantage of a key property of MADM which is to allow unambiguous investigation of environmental impact on single cells. The experimental pipeline based on FACS and RNA-seq analysis of MADM-labeled cells was established to probe the functional differences of single cell loss of gene function compared to global loss of function on a transcriptional level. With this method, both common and distinct responses were isolated due to cell-autonomous and non-autonomous effects acting on genotypically identical cells. As a result, transcriptional changes were identified which result solely from the surrounding environment. Using the MADM technology to study genomic imprinting at single cell resolution, we have identified cell-type-specific gene expression, novel gene function and the impact of environment on single cell transcriptomes. Together, these provide important insights to the understanding of mechanisms regulating cell-type specificity and thus diversity in the brain."}],"oa":1,"day":"21","title":"Role of genomic imprinting in cerebral cortex development","year":"2018","corr_author":"1","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"doi":"10.15479/AT:ISTA:th1057","month":"11","_id":"10","file":[{"creator":"dernst","checksum":"41fdbf5fdce312802935d88a8ad9932c","date_updated":"2019-11-23T23:30:03Z","relation":"source_file","file_name":"Thesis_LaukoterSusanne_FINAL.docx","file_size":17949175,"embargo_to":"open_access","date_created":"2019-05-10T07:47:04Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"6396","access_level":"closed"},{"creator":"dernst","checksum":"53001a9a0c9e570e598d861bb0af28aa","date_updated":"2021-02-11T11:17:16Z","relation":"main_file","file_size":21187245,"file_name":"Thesis_LaukoterSusanne_FINAL.pdf","embargo":"2019-11-21","date_created":"2019-05-10T07:47:04Z","content_type":"application/pdf","file_id":"6397","access_level":"open_access"}],"oa_version":"Published Version","department":[{"_id":"SiHi"},{"_id":"GradSch"}],"ddc":["570"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","doi_confirm":"1","date_published":"2018-11-21T00:00:00Z","has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","date_updated":"2026-07-29T13:40:27Z","author":[{"first_name":"Susanne","last_name":"Laukoter","id":"2D6B7A9A-F248-11E8-B48F-1D18A9856A87","full_name":"Laukoter, Susanne","orcid":"0000-0002-7903-3010"}],"page":"1 - 139","status":"public","supervisor":[{"orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","last_name":"Vicoso"}],"citation":{"mla":"Laukoter, Susanne. <i>Role of Genomic Imprinting in Cerebral Cortex Development</i>. Institute of Science and Technology Austria, 2018, pp. 1–139, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1057\">10.15479/AT:ISTA:th1057</a>.","ieee":"S. Laukoter, “Role of genomic imprinting in cerebral cortex development,” Institute of Science and Technology Austria, 2018.","short":"S. Laukoter, Role of Genomic Imprinting in Cerebral Cortex Development, Institute of Science and Technology Austria, 2018.","apa":"Laukoter, S. (2018). <i>Role of genomic imprinting in cerebral cortex development</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th1057\">https://doi.org/10.15479/AT:ISTA:th1057</a>","ista":"Laukoter S. 2018. Role of genomic imprinting in cerebral cortex development. Institute of Science and Technology Austria.","ama":"Laukoter S. Role of genomic imprinting in cerebral cortex development. 2018:1-139. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1057\">10.15479/AT:ISTA:th1057</a>","chicago":"Laukoter, Susanne. “Role of Genomic Imprinting in Cerebral Cortex Development.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th1057\">https://doi.org/10.15479/AT:ISTA:th1057</a>."}},{"file_date_updated":"2020-12-02T23:30:08Z","publication_status":"published","publist_id":"7277","type":"dissertation","language":[{"iso":"eng"}],"OA_place":"publisher","alternative_title":["ISTA Thesis"],"pubrep_id":"930","day":"01","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"degree_awarded":"PhD","date_created":"2018-12-11T11:47:03Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:th_930","oa":1,"abstract":[{"lang":"eng","text":"The whole life cycle of plants as well as their responses to environmental stimuli is governed by a complex network of hormonal regulations. A number of studies have demonstrated an essential role of both auxin and cytokinin in the regulation of many aspects of plant growth and development including embryogenesis, postembryonic organogenic processes such as root, and shoot branching, root and shoot apical meristem activity and phyllotaxis. Over the last decades essential knowledge on the key molecular factors and pathways that spatio-temporally define auxin and cytokinin activities in the plant body has accumulated. However, how both hormonal pathways are interconnected by a complex network of interactions and feedback circuits that determines the final outcome of the individual hormone actions is still largely unknown. Root system architecture establishment and in particular formation of lateral organs is prime example of developmental process at whose regulation both auxin and cytokinin pathways converge. To dissect convergence points and pathways that tightly balance auxin - cytokinin antagonistic activities that determine the root branching pattern transcriptome profiling was applied. Genome wide expression analyses of the xylem pole pericycle, a tissue giving rise to lateral roots, led to identification of genes that are highly responsive to combinatorial auxin and cytokinin treatments and play an essential function in the auxin-cytokinin regulated root branching. SYNERGISTIC AUXIN CYTOKININ 1 (SYAC1) gene, which encodes for a protein of unknown function, was detected among the top candidate genes of which expression was synergistically up-regulated by simultaneous hormonal treatment. Plants with modulated SYAC1 activity exhibit severe defects in the root system establishment and attenuate developmental responses to both auxin and cytokinin. To explore the biological function of the SYAC1, we employed different strategies including expression pattern analysis, subcellular localization and phenotypic analyses of the syac1 loss-of-function and gain-of-function transgenic lines along with the identification of the SYAC1 interaction partners. Detailed functional characterization revealed that SYAC1 acts as a developmentally specific regulator of the secretory pathway to control deposition of cell wall components and thereby rapidly fine tune elongation growth."}],"article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"doi":"10.15479/AT:ISTA:th_930","month":"01","_id":"539","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"1024"}]},"title":"Identification and characterization of novel auxin-cytokinin cross-talk components","year":"2018","corr_author":"1","publisher":"Institute of Science and Technology Austria","page":"147","author":[{"orcid":"0000-0003-3638-1426","full_name":"Hurny, Andrej","id":"4DC4AF46-F248-11E8-B48F-1D18A9856A87","first_name":"Andrej","last_name":"Hurny"}],"date_updated":"2026-07-29T13:30:01Z","status":"public","supervisor":[{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva"}],"citation":{"mla":"Hurny, Andrej. <i>Identification and Characterization of Novel Auxin-Cytokinin Cross-Talk Components</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_930\">10.15479/AT:ISTA:th_930</a>.","apa":"Hurny, A. (2018). <i>Identification and characterization of novel auxin-cytokinin cross-talk components</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_930\">https://doi.org/10.15479/AT:ISTA:th_930</a>","ieee":"A. Hurny, “Identification and characterization of novel auxin-cytokinin cross-talk components,” Institute of Science and Technology Austria, 2018.","short":"A. Hurny, Identification and Characterization of Novel Auxin-Cytokinin Cross-Talk Components, Institute of Science and Technology Austria, 2018.","chicago":"Hurny, Andrej. “Identification and Characterization of Novel Auxin-Cytokinin Cross-Talk Components.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_930\">https://doi.org/10.15479/AT:ISTA:th_930</a>.","ista":"Hurny A. 2018. Identification and characterization of novel auxin-cytokinin cross-talk components. Institute of Science and Technology Austria.","ama":"Hurny A. Identification and characterization of novel auxin-cytokinin cross-talk components. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_930\">10.15479/AT:ISTA:th_930</a>"},"file":[{"date_updated":"2020-12-02T23:30:08Z","creator":"dernst","checksum":"0c9d6d1c80d9857e6e545213467bbcb2","embargo_to":"open_access","relation":"source_file","file_size":28112114,"file_name":"2018_Hurny_thesis_source.docx","date_created":"2019-04-05T09:37:56Z","file_id":"6226","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed"},{"date_updated":"2020-12-02T09:52:16Z","checksum":"ecbe481a1413d270bd501b872c7ed54f","creator":"dernst","embargo":"2019-07-10","file_name":"2018_Hurny_thesis.pdf","file_size":12524427,"relation":"main_file","content_type":"application/pdf","file_id":"6227","date_created":"2019-04-05T09:37:55Z","access_level":"open_access"}],"oa_version":"Published Version","department":[{"_id":"EvBe"},{"_id":"GradSch"}],"ddc":["570"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_published":"2018-01-01T00:00:00Z","doi_confirm":"1","has_accepted_license":"1"},{"corr_author":"1","year":"2018","title":"Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo ","_id":"9","month":"07","doi":"10.15479/AT:ISTA:th1064","publication_identifier":{"issn":["2663-337X"]},"article_processing_charge":"No","has_accepted_license":"1","doi_confirm":"1","date_published":"2018-07-01T00:00:00Z","ddc":["570"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"DaSi"},{"_id":"GradSch"}],"oa_version":"Published Version","file":[{"access_level":"closed","date_created":"2019-04-08T14:13:12Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"6243","relation":"source_file","file_name":"2018_Thesis_Belyaeva_source.docx","file_size":102737483,"embargo_to":"open_access","creator":"dernst","checksum":"d27b2465cb70d0c9678a0381b9b6ced1","date_updated":"2020-07-14T12:48:14Z"},{"creator":"dernst","checksum":"a2939b61bde2de7b8ced77bbae0eaaed","date_updated":"2021-02-11T11:17:16Z","relation":"main_file","file_size":88077843,"file_name":"2018_Thesis_Belyaeva.pdf","embargo":"2019-11-19","date_created":"2019-04-08T14:14:08Z","file_id":"6244","content_type":"application/pdf","access_level":"open_access"}],"citation":{"ista":"Belyaeva V. 2018. Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo . Institute of Science and Technology Austria.","ama":"Belyaeva V. Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo . 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">10.15479/AT:ISTA:th1064</a>","chicago":"Belyaeva, Vera. “Transcriptional Regulation of Macrophage Migration in the Drosophila Melanogaster Embryo .” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">https://doi.org/10.15479/AT:ISTA:th1064</a>.","mla":"Belyaeva, Vera. <i>Transcriptional Regulation of Macrophage Migration in the Drosophila Melanogaster Embryo </i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">10.15479/AT:ISTA:th1064</a>.","ieee":"V. Belyaeva, “Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo ,” Institute of Science and Technology Austria, 2018.","short":"V. Belyaeva, Transcriptional Regulation of Macrophage Migration in the Drosophila Melanogaster Embryo , Institute of Science and Technology Austria, 2018.","apa":"Belyaeva, V. (2018). <i>Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo </i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">https://doi.org/10.15479/AT:ISTA:th1064</a>"},"supervisor":[{"first_name":"Daria E","last_name":"Siekhaus","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","full_name":"Siekhaus, Daria E","orcid":"0000-0001-8323-8353"}],"status":"public","author":[{"last_name":"Belyaeva","first_name":"Vera","id":"47F080FE-F248-11E8-B48F-1D18A9856A87","full_name":"Belyaeva, Vera"}],"date_updated":"2026-09-02T08:54:56Z","page":"96","publisher":"Institute of Science and Technology Austria","OA_place":"publisher","alternative_title":["ISTA Thesis"],"pubrep_id":"1064","language":[{"iso":"eng"}],"type":"dissertation","publist_id":"8047","publication_status":"published","file_date_updated":"2021-02-11T11:17:16Z","abstract":[{"text":"Immune cells migrating to the sites of infection navigate through diverse tissue architectures and switch their migratory mechanisms upon demand. However, little is known about systemic regulators that could allow the acquisition of these mechanisms. We performed a genetic screen in Drosophila melanogaster to identify regulators of germband invasion by embryonic macrophages into the confined space between the ectoderm and mesoderm. We have found that bZIP circadian transcription factors (TFs) Kayak (dFos) and Vrille (dNFIL3) have opposite effects on macrophage germband infiltration: Kayak facilitated and Vrille inhibited it. These TFs are enriched in the macrophages during migration and genetically interact to control it. Kayak sets a less coordinated mode of migration of the macrophage group and increases the probability and length of Levy walks. Intriguingly, the motility of kayak mutant macrophages was also strongly affected during initial germband invasion but not along another less confined route. Inhibiting Rho1 signaling within the tail ectoderm partially rescued the Kayak mutant phenotype, strongly suggesting that migrating macrophages have to overcome a barrier imposed by the stiffness of the ectoderm. Also, Kayak appeared to be important for the maintenance of the round cell shape and the rear edge translocation of the macrophages invading the germband. Complementary to this, the cortical actin cytoskeleton of Kayak- deficient macrophages was strongly affected. RNA sequencing revealed the filamin Cheerio and tetraspanin TM4SF to be downstream of Kayak. Chromatin immunoprecipitation and immunostaining revealed that the formin Diaphanous is another downstream target of Kayak. Immunostaining revealed that the formin Diaphanous is another downstream target of Kayak. Indeed, Cheerio, TM4SF and Diaphanous are required within macrophages for germband invasion, and expression of constitutively active Diaphanous in macrophages was able to rescue the kayak mutant phenotype. Moreover, Cher and Diaphanous are also reduced in the macrophages overexpressing Vrille. We hypothesize that Kayak, through its targets, increases actin polymerization and cortical tension in macrophages and thus allows extra force generation necessary for macrophage dissemination and migration through confined stiff tissues, while Vrille counterbalances it.","lang":"eng"}],"oa":1,"fulldoi":"https://doi.org/10.15479/AT:ISTA:th1064","date_created":"2018-12-11T11:44:08Z","degree_awarded":"PhD","day":"01"}]