[{"date_updated":"2026-04-15T06:43:02Z","title":"High-impedance quantum circuits for mesoscopic physics : Geometric superinductors and insulating Josephson Chains","department":[{"_id":"GradSch"},{"_id":"JoFi"}],"ec_funded":1,"_id":"20371","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-067-1"]},"acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"OA_place":"publisher","oa_version":"Published Version","type":"dissertation","publication_status":"published","publisher":"Institute of Science and Technology Austria","degree_awarded":"PhD","month":"09","project":[{"_id":"eb9b30ac-77a9-11ec-83b8-871f581d53d2","name":"Protected states of quantum matter"},{"name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits","grant_number":"F07105","_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f"},{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"665385","name":"International IST Doctoral Program"}],"supervisor":[{"first_name":"Johannes M","orcid":"0000-0001-8112-028X","full_name":"Fink, Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink"}],"has_accepted_license":"1","article_processing_charge":"No","file_date_updated":"2025-09-26T07:20:48Z","oa":1,"abstract":[{"lang":"eng","text":"Quantum mechanics reveals a world that defies classical determinism, where uncertainty, superposition, and fluctuations are fundamental aspects. Engineering devices that harness these quantum features requires not only precision, but also a deep understanding of how they interact with their surrounding environment. Superconducting circuits, which exploit\r\nmacroscopic quantum coherence in low-loss superconducting materials, provide a scalable platform for implementing such systems. Among the critical elements in these circuits, superinductors—high-impedance, dissipation-free inductive components—play a central role by suppressing charge fluctuations. They allow quantum states to be delocalized in phase space, protect qubits from environmental noise, and facilitate access to phenomena such as dual Josephson physics and ultra-strong coupling regimes. \r\nThis thesis explores two complementary implementations of high-impedance circuits: geometric superinductors, demonstrating that high impedance can be achieved beyond kinetic inductance,\r\nand Josephson junction chains, used to investigate both microwave mode properties and DC transport across the superconductor-to-insulator transition. \r\nPart I addresses geometric superinductors. Contrary to the common belief that high-impedance superconducting circuits require kinetic inductance, we demonstrate that purely geometric designs can achieve characteristic impedance exceeding the resistance quantum. By exploiting mutual coupling between adjacent turns, coil-based inductors achieve enhanced self-inductance, creating a reliable platform for qubits and resonators. Modeling, simulation, fabrication, and\r\ncharacterization confirm that these elements behave as superinductor. With low loss, high linearity, and minimal stray capacitance, these elements are reproducible, free of uncontrolled tunneling events, and capable of strong magnetic coupling. This establishes geometric superinductors as robust, single-wave-function superconducting devices suitable for hardware protected qubits and hybrid systems.\r\nPart II presents classical numerical simulations of a Quantum Phase Slip circuit to study dual Shapiro steps. The circuit consists of an ideal Quantum Phase Slip element embedded in a resistive-inductive environment with a parasitic capacitance.\r\nPart III extends the investigation of high characteristic-impedance circuit elements to one-dimensional Josephson junction chains, which act as a quantum simulator for many-body physics and the superconductor–insulator transition. Different devices are realized on both sides of the DC phase transition, showing either a supercurrent branch or Coulomb blockade at zero bias. The effect of the crossover on microwave modes, however, remains insufficiently investigated. Studying these modes provides insight into the interplay between disorder and phase-slip events. Small differences in circuit component sizes determine which side of the transition a device falls on, making these results relevant not only for fundamental understanding but also for the design of quantum devices, emphasizing the crucial role of the\r\nelectromagnetic environment in stabilizing and controlling fragile quantum states. \r\nTogether, these results illustrate how carefully engineered high characteristic-impedance elements provide a link between macroscopic circuits and the inherently uncertain quantum world, enabling experiments that probe, control, and ultimately exploit quantum fluctuations for applications in quantum information, metrology, solid state physics and beyond.\r\n\r\n"}],"ddc":["539"],"doi":"10.15479/AT-ISTA-20371","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"8755"}]},"alternative_title":["ISTA Thesis"],"day":"23","corr_author":"1","citation":{"chicago":"Trioni, Andrea. “High-Impedance Quantum Circuits for Mesoscopic Physics : Geometric Superinductors and Insulating Josephson Chains.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20371\">https://doi.org/10.15479/AT-ISTA-20371</a>.","apa":"Trioni, A. (2025). <i>High-impedance quantum circuits for mesoscopic physics : Geometric superinductors and insulating Josephson Chains</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20371\">https://doi.org/10.15479/AT-ISTA-20371</a>","mla":"Trioni, Andrea. <i>High-Impedance Quantum Circuits for Mesoscopic Physics : Geometric Superinductors and Insulating Josephson Chains</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20371\">10.15479/AT-ISTA-20371</a>.","ista":"Trioni A. 2025. High-impedance quantum circuits for mesoscopic physics : Geometric superinductors and insulating Josephson Chains. Institute of Science and Technology Austria.","ama":"Trioni A. High-impedance quantum circuits for mesoscopic physics : Geometric superinductors and insulating Josephson Chains. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20371\">10.15479/AT-ISTA-20371</a>","short":"A. Trioni, High-Impedance Quantum Circuits for Mesoscopic Physics : Geometric Superinductors and Insulating Josephson Chains, Institute of Science and Technology Austria, 2025.","ieee":"A. Trioni, “High-impedance quantum circuits for mesoscopic physics : Geometric superinductors and insulating Josephson Chains,” Institute of Science and Technology Austria, 2025."},"date_created":"2025-09-23T09:57:57Z","year":"2025","language":[{"iso":"eng"}],"page":"202","author":[{"first_name":"Andrea","full_name":"Trioni, Andrea","last_name":"Trioni","id":"42F71B44-F248-11E8-B48F-1D18A9856A87"}],"file":[{"file_id":"20392","creator":"atrioni","relation":"main_file","date_updated":"2025-09-25T14:25:31Z","checksum":"6fb925648dfa5f4384814c552ee2f099","date_created":"2025-09-25T07:15:05Z","access_level":"open_access","content_type":"application/pdf","file_name":"2025_Trioni_Andrea_Thesis.pdf","file_size":22351676},{"file_size":60079009,"file_name":"2025_Trioni_Andrea_Thesis.zip","date_created":"2025-09-25T14:45:43Z","content_type":"application/x-zip-compressed","access_level":"closed","checksum":"619dc614bdfbf3999b76ac8890b2cebd","date_updated":"2025-09-26T07:20:48Z","relation":"source_file","file_id":"20396","creator":"atrioni"}],"date_published":"2025-09-23T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","status":"public","acknowledgement":"I also gratefully acknowledge the generous support of the NOMIS Foundation Project \"Protected\r\nStates of Quantum Matter\" and the grant from the Beyond-C consortium. Their funding\r\nmade this research possible and gave me the freedom to ask ambitious questions, and try to\r\nanswer them.\r\n"},{"date_updated":"2026-06-18T18:14:07Z","title":"Nuclear and cell surface auxin signaling in A. thaliana developmental transitions","department":[{"_id":"GradSch"},{"_id":"JiFr"},{"_id":"MaLo"}],"_id":"20364","publication_identifier":{"issn":["2663-337X"]},"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"OA_place":"publisher","oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","type":"dissertation","publication_status":"published","degree_awarded":"PhD","month":"09","supervisor":[{"first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596"}],"keyword":["Auxin Signaling","Plant Development"],"has_accepted_license":"1","article_processing_charge":"No","file_date_updated":"2025-09-30T14:31:29Z","ddc":["580"],"doi":"10.15479/AT-ISTA-20364","related_material":{"record":[{"id":"12291","status":"public","relation":"part_of_dissertation"},{"id":"19399","status":"public","relation":"part_of_dissertation"}]},"alternative_title":["ISTA Thesis"],"corr_author":"1","day":"19","citation":{"ama":"Giannini C. Nuclear and cell surface auxin signaling in A. thaliana developmental transitions. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20364\">10.15479/AT-ISTA-20364</a>","short":"C. Giannini, Nuclear and Cell Surface Auxin Signaling in A. Thaliana Developmental Transitions, Institute of Science and Technology Austria, 2025.","ieee":"C. Giannini, “Nuclear and cell surface auxin signaling in A. thaliana developmental transitions,” Institute of Science and Technology Austria, 2025.","ista":"Giannini C. 2025. Nuclear and cell surface auxin signaling in A. thaliana developmental transitions. Institute of Science and Technology Austria.","chicago":"Giannini, Caterina. “Nuclear and Cell Surface Auxin Signaling in A. Thaliana Developmental Transitions.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20364\">https://doi.org/10.15479/AT-ISTA-20364</a>.","apa":"Giannini, C. (2025). <i>Nuclear and cell surface auxin signaling in A. thaliana developmental transitions</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20364\">https://doi.org/10.15479/AT-ISTA-20364</a>","mla":"Giannini, Caterina. <i>Nuclear and Cell Surface Auxin Signaling in A. Thaliana Developmental Transitions</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20364\">10.15479/AT-ISTA-20364</a>."},"date_created":"2025-09-19T12:23:38Z","year":"2025","page":"151","language":[{"iso":"eng"}],"author":[{"first_name":"Caterina","id":"e3fdddd5-f6e0-11ea-865d-ca99ee6367f4","last_name":"Giannini","full_name":"Giannini, Caterina"}],"date_published":"2025-09-19T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"file_size":14278965,"file_name":"2025_Giannini_Caterina_Thesis...pdf","content_type":"application/pdf","access_level":"closed","date_created":"2025-09-24T14:46:34Z","checksum":"536ba1701453b0b2346be14c046b2911","date_updated":"2025-09-30T14:31:29Z","embargo":"2026-09-30","relation":"main_file","embargo_to":"open_access","creator":"cgiannin","file_id":"20390"},{"checksum":"192f55262f2da2ea0a59d9c23a1b8573","date_created":"2025-09-24T14:46:35Z","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"2025_Giannini_Caterina_Thesis...docx","file_size":24499022,"file_id":"20391","creator":"cgiannin","relation":"source_file","date_updated":"2025-09-24T14:46:35Z"}],"status":"public","acknowledgement":"Plant Facility,\r\nProtein Service Facility"},{"OA_place":"publisher","publication_identifier":{"issn":["2663-337X"]},"_id":"20339","department":[{"_id":"GradSch"},{"_id":"UlWa"}],"tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"title":"Topological methods in discrete geometry and theoretical computer science : Measure partitioning and constraint satisfaction problems","date_updated":"2026-06-18T18:18:27Z","supervisor":[{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","last_name":"Wagner","full_name":"Wagner, Uli","orcid":"0000-0002-1494-0568","first_name":"Uli"}],"month":"09","degree_awarded":"PhD","type":"dissertation","publication_status":"published","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","date_created":"2025-09-10T12:17:55Z","citation":{"ista":"Tasinato G. 2025. Topological methods in discrete geometry and theoretical computer science : Measure partitioning and constraint satisfaction problems. Institute of Science and Technology Austria.","mla":"Tasinato, Gianluca. <i>Topological Methods in Discrete Geometry and Theoretical Computer Science : Measure Partitioning and Constraint Satisfaction Problems</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20339\">10.15479/AT-ISTA-20339</a>.","apa":"Tasinato, G. (2025). <i>Topological methods in discrete geometry and theoretical computer science : Measure partitioning and constraint satisfaction problems</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20339\">https://doi.org/10.15479/AT-ISTA-20339</a>","chicago":"Tasinato, Gianluca. “Topological Methods in Discrete Geometry and Theoretical Computer Science : Measure Partitioning and Constraint Satisfaction Problems.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20339\">https://doi.org/10.15479/AT-ISTA-20339</a>.","short":"G. Tasinato, Topological Methods in Discrete Geometry and Theoretical Computer Science : Measure Partitioning and Constraint Satisfaction Problems, Institute of Science and Technology Austria, 2025.","ieee":"G. Tasinato, “Topological methods in discrete geometry and theoretical computer science : Measure partitioning and constraint satisfaction problems,” Institute of Science and Technology Austria, 2025.","ama":"Tasinato G. Topological methods in discrete geometry and theoretical computer science : Measure partitioning and constraint satisfaction problems. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20339\">10.15479/AT-ISTA-20339</a>"},"day":"10","corr_author":"1","alternative_title":["ISTA Thesis"],"related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"20008"},{"status":"public","relation":"part_of_dissertation","id":"15168"},{"status":"public","relation":"part_of_dissertation","id":"19860"}]},"doi":"10.15479/AT-ISTA-20339","ddc":["516"],"abstract":[{"text":"This thesis investigates the interplay between algebraic and topological methods and combinatorial problems, focusing on approximate graph colourings and mass partitioning. The unifying theme throughout the dissertation is the use of continuous maps and symmetry constraints to extract combinatorial insights.\r\n\r\nWe first explore approximate graph colouring problems and more generally promise constraint satisfaction problems. Using tools from equivariant topology in combination with the general theory of polymorphism of a promise constraint satisfaction problem, we establish hardness for specific types of approximations.\r\n\r\nIn the second part, we address mass partitioning problems, where one seeks to divide geometric objects or measures in Euclidean space into parts of equal size using hyperplanes. Employing techniques from topological combinatorics (configuration space/test map setup and Borsuk–Ulam type theorems), we both obtain a new equipartitioning result in the and provide a fast algorithm for computing equipartitioning of point sets in 3D.\r\n","lang":"eng"}],"oa":1,"file_date_updated":"2025-09-11T12:26:14Z","article_processing_charge":"No","has_accepted_license":"1","status":"public","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"file_size":2218562,"file_name":"thesis-source.zip","date_created":"2025-09-11T12:24:12Z","content_type":"application/x-zip-compressed","access_level":"closed","checksum":"ae097a515b9bb4d4b025ca854ae2ed76","date_updated":"2025-09-11T12:24:12Z","relation":"source_file","file_id":"20344","creator":"gtasinat"},{"date_updated":"2025-09-11T12:26:14Z","creator":"gtasinat","file_id":"20345","relation":"main_file","success":1,"file_name":"2025_Tasinato_Gianluca_Thesis.pdf","file_size":10071982,"checksum":"04b2e016409e52167ce42b0eef839fbf","content_type":"application/pdf","access_level":"open_access","date_created":"2025-09-11T12:26:14Z"}],"date_published":"2025-09-10T00:00:00Z","author":[{"first_name":"Gianluca","full_name":"Tasinato, Gianluca","id":"0433290C-AF8F-11E9-A4C7-F729E6697425","last_name":"Tasinato"}],"language":[{"iso":"eng"}],"page":"106","year":"2025"},{"acknowledgement":"The work in this thesis was supported by a grant from the Simons Foundation (662960, BH).\r\n","status":"public","author":[{"first_name":"Gökhan","full_name":"Yalniz, Gökhan","orcid":"0000-0002-8490-9312","last_name":"Yalniz","id":"66E74FA2-D8BF-11E9-8249-8DE2E5697425"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"file_size":20058169,"file_name":"Gökhan Yalnız - PhD thesis.pdf","success":1,"content_type":"application/pdf","access_level":"open_access","date_created":"2025-05-12T15:13:28Z","checksum":"0e452642b79f13633f1595bde71a67e3","date_updated":"2025-05-12T15:13:28Z","relation":"main_file","creator":"gyalniz","file_id":"19685"},{"file_name":"Movie 2A.1.mp4","file_size":37763743,"checksum":"921099d76adab2df784ce12ce41cfb22","access_level":"open_access","content_type":"video/mp4","date_created":"2025-05-12T15:15:59Z","description":"3D visualizations of the turbulent flow (left) and the periodic orbits (middle) that are being shadowed along with the local state space projections (right) onto the principal components of the respective periodic orbit. Shown here are the isosurfaces of velocity (red/blue: ±95% of the instantaneous maximum) and vorticity (purple/green: ±65% of the instantaneous maximum) in the x-direction. Markers along the projections are in sync with the 3D visualizations. The movie corresponds to the initial time interval (up to t = 100) of figure 2.2 (a,b); periodic orbits and the state space projections are shown only through the shadowing events indicated in figure 2.2 (b).","date_updated":"2025-05-12T15:43:28Z","creator":"gyalniz","file_id":"19686","relation":"supplementary_material","title":"Chapter 2 - Movie 2A.1"},{"file_name":"Movie 3A.1.mp4","file_size":3902655,"checksum":"0ae5ac7d9896003c0c4207dd746808dc","date_created":"2025-05-12T15:16:09Z","access_level":"open_access","content_type":"video/mp4","description":"Turbulent flow (left) in HKW domain and its symmetry reduction (right). Shown here are the isosurfaces of streamwise velocity (red/blue: u = 0.5 max/min u) and streamwise vorticity (green/purple: ω_x = 0.5 max/min ω_x).","date_updated":"2025-05-12T15:43:28Z","file_id":"19687","creator":"gyalniz","title":"Chapter 3 - Movie 3A.1","relation":"supplementary_material"},{"relation":"supplementary_material","title":"Chapter 3 - Movie 3A.2","creator":"gyalniz","file_id":"19688","date_updated":"2025-05-12T15:43:28Z","description":"Turbulent flow (left) in P2K domain and its symmetry reduction (right). Shown here are the isosurfaces of streamwise velocity (red/blue: u = 0.5 max/min u) and streamwise vorticity (green/purple: ω_x = 0.5 max/min ω_x).","access_level":"open_access","content_type":"video/mp4","date_created":"2025-05-12T15:16:21Z","checksum":"ef8d270e066c1a9c3cb5ae46acf945e6","file_size":7043169,"file_name":"Movie 3A.2.mp4"},{"file_size":7748659,"file_name":"Movie 3A.3.mp4","date_created":"2025-05-12T15:16:36Z","content_type":"video/mp4","access_level":"open_access","checksum":"7ed871f428100d6827ac9b0e8ca8e985","date_updated":"2025-05-12T15:43:28Z","description":"Relative periodic orbit RPO_79.4 (left) of the plane-Couette flow (HKW domain) and its symmetry reduction (right). Shown here are the isosurfaces of streamwise velocity (red/blue: u = 0.5 max/min u) and streamwise vorticity (green/purple: ω_x = 0.5 max/min ω_x).","title":"Chapter 3 - Movie 3A.3","relation":"supplementary_material","file_id":"19689","creator":"gyalniz"},{"checksum":"dd5a252e1da00c8f303588e22e2baeef","access_level":"open_access","content_type":"video/mp4","date_created":"2025-05-12T15:16:50Z","file_name":"Movie 3A.4.mp4","file_size":5873052,"creator":"gyalniz","file_id":"19690","relation":"supplementary_material","title":"Chapter 3 - Movie 3A.4","description":"Symmetry-reduced flow (left), its SRDMD approximation (middle), and state space projection (right) showing the spiral-out episode in P2K domain (figure 3.6 (b) and figure 3.8 (b)). Shown here are the isosurfaces of streamwise velocity (red/blue: u = 0.5 max/min u) and streamwise vorticity (green/purple: ω_x = 0.5 max/min ω_x).","date_updated":"2025-05-12T15:43:28Z"},{"relation":"supplementary_material","title":"Chapter 4 - Movie 4A.1","creator":"gyalniz","file_id":"19691","date_updated":"2025-05-12T15:43:28Z","description":"Movie demonstrating the quasi-steady Reynolds number descent from turbulence to a periodic orbit.","access_level":"open_access","content_type":"video/mp4","date_created":"2025-05-12T15:17:11Z","checksum":"5ac58b86810698db28cbfc28f351ff70","file_size":9209327,"file_name":"Movie 4A.1.mp4"},{"description":"Streamwise velocity fluctuations (from laminar) of plane-Couette flow (Re^C =335) at the y = 0 wall-normal plane in coordinates stationary with respect to the bulk velocity. Here, x is the streamwise direction (the wall at y = 1 moves to the right) and z is the spanwise direction. Time is in advectime time units. Shown is the full (L_x = L_z = 400) domain.","date_updated":"2025-05-12T15:43:28Z","creator":"gyalniz","file_id":"19692","relation":"supplementary_material","title":"Chapter 5 - Movie 5A.1","file_name":"Movie 5A.1.mp4","file_size":5893993,"checksum":"ac877f1e1ef39439911bf37cb1793b8e","access_level":"open_access","content_type":"video/mp4","date_created":"2025-05-12T15:17:43Z"},{"file_size":3990352,"file_name":"Movie 5A.2.mp4","content_type":"video/mp4","access_level":"open_access","date_created":"2025-05-12T15:17:49Z","checksum":"fd17eabb70129ceaa414e40924d1d2fe","date_updated":"2025-05-12T15:43:28Z","description":"Streamwise velocity fluctuations (from laminar) of plane-Poiseuille flow (Re^P =660) at the y = 0.5 wall-normal plane in coordinates stationary with respect to the bulk velocity. Here, x is the streamwise direction (the mean negative pressure gradient is to the right) and z is the spanwise direction. Time is in advectime time units. Shown is the full (L_x = L_z = 400) domain.","relation":"supplementary_material","title":"Chapter 5 - Movie 5A.2","creator":"gyalniz","file_id":"19693"},{"date_updated":"2025-05-12T15:43:28Z","description":"Streamwise velocity fluctuations (from laminar) of plane-Poiseuille flow (Re^P=660) at the y = 0.5 wall-normal plane in coordinates stationary with respect to the average velocity of the downstream tip of the stripe. Here, x is the streamwise direction (the mean negative pressure gradient is to the right) and z is the spanwise direction. Time is in advectime time units. Shown is a zoom-in of the full (L_x = L_z) domain.","relation":"supplementary_material","title":"Chapter 5 - Movie 5A.3","creator":"gyalniz","file_id":"19694","file_size":5171009,"file_name":"Movie 5A.3.mp4","content_type":"video/mp4","access_level":"open_access","date_created":"2025-05-12T15:17:58Z","checksum":"32f904497ab0bbee38f0788d96b91454"},{"creator":"gyalniz","file_id":"19695","relation":"source_file","date_updated":"2025-05-12T15:43:28Z","checksum":"f313261b9bb12dfb943fead8318954c6","content_type":"application/x-zip-compressed","access_level":"closed","date_created":"2025-05-12T15:27:10Z","file_name":"Gökhan Yalnız - PhD thesis.zip","file_size":18991996}],"date_published":"2025-05-13T00:00:00Z","language":[{"iso":"eng"}],"page":"155","year":"2025","alternative_title":["ISTA Thesis"],"day":"13","corr_author":"1","date_created":"2025-05-12T15:12:28Z","citation":{"apa":"Yalniz, G. (2025). <i>Transition to turbulence : Data-, solution-, and pattern-driven approaches</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19684\">https://doi.org/10.15479/AT-ISTA-19684</a>","mla":"Yalniz, Gökhan. <i>Transition to Turbulence : Data-, Solution-, and Pattern-Driven Approaches</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19684\">10.15479/AT-ISTA-19684</a>.","chicago":"Yalniz, Gökhan. “Transition to Turbulence : Data-, Solution-, and Pattern-Driven Approaches.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19684\">https://doi.org/10.15479/AT-ISTA-19684</a>.","ista":"Yalniz G. 2025. Transition to turbulence : Data-, solution-, and pattern-driven approaches. Institute of Science and Technology Austria.","ama":"Yalniz G. Transition to turbulence : Data-, solution-, and pattern-driven approaches. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19684\">10.15479/AT-ISTA-19684</a>","short":"G. Yalniz, Transition to Turbulence : Data-, Solution-, and Pattern-Driven Approaches, Institute of Science and Technology Austria, 2025.","ieee":"G. Yalniz, “Transition to turbulence : Data-, solution-, and pattern-driven approaches,” Institute of Science and Technology Austria, 2025."},"doi":"10.15479/AT-ISTA-19684","related_material":{"record":[{"id":"9558","status":"public","relation":"part_of_dissertation"},{"id":"12105","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"13274"},{"status":"public","relation":"part_of_dissertation","id":"14466"},{"id":"7563","relation":"part_of_dissertation","status":"public"}]},"file_date_updated":"2025-05-12T15:43:28Z","oa":1,"abstract":[{"lang":"eng","text":"The overarching goal of this thesis is to break down the complexity of turbulent flows in terms of enumerable, coherent structures and patterns. In a five-paper series, we adopt a variety of perspectives and techniques to relate the properties of systems of increasing complexity to their underlying coherent structures. \r\n\r\nInitially, we take a dynamical systems point of view, seeing turbulent flow as a chaotic trajectory bouncing between exact unstable solutions of the underlying equations of motion. Using persistent homology, the main tool of topological data analysis capturing the persistence across scales of topological features in a point cloud, we introduce a method that quantifies visits of turbulent trajectories to unstable time-periodic solutions, also called periodic orbits. We demonstrate this method first in the Rössler and Kuramoto–Sivashinsky systems. Using this method in 3D Kolmogorov flow, we extract a Markov chain from turbulent data, where each node corresponds to the neighbourhood of a periodic orbit. The invariant distribution of this Markov chain reproduces expectation values on turbulent data when it is used to weight averages on the respective periodic orbits.\r\n\r\nIn more realistic, wall-bounded settings, such as plane-Couette flow (pcf) driven by the relative motion of the walls, or plane-Poiseuille flow (ppf) driven by a pressure gradient, finding exact solutions is difficult. We use dynamic mode decomposition (DMD), a dimensionality reduction method for sequential data, to identify and approximate low-dimensional dynamics without knowing any exact solutions. Most spatially-extended systems are equivariant under translations, and in such cases spatial drifts dominate DMD, hindering its use in the search for and modelling of low-dimensional dynamics. We augment DMD with a symmetry reduction method trained on turbulent data to stop it from seeing translations as a feature, improving its ability to extract dynamical information in translation-equivariant systems. We find segments of turbulent trajectories that linearize well with their symmetry-reduced DMD spectra, akin to dynamics near exact solutions. Searching for harmonics in the spectra gives leads for periodic orbits with spatial drifts, one of which converges to a new solution.\r\n\r\nIn larger domains, turbulence can localize and coexist with surrounding laminar flow. Our preceding approaches are global, taking all of a domain into account at once, and cannot readily treat each localized patch individually. Working first in a minimal oblique domain that can host a single 1D-localized turbulent patch, we find that turbulence in ppf is connected to a stable periodic orbit at a flow velocity much lower than when turbulence is first onset. We show that, well in advance of sustained turbulence, chaos sets in explosively, and for long time horizons, time series are consistent with that of a random process.\r\n\r\nFinally, in much larger domains, we study and compare 2D-localized turbulence that appears as large-scale inclined structures, called stripes, in ppf and pcf. While appearing similar, we find that stripes in these two settings differ significantly in terms of how they sustain themselves, and in higher velocities, how they proliferate."}],"ddc":["514","519","532","004"],"has_accepted_license":"1","article_processing_charge":"No","supervisor":[{"full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","last_name":"Hof","id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn"}],"month":"05","project":[{"grant_number":"662960","name":"Revisiting the Turbulence Problem Using Statistical Mechanics","_id":"238598C6-32DE-11EA-91FC-C7463DDC885E"}],"degree_awarded":"PhD","oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","publication_status":"published","type":"dissertation","publication_identifier":{"issn":["2663-337X"]},"acknowledged_ssus":[{"_id":"ScienComp"}],"OA_place":"publisher","_id":"19684","department":[{"_id":"GradSch"},{"_id":"BjHo"}],"title":"Transition to turbulence : Data-, solution-, and pattern-driven approaches","date_updated":"2026-06-18T19:23:35Z"},{"keyword":["entanglement-enhanced atom interferometry","cavity QED","spin-squeezing","dipole trap","quantum optics"],"supervisor":[{"first_name":"Onur","full_name":"Hosten, Onur","orcid":"0000-0002-2031-204X","last_name":"Hosten","id":"4C02D85E-F248-11E8-B48F-1D18A9856A87"}],"month":"12","degree_awarded":"PhD","type":"dissertation","publication_status":"published","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","OA_place":"publisher","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-075-6"]},"_id":"20798","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)"},"department":[{"_id":"GradSch"},{"_id":"OnHo"}],"title":"Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry","date_updated":"2026-06-15T22:30:04Z","status":"public","OA_embargo":"6","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"access_level":"open_access","content_type":"application/pdf","date_created":"2025-12-12T11:53:42Z","checksum":"1be72faf529a5e8a2d03cb3d5f808b77","file_size":47536855,"file_name":"2025_Wald_Sebastian_Thesis.pdf","relation":"main_file","embargo":"2026-06-15","creator":"swald","file_id":"20809","date_updated":"2026-06-15T22:30:03Z"},{"checksum":"8c3a1904dceb4bcd04bc9f14b2594bab","date_created":"2025-12-12T11:54:55Z","content_type":"application/x-zip-compressed","access_level":"closed","file_name":"2025_Wald_Sebastian_Thesis.zip","file_size":40127601,"file_id":"20810","creator":"swald","embargo_to":"open_access","relation":"source_file","date_updated":"2026-06-15T22:30:03Z"}],"date_published":"2025-12-11T00:00:00Z","author":[{"first_name":"Sebastian","last_name":"Wald","id":"133F200A-B015-11E9-AD41-0EDAE5697425","full_name":"Wald, Sebastian","orcid":"0000-0002-5869-1604"}],"page":"152","language":[{"iso":"eng"}],"year":"2025","date_created":"2025-12-11T11:48:11Z","citation":{"ista":"Wald S. 2025. Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry. Institute of Science and Technology Austria.","apa":"Wald, S. (2025). <i>Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20798\">https://doi.org/10.15479/AT-ISTA-20798</a>","mla":"Wald, Sebastian. <i>Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom Interferometry</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20798\">10.15479/AT-ISTA-20798</a>.","chicago":"Wald, Sebastian. “Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom Interferometry.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20798\">https://doi.org/10.15479/AT-ISTA-20798</a>.","ama":"Wald S. Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20798\">10.15479/AT-ISTA-20798</a>","short":"S. Wald, Atoms in a Propagating-Wave Cavity for Squeezed Mach-Zehnder Atom Interferometry, Institute of Science and Technology Austria, 2025.","ieee":"S. Wald, “Atoms in a propagating-wave cavity for squeezed Mach-Zehnder atom interferometry,” Institute of Science and Technology Austria, 2025."},"corr_author":"1","day":"11","alternative_title":["ISTA Thesis"],"related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"14759"}]},"doi":"10.15479/AT-ISTA-20798","ddc":["530"],"oa":1,"file_date_updated":"2026-06-15T22:30:03Z","article_processing_charge":"No","has_accepted_license":"1"},{"ddc":["570","539","571"],"oa":1,"file_date_updated":"2026-06-11T22:30:02Z","article_processing_charge":"No","has_accepted_license":"1","date_created":"2025-12-10T19:37:41Z","citation":{"apa":"Zivadinovic, P. (2025). <i>Scale-free activity as a basis for spatial learning and memory in the brain</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20777\">https://doi.org/10.15479/AT-ISTA-20777</a>","chicago":"Zivadinovic, Predrag. “Scale-Free Activity as a Basis for Spatial Learning and Memory in the Brain.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20777\">https://doi.org/10.15479/AT-ISTA-20777</a>.","mla":"Zivadinovic, Predrag. <i>Scale-Free Activity as a Basis for Spatial Learning and Memory in the Brain</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20777\">10.15479/AT-ISTA-20777</a>.","ista":"Zivadinovic P. 2025. Scale-free activity as a basis for spatial learning and memory in the brain. Institute of Science and Technology Austria.","ama":"Zivadinovic P. Scale-free activity as a basis for spatial learning and memory in the brain. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20777\">10.15479/AT-ISTA-20777</a>","short":"P. Zivadinovic, Scale-Free Activity as a Basis for Spatial Learning and Memory in the Brain, Institute of Science and Technology Austria, 2025.","ieee":"P. Zivadinovic, “Scale-free activity as a basis for spatial learning and memory in the brain,” Institute of Science and Technology Austria, 2025."},"day":"11","corr_author":"1","alternative_title":["ISTA Thesis"],"doi":"10.15479/AT-ISTA-20777","page":"104","language":[{"iso":"eng"}],"year":"2025","acknowledgement":"My work has been funded through the project \"Functional Advantages of Critical Brain\r\nDynamics\" of the ISTA interdisciplinary fund and through the FWF.\r\n","status":"public","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_published":"2025-12-11T00:00:00Z","file":[{"date_updated":"2026-06-11T22:30:02Z","embargo":"2026-06-11","relation":"main_file","creator":"pzivadin","file_id":"20778","file_size":8105379,"file_name":"2025_Zivadinovic_Predrag_PhD_thesis.pdf","access_level":"open_access","content_type":"application/pdf","date_created":"2025-12-10T19:28:20Z","checksum":"aae9d1ed53f7b67f75e289c26a02b72f"},{"date_updated":"2026-06-11T22:30:02Z","creator":"pzivadin","embargo_to":"open_access","file_id":"20779","relation":"source_file","file_name":"2025_Zivadinovic_Predrag_PhD_thesis_source.zip","file_size":8512240,"checksum":"8a08a3804ce7d9d625fdf1631113da8c","access_level":"closed","content_type":"application/zip","date_created":"2025-12-10T19:28:10Z"}],"author":[{"first_name":"Predrag","full_name":"Zivadinovic, Predrag","last_name":"Zivadinovic","id":"68AA0E5A-AFDA-11E9-9994-141DE6697425"}],"title":"Scale-free activity as a basis for spatial learning and memory in the brain","department":[{"_id":"GradSch"},{"_id":"JoCs"}],"date_updated":"2026-06-11T22:30:03Z","OA_place":"publisher","publication_identifier":{"issn":["2663-337X"]},"_id":"20777","degree_awarded":"PhD","publisher":"Institute of Science and Technology Austria","publication_status":"published","type":"dissertation","oa_version":"Published Version","supervisor":[{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","last_name":"Csicsvari","full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","first_name":"Jozsef L"}],"month":"12","project":[{"grant_number":"M03318","name":"Functional Advantages of Critical Brain Dynamics","_id":"eb943429-77a9-11ec-83b8-9f471cdf5c67"}]},{"author":[{"first_name":"Andrea D","orcid":"0000-0003-1727-6612","full_name":"Cumpelik, Andrea D","last_name":"Cumpelik","id":"3F158B32-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2025-02-18T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"access_level":"open_access","content_type":"application/pdf","date_created":"2025-03-25T11:07:55Z","checksum":"1c7573303d8e5f6da3eb03d59055390f","file_size":11869040,"file_name":"2025_Thesis_Cumpelik_corrections_PDFA.pdf","relation":"main_file","embargo":"2025-09-30","creator":"acumpeli","file_id":"19457","date_updated":"2025-09-30T22:30:02Z"},{"date_updated":"2025-09-30T22:30:02Z","relation":"source_file","file_id":"19458","creator":"acumpeli","embargo_to":"open_access","file_size":20436467,"file_name":"2025_Thesis_Cumpelik_corrections.docx","date_created":"2025-03-25T11:08:05Z","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","checksum":"b93265ebd9a53f7a14100d0d48b4ff5b"}],"OA_embargo":"6 months","status":"public","year":"2025","page":"96","language":[{"iso":"eng"}],"doi":"10.15479/AT-ISTA-19456","alternative_title":["ISTA Thesis"],"day":"18","corr_author":"1","date_created":"2025-03-25T11:22:38Z","citation":{"ama":"Cumpelik AD. The role of prefrontal spatial coding in supporting a contextual association task. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19456\">10.15479/AT-ISTA-19456</a>","short":"A.D. Cumpelik, The Role of Prefrontal Spatial Coding in Supporting a Contextual Association Task, Institute of Science and Technology Austria, 2025.","ieee":"A. D. Cumpelik, “The role of prefrontal spatial coding in supporting a contextual association task,” Institute of Science and Technology Austria, 2025.","chicago":"Cumpelik, Andrea D. “The Role of Prefrontal Spatial Coding in Supporting a Contextual Association Task.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19456\">https://doi.org/10.15479/AT-ISTA-19456</a>.","apa":"Cumpelik, A. D. (2025). <i>The role of prefrontal spatial coding in supporting a contextual association task</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19456\">https://doi.org/10.15479/AT-ISTA-19456</a>","mla":"Cumpelik, Andrea D. <i>The Role of Prefrontal Spatial Coding in Supporting a Contextual Association Task</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19456\">10.15479/AT-ISTA-19456</a>.","ista":"Cumpelik AD. 2025. The role of prefrontal spatial coding in supporting a contextual association task. Institute of Science and Technology Austria."},"has_accepted_license":"1","article_processing_charge":"No","file_date_updated":"2025-09-30T22:30:02Z","oa":1,"abstract":[{"lang":"eng","text":"Making decisions requires flexibly adapting to changing environments, a process that\r\ndepends on accurately interpreting current contingencies and integrating them with\r\npast experience. Two brain regions are particularly critical for this process, the medial\r\nprefrontal cortex (mPFC) and the hippocampus. Using contextual information from the\r\nhippocampus, the mPFC selects relevant cognitive frameworks and suppresses\r\nirrelevant ones to guide appropriate actions. Several studies have shown that some\r\nmPFC pyramidal neurons become spatially tuned when spatial information is required\r\nto guide goal-directed behavior. However, the role of prefrontal spatial representations\r\nin learning and decision making is not well understood. This work aims to characterize\r\nthe role of mPFC spatial tuning in supporting a contextual association task. Rats were\r\ntrained to learn two cue–location associations on a radial arm maze over multiple days,\r\nwhile we simultaneously recorded from dorsal CA1 of the hippocampus and the\r\nprelimbic area of the mPFC. We describe a subset of spatially tuned hippocampal and\r\nprefrontal pyramidal neurons that “flicker” between multiple spatial representations on\r\ndifferent trials, suggesting dynamic, context-dependent coding. This flickering may\r\nprovide a substrate for how the network reorganizes in response to task demands,\r\nlikely by enabling the flexible evaluation of competing representations. "}],"ddc":["612"],"month":"02","supervisor":[{"last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","first_name":"Jozsef L"}],"keyword":["neuroscience","decision making","learning","cognitive flexibility","medial prefrontal cortex","hippocampus","electrophysiology"],"oa_version":"Published Version","type":"dissertation","publisher":"Institute of Science and Technology Austria","publication_status":"published","degree_awarded":"PhD","_id":"19456","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-056-5"]},"acknowledged_ssus":[{"_id":"PreCl"},{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"M-Shop"}],"OA_place":"publisher","date_updated":"2026-04-07T12:37:58Z","title":"The role of prefrontal spatial coding in supporting a contextual association task","department":[{"_id":"GradSch"},{"_id":"JoCs"}]},{"_id":"19993","publication_identifier":{"issn":["2663-337X"]},"acknowledged_ssus":[{"_id":"LifeSc"}],"OA_place":"publisher","date_updated":"2026-04-07T12:39:58Z","tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"title":"Social immunity in a tri-partite host-pathogen relationship","department":[{"_id":"GradSch"},{"_id":"SyCr"}],"month":"07","supervisor":[{"last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","full_name":"Cremer, Sylvia","orcid":"0000-0002-2193-3868","first_name":"Sylvia"}],"oa_version":"Published Version","publication_status":"published","type":"dissertation","publisher":"Institute of Science and Technology Austria","degree_awarded":"PhD","doi":"10.15479/AT-ISTA-19993","alternative_title":["ISTA Thesis"],"corr_author":"1","day":"11","citation":{"short":"F. Strahodinsky, Social Immunity in a Tri-Partite Host-Pathogen Relationship, Institute of Science and Technology Austria, 2025.","ieee":"F. Strahodinsky, “Social immunity in a tri-partite host-pathogen relationship,” Institute of Science and Technology Austria, 2025.","ama":"Strahodinsky F. Social immunity in a tri-partite host-pathogen relationship. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19993\">10.15479/AT-ISTA-19993</a>","mla":"Strahodinsky, Florian. <i>Social Immunity in a Tri-Partite Host-Pathogen Relationship</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19993\">10.15479/AT-ISTA-19993</a>.","chicago":"Strahodinsky, Florian. “Social Immunity in a Tri-Partite Host-Pathogen Relationship.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19993\">https://doi.org/10.15479/AT-ISTA-19993</a>.","apa":"Strahodinsky, F. (2025). <i>Social immunity in a tri-partite host-pathogen relationship</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19993\">https://doi.org/10.15479/AT-ISTA-19993</a>","ista":"Strahodinsky F. 2025. Social immunity in a tri-partite host-pathogen relationship. Institute of Science and Technology Austria."},"date_created":"2025-07-10T14:12:20Z","has_accepted_license":"1","article_processing_charge":"No","file_date_updated":"2026-01-15T23:30:03Z","oa":1,"abstract":[{"lang":"eng","text":"Ants are frequently challenged by different pathogens, which they counter with\r\nindividual and collective responses. Usually, the pathogens like fungi or viruses are\r\nsolitary and passive pathogens transmitted from host to host. Here, we use a nematobacterial pathogen complex to study worm-borne disease in black garden ants. These\r\nentomopathogenic nematodes are active parasites with an own behavior and chasing\r\npray.\r\nIn the first chapter, we investigated the basic biology of the host-pathogen relationship.\r\nWe tested different ant life stages and found that adult ants display defense behaviors\r\nand are generally resistant to nematode infection, whereas brood is highly susceptible.\r\nIn the case of worker pupae, we found a slight protective effect of the cocoon. When\r\nlarvae are accompanied by adults, meaning a queen or a group of workers, survival is\r\nsignificantly enhanced. Moreover, we found that nematodes can transmit from infected\r\ncadavers to healthy worker larvae, confirming a transmissible disease in ants. Again,\r\nworker presence significantly reduces transmission risk. In the end, we were also able\r\nto disentangle the pathogen system and investigate the pathogenic effect of the\r\nbacterial and nematode components.\r\nIn the second chapter, we studied the effect of multiple infections in adult queens and\r\nqueen larvae. By multiple exposures in the mode of coinfection and superinfections,\r\nwe wanted to assess the detrimental effect of combined fungal and nematode\r\nexposure to better understand how the pathogens interact with each other in an ant\r\nhost. We found instances where combined exposure lead to higher mortality in a given\r\ntime frame in both, adult queens and queen larvae.\r\nOverall entomopathogenic nematodes are a promising model to study worm infections\r\nin ants which extend our knowledge on collective disease defense."}],"ddc":["570"],"author":[{"first_name":"Florian","full_name":"Strahodinsky, Florian","id":"979E35EE-C996-11E9-8C7C-CF13E6697425","last_name":"Strahodinsky"}],"date_published":"2025-07-11T00:00:00Z","file":[{"file_name":"Thesis_Florian_Strahodinsky_DOCX.docx","file_size":9857392,"checksum":"df3a02f0d937ea9a3d79d5fb94fff097","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed","date_created":"2025-07-14T13:18:37Z","date_updated":"2026-01-15T23:30:03Z","embargo_to":"open_access","creator":"fstrahod","file_id":"20021","relation":"source_file"},{"file_name":"Thesis_Florian_Strahodinsky_PDF.pdf","file_size":6439602,"checksum":"7164c21fe1946e839f7b8acd255ce803","date_created":"2025-07-14T13:18:38Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2026-01-15T23:30:03Z","file_id":"20022","creator":"fstrahod","relation":"main_file","embargo":"2026-01-15"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","status":"public","year":"2025","language":[{"iso":"eng"}],"page":"138"},{"file_date_updated":"2025-12-27T23:30:02Z","oa":1,"ddc":["530"],"abstract":[{"text":"Flows of ordinary fluids such as water or air transition from laminar to turbulent\r\nmotion as the velocity increases. This simple dependence of the flow state\r\nsolely on inertia, does not apply to more complex substances such as polymericand biofluids which commonly have elastic as well as viscous properties. Here\r\nvarious different instabilities and turbulent states can arise at low and even\r\nvanishing inertia, while high inertia turbulence counterintuitively is suppressed\r\nand its drag strongly reduced. We here show in experiments of a viscoelastic\r\nmodel fluid that the phenomena observed at low and high inertia have a\r\ncommon origin and that the same dynamical state, elasto-inertial turbulence,\r\npersists across four orders of magnitude in Reynolds number, ranging from\r\nvery low inertia, all the way to high inertia Maximum drag reduction (MDR)\r\nasymptote. We also explore the transitions from Newtonian turbulence to\r\nMDR, and specific cases of flow at high polymer concentrations, exploring the\r\nrelationship between flow at these wide range of control parameters.\r\n","lang":"eng"}],"has_accepted_license":"1","article_processing_charge":"No","alternative_title":["ISTA Thesis"],"day":"26","corr_author":"1","date_created":"2025-06-26T08:39:08Z","citation":{"ista":"Suresh SS. 2025. Turbulence in polymeric flows : A characterisation of elasto-inertial turbulence and the maximum drag reduction asymptote. Institute of Science and Technology Austria.","mla":"Suresh, Sarath S. <i>Turbulence in Polymeric Flows : A Characterisation of Elasto-Inertial Turbulence and the Maximum Drag Reduction Asymptote</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19906\">10.15479/AT-ISTA-19906</a>.","chicago":"Suresh, Sarath S. “Turbulence in Polymeric Flows : A Characterisation of Elasto-Inertial Turbulence and the Maximum Drag Reduction Asymptote.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19906\">https://doi.org/10.15479/AT-ISTA-19906</a>.","apa":"Suresh, S. S. (2025). <i>Turbulence in polymeric flows : A characterisation of elasto-inertial turbulence and the maximum drag reduction asymptote</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19906\">https://doi.org/10.15479/AT-ISTA-19906</a>","ieee":"S. S. Suresh, “Turbulence in polymeric flows : A characterisation of elasto-inertial turbulence and the maximum drag reduction asymptote,” Institute of Science and Technology Austria, 2025.","short":"S.S. Suresh, Turbulence in Polymeric Flows : A Characterisation of Elasto-Inertial Turbulence and the Maximum Drag Reduction Asymptote, Institute of Science and Technology Austria, 2025.","ama":"Suresh SS. Turbulence in polymeric flows : A characterisation of elasto-inertial turbulence and the maximum drag reduction asymptote. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19906\">10.15479/AT-ISTA-19906</a>"},"doi":"10.15479/AT-ISTA-19906","related_material":{"record":[{"id":"10299","status":"public","relation":"part_of_dissertation"}]},"page":"82","language":[{"iso":"eng"}],"year":"2025","status":"public","acknowledgement":"This work was partially funded by the European Union’s Horizon 2020 research\r\nand innovation programme under the Marie Skłodowska-Curie grant agreement\r\nNo. 665385.","author":[{"full_name":"Suresh, Sarath S","last_name":"Suresh","id":"3D126CC4-F248-11E8-B48F-1D18A9856A87","first_name":"Sarath S"}],"date_published":"2025-06-26T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"content_type":"application/pdf","access_level":"open_access","date_created":"2025-06-26T08:40:53Z","checksum":"302a07605a9e64ac247c2036d5f5b1cd","file_size":6504571,"file_name":"Thesis_v9_PDFA2b.pdf","embargo":"2025-12-27","relation":"main_file","creator":"cchlebak","file_id":"19907","date_updated":"2025-12-27T23:30:02Z"},{"creator":"cchlebak","embargo_to":"open_access","file_id":"19908","relation":"source_file","date_updated":"2025-12-27T23:30:02Z","checksum":"5d69d10bdacc24c27f02924379405bd9","access_level":"closed","content_type":"application/x-zip-compressed","date_created":"2025-06-26T08:41:24Z","file_name":"Thesis Template - ISTA [istaustriathesis].zip","file_size":59092991}],"title":"Turbulence in polymeric flows : A characterisation of elasto-inertial turbulence and the maximum drag reduction asymptote","tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"department":[{"_id":"GradSch"},{"_id":"BjHo"}],"date_updated":"2026-04-07T12:39:19Z","publication_identifier":{"issn":["2663-337X"]},"acknowledged_ssus":[{"_id":"M-Shop"}],"OA_place":"publisher","ec_funded":1,"_id":"19906","degree_awarded":"PhD","oa_version":"Published Version","publication_status":"published","publisher":"Institute of Science and Technology Austria","type":"dissertation","supervisor":[{"first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87","last_name":"Hof","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754"}],"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020","name":"International IST Doctoral Program"}],"month":"06"},{"language":[{"iso":"eng"}],"page":"129","year":"2025","status":"public","acknowledgement":"My work would also not have been possible without the Imaging and Optics, the Life Science\r\nand the Preclinical Facility of ISTA. Your support has facilitated my research substantially. I\r\nalso want to thank the Graduate School Office for their never-ending support and their sincere\r\neffort to improve the PhD programme of the ISTA even further.\r\nThis work was supported by the Gesellschaft für Forschungsförderung Niederösterreich\r\nm.b.H. fellowship (SC19-011). Thank you for recognizing the importance of this project.","date_published":"2025-05-29T00:00:00Z","file":[{"date_updated":"2025-11-30T23:30:02Z","embargo":"2025-11-30","relation":"main_file","creator":"cchlebak","file_id":"19764","file_size":42879974,"file_name":"Thesis_Lehr_PDFA.pdf","access_level":"open_access","content_type":"application/pdf","date_created":"2025-05-30T09:10:22Z","checksum":"8cd7fe3ca990adbcafdece119aa0973d"},{"access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2025-05-30T09:31:15Z","checksum":"0c87dd5fc803450a47b20736b5f86a2f","file_size":18731094,"file_name":"Thesis_Lehr_emptyPages.docx","relation":"source_file","creator":"cchlebak","embargo_to":"open_access","file_id":"19765","date_updated":"2025-11-30T23:30:02Z"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","author":[{"first_name":"Stefanie","orcid":"0000-0001-8703-1093","full_name":"Rus, Stefanie","id":"4D9EC9B6-F248-11E8-B48F-1D18A9856A87","last_name":"Rus"}],"abstract":[{"text":"Pattern formation in developing organs is controlled by morphogens. These signalling\r\nmolecules form concentration gradients across tissues, thereby providing positional\r\ninformation that instructs the pattern of cell differentiation. Morphogen gradients are highly\r\ndynamic in space and time. Many factors such as morphogen production, spreading,\r\ndegradation, cellular rearrangements and others could contribute to changes in the gradient\r\nshape, yet how the spatiotemporal signalling dynamics arise in many systems is still unclear.\r\nWe studied the dynamics of morphogen signalling and tissue patterning in the developing\r\nvertebrate neural tube. In this system, neural crest, roof plate and distinct dorsal progenitor\r\nsubtypes are specified in a spatially and temporally ordered manner in response to dorsal-toventral gradients of BMP and WNT signalling activity. How the BMP and WNT gradients are\r\nestablished and interpreted to ensure ordered cell specification is poorly understood.\r\nTo address this question, we developed a 2D embryonic stem cell differentiation system that\r\ncaptures key features of dorsal neural tube development. In this system, differentiated\r\ncolonies display remarkable self-organised pattern formation in response to uniformly\r\napplied BMP ligand. We established a method of differentiating the colonies using\r\nmicrofabricated stencils, which allowed us to control the initial size and shape of colonies\r\nwithout confining cell migration and colony growth. This led to highly reproducible pattern\r\nformation that facilitates quantification.\r\nUsing this approach, we observed striking two-phase temporal dynamics of BMP signalling in\r\nour colonies: a BMP gradient rapidly forms from the periphery to the centre of colonies,\r\nsubsequently disappears and is re-established again in the second phase. By combining our\r\nquantitative data with a data-driven theoretical model, we uncovered a temporal relay\r\nmechanism that underlies this biphasic BMP signalling dynamics. The first signalling phase is\r\ncontrolled by fast tissue-autonomous negative feedback that restricts the duration of the\r\ninitial response to BMP. The early BMP activity gradient moreover controls the spatial\r\norganisation of the cell type pattern: the absence of a first phase results in disordered cell\r\ntype pattern. The second phase is controlled by slow positive regulation of BMP signalling by\r\nthe transcription factor LMX1A, a key regulator of roof plate identity. WNT promotes the\r\nsecond phase of BMP signalling via positive feedback on LMX1A.\r\nAltogether, the mechanism that we uncovered ensures the coupling of sequential\r\ndevelopmental events, making pattern formation spatially and temporally organised.\r\nFurthermore, this mechanism allows the BMP signalling pathway to be reused in different\r\ncontexts – first for the establishment of the neural plate border, and subsequently for dorsal\r\nneural progenitor patterning. Our study supports a general developmental principle in which\r\nmultiple morphogens interact with transcriptional networks resulting in complex\r\nspatiotemporal signalling dynamics that ultimately drive organised pattern formation.","lang":"eng"}],"ddc":["570"],"oa":1,"file_date_updated":"2025-11-30T23:30:02Z","article_processing_charge":"No","has_accepted_license":"1","citation":{"chicago":"Rus, Stefanie. “Dynamics of Morphogen Signalling and Cell Fate Decisions in the Dorsal Neural Tube.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19763\">https://doi.org/10.15479/AT-ISTA-19763</a>.","apa":"Rus, S. (2025). <i>Dynamics of morphogen signalling and cell fate decisions in the dorsal neural tube</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19763\">https://doi.org/10.15479/AT-ISTA-19763</a>","mla":"Rus, Stefanie. <i>Dynamics of Morphogen Signalling and Cell Fate Decisions in the Dorsal Neural Tube</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19763\">10.15479/AT-ISTA-19763</a>.","ista":"Rus S. 2025. Dynamics of morphogen signalling and cell fate decisions in the dorsal neural tube. Institute of Science and Technology Austria.","ieee":"S. Rus, “Dynamics of morphogen signalling and cell fate decisions in the dorsal neural tube,” Institute of Science and Technology Austria, 2025.","short":"S. Rus, Dynamics of Morphogen Signalling and Cell Fate Decisions in the Dorsal Neural Tube, Institute of Science and Technology Austria, 2025.","ama":"Rus S. Dynamics of morphogen signalling and cell fate decisions in the dorsal neural tube. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19763\">10.15479/AT-ISTA-19763</a>"},"date_created":"2025-05-30T09:14:58Z","day":"29","corr_author":"1","alternative_title":["ISTA Thesis"],"related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"18601"},{"id":"17148","status":"public","relation":"part_of_dissertation"},{"status":"public","relation":"part_of_dissertation","id":"18807"},{"id":"13136","status":"public","relation":"part_of_dissertation"}]},"doi":"10.15479/AT-ISTA-19763","degree_awarded":"PhD","type":"dissertation","publication_status":"published","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","supervisor":[{"full_name":"Kicheva, Anna","orcid":"0000-0003-4509-4998","last_name":"Kicheva","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87","first_name":"Anna"}],"project":[{"name":"The regulatory logic of pattern formation in the vertebrate dorsal neural tube","grant_number":"SC19-011","_id":"9B9B39FA-BA93-11EA-9121-9846C619BF3A"}],"month":"05","title":"Dynamics of morphogen signalling and cell fate decisions in the dorsal neural tube","tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"department":[{"_id":"AnKi"},{"_id":"GradSch"}],"date_updated":"2026-04-14T09:50:53Z","OA_place":"publisher","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"},{"_id":"LifeSc"}],"publication_identifier":{"issn":["2663-337X"]},"_id":"19763"},{"status":"public","acknowledgement":"This work was supported by the European Research Council under grant agreement no. 758053\r\n(ERC StG QUNNECT) and the European Union’s Horizon 2020 research, innovation program\r\nunder grant agreement no. 899354 (FETopen SuperQuLAN) and the Austrian Science Fund\r\n(FWF) through BeyondC (F7105). I want to acknowledge generous support from the Austrian\r\nAcademy of Sciences from a DOC [Doctoral program of the Austrian Academy of Sciences]\r\nfellowship (no. 25129).\r\n","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2025-01-24T00:00:00Z","file":[{"date_updated":"2026-01-29T23:30:03Z","embargo_to":"open_access","creator":"cchlebak","file_id":"18946","relation":"source_file","file_name":"tex for upload.zip","file_size":18856130,"checksum":"71872702e8f46c275eaea44efc4d304f","content_type":"application/x-zip-compressed","access_level":"closed","date_created":"2025-01-29T08:38:08Z"},{"file_size":17344760,"file_name":"ISTThesisGA2022_final.pdf","date_created":"2025-01-29T08:38:34Z","content_type":"application/pdf","access_level":"open_access","checksum":"dfaa06591970f4bff163705802fad56d","date_updated":"2026-01-29T23:30:03Z","relation":"main_file","embargo":"2026-01-29","file_id":"18947","creator":"cchlebak"}],"author":[{"full_name":"Arnold, Georg M","orcid":"0000-0003-1397-7876","id":"3770C838-F248-11E8-B48F-1D18A9856A87","last_name":"Arnold","first_name":"Georg M"}],"page":"135","language":[{"iso":"eng"}],"year":"2025","date_created":"2025-01-24T10:28:39Z","citation":{"ama":"Arnold GM. Microwave-optic interconnects for superconducting circuits. 2025. doi:<a href=\"https://doi.org/10.15479/at:ista:18871\">10.15479/at:ista:18871</a>","short":"G.M. Arnold, Microwave-Optic Interconnects for Superconducting Circuits, Institute of Science and Technology Austria, 2025.","ieee":"G. M. Arnold, “Microwave-optic interconnects for superconducting circuits,” Institute of Science and Technology Austria, 2025.","chicago":"Arnold, Georg M. “Microwave-Optic Interconnects for Superconducting Circuits.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/at:ista:18871\">https://doi.org/10.15479/at:ista:18871</a>.","mla":"Arnold, Georg M. <i>Microwave-Optic Interconnects for Superconducting Circuits</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/at:ista:18871\">10.15479/at:ista:18871</a>.","apa":"Arnold, G. M. (2025). <i>Microwave-optic interconnects for superconducting circuits</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:18871\">https://doi.org/10.15479/at:ista:18871</a>","ista":"Arnold GM. 2025. Microwave-optic interconnects for superconducting circuits. Institute of Science and Technology Austria."},"corr_author":"1","day":"24","alternative_title":["ISTA Thesis"],"related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"6609"},{"status":"public","relation":"part_of_dissertation","id":"8529"},{"relation":"part_of_dissertation","status":"public","id":"18953"},{"status":"public","relation":"part_of_dissertation","id":"10924"},{"id":"9114","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"13200"}]},"doi":"10.15479/at:ista:18871","abstract":[{"text":"\"Can we do this with a new type of computer - a quantum computer?\". This famous\r\nquotation of the brilliant Richard Feynman within a conference talk on \"Simulating physics\r\nwith computers.” is often reverently praised as the origin of the field of quantum computing.\r\nThe idea was to use quantum mechanical systems itself to simulate \"Nature\", which is\r\ninherently quantum mechanical. Now, 43 years later, the theoretical framework of how such\r\na computer can operate has been developed. Two main important concepts for a potential\r\nquantum supremacy, superposition and entanglement, have been exploited to design quantum\r\nalgorithms to significantly speed up certain tasks. Yet, the specific hardware implementation\r\nis still far from being certain, in fact the race between the most promising platforms such as\r\nsuperconducting qubits, bosonic codes, cold atoms, trapped ions, optical computing as well\r\nas spin qubits has recently intensified. If one also includes the most mature applications of\r\nquantum communication technologies, secure quantum key distribution and quantum random\r\nnumber generators, as part of a quantum information technology ecosystem, we are confronted\r\nwith a plethora of different materials, concepts, and also operation frequencies. While\r\nsuperconducting qubits, bosonic codes and spin qubits work in the regime of approximately 5\r\nGHz and are controlled by electrical fields, trapped ions, cold atoms, and optical quantum\r\ncomputing operate with light in the infrared or visible range.\r\nConsequently, a quantum frequency converter or microwave-optic transducer is required\r\nto interface the different frequency domains or establish a long-range network connection\r\nwith suitable telecom fibers. In fact, the combination of different frequency regimes is also\r\nan essential part in our classical modern communication network, where computations are\r\nperformed in electrical circuits and the information exchange over longer distances happens\r\nvia optical fibers. However, the specific challenges specific to building a quantum computer,\r\nalso apply to the development of such a quantum frequency transducer: 1) As we deal with\r\nsingle excitations as the carrier of information, i.e. the smallest possible quantity, the signal\r\ncan easily be corrupted by other noise sources which needs to be avoided by all means. This\r\nis also the reason why microwave quantum computers operate at temperature environments\r\nclose to zero temperature (< 0.1 Kelvin) to avoid corruption by thermal noise. 2) The\r\nfrequency interface generally needs to preserve the phase of the signal as an essential part\r\nof the quantum state. And 3) Quantum signals cannot be copied which would be a typical\r\nstrategy to account for errors in classical computers. And finally, there is a challenge specific to\r\nmicrowave-optic transducers: While quantum computers are operating in one specific frequency\r\ndomain, microwave-optic transducers combine microwave and optical fields in one device.\r\nThis results in the particular challenge that high-energy optical radiation, which is usually\r\nwell-shielded from superconducting microwave quantum processors, are now an essential part\r\nof the device. The concomitant optical radiation in the operating transducer will inevitably\r\nhave a detrimental effect on the superconducting microwave components. Together with the\r\nrequirement of minimal background noise for quantum-limited operation as described above,\r\nv\r\nheating from the absorption of optical photons within the same device where single microwave\r\nexcitations are processed forms a formidable challenge.\r\nThis thesis aims to address this challenge by developing microwave-optic transducers where\r\nthe impact of optical absorption on superconducting circuits in general and superconducting\r\nqubits specifically can be mitigated. In our first approach, we developed a compact device\r\nwith optimized interaction strengths between the different frequency domains. This minimizes\r\nthe optical powers used for transducer operation and thus the optical absorption heating. This\r\nwork was - to the best of our knowledge - the first comprehensive noise study, in an integrated\r\nmicrowave-optic transducer. Unfortunately, we saw that the optical absorption heating added\r\nnoise way above a single excitation. Consequently, a potential quantum signal would have\r\nbeen buried in the noise, added by the transduction.\r\nBuilding on this insight, we utilized a three-dimensional microwave-optic transducer instead\r\nof an integrated device. The larger heat capacity of the macroscopic device with a size\r\nof a few millimeters can absorb a larger fraction of the optical heating before it increases\r\nthe temperature of the device. This allowed us to interface the transducer directly with a\r\nsuperconducting qubit to readout the qubit state in a novel all-optical manner. We showed\r\nthat the microwave-optic transducer can be operated in a regime in which optical fields don’t\r\nharm the sensitive qubit. This is an important prerequisite for the operation of microwave-optic\r\ntransducers in conjunction with microwave quantum processors and brings the integration and\r\nseamless orchestration of different frequency components in a quantum network a step closer.\r\n","lang":"eng"}],"ddc":["530"],"oa":1,"file_date_updated":"2026-01-29T23:30:03Z","article_processing_charge":"No","has_accepted_license":"1","supervisor":[{"first_name":"Johannes M","orcid":"0000-0001-8112-028X","full_name":"Fink, Johannes M","last_name":"Fink","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87"}],"project":[{"_id":"26336814-B435-11E9-9278-68D0E5697425","name":"A Fiber Optic Transceiver for Superconducting Qubits","grant_number":"758053","call_identifier":"H2020"},{"_id":"9B868D20-BA93-11EA-9121-9846C619BF3A","grant_number":"899354","call_identifier":"H2020","name":"Quantum Local Area Networks with Superconducting Qubits"},{"name":"Coherent on-chip conversion of superconducting qubit signals from microwaves to optical frequencies","_id":"2671EB66-B435-11E9-9278-68D0E5697425"},{"_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f","grant_number":"F07105","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits"}],"month":"01","degree_awarded":"PhD","publication_status":"published","type":"dissertation","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","OA_place":"publisher","acknowledged_ssus":[{"_id":"SSU"},{"_id":"M-Shop"},{"_id":"NanoFab"}],"publication_identifier":{"issn":["2663-337X"]},"_id":"18871","ec_funded":1,"tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"department":[{"_id":"JoFi"},{"_id":"GradSch"}],"title":"Microwave-optic interconnects for superconducting circuits","date_updated":"2026-04-16T12:20:43Z"},{"project":[{"_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","name":"Understanding the evolution of continuous genomes","grant_number":"101055327"},{"name":"Snapdragon Speciation","grant_number":"P32166","_id":"05959E1C-7A3F-11EA-A408-12923DDC885E"}],"month":"11","supervisor":[{"first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H"}],"publication_status":"published","type":"dissertation","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","degree_awarded":"PhD","_id":"20694","OA_place":"publisher","acknowledged_ssus":[{"_id":"ScienComp"}],"publication_identifier":{"issn":["2663-337X"]},"date_updated":"2026-04-28T13:20:36Z","tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"department":[{"_id":"GradSch"},{"_id":"NiBa"}],"title":"Using genealogies to study the genomic basis of species divergence","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"creator":"apal","file_id":"20721","embargo":"2026-03-01","relation":"main_file","date_updated":"2026-03-01T23:30:03Z","checksum":"7a10a738d58524aebb5dcbd9b34c21c5","content_type":"application/pdf","access_level":"open_access","date_created":"2025-12-01T13:53:36Z","file_name":"2025_Pal_Arka_Thesis.pdf","file_size":42723135},{"date_created":"2025-12-01T13:53:39Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed","checksum":"166d832b08d0434ce407f8f3cb930fe5","file_size":60632116,"file_name":"2025_Pal_Arka_Thesis.docx","relation":"source_file","file_id":"20722","embargo_to":"open_access","creator":"apal","date_updated":"2026-03-01T23:30:03Z"}],"date_published":"2025-11-25T00:00:00Z","author":[{"last_name":"Pal","id":"6AAB2240-CA9A-11E9-9C1A-D9D1E5697425","orcid":"0000-0002-4530-8469","full_name":"Pal, Arka","first_name":"Arka"}],"status":"public","year":"2025","page":"268","language":[{"iso":"eng"}],"related_material":{"record":[{"id":"12159","relation":"part_of_dissertation","status":"public"},{"id":"14796","status":"public","relation":"part_of_dissertation"},{"id":"20190","status":"public","relation":"part_of_dissertation"}]},"doi":"10.15479/AT-ISTA-20694","date_created":"2025-11-25T13:19:11Z","citation":{"mla":"Pal, Arka. <i>Using Genealogies to Study the Genomic Basis of Species Divergence</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20694\">10.15479/AT-ISTA-20694</a>.","chicago":"Pal, Arka. “Using Genealogies to Study the Genomic Basis of Species Divergence.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20694\">https://doi.org/10.15479/AT-ISTA-20694</a>.","apa":"Pal, A. (2025). <i>Using genealogies to study the genomic basis of species divergence</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20694\">https://doi.org/10.15479/AT-ISTA-20694</a>","ista":"Pal A. 2025. Using genealogies to study the genomic basis of species divergence. Institute of Science and Technology Austria.","short":"A. Pal, Using Genealogies to Study the Genomic Basis of Species Divergence, Institute of Science and Technology Austria, 2025.","ieee":"A. Pal, “Using genealogies to study the genomic basis of species divergence,” Institute of Science and Technology Austria, 2025.","ama":"Pal A. Using genealogies to study the genomic basis of species divergence. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20694\">10.15479/AT-ISTA-20694</a>"},"day":"25","corr_author":"1","alternative_title":["ISTA Thesis"],"article_processing_charge":"No","has_accepted_license":"1","ddc":["576","578"],"abstract":[{"lang":"eng","text":"Understanding the mechanisms underlying speciation is a central aim of evolutionary biology.\r\nA persistent challenge in the field is to identify loci that contribute to reproductive isolation,\r\nwhile disentangling signals of selection from demography, linkage and intrinsic genomic\r\nfeatures. Traditional population genomic approaches that rely on site-based statistics in\r\narbitrary fixed windows face inherent limitations, as they conflate historical and\r\ncontemporary processes of divergence and overlook haplotype structure. Recent advances in\r\nwhole-genome sequencing and methods to infer ancestral recombination graphs (ARGs) now\r\noffer the opportunity to study genealogical relationships explicitly, revealing how lineages\r\ncoalesce and recombine through time. By directly analysing haplotype clustering by species\r\nor phenotype and their patterns of coalescence, ARG-based methods show promise for\r\ndiagnosing sweeps, identifying barrier loci maintained under divergent selection amid gene\r\nflow, and tracing their evolutionary history.\r\nIn this thesis, I explore the utility of genealogical approaches for studying species\r\ndivergence. In chapter 2, I propose a conceptual framework for defining haplotype blocks\r\nthrough the structure of the ARG, using simulations and empirical data to highlight how\r\ngenealogical processes generate rich and often overlooked haplotypic patterns.\r\nIn chapter 3, I examine the genomic basis of a key evolutionary innovation in marine\r\nsnails Littorina. These snails offer a unique opportunity to study an innovation because they\r\ninclude a very recent transition from egg-laying to live bearing, yet snails with the different\r\nreproductive modes are not reciprocally monophyletic. I exploited this by using topology\r\nclustering in ARG-derived local genealogical trees to pinpoint narrow genomic regions or\r\nhaplotype blocks that carry swept alleles, thus revealing that the transition from egg-laying\r\nto live-bearing involves multiple, live-bearer-specific sweeps.\r\nChapter 4 establishes a population-scale, phased genomic resource for Antirrhinum\r\nmajus, using cost-effective haplotagging, then optimizes imputation from low-coverage data\r\nagainst high-accuracy KASP sequencing to maximize sequence completeness with modest\r\naccuracy trade-offs against a traditional short-read sequence pipeline. A hybrid phasing\r\nstrategy combines molecular phasing with statistical phasing to generate phased whole\r\ngenome sequences of 1084 Antirrhinum individuals at a fraction of long-read sequencing\r\ncosts.\r\nIn chapter 5, I analyse hybridising populations from two replicate hybrid zones to find\r\na parallel genetic basis of flower colour, amidst the noise in genomic differentiation landscape\r\ndriven by variation in demographic history. While outlier genome scans of FST failed to dissect\r\nthe causes of differentiation, ARG-based topology clustering revealed a reuse of colour\r\nassociated haplotypes across hybrid zones. In addition to the biological insight, this chapter\r\nalso presents a comparison of the latest ARG inference tools, showing that signals of\r\nAbstract\r\nviii\r\ntopological clustering qualitatively agree between methods, despite differences in the tree\r\nsequences.\r\nNext, in chapter 6, by leveraging ~1000 individuals in one of the hybrid zones, I\r\nintegrated genome-wide association studies of floral pigmentation with genealogical\r\ninference, to test for additional colour loci, and confirm the effect of previously described loci.\r\nThis work demonstrates that flower colour variation is driven by a small number of large effect\r\nloci, while also hinting at the presence of a new candidate regulatory factor.\r\nFinally in chapter 7, in a preliminary analysis, I begin to dissect the genomic island of\r\nspeciation around Rosea/Eluta to understand its evolutionary origins. My results show that it\r\nconsists of 5 highly divergent loci, each of which is associated with flower colour. Using\r\npatterns of coalescence in genealogical trees, I find evidence of staggered selective sweeps\r\nand a persistent localized barrier to gene flow within an otherwise permeable genome.\r\nTogether, these chapters add to the increasing pool of studies using genealogical\r\napproaches to complement and extend site-based statistics to use haplotype structures in\r\nspeciation research. By tracking haplotypes directly and connecting genealogical clustering to\r\npopulation processes, ARG-based inference promises to provide new insights into how local\r\nselective pressures, demographic history, and long-term barriers interact to shape the\r\ngenomic architecture of divergence. By underscoring the value of ARGs in revealing the finescale origins and maintenance of biodiversity, this thesis presents cautious optimism about\r\nthe benefits of using genealogical inference to learn more than what site-based statistics\r\ncould tell us."}],"oa":1,"file_date_updated":"2026-03-01T23:30:03Z"},{"alternative_title":["ISTA Thesis"],"corr_author":"1","day":"13","citation":{"ama":"Saez Mollejo J. Singlet-triplet qubits in planar Germanium : From exchange anisotropies to autonomous tuning . 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19836\">10.15479/AT-ISTA-19836</a>","short":"J. Saez Mollejo, Singlet-Triplet Qubits in Planar Germanium : From Exchange Anisotropies to Autonomous Tuning , Institute of Science and Technology Austria, 2025.","ieee":"J. Saez Mollejo, “Singlet-triplet qubits in planar Germanium : From exchange anisotropies to autonomous tuning ,” Institute of Science and Technology Austria, 2025.","mla":"Saez Mollejo, Jaime. <i>Singlet-Triplet Qubits in Planar Germanium : From Exchange Anisotropies to Autonomous Tuning </i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19836\">10.15479/AT-ISTA-19836</a>.","chicago":"Saez Mollejo, Jaime. “Singlet-Triplet Qubits in Planar Germanium : From Exchange Anisotropies to Autonomous Tuning .” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19836\">https://doi.org/10.15479/AT-ISTA-19836</a>.","apa":"Saez Mollejo, J. (2025). <i>Singlet-triplet qubits in planar Germanium : From exchange anisotropies to autonomous tuning </i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19836\">https://doi.org/10.15479/AT-ISTA-19836</a>","ista":"Saez Mollejo J. 2025. Singlet-triplet qubits in planar Germanium : From exchange anisotropies to autonomous tuning . Institute of Science and Technology Austria."},"date_created":"2025-06-13T09:01:50Z","doi":"10.15479/AT-ISTA-19836","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"19424"}]},"file_date_updated":"2026-04-01T22:30:07Z","oa":1,"abstract":[{"text":"Over the past century, researchers have been fascinated by the quantum nature of the\r\nphysical world, initially striving to understand its fundamental principles and consequences, and\r\neventually progressing toward engineering systems that can control and manipulate quantum\r\nproperties. Today, we stand at the dawn of the quantum technology era. While some quantum\r\ntechnologies follow well-defined roadmaps, others are still in the exciting and uncertain early\r\nstages of development. In the fields of quantum computing and quantum simulation, research\r\nis being conducted across a wide variety of platforms. Each of these demonstrates control over\r\nquantum properties but also faces challenges in scaling up to the level of a mature technology.\r\nThis thesis explores some of the fundamental properties of hole spin qubits in planar germanium.\r\nSemiconductor spin qubits are considered strong candidates for the realization of quantum\r\nprocessors, owing to their long relaxation and coherence times, as well as their compatibility\r\nwith existing semiconductor industry infrastructure. Among these, hole spin qubits in planar\r\ngermanium are particularly promising. Their advantages include a large effective mass, which\r\neases fabrication constraints; inherent protection from hyperfine noise; and strong spin-orbit\r\ninteraction, which enables fast and purely electrical control. However, spin-orbit coupling also\r\nintroduces site-dependent variability across qubits, particularly in the g-tensors and spin-flip\r\ntunneling, which might cause that the quantization axes are not aligned. In this thesis, we\r\ninvestigate the tilt between the quantization axes of two hole spins hosted in a double quantum\r\ndot as a function of both the magnetic field direction and various electrostatic configurations,\r\ndemonstrating that both parameters influence this tilt. We conclude by introducing a machine-learning-assisted routine to automatically tune baseband spin qubits. This approach may prove\r\nto be a powerful tool for characterizing spin-orbit effects and gaining deeper insight into the\r\nphysics governing spin qubit behavior.\r\n","lang":"eng"}],"ddc":["530","539"],"has_accepted_license":"1","article_processing_charge":"No","acknowledgement":"This research was supported by the Scientific Service Units of ISTA through resources provided\r\nby the MIBA Machine Shop and the Nanofabrication facility. We acknowledge the support from\r\nthe European Commission with the project Integrated Germanium Quantum Technology (with\r\nDOI:10.3030/101069515), the NOMIS Foundation, the HORIZON-RIA 101069515 project and\r\nthe FWF Projects Center for Correlated Quantum Materials and Solid State Quantum Systems:\r\nConventional and unconventional topological superconductors (with DOI:10.55776/F86) and\r\nHigh impedance circuit quantum electrodynamics with hole spins (with DOI:10.55776/I5060).\r\n","status":"public","author":[{"full_name":"Saez Mollejo, Jaime","last_name":"Saez Mollejo","id":"e0390f72-f6e0-11ea-865d-862393336714","first_name":"Jaime"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_published":"2025-06-13T00:00:00Z","file":[{"file_name":"istaustriathesis-master - Copy.zip","file_size":59892829,"checksum":"643bfddead59857536cce4d57c775b32","access_level":"closed","content_type":"application/x-zip-compressed","date_created":"2025-06-16T09:38:49Z","date_updated":"2026-04-01T22:30:07Z","creator":"jsaezmol","embargo_to":"open_access","file_id":"19849","relation":"source_file"},{"file_size":22382376,"file_name":"SaezMollejo_PhDFinal_pdfa-1b.pdf","access_level":"open_access","content_type":"application/pdf","date_created":"2025-06-18T08:50:16Z","checksum":"e3dcb767fcc2b1787a455fdda991cefb","date_updated":"2026-04-01T22:30:07Z","embargo":"2026-04-01","relation":"main_file","creator":"jsaezmol","file_id":"19851"}],"language":[{"iso":"eng"}],"page":"175","year":"2025","publication_identifier":{"issn":["2663-337X"]},"acknowledged_ssus":[{"_id":"NanoFab"},{"_id":"M-Shop"}],"OA_place":"publisher","_id":"19836","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"GradSch"},{"_id":"GeKa"}],"title":"Singlet-triplet qubits in planar Germanium : From exchange anisotropies to autonomous tuning ","date_updated":"2026-05-20T06:42:16Z","supervisor":[{"last_name":"Katsaros","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","full_name":"Katsaros, Georgios","orcid":"0000-0001-8342-202X","first_name":"Georgios"}],"month":"06","project":[{"grant_number":"101069515","name":"Integrated Germanium Quantum Technology","_id":"34c0acea-11ca-11ed-8bc3-8775e10fd452"},{"name":"Center for Correlated Quantum Materials and Solid State Quantum Systems: Conventional  and unconventional topological superconductors","grant_number":"F8606","_id":"34a66131-11ca-11ed-8bc3-a31681c6b03e"},{"_id":"c0977eea-5a5b-11eb-8a69-a862db0cf4d1","name":"High impedance circuit quantum electrodynamics with hole spins","grant_number":"I05060"}],"degree_awarded":"PhD","oa_version":"Published Version","type":"dissertation","publisher":"Institute of Science and Technology Austria","publication_status":"published"},{"status":"public","author":[{"id":"3C521EBA-F248-11E8-B48F-1D18A9856A87","last_name":"Wu","full_name":"Wu, Bryan","first_name":"Bryan"}],"date_published":"2025-10-30T00:00:00Z","file":[{"file_id":"20516","creator":"brwu","embargo_to":"open_access","relation":"source_file","date_updated":"2026-04-30T22:30:02Z","checksum":"d32ea83f259f6b0506325cd57b1d44c3","date_created":"2025-10-21T17:33:27Z","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"2025_Wu_Bryan_Thesis.docx","file_size":10603235},{"file_size":6251936,"file_name":"2025_Wu_Bryan_Thesis.pdf","date_created":"2025-10-21T17:33:26Z","access_level":"open_access","content_type":"application/pdf","checksum":"53590046fd3244c5550b4022282449d2","date_updated":"2026-04-30T22:30:02Z","embargo":"2026-04-30","relation":"main_file","file_id":"20517","creator":"brwu"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","language":[{"iso":"eng"}],"page":"102","year":"2025","alternative_title":["ISTA Thesis"],"day":"30","corr_author":"1","date_created":"2025-10-15T13:30:21Z","citation":{"ieee":"B. Wu, “An examination on phages as a naturally composable system,” Institute of Science and Technology Austria, 2025.","short":"B. Wu, An Examination on Phages as a Naturally Composable System, Institute of Science and Technology Austria, 2025.","ama":"Wu B. An examination on phages as a naturally composable system. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20470\">10.15479/AT-ISTA-20470</a>","apa":"Wu, B. (2025). <i>An examination on phages as a naturally composable system</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20470\">https://doi.org/10.15479/AT-ISTA-20470</a>","chicago":"Wu, Bryan. “An Examination on Phages as a Naturally Composable System.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20470\">https://doi.org/10.15479/AT-ISTA-20470</a>.","mla":"Wu, Bryan. <i>An Examination on Phages as a Naturally Composable System</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20470\">10.15479/AT-ISTA-20470</a>.","ista":"Wu B. 2025. An examination on phages as a naturally composable system. Institute of Science and Technology Austria."},"doi":"10.15479/AT-ISTA-20470","file_date_updated":"2026-04-30T22:30:02Z","oa":1,"ddc":["579"],"abstract":[{"text":"Systems design has classically relied on composable systems, in which individual subsystems\r\nhave defined inputs, outputs, and interactions with each other; however, attempts at\r\ndesigning complex systems in synthetic biology has often run in to issues of crosstalk and\r\ninterference, given that these systems must function within the context of the host. In nature,\r\nmobile genetic elements are systems that have evolved to travel between hosts, and thus\r\nappear to be a good candidate with which to evaluate composability. Selecting temperate\r\nphages as a model system, I used mathematical modelling to identify sources of information\r\nthat temperate phages should respond to. I found that essential proteins of temperate phages\r\ncan interfere with potential hosts, indicating limitations to composability. I also designed a\r\nlysogeny reporter construct and characterize its behavior across various laboratory and\r\nenvironmental strains, finding differences in phage lambda lysogens, and potential\r\ninterference from prophages that already exist within the environmental strains. Although\r\nthe information gathered is not conclusive, it suggests that composability is not a key property\r\nof temperate phages, implying that biological systems may not be composable, and that other\r\nsystem design principles should be considered when designing synthetic systems.","lang":"eng"}],"has_accepted_license":"1","article_processing_charge":"No","supervisor":[{"first_name":"Calin C","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","last_name":"Guet","full_name":"Guet, Calin C","orcid":"0000-0001-6220-2052"}],"month":"10","degree_awarded":"PhD","oa_version":"Published Version","publication_status":"published","type":"dissertation","publisher":"Institute of Science and Technology Austria","publication_identifier":{"issn":["2663-337X"]},"OA_place":"publisher","_id":"20470","title":"An examination on phages as a naturally composable system","department":[{"_id":"GradSch"},{"_id":"CaGu"}],"date_updated":"2026-05-06T08:01:28Z"},{"supervisor":[{"first_name":"Johannes M","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X","last_name":"Fink","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87"}],"keyword":["phase transition","open quantum system","phase diagram","cavity quantum electrodynamics","superconducting qubits","semiclassical physics","quantum optics","josephson junction","parametric converter","phase conjugation","quantum radar","quantum entanglement","correlation","quantum sensing"],"project":[{"name":"Quantum readout techniques and technologies","grant_number":"862644","call_identifier":"H2020","_id":"237CBA6C-32DE-11EA-91FC-C7463DDC885E"},{"_id":"bdb108fd-d553-11ed-ba76-83dc74a9864f","name":"QUANTUM INFORMATION SYSTEMS BEYOND CLASSICAL CAPABILITIES / P5- Integration of Superconducting Quantum Circuits","grant_number":"F07105"}],"month":"04","degree_awarded":"PhD","oa_version":"Published Version","publication_status":"published","publisher":"Institute of Science and Technology Austria","type":"dissertation","publication_identifier":{"issn":["2663-337X"]},"OA_place":"publisher","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"M-Shop"},{"_id":"NanoFab"},{"_id":"LifeSc"},{"_id":"SSU"}],"_id":"19533","ec_funded":1,"title":" Quantum remote sensing and non-equilibrium phase transitions in the microwave regime","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"GradSch"},{"_id":"JoFi"}],"date_updated":"2026-06-03T07:16:05Z","acknowledgement":"I acknowledge the generous financial support of the Austrian Science Fund (FWF) via BeyondC\r\n(F7105) and the European Union’s Horizon 2020 research and innovation program (FETopen\r\nQUARTET, Grant Agreement No. 862644), which made this research possible. I also extend\r\nmy sincere appreciation to the MIBA workshop and the Institute of Science and Technology\r\nAustria nanofabrication facility for their technical assistance, which was instrumental in realizing\r\nthis work.","status":"public","author":[{"first_name":"Riya","last_name":"Sett","id":"2E6D040E-F248-11E8-B48F-1D18A9856A87","full_name":"Sett, Riya","orcid":"0000-0001-7641-8348"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2025-04-01T00:00:00Z","file":[{"date_updated":"2025-10-11T22:30:02Z","file_id":"19538","creator":"rsett","embargo":"2025-10-11","relation":"main_file","file_name":"PhD_Thesis_Riya_Sett_pdfa.pdf","file_size":4129208,"checksum":"ba6cd2289d0141a160a14fc97df1632f","date_created":"2025-04-10T11:33:22Z","access_level":"open_access","content_type":"application/pdf"},{"creator":"rsett","embargo_to":"open_access","file_id":"19539","relation":"source_file","date_updated":"2025-10-11T22:30:02Z","checksum":"ee63a94cb8f7adf5e766903028b81ed6","content_type":"application/x-zip-compressed","access_level":"closed","date_created":"2025-04-10T11:34:08Z","file_name":"PhD Thesis Riya Sett.zip","file_size":6646110}],"page":"109","language":[{"iso":"eng"}],"year":"2025","corr_author":"1","day":"1","alternative_title":["ISTA Thesis"],"date_created":"2025-04-09T16:44:26Z","citation":{"ista":"Sett R. 2025.  Quantum remote sensing and non-equilibrium phase transitions in the microwave regime. Institute of Science and Technology Austria.","chicago":"Sett, Riya. “ Quantum Remote Sensing and Non-Equilibrium Phase Transitions in the Microwave Regime.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19533\">https://doi.org/10.15479/AT-ISTA-19533</a>.","mla":"Sett, Riya. <i> Quantum Remote Sensing and Non-Equilibrium Phase Transitions in the Microwave Regime</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19533\">10.15479/AT-ISTA-19533</a>.","apa":"Sett, R. (2025). <i> Quantum remote sensing and non-equilibrium phase transitions in the microwave regime</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19533\">https://doi.org/10.15479/AT-ISTA-19533</a>","short":"R. Sett,  Quantum Remote Sensing and Non-Equilibrium Phase Transitions in the Microwave Regime, Institute of Science and Technology Austria, 2025.","ieee":"R. Sett, “ Quantum remote sensing and non-equilibrium phase transitions in the microwave regime,” Institute of Science and Technology Austria, 2025.","ama":"Sett R.  Quantum remote sensing and non-equilibrium phase transitions in the microwave regime. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19533\">10.15479/AT-ISTA-19533</a>"},"doi":"10.15479/AT-ISTA-19533","related_material":{"record":[{"id":"18978","relation":"research_data","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"19280"},{"id":"17183","status":"public","relation":"part_of_dissertation"},{"id":"13117","relation":"part_of_dissertation","status":"public"}]},"oa":1,"file_date_updated":"2025-10-11T22:30:02Z","ddc":["530"],"abstract":[{"lang":"eng","text":"This thesis explores advancements in quantum remote sensing and non-equilibrium phase\r\ntransitions in the microwave regime, with a focus on dissipative phase transitions and quantumenhanced sensing.\r\nIn the first project, I experimentally studied photon blockade breakdown as a dissipative phase\r\ntransition in a zero-dimensional cavity-qubit system. By defining an appropriate thermodynamic\r\nlimit, we demonstrated that the observed bistability is a genuine signature of a first-order\r\nphase transition in this system. This work provides insight into non-equilibrium quantum\r\ndynamics and phase transitions in driven-dissipative open quantum systems.\r\nThe second project focuses on the experimental realization of a phase-conjugate receiver for\r\nquantum illumination (QI), a quantum sensing protocol that enhances target detection in noisy\r\nenvironments using entangled light. While an ideal spontaneous parametric down-conversion\r\n(SPDC) source and receiver could, in theory, provide up to a 6 dB advantage over classical\r\nillumination, no such ideal receiver exists. Instead, we explore an experimental realization of a\r\nphase-conjugate receiver for QI in the microwave regime at millikelvin temperatures using a\r\nJosephson parametric converter (JPC) as a source of continuous-variable Gaussian entangled\r\nsignal-idler pairs, where a maximum 3 dB advantage is theoretically achievable. We investigate\r\nkey experimental limitations that constrain practical QI performance, contributing to the\r\ndevelopment of quantum-enhanced sensing.\r\nAdditionally, this thesis presents efficient digital signal processing (DSP) techniques implemented in C++ and Python in collaboration with Przemysław Zieliński and Luka Drmić. These\r\nmethods, optimized using the Intel Integrated Performance Primitives (IPP) library, have been\r\nessential in data acquisition, noise filtering, and correlation analysis across multiple research\r\nprojects. Although not real-time, these DSP techniques significantly enhance the accuracy of\r\nquantum measurements.\r\nOverall, this thesis advances quantum-enhanced sensing by establishing the thermodynamic\r\nlimit in a single transmon-cavity system and experimentally exploring a phase-conjugate receiver\r\nfor QI. These findings contribute to quantum metrology, particularly for weak signal detection\r\nand remote sensing in noisy environments.\r\n"}],"has_accepted_license":"1","article_processing_charge":"No"},{"year":"2025","language":[{"iso":"eng"}],"page":"133","author":[{"first_name":"Nikola","id":"3795523E-F248-11E8-B48F-1D18A9856A87","last_name":"Canigova","orcid":"0000-0002-8518-5926","full_name":"Canigova, Nikola"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"file_id":"19748","creator":"cchlebak","embargo_to":"open_access","relation":"source_file","date_updated":"2025-11-27T23:30:02Z","checksum":"1a2d1525d19347fbb879ef57c02951bf","date_created":"2025-05-28T07:38:17Z","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"NikolaCanigova_Thesis_final.docx","file_size":103879193},{"content_type":"application/pdf","access_level":"open_access","date_created":"2025-05-28T07:39:53Z","checksum":"c1d8f9a40a8e19fcf895373f4b773a46","file_size":194530600,"file_name":"NikolaCanigova_Thesis_final_PDFA2a_fixed.pdf","embargo":"2025-11-27","relation":"main_file","creator":"cchlebak","file_id":"19749","date_updated":"2025-11-27T23:30:02Z"}],"date_published":"2025-05-27T00:00:00Z","status":"public","acknowledgement":"This project has received funding from the Austrian Science Fund (FWF) via the doctorate\r\ncollege DK NanoCell and from the European Union’s Horizon 2020 research and innovation\r\nprogramme under the Marie Skłodowska-Curie Grant Agreement No. 665385.\r\n","OA_embargo":"6","has_accepted_license":"1","article_processing_charge":"No","oa":1,"file_date_updated":"2025-11-27T23:30:02Z","ddc":["570"],"abstract":[{"text":"Cell migration is a crucial process in animal development and maintenance. It is incredibly\r\nheterogeneous, with different cell types utilizing fundamentally distinct migration strategies.\r\nThe strategies also depend on the cellular microenvironment, where cells can switch between\r\nmigration modes as they encounter new environmental cues. In this thesis, we investigated\r\nhow dendritic cells adapt their migration strategy when encountering geometrically,\r\nmechanically and chemically distinct environments.\r\nWhen dendritic cells are embedded in a homogeneous fibrous network, they migrate in a fast\r\nand directional amoeboid manner. In this migration strategy, extracellular proteolysis and\r\nintegrin-mediated adhesions are dispensable. Instead, the cells use topography of the\r\nenvironment to propel their cell body forward. To migrate efficiently in the maze of different\r\npore sizes, they position the nucleus ahead of the microtubule organizing center (MTOC) and\r\nuse it to gauge the pores to identify the path of least resistance. Our aim was to identify\r\nwhether dendritic cells adapt their migration strategy when encountering asymmetrical\r\ntransitions into much denser environments with limited choice of large pores. In such invasive\r\ntransitions it is unclear if the cells can cross tight pores without the use of adhesions and\r\nextracellular proteolysis and whether they maintain the nucleus in the cell front.\r\nUsing various cell migration assays such as fibrous 3D collagen gels, geometrically defined\r\nmicrochannels with constrictions and simplistic under agarose migration assay, we provide\r\na comprehensive characterization of invasive migration of dendritic cells. We show that\r\nduring invasion the cells stall and stretch, reflecting the difficulty to translocate the bulky cell\r\nbody into the dense environment. In collagen gels, we show that dendritic cells can invade\r\nwithout proteolysis and adhesions. Instead, they utilize contractility, which can lead to largescale collagen compressions. During invasion, the nucleus stalls at tight constrictions, leading\r\nto a transient organelle reorientation. To resolve the stalling, upregulated rear contractility is\r\nrequired. This contractile force is simultaneously necessary for reverting the nucleus back to\r\nthe cell front after invasion and maintaining this positioning during permissive migration.\r\nA functional role of the reorientation was uncovered in the first collaboration project.\r\nA prominent central actin pool was identified around the MTOC, especially pronounced in\r\ndense and compressive environments. The actin pool was shown to generate pushing forces\r\nto dilate the space for cell translocation. These forces are only necessary in non-permissive\r\nenvironments, where the nucleus reorients to the cell rear, allowing the actin pool to\r\ngenerate space. In permissive environments where space generation is dispensable, the\r\nMTOC is located behind the nucleus and the actin cloud has reduced intensity, allowing more\r\nactin to be incorporated into the lamellipodium, speeding up migration.\r\nIn the second collaboration project, we investigated the effects of distinct chemical\r\nenvironments on dendritic cell migration. The strikingly persistent migration of these cells\r\nwas explained by their ability to modulate and even self-generate chemokine gradients. This\r\nallows the cells to migrate faster and more persistent in uniform chemokine fields compared\r\nto imposed chemokine gradients. The chemokine receptor CCR7 was identified as a crucial\r\nplayer in this process, both sensing the signal and internalizing the chemokine to create a sink.","lang":"eng"}],"doi":"10.15479/AT-ISTA-19745","related_material":{"record":[{"id":"14274","relation":"part_of_dissertation","status":"public"}]},"corr_author":"1","day":"27","alternative_title":["ISTA Thesis"],"date_created":"2025-05-26T08:49:00Z","citation":{"short":"N. Canigova, Adaptive Strategies of Dendritic Cell Migration in Response to Environmental Cues, Institute of Science and Technology Austria, 2025.","ieee":"N. Canigova, “Adaptive strategies of dendritic cell migration in response to environmental cues,” Institute of Science and Technology Austria, 2025.","ama":"Canigova N. Adaptive strategies of dendritic cell migration in response to environmental cues. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19745\">10.15479/AT-ISTA-19745</a>","apa":"Canigova, N. (2025). <i>Adaptive strategies of dendritic cell migration in response to environmental cues</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19745\">https://doi.org/10.15479/AT-ISTA-19745</a>","mla":"Canigova, Nikola. <i>Adaptive Strategies of Dendritic Cell Migration in Response to Environmental Cues</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19745\">10.15479/AT-ISTA-19745</a>.","chicago":"Canigova, Nikola. “Adaptive Strategies of Dendritic Cell Migration in Response to Environmental Cues.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19745\">https://doi.org/10.15479/AT-ISTA-19745</a>.","ista":"Canigova N. 2025. Adaptive strategies of dendritic cell migration in response to environmental cues. Institute of Science and Technology Austria."},"oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","publication_status":"published","type":"dissertation","degree_awarded":"PhD","month":"05","project":[{"name":"International IST Doctoral Program","grant_number":"665385","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"grant_number":"W01250-B20","call_identifier":"FWF","name":"Nano-Analytics of Cellular Systems","_id":"265E2996-B435-11E9-9278-68D0E5697425"}],"supervisor":[{"first_name":"Michael K","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179"}],"date_updated":"2026-06-18T17:34:48Z","department":[{"_id":"MiSi"},{"_id":"GradSch"}],"title":"Adaptive strategies of dendritic cell migration in response to environmental cues","_id":"19745","ec_funded":1,"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-058-9"]},"OA_place":"publisher"},{"day":"10","corr_author":"1","alternative_title":["ISTA Thesis"],"citation":{"apa":"Bett, V. K. (2025). <i>Evolution and regulation of the Z chromosome</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20449\">https://doi.org/10.15479/AT-ISTA-20449</a>","mla":"Bett, Vincent K. <i>Evolution and Regulation of the Z Chromosome</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20449\">10.15479/AT-ISTA-20449</a>.","chicago":"Bett, Vincent K. “Evolution and Regulation of the Z Chromosome.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20449\">https://doi.org/10.15479/AT-ISTA-20449</a>.","ista":"Bett VK. 2025. Evolution and regulation of the Z chromosome. Institute of Science and Technology Austria.","ama":"Bett VK. Evolution and regulation of the Z chromosome. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20449\">10.15479/AT-ISTA-20449</a>","short":"V.K. Bett, Evolution and Regulation of the Z Chromosome, Institute of Science and Technology Austria, 2025.","ieee":"V. K. Bett, “Evolution and regulation of the Z chromosome,” Institute of Science and Technology Austria, 2025."},"date_created":"2025-10-11T08:18:51Z","doi":"10.15479/AT-ISTA-20449","related_material":{"record":[{"id":"19735","status":"public","relation":"part_of_dissertation"},{"id":"15009","status":"public","relation":"part_of_dissertation"}]},"oa":1,"file_date_updated":"2026-06-01T22:30:04Z","ddc":["576"],"abstract":[{"text":"Males and females of many  species differ in morphology, physiology, and behavior. In taxa\r\nwith genetic sex determination, sexual differentiation arises largely from sex-biased gene\r\nexpression, which varies across tissues, developmental stages, and lineages. Increasing\r\nevidence highlights chromatin configuration, which can exist in open or closed states, and can\r\nbe shaped by sex-determination path ways, as a key regulatory layer of this dimorphism.\r\nDegeneration of the Y or W chromosome further contributes to sex -specific differences by\r\naltering gene copy numbers relative to autosomes in heterogametic sex. To mitigate these\r\nimbalances, many eukaryotes have independently evolved dosage compensation mechanisms,\r\noften mediated through chromatin -level regulation. In this thesis, we investigate the\r\nevolutionary dynamics of sex chromosome differentiation in two species, Artemia franciscana\r\nand Cameraria  ohridella , with a particular focus on the extent of dosage compensation\r\nfollowing gene loss in the heterogametic sex and the potential chromatin-based mechanisms\r\nunderlying this process. We further characterize sex -biased gene expression and its regulation\r\nthrough histone modifications. Our analyses also reveal that the A. franciscana genome is\r\nhighly repetitive, with many genes containing intronic transposable elements. We find that\r\nenrichment of histonemo difications associated with constitutive heterochromatin, positively\r\ncorrelates with variation in gene expression levels. Collectively, these findings underscore role\r\nof chromatin regulation in shaping the evolution of sex chromosomes and sexual\r\ndifferentiation. ","lang":"eng"}],"has_accepted_license":"1","article_processing_charge":"No","acknowledgement":"This work was supported by the Austrian Science Fund (FWF) through grants PAT8748323\r\nand SFB F88-10 awarded to Professor Beatriz Vicoso.","status":"public","author":[{"first_name":"Vincent K","id":"57854184-AAE0-11E9-8D04-98D6E5697425","last_name":"Bett","full_name":"Bett, Vincent K"}],"file":[{"date_updated":"2026-06-01T22:30:04Z","embargo":"2026-06-01","relation":"main_file","file_id":"20507","creator":"vbett","file_size":18507283,"file_name":"2025_Bett_Vincent_Thesis.pdf","date_created":"2025-10-20T13:32:29Z","content_type":"application/pdf","access_level":"open_access","checksum":"26905c22bca417198a733d792d8ce422"},{"date_updated":"2026-06-01T22:30:04Z","relation":"source_file","creator":"vbett","embargo_to":"open_access","file_id":"20508","file_size":17163921,"file_name":"2025_Bett_Vincent_Thesis.docx","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2025-10-20T13:35:34Z","checksum":"6a09a8d126d3628bfd8a35202735f267"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_published":"2025-10-10T00:00:00Z","language":[{"iso":"eng"}],"page":"114","year":"2025","publication_identifier":{"issn":["2663-337X"]},"OA_place":"publisher","acknowledged_ssus":[{"_id":"ScienComp"}],"_id":"20449","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"GradSch"},{"_id":"BeVi"}],"title":"Evolution and regulation of the Z chromosome","date_updated":"2026-06-12T08:32:16Z","supervisor":[{"first_name":"Beatriz","orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","last_name":"Vicoso"}],"project":[{"name":"Sex chromosomes in evolution and development","grant_number":"PAT 8748323","_id":"8ed82125-16d5-11f0-9cad-fbcae312235b"},{"_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","grant_number":"F8810","name":"The highjacking of meiosis for asexual reproduction"}],"month":"10","degree_awarded":"PhD","oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","publication_status":"published","type":"dissertation"},{"_id":"19722","OA_place":"publisher","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"publication_identifier":{"isbn":["978-3-99078-059-6"],"issn":["2663-337X"]},"date_updated":"2026-06-12T08:34:29Z","title":"Molecular mechanisms of microtubule reorganization in elongating root epidermal cells","department":[{"_id":"GradSch"},{"_id":"EvBe"}],"month":"05","supervisor":[{"orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","last_name":"Benková","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva"}],"publisher":"Institute of Science and Technology Austria","type":"dissertation","publication_status":"published","oa_version":"Published Version","degree_awarded":"PhD","doi":"10.15479/AT-ISTA-19722","date_created":"2025-05-23T15:21:29Z","citation":{"chicago":"Inumella, Syamala. “Molecular Mechanisms of Microtubule Reorganization in Elongating Root Epidermal Cells.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19722\">https://doi.org/10.15479/AT-ISTA-19722</a>.","apa":"Inumella, S. (2025). <i>Molecular mechanisms of microtubule reorganization in elongating root epidermal cells</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19722\">https://doi.org/10.15479/AT-ISTA-19722</a>","mla":"Inumella, Syamala. <i>Molecular Mechanisms of Microtubule Reorganization in Elongating Root Epidermal Cells</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19722\">10.15479/AT-ISTA-19722</a>.","ista":"Inumella S. 2025. Molecular mechanisms of microtubule reorganization in elongating root epidermal cells. Institute of Science and Technology Austria.","ama":"Inumella S. Molecular mechanisms of microtubule reorganization in elongating root epidermal cells. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19722\">10.15479/AT-ISTA-19722</a>","short":"S. Inumella, Molecular Mechanisms of Microtubule Reorganization in Elongating Root Epidermal Cells, Institute of Science and Technology Austria, 2025.","ieee":"S. Inumella, “Molecular mechanisms of microtubule reorganization in elongating root epidermal cells,” Institute of Science and Technology Austria, 2025."},"day":"23","corr_author":"1","alternative_title":["ISTA Thesis"],"article_processing_charge":"No","has_accepted_license":"1","ddc":["580"],"abstract":[{"lang":"eng","text":"As root epidermal cells progress from a phase of elongation to differentiation, their\r\ncortical microtubule (MT) arrays exhibit a transversal-to-longitudinal reorientation. The\r\nhormone cytokinin, a key regulator of root development, facilitates these cytoskeletal\r\nchanges. However, the molecular mechanisms underlying hormone-mediated MT\r\nreorientation during root development are still unknown. Here, we find that MT reorientation\r\nin root cells differs from the existing model in hypocotyl cells, as it does not rely on MT plusend rescue. We show that cytokinin facilitates MT array reorganization during cell\r\ndifferentiation by promoting katanin’s (KTN1) severing activity, and by modulating KTN1’s\r\nassociation with microtubules. Cytokinin regulates SPIRAL2 (SPR2) in a phosphorylationdependent manner, directing its localization to, and stabilization of, the new MT minus-end\r\ncreated by katanin-mediated severing at crossovers. Notably, our findings suggest that\r\ndynamic and reversible phosphorylation at S579 of SPR2 is crucial for the proper functioning\r\nof the MT severing machinery. Finally, we identify MAP65-1 and CLASP as additional targets\r\nof cytokinin-dependent phosphoregulation. Cytokinin treatment decreases MT-MAP65-1\r\nassociation in elongating cells, likely to expose MTs to KTN1-mediated severing, whereas it\r\nincreases MT-CLASP association to stabilize the growing plus-end. In this way, cytokinin drives\r\nMT reorganization during cell development by simultaneously modulating several\r\nmicrotubule-associated proteins. These results reveal key molecular players in hormonemediated cytoskeletal regulation, and highlight protein phosphorylation as a powerful tool\r\nduring this process."}],"oa":1,"file_date_updated":"2026-05-23T22:30:02Z","date_published":"2025-05-23T00:00:00Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file":[{"checksum":"847ec70b2e40f50e0ddc7b8da201d52c","content_type":"application/pdf","access_level":"open_access","date_created":"2025-05-28T11:59:11Z","file_name":"Final Thesis_Syamala Inumella.pdf","file_size":8292363,"creator":"sinumell","file_id":"19757","embargo":"2026-05-23","relation":"main_file","date_updated":"2026-05-23T22:30:02Z"},{"relation":"source_file","creator":"sinumell","embargo_to":"open_access","file_id":"19758","date_updated":"2026-05-23T22:30:02Z","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2025-05-28T11:59:11Z","checksum":"17cdffdae13a5f65bdad9c84e9e0e3bd","file_size":7145703,"file_name":"Final Thesis_Syamala Inumella.docx"}],"author":[{"first_name":"Syamala","id":"F8660870-D756-11E9-98C5-34DFE5697425","last_name":"Inumella","full_name":"Inumella, Syamala","orcid":"0009-0002-5890-120X"}],"acknowledgement":"Special thanks to the Plant Facility.","status":"public","OA_embargo":"12","year":"2025","page":"113","language":[{"iso":"eng"}]},{"acknowledgement":"The research contained in this thesis has received funding from the Austrian Science\r\nFund (FWF) project 10.55776/F65.","status":"public","author":[{"first_name":"Filippo","id":"3ebd6ba8-edfb-11eb-afb5-91a9745ba308","last_name":"Quattrocchi","orcid":"0009-0000-9773-1931","full_name":"Quattrocchi, Filippo"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_published":"2025-11-03T00:00:00Z","file":[{"date_updated":"2026-01-01T23:30:03Z","embargo":"2026-01-01","relation":"main_file","creator":"fquattro","file_id":"20653","file_size":4326411,"file_name":"2025_quattrocchi_filippo_thesis.pdf","access_level":"open_access","content_type":"application/pdf","date_created":"2025-11-17T21:04:15Z","checksum":"6f55275bdf99992be3a6457d949dd664"},{"file_size":11726509,"file_name":"2025_quattrocchi_thesis.zip","date_created":"2025-11-17T21:05:43Z","content_type":"application/zip","access_level":"closed","checksum":"707e580f5d993a214c0dba456b75837b","date_updated":"2026-01-01T23:30:03Z","relation":"source_file","file_id":"20654","creator":"fquattro","embargo_to":"open_access"}],"language":[{"iso":"eng"}],"page":"240","year":"2025","day":"03","corr_author":"1","alternative_title":["ISTA Thesis"],"citation":{"chicago":"Quattrocchi, Filippo. “Optimal Transport Methods for Kinetic Equations, Boundary Value Problems, and Discretization of Measures.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20563\">https://doi.org/10.15479/AT-ISTA-20563</a>.","apa":"Quattrocchi, F. (2025). <i>Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20563\">https://doi.org/10.15479/AT-ISTA-20563</a>","mla":"Quattrocchi, Filippo. <i>Optimal Transport Methods for Kinetic Equations, Boundary Value Problems, and Discretization of Measures</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20563\">10.15479/AT-ISTA-20563</a>.","ista":"Quattrocchi F. 2025. Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures. Institute of Science and Technology Austria.","ieee":"F. Quattrocchi, “Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures,” Institute of Science and Technology Austria, 2025.","short":"F. Quattrocchi, Optimal Transport Methods for Kinetic Equations, Boundary Value Problems, and Discretization of Measures, Institute of Science and Technology Austria, 2025.","ama":"Quattrocchi F. Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20563\">10.15479/AT-ISTA-20563</a>"},"date_created":"2025-10-28T13:10:49Z","doi":"10.15479/AT-ISTA-20563","related_material":{"record":[{"id":"20569","relation":"part_of_dissertation","status":"public"},{"id":"20571","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"20570"},{"id":"18706","relation":"part_of_dissertation","status":"public"}]},"oa":1,"file_date_updated":"2026-01-01T23:30:03Z","abstract":[{"text":"The theory of optimal transport provides an elegant and powerful description of many evolution\r\nequations as gradient flows. The primary objective of this thesis is to adapt and extend the\r\ntheory to deal with important equations that are not covered by the classical framework,\r\nspecifically boundary value problems and kinetic equations. Additionally, we establish new\r\nresults in periodic homogenization for discrete dynamical optimal transport and in quantization\r\nof measures.\r\nSection 1.1 serves as an invitation to the classical theory of optimal transport, including the\r\nmain definitions and a selection of well-established theorems. Sections 1.2-1.5 introduce the\r\nmain results of this thesis, outline the motivations, and review the current state of the art.\r\nIn Chapter 2, we consider the Fokker–Planck equation on a bounded set with positive Dirichlet\r\nboundary conditions. We construct a time-discrete scheme involving a modification of the\r\nWasserstein distance and, under weak assumptions, prove its convergence to a solution of this\r\nboundary value problem. In dimension 1, we show that this solution is a gradient flow in a\r\nsuitable space of measures.\r\nChapter 3 presents joint work with Giovanni Brigati and Jan Maas. We introduce a new theory\r\nof optimal transport to describe and study particle systems at the mesoscopic scale. We prove\r\nadapted versions of some fundamental theorems, including the Benamou–Brenier formula and\r\nthe identification of absolutely continuous curves of measures.\r\nChapter 4 presents joint work with Lorenzo Portinale. We prove convergence of dynamical\r\ntransportation functionals on periodic graphs in the large-scale limit when the cost functional\r\nis asymptotically linear. Additionally, we show that discrete 1-Wasserstein distances converge\r\nto 1-Wasserstein distances constructed from crystalline norms on R\r\nd\r\n.\r\nChapter 5 concerns optimal empirical quantization: the problem of approximating a measure\r\nby the sum of n equally weighted Dirac deltas, so as to minimize the error in the p-Wasserstein\r\ndistance. Our main result is an analog of Zador’s theorem, providing asymptotic bounds for\r\nthe minimal error as n tends to infinity.\r\n","lang":"eng"}],"ddc":["515","519"],"has_accepted_license":"1","article_processing_charge":"No","supervisor":[{"first_name":"Jan","last_name":"Maas","id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0845-1338","full_name":"Maas, Jan"}],"keyword":["optimal transport","kinetic equations","boundary value problems","quantization","gradient flows","homogenization"],"month":"11","project":[{"_id":"260482E2-B435-11E9-9278-68D0E5697425","name":"Taming Complexity in Partial Differential Systems","call_identifier":"FWF","grant_number":"F06504"}],"degree_awarded":"PhD","oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","publication_status":"published","type":"dissertation","publication_identifier":{"issn":["2663-337X"]},"OA_place":"publisher","_id":"20563","department":[{"_id":"GradSch"},{"_id":"JaMa"}],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Optimal transport methods for kinetic equations, boundary value problems, and discretization of measures","date_updated":"2026-06-18T18:02:13Z"},{"has_accepted_license":"1","article_processing_charge":"No","oa":1,"file_date_updated":"2024-07-11T10:26:22Z","abstract":[{"text":"This thesis describes the development of an atom interferometer designed to exploit the\r\nadvantages of utilizing quantum entanglement for enhanced precision measurements beyond\r\nthe standard quantum limit. While the project remains ongoing, significant progress has been\r\nmade.\r\nA key contribution of this work is the development of Quantrol, an experimental control\r\nsystem leveraging the ARTIQ framework. This software enables precise timing and control\r\nwithout requiring prior knowledge of ARTIQ’s implementation details or coding experience.\r\nThe interface offers user friendly visual comprehension of the experimental sequence and\r\nextended capabilities, allowing researchers to scan variables with a simple click of a mouse.\r\nThe main proposed project is to implement atom interferometric sequence with squeezed input\r\nstates inside of a dipole trap generated by a high finesse cavity. The presence of the dipole\r\ntrap allows one dimensional atomic cloud split while maintaining relatively strong confinement\r\nin other directions.\r\nWe are currently able to trap and cool 87Rb atoms to few micro kelvin temperatures, load\r\nthem into the dipole trap and state prepare them to be used for squeezing and interferometric\r\nsequence.","lang":"eng"}],"ddc":["530"],"doi":"10.15479/at:ista:17225","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"11438"}]},"corr_author":"1","day":"11","alternative_title":["ISTA Thesis"],"date_created":"2024-07-11T09:46:48Z","citation":{"short":"V. Li, Towards a Quantum Entanglement Enhanced Atom Interferomter, Institute of Science and Technology Austria, 2024.","ieee":"V. Li, “Towards a quantum entanglement enhanced atom interferomter,” Institute of Science and Technology Austria, 2024.","ama":"Li V. Towards a quantum entanglement enhanced atom interferomter. 2024. doi:<a href=\"https://doi.org/10.15479/at:ista:17225\">10.15479/at:ista:17225</a>","mla":"Li, Vyacheslav. <i>Towards a Quantum Entanglement Enhanced Atom Interferomter</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/at:ista:17225\">10.15479/at:ista:17225</a>.","chicago":"Li, Vyacheslav. “Towards a Quantum Entanglement Enhanced Atom Interferomter.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/at:ista:17225\">https://doi.org/10.15479/at:ista:17225</a>.","apa":"Li, V. (2024). <i>Towards a quantum entanglement enhanced atom interferomter</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:17225\">https://doi.org/10.15479/at:ista:17225</a>","ista":"Li V. 2024. Towards a quantum entanglement enhanced atom interferomter. Institute of Science and Technology Austria."},"year":"2024","language":[{"iso":"eng"}],"page":"79","author":[{"first_name":"Vyacheslav","full_name":"Li, Vyacheslav","last_name":"Li","id":"3A4FAA92-F248-11E8-B48F-1D18A9856A87"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_published":"2024-07-11T00:00:00Z","file":[{"creator":"vli","file_id":"17228","relation":"main_file","date_updated":"2024-07-11T10:26:22Z","checksum":"15b2dbe8d2c9ed7ca5dd413827928077","access_level":"open_access","content_type":"application/pdf","date_created":"2024-07-11T10:26:22Z","success":1,"file_name":"PhD_Thesis_Vyacheslav_Li_no_signatures_PDFA.pdf","file_size":6729761},{"file_size":9542859,"file_name":"PhD Thesis Vyacheslav Li.zip","date_created":"2024-07-11T10:26:22Z","content_type":"application/x-zip-compressed","access_level":"closed","checksum":"16e904a11d8d0ebb167cb654ddfc7fe5","date_updated":"2024-07-11T10:26:22Z","relation":"source_file","file_id":"17229","creator":"vli"}],"status":"public","date_updated":"2026-04-07T12:42:28Z","title":"Towards a quantum entanglement enhanced atom interferomter","tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"department":[{"_id":"GradSch"},{"_id":"OnHo"}],"_id":"17225","publication_identifier":{"issn":["2663-337X"]},"OA_place":"publisher","oa_version":"Published Version","publication_status":"published","publisher":"Institute of Science and Technology Austria","type":"dissertation","degree_awarded":"PhD","project":[{"grant_number":"101087907","name":"A quantum hybrid of atoms and milligram-scale pendulums: towards gravitational quantum mechanics","_id":"bdb2a702-d553-11ed-ba76-f12e3e5a3bc6"}],"month":"07","supervisor":[{"last_name":"Hosten","id":"4C02D85E-F248-11E8-B48F-1D18A9856A87","full_name":"Hosten, Onur","orcid":"0000-0002-2031-204X","first_name":"Onur"}]}]