[{"article_processing_charge":"Yes","file":[{"date_updated":"2020-07-14T12:47:53Z","file_name":"IST-2017-884-v1+1_journal.pcbi.1005763.pdf","checksum":"81107096c19771c36ddbe6f0282a3acb","date_created":"2018-12-12T10:18:30Z","file_size":14167050,"creator":"system","content_type":"application/pdf","access_level":"open_access","relation":"main_file","file_id":"5352"}],"date_updated":"2021-01-12T08:12:21Z","abstract":[{"text":"Advances in multi-unit recordings pave the way for statistical modeling of activity patterns in large neural populations. Recent studies have shown that the summed activity of all neurons strongly shapes the population response. A separate recent finding has been that neural populations also exhibit criticality, an anomalously large dynamic range for the probabilities of different population activity patterns. Motivated by these two observations, we introduce a class of probabilistic models which takes into account the prior knowledge that the neural population could be globally coupled and close to critical. These models consist of an energy function which parametrizes interactions between small groups of neurons, and an arbitrary positive, strictly increasing, and twice differentiable function which maps the energy of a population pattern to its probability. We show that: 1) augmenting a pairwise Ising model with a nonlinearity yields an accurate description of the activity of retinal ganglion cells which outperforms previous models based on the summed activity of neurons; 2) prior knowledge that the population is critical translates to prior expectations about the shape of the nonlinearity; 3) the nonlinearity admits an interpretation in terms of a continuous latent variable globally coupling the system whose distribution we can infer from data. Our method is independent of the underlying system’s state space; hence, it can be applied to other systems such as natural scenes or amino acid sequences of proteins which are also known to exhibit criticality.","lang":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"author":[{"full_name":"Humplik, Jan","last_name":"Humplik","id":"2E9627A8-F248-11E8-B48F-1D18A9856A87","first_name":"Jan"},{"full_name":"Tkacik, Gasper","last_name":"Tkacik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gasper","orcid":"0000-0002-6699-1455"}],"publication_identifier":{"issn":["1553734X"]},"scopus_import":1,"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"issue":"9","year":"2017","volume":13,"has_accepted_license":"1","department":[{"_id":"GaTk"}],"project":[{"name":"Information processing and computation in fish groups","_id":"255008E4-B435-11E9-9278-68D0E5697425","grant_number":"RGP0065/2012"},{"grant_number":"P 25651-N26","name":"Sensitivity to higher-order statistics in natural scenes","call_identifier":"FWF","_id":"254D1A94-B435-11E9-9278-68D0E5697425"}],"title":"Probabilistic models for neural populations that naturally capture global coupling and criticality","publication_status":"published","ddc":["530","571"],"file_date_updated":"2020-07-14T12:47:53Z","publisher":"Public Library of Science","publist_id":"6960","_id":"720","quality_controlled":"1","month":"09","pubrep_id":"884","publication":"PLoS Computational Biology","oa_version":"Published Version","citation":{"mla":"Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations That Naturally Capture Global Coupling and Criticality.” <i>PLoS Computational Biology</i>, vol. 13, no. 9, e1005763, Public Library of Science, 2017, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">10.1371/journal.pcbi.1005763</a>.","apa":"Humplik, J., &#38; Tkačik, G. (2017). Probabilistic models for neural populations that naturally capture global coupling and criticality. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">https://doi.org/10.1371/journal.pcbi.1005763</a>","ama":"Humplik J, Tkačik G. Probabilistic models for neural populations that naturally capture global coupling and criticality. <i>PLoS Computational Biology</i>. 2017;13(9). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">10.1371/journal.pcbi.1005763</a>","ista":"Humplik J, Tkačik G. 2017. Probabilistic models for neural populations that naturally capture global coupling and criticality. PLoS Computational Biology. 13(9), e1005763.","chicago":"Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations That Naturally Capture Global Coupling and Criticality.” <i>PLoS Computational Biology</i>. Public Library of Science, 2017. <a href=\"https://doi.org/10.1371/journal.pcbi.1005763\">https://doi.org/10.1371/journal.pcbi.1005763</a>.","ieee":"J. Humplik and G. Tkačik, “Probabilistic models for neural populations that naturally capture global coupling and criticality,” <i>PLoS Computational Biology</i>, vol. 13, no. 9. Public Library of Science, 2017.","short":"J. Humplik, G. Tkačik, PLoS Computational Biology 13 (2017)."},"date_created":"2018-12-11T11:48:08Z","type":"journal_article","day":"19","oa":1,"status":"public","date_published":"2017-09-19T00:00:00Z","doi":"10.1371/journal.pcbi.1005763","intvolume":"        13","article_number":"e1005763"},{"main_file_link":[{"url":"https://arxiv.org/abs/1512.03703","open_access":"1"}],"day":"01","oa":1,"doi":"10.1002/cpa.21639","date_published":"2017-09-01T00:00:00Z","intvolume":"        70","status":"public","month":"09","quality_controlled":"1","type":"journal_article","publication":"Communications on Pure and Applied Mathematics","citation":{"ista":"Ajanki OH, Krüger TH, Erdös L. 2017. Singularities of solutions to quadratic vector equations on the complex upper half plane. Communications on Pure and Applied Mathematics. 70(9), 1672–1705.","chicago":"Ajanki, Oskari H, Torben H Krüger, and László Erdös. “Singularities of Solutions to Quadratic Vector Equations on the Complex Upper Half Plane.” <i>Communications on Pure and Applied Mathematics</i>. Wiley-Blackwell, 2017. <a href=\"https://doi.org/10.1002/cpa.21639\">https://doi.org/10.1002/cpa.21639</a>.","short":"O.H. Ajanki, T.H. Krüger, L. Erdös, Communications on Pure and Applied Mathematics 70 (2017) 1672–1705.","ieee":"O. H. Ajanki, T. H. Krüger, and L. Erdös, “Singularities of solutions to quadratic vector equations on the complex upper half plane,” <i>Communications on Pure and Applied Mathematics</i>, vol. 70, no. 9. Wiley-Blackwell, pp. 1672–1705, 2017.","apa":"Ajanki, O. H., Krüger, T. H., &#38; Erdös, L. (2017). Singularities of solutions to quadratic vector equations on the complex upper half plane. <i>Communications on Pure and Applied Mathematics</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1002/cpa.21639\">https://doi.org/10.1002/cpa.21639</a>","mla":"Ajanki, Oskari H., et al. “Singularities of Solutions to Quadratic Vector Equations on the Complex Upper Half Plane.” <i>Communications on Pure and Applied Mathematics</i>, vol. 70, no. 9, Wiley-Blackwell, 2017, pp. 1672–705, doi:<a href=\"https://doi.org/10.1002/cpa.21639\">10.1002/cpa.21639</a>.","ama":"Ajanki OH, Krüger TH, Erdös L. Singularities of solutions to quadratic vector equations on the complex upper half plane. <i>Communications on Pure and Applied Mathematics</i>. 2017;70(9):1672-1705. doi:<a href=\"https://doi.org/10.1002/cpa.21639\">10.1002/cpa.21639</a>"},"oa_version":"Submitted Version","date_created":"2018-12-11T11:48:08Z","project":[{"grant_number":"338804","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7"}],"title":"Singularities of solutions to quadratic vector equations on the complex upper half plane","page":"1672 - 1705","department":[{"_id":"LaEr"}],"publisher":"Wiley-Blackwell","publist_id":"6959","ec_funded":1,"_id":"721","publication_status":"published","language":[{"iso":"eng"}],"author":[{"full_name":"Ajanki, Oskari H","id":"36F2FB7E-F248-11E8-B48F-1D18A9856A87","last_name":"Ajanki","first_name":"Oskari H"},{"first_name":"Torben H","full_name":"Krüger, Torben H","last_name":"Krüger","id":"3020C786-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4821-3297"},{"orcid":"0000-0001-5366-9603","first_name":"László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","full_name":"Erdös, László"}],"publication_identifier":{"issn":["00103640"]},"date_updated":"2021-01-12T08:12:24Z","abstract":[{"lang":"eng","text":"Let S be a positivity-preserving symmetric linear operator acting on bounded functions. The nonlinear equation -1/m=z+Sm with a parameter z in the complex upper half-plane ℍ has a unique solution m with values in ℍ. We show that the z-dependence of this solution can be represented as the Stieltjes transforms of a family of probability measures v on ℝ. Under suitable conditions on S, we show that v has a real analytic density apart from finitely many algebraic singularities of degree at most 3. Our motivation comes from large random matrices. The solution m determines the density of eigenvalues of two prominent matrix ensembles: (i) matrices with centered independent entries whose variances are given by S and (ii) matrices with correlated entries with a translation-invariant correlation structure. Our analysis shows that the limiting eigenvalue density has only square root singularities or cubic root cusps; no other singularities occur."}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","volume":70,"scopus_import":1,"issue":"9","year":"2017"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Plants are sessile organisms rooted in one place. The soil resources that plants require are often distributed in a highly heterogeneous pattern. To aid foraging, plants have evolved roots whose growth and development are highly responsive to soil signals. As a result, 3D root architecture is shaped by myriad environmental signals to ensure resource capture is optimised and unfavourable environments are avoided. The first signals sensed by newly germinating seeds — gravity and light — direct root growth into the soil to aid seedling establishment. Heterogeneous soil resources, such as water, nitrogen and phosphate, also act as signals that shape 3D root growth to optimise uptake. Root architecture is also modified through biotic interactions that include soil fungi and neighbouring plants. This developmental plasticity results in a ‘custom-made’ 3D root system that is best adapted to forage for resources in each soil environment that a plant colonises."}],"date_updated":"2021-01-12T08:12:29Z","file":[{"checksum":"e45588b21097b408da6276a3e5eedb2e","date_updated":"2020-07-14T12:47:54Z","file_name":"2017_CurrentBiology_Morris.pdf","date_created":"2019-04-17T07:46:40Z","file_size":1576593,"relation":"main_file","file_id":"6332","creator":"dernst","access_level":"open_access","content_type":"application/pdf"}],"author":[{"first_name":"Emily","last_name":"Morris","full_name":"Morris, Emily"},{"first_name":"Marcus","last_name":"Griffiths","full_name":"Griffiths, Marcus"},{"first_name":"Agata","last_name":"Golebiowska","full_name":"Golebiowska, Agata"},{"last_name":"Mairhofer","full_name":"Mairhofer, Stefan","first_name":"Stefan"},{"first_name":"Jasmine","last_name":"Burr Hersey","full_name":"Burr Hersey, Jasmine"},{"first_name":"Tatsuaki","full_name":"Goh, Tatsuaki","last_name":"Goh"},{"orcid":"0000-0002-6862-1247","first_name":"Daniel","full_name":"Von Wangenheim, Daniel","id":"49E91952-F248-11E8-B48F-1D18A9856A87","last_name":"Von Wangenheim"},{"first_name":"Brian","last_name":"Atkinson","full_name":"Atkinson, Brian"},{"first_name":"Craig","full_name":"Sturrock, Craig","last_name":"Sturrock"},{"last_name":"Lynch","full_name":"Lynch, Jonathan","first_name":"Jonathan"},{"last_name":"Vissenberg","full_name":"Vissenberg, Kris","first_name":"Kris"},{"full_name":"Ritz, Karl","last_name":"Ritz","first_name":"Karl"},{"first_name":"Darren","last_name":"Wells","full_name":"Wells, Darren"},{"last_name":"Mooney","full_name":"Mooney, Sacha","first_name":"Sacha"},{"first_name":"Malcolm","last_name":"Bennett","full_name":"Bennett, Malcolm"}],"publication_identifier":{"issn":["09609822"]},"language":[{"iso":"eng"}],"pmid":1,"year":"2017","tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"scopus_import":1,"issue":"17","has_accepted_license":"1","volume":27,"department":[{"_id":"JiFr"}],"page":"R919 - R930","title":"Shaping 3D root system architecture","project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","grant_number":"291734"}],"ddc":["581"],"publication_status":"published","file_date_updated":"2020-07-14T12:47:54Z","_id":"722","ec_funded":1,"publist_id":"6956","publisher":"Cell Press","quality_controlled":"1","pubrep_id":"982","month":"09","date_created":"2018-12-11T11:48:08Z","citation":{"ista":"Morris E, Griffiths M, Golebiowska A, Mairhofer S, Burr Hersey J, Goh T, von Wangenheim D, Atkinson B, Sturrock C, Lynch J, Vissenberg K, Ritz K, Wells D, Mooney S, Bennett M. 2017. Shaping 3D root system architecture. Current Biology. 27(17), R919–R930.","chicago":"Morris, Emily, Marcus Griffiths, Agata Golebiowska, Stefan Mairhofer, Jasmine Burr Hersey, Tatsuaki Goh, Daniel von Wangenheim, et al. “Shaping 3D Root System Architecture.” <i>Current Biology</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">https://doi.org/10.1016/j.cub.2017.06.043</a>.","short":"E. Morris, M. Griffiths, A. Golebiowska, S. Mairhofer, J. Burr Hersey, T. Goh, D. von Wangenheim, B. Atkinson, C. Sturrock, J. Lynch, K. Vissenberg, K. Ritz, D. Wells, S. Mooney, M. Bennett, Current Biology 27 (2017) R919–R930.","ieee":"E. Morris <i>et al.</i>, “Shaping 3D root system architecture,” <i>Current Biology</i>, vol. 27, no. 17. Cell Press, pp. R919–R930, 2017.","mla":"Morris, Emily, et al. “Shaping 3D Root System Architecture.” <i>Current Biology</i>, vol. 27, no. 17, Cell Press, 2017, pp. R919–30, doi:<a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">10.1016/j.cub.2017.06.043</a>.","apa":"Morris, E., Griffiths, M., Golebiowska, A., Mairhofer, S., Burr Hersey, J., Goh, T., … Bennett, M. (2017). Shaping 3D root system architecture. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">https://doi.org/10.1016/j.cub.2017.06.043</a>","ama":"Morris E, Griffiths M, Golebiowska A, et al. Shaping 3D root system architecture. <i>Current Biology</i>. 2017;27(17):R919-R930. doi:<a href=\"https://doi.org/10.1016/j.cub.2017.06.043\">10.1016/j.cub.2017.06.043</a>"},"oa_version":"Submitted Version","publication":"Current Biology","type":"journal_article","oa":1,"day":"11","external_id":{"pmid":["28898665"]},"status":"public","intvolume":"        27","date_published":"2017-09-11T00:00:00Z","doi":"10.1016/j.cub.2017.06.043"},{"status":"public","article_number":"104203","date_published":"2017-09-13T00:00:00Z","doi":"10.1103/PhysRevB.96.104203","intvolume":"        96","oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1701.02744"}],"day":"13","citation":{"chicago":"Hetterich, Daniel, Maksym Serbyn, Fernando Domínguez, Frank Pollmann, and Björn Trauzettel. “Noninteracting Central Site Model Localization and Logarithmic Entanglement Growth.” <i>Physical Review B</i>. American Physical Society, 2017. <a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">https://doi.org/10.1103/PhysRevB.96.104203</a>.","ista":"Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. 2017. Noninteracting central site model localization and logarithmic entanglement growth. Physical Review B. 96(10), 104203.","short":"D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, B. Trauzettel, Physical Review B 96 (2017).","ieee":"D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, and B. Trauzettel, “Noninteracting central site model localization and logarithmic entanglement growth,” <i>Physical Review B</i>, vol. 96, no. 10. American Physical Society, 2017.","mla":"Hetterich, Daniel, et al. “Noninteracting Central Site Model Localization and Logarithmic Entanglement Growth.” <i>Physical Review B</i>, vol. 96, no. 10, 104203, American Physical Society, 2017, doi:<a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">10.1103/PhysRevB.96.104203</a>.","apa":"Hetterich, D., Serbyn, M., Domínguez, F., Pollmann, F., &#38; Trauzettel, B. (2017). Noninteracting central site model localization and logarithmic entanglement growth. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">https://doi.org/10.1103/PhysRevB.96.104203</a>","ama":"Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. Noninteracting central site model localization and logarithmic entanglement growth. <i>Physical Review B</i>. 2017;96(10). doi:<a href=\"https://doi.org/10.1103/PhysRevB.96.104203\">10.1103/PhysRevB.96.104203</a>"},"oa_version":"Submitted Version","date_created":"2018-12-11T11:48:09Z","publication":"Physical Review B","type":"journal_article","acknowledgement":"We  would  like  to  thank  Dmitry  Abanin,  Christophe  De\r\nBeule,  Joel  Moore,  Romain  Vasseur,  and  Norman  Yao  for\r\nmany  stimulating  discussions.  Financial  support  has  been\r\nprovided  by  the  Deutsche  Forschungsgemeinschaft  (DFG)\r\nvia Grant No. TR950/8-1, SFB 1170 “ToCoTronics” and the\r\nENB  Graduate  School  on  Topological  Insulators.  M.S.  was\r\nsupported by Gordon and Betty Moore Foundation’s EPiQS\r\nInitiative through Grant No. GBMF4307. F.P. acknowledges\r\nsupport from the DFG Research Unit FOR 1807 through Grant\r\nNo. PO 1370/2-1.","quality_controlled":"1","month":"09","publication_status":"published","_id":"724","publisher":"American Physical Society","publist_id":"6955","department":[{"_id":"MaSe"}],"title":"Noninteracting central site model localization and logarithmic entanglement growth","scopus_import":1,"issue":"10","year":"2017","volume":96,"abstract":[{"lang":"eng","text":"We investigate the stationary and dynamical behavior of an Anderson localized chain coupled to a single central bound state. Although this coupling partially dilutes the Anderson localized peaks towards nearly resonant sites, the most weight of the original peaks remains unchanged. This leads to multifractal wave functions with a frozen spectrum of fractal dimensions, which is characteristic for localized phases in models with power-law hopping. Using a perturbative approach we identify two different dynamical regimes. At weak couplings to the central site, the transport of particles and information is logarithmic in time, a feature usually attributed to many-body localization. We connect such transport to the persistence of the Poisson statistics of level spacings in parts of the spectrum. In contrast, at stronger couplings the level repulsion is established in the entire spectrum, the problem can be mapped to the Fano resonance, and the transport is ballistic."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:35Z","author":[{"first_name":"Daniel","last_name":"Hetterich","full_name":"Hetterich, Daniel"},{"first_name":"Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","full_name":"Serbyn, Maksym","last_name":"Serbyn","orcid":"0000-0002-2399-5827"},{"last_name":"Domínguez","full_name":"Domínguez, Fernando","first_name":"Fernando"},{"last_name":"Pollmann","full_name":"Pollmann, Frank","first_name":"Frank"},{"first_name":"Björn","last_name":"Trauzettel","full_name":"Trauzettel, Björn"}],"publication_identifier":{"issn":["24699950"]},"language":[{"iso":"eng"}]},{"status":"public","doi":"10.1073/pnas.1703817114","date_published":"2017-09-19T00:00:00Z","intvolume":"       114","oa":1,"external_id":{"pmid":["28874581"]},"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617265/","open_access":"1"}],"day":"19","citation":{"ieee":"R. Harpaz, G. Tkačik, and E. Schneidman, “Discrete modes of social information processing predict individual behavior of fish in a group,” <i>PNAS</i>, vol. 114, no. 38. National Academy of Sciences, pp. 10149–10154, 2017.","short":"R. Harpaz, G. Tkačik, E. Schneidman, PNAS 114 (2017) 10149–10154.","chicago":"Harpaz, Roy, Gašper Tkačik, and Elad Schneidman. “Discrete Modes of Social Information Processing Predict Individual Behavior of Fish in a Group.” <i>PNAS</i>. National Academy of Sciences, 2017. <a href=\"https://doi.org/10.1073/pnas.1703817114\">https://doi.org/10.1073/pnas.1703817114</a>.","ista":"Harpaz R, Tkačik G, Schneidman E. 2017. Discrete modes of social information processing predict individual behavior of fish in a group. PNAS. 114(38), 10149–10154.","ama":"Harpaz R, Tkačik G, Schneidman E. Discrete modes of social information processing predict individual behavior of fish in a group. <i>PNAS</i>. 2017;114(38):10149-10154. doi:<a href=\"https://doi.org/10.1073/pnas.1703817114\">10.1073/pnas.1703817114</a>","mla":"Harpaz, Roy, et al. “Discrete Modes of Social Information Processing Predict Individual Behavior of Fish in a Group.” <i>PNAS</i>, vol. 114, no. 38, National Academy of Sciences, 2017, pp. 10149–54, doi:<a href=\"https://doi.org/10.1073/pnas.1703817114\">10.1073/pnas.1703817114</a>.","apa":"Harpaz, R., Tkačik, G., &#38; Schneidman, E. (2017). Discrete modes of social information processing predict individual behavior of fish in a group. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1703817114\">https://doi.org/10.1073/pnas.1703817114</a>"},"oa_version":"Submitted Version","date_created":"2018-12-11T11:48:10Z","publication":"PNAS","type":"journal_article","quality_controlled":"1","month":"09","publication_status":"published","_id":"725","publisher":"National Academy of Sciences","publist_id":"6953","department":[{"_id":"GaTk"}],"page":"10149 - 10154","title":"Discrete modes of social information processing predict individual behavior of fish in a group","issue":"38","scopus_import":1,"year":"2017","volume":114,"abstract":[{"text":"Individual computations and social interactions underlying collective behavior in groups of animals are of great ethological, behavioral, and theoretical interest. While complex individual behaviors have successfully been parsed into small dictionaries of stereotyped behavioral modes, studies of collective behavior largely ignored these findings; instead, their focus was on inferring single, mode-independent social interaction rules that reproduced macroscopic and often qualitative features of group behavior. Here, we bring these two approaches together to predict individual swimming patterns of adult zebrafish in a group. We show that fish alternate between an “active” mode, in which they are sensitive to the swimming patterns of conspecifics, and a “passive” mode, where they ignore them. Using a model that accounts for these two modes explicitly, we predict behaviors of individual fish with high accuracy, outperforming previous approaches that assumed a single continuous computation by individuals and simple metric or topological weighing of neighbors’ behavior. At the group level, switching between active and passive modes is uncorrelated among fish, but correlated directional swimming behavior still emerges. Our quantitative approach for studying complex, multi-modal individual behavior jointly with emergent group behavior is readily extensible to additional behavioral modes and their neural correlates as well as to other species.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:12:36Z","publication_identifier":{"issn":["00278424"]},"author":[{"last_name":"Harpaz","full_name":"Harpaz, Roy","first_name":"Roy"},{"orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkacik","full_name":"Tkacik, Gasper","first_name":"Gasper"},{"first_name":"Elad","full_name":"Schneidman, Elad","last_name":"Schneidman"}],"pmid":1,"language":[{"iso":"eng"}]},{"oa":1,"external_id":{"isi":["000411331800024"]},"day":"21","status":"public","isi":1,"doi":"10.1016/j.cell.2017.08.026","date_published":"2017-09-21T00:00:00Z","intvolume":"       171","quality_controlled":"1","month":"09","pubrep_id":"883","citation":{"short":"E.B. Hannezo, C. Scheele, M. Moad, N. Drogo, R. Heer, R. Sampogna, J. Van Rheenen, B. Simons, Cell 171 (2017) 242–255.","ieee":"E. B. Hannezo <i>et al.</i>, “A unifying theory of branching morphogenesis,” <i>Cell</i>, vol. 171, no. 1. Cell Press, pp. 242–255, 2017.","chicago":"Hannezo, Edouard B, Colinda Scheele, Mohammad Moad, Nicholas Drogo, Rakesh Heer, Rosemary Sampogna, Jacco Van Rheenen, and Benjamin Simons. “A Unifying Theory of Branching Morphogenesis.” <i>Cell</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">https://doi.org/10.1016/j.cell.2017.08.026</a>.","ista":"Hannezo EB, Scheele C, Moad M, Drogo N, Heer R, Sampogna R, Van Rheenen J, Simons B. 2017. A unifying theory of branching morphogenesis. Cell. 171(1), 242–255.","ama":"Hannezo EB, Scheele C, Moad M, et al. A unifying theory of branching morphogenesis. <i>Cell</i>. 2017;171(1):242-255. doi:<a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">10.1016/j.cell.2017.08.026</a>","mla":"Hannezo, Edouard B., et al. “A Unifying Theory of Branching Morphogenesis.” <i>Cell</i>, vol. 171, no. 1, Cell Press, 2017, pp. 242–55, doi:<a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">10.1016/j.cell.2017.08.026</a>.","apa":"Hannezo, E. B., Scheele, C., Moad, M., Drogo, N., Heer, R., Sampogna, R., … Simons, B. (2017). A unifying theory of branching morphogenesis. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2017.08.026\">https://doi.org/10.1016/j.cell.2017.08.026</a>"},"oa_version":"Published Version","date_created":"2018-12-11T11:48:10Z","publication":"Cell","type":"journal_article","department":[{"_id":"EdHa"}],"title":"A unifying theory of branching morphogenesis","page":"242 - 255","ddc":["539"],"publication_status":"published","file_date_updated":"2020-07-14T12:47:55Z","_id":"726","publisher":"Cell Press","publist_id":"6952","abstract":[{"lang":"eng","text":"The morphogenesis of branched organs remains a subject of abiding interest. Although much is known about the underlying signaling pathways, it remains unclear how macroscopic features of branched organs, including their size, network topology, and spatial patterning, are encoded. Here, we show that, in mouse mammary gland, kidney, and human prostate, these features can be explained quantitatively within a single unifying framework of branching and annihilating random walks. Based on quantitative analyses of large-scale organ reconstructions and proliferation kinetics measurements, we propose that morphogenesis follows from the proliferative activity of equipotent tips that stochastically branch and randomly explore their environment but compete neutrally for space, becoming proliferatively inactive when in proximity with neighboring ducts. These results show that complex branched epithelial structures develop as a self-organized process, reliant upon a strikingly simple but generic rule, without recourse to a rigid and deterministic sequence of genetically programmed events."}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"No","date_updated":"2023-09-28T11:34:17Z","file":[{"file_size":12670204,"date_created":"2018-12-12T10:11:17Z","content_type":"application/pdf","access_level":"open_access","creator":"system","file_id":"4870","relation":"main_file","file_name":"IST-2017-883-v1+1_PIIS0092867417309510.pdf","date_updated":"2020-07-14T12:47:55Z","checksum":"7a036d93a9e2e597af9bb504d6133aca"}],"author":[{"orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","first_name":"Edouard B"},{"full_name":"Scheele, Colinda","last_name":"Scheele","first_name":"Colinda"},{"full_name":"Moad, Mohammad","last_name":"Moad","first_name":"Mohammad"},{"full_name":"Drogo, Nicholas","last_name":"Drogo","first_name":"Nicholas"},{"full_name":"Heer, Rakesh","last_name":"Heer","first_name":"Rakesh"},{"last_name":"Sampogna","full_name":"Sampogna, Rosemary","first_name":"Rosemary"},{"first_name":"Jacco","last_name":"Van Rheenen","full_name":"Van Rheenen, Jacco"},{"first_name":"Benjamin","last_name":"Simons","full_name":"Simons, Benjamin"}],"publication_identifier":{"issn":["00928674"]},"language":[{"iso":"eng"}],"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","issue":"1","year":"2017","has_accepted_license":"1","volume":171},{"language":[{"iso":"eng"}],"publication_identifier":{"issn":["1433-7851"]},"author":[{"first_name":"Lukas","full_name":"Schafzahl, Lukas","last_name":"Schafzahl"},{"last_name":"Mahne","full_name":"Mahne, Nika","first_name":"Nika"},{"first_name":"Bettina","full_name":"Schafzahl, Bettina","last_name":"Schafzahl"},{"full_name":"Wilkening, Martin","last_name":"Wilkening","first_name":"Martin"},{"first_name":"Christian","last_name":"Slugovc","full_name":"Slugovc, Christian"},{"last_name":"Borisov","full_name":"Borisov, Sergey M.","first_name":"Sergey M."},{"orcid":"0000-0003-2902-5319","first_name":"Stefan Alexander","last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"}],"date_updated":"2021-01-12T08:12:47Z","file":[{"date_updated":"2020-07-14T12:47:55Z","file_name":"2017_AngChemieInternat_Schafzahl.pdf","checksum":"3c5b1e51954554dffb13c7d58f69836c","creator":"dernst","content_type":"application/pdf","access_level":"open_access","relation":"main_file","file_id":"7362","date_created":"2020-01-26T14:58:07Z","file_size":1013492}],"article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Aprotic sodium–O2 batteries require the reversible formation/dissolution of sodium superoxide (NaO2) on cycling. Poor cycle life has been associated with parasitic chemistry caused by the reactivity of electrolyte and electrode with NaO2, a strong nucleophile and base. Its reactivity can, however, not consistently explain the side reactions and irreversibility. Herein we show that singlet oxygen (1O2) forms at all stages of cycling and that it is a main driver for parasitic chemistry. It was detected in‐ and ex‐situ via a 1O2 trap that selectively and rapidly forms a stable adduct with 1O2. The 1O2 formation mechanism involves proton‐mediated superoxide disproportionation on discharge, rest, and charge below ca. 3.3 V, and direct electrochemical 1O2 evolution above ca. 3.3 V. Trace water, which is needed for high capacities also drives parasitic chemistry. Controlling the highly reactive singlet oxygen is thus crucial for achieving highly reversible cell operation."}],"volume":56,"has_accepted_license":"1","year":"2017","issue":"49","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)"},"page":"15728-15732","title":"Singlet oxygen during cycling of the aprotic sodium-O2 battery","article_type":"original","publisher":"Wiley","_id":"7289","file_date_updated":"2020-07-14T12:47:55Z","ddc":["540"],"publication_status":"published","month":"12","quality_controlled":"1","license":"https://creativecommons.org/licenses/by-nc/4.0/","type":"journal_article","publication":"Angewandte Chemie International Edition","date_created":"2020-01-15T12:15:05Z","oa_version":"Published Version","citation":{"mla":"Schafzahl, Lukas, et al. “Singlet Oxygen during Cycling of the Aprotic Sodium-O2 Battery.” <i>Angewandte Chemie International Edition</i>, vol. 56, no. 49, Wiley, 2017, pp. 15728–32, doi:<a href=\"https://doi.org/10.1002/anie.201709351\">10.1002/anie.201709351</a>.","apa":"Schafzahl, L., Mahne, N., Schafzahl, B., Wilkening, M., Slugovc, C., Borisov, S. M., &#38; Freunberger, S. A. (2017). Singlet oxygen during cycling of the aprotic sodium-O2 battery. <i>Angewandte Chemie International Edition</i>. Wiley. <a href=\"https://doi.org/10.1002/anie.201709351\">https://doi.org/10.1002/anie.201709351</a>","ama":"Schafzahl L, Mahne N, Schafzahl B, et al. Singlet oxygen during cycling of the aprotic sodium-O2 battery. <i>Angewandte Chemie International Edition</i>. 2017;56(49):15728-15732. doi:<a href=\"https://doi.org/10.1002/anie.201709351\">10.1002/anie.201709351</a>","chicago":"Schafzahl, Lukas, Nika Mahne, Bettina Schafzahl, Martin Wilkening, Christian Slugovc, Sergey M. Borisov, and Stefan Alexander Freunberger. “Singlet Oxygen during Cycling of the Aprotic Sodium-O2 Battery.” <i>Angewandte Chemie International Edition</i>. Wiley, 2017. <a href=\"https://doi.org/10.1002/anie.201709351\">https://doi.org/10.1002/anie.201709351</a>.","ista":"Schafzahl L, Mahne N, Schafzahl B, Wilkening M, Slugovc C, Borisov SM, Freunberger SA. 2017. Singlet oxygen during cycling of the aprotic sodium-O2 battery. Angewandte Chemie International Edition. 56(49), 15728–15732.","ieee":"L. Schafzahl <i>et al.</i>, “Singlet oxygen during cycling of the aprotic sodium-O2 battery,” <i>Angewandte Chemie International Edition</i>, vol. 56, no. 49. Wiley, pp. 15728–15732, 2017.","short":"L. Schafzahl, N. Mahne, B. Schafzahl, M. Wilkening, C. Slugovc, S.M. Borisov, S.A. Freunberger, Angewandte Chemie International Edition 56 (2017) 15728–15732."},"day":"04","extern":"1","oa":1,"intvolume":"        56","doi":"10.1002/anie.201709351","date_published":"2017-12-04T00:00:00Z","status":"public"},{"status":"public","intvolume":"         9","date_published":"2017-10-10T00:00:00Z","doi":"10.1021/acsami.7b10669","oa":1,"day":"10","extern":"1","date_created":"2020-01-15T12:15:16Z","oa_version":"Submitted Version","citation":{"apa":"Zach, P. W., Freunberger, S. A., Klimant, I., &#38; Borisov, S. M. (2017). Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter. <i>ACS Applied Materials &#38; Interfaces</i>. ACS. <a href=\"https://doi.org/10.1021/acsami.7b10669\">https://doi.org/10.1021/acsami.7b10669</a>","mla":"Zach, Peter W., et al. “Electron-Deficient near-Infrared Pt(II) and Pd(II) Benzoporphyrins with Dual Phosphorescence and Unusually Efficient Thermally Activated Delayed Fluorescence: First Demonstration of Simultaneous Oxygen and Temperature Sensing with a Single Emitter.” <i>ACS Applied Materials &#38; Interfaces</i>, vol. 9, no. 43, ACS, 2017, pp. 38008–23, doi:<a href=\"https://doi.org/10.1021/acsami.7b10669\">10.1021/acsami.7b10669</a>.","ama":"Zach PW, Freunberger SA, Klimant I, Borisov SM. Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter. <i>ACS Applied Materials &#38; Interfaces</i>. 2017;9(43):38008-38023. doi:<a href=\"https://doi.org/10.1021/acsami.7b10669\">10.1021/acsami.7b10669</a>","ista":"Zach PW, Freunberger SA, Klimant I, Borisov SM. 2017. Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter. ACS Applied Materials &#38; Interfaces. 9(43), 38008–38023.","chicago":"Zach, Peter W., Stefan Alexander Freunberger, Ingo Klimant, and Sergey M. Borisov. “Electron-Deficient near-Infrared Pt(II) and Pd(II) Benzoporphyrins with Dual Phosphorescence and Unusually Efficient Thermally Activated Delayed Fluorescence: First Demonstration of Simultaneous Oxygen and Temperature Sensing with a Single Emitter.” <i>ACS Applied Materials &#38; Interfaces</i>. ACS, 2017. <a href=\"https://doi.org/10.1021/acsami.7b10669\">https://doi.org/10.1021/acsami.7b10669</a>.","short":"P.W. Zach, S.A. Freunberger, I. Klimant, S.M. Borisov, ACS Applied Materials &#38; Interfaces 9 (2017) 38008–38023.","ieee":"P. W. Zach, S. A. Freunberger, I. Klimant, and S. M. Borisov, “Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter,” <i>ACS Applied Materials &#38; Interfaces</i>, vol. 9, no. 43. ACS, pp. 38008–38023, 2017."},"publication":"ACS Applied Materials & Interfaces","type":"journal_article","quality_controlled":"1","month":"10","publication_status":"published","file_date_updated":"2020-07-14T12:47:55Z","ddc":["540","543"],"_id":"7290","article_type":"original","publisher":"ACS","page":"38008-38023","title":"Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient thermally activated delayed fluorescence: First demonstration of simultaneous oxygen and temperature sensing with a single emitter","year":"2017","issue":"43","has_accepted_license":"1","volume":9,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"We report a family of Pt and Pd benzoporphyrin dyes with versatile photophysical properties and easy access from cheap and abundant chemicals. Attaching 4 or 8 alkylsulfone groups onto a meso-tetraphenyltetrabenzoporphyrin (TPTBP) macrocylcle renders the dyes highly soluble in organic solvents, photostable, and electron-deficient with the redox potential raised up to 0.65 V versus the parent porphyrin. The new dyes intensively absorb in the blue (Soret band, 440–480 nm) and in the red (Q-band, 620–650 nm) parts of the electromagnetic spectrum and show bright phosphorescence at room-temperature in the NIR with quantum yields up to 30% in solution. The small singlet–triplet energy gap yields unusually efficient thermally activated delayed fluorescence (TADF) at elevated temperatures in solution and in polymeric matrices with quantum yields as high as 27% at 120 °C, which is remarkable for benzoporphyrins. Apart from oxygen sensing, these properties enable unprecedented simultaneous, self-referenced oxygen and temperature sensing with a single indicator dye: whereas oxygen can be determined either via the decay time of phosphorescence or TADF, the temperature is accessed via the ratio of the two emissions. Moreover, the dyes are efficient sensitizers for triplet–triplet annihilation (TTA)-based upconversion making possible longer sensitization wavelength than the conventional benzoporphyrin complexes. The Pt-octa-sulfone dye also features interesting semireversible transformation in basic media, which generates new NIR absorbing species."}],"date_updated":"2021-01-12T08:12:48Z","file":[{"creator":"sfreunbe","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"8051","date_created":"2020-06-29T14:49:32Z","file_size":2072792,"date_updated":"2020-07-14T12:47:55Z","file_name":"Paper_Manuscript_submitted.pdf","checksum":"0461c990eb910f19a70c6e5349ec35ed"}],"article_processing_charge":"No","publication_identifier":{"issn":["1944-8244"],"eissn":["1944-8252"]},"author":[{"first_name":"Peter W.","last_name":"Zach","full_name":"Zach, Peter W."},{"last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319"},{"first_name":"Ingo","full_name":"Klimant, Ingo","last_name":"Klimant"},{"first_name":"Sergey M.","full_name":"Borisov, Sergey M.","last_name":"Borisov"}],"language":[{"iso":"eng"}]},{"quality_controlled":"1","month":"07","date_created":"2020-01-15T12:15:42Z","oa_version":"Published Version","citation":{"ieee":"N. Mahne, O. Fontaine, M. O. Thotiyl, M. Wilkening, and S. A. Freunberger, “Mechanism and performance of lithium–oxygen batteries – a perspective,” <i>Chemical Science</i>, vol. 8, no. 10. RSC, pp. 6716–6729, 2017.","short":"N. Mahne, O. Fontaine, M.O. Thotiyl, M. Wilkening, S.A. Freunberger, Chemical Science 8 (2017) 6716–6729.","chicago":"Mahne, Nika, Olivier Fontaine, Musthafa Ottakam Thotiyl, Martin Wilkening, and Stefan Alexander Freunberger. “Mechanism and Performance of Lithium–Oxygen Batteries – a Perspective.” <i>Chemical Science</i>. RSC, 2017. <a href=\"https://doi.org/10.1039/c7sc02519j\">https://doi.org/10.1039/c7sc02519j</a>.","ista":"Mahne N, Fontaine O, Thotiyl MO, Wilkening M, Freunberger SA. 2017. Mechanism and performance of lithium–oxygen batteries – a perspective. Chemical Science. 8(10), 6716–6729.","ama":"Mahne N, Fontaine O, Thotiyl MO, Wilkening M, Freunberger SA. Mechanism and performance of lithium–oxygen batteries – a perspective. <i>Chemical Science</i>. 2017;8(10):6716-6729. doi:<a href=\"https://doi.org/10.1039/c7sc02519j\">10.1039/c7sc02519j</a>","mla":"Mahne, Nika, et al. “Mechanism and Performance of Lithium–Oxygen Batteries – a Perspective.” <i>Chemical Science</i>, vol. 8, no. 10, RSC, 2017, pp. 6716–29, doi:<a href=\"https://doi.org/10.1039/c7sc02519j\">10.1039/c7sc02519j</a>.","apa":"Mahne, N., Fontaine, O., Thotiyl, M. O., Wilkening, M., &#38; Freunberger, S. A. (2017). Mechanism and performance of lithium–oxygen batteries – a perspective. <i>Chemical Science</i>. RSC. <a href=\"https://doi.org/10.1039/c7sc02519j\">https://doi.org/10.1039/c7sc02519j</a>"},"publication":"Chemical Science","type":"journal_article","oa":1,"day":"31","extern":"1","status":"public","intvolume":"         8","date_published":"2017-07-31T00:00:00Z","doi":"10.1039/c7sc02519j","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Rechargeable Li–O2 batteries have amongst the highest formal energy and could store significantly more energy than other rechargeable batteries in practice if at least a large part of their promise could be realized. Realization, however, still faces many challenges than can only be overcome by fundamental understanding of the processes taking place. Here, we review recent advances in understanding the chemistry of the Li–O2 cathode and provide a perspective on dominant research needs. We put particular emphasis on issues that are often grossly misunderstood: realistic performance metrics and their reporting as well as identifying reversibility and quantitative measures to do so. Parasitic reactions are the prime obstacle for reversible cell operation and have recently been identified to be predominantly caused by singlet oxygen and not by reduced oxygen species as thought before. We discuss the far reaching implications of this finding on electrolyte and cathode stability, electrocatalysis, and future research needs.","lang":"eng"}],"file":[{"date_created":"2020-01-26T15:04:44Z","file_size":992106,"creator":"dernst","content_type":"application/pdf","access_level":"open_access","relation":"main_file","file_id":"7363","date_updated":"2020-07-14T12:47:55Z","file_name":"2017_ChemicalScience_Mahne.pdf","checksum":"70c7c2ce5430b6e8605ccbf0275f1e80"}],"date_updated":"2021-01-12T08:12:49Z","article_processing_charge":"No","publication_identifier":{"eissn":["2041-6539"],"issn":["2041-6520"]},"author":[{"full_name":"Mahne, Nika","last_name":"Mahne","first_name":"Nika"},{"first_name":"Olivier","last_name":"Fontaine","full_name":"Fontaine, Olivier"},{"last_name":"Thotiyl","full_name":"Thotiyl, Musthafa Ottakam","first_name":"Musthafa Ottakam"},{"full_name":"Wilkening, Martin","last_name":"Wilkening","first_name":"Martin"},{"orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger","first_name":"Stefan Alexander"}],"language":[{"iso":"eng"}],"year":"2017","issue":"10","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"has_accepted_license":"1","volume":8,"page":"6716-6729","title":"Mechanism and performance of lithium–oxygen batteries – a perspective","publication_status":"published","file_date_updated":"2020-07-14T12:47:55Z","ddc":["540"],"_id":"7292","article_type":"original","publisher":"RSC"},{"project":[{"call_identifier":"FP7","name":"Social Vaccination in Ant Colonies: from Individual Mechanisms to Society Effects","_id":"25DC711C-B435-11E9-9278-68D0E5697425","grant_number":"243071"}],"title":"Co-founding ant queens prevent disease by performing prophylactic undertaking behaviour","department":[{"_id":"SyCr"}],"publisher":"BioMed Central","article_type":"original","publist_id":"6937","ec_funded":1,"_id":"732","file_date_updated":"2020-07-14T12:47:55Z","publication_status":"published","ddc":["576","592"],"language":[{"iso":"eng"}],"author":[{"first_name":"Christopher","last_name":"Pull","full_name":"Pull, Christopher","id":"3C7F4840-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1122-3982"},{"full_name":"Cremer, Sylvia","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","last_name":"Cremer","first_name":"Sylvia","orcid":"0000-0002-2193-3868"}],"publication_identifier":{"issn":["14712148"]},"article_processing_charge":"Yes","date_updated":"2023-09-28T11:31:32Z","file":[{"content_type":"application/pdf","access_level":"open_access","creator":"system","file_id":"5271","relation":"main_file","file_size":949857,"date_created":"2018-12-12T10:17:18Z","file_name":"IST-2017-882-v1+1_12862_2017_Article_1062.pdf","date_updated":"2020-07-14T12:47:55Z","checksum":"3e24a2cfd48f49f7b3643d08d30fb480"}],"abstract":[{"text":"Background: Social insects form densely crowded societies in environments with high pathogen loads, but have evolved collective defences that mitigate the impact of disease. However, colony-founding queens lack this protection and suffer high rates of mortality. The impact of pathogens may be exacerbated in species where queens found colonies together, as healthy individuals may contract pathogens from infectious co-founders. Therefore, we tested whether ant queens avoid founding colonies with pathogen-exposed conspecifics and how they might limit disease transmission from infectious individuals. Results: Using Lasius Niger queens and a naturally infecting fungal pathogen Metarhizium brunneum, we observed that queens were equally likely to found colonies with another pathogen-exposed or sham-treated queen. However, when one queen died, the surviving individual performed biting, burial and removal of the corpse. These undertaking behaviours were performed prophylactically, i.e. targeted equally towards non-infected and infected corpses, as well as carried out before infected corpses became infectious. Biting and burial reduced the risk of the queens contracting and dying from disease from an infectious corpse of a dead co-foundress. Conclusions: We show that co-founding ant queens express undertaking behaviours that, in mature colonies, are performed exclusively by workers. Such infection avoidance behaviours act before the queens can contract the disease and will therefore improve the overall chance of colony founding success in ant queens.","lang":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","volume":17,"has_accepted_license":"1","scopus_import":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"issue":"1","year":"2017","external_id":{"isi":["000412816800001"]},"day":"13","oa":1,"doi":"10.1186/s12862-017-1062-4","date_published":"2017-10-13T00:00:00Z","intvolume":"        17","isi":1,"article_number":"219","status":"public","related_material":{"record":[{"relation":"dissertation_contains","id":"819","status":"public"}]},"pubrep_id":"882","month":"10","quality_controlled":"1","type":"journal_article","publication":"BMC Evolutionary Biology","citation":{"chicago":"Pull, Christopher, and Sylvia Cremer. “Co-Founding Ant Queens Prevent Disease by Performing Prophylactic Undertaking Behaviour.” <i>BMC Evolutionary Biology</i>. BioMed Central, 2017. <a href=\"https://doi.org/10.1186/s12862-017-1062-4\">https://doi.org/10.1186/s12862-017-1062-4</a>.","ista":"Pull C, Cremer S. 2017. Co-founding ant queens prevent disease by performing prophylactic undertaking behaviour. BMC Evolutionary Biology. 17(1), 219.","short":"C. Pull, S. Cremer, BMC Evolutionary Biology 17 (2017).","ieee":"C. Pull and S. Cremer, “Co-founding ant queens prevent disease by performing prophylactic undertaking behaviour,” <i>BMC Evolutionary Biology</i>, vol. 17, no. 1. BioMed Central, 2017.","mla":"Pull, Christopher, and Sylvia Cremer. “Co-Founding Ant Queens Prevent Disease by Performing Prophylactic Undertaking Behaviour.” <i>BMC Evolutionary Biology</i>, vol. 17, no. 1, 219, BioMed Central, 2017, doi:<a href=\"https://doi.org/10.1186/s12862-017-1062-4\">10.1186/s12862-017-1062-4</a>.","apa":"Pull, C., &#38; Cremer, S. (2017). Co-founding ant queens prevent disease by performing prophylactic undertaking behaviour. <i>BMC Evolutionary Biology</i>. BioMed Central. <a href=\"https://doi.org/10.1186/s12862-017-1062-4\">https://doi.org/10.1186/s12862-017-1062-4</a>","ama":"Pull C, Cremer S. Co-founding ant queens prevent disease by performing prophylactic undertaking behaviour. <i>BMC Evolutionary Biology</i>. 2017;17(1). doi:<a href=\"https://doi.org/10.1186/s12862-017-1062-4\">10.1186/s12862-017-1062-4</a>"},"oa_version":"Published Version","date_created":"2018-12-11T11:48:12Z"},{"acknowledgement":"Partially supported by ERC Advanced Grant RANMAT No. 338804, Hong Kong RGC grant ECS 26301517, and the Göran Gustafsson Foundation","quality_controlled":"1","month":"10","date_created":"2018-12-11T11:48:13Z","citation":{"ama":"Bao Z, Erdös L, Schnelli K. Convergence rate for spectral distribution of addition of random matrices. <i>Advances in Mathematics</i>. 2017;319:251-291. doi:<a href=\"https://doi.org/10.1016/j.aim.2017.08.028\">10.1016/j.aim.2017.08.028</a>","mla":"Bao, Zhigang, et al. “Convergence Rate for Spectral Distribution of Addition of Random Matrices.” <i>Advances in Mathematics</i>, vol. 319, Academic Press, 2017, pp. 251–91, doi:<a href=\"https://doi.org/10.1016/j.aim.2017.08.028\">10.1016/j.aim.2017.08.028</a>.","apa":"Bao, Z., Erdös, L., &#38; Schnelli, K. (2017). Convergence rate for spectral distribution of addition of random matrices. <i>Advances in Mathematics</i>. Academic Press. <a href=\"https://doi.org/10.1016/j.aim.2017.08.028\">https://doi.org/10.1016/j.aim.2017.08.028</a>","short":"Z. Bao, L. Erdös, K. Schnelli, Advances in Mathematics 319 (2017) 251–291.","ieee":"Z. Bao, L. Erdös, and K. Schnelli, “Convergence rate for spectral distribution of addition of random matrices,” <i>Advances in Mathematics</i>, vol. 319. Academic Press, pp. 251–291, 2017.","ista":"Bao Z, Erdös L, Schnelli K. 2017. Convergence rate for spectral distribution of addition of random matrices. Advances in Mathematics. 319, 251–291.","chicago":"Bao, Zhigang, László Erdös, and Kevin Schnelli. “Convergence Rate for Spectral Distribution of Addition of Random Matrices.” <i>Advances in Mathematics</i>. Academic Press, 2017. <a href=\"https://doi.org/10.1016/j.aim.2017.08.028\">https://doi.org/10.1016/j.aim.2017.08.028</a>."},"oa_version":"Submitted Version","publication":"Advances in Mathematics","type":"journal_article","oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1606.03076"}],"day":"15","external_id":{"isi":["000412150400010"]},"status":"public","isi":1,"intvolume":"       319","doi":"10.1016/j.aim.2017.08.028","date_published":"2017-10-15T00:00:00Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"lang":"eng","text":"Let A and B be two N by N deterministic Hermitian matrices and let U be an N by N Haar distributed unitary matrix. It is well known that the spectral distribution of the sum H = A + UBU∗ converges weakly to the free additive convolution of the spectral distributions of A and B, as N tends to infinity. We establish the optimal convergence rate in the bulk of the spectrum."}],"date_updated":"2023-09-28T11:30:42Z","article_processing_charge":"No","author":[{"orcid":"0000-0003-3036-1475","id":"442E6A6C-F248-11E8-B48F-1D18A9856A87","last_name":"Bao","full_name":"Bao, Zhigang","first_name":"Zhigang"},{"first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","full_name":"Erdös, László","orcid":"0000-0001-5366-9603"},{"first_name":"Kevin","id":"434AD0AE-F248-11E8-B48F-1D18A9856A87","last_name":"Schnelli","full_name":"Schnelli, Kevin","orcid":"0000-0003-0954-3231"}],"language":[{"iso":"eng"}],"year":"2017","scopus_import":"1","volume":319,"department":[{"_id":"LaEr"}],"title":"Convergence rate for spectral distribution of addition of random matrices","page":"251 - 291","project":[{"grant_number":"338804","call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","_id":"733","ec_funded":1,"publist_id":"6935","publisher":"Academic Press"},{"doi":"10.1016/j.tree.2017.08.004","date_published":"2017-11-01T00:00:00Z","intvolume":"        32","isi":1,"status":"public","related_material":{"record":[{"relation":"dissertation_contains","id":"819","status":"public"}]},"external_id":{"isi":["000413231900011"]},"day":"01","oa":1,"type":"journal_article","publication":"Trends in Ecology and Evolution","oa_version":"Submitted Version","citation":{"ama":"Kennedy P, Baron G, Qiu B, et al. Deconstructing superorganisms and societies to address big questions in biology. <i>Trends in Ecology and Evolution</i>. 2017;32(11):861-872. doi:<a href=\"https://doi.org/10.1016/j.tree.2017.08.004\">10.1016/j.tree.2017.08.004</a>","mla":"Kennedy, Patrick, et al. “Deconstructing Superorganisms and Societies to Address Big Questions in Biology.” <i>Trends in Ecology and Evolution</i>, vol. 32, no. 11, Cell Press, 2017, pp. 861–72, doi:<a href=\"https://doi.org/10.1016/j.tree.2017.08.004\">10.1016/j.tree.2017.08.004</a>.","apa":"Kennedy, P., Baron, G., Qiu, B., Freitak, D., Helantera, H., Hunt, E., … Sumner, S. (2017). Deconstructing superorganisms and societies to address big questions in biology. <i>Trends in Ecology and Evolution</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.tree.2017.08.004\">https://doi.org/10.1016/j.tree.2017.08.004</a>","ieee":"P. Kennedy <i>et al.</i>, “Deconstructing superorganisms and societies to address big questions in biology,” <i>Trends in Ecology and Evolution</i>, vol. 32, no. 11. Cell Press, pp. 861–872, 2017.","short":"P. Kennedy, G. Baron, B. Qiu, D. Freitak, H. Helantera, E. Hunt, F. Manfredini, T. O’Shea Wheller, S. Patalano, C. Pull, T. Sasaki, D. Taylor, C. Wyatt, S. Sumner, Trends in Ecology and Evolution 32 (2017) 861–872.","chicago":"Kennedy, Patrick, Gemma Baron, Bitao Qiu, Dalial Freitak, Heikki Helantera, Edmund Hunt, Fabio Manfredini, et al. “Deconstructing Superorganisms and Societies to Address Big Questions in Biology.” <i>Trends in Ecology and Evolution</i>. Cell Press, 2017. <a href=\"https://doi.org/10.1016/j.tree.2017.08.004\">https://doi.org/10.1016/j.tree.2017.08.004</a>.","ista":"Kennedy P, Baron G, Qiu B, Freitak D, Helantera H, Hunt E, Manfredini F, O’Shea Wheller T, Patalano S, Pull C, Sasaki T, Taylor D, Wyatt C, Sumner S. 2017. Deconstructing superorganisms and societies to address big questions in biology. Trends in Ecology and Evolution. 32(11), 861–872."},"date_created":"2018-12-11T11:48:13Z","month":"11","quality_controlled":"1","publisher":"Cell Press","publist_id":"6933","article_type":"original","_id":"734","publication_status":"published","ddc":["570"],"file_date_updated":"2020-07-14T12:47:56Z","title":"Deconstructing superorganisms and societies to address big questions in biology","page":"861 - 872","department":[{"_id":"SyCr"}],"volume":32,"has_accepted_license":"1","issue":"11","scopus_import":"1","year":"2017","language":[{"iso":"eng"}],"author":[{"first_name":"Patrick","last_name":"Kennedy","full_name":"Kennedy, Patrick"},{"first_name":"Gemma","last_name":"Baron","full_name":"Baron, Gemma"},{"full_name":"Qiu, Bitao","last_name":"Qiu","first_name":"Bitao"},{"full_name":"Freitak, Dalial","last_name":"Freitak","first_name":"Dalial"},{"first_name":"Heikki","last_name":"Helantera","full_name":"Helantera, Heikki"},{"full_name":"Hunt, Edmund","last_name":"Hunt","first_name":"Edmund"},{"full_name":"Manfredini, Fabio","last_name":"Manfredini","first_name":"Fabio"},{"first_name":"Thomas","full_name":"O'Shea Wheller, Thomas","last_name":"O'Shea Wheller"},{"last_name":"Patalano","full_name":"Patalano, Solenn","first_name":"Solenn"},{"orcid":"0000-0003-1122-3982","last_name":"Pull","id":"3C7F4840-F248-11E8-B48F-1D18A9856A87","full_name":"Pull, Christopher","first_name":"Christopher"},{"full_name":"Sasaki, Takao","last_name":"Sasaki","first_name":"Takao"},{"full_name":"Taylor, Daisy","last_name":"Taylor","first_name":"Daisy"},{"first_name":"Christopher","last_name":"Wyatt","full_name":"Wyatt, Christopher"},{"first_name":"Seirian","full_name":"Sumner, Seirian","last_name":"Sumner"}],"publication_identifier":{"issn":["01695347"]},"article_processing_charge":"No","file":[{"checksum":"c8f49309ed9436201814fa7153d66a99","file_name":"2017_TrendsEcology_Kennedy.pdf","date_updated":"2020-07-14T12:47:56Z","file_id":"7842","relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","file_size":15018382,"date_created":"2020-05-14T16:22:27Z"}],"date_updated":"2023-09-27T14:15:15Z","abstract":[{"lang":"eng","text":"Social insect societies are long-standing models for understanding social behaviour and evolution. Unlike other advanced biological societies (such as the multicellular body), the component parts of social insect societies can be easily deconstructed and manipulated. Recent methodological and theoretical innovations have exploited this trait to address an expanded range of biological questions. We illustrate the broadening range of biological insight coming from social insect biology with four examples. These new frontiers promote open-minded, interdisciplinary exploration of one of the richest and most complex of biological phenomena: sociality."}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"language":[{"iso":"eng"}],"author":[{"full_name":"Rubio, María","last_name":"Rubio","first_name":"María"},{"first_name":"Ko","full_name":"Matsui, Ko","last_name":"Matsui"},{"first_name":"Yugo","last_name":"Fukazawa","full_name":"Fukazawa, Yugo"},{"last_name":"Kamasawa","full_name":"Kamasawa, Naomi","first_name":"Naomi"},{"orcid":"0000-0001-7429-7896","last_name":"Harada","full_name":"Harada, Harumi","id":"2E55CDF2-F248-11E8-B48F-1D18A9856A87","first_name":"Harumi"},{"first_name":"Makoto","last_name":"Itakura","full_name":"Itakura, Makoto"},{"first_name":"Elek","full_name":"Molnár, Elek","last_name":"Molnár"},{"full_name":"Abe, Manabu","last_name":"Abe","first_name":"Manabu"},{"last_name":"Sakimura","full_name":"Sakimura, Kenji","first_name":"Kenji"},{"first_name":"Ryuichi","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444"}],"publication_identifier":{"issn":["18632653"]},"article_processing_charge":"No","file":[{"date_updated":"2020-07-14T12:47:56Z","file_name":"IST-2017-881-v1+1_s00429-017-1408-0.pdf","checksum":"73787a22507de8fb585bb598e1418ca7","date_created":"2018-12-12T10:10:20Z","file_size":4011126,"creator":"system","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"4806"}],"date_updated":"2023-09-27T14:14:51Z","abstract":[{"lang":"eng","text":"The neurotransmitter receptor subtype, number, density, and distribution relative to the location of transmitter release sites are key determinants of signal transmission. AMPA-type ionotropic glutamate receptors (AMPARs) containing GluA3 and GluA4 subunits are prominently expressed in subsets of neurons capable of firing action potentials at high frequencies, such as auditory relay neurons. The auditory nerve (AN) forms glutamatergic synapses on two types of relay neurons, bushy cells (BCs) and fusiform cells (FCs) of the cochlear nucleus. AN-BC and AN-FC synapses have distinct kinetics; thus, we investigated whether the number, density, and localization of GluA3 and GluA4 subunits in these synapses are differentially organized using quantitative freeze-fracture replica immunogold labeling. We identify a positive correlation between the number of AMPARs and the size of AN-BC and AN-FC synapses. Both types of AN synapses have similar numbers of AMPARs; however, the AN-BC have a higher density of AMPARs than AN-FC synapses, because the AN-BC synapses are smaller. A higher number and density of GluA3 subunits are observed at AN-BC synapses, whereas a higher number and density of GluA4 subunits are observed at AN-FC synapses. The intrasynaptic distribution of immunogold labeling revealed that AMPAR subunits, particularly GluA3, are concentrated at the center of the AN-BC synapses. The central distribution of AMPARs is absent in GluA3-knockout mice, and gold particles are evenly distributed along the postsynaptic density. GluA4 gold labeling was homogenously distributed along both synapse types. Thus, GluA3 and GluA4 subunits are distributed at AN synapses in a target-cell-dependent manner."}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","volume":222,"has_accepted_license":"1","scopus_import":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"issue":"8","year":"2017","title":"The number and distribution of AMPA receptor channels containing fast kinetic GluA3 and GluA4 subunits at auditory nerve synapses depend on the target cells","page":"3375 - 3393","department":[{"_id":"RySh"}],"publisher":"Springer","publist_id":"6932","_id":"736","ddc":["571"],"publication_status":"published","file_date_updated":"2020-07-14T12:47:56Z","month":"11","pubrep_id":"881","quality_controlled":"1","type":"journal_article","publication":"Brain Structure and Function","citation":{"ieee":"M. Rubio <i>et al.</i>, “The number and distribution of AMPA receptor channels containing fast kinetic GluA3 and GluA4 subunits at auditory nerve synapses depend on the target cells,” <i>Brain Structure and Function</i>, vol. 222, no. 8. Springer, pp. 3375–3393, 2017.","short":"M. Rubio, K. Matsui, Y. Fukazawa, N. Kamasawa, H. Harada, M. Itakura, E. Molnár, M. Abe, K. Sakimura, R. Shigemoto, Brain Structure and Function 222 (2017) 3375–3393.","ista":"Rubio M, Matsui K, Fukazawa Y, Kamasawa N, Harada H, Itakura M, Molnár E, Abe M, Sakimura K, Shigemoto R. 2017. The number and distribution of AMPA receptor channels containing fast kinetic GluA3 and GluA4 subunits at auditory nerve synapses depend on the target cells. Brain Structure and Function. 222(8), 3375–3393.","chicago":"Rubio, María, Ko Matsui, Yugo Fukazawa, Naomi Kamasawa, Harumi Harada, Makoto Itakura, Elek Molnár, Manabu Abe, Kenji Sakimura, and Ryuichi Shigemoto. “The Number and Distribution of AMPA Receptor Channels Containing Fast Kinetic GluA3 and GluA4 Subunits at Auditory Nerve Synapses Depend on the Target Cells.” <i>Brain Structure and Function</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s00429-017-1408-0\">https://doi.org/10.1007/s00429-017-1408-0</a>.","ama":"Rubio M, Matsui K, Fukazawa Y, et al. The number and distribution of AMPA receptor channels containing fast kinetic GluA3 and GluA4 subunits at auditory nerve synapses depend on the target cells. <i>Brain Structure and Function</i>. 2017;222(8):3375-3393. doi:<a href=\"https://doi.org/10.1007/s00429-017-1408-0\">10.1007/s00429-017-1408-0</a>","apa":"Rubio, M., Matsui, K., Fukazawa, Y., Kamasawa, N., Harada, H., Itakura, M., … Shigemoto, R. (2017). The number and distribution of AMPA receptor channels containing fast kinetic GluA3 and GluA4 subunits at auditory nerve synapses depend on the target cells. <i>Brain Structure and Function</i>. Springer. <a href=\"https://doi.org/10.1007/s00429-017-1408-0\">https://doi.org/10.1007/s00429-017-1408-0</a>","mla":"Rubio, María, et al. “The Number and Distribution of AMPA Receptor Channels Containing Fast Kinetic GluA3 and GluA4 Subunits at Auditory Nerve Synapses Depend on the Target Cells.” <i>Brain Structure and Function</i>, vol. 222, no. 8, Springer, 2017, pp. 3375–93, doi:<a href=\"https://doi.org/10.1007/s00429-017-1408-0\">10.1007/s00429-017-1408-0</a>."},"oa_version":"Published Version","date_created":"2018-12-11T11:48:14Z","external_id":{"isi":["000414761700002"]},"day":"01","oa":1,"doi":"10.1007/s00429-017-1408-0","date_published":"2017-11-01T00:00:00Z","intvolume":"       222","isi":1,"status":"public"},{"tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"issue":"1","year":"2017","has_accepted_license":"1","volume":25,"abstract":[{"lang":"eng","text":"Inflammation, which is a highly regulated host response against danger signals, may be harmful if it is excessive and deregulated. Ideally, anti-inflammatory therapy should autonomously commence as soon as possible after the onset of inflammation, should be controllable by a physician, and should not systemically block beneficial immune response in the long term. We describe a genetically encoded anti-inflammatory mammalian cell device based on a modular engineered genetic circuit comprising a sensor, an amplifier, a “thresholder” to restrict activation of a positive-feedback loop, a combination of advanced clinically used biopharmaceutical proteins, and orthogonal regulatory elements that linked modules into the functional device. This genetic circuit was autonomously activated by inflammatory signals, including endogenous cecal ligation and puncture (CLP)-induced inflammation in mice and serum from a systemic juvenile idiopathic arthritis (sIJA) patient, and could be reset externally by a chemical signal. The microencapsulated anti-inflammatory device significantly reduced the pathology in dextran sodium sulfate (DSS)-induced acute murine colitis, demonstrating a synthetic immunological approach for autonomous anti-inflammatory therapy."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","date_updated":"2021-01-12T08:13:14Z","file":[{"checksum":"ea8b1b28606dd1edab7379ba4fa3641f","file_name":"2017_MolecularTherapy_Smole.pdf","date_updated":"2020-07-14T12:47:56Z","file_size":3404806,"date_created":"2020-03-03T10:55:13Z","file_id":"7561","relation":"main_file","access_level":"open_access","content_type":"application/pdf","creator":"dernst"}],"author":[{"first_name":"Anže","last_name":"Smole","full_name":"Smole, Anže"},{"first_name":"Duško","last_name":"Lainšček","full_name":"Lainšček, Duško"},{"id":"2A58201A-F248-11E8-B48F-1D18A9856A87","full_name":"Bezeljak, Urban","last_name":"Bezeljak","first_name":"Urban","orcid":"0000-0003-1365-5631"},{"full_name":"Horvat, Simon","last_name":"Horvat","first_name":"Simon"},{"last_name":"Jerala","full_name":"Jerala, Roman","first_name":"Roman"}],"publication_identifier":{"issn":["1525-0016"]},"pmid":1,"language":[{"iso":"eng"}],"file_date_updated":"2020-07-14T12:47:56Z","ddc":["570"],"publication_status":"published","_id":"7360","publisher":"Elsevier","article_type":"original","department":[{"_id":"MaLo"}],"title":"A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation","page":"102-119","citation":{"ieee":"A. Smole, D. Lainšček, U. Bezeljak, S. Horvat, and R. Jerala, “A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation,” <i>Molecular Therapy</i>, vol. 25, no. 1. Elsevier, pp. 102–119, 2017.","short":"A. Smole, D. Lainšček, U. Bezeljak, S. Horvat, R. Jerala, Molecular Therapy 25 (2017) 102–119.","chicago":"Smole, Anže, Duško Lainšček, Urban Bezeljak, Simon Horvat, and Roman Jerala. “A Synthetic Mammalian Therapeutic Gene Circuit for Sensing and Suppressing Inflammation.” <i>Molecular Therapy</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.ymthe.2016.10.005\">https://doi.org/10.1016/j.ymthe.2016.10.005</a>.","ista":"Smole A, Lainšček D, Bezeljak U, Horvat S, Jerala R. 2017. A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation. Molecular Therapy. 25(1), 102–119.","ama":"Smole A, Lainšček D, Bezeljak U, Horvat S, Jerala R. A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation. <i>Molecular Therapy</i>. 2017;25(1):102-119. doi:<a href=\"https://doi.org/10.1016/j.ymthe.2016.10.005\">10.1016/j.ymthe.2016.10.005</a>","apa":"Smole, A., Lainšček, D., Bezeljak, U., Horvat, S., &#38; Jerala, R. (2017). A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation. <i>Molecular Therapy</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ymthe.2016.10.005\">https://doi.org/10.1016/j.ymthe.2016.10.005</a>","mla":"Smole, Anže, et al. “A Synthetic Mammalian Therapeutic Gene Circuit for Sensing and Suppressing Inflammation.” <i>Molecular Therapy</i>, vol. 25, no. 1, Elsevier, 2017, pp. 102–19, doi:<a href=\"https://doi.org/10.1016/j.ymthe.2016.10.005\">10.1016/j.ymthe.2016.10.005</a>."},"oa_version":"Published Version","date_created":"2020-01-25T15:55:39Z","publication":"Molecular Therapy","type":"journal_article","quality_controlled":"1","month":"01","status":"public","doi":"10.1016/j.ymthe.2016.10.005","date_published":"2017-01-01T00:00:00Z","intvolume":"        25","oa":1,"external_id":{"pmid":["28129106"]},"day":"01"},{"oa":1,"external_id":{"isi":["000414113600003"]},"day":"01","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1604.05240"}],"status":"public","isi":1,"date_published":"2017-11-01T00:00:00Z","doi":"10.1016/j.matpur.2017.05.013","intvolume":"       108","quality_controlled":"1","month":"11","citation":{"chicago":"Nam, Phan, and Marcin M Napiórkowski. “A Note on the Validity of Bogoliubov Correction to Mean Field Dynamics.” <i>Journal de Mathématiques Pures et Appliquées</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.matpur.2017.05.013\">https://doi.org/10.1016/j.matpur.2017.05.013</a>.","ista":"Nam P, Napiórkowski MM. 2017. A note on the validity of Bogoliubov correction to mean field dynamics. Journal de Mathématiques Pures et Appliquées. 108(5), 662–688.","short":"P. Nam, M.M. Napiórkowski, Journal de Mathématiques Pures et Appliquées 108 (2017) 662–688.","ieee":"P. Nam and M. M. Napiórkowski, “A note on the validity of Bogoliubov correction to mean field dynamics,” <i>Journal de Mathématiques Pures et Appliquées</i>, vol. 108, no. 5. Elsevier, pp. 662–688, 2017.","mla":"Nam, Phan, and Marcin M. Napiórkowski. “A Note on the Validity of Bogoliubov Correction to Mean Field Dynamics.” <i>Journal de Mathématiques Pures et Appliquées</i>, vol. 108, no. 5, Elsevier, 2017, pp. 662–88, doi:<a href=\"https://doi.org/10.1016/j.matpur.2017.05.013\">10.1016/j.matpur.2017.05.013</a>.","apa":"Nam, P., &#38; Napiórkowski, M. M. (2017). A note on the validity of Bogoliubov correction to mean field dynamics. <i>Journal de Mathématiques Pures et Appliquées</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.matpur.2017.05.013\">https://doi.org/10.1016/j.matpur.2017.05.013</a>","ama":"Nam P, Napiórkowski MM. A note on the validity of Bogoliubov correction to mean field dynamics. <i>Journal de Mathématiques Pures et Appliquées</i>. 2017;108(5):662-688. doi:<a href=\"https://doi.org/10.1016/j.matpur.2017.05.013\">10.1016/j.matpur.2017.05.013</a>"},"oa_version":"Submitted Version","date_created":"2018-12-11T11:48:15Z","publication":"Journal de Mathématiques Pures et Appliquées","type":"journal_article","department":[{"_id":"RoSe"}],"page":"662 - 688","title":"A note on the validity of Bogoliubov correction to mean field dynamics","project":[{"grant_number":"P27533_N27","_id":"25C878CE-B435-11E9-9278-68D0E5697425","name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","call_identifier":"FWF"}],"publication_status":"published","_id":"739","publisher":"Elsevier","publist_id":"6928","abstract":[{"text":"We study the norm approximation to the Schrödinger dynamics of N bosons in with an interaction potential of the form . Assuming that in the initial state the particles outside of the condensate form a quasi-free state with finite kinetic energy, we show that in the large N limit, the fluctuations around the condensate can be effectively described using Bogoliubov approximation for all . The range of β is expected to be optimal for this large class of initial states.","lang":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"No","date_updated":"2023-09-27T12:52:07Z","publication_identifier":{"issn":["00217824"]},"author":[{"id":"404092F4-F248-11E8-B48F-1D18A9856A87","full_name":"Nam, Phan","last_name":"Nam","first_name":"Phan"},{"last_name":"Napiórkowski","full_name":"Napiórkowski, Marcin M","id":"4197AD04-F248-11E8-B48F-1D18A9856A87","first_name":"Marcin M"}],"language":[{"iso":"eng"}],"issue":"5","scopus_import":"1","year":"2017","volume":108},{"has_accepted_license":"1","volume":6,"scopus_import":"1","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)"},"issue":"6","year":"2017","publication_identifier":{"issn":["17597684"]},"author":[{"orcid":"0000-0001-8761-9444","first_name":"Ryuichi","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Maximilian A","last_name":"Jösch","full_name":"Jösch, Maximilian A","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3937-1330"}],"pmid":1,"language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Developments in bioengineering and molecular biology have introduced a palette of genetically encoded probes for identification of specific cell populations in electron microscopy. These probes can be targeted to distinct cellular compartments, rendering them electron dense through a subsequent chemical reaction. These electron densities strongly increase the local contrast in samples prepared for electron microscopy, allowing three major advances in ultrastructural mapping of circuits: genetic identification of circuit components, targeted imaging of regions of interest and automated analysis of the tagged circuits. Together, the gains from these advances can decrease the time required for the analysis of targeted circuit motifs by over two orders of magnitude. These genetic encoded tags for electron microscopy promise to simplify the analysis of circuit motifs and become a central tool for structure‐function studies of synaptic connections in the brain. We review the current state‐of‐the‐art with an emphasis on connectomics, the quantitative analysis of neuronal structures and motifs."}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"No","file":[{"date_updated":"2020-07-14T12:47:57Z","file_name":"2017_WIREs_Shigemoto.pdf","checksum":"a9370f27b1591773b7a0de299bc81c8c","date_created":"2019-11-19T07:36:18Z","file_size":1647787,"creator":"dernst","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"7045"}],"date_updated":"2023-09-27T12:51:41Z","_id":"740","publisher":"Wiley-Blackwell","publist_id":"6927","article_type":"original","file_date_updated":"2020-07-14T12:47:57Z","ddc":["570"],"publication_status":"published","title":"The genetic encoded toolbox for electron microscopy and connectomics","department":[{"_id":"RySh"},{"_id":"MaJö"}],"type":"journal_article","citation":{"ama":"Shigemoto R, Jösch MA. The genetic encoded toolbox for electron microscopy and connectomics. <i>WIREs Developmental Biology</i>. 2017;6(6). doi:<a href=\"https://doi.org/10.1002/wdev.288\">10.1002/wdev.288</a>","mla":"Shigemoto, Ryuichi, and Maximilian A. Jösch. “The Genetic Encoded Toolbox for Electron Microscopy and Connectomics.” <i>WIREs Developmental Biology</i>, vol. 6, no. 6, e288, Wiley-Blackwell, 2017, doi:<a href=\"https://doi.org/10.1002/wdev.288\">10.1002/wdev.288</a>.","apa":"Shigemoto, R., &#38; Jösch, M. A. (2017). The genetic encoded toolbox for electron microscopy and connectomics. <i>WIREs Developmental Biology</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1002/wdev.288\">https://doi.org/10.1002/wdev.288</a>","ieee":"R. Shigemoto and M. A. Jösch, “The genetic encoded toolbox for electron microscopy and connectomics,” <i>WIREs Developmental Biology</i>, vol. 6, no. 6. Wiley-Blackwell, 2017.","short":"R. Shigemoto, M.A. Jösch, WIREs Developmental Biology 6 (2017).","chicago":"Shigemoto, Ryuichi, and Maximilian A Jösch. “The Genetic Encoded Toolbox for Electron Microscopy and Connectomics.” <i>WIREs Developmental Biology</i>. Wiley-Blackwell, 2017. <a href=\"https://doi.org/10.1002/wdev.288\">https://doi.org/10.1002/wdev.288</a>.","ista":"Shigemoto R, Jösch MA. 2017. The genetic encoded toolbox for electron microscopy and connectomics. WIREs Developmental Biology. 6(6), e288."},"oa_version":"Submitted Version","date_created":"2018-12-11T11:48:15Z","publication":"WIREs Developmental Biology","month":"08","quality_controlled":"1","isi":1,"article_number":"e288","doi":"10.1002/wdev.288","date_published":"2017-08-11T00:00:00Z","intvolume":"         6","status":"public","oa":1,"external_id":{"isi":["000412827400005"],"pmid":["28800674"]},"day":"11"},{"department":[{"_id":"RoSe"}],"page":"329 - 355","title":"Stability of a fermionic N+1 particle system with point interactions","project":[{"grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Analysis of quantum many-body systems"},{"grant_number":"P27533_N27","call_identifier":"FWF","name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","_id":"25C878CE-B435-11E9-9278-68D0E5697425"}],"file_date_updated":"2020-07-14T12:47:57Z","ddc":["539"],"publication_status":"published","ec_funded":1,"_id":"741","publisher":"Springer","publist_id":"6926","abstract":[{"lang":"eng","text":"We prove that a system of N fermions interacting with an additional particle via point interactions is stable if the ratio of the mass of the additional particle to the one of the fermions is larger than some critical m*. The value of m* is independent of N and turns out to be less than 1. This fact has important implications for the stability of the unitary Fermi gas. We also characterize the domain of the Hamiltonian of this model, and establish the validity of the Tan relations for all wave functions in the domain."}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"No","file":[{"date_updated":"2020-07-14T12:47:57Z","file_name":"IST-2017-880-v1+1_s00220-017-2980-0.pdf","checksum":"0fd9435400f91e9b3c5346319a2d24e3","creator":"system","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"4841","date_created":"2018-12-12T10:10:50Z","file_size":952639}],"date_updated":"2023-09-27T12:34:15Z","author":[{"first_name":"Thomas","id":"2B5FC9A4-F248-11E8-B48F-1D18A9856A87","full_name":"Moser, Thomas","last_name":"Moser"},{"orcid":"0000-0002-6781-0521","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","full_name":"Seiringer, Robert","first_name":"Robert"}],"publication_identifier":{"issn":["00103616"]},"language":[{"iso":"eng"}],"scopus_import":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"issue":"1","year":"2017","has_accepted_license":"1","volume":356,"oa":1,"external_id":{"isi":["000409821300010"]},"day":"01","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"52"}]},"status":"public","isi":1,"date_published":"2017-11-01T00:00:00Z","doi":"10.1007/s00220-017-2980-0","intvolume":"       356","quality_controlled":"1","pubrep_id":"880","month":"11","oa_version":"Published Version","citation":{"ieee":"T. Moser and R. Seiringer, “Stability of a fermionic N+1 particle system with point interactions,” <i>Communications in Mathematical Physics</i>, vol. 356, no. 1. Springer, pp. 329–355, 2017.","short":"T. Moser, R. Seiringer, Communications in Mathematical Physics 356 (2017) 329–355.","ista":"Moser T, Seiringer R. 2017. Stability of a fermionic N+1 particle system with point interactions. Communications in Mathematical Physics. 356(1), 329–355.","chicago":"Moser, Thomas, and Robert Seiringer. “Stability of a Fermionic N+1 Particle System with Point Interactions.” <i>Communications in Mathematical Physics</i>. Springer, 2017. <a href=\"https://doi.org/10.1007/s00220-017-2980-0\">https://doi.org/10.1007/s00220-017-2980-0</a>.","ama":"Moser T, Seiringer R. Stability of a fermionic N+1 particle system with point interactions. <i>Communications in Mathematical Physics</i>. 2017;356(1):329-355. doi:<a href=\"https://doi.org/10.1007/s00220-017-2980-0\">10.1007/s00220-017-2980-0</a>","apa":"Moser, T., &#38; Seiringer, R. (2017). Stability of a fermionic N+1 particle system with point interactions. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-017-2980-0\">https://doi.org/10.1007/s00220-017-2980-0</a>","mla":"Moser, Thomas, and Robert Seiringer. “Stability of a Fermionic N+1 Particle System with Point Interactions.” <i>Communications in Mathematical Physics</i>, vol. 356, no. 1, Springer, 2017, pp. 329–55, doi:<a href=\"https://doi.org/10.1007/s00220-017-2980-0\">10.1007/s00220-017-2980-0</a>."},"date_created":"2018-12-11T11:48:15Z","publication":"Communications in Mathematical Physics","type":"journal_article"},{"page":"64 - 72","title":"Optional interactions and suspicious behaviour facilitates trustful cooperation in prisoners dilemma","project":[{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"},{"grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"}],"department":[{"_id":"KrCh"}],"_id":"744","ec_funded":1,"article_type":"original","publist_id":"6923","publisher":"Elsevier","publication_status":"published","file_date_updated":"2020-07-14T12:47:58Z","ddc":["000","570"],"author":[{"id":"3C869AA0-F248-11E8-B48F-1D18A9856A87","full_name":"Priklopil, Tadeas","last_name":"Priklopil","first_name":"Tadeas"},{"last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","orcid":"0000-0002-4561-241X"},{"first_name":"Martin","last_name":"Nowak","full_name":"Nowak, Martin"}],"publication_identifier":{"issn":["00225193"]},"language":[{"iso":"eng"}],"pmid":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"text":"In evolutionary game theory interactions between individuals are often assumed obligatory. However, in many real-life situations, individuals can decide to opt out of an interaction depending on the information they have about the opponent. We consider a simple evolutionary game theoretic model to study such a scenario, where at each encounter between two individuals the type of the opponent (cooperator/defector) is known with some probability, and where each individual either accepts or opts out of the interaction. If the type of the opponent is unknown, a trustful individual accepts the interaction, whereas a suspicious individual opts out of the interaction. If either of the two individuals opt out both individuals remain without an interaction. We show that in the prisoners dilemma optional interactions along with suspicious behaviour facilitates the emergence of trustful cooperation.","lang":"eng"}],"date_updated":"2023-09-27T12:29:02Z","file":[{"file_size":537323,"date_created":"2019-11-19T07:57:39Z","access_level":"open_access","content_type":"application/pdf","creator":"dernst","file_id":"7047","relation":"main_file","file_name":"2017_JournTheoretBio_Priklopil.pdf","date_updated":"2020-07-14T12:47:58Z","checksum":"4b43af1615ebf1a861840cb03d8a320c"}],"article_processing_charge":"No","has_accepted_license":"1","volume":433,"year":"2017","tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"scopus_import":"1","oa":1,"day":"21","external_id":{"pmid":["28867224"],"isi":["000412039800007"]},"isi":1,"intvolume":"       433","doi":"10.1016/j.jtbi.2017.08.025","date_published":"2017-11-21T00:00:00Z","status":"public","month":"11","quality_controlled":"1","type":"journal_article","date_created":"2018-12-11T11:48:16Z","oa_version":"Submitted Version","citation":{"ista":"Priklopil T, Chatterjee K, Nowak M. 2017. Optional interactions and suspicious behaviour facilitates trustful cooperation in prisoners dilemma.  Journal of Theoretical Biology. 433, 64–72.","chicago":"Priklopil, Tadeas, Krishnendu Chatterjee, and Martin Nowak. “Optional Interactions and Suspicious Behaviour Facilitates Trustful Cooperation in Prisoners Dilemma.” <i> Journal of Theoretical Biology</i>. Elsevier, 2017. <a href=\"https://doi.org/10.1016/j.jtbi.2017.08.025\">https://doi.org/10.1016/j.jtbi.2017.08.025</a>.","ieee":"T. Priklopil, K. Chatterjee, and M. Nowak, “Optional interactions and suspicious behaviour facilitates trustful cooperation in prisoners dilemma,” <i> Journal of Theoretical Biology</i>, vol. 433. Elsevier, pp. 64–72, 2017.","short":"T. Priklopil, K. Chatterjee, M. Nowak,  Journal of Theoretical Biology 433 (2017) 64–72.","mla":"Priklopil, Tadeas, et al. “Optional Interactions and Suspicious Behaviour Facilitates Trustful Cooperation in Prisoners Dilemma.” <i> Journal of Theoretical Biology</i>, vol. 433, Elsevier, 2017, pp. 64–72, doi:<a href=\"https://doi.org/10.1016/j.jtbi.2017.08.025\">10.1016/j.jtbi.2017.08.025</a>.","apa":"Priklopil, T., Chatterjee, K., &#38; Nowak, M. (2017). Optional interactions and suspicious behaviour facilitates trustful cooperation in prisoners dilemma. <i> Journal of Theoretical Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jtbi.2017.08.025\">https://doi.org/10.1016/j.jtbi.2017.08.025</a>","ama":"Priklopil T, Chatterjee K, Nowak M. Optional interactions and suspicious behaviour facilitates trustful cooperation in prisoners dilemma. <i> Journal of Theoretical Biology</i>. 2017;433:64-72. doi:<a href=\"https://doi.org/10.1016/j.jtbi.2017.08.025\">10.1016/j.jtbi.2017.08.025</a>"},"publication":" Journal of Theoretical Biology"},{"volume":831,"year":"2017","scopus_import":"1","author":[{"full_name":"Xu, Duo","id":"3454D55E-F248-11E8-B48F-1D18A9856A87","last_name":"Xu","first_name":"Duo"},{"full_name":"Warnecke, Sascha","last_name":"Warnecke","first_name":"Sascha"},{"last_name":"Song","full_name":"Song, Baofang","first_name":"Baofang"},{"orcid":"0000-0002-0179-9737","first_name":"Xingyu","id":"34BADBA6-F248-11E8-B48F-1D18A9856A87","full_name":"Ma, Xingyu","last_name":"Ma"},{"first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87","full_name":"Hof, Björn","last_name":"Hof","orcid":"0000-0003-2057-2754"}],"publication_identifier":{"issn":["00221120"]},"language":[{"iso":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"lang":"eng","text":"Fluid flows in nature and applications are frequently subject to periodic velocity modulations. Surprisingly, even for the generic case of flow through a straight pipe, there is little consensus regarding the influence of pulsation on the transition threshold to turbulence: while most studies predict a monotonically increasing threshold with pulsation frequency (i.e. Womersley number, ), others observe a decreasing threshold for identical parameters and only observe an increasing threshold at low . In the present study we apply recent advances in the understanding of transition in steady shear flows to pulsating pipe flow. For moderate pulsation amplitudes we find that the first instability encountered is subcritical (i.e. requiring finite amplitude disturbances) and gives rise to localized patches of turbulence ('puffs') analogous to steady pipe flow. By monitoring the impact of pulsation on the lifetime of turbulence we map the onset of turbulence in parameter space. Transition in pulsatile flow can be separated into three regimes. At small Womersley numbers the dynamics is dominated by the decay turbulence suffers during the slower part of the cycle and hence transition is delayed significantly. As shown in this regime thresholds closely agree with estimates based on a quasi-steady flow assumption only taking puff decay rates into account. The transition point predicted in the zero limit equals to the critical point for steady pipe flow offset by the oscillation Reynolds number (i.e. the dimensionless oscillation amplitude). In the high frequency limit on the other hand, puff lifetimes are identical to those in steady pipe flow and hence the transition threshold appears to be unaffected by flow pulsation. In the intermediate frequency regime the transition threshold sharply drops (with increasing ) from the decay dominated (quasi-steady) threshold to the steady pipe flow level."}],"date_updated":"2023-09-27T12:28:12Z","article_processing_charge":"No","_id":"745","ec_funded":1,"publist_id":"6922","publisher":"Cambridge University Press","publication_status":"published","page":"418 - 432","title":"Transition to turbulence in pulsating pipe flow","project":[{"grant_number":"306589","_id":"25152F3A-B435-11E9-9278-68D0E5697425","name":"Decoding the complexity of turbulence at its origin","call_identifier":"FP7"}],"department":[{"_id":"BjHo"}],"type":"journal_article","date_created":"2018-12-11T11:48:17Z","citation":{"ama":"Xu D, Warnecke S, Song B, Ma X, Hof B. Transition to turbulence in pulsating pipe flow. <i>Journal of Fluid Mechanics</i>. 2017;831:418-432. doi:<a href=\"https://doi.org/10.1017/jfm.2017.620\">10.1017/jfm.2017.620</a>","apa":"Xu, D., Warnecke, S., Song, B., Ma, X., &#38; Hof, B. (2017). Transition to turbulence in pulsating pipe flow. <i>Journal of Fluid Mechanics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/jfm.2017.620\">https://doi.org/10.1017/jfm.2017.620</a>","mla":"Xu, Duo, et al. “Transition to Turbulence in Pulsating Pipe Flow.” <i>Journal of Fluid Mechanics</i>, vol. 831, Cambridge University Press, 2017, pp. 418–32, doi:<a href=\"https://doi.org/10.1017/jfm.2017.620\">10.1017/jfm.2017.620</a>.","short":"D. Xu, S. Warnecke, B. Song, X. Ma, B. Hof, Journal of Fluid Mechanics 831 (2017) 418–432.","ieee":"D. Xu, S. Warnecke, B. Song, X. Ma, and B. Hof, “Transition to turbulence in pulsating pipe flow,” <i>Journal of Fluid Mechanics</i>, vol. 831. Cambridge University Press, pp. 418–432, 2017.","ista":"Xu D, Warnecke S, Song B, Ma X, Hof B. 2017. Transition to turbulence in pulsating pipe flow. Journal of Fluid Mechanics. 831, 418–432.","chicago":"Xu, Duo, Sascha Warnecke, Baofang Song, Xingyu Ma, and Björn Hof. “Transition to Turbulence in Pulsating Pipe Flow.” <i>Journal of Fluid Mechanics</i>. Cambridge University Press, 2017. <a href=\"https://doi.org/10.1017/jfm.2017.620\">https://doi.org/10.1017/jfm.2017.620</a>."},"oa_version":"Submitted Version","publication":"Journal of Fluid Mechanics","month":"11","quality_controlled":"1","isi":1,"intvolume":"       831","date_published":"2017-11-25T00:00:00Z","doi":"10.1017/jfm.2017.620","status":"public","oa":1,"day":"25","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1709.03738"}],"external_id":{"isi":["000412934800005"]}},{"language":[{"iso":"eng"}],"author":[{"first_name":"Elisabetta","last_name":"Aloisi","full_name":"Aloisi, Elisabetta"},{"first_name":"Katy","last_name":"Le Corf","full_name":"Le Corf, Katy"},{"first_name":"Julien","last_name":"Dupuis","full_name":"Dupuis, Julien"},{"last_name":"Zhang","full_name":"Zhang, Pei","first_name":"Pei"},{"last_name":"Ginger","full_name":"Ginger, Melanie","first_name":"Melanie"},{"first_name":"Virginie","last_name":"Labrousse","full_name":"Labrousse, Virginie"},{"last_name":"Spatuzza","full_name":"Spatuzza, Michela","first_name":"Michela"},{"first_name":"Matthias","last_name":"Georg Haberl","full_name":"Georg Haberl, Matthias"},{"first_name":"Lara","full_name":"Costa, Lara","last_name":"Costa"},{"orcid":"0000-0001-8761-9444","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto"},{"last_name":"Tappe Theodor","full_name":"Tappe Theodor, Anke","first_name":"Anke"},{"last_name":"Drago","full_name":"Drago, Fillippo","first_name":"Fillippo"},{"first_name":"Pier","full_name":"Vincenzo Piazza, Pier","last_name":"Vincenzo Piazza"},{"last_name":"Mulle","full_name":"Mulle, Christophe","first_name":"Christophe"},{"first_name":"Laurent","last_name":"Groc","full_name":"Groc, Laurent"},{"full_name":"Ciranna, Lucia","last_name":"Ciranna","first_name":"Lucia"},{"full_name":"Catania, Maria","last_name":"Catania","first_name":"Maria"},{"last_name":"Frick","full_name":"Frick, Andreas","first_name":"Andreas"}],"publication_identifier":{"issn":["20411723"]},"file":[{"file_size":1841650,"date_created":"2018-12-12T10:17:32Z","file_id":"5287","relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"system","checksum":"99ceee57549dc0461e3adfc037ec70a9","file_name":"IST-2017-915-v1+1_s41467-017-01191-2.pdf","date_updated":"2020-07-14T12:47:58Z"}],"date_updated":"2023-09-27T12:27:30Z","article_processing_charge":"No","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"text":"Metabotropic glutamate receptor subtype 5 (mGluR5) is crucially implicated in the pathophysiology of Fragile X Syndrome (FXS); however, its dysfunction at the sub-cellular level, and related synaptic and cognitive phenotypes are unexplored. Here, we probed the consequences of mGluR5/Homer scaffold disruption for mGluR5 cell-surface mobility, synaptic N-methyl-D-Aspartate receptor (NMDAR) function, and behavioral phenotypes in the second-generation Fmr1 knockout (KO) mouse. Using single-molecule tracking, we found that mGluR5 was significantly more mobile at synapses in hippocampal Fmr1 KO neurons, causing an increased synaptic surface co-clustering of mGluR5 and NMDAR. This correlated with a reduced amplitude of synaptic NMDAR currents, a lack of their mGluR5-Activated long-Term depression, and NMDAR/hippocampus dependent cognitive deficits. These synaptic and behavioral phenomena were reversed by knocking down Homer1a in Fmr1 KO mice. Our study provides a mechanistic link between changes of mGluR5 dynamics and pathological phenotypes of FXS, unveiling novel targets for mGluR5-based therapeutics.","lang":"eng"}],"volume":8,"has_accepted_license":"1","year":"2017","issue":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":"1","title":"Altered surface mGluR5 dynamics provoke synaptic NMDAR dysfunction and cognitive defects in Fmr1 knockout mice","department":[{"_id":"RySh"}],"publist_id":"6921","publisher":"Nature Publishing Group","_id":"746","file_date_updated":"2020-07-14T12:47:58Z","publication_status":"published","ddc":["571"],"pubrep_id":"915","month":"12","quality_controlled":"1","type":"journal_article","publication":"Nature Communications","date_created":"2018-12-11T11:48:17Z","citation":{"ieee":"E. Aloisi <i>et al.</i>, “Altered surface mGluR5 dynamics provoke synaptic NMDAR dysfunction and cognitive defects in Fmr1 knockout mice,” <i>Nature Communications</i>, vol. 8, no. 1. Nature Publishing Group, 2017.","short":"E. Aloisi, K. Le Corf, J. Dupuis, P. Zhang, M. Ginger, V. Labrousse, M. Spatuzza, M. Georg Haberl, L. Costa, R. Shigemoto, A. Tappe Theodor, F. Drago, P. Vincenzo Piazza, C. Mulle, L. Groc, L. Ciranna, M. Catania, A. Frick, Nature Communications 8 (2017).","chicago":"Aloisi, Elisabetta, Katy Le Corf, Julien Dupuis, Pei Zhang, Melanie Ginger, Virginie Labrousse, Michela Spatuzza, et al. “Altered Surface MGluR5 Dynamics Provoke Synaptic NMDAR Dysfunction and Cognitive Defects in Fmr1 Knockout Mice.” <i>Nature Communications</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/s41467-017-01191-2\">https://doi.org/10.1038/s41467-017-01191-2</a>.","ista":"Aloisi E, Le Corf K, Dupuis J, Zhang P, Ginger M, Labrousse V, Spatuzza M, Georg Haberl M, Costa L, Shigemoto R, Tappe Theodor A, Drago F, Vincenzo Piazza P, Mulle C, Groc L, Ciranna L, Catania M, Frick A. 2017. Altered surface mGluR5 dynamics provoke synaptic NMDAR dysfunction and cognitive defects in Fmr1 knockout mice. Nature Communications. 8(1), 1103.","ama":"Aloisi E, Le Corf K, Dupuis J, et al. Altered surface mGluR5 dynamics provoke synaptic NMDAR dysfunction and cognitive defects in Fmr1 knockout mice. <i>Nature Communications</i>. 2017;8(1). doi:<a href=\"https://doi.org/10.1038/s41467-017-01191-2\">10.1038/s41467-017-01191-2</a>","mla":"Aloisi, Elisabetta, et al. “Altered Surface MGluR5 Dynamics Provoke Synaptic NMDAR Dysfunction and Cognitive Defects in Fmr1 Knockout Mice.” <i>Nature Communications</i>, vol. 8, no. 1, 1103, Nature Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1038/s41467-017-01191-2\">10.1038/s41467-017-01191-2</a>.","apa":"Aloisi, E., Le Corf, K., Dupuis, J., Zhang, P., Ginger, M., Labrousse, V., … Frick, A. (2017). Altered surface mGluR5 dynamics provoke synaptic NMDAR dysfunction and cognitive defects in Fmr1 knockout mice. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41467-017-01191-2\">https://doi.org/10.1038/s41467-017-01191-2</a>"},"oa_version":"Published Version","day":"01","external_id":{"isi":["000413571300004"]},"oa":1,"intvolume":"         8","doi":"10.1038/s41467-017-01191-2","date_published":"2017-12-01T00:00:00Z","article_number":"1103","isi":1,"status":"public"}]