[{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","has_accepted_license":"1","date_updated":"2026-08-12T09:19:21Z","pubrep_id":"913","abstract":[{"text":"The aim of this thesis was the development of new strategies for optical and optogenetic control of proliferative and pro-survival signaling, and characterizing them from the molecular mechanism up to cellular effects. These new light-based methods have unique features, such as red light as an activator, or the avoidance of gene delivery, which enable to overcome current limitations, such as light delivery to target tissues and feasibility as therapeutic approach. A special focus was placed on implementing these new light-based approaches in pancreatic β-cells, as β-cells are the key players in diabetes and especially their loss in number negatively affects disease progression. Currently no treatment options are available to compensate the lack of functional β-cells in diabetic patients.\r\nIn a first approach, red-light-activated growth factor receptors, in particular receptor tyrosine kinases were engineered and characterized. Receptor activation with light allows spatio-temporal control compared to ligand-based activation, and especially red light exhibits deeper tissue penetration than other wavelengths of the visible spectrum. Red-light-activated receptor tyrosine kinases robustly activated major growth factor related signaling pathways with a high temporal resolution. Moreover, the remote activation of the proliferative MAPK/Erk pathway by red-light-activated receptor tyrosine kinases in a pancreatic β-cell line was also achieved, through one centimeter thick mouse tissue. Although red-light-activated receptor tyrosine kinases are particularly attractive for applications in animal models due to the deep tissue penetration of red light, a drawback, especially with regard to translation into humans, is the requirement of gene therapy.\r\nIn a second approach an endogenous light-sensitive mechanism was identified and its potential to promote proliferative and pro-survival signals was explored, towards light-based tissue regeneration without the need for gene transfer. Blue-green light illumination was found to be sufficient for the activation of proliferation and survival promoting signaling pathways in primary pancreatic murine and human islets. Blue-green light also led to an increase in proliferation of primary islet cells, an effect which was shown to be mostly β-cell specific in human islets. Moreover, it was demonstrated that this approach of pancreatic β-cell expansion did not have any negative effect on the β-cell function, in particular on their insulin secretion capacity. In contrast, a trend for enhanced insulin secretion under high glucose conditions after illumination was detected. In order to unravel the detailed characteristics of this endogenous light-sensitive mechanism, the precise light requirements were determined. In addition, the expression of light sensing proteins, OPN3 and rhodopsin, was detected. The observed effects were found to be independent of handling effects such as temperature differences and cytochrome c oxidase dependent ATP increase, but they were found to be enhanced through the knockout of OPN3. The exact mechanism of how islets cells sense light and the identity of the photoreceptor remains unknown.\r\nSummarized two new light-based systems with unique features were established that enable the activation of proliferative and pro-survival signaling pathways. While red-light-activated receptor tyrosine kinases open a new avenue for optogenetics research, by allowing non-invasive control of signaling in vivo, the identified endogenous light-sensitive mechanism has the potential to be the basis of a gene therapy-free therapeutical approach for light-based β-cell expansion.","lang":"eng"}],"month":"01","related_material":{"record":[{"id":"1678","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"2084"},{"status":"public","id":"1441","relation":"part_of_dissertation"},{"status":"public","id":"1028","relation":"part_of_dissertation"}]},"status":"public","_id":"418","supervisor":[{"first_name":"Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","full_name":"Janovjak, Harald L","orcid":"0000-0002-8023-9315","last_name":"Janovjak"}],"citation":{"mla":"Gschaider-Reichhart, Eva. <i>Optical and Optogenetic Control of Proliferation and Survival </i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_913\">10.15479/AT:ISTA:th_913</a>.","chicago":"Gschaider-Reichhart, Eva. “Optical and Optogenetic Control of Proliferation and Survival .” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_913\">https://doi.org/10.15479/AT:ISTA:th_913</a>.","ieee":"E. Gschaider-Reichhart, “Optical and optogenetic control of proliferation and survival ,” Institute of Science and Technology Austria, 2018.","ista":"Gschaider-Reichhart E. 2018. Optical and optogenetic control of proliferation and survival . Institute of Science and Technology Austria.","short":"E. Gschaider-Reichhart, Optical and Optogenetic Control of Proliferation and Survival , Institute of Science and Technology Austria, 2018.","apa":"Gschaider-Reichhart, E. (2018). <i>Optical and optogenetic control of proliferation and survival </i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_913\">https://doi.org/10.15479/AT:ISTA:th_913</a>","ama":"Gschaider-Reichhart E. Optical and optogenetic control of proliferation and survival . 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_913\">10.15479/AT:ISTA:th_913</a>"},"article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"type":"dissertation","file":[{"relation":"source_file","checksum":"697fa72ca36fb1b8ceabc133d58a73e5","creator":"dernst","date_updated":"2020-07-14T12:46:24Z","file_size":7012495,"date_created":"2019-04-05T09:28:03Z","file_name":"2018_THESIS_Gschaider-Reichhart_source.docx","file_id":"6222","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed"},{"date_updated":"2020-07-14T12:46:24Z","relation":"main_file","checksum":"58d7d1e9e58aeb7f061ab686b1d8a48c","creator":"dernst","file_name":"2018_THESIS_Gschaider-Reichhart.pdf","content_type":"application/pdf","access_level":"open_access","file_id":"6223","file_size":6355280,"date_created":"2019-04-05T09:28:03Z"}],"publication_status":"published","page":"107","author":[{"id":"3FEE232A-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","last_name":"Gschaider-Reichhart","orcid":"0000-0002-7218-7738","full_name":"Gschaider-Reichhart, Eva"}],"date_published":"2018-01-08T00:00:00Z","title":"Optical and optogenetic control of proliferation and survival ","ddc":["571","570"],"publist_id":"7405","day":"08","alternative_title":["ISTA Thesis"],"publisher":"Institute of Science and Technology Austria","doi":"10.15479/AT:ISTA:th_913","department":[{"_id":"HaJa"}],"year":"2018","corr_author":"1","OA_place":"publisher","language":[{"iso":"eng"}],"file_date_updated":"2020-07-14T12:46:24Z","oa":1,"license":"https://creativecommons.org/licenses/by/4.0/","degree_awarded":"PhD","date_created":"2018-12-11T11:46:22Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd"},{"alternative_title":["ISTA Thesis"],"day":"12","doi":"10.15479/AT:ISTA:TH_1040","publisher":"Institute of Science and Technology Austria","ddc":["515","519"],"publist_id":"7772","language":[{"iso":"eng"}],"corr_author":"1","OA_place":"publisher","degree_awarded":"PhD","date_created":"2018-12-11T11:44:53Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file_date_updated":"2020-07-14T12:44:57Z","oa":1,"ec_funded":1,"project":[{"name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804","call_identifier":"FP7"}],"year":"2018","department":[{"_id":"LaEr"}],"status":"public","_id":"149","supervisor":[{"full_name":"Erdös, László","last_name":"Erdös","orcid":"0000-0001-5366-9603","first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"}],"publication_identifier":{"issn":["2663-337X"]},"type":"dissertation","citation":{"chicago":"Alt, Johannes. “Dyson Equation and Eigenvalue Statistics of Random Matrices.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_1040\">https://doi.org/10.15479/AT:ISTA:TH_1040</a>.","ieee":"J. Alt, “Dyson equation and eigenvalue statistics of random matrices,” Institute of Science and Technology Austria, 2018.","mla":"Alt, Johannes. <i>Dyson Equation and Eigenvalue Statistics of Random Matrices</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_1040\">10.15479/AT:ISTA:TH_1040</a>.","short":"J. Alt, Dyson Equation and Eigenvalue Statistics of Random Matrices, Institute of Science and Technology Austria, 2018.","ista":"Alt J. 2018. Dyson equation and eigenvalue statistics of random matrices. Institute of Science and Technology Austria.","apa":"Alt, J. (2018). <i>Dyson equation and eigenvalue statistics of random matrices</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:TH_1040\">https://doi.org/10.15479/AT:ISTA:TH_1040</a>","ama":"Alt J. Dyson equation and eigenvalue statistics of random matrices. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:TH_1040\">10.15479/AT:ISTA:TH_1040</a>"},"article_processing_charge":"No","oa_version":"Published Version","has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"related_material":{"record":[{"status":"public","id":"6184","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"6183"},{"relation":"part_of_dissertation","status":"public","id":"1010"},{"relation":"part_of_dissertation","status":"public","id":"550"},{"relation":"part_of_dissertation","status":"public","id":"6240"},{"status":"public","id":"566","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"1677"}]},"date_updated":"2026-08-12T13:58:56Z","pubrep_id":"1040","abstract":[{"text":"The eigenvalue density of many large random matrices is well approximated by a deterministic measure, the self-consistent density of states. In the present work, we show this behaviour for several classes of random matrices. In fact, we establish that, in each of these classes, the self-consistent density of states approximates the eigenvalue density of the random matrix on all scales slightly above the typical eigenvalue spacing. For large classes of random matrices, the self-consistent density of states exhibits several universal features. We prove that, under suitable assumptions, random Gram matrices and Hermitian random matrices with decaying correlations have a 1/3-Hölder continuous self-consistent density of states ρ on R, which is analytic, where it is positive, and has either a square root edge or a cubic root cusp, where it vanishes. We, thus, extend the validity of the corresponding result for Wigner-type matrices from [4, 5, 7]. We show that ρ is determined as the inverse Stieltjes transform of the normalized trace of the unique solution m(z) to the Dyson equation −m(z) −1 = z − a + S[m(z)] on C N×N with the constraint Im m(z) ≥ 0. Here, z lies in the complex upper half-plane, a is a self-adjoint element of C N×N and S is a positivity-preserving operator on C N×N encoding the first two moments of the random matrix. In order to analyze a possible limit of ρ for N → ∞ and address some applications in free probability theory, we also consider the Dyson equation on infinite dimensional von Neumann algebras. We present two applications to random matrices. We first establish that, under certain assumptions, large random matrices with independent entries have a rotationally symmetric self-consistent density of states which is supported on a centered disk in C. Moreover, it is infinitely often differentiable apart from a jump on the boundary of this disk. Second, we show edge universality at all regular (not necessarily extreme) spectral edges for Hermitian random matrices with decaying correlations.","lang":"eng"}],"month":"07","author":[{"first_name":"Johannes","id":"36D3D8B6-F248-11E8-B48F-1D18A9856A87","full_name":"Alt, Johannes","last_name":"Alt"}],"date_published":"2018-07-12T00:00:00Z","title":"Dyson equation and eigenvalue statistics of random matrices","file":[{"creator":"dernst","relation":"main_file","checksum":"d4dad55a7513f345706aaaba90cb1bb8","date_updated":"2020-07-14T12:44:57Z","date_created":"2019-04-08T13:55:20Z","file_size":5801709,"file_name":"2018_thesis_Alt.pdf","content_type":"application/pdf","file_id":"6241","access_level":"open_access"},{"file_name":"2018_thesis_Alt_source.zip","content_type":"application/zip","access_level":"closed","file_id":"6242","file_size":3802059,"date_created":"2019-04-08T13:55:20Z","date_updated":"2020-07-14T12:44:57Z","checksum":"d73fcf46300dce74c403f2b491148ab4","relation":"source_file","creator":"dernst"}],"page":"456","publication_status":"published"},{"article_processing_charge":"No","citation":{"ama":"Ibsen-Jensen R, Tkadlec J, Chatterjee K, Nowak M. Language acquisition with communication between learners. <i>Journal of the Royal Society Interface</i>. 2018;15(140). doi:<a href=\"https://doi.org/10.1098/rsif.2018.0073\">10.1098/rsif.2018.0073</a>","apa":"Ibsen-Jensen, R., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2018). Language acquisition with communication between learners. <i>Journal of the Royal Society Interface</i>. Royal Society. <a href=\"https://doi.org/10.1098/rsif.2018.0073\">https://doi.org/10.1098/rsif.2018.0073</a>","short":"R. Ibsen-Jensen, J. Tkadlec, K. Chatterjee, M. Nowak, Journal of the Royal Society Interface 15 (2018).","ista":"Ibsen-Jensen R, Tkadlec J, Chatterjee K, Nowak M. 2018. Language acquisition with communication between learners. Journal of the Royal Society Interface. 15(140), 20180073.","ieee":"R. Ibsen-Jensen, J. Tkadlec, K. Chatterjee, and M. Nowak, “Language acquisition with communication between learners,” <i>Journal of the Royal Society Interface</i>, vol. 15, no. 140. Royal Society, 2018.","chicago":"Ibsen-Jensen, Rasmus, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. “Language Acquisition with Communication between Learners.” <i>Journal of the Royal Society Interface</i>. Royal Society, 2018. <a href=\"https://doi.org/10.1098/rsif.2018.0073\">https://doi.org/10.1098/rsif.2018.0073</a>.","mla":"Ibsen-Jensen, Rasmus, et al. “Language Acquisition with Communication between Learners.” <i>Journal of the Royal Society Interface</i>, vol. 15, no. 140, 20180073, Royal Society, 2018, doi:<a href=\"https://doi.org/10.1098/rsif.2018.0073\">10.1098/rsif.2018.0073</a>."},"type":"journal_article","publication_identifier":{"eissn":["1742-5662"]},"_id":"198","status":"public","abstract":[{"lang":"eng","text":"We consider a class of students learning a language from a teacher. The situation can be interpreted as a group of child learners receiving input from the linguistic environment. The teacher provides sample sentences. The students try to learn the grammar from the teacher. In addition to just listening to the teacher, the students can also communicate with each other. The students hold hypotheses about the grammar and change them if they receive counter evidence. The process stops when all students have converged to the correct grammar. We study how the time to convergence depends on the structure of the classroom by introducing and evaluating various complexity measures. We find that structured communication between students, although potentially introducing confusion, can greatly reduce some of the complexity measures. Our theory can also be interpreted as applying to the scientific process, where nature is the teacher and the scientists are the students."}],"month":"03","volume":15,"issue":"140","date_updated":"2026-08-12T14:08:29Z","article_type":"original","related_material":{"record":[{"id":"9814","status":"public","relation":"research_data"}],"link":[{"relation":"supplementary_material","url":"https://dx.doi.org/10.6084/m9.figshare.c.4028971"}]},"has_accepted_license":"1","oa_version":"Submitted Version","isi":1,"title":"Language acquisition with communication between learners","article_number":"20180073","date_published":"2018-03-01T00:00:00Z","author":[{"last_name":"Ibsen-Jensen","orcid":"0000-0003-4783-0389","full_name":"Ibsen-Jensen, Rasmus","id":"3B699956-F248-11E8-B48F-1D18A9856A87","first_name":"Rasmus"},{"orcid":"0000-0002-1097-9684","last_name":"Tkadlec","full_name":"Tkadlec, Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","first_name":"Josef"},{"orcid":"0000-0002-4561-241X","last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu"},{"first_name":"Martin","full_name":"Nowak, Martin","last_name":"Nowak"}],"publication_status":"published","publication":"Journal of the Royal Society Interface","file":[{"date_created":"2019-02-12T07:54:37Z","file_size":219837,"file_id":"5955","content_type":"application/pdf","access_level":"open_access","file_name":"2018_RS_IbsenJensen.pdf","creator":"dernst","checksum":"444e1a9d98eb0e780671be82b13025f3","relation":"main_file","date_updated":"2020-07-14T12:45:22Z"}],"quality_controlled":"1","pmid":1,"publisher":"Royal Society","doi":"10.1098/rsif.2018.0073","day":"01","publist_id":"7715","scopus_import":"1","ddc":["000"],"oa":1,"file_date_updated":"2020-07-14T12:45:22Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:45:09Z","language":[{"iso":"eng"}],"external_id":{"isi":["000428576200023"],"pmid":["29593089"]},"department":[{"_id":"KrCh"}],"year":"2018","intvolume":"        15","project":[{"call_identifier":"FP7","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425"},{"name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23","call_identifier":"FWF"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23"}],"ec_funded":1},{"language":[{"iso":"eng"}],"corr_author":"1","OA_place":"publisher","degree_awarded":"PhD","date_created":"2018-12-11T11:44:22Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file_date_updated":"2020-07-14T12:46:37Z","oa":1,"project":[{"name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","_id":"25C878CE-B435-11E9-9278-68D0E5697425","grant_number":"P27533_N27","call_identifier":"FWF"}],"year":"2018","department":[{"_id":"RoSe"}],"day":"04","alternative_title":["ISTA Thesis"],"doi":"10.15479/AT:ISTA:th_1043","publisher":"Institute of Science and Technology Austria","ddc":["515","530","519"],"publist_id":"8002","author":[{"id":"2B5FC9A4-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","last_name":"Moser","full_name":"Moser, Thomas"}],"date_published":"2018-09-04T00:00:00Z","title":"Point interactions in systems of fermions","file":[{"checksum":"fbd8c747d148b468a21213b7cf175225","relation":"main_file","creator":"dernst","date_updated":"2020-07-14T12:46:37Z","date_created":"2019-04-09T07:45:38Z","file_size":851164,"file_name":"2018_Thesis_Moser.pdf","access_level":"open_access","content_type":"application/pdf","file_id":"6256"},{"relation":"source_file","creator":"dernst","checksum":"c28e16ecfc1126d3ce324ec96493c01e","date_updated":"2020-07-14T12:46:37Z","date_created":"2019-04-09T07:45:38Z","file_size":1531516,"file_name":"2018_Thesis_Moser_Source.zip","access_level":"closed","content_type":"application/zip","file_id":"6257"}],"publication_status":"published","page":"115","supervisor":[{"first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","full_name":"Seiringer, Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521"}],"_id":"52","status":"public","publication_identifier":{"issn":["2663-337X"]},"type":"dissertation","citation":{"mla":"Moser, Thomas. <i>Point Interactions in Systems of Fermions</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1043\">10.15479/AT:ISTA:th_1043</a>.","ieee":"T. Moser, “Point interactions in systems of fermions,” Institute of Science and Technology Austria, 2018.","chicago":"Moser, Thomas. “Point Interactions in Systems of Fermions.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1043\">https://doi.org/10.15479/AT:ISTA:th_1043</a>.","ista":"Moser T. 2018. Point interactions in systems of fermions. Institute of Science and Technology Austria.","short":"T. Moser, Point Interactions in Systems of Fermions, Institute of Science and Technology Austria, 2018.","apa":"Moser, T. (2018). <i>Point interactions in systems of fermions</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1043\">https://doi.org/10.15479/AT:ISTA:th_1043</a>","ama":"Moser T. Point interactions in systems of fermions. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1043\">10.15479/AT:ISTA:th_1043</a>"},"article_processing_charge":"No","oa_version":"Published Version","has_accepted_license":"1","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"5856"},{"relation":"part_of_dissertation","status":"public","id":"741"},{"id":"1198","status":"public","relation":"part_of_dissertation"},{"id":"154","status":"public","relation":"part_of_dissertation"}]},"pubrep_id":"1043","date_updated":"2026-08-12T14:12:55Z","month":"09","abstract":[{"lang":"eng","text":"In this thesis we will discuss systems of point interacting fermions, their stability and other spectral properties. Whereas for bosons a point interacting system is always unstable this ques- tion is more subtle for a gas of two species of fermions. In particular the answer depends on the mass ratio between these two species. Most of this work will be focused on the N + M model which consists of two species of fermions with N, M particles respectively which interact via point interactions. We will introduce this model using a formal limit and discuss the N + 1 system in more detail. In particular, we will show that for mass ratios above a critical one, which does not depend on the particle number, the N + 1 system is stable. In the context of this model we will prove rigorous versions of Tan relations which relate various quantities of the point-interacting model. By restricting the N + 1 system to a box we define a finite density model with point in- teractions. In the context of this system we will discuss the energy change when introducing a point-interacting impurity into a system of non-interacting fermions. We will see that this change in energy is bounded independently of the particle number and in particular the bound only depends on the density and the scattering length. As another special case of the N + M model we will show stability of the 2 + 2 model for mass ratios in an interval around one. Further we will investigate a different model of point interactions which was discussed before in the literature and which is, contrary to the N + M model, not given by a limiting procedure but is based on a Dirichlet form. We will show that this system behaves trivially in the thermodynamic limit, i.e. the free energy per particle is the same as the one of the non-interacting system."}]},{"title":"Stability of the 2+2 fermionic system with point interactions","author":[{"full_name":"Moser, Thomas","last_name":"Moser","first_name":"Thomas","id":"2B5FC9A4-F248-11E8-B48F-1D18A9856A87"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","orcid":"0000-0002-6781-0521","last_name":"Seiringer","full_name":"Seiringer, Robert"}],"date_published":"2018-09-01T00:00:00Z","article_number":"19","publication_status":"published","publication":"Mathematical Physics, Analysis and Geometry","file":[{"date_updated":"2020-07-14T12:45:01Z","checksum":"411c4db5700d7297c9cd8ebc5dd29091","creator":"dernst","relation":"main_file","file_id":"5729","file_name":"2018_MathPhysics_Moser.pdf","access_level":"open_access","content_type":"application/pdf","file_size":496973,"date_created":"2018-12-17T16:49:02Z"}],"quality_controlled":"1","citation":{"apa":"Moser, T., &#38; Seiringer, R. (2018). Stability of the 2+2 fermionic system with point interactions. <i>Mathematical Physics, Analysis and Geometry</i>. Springer. <a href=\"https://doi.org/10.1007/s11040-018-9275-3\">https://doi.org/10.1007/s11040-018-9275-3</a>","ama":"Moser T, Seiringer R. Stability of the 2+2 fermionic system with point interactions. <i>Mathematical Physics, Analysis and Geometry</i>. 2018;21(3). doi:<a href=\"https://doi.org/10.1007/s11040-018-9275-3\">10.1007/s11040-018-9275-3</a>","mla":"Moser, Thomas, and Robert Seiringer. “Stability of the 2+2 Fermionic System with Point Interactions.” <i>Mathematical Physics, Analysis and Geometry</i>, vol. 21, no. 3, 19, Springer, 2018, doi:<a href=\"https://doi.org/10.1007/s11040-018-9275-3\">10.1007/s11040-018-9275-3</a>.","ieee":"T. Moser and R. Seiringer, “Stability of the 2+2 fermionic system with point interactions,” <i>Mathematical Physics, Analysis and Geometry</i>, vol. 21, no. 3. Springer, 2018.","chicago":"Moser, Thomas, and Robert Seiringer. “Stability of the 2+2 Fermionic System with Point Interactions.” <i>Mathematical Physics, Analysis and Geometry</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s11040-018-9275-3\">https://doi.org/10.1007/s11040-018-9275-3</a>.","ista":"Moser T, Seiringer R. 2018. Stability of the 2+2 fermionic system with point interactions. Mathematical Physics, Analysis and Geometry. 21(3), 19.","short":"T. Moser, R. Seiringer, Mathematical Physics, Analysis and Geometry 21 (2018)."},"article_processing_charge":"No","publication_identifier":{"issn":["1385-0172"],"eissn":["1572-9656"]},"type":"journal_article","status":"public","_id":"154","date_updated":"2026-08-12T14:12:56Z","issue":"3","volume":21,"abstract":[{"text":"We give a lower bound on the ground state energy of a system of two fermions of one species interacting with two fermions of another species via point interactions. We show that there is a critical mass ratio m2 ≈ 0.58 such that the system is stable, i.e., the energy is bounded from below, for m∈[m2,m2−1]. So far it was not known whether this 2 + 2 system exhibits a stable region at all or whether the formation of four-body bound states causes an unbounded spectrum for all mass ratios, similar to the Thomas effect. Our result gives further evidence for the stability of the more general N + M system.","lang":"eng"}],"month":"09","related_material":{"record":[{"status":"public","id":"52","relation":"dissertation_contains"}]},"article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","isi":1,"has_accepted_license":"1","file_date_updated":"2020-07-14T12:45:01Z","oa":1,"date_created":"2018-12-11T11:44:55Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000439639700001"]},"language":[{"iso":"eng"}],"project":[{"name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","call_identifier":"H2020"},{"_id":"25C878CE-B435-11E9-9278-68D0E5697425","name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","call_identifier":"FWF","grant_number":"P27533_N27"},{"call_identifier":"FWF","_id":"3AC91DDA-15DF-11EA-824D-93A3E7B544D1","name":"FWF Open Access Fund"}],"intvolume":"        21","department":[{"_id":"RoSe"}],"year":"2018","ec_funded":1,"publisher":"Springer","doi":"10.1007/s11040-018-9275-3","day":"01","publist_id":"7767","scopus_import":"1","ddc":["530"],"acknowledgement":"Open access funding provided by Austrian Science Fund (FWF)."},{"scopus_import":"1","oa_version":"None","isi":1,"date_updated":"2026-08-12T14:10:17Z","abstract":[{"lang":"eng","text":"Lesion and electrode location verification are traditionally done via histological examination of stained brain slices, a time-consuming procedure that requires manual estimation. Here, we describe a simple, straightforward method for quantifying lesions and locating electrodes in the brain that is less laborious and yields more detailed results. Whole brains are stained with osmium tetroxide, embedded in resin, and imaged with a micro-CT scanner. The scans result in 3D digital volumes of the brains with resolutions and virtual section thicknesses dependent on the sample size (12-15 and 5-6 µm per voxel for rat and zebra finch brains, respectively). Surface and deep lesions can be characterized, and single tetrodes, tetrode arrays, electrolytic lesions, and silicon probes can also be localized. Free and proprietary software allows experimenters to examine the sample volume from any plane and segment the volume manually or automatically. Because this method generates whole brain volume, lesions and electrodes can be quantified to a much higher degree than in current methods, which will help standardize comparisons within and across studies."}],"month":"11","volume":141,"publist_id":"8050","day":"08","_id":"6","status":"public","citation":{"ieee":"J. Masís, D. Mankus, S. Wolff, G. Guitchounts, M. A. Jösch, and D. Cox, “A micro-CT-based method for characterising lesions and locating electrodes in small animal brains,” <i>Journal of Visualized Experiments</i>, vol. 141. MyJove Corporation, 2018.","chicago":"Masís, Javier, David Mankus, Steffen Wolff, Grigori Guitchounts, Maximilian A Jösch, and David Cox. “A Micro-CT-Based Method for Characterising Lesions and Locating Electrodes in Small Animal Brains.” <i>Journal of Visualized Experiments</i>. MyJove Corporation, 2018. <a href=\"https://doi.org/10.3791/58585\">https://doi.org/10.3791/58585</a>.","mla":"Masís, Javier, et al. “A Micro-CT-Based Method for Characterising Lesions and Locating Electrodes in Small Animal Brains.” <i>Journal of Visualized Experiments</i>, vol. 141, MyJove Corporation, 2018, doi:<a href=\"https://doi.org/10.3791/58585\">10.3791/58585</a>.","short":"J. Masís, D. Mankus, S. Wolff, G. Guitchounts, M.A. Jösch, D. Cox, Journal of Visualized Experiments 141 (2018).","ista":"Masís J, Mankus D, Wolff S, Guitchounts G, Jösch MA, Cox D. 2018. A micro-CT-based method for characterising lesions and locating electrodes in small animal brains. Journal of Visualized Experiments. 141.","apa":"Masís, J., Mankus, D., Wolff, S., Guitchounts, G., Jösch, M. A., &#38; Cox, D. (2018). A micro-CT-based method for characterising lesions and locating electrodes in small animal brains. <i>Journal of Visualized Experiments</i>. MyJove Corporation. <a href=\"https://doi.org/10.3791/58585\">https://doi.org/10.3791/58585</a>","ama":"Masís J, Mankus D, Wolff S, Guitchounts G, Jösch MA, Cox D. A micro-CT-based method for characterising lesions and locating electrodes in small animal brains. <i>Journal of Visualized Experiments</i>. 2018;141. doi:<a href=\"https://doi.org/10.3791/58585\">10.3791/58585</a>"},"article_processing_charge":"No","publisher":"MyJove Corporation","doi":"10.3791/58585","type":"journal_article","publication":"Journal of Visualized Experiments","quality_controlled":"1","publication_status":"published","department":[{"_id":"MaJö"}],"intvolume":"       141","year":"2018","author":[{"full_name":"Masís, Javier","last_name":"Masís","first_name":"Javier"},{"first_name":"David","last_name":"Mankus","full_name":"Mankus, David"},{"first_name":"Steffen","last_name":"Wolff","full_name":"Wolff, Steffen"},{"first_name":"Grigori","last_name":"Guitchounts","full_name":"Guitchounts, Grigori"},{"first_name":"Maximilian A","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","full_name":"Jösch, Maximilian A","orcid":"0000-0002-3937-1330","last_name":"Jösch"},{"last_name":"Cox","full_name":"Cox, David","first_name":"David"}],"date_published":"2018-11-08T00:00:00Z","external_id":{"isi":["000456469400103"]},"language":[{"iso":"eng"}],"date_created":"2018-12-11T11:44:07Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"A micro-CT-based method for characterising lesions and locating electrodes in small animal brains"},{"day":"18","arxiv":1,"doi":"10.1103/PhysRevA.97.043842","publisher":"American Physical Society","scopus_import":"1","publist_id":"7587","language":[{"iso":"eng"}],"external_id":{"arxiv":["1801.06892"],"isi":["000430296800008"]},"date_created":"2018-12-11T11:45:40Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1801.06892","open_access":"1"}],"ec_funded":1,"intvolume":"        97","department":[{"_id":"MiLe"}],"year":"2018","project":[{"call_identifier":"FP7","grant_number":"291734","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"_id":"294","status":"public","type":"journal_article","article_processing_charge":"No","citation":{"apa":"Fratini, F., Safari, L., Amaro, P., &#38; Santos, J. (2018). Two-photon processes based on quantum commutators. <i>Physical Review A</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.97.043842\">https://doi.org/10.1103/PhysRevA.97.043842</a>","ama":"Fratini F, Safari L, Amaro P, Santos J. Two-photon processes based on quantum commutators. <i>Physical Review A</i>. 2018;97(4). doi:<a href=\"https://doi.org/10.1103/PhysRevA.97.043842\">10.1103/PhysRevA.97.043842</a>","chicago":"Fratini, Filippo, Laleh Safari, Pedro Amaro, and José Santos. “Two-Photon Processes Based on Quantum Commutators.” <i>Physical Review A</i>. American Physical Society, 2018. <a href=\"https://doi.org/10.1103/PhysRevA.97.043842\">https://doi.org/10.1103/PhysRevA.97.043842</a>.","ieee":"F. Fratini, L. Safari, P. Amaro, and J. Santos, “Two-photon processes based on quantum commutators,” <i>Physical Review A</i>, vol. 97, no. 4. American Physical Society, 2018.","mla":"Fratini, Filippo, et al. “Two-Photon Processes Based on Quantum Commutators.” <i>Physical Review A</i>, vol. 97, no. 4, American Physical Society, 2018, doi:<a href=\"https://doi.org/10.1103/PhysRevA.97.043842\">10.1103/PhysRevA.97.043842</a>.","short":"F. Fratini, L. Safari, P. Amaro, J. Santos, Physical Review A 97 (2018).","ista":"Fratini F, Safari L, Amaro P, Santos J. 2018. Two-photon processes based on quantum commutators. Physical Review A. 97(4)."},"oa_version":"Submitted Version","isi":1,"month":"04","abstract":[{"text":"We developed a method to calculate two-photon processes in quantum mechanics that replaces the infinite summation over the intermediate states by a perturbation expansion. This latter consists of a series of commutators that involve position, momentum, and Hamiltonian quantum operators. We analyzed several single- and many-particle cases for which a closed-form solution to the perturbation expansion exists, as well as more complicated cases for which a solution is found by convergence. Throughout the article, Rayleigh and Raman scattering are taken as examples of two-photon processes. The present method provides a clear distinction between the Thomson scattering, regarded as classical scattering, and quantum contributions. Such a distinction lets us derive general results concerning light scattering. Finally, possible extensions to the developed formalism are discussed.","lang":"eng"}],"volume":97,"date_updated":"2026-08-12T14:22:13Z","issue":"4","date_published":"2018-04-18T00:00:00Z","author":[{"first_name":"Filippo","full_name":"Fratini, Filippo","last_name":"Fratini"},{"first_name":"Laleh","id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","full_name":"Safari, Laleh","last_name":"Safari"},{"first_name":"Pedro","last_name":"Amaro","full_name":"Amaro, Pedro"},{"full_name":"Santos, José","last_name":"Santos","first_name":"José"}],"title":"Two-photon processes based on quantum commutators","quality_controlled":"1","publication":"Physical Review A","publication_status":"published"},{"publication":"Physical Review B","quality_controlled":"1","publication_status":"published","date_published":"2018-07-15T00:00:00Z","article_number":"045402","author":[{"full_name":"Yakaboylu, Enderalp","last_name":"Yakaboylu","orcid":"0000-0001-5973-0874","first_name":"Enderalp","id":"38CB71F6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802","last_name":"Lemeshko","first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87"}],"title":"Anyonic statistics of quantum impurities in two dimensions","oa_version":"Submitted Version","isi":1,"abstract":[{"text":"We demonstrate that identical impurities immersed in a two-dimensional many-particle bath can be viewed as flux-tube-charged-particle composites described by fractional statistics. In particular, we find that the bath manifests itself as an external magnetic flux tube with respect to the impurities, and hence the time-reversal symmetry is broken for the effective Hamiltonian describing the impurities. The emerging flux tube acts as a statistical gauge field after a certain critical coupling. This critical coupling corresponds to the intersection point between the quasiparticle state and the phonon wing, where the angular momentum is transferred from the impurity to the bath. This amounts to a novel configuration with emerging anyons. The proposed setup paves the way to realizing anyons using electrons interacting with superfluid helium or lattice phonons, as well as using atomic impurities in ultracold gases.","lang":"eng"}],"month":"07","volume":98,"date_updated":"2026-08-12T14:24:49Z","issue":"4","status":"public","_id":"195","article_processing_charge":"No","citation":{"ieee":"E. Yakaboylu and M. Lemeshko, “Anyonic statistics of quantum impurities in two dimensions,” <i>Physical Review B</i>, vol. 98, no. 4. American Physical Society, 2018.","chicago":"Yakaboylu, Enderalp, and Mikhail Lemeshko. “Anyonic Statistics of Quantum Impurities in Two Dimensions.” <i>Physical Review B</i>. American Physical Society, 2018. <a href=\"https://doi.org/10.1103/PhysRevB.98.045402\">https://doi.org/10.1103/PhysRevB.98.045402</a>.","mla":"Yakaboylu, Enderalp, and Mikhail Lemeshko. “Anyonic Statistics of Quantum Impurities in Two Dimensions.” <i>Physical Review B</i>, vol. 98, no. 4, 045402, American Physical Society, 2018, doi:<a href=\"https://doi.org/10.1103/PhysRevB.98.045402\">10.1103/PhysRevB.98.045402</a>.","short":"E. Yakaboylu, M. Lemeshko, Physical Review B 98 (2018).","ista":"Yakaboylu E, Lemeshko M. 2018. Anyonic statistics of quantum impurities in two dimensions. Physical Review B. 98(4), 045402.","apa":"Yakaboylu, E., &#38; Lemeshko, M. (2018). Anyonic statistics of quantum impurities in two dimensions. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.98.045402\">https://doi.org/10.1103/PhysRevB.98.045402</a>","ama":"Yakaboylu E, Lemeshko M. Anyonic statistics of quantum impurities in two dimensions. <i>Physical Review B</i>. 2018;98(4). doi:<a href=\"https://doi.org/10.1103/PhysRevB.98.045402\">10.1103/PhysRevB.98.045402</a>"},"type":"journal_article","main_file_link":[{"url":"https://arxiv.org/abs/1712.00308","open_access":"1"}],"intvolume":"        98","year":"2018","department":[{"_id":"MiLe"}],"project":[{"name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"291734"},{"name":"Quantum rotations in the presence of a many-body environment","_id":"26031614-B435-11E9-9278-68D0E5697425","grant_number":"P29902","call_identifier":"FWF"}],"ec_funded":1,"corr_author":"1","language":[{"iso":"eng"}],"external_id":{"arxiv":["1712.00308"],"isi":["000436939100007"]},"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:45:08Z","scopus_import":"1","day":"15","publisher":"American Physical Society","arxiv":1,"doi":"10.1103/PhysRevB.98.045402"},{"main_file_link":[{"url":"https://arxiv.org/abs/1802.05175","open_access":"1"}],"ec_funded":1,"year":"2018","department":[{"_id":"LaEr"}],"project":[{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","grant_number":"338804","call_identifier":"FP7"}],"language":[{"iso":"eng"}],"external_id":{"isi":["000477677200002"],"arxiv":["1802.05175"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2019-02-13T10:40:54Z","oa":1,"scopus_import":"1","day":"26","arxiv":1,"doi":"10.1142/s2010326319500096","publisher":"World Scientific Publishing","quality_controlled":"1","publication":"Random Matrices: Theory and Applications","publication_status":"published","article_number":"1950009","date_published":"2018-09-26T00:00:00Z","author":[{"orcid":"0000-0001-5366-9603","last_name":"Erdös","full_name":"Erdös, László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László"},{"first_name":"Peter","full_name":"Mühlbacher, Peter","last_name":"Mühlbacher"}],"title":"Bounds on the norm of Wigner-type random matrices","isi":1,"oa_version":"Preprint","abstract":[{"text":"We consider a Wigner-type ensemble, i.e. large hermitian N×N random matrices H=H∗ with centered independent entries and with a general matrix of variances Sxy=𝔼∣∣Hxy∣∣2. The norm of H is asymptotically given by the maximum of the support of the self-consistent density of states. We establish a bound on this maximum in terms of norms of powers of S that substantially improves the earlier bound 2∥S∥1/2∞ given in [O. Ajanki, L. Erdős and T. Krüger, Universality for general Wigner-type matrices, Prob. Theor. Rel. Fields169 (2017) 667–727]. The key element of the proof is an effective Markov chain approximation for the contributions of the weighted Dyck paths appearing in the iterative solution of the corresponding Dyson equation.","lang":"eng"}],"month":"09","date_updated":"2026-08-12T14:33:01Z","_id":"5971","status":"public","type":"journal_article","publication_identifier":{"issn":["2010-3263"],"eissn":["2010-3271"]},"article_processing_charge":"No","citation":{"apa":"Erdös, L., &#38; Mühlbacher, P. (2018). Bounds on the norm of Wigner-type random matrices. <i>Random Matrices: Theory and Applications</i>. World Scientific Publishing. <a href=\"https://doi.org/10.1142/s2010326319500096\">https://doi.org/10.1142/s2010326319500096</a>","ama":"Erdös L, Mühlbacher P. Bounds on the norm of Wigner-type random matrices. <i>Random Matrices: Theory and Applications</i>. 2018. doi:<a href=\"https://doi.org/10.1142/s2010326319500096\">10.1142/s2010326319500096</a>","mla":"Erdös, László, and Peter Mühlbacher. “Bounds on the Norm of Wigner-Type Random Matrices.” <i>Random Matrices: Theory and Applications</i>, 1950009, World Scientific Publishing, 2018, doi:<a href=\"https://doi.org/10.1142/s2010326319500096\">10.1142/s2010326319500096</a>.","ieee":"L. Erdös and P. Mühlbacher, “Bounds on the norm of Wigner-type random matrices,” <i>Random Matrices: Theory and Applications</i>. World Scientific Publishing, 2018.","chicago":"Erdös, László, and Peter Mühlbacher. “Bounds on the Norm of Wigner-Type Random Matrices.” <i>Random Matrices: Theory and Applications</i>. World Scientific Publishing, 2018. <a href=\"https://doi.org/10.1142/s2010326319500096\">https://doi.org/10.1142/s2010326319500096</a>.","ista":"Erdös L, Mühlbacher P. 2018. Bounds on the norm of Wigner-type random matrices. Random Matrices: Theory and Applications., 1950009.","short":"L. Erdös, P. Mühlbacher, Random Matrices: Theory and Applications (2018)."}},{"date_updated":"2026-08-19T09:30:58Z","abstract":[{"lang":"eng","text":"We consider the MAP-inference problem for graphical models,which is a valued constraint satisfaction problem defined onreal numbers with a natural summation operation. We proposea family of relaxations (different from the famous Sherali-Adams hierarchy), which naturally define lower bounds for itsoptimum. This family always contains a tight relaxation andwe give an algorithm able to find it and therefore, solve theinitial non-relaxed NP-hard problem.The relaxations we consider decompose the original probleminto two non-overlapping parts: an easy LP-tight part and adifficult one. For the latter part a combinatorial solver must beused. As we show in our experiments, in a number of applica-tions the second, difficult part constitutes only a small fractionof the whole problem. This property allows to significantlyreduce the computational time of the combinatorial solver andtherefore solve problems which were out of reach before."}],"month":"02","isi":1,"oa_version":"Preprint","citation":{"apa":"Haller, S., Swoboda, P., &#38; Savchynskyy, B. (2018). Exact MAP-inference by confining combinatorial search with LP relaxation. In <i>Proceedings of the 32st AAAI Conference on Artificial Intelligence</i> (pp. 6581–6588). New Orleans, LU, United States: AAAI Press. <a href=\"https://doi.org/10.1609/aaai.v32i1.12202\">https://doi.org/10.1609/aaai.v32i1.12202</a>","ama":"Haller S, Swoboda P, Savchynskyy B. Exact MAP-inference by confining combinatorial search with LP relaxation. In: <i>Proceedings of the 32st AAAI Conference on Artificial Intelligence</i>. AAAI Press; 2018:6581-6588. doi:<a href=\"https://doi.org/10.1609/aaai.v32i1.12202\">10.1609/aaai.v32i1.12202</a>","chicago":"Haller, Stefan, Paul Swoboda, and Bogdan Savchynskyy. “Exact MAP-Inference by Confining Combinatorial Search with LP Relaxation.” In <i>Proceedings of the 32st AAAI Conference on Artificial Intelligence</i>, 6581–88. AAAI Press, 2018. <a href=\"https://doi.org/10.1609/aaai.v32i1.12202\">https://doi.org/10.1609/aaai.v32i1.12202</a>.","ieee":"S. Haller, P. Swoboda, and B. Savchynskyy, “Exact MAP-inference by confining combinatorial search with LP relaxation,” in <i>Proceedings of the 32st AAAI Conference on Artificial Intelligence</i>, New Orleans, LU, United States, 2018, pp. 6581–6588.","mla":"Haller, Stefan, et al. “Exact MAP-Inference by Confining Combinatorial Search with LP Relaxation.” <i>Proceedings of the 32st AAAI Conference on Artificial Intelligence</i>, AAAI Press, 2018, pp. 6581–88, doi:<a href=\"https://doi.org/10.1609/aaai.v32i1.12202\">10.1609/aaai.v32i1.12202</a>.","short":"S. Haller, P. Swoboda, B. Savchynskyy, in:, Proceedings of the 32st AAAI Conference on Artificial Intelligence, AAAI Press, 2018, pp. 6581–6588.","ista":"Haller S, Swoboda P, Savchynskyy B. 2018. Exact MAP-inference by confining combinatorial search with LP relaxation. Proceedings of the 32st AAAI Conference on Artificial Intelligence. AAAI: Conference on Artificial Intelligence, 6581–6588."},"article_processing_charge":"No","type":"conference","_id":"5978","status":"public","page":"6581-6588","publication_status":"published","publication":"Proceedings of the 32st AAAI Conference on Artificial Intelligence","quality_controlled":"1","conference":{"start_date":"2018-02-02","location":"New Orleans, LU, United States","end_date":"2018-02-07","name":"AAAI: Conference on Artificial Intelligence"},"title":"Exact MAP-inference by confining combinatorial search with LP relaxation","author":[{"full_name":"Haller, Stefan","last_name":"Haller","first_name":"Stefan"},{"full_name":"Swoboda, Paul","last_name":"Swoboda","first_name":"Paul","id":"446560C6-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Savchynskyy","full_name":"Savchynskyy, Bogdan","first_name":"Bogdan"}],"date_published":"2018-02-01T00:00:00Z","scopus_import":"1","publisher":"AAAI Press","doi":"10.1609/aaai.v32i1.12202","arxiv":1,"day":"01","department":[{"_id":"VlKo"}],"year":"2018","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2004.06370"}],"oa":1,"date_created":"2019-02-13T13:32:48Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000485488906082"],"arxiv":["2004.06370"]},"language":[{"iso":"eng"}]},{"publist_id":"8054","scopus_import":"1","ddc":["570"],"acknowledgement":"This work was supported by the Simons Foundation Autism Research Initiative (grant 401299) to G.N. and the DFG (SPP1738 grant NO 1249) to K.-M.N.","publisher":"Nature Publishing Group","doi":"10.1038/s41593-018-0266-2","day":"19","year":"2018","intvolume":"        21","department":[{"_id":"GaNo"},{"_id":"EdHa"}],"project":[{"name":"Probing development and reversibility of autism spectrum disorders","_id":"254BA948-B435-11E9-9278-68D0E5697425","grant_number":"401299"}],"oa":1,"file_date_updated":"2020-07-14T12:45:58Z","date_created":"2018-12-11T11:44:05Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","corr_author":"1","language":[{"iso":"eng"}],"external_id":{"isi":["000451324700010"]},"month":"11","abstract":[{"text":"SETD5 gene mutations have been identified as a frequent cause of idiopathic intellectual disability. Here we show that Setd5-haploinsufficient mice present developmental defects such as abnormal brain-to-body weight ratios and neural crest defect-associated phenotypes. Furthermore, Setd5-mutant mice show impairments in cognitive tasks, enhanced long-term potentiation, delayed ontogenetic profile of ultrasonic vocalization, and behavioral inflexibility. Behavioral issues are accompanied by abnormal expression of postsynaptic density proteins previously associated with cognition. Our data additionally indicate that Setd5 regulates RNA polymerase II dynamics and gene transcription via its interaction with the Hdac3 and Paf1 complexes, findings potentially explaining the gene expression defects observed in Setd5-haploinsufficient mice. Our results emphasize the decisive role of Setd5 in a biological pathway found to be disrupted in humans with intellectual disability and autism spectrum disorder.","lang":"eng"}],"volume":21,"issue":"12","date_updated":"2026-08-31T22:30:07Z","pubrep_id":"1071","article_type":"original","related_material":{"record":[{"relation":"popular_science","status":"public","id":"6074"},{"relation":"dissertation_contains","status":"public","id":"12364"}],"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/mutation-that-causes-autism-and-intellectual-disability-makes-brain-less-flexible/","description":"News on IST Homepage"}]},"has_accepted_license":"1","oa_version":"Submitted Version","isi":1,"article_processing_charge":"No","citation":{"chicago":"Deliu, Elena, Niccoló Arecco, Jasmin Morandell, Christoph Dotter, Ximena Contreras, Charles Girardot, Eva Käsper, et al. “Haploinsufficiency of the Intellectual Disability Gene SETD5 Disturbs Developmental Gene Expression and Cognition.” <i>Nature Neuroscience</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41593-018-0266-2\">https://doi.org/10.1038/s41593-018-0266-2</a>.","ieee":"E. Deliu <i>et al.</i>, “Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition,” <i>Nature Neuroscience</i>, vol. 21, no. 12. Nature Publishing Group, pp. 1717–1727, 2018.","mla":"Deliu, Elena, et al. “Haploinsufficiency of the Intellectual Disability Gene SETD5 Disturbs Developmental Gene Expression and Cognition.” <i>Nature Neuroscience</i>, vol. 21, no. 12, Nature Publishing Group, 2018, pp. 1717–27, doi:<a href=\"https://doi.org/10.1038/s41593-018-0266-2\">10.1038/s41593-018-0266-2</a>.","short":"E. Deliu, N. Arecco, J. Morandell, C. Dotter, X. Contreras, C. Girardot, E. Käsper, A. Kozlova, K. Kishi, I. Chiaradia, K. Noh, G. Novarino, Nature Neuroscience 21 (2018) 1717–1727.","ista":"Deliu E, Arecco N, Morandell J, Dotter C, Contreras X, Girardot C, Käsper E, Kozlova A, Kishi K, Chiaradia I, Noh K, Novarino G. 2018. Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition. Nature Neuroscience. 21(12), 1717–1727.","apa":"Deliu, E., Arecco, N., Morandell, J., Dotter, C., Contreras, X., Girardot, C., … Novarino, G. (2018). Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition. <i>Nature Neuroscience</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41593-018-0266-2\">https://doi.org/10.1038/s41593-018-0266-2</a>","ama":"Deliu E, Arecco N, Morandell J, et al. Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition. <i>Nature Neuroscience</i>. 2018;21(12):1717-1727. doi:<a href=\"https://doi.org/10.1038/s41593-018-0266-2\">10.1038/s41593-018-0266-2</a>"},"type":"journal_article","_id":"3","status":"public","page":"1717 - 1727","publication_status":"published","publication":"Nature Neuroscience","file":[{"relation":"main_file","checksum":"60abd0f05b7cdc08a6b0ec460884084f","creator":"dernst","date_updated":"2020-07-14T12:45:58Z","date_created":"2019-04-09T07:41:57Z","file_size":8167169,"content_type":"application/pdf","access_level":"open_access","file_id":"6255","file_name":"2017_NatureNeuroscience_Deliu.pdf"}],"quality_controlled":"1","title":"Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental gene expression and cognition","date_published":"2018-11-19T00:00:00Z","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"PreCl"}],"author":[{"id":"37A40D7E-F248-11E8-B48F-1D18A9856A87","first_name":"Elena","last_name":"Deliu","orcid":"0000-0002-7370-5293","full_name":"Deliu, Elena"},{"first_name":"Niccoló","last_name":"Arecco","full_name":"Arecco, Niccoló"},{"first_name":"Jasmin","id":"4739D480-F248-11E8-B48F-1D18A9856A87","full_name":"Morandell, Jasmin","last_name":"Morandell"},{"full_name":"Dotter, Christoph","orcid":"0000-0002-9033-9096","last_name":"Dotter","first_name":"Christoph","id":"4C66542E-F248-11E8-B48F-1D18A9856A87"},{"id":"475990FE-F248-11E8-B48F-1D18A9856A87","first_name":"Ximena","last_name":"Contreras","full_name":"Contreras, Ximena"},{"full_name":"Girardot, Charles","last_name":"Girardot","first_name":"Charles"},{"last_name":"Käsper","full_name":"Käsper, Eva","first_name":"Eva"},{"first_name":"Alena","id":"C50A9596-02D0-11E9-976E-E38CFE5CBC1D","full_name":"Kozlova, Alena","last_name":"Kozlova"},{"first_name":"Kasumi","id":"3065DFC4-F248-11E8-B48F-1D18A9856A87","full_name":"Kishi, Kasumi","orcid":"0000-0001-6060-4795","last_name":"Kishi"},{"orcid":"0000-0002-9529-4464","last_name":"Chiaradia","full_name":"Chiaradia, Ilaria","id":"B6467F20-02D0-11E9-BDA5-E960C241894A","first_name":"Ilaria"},{"full_name":"Noh, Kyung","last_name":"Noh","first_name":"Kyung"},{"first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","full_name":"Novarino, Gaia","orcid":"0000-0002-7673-7178","last_name":"Novarino"}]},{"oa_version":"Published Version","has_accepted_license":"1","related_material":{"record":[{"relation":"part_of_dissertation","id":"704","status":"public"}]},"date_updated":"2026-04-08T14:15:35Z","pubrep_id":"1059","month":"10","abstract":[{"text":"Expression of genes is a fundamental molecular phenotype that is subject to evolution by different types of mutations. Both the rate and the effect of mutations may depend on the DNA sequence context of a particular gene or a particular promoter sequence. In this thesis I investigate the nature of this dependence using simple genetic systems in Escherichia coli. With these systems I explore the evolution of constitutive gene expression from random starting sequences at different loci on the chromosome and at different locations in sequence space. First, I dissect chromosomal neighborhood effects that underlie locus-dependent differences in the potential of a gene under selection to become more highly expressed. Next, I find that the effects of point mutations in promoter sequences are dependent on sequence context, and that an existing energy matrix model performs poorly in predicting relative expression of unrelated sequences. Finally, I show that a substantial fraction of random sequences contain functional promoters and I present an extended thermodynamic model that predicts promoter strength in full sequence space. Taken together, these results provide new insights and guides on how to integrate information on sequence context to improve our qualitative and quantitative understanding of bacterial gene expression, with implications for rapid evolution of drug resistance, de novo evolution of genes, and horizontal gene transfer.","lang":"eng"}],"supervisor":[{"full_name":"Guet, Calin C","orcid":"0000-0001-6220-2052","last_name":"Guet","first_name":"Calin C","id":"47F8433E-F248-11E8-B48F-1D18A9856A87"}],"_id":"26","status":"public","publication_identifier":{"issn":["2663-337X"]},"type":"dissertation","citation":{"ieee":"M. Steinrück, “The influence of sequence context on the evolution of bacterial gene expression,” Institute of Science and Technology Austria, 2018.","chicago":"Steinrück, Magdalena. “The Influence of Sequence Context on the Evolution of Bacterial Gene Expression.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th1059\">https://doi.org/10.15479/AT:ISTA:th1059</a>.","mla":"Steinrück, Magdalena. <i>The Influence of Sequence Context on the Evolution of Bacterial Gene Expression</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1059\">10.15479/AT:ISTA:th1059</a>.","short":"M. Steinrück, The Influence of Sequence Context on the Evolution of Bacterial Gene Expression, Institute of Science and Technology Austria, 2018.","ista":"Steinrück M. 2018. The influence of sequence context on the evolution of bacterial gene expression. Institute of Science and Technology Austria.","apa":"Steinrück, M. (2018). <i>The influence of sequence context on the evolution of bacterial gene expression</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th1059\">https://doi.org/10.15479/AT:ISTA:th1059</a>","ama":"Steinrück M. The influence of sequence context on the evolution of bacterial gene expression. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1059\">10.15479/AT:ISTA:th1059</a>"},"article_processing_charge":"No","file":[{"creator":"dernst","relation":"source_file","checksum":"413cbce1cd1debeae3abe2a25dbc70d1","date_updated":"2020-07-14T12:45:43Z","embargo_to":"open_access","file_size":9190845,"date_created":"2019-02-08T10:51:22Z","file_id":"5941","access_level":"closed","file_name":"Thesis_Steinrueck_final.docx","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document"},{"date_updated":"2021-02-11T11:17:14Z","creator":"dernst","relation":"main_file","checksum":"3def8b7854c8b42d643597ce0215efac","embargo":"2019-11-02","file_name":"Thesis_Steinrueck_final.pdf","content_type":"application/pdf","file_id":"5942","access_level":"open_access","date_created":"2019-02-08T10:51:22Z","file_size":7521973}],"publication_status":"published","page":"109","author":[{"full_name":"Steinrück, Magdalena","last_name":"Steinrück","orcid":"0000-0003-1229-9719","first_name":"Magdalena","id":"2C023F40-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2018-10-30T00:00:00Z","title":"The influence of sequence context on the evolution of bacterial gene expression","ddc":["576","579"],"publist_id":"8029","day":"30","alternative_title":["ISTA Thesis"],"doi":"10.15479/AT:ISTA:th1059","publisher":"Institute of Science and Technology Austria","year":"2018","department":[{"_id":"CaGu"}],"language":[{"iso":"eng"}],"corr_author":"1","OA_place":"publisher","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2018-12-11T11:44:14Z","degree_awarded":"PhD","file_date_updated":"2021-02-11T11:17:14Z","oa":1},{"date_updated":"2026-08-31T22:30:19Z","issue":"9","month":"09","abstract":[{"text":"This scientific commentary refers to ‘NEGR1 and FGFR2 cooperatively regulate cortical development and core behaviours related to autism disorders in mice’ by Szczurkowska et al. ","lang":"eng"}],"volume":141,"related_material":{"record":[{"id":"7902","status":"public","relation":"part_of_dissertation"}]},"oa_version":"None","isi":1,"citation":{"short":"X. Contreras, S. Hippenmeyer, Brain a Journal of Neurology 141 (2018) 2542–2544.","ista":"Contreras X, Hippenmeyer S. 2018. Incorrect trafficking route leads to autism. Brain a journal of neurology. 141(9), 2542–2544.","ieee":"X. Contreras and S. Hippenmeyer, “Incorrect trafficking route leads to autism,” <i>Brain a journal of neurology</i>, vol. 141, no. 9. Oxford University Press, pp. 2542–2544, 2018.","chicago":"Contreras, Ximena, and Simon Hippenmeyer. “Incorrect Trafficking Route Leads to Autism.” <i>Brain a Journal of Neurology</i>. Oxford University Press, 2018. <a href=\"https://doi.org/10.1093/brain/awy218\">https://doi.org/10.1093/brain/awy218</a>.","mla":"Contreras, Ximena, and Simon Hippenmeyer. “Incorrect Trafficking Route Leads to Autism.” <i>Brain a Journal of Neurology</i>, vol. 141, no. 9, Oxford University Press, 2018, pp. 2542–44, doi:<a href=\"https://doi.org/10.1093/brain/awy218\">10.1093/brain/awy218</a>.","ama":"Contreras X, Hippenmeyer S. Incorrect trafficking route leads to autism. <i>Brain a journal of neurology</i>. 2018;141(9):2542-2544. doi:<a href=\"https://doi.org/10.1093/brain/awy218\">10.1093/brain/awy218</a>","apa":"Contreras, X., &#38; Hippenmeyer, S. (2018). Incorrect trafficking route leads to autism. <i>Brain a Journal of Neurology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/brain/awy218\">https://doi.org/10.1093/brain/awy218</a>"},"article_processing_charge":"No","type":"journal_article","_id":"28","status":"public","publication_status":"published","page":"2542 - 2544","publication":"Brain a journal of neurology","quality_controlled":"1","title":"Incorrect trafficking route leads to autism","author":[{"full_name":"Contreras, Ximena","last_name":"Contreras","first_name":"Ximena","id":"475990FE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer"}],"date_published":"2018-09-01T00:00:00Z","scopus_import":"1","publisher":"Oxford University Press","doi":"10.1093/brain/awy218","day":"01","year":"2018","intvolume":"       141","department":[{"_id":"SiHi"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_created":"2018-12-11T11:44:14Z","external_id":{"isi":["000446548100012"]},"language":[{"iso":"eng"}]},{"language":[{"iso":"eng"}],"corr_author":"1","OA_place":"publisher","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2018-12-11T11:44:08Z","degree_awarded":"PhD","file_date_updated":"2021-02-11T11:17:16Z","oa":1,"department":[{"_id":"DaSi"}],"year":"2018","alternative_title":["ISTA Thesis"],"day":"01","doi":"10.15479/AT:ISTA:th1064","publisher":"Institute of Science and Technology Austria","ddc":["570"],"publist_id":"8047","author":[{"first_name":"Vera","id":"47F080FE-F248-11E8-B48F-1D18A9856A87","full_name":"Belyaeva, Vera","last_name":"Belyaeva"}],"date_published":"2018-07-01T00:00:00Z","title":"Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo ","file":[{"checksum":"d27b2465cb70d0c9678a0381b9b6ced1","creator":"dernst","relation":"source_file","date_updated":"2020-07-14T12:48:14Z","embargo_to":"open_access","file_size":102737483,"date_created":"2019-04-08T14:13:12Z","file_name":"2018_Thesis_Belyaeva_source.docx","access_level":"closed","file_id":"6243","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document"},{"content_type":"application/pdf","file_id":"6244","access_level":"open_access","file_name":"2018_Thesis_Belyaeva.pdf","file_size":88077843,"date_created":"2019-04-08T14:14:08Z","embargo":"2019-11-19","date_updated":"2021-02-11T11:17:16Z","creator":"dernst","checksum":"a2939b61bde2de7b8ced77bbae0eaaed","relation":"main_file"}],"page":"96","publication_status":"published","_id":"9","supervisor":[{"orcid":"0000-0001-8323-8353","last_name":"Siekhaus","full_name":"Siekhaus, Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","first_name":"Daria E"}],"status":"public","publication_identifier":{"issn":["2663-337X"]},"type":"dissertation","citation":{"ama":"Belyaeva V. Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo . 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">10.15479/AT:ISTA:th1064</a>","apa":"Belyaeva, V. (2018). <i>Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo </i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">https://doi.org/10.15479/AT:ISTA:th1064</a>","ista":"Belyaeva V. 2018. Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo . Institute of Science and Technology Austria.","short":"V. Belyaeva, Transcriptional Regulation of Macrophage Migration in the Drosophila Melanogaster Embryo , Institute of Science and Technology Austria, 2018.","mla":"Belyaeva, Vera. <i>Transcriptional Regulation of Macrophage Migration in the Drosophila Melanogaster Embryo </i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">10.15479/AT:ISTA:th1064</a>.","chicago":"Belyaeva, Vera. “Transcriptional Regulation of Macrophage Migration in the Drosophila Melanogaster Embryo .” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th1064\">https://doi.org/10.15479/AT:ISTA:th1064</a>.","ieee":"V. Belyaeva, “Transcriptional regulation of macrophage migration in the Drosophila melanogaster embryo ,” Institute of Science and Technology Austria, 2018."},"article_processing_charge":"No","oa_version":"Published Version","has_accepted_license":"1","pubrep_id":"1064","date_updated":"2026-04-08T14:13:03Z","month":"07","abstract":[{"lang":"eng","text":"Immune cells migrating to the sites of infection navigate through diverse tissue architectures and switch their migratory mechanisms upon demand. However, little is known about systemic regulators that could allow the acquisition of these mechanisms. We performed a genetic screen in Drosophila melanogaster to identify regulators of germband invasion by embryonic macrophages into the confined space between the ectoderm and mesoderm. We have found that bZIP circadian transcription factors (TFs) Kayak (dFos) and Vrille (dNFIL3) have opposite effects on macrophage germband infiltration: Kayak facilitated and Vrille inhibited it. These TFs are enriched in the macrophages during migration and genetically interact to control it. Kayak sets a less coordinated mode of migration of the macrophage group and increases the probability and length of Levy walks. Intriguingly, the motility of kayak mutant macrophages was also strongly affected during initial germband invasion but not along another less confined route. Inhibiting Rho1 signaling within the tail ectoderm partially rescued the Kayak mutant phenotype, strongly suggesting that migrating macrophages have to overcome a barrier imposed by the stiffness of the ectoderm. Also, Kayak appeared to be important for the maintenance of the round cell shape and the rear edge translocation of the macrophages invading the germband. Complementary to this, the cortical actin cytoskeleton of Kayak- deficient macrophages was strongly affected. RNA sequencing revealed the filamin Cheerio and tetraspanin TM4SF to be downstream of Kayak. Chromatin immunoprecipitation and immunostaining revealed that the formin Diaphanous is another downstream target of Kayak. Immunostaining revealed that the formin Diaphanous is another downstream target of Kayak. Indeed, Cheerio, TM4SF and Diaphanous are required within macrophages for germband invasion, and expression of constitutively active Diaphanous in macrophages was able to rescue the kayak mutant phenotype. Moreover, Cher and Diaphanous are also reduced in the macrophages overexpressing Vrille. We hypothesize that Kayak, through its targets, increases actin polymerization and cortical tension in macrophages and thus allows extra force generation necessary for macrophage dissemination and migration through confined stiff tissues, while Vrille counterbalances it."}]},{"date_created":"2018-12-11T11:47:05Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file_date_updated":"2020-07-14T12:46:56Z","oa":1,"external_id":{"isi":["000426693300011"]},"language":[{"iso":"eng"}],"corr_author":"1","ec_funded":1,"project":[{"grant_number":"P29638","call_identifier":"FWF","_id":"253B6E48-B435-11E9-9278-68D0E5697425","name":"The role of Drosophila TNF alpha in immune cell invasion"},{"name":"The role of Drosophila TNF alpha in immune cell invasion","_id":"253B6E48-B435-11E9-9278-68D0E5697425","grant_number":"P29638","call_identifier":"FWF"},{"grant_number":"LSC16-021","name":"Investigating the role of the novel major superfamily facilitator transporter family member MFSD1 in metastasis","_id":"2637E9C0-B435-11E9-9278-68D0E5697425"},{"_id":"2536F660-B435-11E9-9278-68D0E5697425","name":"Investigating the role of transporters in invasive migration through junctions","grant_number":"334077","call_identifier":"FP7"}],"year":"2018","intvolume":"         8","department":[{"_id":"DaSi"}],"doi":"10.1534/g3.117.300452","publisher":"Genetics Society of America","day":"01","publist_id":"7271","acknowledgement":" A. Ratheesh also by Marie Curie IIF GA-2012-32950BB:DICJI, Marko Roblek by the provincial government of Lower Austria, K. Valoskova and S. Wachner by DOC Fellowships from the Austrian Academy of Sciences, ","ddc":["570"],"scopus_import":"1","title":"Tools allowing independent visualization and genetic manipulation of Drosophila melanogaster macrophages and surrounding tissues","author":[{"full_name":"György, Attila","last_name":"György","orcid":"0000-0002-1819-198X","first_name":"Attila","id":"3BCEDBE0-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Marko","id":"3047D808-F248-11E8-B48F-1D18A9856A87","full_name":"Roblek, Marko","last_name":"Roblek","orcid":"0000-0001-9588-1389"},{"full_name":"Ratheesh, Aparna","last_name":"Ratheesh","orcid":"0000-0001-7190-0776","first_name":"Aparna","id":"2F064CFE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Katarina","id":"46F146FC-F248-11E8-B48F-1D18A9856A87","full_name":"Valosková, Katarina","orcid":"0000-0002-7926-0221","last_name":"Valosková"},{"full_name":"Belyaeva, Vera","last_name":"Belyaeva","first_name":"Vera","id":"47F080FE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Wachner","full_name":"Wachner, Stephanie","id":"2A95E7B0-F248-11E8-B48F-1D18A9856A87","first_name":"Stephanie"},{"first_name":"Yutaka","full_name":"Matsubayashi, Yutaka","last_name":"Matsubayashi"},{"first_name":"Besaiz","full_name":"Sanchez Sanchez, Besaiz","last_name":"Sanchez Sanchez"},{"full_name":"Stramer, Brian","last_name":"Stramer","first_name":"Brian"},{"id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","first_name":"Daria E","orcid":"0000-0001-8323-8353","last_name":"Siekhaus","full_name":"Siekhaus, Daria E"}],"acknowledged_ssus":[{"_id":"LifeSc"}],"date_published":"2018-03-01T00:00:00Z","page":"845 - 857","publication_status":"published","quality_controlled":"1","publication":"G3: Genes, Genomes, Genetics","file":[{"date_updated":"2020-07-14T12:46:56Z","creator":"system","checksum":"7d9d28b915159078a4ca7add568010e8","relation":"main_file","file_id":"4905","content_type":"application/pdf","access_level":"open_access","file_name":"IST-2018-990-v1+1_2018_Gyoergy_Tools_allowing.pdf","date_created":"2018-12-12T10:11:48Z","file_size":2251222}],"type":"journal_article","citation":{"ama":"György A, Roblek M, Ratheesh A, et al. Tools allowing independent visualization and genetic manipulation of Drosophila melanogaster macrophages and surrounding tissues. <i>G3: Genes, Genomes, Genetics</i>. 2018;8(3):845-857. doi:<a href=\"https://doi.org/10.1534/g3.117.300452\">10.1534/g3.117.300452</a>","apa":"György, A., Roblek, M., Ratheesh, A., Valosková, K., Belyaeva, V., Wachner, S., … Siekhaus, D. E. (2018). Tools allowing independent visualization and genetic manipulation of Drosophila melanogaster macrophages and surrounding tissues. <i>G3: Genes, Genomes, Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/g3.117.300452\">https://doi.org/10.1534/g3.117.300452</a>","ista":"György A, Roblek M, Ratheesh A, Valosková K, Belyaeva V, Wachner S, Matsubayashi Y, Sanchez Sanchez B, Stramer B, Siekhaus DE. 2018. Tools allowing independent visualization and genetic manipulation of Drosophila melanogaster macrophages and surrounding tissues. G3: Genes, Genomes, Genetics. 8(3), 845–857.","short":"A. György, M. Roblek, A. Ratheesh, K. Valosková, V. Belyaeva, S. Wachner, Y. Matsubayashi, B. Sanchez Sanchez, B. Stramer, D.E. Siekhaus, G3: Genes, Genomes, Genetics 8 (2018) 845–857.","mla":"György, Attila, et al. “Tools Allowing Independent Visualization and Genetic Manipulation of Drosophila Melanogaster Macrophages and Surrounding Tissues.” <i>G3: Genes, Genomes, Genetics</i>, vol. 8, no. 3, Genetics Society of America, 2018, pp. 845–57, doi:<a href=\"https://doi.org/10.1534/g3.117.300452\">10.1534/g3.117.300452</a>.","chicago":"György, Attila, Marko Roblek, Aparna Ratheesh, Katarina Valosková, Vera Belyaeva, Stephanie Wachner, Yutaka Matsubayashi, Besaiz Sanchez Sanchez, Brian Stramer, and Daria E Siekhaus. “Tools Allowing Independent Visualization and Genetic Manipulation of Drosophila Melanogaster Macrophages and Surrounding Tissues.” <i>G3: Genes, Genomes, Genetics</i>. Genetics Society of America, 2018. <a href=\"https://doi.org/10.1534/g3.117.300452\">https://doi.org/10.1534/g3.117.300452</a>.","ieee":"A. György <i>et al.</i>, “Tools allowing independent visualization and genetic manipulation of Drosophila melanogaster macrophages and surrounding tissues,” <i>G3: Genes, Genomes, Genetics</i>, vol. 8, no. 3. Genetics Society of America, pp. 845–857, 2018."},"article_processing_charge":"No","_id":"544","status":"public","related_material":{"record":[{"relation":"research_paper","id":"6530"},{"id":"6543","relation":"research_paper"},{"status":"public","id":"11193","relation":"dissertation_contains"},{"relation":"dissertation_contains","id":"6546","status":"public"}]},"issue":"3","date_updated":"2026-08-31T22:30:25Z","pubrep_id":"990","abstract":[{"lang":"eng","text":"Drosophila melanogaster plasmatocytes, the phagocytic cells among hemocytes, are essential for immune responses, but also play key roles from early development to death through their interactions with other cell types. They regulate homeostasis and signaling during development, stem cell proliferation, metabolism, cancer, wound responses and aging, displaying intriguing molecular and functional conservation with vertebrate macrophages. Given the relative ease of genetics in Drosophila compared to vertebrates, tools permitting visualization and genetic manipulation of plasmatocytes and surrounding tissues independently at all stages would greatly aid in fully understanding these processes, but are lacking. Here we describe a comprehensive set of transgenic lines that allow this. These include extremely brightly fluorescing mCherry-based lines that allow GAL4-independent visualization of plasmatocyte nuclei, cytoplasm or actin cytoskeleton from embryonic Stage 8 through adulthood in both live and fixed samples even as heterozygotes, greatly facilitating screening. These lines allow live visualization and tracking of embryonic plasmatocytes, as well as larval plasmatocytes residing at the body wall or flowing with the surrounding hemolymph. With confocal imaging, interactions of plasmatocytes and inner tissues can be seen in live or fixed embryos, larvae and adults. They permit efficient GAL4-independent FACS analysis/sorting of plasmatocytes throughout life. To facilitate genetic analysis of reciprocal signaling, we have also made a plasmatocyte-expressing QF2 line that in combination with extant GAL4 drivers allows independent genetic manipulation of both plasmatocytes and surrounding tissues, and a GAL80 line that blocks GAL4 drivers from affecting plasmatocytes, both of which function from the early embryo to the adult."}],"month":"03","volume":8,"oa_version":"Published Version","isi":1,"has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"}},{"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pubmed/29777221","open_access":"1"}],"ec_funded":1,"department":[{"_id":"MiSi"},{"_id":"Bio"}],"year":"2018","intvolume":"        19","project":[{"call_identifier":"H2020","grant_number":"724373","name":"Cellular Navigation Along Spatial Gradients","_id":"25FE9508-B435-11E9-9278-68D0E5697425"},{"grant_number":"747687","call_identifier":"H2020","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","_id":"260AA4E2-B435-11E9-9278-68D0E5697425"},{"name":"Molecular and system level view of immune cell migration","_id":"25A48D24-B435-11E9-9278-68D0E5697425","grant_number":"ALTF 1396-2014"},{"grant_number":"281556","call_identifier":"FP7","_id":"25A603A2-B435-11E9-9278-68D0E5697425","name":"Cytoskeletal force generation and force transduction of migrating leukocytes"}],"language":[{"iso":"eng"}],"external_id":{"isi":["000433041500026"],"pmid":["29777221"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:44:10Z","oa":1,"ddc":["570"],"acknowledgement":"This work was funded by grants from the European Research Council (ERC StG 281556 and CoG 724373) and the Austrian Science Foundation (FWF) to M.S. and by Swiss National Foundation (SNF) project grants 31003A_135649, 31003A_153457 and CR23I3_156234 to J.V.S. F.G. received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 747687, and J.R. was funded by an EMBO long-term fellowship (ALTF 1396-2014).","scopus_import":"1","publist_id":"8040","day":"18","doi":"10.1038/s41590-018-0109-z","publisher":"Nature Publishing Group","quality_controlled":"1","pmid":1,"publication":"Nature Immunology","page":"606 - 616","publication_status":"published","date_published":"2018-05-18T00:00:00Z","author":[{"id":"4167FE56-F248-11E8-B48F-1D18A9856A87","first_name":"Miroslav","last_name":"Hons","orcid":"0000-0002-6625-3348","full_name":"Hons, Miroslav"},{"full_name":"Kopf, Aglaja","last_name":"Kopf","orcid":"0000-0002-2187-6656","first_name":"Aglaja","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","last_name":"Hauschild","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-1073-744X","last_name":"Leithner","full_name":"Leithner, Alexander F","id":"3B1B77E4-F248-11E8-B48F-1D18A9856A87","first_name":"Alexander F"},{"id":"397A88EE-F248-11E8-B48F-1D18A9856A87","first_name":"Florian R","last_name":"Gärtner","orcid":"0000-0001-6120-3723","full_name":"Gärtner, Florian R"},{"first_name":"Jun","full_name":"Abe, Jun","last_name":"Abe"},{"first_name":"Jörg","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","full_name":"Renkawitz, Jörg","last_name":"Renkawitz","orcid":"0000-0003-2856-3369"},{"first_name":"Jens","last_name":"Stein","full_name":"Stein, Jens"},{"full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","last_name":"Sixt","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"acknowledged_ssus":[{"_id":"SSU"}],"title":"Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells","oa_version":"Published Version","isi":1,"related_material":{"record":[{"status":"public","id":"6891","relation":"dissertation_contains"}]},"volume":19,"month":"05","abstract":[{"lang":"eng","text":"Although much is known about the physiological framework of T cell motility, and numerous rate-limiting molecules have been identified through loss-of-function approaches, an integrated functional concept of T cell motility is lacking. Here, we used in vivo precision morphometry together with analysis of cytoskeletal dynamics in vitro to deconstruct the basic mechanisms of T cell migration within lymphatic organs. We show that the contributions of the integrin LFA-1 and the chemokine receptor CCR7 are complementary rather than positioned in a linear pathway, as they are during leukocyte extravasation from the blood vasculature. Our data demonstrate that CCR7 controls cortical actin flows, whereas integrins mediate substrate friction that is sufficient to drive locomotion in the absence of considerable surface adhesions and plasma membrane flux."}],"date_updated":"2026-08-31T22:30:24Z","issue":"6","_id":"15","status":"public","type":"journal_article","article_processing_charge":"No","citation":{"apa":"Hons, M., Kopf, A., Hauschild, R., Leithner, A. F., Gärtner, F. R., Abe, J., … Sixt, M. K. (2018). Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells. <i>Nature Immunology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41590-018-0109-z\">https://doi.org/10.1038/s41590-018-0109-z</a>","ama":"Hons M, Kopf A, Hauschild R, et al. Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells. <i>Nature Immunology</i>. 2018;19(6):606-616. doi:<a href=\"https://doi.org/10.1038/s41590-018-0109-z\">10.1038/s41590-018-0109-z</a>","ieee":"M. Hons <i>et al.</i>, “Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells,” <i>Nature Immunology</i>, vol. 19, no. 6. Nature Publishing Group, pp. 606–616, 2018.","chicago":"Hons, Miroslav, Aglaja Kopf, Robert Hauschild, Alexander F Leithner, Florian R Gärtner, Jun Abe, Jörg Renkawitz, Jens Stein, and Michael K Sixt. “Chemokines and Integrins Independently Tune Actin Flow and Substrate Friction during Intranodal Migration of T Cells.” <i>Nature Immunology</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41590-018-0109-z\">https://doi.org/10.1038/s41590-018-0109-z</a>.","mla":"Hons, Miroslav, et al. “Chemokines and Integrins Independently Tune Actin Flow and Substrate Friction during Intranodal Migration of T Cells.” <i>Nature Immunology</i>, vol. 19, no. 6, Nature Publishing Group, 2018, pp. 606–16, doi:<a href=\"https://doi.org/10.1038/s41590-018-0109-z\">10.1038/s41590-018-0109-z</a>.","short":"M. Hons, A. Kopf, R. Hauschild, A.F. Leithner, F.R. Gärtner, J. Abe, J. Renkawitz, J. Stein, M.K. Sixt, Nature Immunology 19 (2018) 606–616.","ista":"Hons M, Kopf A, Hauschild R, Leithner AF, Gärtner FR, Abe J, Renkawitz J, Stein J, Sixt MK. 2018. Chemokines and integrins independently tune actin flow and substrate friction during intranodal migration of T cells. Nature Immunology. 19(6), 606–616."}},{"file_date_updated":"2020-07-14T12:46:25Z","oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_created":"2018-12-11T11:46:23Z","corr_author":"1","external_id":{"isi":["000433113900004"]},"language":[{"iso":"eng"}],"project":[{"grant_number":"306589","call_identifier":"FP7","_id":"25152F3A-B435-11E9-9278-68D0E5697425","name":"Decoding the complexity of turbulence at its origin"}],"department":[{"_id":"BjHo"}],"intvolume":"       100","year":"2018","ec_funded":1,"publisher":"Springer","doi":"10.1007/s10494-018-9896-4","day":"01","publist_id":"7401","scopus_import":"1","ddc":["530"],"title":"Relaminarization by steady modification of the streamwise velocity profile in a pipe","author":[{"id":"3A47AE32-F248-11E8-B48F-1D18A9856A87","first_name":"Jakob","orcid":"0000-0003-4312-0179","last_name":"Kühnen","full_name":"Kühnen, Jakob"},{"id":"40315C30-F248-11E8-B48F-1D18A9856A87","first_name":"Davide","last_name":"Scarselli","orcid":"0000-0001-5227-4271","full_name":"Scarselli, Davide"},{"id":"316CE034-F248-11E8-B48F-1D18A9856A87","first_name":"Markus","last_name":"Schaner","full_name":"Schaner, Markus"},{"full_name":"Hof, Björn","last_name":"Hof","orcid":"0000-0003-2057-2754","first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87"}],"date_published":"2018-01-01T00:00:00Z","publication_status":"published","page":"919 - 942","file":[{"file_id":"5717","file_name":"2018_FlowTurbulenceCombust_Kuehnen.pdf","access_level":"open_access","content_type":"application/pdf","file_size":2210020,"date_created":"2018-12-17T15:52:37Z","date_updated":"2020-07-14T12:46:25Z","checksum":"d7c0bade150faabca150b0a9986e60ca","relation":"main_file","creator":"dernst"}],"publication":"Flow Turbulence and Combustion","quality_controlled":"1","citation":{"short":"J. Kühnen, D. Scarselli, M. Schaner, B. Hof, Flow Turbulence and Combustion 100 (2018) 919–942.","ista":"Kühnen J, Scarselli D, Schaner M, Hof B. 2018. Relaminarization by steady modification of the streamwise velocity profile in a pipe. Flow Turbulence and Combustion. 100(4), 919–942.","ieee":"J. Kühnen, D. Scarselli, M. Schaner, and B. Hof, “Relaminarization by steady modification of the streamwise velocity profile in a pipe,” <i>Flow Turbulence and Combustion</i>, vol. 100, no. 4. Springer, pp. 919–942, 2018.","chicago":"Kühnen, Jakob, Davide Scarselli, Markus Schaner, and Björn Hof. “Relaminarization by Steady Modification of the Streamwise Velocity Profile in a Pipe.” <i>Flow Turbulence and Combustion</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s10494-018-9896-4\">https://doi.org/10.1007/s10494-018-9896-4</a>.","mla":"Kühnen, Jakob, et al. “Relaminarization by Steady Modification of the Streamwise Velocity Profile in a Pipe.” <i>Flow Turbulence and Combustion</i>, vol. 100, no. 4, Springer, 2018, pp. 919–42, doi:<a href=\"https://doi.org/10.1007/s10494-018-9896-4\">10.1007/s10494-018-9896-4</a>.","ama":"Kühnen J, Scarselli D, Schaner M, Hof B. Relaminarization by steady modification of the streamwise velocity profile in a pipe. <i>Flow Turbulence and Combustion</i>. 2018;100(4):919-942. doi:<a href=\"https://doi.org/10.1007/s10494-018-9896-4\">10.1007/s10494-018-9896-4</a>","apa":"Kühnen, J., Scarselli, D., Schaner, M., &#38; Hof, B. (2018). Relaminarization by steady modification of the streamwise velocity profile in a pipe. <i>Flow Turbulence and Combustion</i>. Springer. <a href=\"https://doi.org/10.1007/s10494-018-9896-4\">https://doi.org/10.1007/s10494-018-9896-4</a>"},"article_processing_charge":"Yes (via OA deal)","type":"journal_article","_id":"422","status":"public","issue":"4","date_updated":"2026-08-31T22:30:26Z","abstract":[{"text":"We show that a rather simple, steady modification of the streamwise velocity profile in a pipe can lead to a complete collapse of turbulence and the flow fully relaminarizes. Two different devices, a stationary obstacle (inset) and a device which injects fluid through an annular gap close to the wall, are used to control the flow. Both devices modify the streamwise velocity profile such that the flow in the center of the pipe is decelerated and the flow in the near wall region is accelerated. We present measurements with stereoscopic particle image velocimetry to investigate and capture the development of the relaminarizing flow downstream these devices and the specific circumstances responsible for relaminarization. We find total relaminarization up to Reynolds numbers of 6000, where the skin friction in the far downstream distance is reduced by a factor of 3.4 due to relaminarization. In a smooth straight pipe the flow remains completely laminar downstream of the control. Furthermore, we show that transient (temporary) relaminarization in a spatially confined region right downstream the devices occurs also at much higher Reynolds numbers, accompanied by a significant local skin friction drag reduction. The underlying physical mechanism of relaminarization is attributed to a weakening of the near-wall turbulence production cycle.","lang":"eng"}],"volume":100,"month":"01","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"7258"}]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"isi":1,"oa_version":"Published Version","has_accepted_license":"1"},{"oa_version":"Preprint","isi":1,"related_material":{"record":[{"relation":"dissertation_contains","id":"12726","status":"public"},{"status":"public","id":"14530","relation":"dissertation_contains"},{"id":"7258","status":"public","relation":"dissertation_contains"}]},"abstract":[{"lang":"eng","text":"Turbulence is the major cause of friction losses in transport processes and it is responsible for a drastic drag increase in flows over bounding surfaces. While much effort is invested into developing ways to control and reduce turbulence intensities, so far no methods exist to altogether eliminate turbulence if velocities are sufficiently large. We demonstrate for pipe flow that appropriate distortions to the velocity profile lead to a complete collapse of turbulence and subsequently friction losses are reduced by as much as 90%. Counterintuitively, the return to laminar motion is accomplished by initially increasing turbulence intensities or by transiently amplifying wall shear. Since neither the Reynolds number nor the shear stresses decrease (the latter often increase), these measures are not indicative of turbulence collapse. Instead, an amplification mechanism                      measuring the interaction between eddies and the mean shear is found to set a threshold below which turbulence is suppressed beyond recovery."}],"volume":14,"month":"01","date_updated":"2026-08-31T22:30:27Z","status":"public","_id":"461","type":"journal_article","article_processing_charge":"No","citation":{"short":"J. Kühnen, B. Song, D. Scarselli, N.B. Budanur, M. Riedl, A. Willis, M. Avila, B. Hof, Nature Physics 14 (2018) 386–390.","ista":"Kühnen J, Song B, Scarselli D, Budanur NB, Riedl M, Willis A, Avila M, Hof B. 2018. Destabilizing turbulence in pipe flow. Nature Physics. 14, 386–390.","ieee":"J. Kühnen <i>et al.</i>, “Destabilizing turbulence in pipe flow,” <i>Nature Physics</i>, vol. 14. Nature Publishing Group, pp. 386–390, 2018.","chicago":"Kühnen, Jakob, Baofang Song, Davide Scarselli, Nazmi B Budanur, Michael Riedl, Ashley Willis, Marc Avila, and Björn Hof. “Destabilizing Turbulence in Pipe Flow.” <i>Nature Physics</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41567-017-0018-3\">https://doi.org/10.1038/s41567-017-0018-3</a>.","mla":"Kühnen, Jakob, et al. “Destabilizing Turbulence in Pipe Flow.” <i>Nature Physics</i>, vol. 14, Nature Publishing Group, 2018, pp. 386–90, doi:<a href=\"https://doi.org/10.1038/s41567-017-0018-3\">10.1038/s41567-017-0018-3</a>.","ama":"Kühnen J, Song B, Scarselli D, et al. Destabilizing turbulence in pipe flow. <i>Nature Physics</i>. 2018;14:386-390. doi:<a href=\"https://doi.org/10.1038/s41567-017-0018-3\">10.1038/s41567-017-0018-3</a>","apa":"Kühnen, J., Song, B., Scarselli, D., Budanur, N. B., Riedl, M., Willis, A., … Hof, B. (2018). Destabilizing turbulence in pipe flow. <i>Nature Physics</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41567-017-0018-3\">https://doi.org/10.1038/s41567-017-0018-3</a>"},"quality_controlled":"1","publication":"Nature Physics","page":"386-390","publication_status":"published","date_published":"2018-01-08T00:00:00Z","author":[{"first_name":"Jakob","id":"3A47AE32-F248-11E8-B48F-1D18A9856A87","full_name":"Kühnen, Jakob","orcid":"0000-0003-4312-0179","last_name":"Kühnen"},{"last_name":"Song","full_name":"Song, Baofang","first_name":"Baofang"},{"id":"40315C30-F248-11E8-B48F-1D18A9856A87","first_name":"Davide","last_name":"Scarselli","orcid":"0000-0001-5227-4271","full_name":"Scarselli, Davide"},{"first_name":"Nazmi B","id":"3EA1010E-F248-11E8-B48F-1D18A9856A87","full_name":"Budanur, Nazmi B","orcid":"0000-0003-0423-5010","last_name":"Budanur"},{"first_name":"Michael","id":"3BE60946-F248-11E8-B48F-1D18A9856A87","full_name":"Riedl, Michael","last_name":"Riedl","orcid":"0000-0003-4844-6311"},{"first_name":"Ashley","last_name":"Willis","full_name":"Willis, Ashley"},{"first_name":"Marc","last_name":"Avila","full_name":"Avila, Marc"},{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","last_name":"Hof","orcid":"0000-0003-2057-2754","full_name":"Hof, Björn"}],"title":"Destabilizing turbulence in pipe flow","acknowledgement":"We acknowledge the European Research Council under the European Union’s Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement 306589, the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 737549) and the Deutsche Forschungsgemeinschaft (Project No. FOR 1182) for financial support. We thank our technician P. Maier for providing highly valuable ideas and greatly supporting us in all technical aspects. We thank M. Schaner for technical drawings, construction and design. We thank M. Schwegel for a Matlab code to post-process experimental data.","scopus_import":"1","publist_id":"7360","day":"08","arxiv":1,"doi":"10.1038/s41567-017-0018-3","publisher":"Nature Publishing Group","main_file_link":[{"url":"https://arxiv.org/abs/1711.06543","open_access":"1"}],"ec_funded":1,"department":[{"_id":"BjHo"}],"year":"2018","intvolume":"        14","project":[{"grant_number":"306589","call_identifier":"FP7","_id":"25152F3A-B435-11E9-9278-68D0E5697425","name":"Decoding the complexity of turbulence at its origin"},{"name":"Eliminating turbulence in oil pipelines","_id":"25104D44-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"737549"}],"language":[{"iso":"eng"}],"external_id":{"arxiv":["1711.06543"],"isi":["000429434100020"]},"corr_author":"1","date_created":"2018-12-11T11:46:36Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1},{"scopus_import":"1","ddc":["576"],"publist_id":"7274","day":"01","publisher":"Genetics Society of America","doi":"10.1534/genetics.117.300513","project":[{"name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","_id":"250BDE62-B435-11E9-9278-68D0E5697425","grant_number":"715257","call_identifier":"H2020"}],"intvolume":"       208","department":[{"_id":"BeVi"}],"year":"2018","ec_funded":1,"corr_author":"1","external_id":{"isi":["000419356300024"]},"language":[{"iso":"eng"}],"file_date_updated":"2020-07-14T12:46:50Z","oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_created":"2018-12-11T11:47:04Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","isi":1,"has_accepted_license":"1","issue":"1","date_updated":"2026-08-31T22:30:31Z","pubrep_id":"1058","volume":208,"abstract":[{"text":"The t-haplotype, a mouse meiotic driver found on chromosome 17, has been a model for autosomal segregation distortion for close to a century, but several questions remain regarding its biology and evolutionary history. A recently published set of population genomics resources for wild mice includes several individuals heterozygous for the t-haplotype, which we use to characterize this selfish element at the genomic and transcriptomic level. Our results show that large sections of the t-haplotype have been replaced by standard homologous sequences, possibly due to occasional events of recombination, and that this complicates the inference of its history. As expected for a long genomic segment of very low recombination, the t-haplotype carries an excess of fixed nonsynonymous mutations compared to the standard chromosome. This excess is stronger for regions that have not undergone recent recombination, suggesting that occasional gene flow between the t and the standard chromosome may provide a mechanism to regenerate coding sequences that have accumulated deleterious mutations. Finally, we find that t-complex genes with altered expression largely overlap with deleted or amplified regions, and that carrying a t-haplotype alters the testis expression of genes outside of the t-complex, providing new leads into the pathways involved in the biology of this segregation distorter.","lang":"eng"}],"month":"01","related_material":{"record":[{"relation":"popular_science","id":"5571","status":"public"},{"relation":"popular_science","status":"public","id":"5572"},{"id":"17119","status":"public","relation":"dissertation_contains"}]},"article_type":"original","status":"public","_id":"542","citation":{"ista":"Kelemen RK, Vicoso B. 2018. Complex history and differentiation patterns of the t-haplotype, a mouse meiotic driver. Genetics. 208(1), 365–375.","short":"R.K. Kelemen, B. Vicoso, Genetics 208 (2018) 365–375.","mla":"Kelemen, Réka K., and Beatriz Vicoso. “Complex History and Differentiation Patterns of the T-Haplotype, a Mouse Meiotic Driver.” <i>Genetics</i>, vol. 208, no. 1, Genetics Society of America, 2018, pp. 365–75, doi:<a href=\"https://doi.org/10.1534/genetics.117.300513\">10.1534/genetics.117.300513</a>.","ieee":"R. K. Kelemen and B. Vicoso, “Complex history and differentiation patterns of the t-haplotype, a mouse meiotic driver,” <i>Genetics</i>, vol. 208, no. 1. Genetics Society of America, pp. 365–375, 2018.","chicago":"Kelemen, Réka K, and Beatriz Vicoso. “Complex History and Differentiation Patterns of the T-Haplotype, a Mouse Meiotic Driver.” <i>Genetics</i>. Genetics Society of America, 2018. <a href=\"https://doi.org/10.1534/genetics.117.300513\">https://doi.org/10.1534/genetics.117.300513</a>.","ama":"Kelemen RK, Vicoso B. Complex history and differentiation patterns of the t-haplotype, a mouse meiotic driver. <i>Genetics</i>. 2018;208(1):365-375. doi:<a href=\"https://doi.org/10.1534/genetics.117.300513\">10.1534/genetics.117.300513</a>","apa":"Kelemen, R. K., &#38; Vicoso, B. (2018). Complex history and differentiation patterns of the t-haplotype, a mouse meiotic driver. <i>Genetics</i>. Genetics Society of America. <a href=\"https://doi.org/10.1534/genetics.117.300513\">https://doi.org/10.1534/genetics.117.300513</a>"},"article_processing_charge":"No","type":"journal_article","publication":"Genetics","file":[{"date_created":"2018-12-12T10:15:14Z","file_size":1311661,"access_level":"open_access","file_name":"IST-2018-1058-v1+1_365.full__1_.pdf","content_type":"application/pdf","file_id":"5132","creator":"system","checksum":"2123845e7031a0cf043905be160f9e69","relation":"main_file","date_updated":"2020-07-14T12:46:50Z"}],"quality_controlled":"1","page":"365 - 375","publication_status":"published","author":[{"id":"48D3F8DE-F248-11E8-B48F-1D18A9856A87","first_name":"Réka K","orcid":"0000-0002-8489-9281","last_name":"Kelemen","full_name":"Kelemen, Réka K"},{"first_name":"Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","last_name":"Vicoso","orcid":"0000-0002-4579-8306"}],"date_published":"2018-01-01T00:00:00Z","title":"Complex history and differentiation patterns of the t-haplotype, a mouse meiotic driver"},{"publist_id":"7417","scopus_import":"1","ddc":["580"],"acknowledgement":"We thank James Matthew Watson, Monika Borowska, and Peggy Stolt-Bergner at ProTech Facility of the Vienna Biocenter Core Facilities for the CRISPR/CAS9 construct; Anna Müller for assistance with molecular cloning; Sebastian Bednarek, Liwen Jiang, and Daniël Van Damme for sharing published material; Matyáš Fendrych, Daniël Van Damme, and Lindy Abas for valuable discussions; and Martine De Cock for help with correcting the manuscript. This work was supported by the European Research Council under the European Union Seventh Framework Programme (FP7/2007-2013)/ERC Grant 282300 and by the Ministry of Education of the Czech Republic/MŠMT project NPUI-LO1417.","publisher":"American Society of Plant Biologists","doi":"10.1105/tpc.17.00785","day":"09","year":"2018","intvolume":"        30","department":[{"_id":"JiFr"}],"project":[{"grant_number":"282300","call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"ec_funded":1,"oa":1,"file_date_updated":"2022-05-23T09:12:38Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_created":"2018-12-11T11:46:20Z","corr_author":"1","language":[{"iso":"eng"}],"external_id":{"isi":["000429441400018"],"pmid":["29511054"]},"volume":30,"month":"04","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) is a cellular trafficking process in which cargoes and lipids are internalized from the plasma membrane into vesicles coated with clathrin and adaptor proteins. CME is essential for many developmental and physiological processes in plants, but its underlying mechanism is not well characterised compared to that in yeast and animal systems. Here, we searched for new factors involved in CME in Arabidopsis thaliana by performing Tandem Affinity Purification of proteins that interact with clathrin light chain, a principal component of the clathrin coat. Among the confirmed interactors, we found two putative homologues of the clathrin-coat uncoating factor auxilin previously described in non-plant systems. Overexpression of AUXILIN-LIKE1 and AUXILIN-LIKE2 in A. thaliana caused an arrest of seedling growth and development. This was concomitant with inhibited endocytosis due to blocking of clathrin recruitment after the initial step of adaptor protein binding to the plasma membrane. By contrast, auxilin-like(1/2) loss-of-function lines did not present endocytosis-related developmental or cellular phenotypes under normal growth conditions. This work contributes to the on-going characterization of the endocytotic machinery in plants and provides a robust tool for conditionally and specifically interfering with CME in A. thaliana."}],"issue":"3","date_updated":"2026-08-31T22:30:39Z","article_type":"original","related_material":{"record":[{"relation":"dissertation_contains","id":"6269","status":"public"}]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"has_accepted_license":"1","isi":1,"oa_version":"Published Version","article_processing_charge":"No","citation":{"mla":"Adamowski, Maciek, et al. “A Functional Study of AUXILIN LIKE1 and 2 Two Putative Clathrin Uncoating Factors in Arabidopsis.” <i>The Plant Cell</i>, vol. 30, no. 3, American Society of Plant Biologists, 2018, pp. 700–16, doi:<a href=\"https://doi.org/10.1105/tpc.17.00785\">10.1105/tpc.17.00785</a>.","chicago":"Adamowski, Maciek, Madhumitha Narasimhan, Urszula Kania, Matous Glanc, Geert De Jaeger, and Jiří Friml. “A Functional Study of AUXILIN LIKE1 and 2 Two Putative Clathrin Uncoating Factors in Arabidopsis.” <i>The Plant Cell</i>. American Society of Plant Biologists, 2018. <a href=\"https://doi.org/10.1105/tpc.17.00785\">https://doi.org/10.1105/tpc.17.00785</a>.","ieee":"M. Adamowski, M. Narasimhan, U. Kania, M. Glanc, G. De Jaeger, and J. Friml, “A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis,” <i>The Plant Cell</i>, vol. 30, no. 3. American Society of Plant Biologists, pp. 700–716, 2018.","ista":"Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. 2018. A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. The Plant Cell. 30(3), 700–716.","short":"M. Adamowski, M. Narasimhan, U. Kania, M. Glanc, G. De Jaeger, J. Friml, The Plant Cell 30 (2018) 700–716.","apa":"Adamowski, M., Narasimhan, M., Kania, U., Glanc, M., De Jaeger, G., &#38; Friml, J. (2018). A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. <i>The Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1105/tpc.17.00785\">https://doi.org/10.1105/tpc.17.00785</a>","ama":"Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. <i>The Plant Cell</i>. 2018;30(3):700-716. doi:<a href=\"https://doi.org/10.1105/tpc.17.00785\">10.1105/tpc.17.00785</a>"},"type":"journal_article","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298X"]},"status":"public","_id":"412","publication_status":"published","page":"700 - 716","publication":"The Plant Cell","file":[{"date_created":"2022-05-23T09:12:38Z","file_size":4407538,"file_name":"2018_PlantCell_Adamowski.pdf","file_id":"11406","access_level":"open_access","content_type":"application/pdf","checksum":"4e165e653b67d3f0684697f21aace5a1","success":1,"creator":"dernst","relation":"main_file","date_updated":"2022-05-23T09:12:38Z"}],"quality_controlled":"1","pmid":1,"title":"A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis","date_published":"2018-04-09T00:00:00Z","author":[{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","first_name":"Maciek","last_name":"Adamowski","orcid":"0000-0001-6463-5257","full_name":"Adamowski, Maciek"},{"first_name":"Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","full_name":"Narasimhan, Madhumitha","last_name":"Narasimhan","orcid":"0000-0002-8600-0671"},{"id":"4AE5C486-F248-11E8-B48F-1D18A9856A87","first_name":"Urszula","last_name":"Kania","full_name":"Kania, Urszula"},{"id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","first_name":"Matous","last_name":"Glanc","orcid":"0000-0003-0619-7783","full_name":"Glanc, Matous"},{"first_name":"Geert","full_name":"De Jaeger, Geert","last_name":"De Jaeger"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","last_name":"Friml"}]}]