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We show how to obtain upper bounds for the discrepancy and diaphony of these sequences, by relating them to Kronecker sequences and applying earlier results of Faure and Niederreiter."}],"citation":{"chicago":"Pausinger, Florian. “Van Der Corput Sequences and Linear Permutations.” <i>Electronic Notes in Discrete Mathematics</i>. Elsevier, 2013. <a href=\"https://doi.org/10.1016/j.endm.2013.07.008\">https://doi.org/10.1016/j.endm.2013.07.008</a>.","ieee":"F. Pausinger, “Van der Corput sequences and linear permutations,” <i>Electronic Notes in Discrete Mathematics</i>, vol. 43. Elsevier, pp. 43–50, 2013.","ama":"Pausinger F. Van der Corput sequences and linear permutations. <i>Electronic Notes in Discrete Mathematics</i>. 2013;43:43-50. doi:<a href=\"https://doi.org/10.1016/j.endm.2013.07.008\">10.1016/j.endm.2013.07.008</a>","apa":"Pausinger, F. (2013). Van der Corput sequences and linear permutations. <i>Electronic Notes in Discrete Mathematics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.endm.2013.07.008\">https://doi.org/10.1016/j.endm.2013.07.008</a>","ista":"Pausinger F. 2013. Van der Corput sequences and linear permutations. Electronic Notes in Discrete Mathematics. 43, 43–50.","short":"F. Pausinger, Electronic Notes in Discrete Mathematics 43 (2013) 43–50.","mla":"Pausinger, Florian. “Van Der Corput Sequences and Linear Permutations.” <i>Electronic Notes in Discrete Mathematics</i>, vol. 43, Elsevier, 2013, pp. 43–50, doi:<a href=\"https://doi.org/10.1016/j.endm.2013.07.008\">10.1016/j.endm.2013.07.008</a>."},"year":"2013","date_updated":"2021-01-12T06:56:39Z","type":"journal_article","date_published":"2013-09-05T00:00:00Z"},{"publisher":"IEEE","page":"331 - 340","quality_controlled":"1","ec_funded":1,"title":"Trading performance for stability in Markov decision processes","publication_status":"published","date_created":"2018-12-11T11:56:53Z","department":[{"_id":"KrCh"}],"author":[{"full_name":"Brázdil, Tomáš","last_name":"Brázdil","first_name":"Tomáš"},{"full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","last_name":"Chatterjee","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Forejt","first_name":"Vojtěch","full_name":"Forejt, Vojtěch"},{"full_name":"Kučera, Antonín","first_name":"Antonín","last_name":"Kučera"}],"_id":"2305","scopus_import":1,"abstract":[{"text":"We study the complexity of central controller synthesis problems for finite-state Markov decision processes, where the objective is to optimize both the expected mean-payoff performance of the system and its stability. e argue that the basic theoretical notion of expressing the stability in terms of the variance of the mean-payoff (called global variance in our paper) is not always sufficient, since it ignores possible instabilities on respective runs. For this reason we propose alernative definitions of stability, which we call local and hybrid variance, and which express how rewards on each run deviate from the run's own mean-payoff and from the expected mean-payoff, respectively. We show that a strategy ensuring both the expected mean-payoff and the variance below given bounds requires randomization and memory, under all the above semantics of variance. We then look at the problem of determining whether there is a such a strategy. For the global variance, we show that the problem is in PSPACE, and that the answer can be approximated in pseudo-polynomial time. For the hybrid variance, the analogous decision problem is in NP, and a polynomial-time approximating algorithm also exists. For local variance, we show that the decision problem is in NP. Since the overall performance can be traded for stability (and vice versa), we also present algorithms for approximating the associated Pareto curve in all the three cases. Finally, we study a special case of the decision problems, where we require a given expected mean-payoff together with zero variance. Here we show that the problems can be all solved in polynomial time.","lang":"eng"}],"arxiv":1,"doi":"10.1109/LICS.2013.39","day":"01","external_id":{"arxiv":["1305.4103"]},"date_updated":"2023-09-20T11:15:30Z","year":"2013","citation":{"ieee":"T. Brázdil, K. Chatterjee, V. Forejt, and A. Kučera, “Trading performance for stability in Markov decision processes,” in <i>28th Annual ACM/IEEE Symposium</i>, New Orleans, LA, United States, 2013, pp. 331–340.","chicago":"Brázdil, Tomáš, Krishnendu Chatterjee, Vojtěch Forejt, and Antonín Kučera. “Trading Performance for Stability in Markov Decision Processes.” In <i>28th Annual ACM/IEEE Symposium</i>, 331–40. IEEE, 2013. <a href=\"https://doi.org/10.1109/LICS.2013.39\">https://doi.org/10.1109/LICS.2013.39</a>.","apa":"Brázdil, T., Chatterjee, K., Forejt, V., &#38; Kučera, A. (2013). Trading performance for stability in Markov decision processes. In <i>28th Annual ACM/IEEE Symposium</i> (pp. 331–340). New Orleans, LA, United States: IEEE. <a href=\"https://doi.org/10.1109/LICS.2013.39\">https://doi.org/10.1109/LICS.2013.39</a>","ama":"Brázdil T, Chatterjee K, Forejt V, Kučera A. Trading performance for stability in Markov decision processes. In: <i>28th Annual ACM/IEEE Symposium</i>. IEEE; 2013:331-340. doi:<a href=\"https://doi.org/10.1109/LICS.2013.39\">10.1109/LICS.2013.39</a>","ista":"Brázdil T, Chatterjee K, Forejt V, Kučera A. 2013. Trading performance for stability in Markov decision processes. 28th Annual ACM/IEEE Symposium. LICS: Logic in Computer Science, 331–340.","short":"T. Brázdil, K. Chatterjee, V. Forejt, A. Kučera, in:, 28th Annual ACM/IEEE Symposium, IEEE, 2013, pp. 331–340.","mla":"Brázdil, Tomáš, et al. “Trading Performance for Stability in Markov Decision Processes.” <i>28th Annual ACM/IEEE Symposium</i>, IEEE, 2013, pp. 331–40, doi:<a href=\"https://doi.org/10.1109/LICS.2013.39\">10.1109/LICS.2013.39</a>."},"conference":{"name":"LICS: Logic in Computer Science","start_date":"2013-06-25","location":"New Orleans, LA, United States","end_date":"2013-06-28"},"language":[{"iso":"eng"}],"month":"08","oa_version":"Preprint","project":[{"call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","grant_number":"S11407","name":"Game Theory"},{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"publication":"28th Annual ACM/IEEE Symposium","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"1294","relation":"later_version","status":"public"}]},"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1305.4103"}],"publist_id":"4622","oa":1,"date_published":"2013-08-01T00:00:00Z","type":"conference"},{"year":"2013","citation":{"ieee":"P. 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Pohl, (Open) Linked Data in Bibliotheken, De Gruyter, 2013."},"date_updated":"2021-12-21T12:17:19Z","abstract":[{"text":"Das Buch ist sowohl eine Einführung in die Themen Linked Data, Open Data und Open Linked Data als es auch den konkreten Bezug auf Bibliotheken behandelt. Hierzu werden konkrete Anwendungsprojekte beschrieben. 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Disordered Bose-Einstein condensates with interaction. ICMP: International Congress on Mathematical Physics, 610–619.","mla":"Seiringer, Robert, et al. <i>Disordered Bose-Einstein Condensates with Interaction</i>. World Scientific Publishing, 2013, pp. 610–19, doi:<a href=\"https://doi.org/10.1142/9789814449243_0063\">10.1142/9789814449243_0063</a>.","short":"R. Seiringer, J. Yngvason, V. Zagrebnov, in:, World Scientific Publishing, 2013, pp. 610–619.","ieee":"R. Seiringer, J. Yngvason, and V. Zagrebnov, “Disordered Bose-Einstein condensates with interaction,” presented at the ICMP: International Congress on Mathematical Physics, 2013, pp. 610–619.","chicago":"Seiringer, Robert, Jakob Yngvason, and Valentin Zagrebnov. “Disordered Bose-Einstein Condensates with Interaction,” 610–19. World Scientific Publishing, 2013. <a href=\"https://doi.org/10.1142/9789814449243_0063\">https://doi.org/10.1142/9789814449243_0063</a>.","ama":"Seiringer R, Yngvason J, Zagrebnov V. Disordered Bose-Einstein condensates with interaction. In: World Scientific Publishing; 2013:610-619. doi:<a href=\"https://doi.org/10.1142/9789814449243_0063\">10.1142/9789814449243_0063</a>","apa":"Seiringer, R., Yngvason, J., &#38; Zagrebnov, V. (2013). Disordered Bose-Einstein condensates with interaction (pp. 610–619). Presented at the ICMP: International Congress on Mathematical Physics, World Scientific Publishing. <a href=\"https://doi.org/10.1142/9789814449243_0063\">https://doi.org/10.1142/9789814449243_0063</a>"},"year":"2013","date_updated":"2021-01-12T06:56:43Z","external_id":{"arxiv":["1209.4046"]},"type":"conference","date_published":"2013-01-01T00:00:00Z","doi":"10.1142/9789814449243_0063","arxiv":1,"oa":1,"publist_id":"4612","abstract":[{"text":"     We study the effects of random scatterers on the ground state of the one-dimensional Lieb-Liniger model of interacting bosons on the unit interval in the Gross-Pitaevskii regime. We prove that Bose Einstein condensation survives even a strong random potential with a high density of scatterers. The character of the wave function of the condensate, however, depends in an essential way on the interplay between randomness and the strength of the two-body interaction. For low density of scatterers or strong interactions the wave function extends over the whole interval. High density of scatterers and weak interaction, on the other hand, leads to localization of the wave function in a fragmented subset of the interval. ","lang":"eng"}],"page":"610-619","language":[{"iso":"eng"}],"publisher":"World Scientific Publishing","conference":{"name":"ICMP: International Congress on Mathematical Physics"},"_id":"2315","author":[{"first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Yngvason","first_name":"Jakob","full_name":"Yngvason, Jakob"},{"full_name":"Zagrebnov, Valentin","last_name":"Zagrebnov","first_name":"Valentin"}],"article_processing_charge":"No","date_created":"2018-12-11T11:56:57Z","oa_version":"None","publication_status":"published","title":"Disordered Bose-Einstein condensates with interaction"},{"doi":"10.1007/978-3-0348-0531-5_3","day":"01","abstract":[{"lang":"eng","text":"In a recent paper [7] we give the first rigorous derivation of the celebrated Ginzburg-Landau (GL)theory, starting from the microscopic Bardeen- Cooper-Schrieffer (BCS)model. Here we present our results in the simplified case of a one-dimensional system of particles interacting via a δ-potential."}],"oa":1,"publist_id":"4608","date_updated":"2021-01-12T06:56:45Z","year":"2013","citation":{"apa":"Frank, R., Hainzl, C., Seiringer, R., &#38; Solovej, J. (2013).  Derivation of Ginzburg-Landau theory for a one-dimensional system with contact interaction (pp. 57–88). Presented at the OTAMP: Operator Theory, Analysis and Mathematical Physics, Springer. <a href=\"https://doi.org/10.1007/978-3-0348-0531-5_3\">https://doi.org/10.1007/978-3-0348-0531-5_3</a>","ama":"Frank R, Hainzl C, Seiringer R, Solovej J.  Derivation of Ginzburg-Landau theory for a one-dimensional system with contact interaction. In: Springer; 2013:57-88. doi:<a href=\"https://doi.org/10.1007/978-3-0348-0531-5_3\">10.1007/978-3-0348-0531-5_3</a>","chicago":"Frank, Rupert, Christian Hainzl, Robert Seiringer, and Jan Solovej. “ Derivation of Ginzburg-Landau Theory for a One-Dimensional System with Contact Interaction,” 57–88. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-0348-0531-5_3\">https://doi.org/10.1007/978-3-0348-0531-5_3</a>.","ieee":"R. Frank, C. Hainzl, R. Seiringer, and J. Solovej, “ Derivation of Ginzburg-Landau theory for a one-dimensional system with contact interaction,” presented at the OTAMP: Operator Theory, Analysis and Mathematical Physics, 2013, pp. 57–88.","short":"R. Frank, C. Hainzl, R. Seiringer, J. Solovej, in:, Springer, 2013, pp. 57–88.","mla":"Frank, Rupert, et al. <i> Derivation of Ginzburg-Landau Theory for a One-Dimensional System with Contact Interaction</i>. Springer, 2013, pp. 57–88, doi:<a href=\"https://doi.org/10.1007/978-3-0348-0531-5_3\">10.1007/978-3-0348-0531-5_3</a>.","ista":"Frank R, Hainzl C, Seiringer R, Solovej J. 2013.  Derivation of Ginzburg-Landau theory for a one-dimensional system with contact interaction. OTAMP: Operator Theory, Analysis and Mathematical Physics, 57–88."},"date_published":"2013-01-01T00:00:00Z","type":"conference","main_file_link":[{"url":"http://arxiv.org/abs/1103.1866","open_access":"1"}],"extern":1,"status":"public","publication_status":"published","date_created":"2018-12-11T11:56:58Z","title":" Derivation of Ginzburg-Landau theory for a one-dimensional system with contact interaction","month":"01","_id":"2319","author":[{"last_name":"Frank","first_name":"Rupert","full_name":"Frank, Rupert L"},{"full_name":"Hainzl, Christian","first_name":"Christian","last_name":"Hainzl"},{"first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Robert Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Solovej, Jan P","first_name":"Jan","last_name":"Solovej"}],"publisher":"Springer","conference":{"name":"OTAMP: Operator Theory, Analysis and Mathematical Physics"},"page":"57 - 88","quality_controlled":0},{"has_accepted_license":"1","oa_version":"Submitted Version","month":"08","language":[{"iso":"eng"}],"conference":{"location":"Buenos Aires, Argentina","end_date":"2013-08-30","start_date":"2013-08-27","name":"CONCUR: Concurrency Theory"},"type":"conference","date_published":"2013-08-01T00:00:00Z","publist_id":"4599","oa":1,"file":[{"date_updated":"2020-07-14T12:45:38Z","content_type":"application/pdf","file_name":"IST-2013-129-v1+1_concur.pdf","date_created":"2018-12-12T10:17:45Z","file_size":378587,"checksum":"4c04695c4bfdf2119cd4f5d1babc3e8a","file_id":"5301","creator":"system","access_level":"open_access","relation":"main_file"}],"status":"public","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"5417"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2327","author":[{"orcid":"0000−0002−2985−7724","full_name":"Henzinger, Thomas A","first_name":"Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Otop, Jan","last_name":"Otop","first_name":"Jan","id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T11:57:00Z","department":[{"_id":"ToHe"}],"publication_status":"published","intvolume":"      8052","title":"From model checking to model measuring","pubrep_id":"129","alternative_title":["LNCS"],"quality_controlled":"1","series_title":"Lecture Notes in Computer Science","page":"273 - 287","file_date_updated":"2020-07-14T12:45:38Z","publisher":"Springer","citation":{"ieee":"T. A. Henzinger and J. Otop, “From model checking to model measuring,” vol. 8052. Springer, pp. 273–287, 2013.","chicago":"Henzinger, Thomas A, and Jan Otop. “From Model Checking to Model Measuring.” Lecture Notes in Computer Science. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-40184-8_20\">https://doi.org/10.1007/978-3-642-40184-8_20</a>.","ama":"Henzinger TA, Otop J. From model checking to model measuring. 2013;8052:273-287. doi:<a href=\"https://doi.org/10.1007/978-3-642-40184-8_20\">10.1007/978-3-642-40184-8_20</a>","apa":"Henzinger, T. A., &#38; Otop, J. (2013). From model checking to model measuring. Presented at the CONCUR: Concurrency Theory, Buenos Aires, Argentina: Springer. <a href=\"https://doi.org/10.1007/978-3-642-40184-8_20\">https://doi.org/10.1007/978-3-642-40184-8_20</a>","ista":"Henzinger TA, Otop J. 2013. From model checking to model measuring. 8052, 273–287.","mla":"Henzinger, Thomas A., and Jan Otop. <i>From Model Checking to Model Measuring</i>. Vol. 8052, Springer, 2013, pp. 273–87, doi:<a href=\"https://doi.org/10.1007/978-3-642-40184-8_20\">10.1007/978-3-642-40184-8_20</a>.","short":"T.A. Henzinger, J. Otop, 8052 (2013) 273–287."},"year":"2013","date_updated":"2023-02-23T12:25:26Z","day":"01","doi":"10.1007/978-3-642-40184-8_20","abstract":[{"lang":"eng","text":"We define the model-measuring problem: given a model M and specification φ, what is the maximal distance ρ such that all models M′ within distance ρ from M satisfy (or violate) φ. The model measuring problem presupposes a distance function on models. We concentrate on automatic distance functions, which are defined by weighted automata. The model-measuring problem subsumes several generalizations of the classical model-checking problem, in particular, quantitative model-checking problems that measure the degree of satisfaction of a specification, and robustness problems that measure how much a model can be perturbed without violating the specification. We show that for automatic distance functions, and ω-regular linear-time and branching-time specifications, the model-measuring problem can be solved. We use automata-theoretic model-checking methods for model measuring, replacing the emptiness question for standard word and tree automata by the optimal-weight question for the weighted versions of these automata. We consider weighted automata that accumulate weights by maximizing, summing, discounting, and limit averaging. We give several examples of using the model-measuring problem to compute various notions of robustness and quantitative satisfaction for temporal specifications."}],"volume":8052,"ddc":["005","000"]},{"abstract":[{"text":"Linearizability of concurrent data structures is usually proved by monolithic simulation arguments relying on identifying the so-called linearization points. Regrettably, such proofs, whether manual or automatic, are often complicated and scale poorly to advanced non-blocking concurrency patterns, such as helping and optimistic updates.\r\nIn response, we propose a more modular way of checking linearizability of concurrent queue algorithms that does not involve identifying linearization points. We reduce the task of proving linearizability with respect to the queue specification to establishing four basic properties, each of which can be proved independently by simpler arguments. As a demonstration of our approach, we verify the Herlihy and Wing queue, an algorithm that is challenging to verify by a simulation proof.","lang":"eng"}],"day":"01","doi":"10.1007/978-3-642-40184-8_18","citation":{"ista":"Henzinger TA, Sezgin A, Vafeiadis V. 2013. Aspect-oriented linearizability proofs. 8052, 242–256.","short":"T.A. Henzinger, A. Sezgin, V. Vafeiadis, 8052 (2013) 242–256.","mla":"Henzinger, Thomas A., et al. <i>Aspect-Oriented Linearizability Proofs</i>. Vol. 8052, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013, pp. 242–56, doi:<a href=\"https://doi.org/10.1007/978-3-642-40184-8_18\">10.1007/978-3-642-40184-8_18</a>.","chicago":"Henzinger, Thomas A, Ali Sezgin, and Viktor Vafeiadis. “Aspect-Oriented Linearizability Proofs.” Lecture Notes in Computer Science. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2013. <a href=\"https://doi.org/10.1007/978-3-642-40184-8_18\">https://doi.org/10.1007/978-3-642-40184-8_18</a>.","ieee":"T. A. Henzinger, A. Sezgin, and V. Vafeiadis, “Aspect-oriented linearizability proofs,” vol. 8052. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, pp. 242–256, 2013.","ama":"Henzinger TA, Sezgin A, Vafeiadis V. Aspect-oriented linearizability proofs. 2013;8052:242-256. doi:<a href=\"https://doi.org/10.1007/978-3-642-40184-8_18\">10.1007/978-3-642-40184-8_18</a>","apa":"Henzinger, T. A., Sezgin, A., &#38; Vafeiadis, V. (2013). Aspect-oriented linearizability proofs. Presented at the CONCUR: Concurrency Theory, Buenos Aires, Argentina: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.1007/978-3-642-40184-8_18\">https://doi.org/10.1007/978-3-642-40184-8_18</a>"},"year":"2013","date_updated":"2023-02-23T10:16:27Z","ddc":["000","004"],"volume":8052,"intvolume":"      8052","alternative_title":["LNCS"],"title":"Aspect-oriented linearizability proofs","pubrep_id":"197","date_created":"2018-12-11T11:57:01Z","department":[{"_id":"ToHe"}],"publication_status":"published","author":[{"last_name":"Henzinger","first_name":"Thomas A","full_name":"Henzinger, Thomas A","orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"id":"4C7638DA-F248-11E8-B48F-1D18A9856A87","full_name":"Sezgin, Ali","last_name":"Sezgin","first_name":"Ali"},{"full_name":"Vafeiadis, Viktor","first_name":"Viktor","last_name":"Vafeiadis"}],"scopus_import":1,"_id":"2328","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","file_date_updated":"2020-07-14T12:45:39Z","ec_funded":1,"series_title":"Lecture Notes in Computer Science","quality_controlled":"1","page":"242 - 256","publist_id":"4598","oa":1,"type":"conference","date_published":"2013-08-01T00:00:00Z","status":"public","related_material":{"record":[{"id":"1832","relation":"later_version","status":"public"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"access_level":"open_access","relation":"main_file","file_id":"4721","creator":"system","date_created":"2018-12-12T10:08:58Z","checksum":"bdbb520de91751fe0136309ad4ef67e4","file_size":337059,"date_updated":"2020-07-14T12:45:39Z","content_type":"application/pdf","file_name":"IST-2014-197-v1+1_main-queue-verification.pdf"}],"month":"08","project":[{"call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering"},{"grant_number":"267989","name":"Quantitative Reactive Modeling","_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"oa_version":"Submitted Version","has_accepted_license":"1","conference":{"start_date":"2013-08-27","name":"CONCUR: Concurrency Theory","end_date":"2013-08-30","location":"Buenos Aires, Argentina"},"language":[{"iso":"eng"}]},{"volume":8052,"date_updated":"2023-02-23T13:00:42Z","citation":{"ista":"Chatterjee K, Velner Y. 2013. Hyperplane separation technique for multidimensional mean-payoff games. 8052, 500–515.","mla":"Chatterjee, Krishnendu, and Yaron Velner. <i>Hyperplane Separation Technique for Multidimensional Mean-Payoff Games</i>. Vol. 8052, Springer, 2013, pp. 500–15, doi:<a href=\"https://doi.org/10.1007/978-3-642-40184-8_35\">10.1007/978-3-642-40184-8_35</a>.","short":"K. Chatterjee, Y. Velner, 8052 (2013) 500–515.","ieee":"K. Chatterjee and Y. Velner, “Hyperplane separation technique for multidimensional mean-payoff games,” vol. 8052. Springer, pp. 500–515, 2013.","chicago":"Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique for Multidimensional Mean-Payoff Games.” Lecture Notes in Computer Science. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-40184-8_35\">https://doi.org/10.1007/978-3-642-40184-8_35</a>.","apa":"Chatterjee, K., &#38; Velner, Y. (2013). Hyperplane separation technique for multidimensional mean-payoff games. Presented at the CONCUR: Concurrency Theory, Buenos Aires, Argentinia: Springer. <a href=\"https://doi.org/10.1007/978-3-642-40184-8_35\">https://doi.org/10.1007/978-3-642-40184-8_35</a>","ama":"Chatterjee K, Velner Y. Hyperplane separation technique for multidimensional mean-payoff games. 2013;8052:500-515. doi:<a href=\"https://doi.org/10.1007/978-3-642-40184-8_35\">10.1007/978-3-642-40184-8_35</a>"},"year":"2013","external_id":{"arxiv":["1210.3141"]},"arxiv":1,"doi":"10.1007/978-3-642-40184-8_35","day":"01","abstract":[{"text":"Two-player games on graphs are central in many problems in formal verification and program analysis such as synthesis and verification of open systems. In this work, we consider both finite-state game graphs, and recursive game graphs (or pushdown game graphs) that model the control flow of sequential programs with recursion. The objectives we study are multidimensional mean-payoff objectives, where the goal of player 1 is to ensure that the mean-payoff is non-negative in all dimensions. In pushdown games two types of strategies are relevant: (1) global strategies, that depend on the entire global history; and (2) modular strategies, that have only local memory and thus do not depend on the context of invocation. Our main contributions are as follows: (1) We show that finite-state multidimensional mean-payoff games can be solved in polynomial time if the number of dimensions and the maximal absolute value of the weights are fixed; whereas if the number of dimensions is arbitrary, then the problem is known to be coNP-complete. (2) We show that pushdown graphs with multidimensional mean-payoff objectives can be solved in polynomial time. For both (1) and (2) our algorithms are based on hyperplane separation technique. (3) For pushdown games under global strategies both one and multidimensional mean-payoff objectives problems are known to be undecidable, and we show that under modular strategies the multidimensional problem is also undecidable; under modular strategies the one-dimensional problem is NP-complete. We show that if the number of modules, the number of exits, and the maximal absolute value of the weights are fixed, then pushdown games under modular strategies with one-dimensional mean-payoff objectives can be solved in polynomial time, and if either the number of exits or the number of modules is unbounded, then the problem is NP-hard. (4) Finally we show that a fixed parameter tractable algorithm for finite-state multidimensional mean-payoff games or pushdown games under modular strategies with one-dimensional mean-payoff objectives would imply the fixed parameter tractability of parity games.","lang":"eng"}],"page":"500 - 515","series_title":"Lecture Notes in Computer Science","ec_funded":1,"quality_controlled":"1","publisher":"Springer","_id":"2329","scopus_import":1,"author":[{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Velner, Yaron","last_name":"Velner","first_name":"Yaron"}],"publication_status":"published","department":[{"_id":"KrCh"}],"date_created":"2018-12-11T11:57:01Z","title":"Hyperplane separation technique for multidimensional mean-payoff games","alternative_title":["LNCS"],"intvolume":"      8052","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1210.3141"}],"status":"public","related_material":{"record":[{"id":"717","relation":"later_version","status":"public"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2013-08-01T00:00:00Z","type":"conference","publist_id":"4597","oa":1,"language":[{"iso":"eng"}],"conference":{"location":"Buenos Aires, Argentinia","end_date":"2013-08-30","name":"CONCUR: Concurrency Theory","start_date":"2013-08-27"},"oa_version":"Preprint","project":[{"name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407"},{"grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"name":"Microsoft Research Faculty Fellowship","_id":"2587B514-B435-11E9-9278-68D0E5697425"}],"month":"08"},{"extern":1,"status":"public","volume":162,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1108.4246"}],"date_published":"2013-02-01T00:00:00Z","type":"journal_article","date_updated":"2021-01-12T06:57:17Z","year":"2013","citation":{"mla":"Frank, Rupert, et al. “A Positive Density Analogue of the Lieb-Thirring Inequality.” <i>Duke Mathematical Journal</i>, vol. 162, no. 3, Duke University Press, 2013, pp. 435–95, doi:<a href=\"https://doi.org/10.1215/00127094-2019477\">10.1215/00127094-2019477</a>.","short":"R. Frank, M. Lewin, É. Lieb, R. Seiringer, Duke Mathematical Journal 162 (2013) 435–495.","ista":"Frank R, Lewin M, Lieb É, Seiringer R. 2013. A positive density analogue of the Lieb-Thirring inequality. Duke Mathematical Journal. 162(3), 435–495.","ama":"Frank R, Lewin M, Lieb É, Seiringer R. A positive density analogue of the Lieb-Thirring inequality. <i>Duke Mathematical Journal</i>. 2013;162(3):435-495. doi:<a href=\"https://doi.org/10.1215/00127094-2019477\">10.1215/00127094-2019477</a>","apa":"Frank, R., Lewin, M., Lieb, É., &#38; Seiringer, R. (2013). A positive density analogue of the Lieb-Thirring inequality. <i>Duke Mathematical Journal</i>. Duke University Press. <a href=\"https://doi.org/10.1215/00127094-2019477\">https://doi.org/10.1215/00127094-2019477</a>","chicago":"Frank, Rupert, Mathieu Lewin, Élliott Lieb, and Robert Seiringer. “A Positive Density Analogue of the Lieb-Thirring Inequality.” <i>Duke Mathematical Journal</i>. Duke University Press, 2013. <a href=\"https://doi.org/10.1215/00127094-2019477\">https://doi.org/10.1215/00127094-2019477</a>.","ieee":"R. Frank, M. Lewin, É. Lieb, and R. Seiringer, “A positive density analogue of the Lieb-Thirring inequality,” <i>Duke Mathematical Journal</i>, vol. 162, no. 3. Duke University Press, pp. 435–495, 2013."},"abstract":[{"text":"The Lieb-Thirring inequalities give a bound on the negative eigenvalues of a Schrödinger operator in terms of an Lp-norm of the potential. These are dual to bounds on the H1-norms of a system of orthonormal functions. Here we extend these bounds to analogous inequalities for perturbations of the Fermi sea of noninteracting particles (i.e., for perturbations of the continuous spectrum of the Laplacian by local potentials).","lang":"eng"}],"oa":1,"publist_id":"4521","doi":"10.1215/00127094-2019477","day":"01","page":"435 - 495","quality_controlled":0,"publisher":"Duke University Press","author":[{"last_name":"Frank","first_name":"Rupert","full_name":"Frank, Rupert L"},{"full_name":"Lewin, Mathieu","last_name":"Lewin","first_name":"Mathieu"},{"last_name":"Lieb","first_name":"Élliott","full_name":"Lieb, Élliott H"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Robert Seiringer"}],"issue":"3","_id":"2404","publication":"Duke Mathematical Journal","title":"A positive density analogue of the Lieb-Thirring inequality","month":"02","intvolume":"       162","publication_status":"published","date_created":"2018-12-11T11:57:28Z"},{"_id":"2405","publication":"Communications in Mathematical Physics","author":[{"first_name":"Rupert","last_name":"Frank","full_name":"Frank, Rupert L"},{"first_name":"Élliott","last_name":"Lieb","full_name":"Lieb, Élliott H"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert","full_name":"Robert Seiringer","orcid":"0000-0002-6781-0521"}],"issue":"2","publication_status":"published","date_created":"2018-12-11T11:57:28Z","month":"04","title":"Symmetry of bipolaron bound states for small Coulomb repulsion","intvolume":"       319","page":"557 - 573","quality_controlled":0,"publisher":"Springer","date_updated":"2021-01-12T06:57:17Z","citation":{"short":"R. Frank, É. Lieb, R. Seiringer, Communications in Mathematical Physics 319 (2013) 557–573.","mla":"Frank, Rupert, et al. “Symmetry of Bipolaron Bound States for Small Coulomb Repulsion.” <i>Communications in Mathematical Physics</i>, vol. 319, no. 2, Springer, 2013, pp. 557–73, doi:<a href=\"https://doi.org/10.1007/s00220-012-1604-y\">10.1007/s00220-012-1604-y</a>.","ista":"Frank R, Lieb É, Seiringer R. 2013. Symmetry of bipolaron bound states for small Coulomb repulsion. Communications in Mathematical Physics. 319(2), 557–573.","ama":"Frank R, Lieb É, Seiringer R. Symmetry of bipolaron bound states for small Coulomb repulsion. <i>Communications in Mathematical Physics</i>. 2013;319(2):557-573. doi:<a href=\"https://doi.org/10.1007/s00220-012-1604-y\">10.1007/s00220-012-1604-y</a>","apa":"Frank, R., Lieb, É., &#38; Seiringer, R. (2013). Symmetry of bipolaron bound states for small Coulomb repulsion. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-012-1604-y\">https://doi.org/10.1007/s00220-012-1604-y</a>","chicago":"Frank, Rupert, Élliott Lieb, and Robert Seiringer. “Symmetry of Bipolaron Bound States for Small Coulomb Repulsion.” <i>Communications in Mathematical Physics</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s00220-012-1604-y\">https://doi.org/10.1007/s00220-012-1604-y</a>.","ieee":"R. Frank, É. Lieb, and R. Seiringer, “Symmetry of bipolaron bound states for small Coulomb repulsion,” <i>Communications in Mathematical Physics</i>, vol. 319, no. 2. Springer, pp. 557–573, 2013."},"year":"2013","date_published":"2013-04-01T00:00:00Z","type":"journal_article","doi":"10.1007/s00220-012-1604-y","day":"01","abstract":[{"lang":"eng","text":"We consider the bipolaron in the Pekar-Tomasevich approximation and address the question whether the ground state is spherically symmetric or not. Numerical analysis has, so far, not completely settled the question. Our contribution is to prove rigorously that the ground state remains spherical for small values of the electron-electron Coulomb repulsion."}],"oa":1,"publist_id":"4522","volume":319,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1201.3954"}],"extern":1,"status":"public"},{"page":"103 - 107","quality_controlled":0,"publisher":"Springer","publication":"European Physical Journal: Special Topics","_id":"2406","author":[{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Robert Seiringer"},{"full_name":"Yngvason, Jakob","first_name":"Jakob","last_name":"Yngvason"},{"first_name":"Valentin","last_name":"Zagrebnov","full_name":"Zagrebnov, Valentin A"}],"issue":"1","publication_status":"published","date_created":"2018-12-11T11:57:29Z","month":"02","title":"Condensation of interacting bosons in a random potential","intvolume":"       217","volume":217,"extern":1,"status":"public","date_updated":"2021-01-12T06:57:17Z","citation":{"ista":"Seiringer R, Yngvason J, Zagrebnov V. 2013. Condensation of interacting bosons in a random potential. European Physical Journal: Special Topics. 217(1), 103–107.","mla":"Seiringer, Robert, et al. “Condensation of Interacting Bosons in a Random Potential.” <i>European Physical Journal: Special Topics</i>, vol. 217, no. 1, Springer, 2013, pp. 103–07, doi:<a href=\"https://doi.org/10.1140/epjst/e2013-01759-5\">10.1140/epjst/e2013-01759-5</a>.","short":"R. Seiringer, J. Yngvason, V. Zagrebnov, European Physical Journal: Special Topics 217 (2013) 103–107.","ieee":"R. Seiringer, J. Yngvason, and V. Zagrebnov, “Condensation of interacting bosons in a random potential,” <i>European Physical Journal: Special Topics</i>, vol. 217, no. 1. Springer, pp. 103–107, 2013.","chicago":"Seiringer, Robert, Jakob Yngvason, and Valentin Zagrebnov. “Condensation of Interacting Bosons in a Random Potential.” <i>European Physical Journal: Special Topics</i>. Springer, 2013. <a href=\"https://doi.org/10.1140/epjst/e2013-01759-5\">https://doi.org/10.1140/epjst/e2013-01759-5</a>.","ama":"Seiringer R, Yngvason J, Zagrebnov V. Condensation of interacting bosons in a random potential. <i>European Physical Journal: Special Topics</i>. 2013;217(1):103-107. doi:<a href=\"https://doi.org/10.1140/epjst/e2013-01759-5\">10.1140/epjst/e2013-01759-5</a>","apa":"Seiringer, R., Yngvason, J., &#38; Zagrebnov, V. (2013). Condensation of interacting bosons in a random potential. <i>European Physical Journal: Special Topics</i>. Springer. <a href=\"https://doi.org/10.1140/epjst/e2013-01759-5\">https://doi.org/10.1140/epjst/e2013-01759-5</a>"},"year":"2013","date_published":"2013-02-01T00:00:00Z","type":"journal_article","doi":"10.1140/epjst/e2013-01759-5","day":"01","abstract":[{"lang":"eng","text":"We study the effects of random scatterers on the ground state of the one-dimensional Lieb-Liniger model of interacting bosons on the unit interval. We prove that, in the Gross-Pitaevskii limit, Bose Einstein condensation takes place in the whole parameter range considered. The character of the wave function of the condensate, however, depends in an essential way on the interplay between randomness and the strength of the two-body interaction. For low density of scatterers or strong interactions the wave function extends over the whole interval. High density of scatterers and weak interaction, on the other hand, leads to localization of the wave function in a fragmented subset of the unit interval."}],"publist_id":"4520"},{"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1205.5259"}],"volume":322,"status":"public","extern":1,"day":"01","doi":"10.1007/s00220-013-1736-8","oa":1,"publist_id":"4518","abstract":[{"text":"We investigate the low-energy excitation spectrum of a Bose gas confined in a trap, with weak long-range repulsive interactions. In particular, we prove that the spectrum can be described in terms of the eigenvalues of an effective one-particle operator, as predicted by the Bogoliubov approximation.","lang":"eng"}],"citation":{"chicago":"Grech, Philip, and Robert Seiringer. “The Excitation Spectrum for Weakly Interacting Bosons in a Trap.” <i>Communications in Mathematical Physics</i>. Springer, 2013. <a href=\"https://doi.org/10.1007/s00220-013-1736-8\">https://doi.org/10.1007/s00220-013-1736-8</a>.","ieee":"P. Grech and R. Seiringer, “The excitation spectrum for weakly interacting Bosons in a trap,” <i>Communications in Mathematical Physics</i>, vol. 322, no. 2. Springer, pp. 559–591, 2013.","ama":"Grech P, Seiringer R. The excitation spectrum for weakly interacting Bosons in a trap. <i>Communications in Mathematical Physics</i>. 2013;322(2):559-591. doi:<a href=\"https://doi.org/10.1007/s00220-013-1736-8\">10.1007/s00220-013-1736-8</a>","apa":"Grech, P., &#38; Seiringer, R. (2013). The excitation spectrum for weakly interacting Bosons in a trap. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-013-1736-8\">https://doi.org/10.1007/s00220-013-1736-8</a>","ista":"Grech P, Seiringer R. 2013. The excitation spectrum for weakly interacting Bosons in a trap. Communications in Mathematical Physics. 322(2), 559–591.","mla":"Grech, Philip, and Robert Seiringer. “The Excitation Spectrum for Weakly Interacting Bosons in a Trap.” <i>Communications in Mathematical Physics</i>, vol. 322, no. 2, Springer, 2013, pp. 559–91, doi:<a href=\"https://doi.org/10.1007/s00220-013-1736-8\">10.1007/s00220-013-1736-8</a>.","short":"P. Grech, R. Seiringer, Communications in Mathematical Physics 322 (2013) 559–591."},"year":"2013","date_updated":"2021-01-12T06:57:18Z","type":"journal_article","date_published":"2013-09-01T00:00:00Z","publisher":"Springer","quality_controlled":0,"page":"559 - 591","date_created":"2018-12-11T11:57:29Z","publication_status":"published","intvolume":"       322","title":"The excitation spectrum for weakly interacting Bosons in a trap","month":"09","publication":"Communications in Mathematical Physics","_id":"2408","issue":"2","author":[{"full_name":"Grech, Philip","first_name":"Philip","last_name":"Grech"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","full_name":"Robert Seiringer"}]},{"language":[{"iso":"eng"}],"publication":"Genome Announcements","has_accepted_license":"1","oa_version":"Published Version","month":"06","file":[{"creator":"system","file_id":"5291","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_name":"IST-2015-398-v1+1_Genome_Announc.-2013-Redondo-.pdf","date_updated":"2020-07-14T12:45:40Z","file_size":130026,"checksum":"0751ec74b695567e0cdf02aaf9c26829","date_created":"2018-12-12T10:17:36Z"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2013-06-13T00:00:00Z","type":"journal_article","publist_id":"4516","oa":1,"quality_controlled":"1","file_date_updated":"2020-07-14T12:45:40Z","publisher":"American Society for Microbiology","_id":"2410","scopus_import":1,"author":[{"first_name":"Rodrigo A","last_name":"Fernandes Redondo","orcid":"0000-0002-5837-2793","full_name":"Fernandes Redondo, Rodrigo A","id":"409D5C96-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Kupczok, Anne","first_name":"Anne","last_name":"Kupczok","id":"2BB22BC2-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Gertraud","last_name":"Stift","full_name":"Stift, Gertraud","id":"2DB195CA-F248-11E8-B48F-1D18A9856A87"},{"id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","first_name":"Jonathan P","last_name":"Bollback","orcid":"0000-0002-4624-4612","full_name":"Bollback, Jonathan P"}],"issue":"3","publication_status":"published","date_created":"2018-12-11T11:57:30Z","department":[{"_id":"JoBo"},{"_id":"LifeSc"}],"pubrep_id":"398","title":"Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis","intvolume":"         1","volume":1,"ddc":["576"],"date_updated":"2021-01-12T06:57:19Z","citation":{"short":"R.A. Fernandes Redondo, A. Kupczok, G. Stift, J.P. Bollback, Genome Announcements 1 (2013).","mla":"Fernandes Redondo, Rodrigo A., et al. “Complete Genome Sequence of the Novel Phage MG-B1 Infecting Bacillus Weihenstephanensis.” <i>Genome Announcements</i>, vol. 1, no. 3, American Society for Microbiology, 2013, doi:<a href=\"https://doi.org/10.1128/genomeA.00216-13\">10.1128/genomeA.00216-13</a>.","ista":"Fernandes Redondo RA, Kupczok A, Stift G, Bollback JP. 2013. Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis. Genome Announcements. 1(3).","ama":"Fernandes Redondo RA, Kupczok A, Stift G, Bollback JP. Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis. <i>Genome Announcements</i>. 2013;1(3). doi:<a href=\"https://doi.org/10.1128/genomeA.00216-13\">10.1128/genomeA.00216-13</a>","apa":"Fernandes Redondo, R. A., Kupczok, A., Stift, G., &#38; Bollback, J. P. (2013). Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis. <i>Genome Announcements</i>. American Society for Microbiology. <a href=\"https://doi.org/10.1128/genomeA.00216-13\">https://doi.org/10.1128/genomeA.00216-13</a>","ieee":"R. A. Fernandes Redondo, A. Kupczok, G. Stift, and J. P. Bollback, “Complete genome sequence of the novel phage MG-B1 infecting bacillus weihenstephanensis,” <i>Genome Announcements</i>, vol. 1, no. 3. American Society for Microbiology, 2013.","chicago":"Fernandes Redondo, Rodrigo A, Anne Kupczok, Gertraud Stift, and Jonathan P Bollback. “Complete Genome Sequence of the Novel Phage MG-B1 Infecting Bacillus Weihenstephanensis.” <i>Genome Announcements</i>. American Society for Microbiology, 2013. <a href=\"https://doi.org/10.1128/genomeA.00216-13\">https://doi.org/10.1128/genomeA.00216-13</a>."},"year":"2013","doi":"10.1128/genomeA.00216-13","day":"13","abstract":[{"lang":"eng","text":"Here, we describe a novel virulent bacteriophage that infects Bacillus weihenstephanensis, isolated from soil in Austria. It is the first phage to be discovered that infects this species. Here, we present the complete genome sequence of this podovirus. "}]},{"language":[{"iso":"eng"}],"oa_version":"Published Version","month":"02","publication":"BMC Evolutionary Biology","has_accepted_license":"1","file":[{"file_size":518729,"checksum":"029c7e0b198c19312b66ecce3cabb22f","date_created":"2018-12-12T10:17:15Z","file_name":"IST-2015-397-v1+1_1471-2148-13-54.pdf","content_type":"application/pdf","date_updated":"2020-07-14T12:45:40Z","relation":"main_file","access_level":"open_access","creator":"system","file_id":"5268"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"publist_id":"4514","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2013-02-26T00:00:00Z","type":"journal_article","publisher":"BioMed Central","page":"54 - 54","quality_controlled":"1","file_date_updated":"2020-07-14T12:45:40Z","publication_status":"published","department":[{"_id":"JoBo"}],"date_created":"2018-12-11T11:57:31Z","pubrep_id":"397","title":"Probabilistic models for CRISPR spacer content evolution ","intvolume":"        13","_id":"2412","scopus_import":1,"author":[{"id":"2BB22BC2-F248-11E8-B48F-1D18A9856A87","full_name":"Kupczok, Anne","first_name":"Anne","last_name":"Kupczok"},{"id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","full_name":"Bollback, Jonathan P","orcid":"0000-0002-4624-4612","last_name":"Bollback","first_name":"Jonathan P"}],"issue":"1","volume":13,"ddc":["576"],"doi":"10.1186/1471-2148-13-54","day":"26","abstract":[{"lang":"eng","text":"Background: The CRISPR/Cas system is known to act as an adaptive and heritable immune system in Eubacteria and Archaea. Immunity is encoded in an array of spacer sequences. Each spacer can provide specific immunity to invasive elements that carry the same or a similar sequence. Even in closely related strains, spacer content is very dynamic and evolves quickly. Standard models of nucleotide evolutioncannot be applied to quantify its rate of change since processes other than single nucleotide changes determine its evolution.Methods We present probabilistic models that are specific for spacer content evolution. They account for the different processes of insertion and deletion. Insertions can be constrained to occur on one end only or are allowed to occur throughout the array. One deletion event can affect one spacer or a whole fragment of adjacent spacers. Parameters of the underlying models are estimated for a pair of arrays by maximum likelihood using explicit ancestor enumeration.Results Simulations show that parameters are well estimated on average under the models presented here. There is a bias in the rate estimation when including fragment deletions. The models also estimate times between pairs of strains. But with increasing time, spacer overlap goes to zero, and thus there is an upper bound on the distance that can be estimated. Spacer content similarities are displayed in a distance based phylogeny using the estimated times.We use the presented models to analyze different Yersinia pestis data sets and find that the results among them are largely congruent. The models also capture the variation in diversity of spacers among the data sets. A comparison of spacer-based phylogenies and Cas gene phylogenies shows that they resolve very different time scales for this data set.Conclusions The simulations and data analyses show that the presented models are useful for quantifying spacer content evolution and for displaying spacer content similarities of closely related strains in a phylogeny. This allows for comparisons of different CRISPR arrays or for comparisons between CRISPR arrays and nucleotide substitution rates."}],"date_updated":"2021-01-12T06:57:20Z","year":"2013","citation":{"short":"A. Kupczok, J.P. Bollback, BMC Evolutionary Biology 13 (2013) 54–54.","mla":"Kupczok, Anne, and Jonathan P. Bollback. “Probabilistic Models for CRISPR Spacer Content Evolution .” <i>BMC Evolutionary Biology</i>, vol. 13, no. 1, BioMed Central, 2013, pp. 54–54, doi:<a href=\"https://doi.org/10.1186/1471-2148-13-54\">10.1186/1471-2148-13-54</a>.","ista":"Kupczok A, Bollback JP. 2013. Probabilistic models for CRISPR spacer content evolution . BMC Evolutionary Biology. 13(1), 54–54.","apa":"Kupczok, A., &#38; Bollback, J. P. (2013). Probabilistic models for CRISPR spacer content evolution . <i>BMC Evolutionary Biology</i>. BioMed Central. <a href=\"https://doi.org/10.1186/1471-2148-13-54\">https://doi.org/10.1186/1471-2148-13-54</a>","ama":"Kupczok A, Bollback JP. Probabilistic models for CRISPR spacer content evolution . <i>BMC Evolutionary Biology</i>. 2013;13(1):54-54. doi:<a href=\"https://doi.org/10.1186/1471-2148-13-54\">10.1186/1471-2148-13-54</a>","chicago":"Kupczok, Anne, and Jonathan P Bollback. “Probabilistic Models for CRISPR Spacer Content Evolution .” <i>BMC Evolutionary Biology</i>. BioMed Central, 2013. <a href=\"https://doi.org/10.1186/1471-2148-13-54\">https://doi.org/10.1186/1471-2148-13-54</a>.","ieee":"A. Kupczok and J. P. Bollback, “Probabilistic models for CRISPR spacer content evolution ,” <i>BMC Evolutionary Biology</i>, vol. 13, no. 1. BioMed Central, pp. 54–54, 2013."}},{"status":"public","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publist_id":"4513","abstract":[{"text":"Progress in understanding the global brain dynamics has remained slow to date in large part because of the highly multiscale nature of brain activity. Indeed, normal brain dynamics is characterized by complex interactions between multiple levels: from the microscopic scale of single neurons to the mesoscopic level of local groups of neurons, and finally to the macroscopic level of the whole brain. Among the most difficult tasks are those of identifying which scales are significant for a given particular function and describing how the scales affect each other. It is important to realize that the scales of time and space are linked together, or even intertwined, and that causal inference is far more ambiguous between than within levels. We approach this problem from the perspective of our recent work on simultaneous recording from micro- and macroelectrodes in the human brain. We propose a physiological description of these multilevel interactions, based on phase–amplitude coupling of neuronal oscillations that operate at multiple frequencies and on different spatial scales. Specifically, the amplitude of the oscillations on a particular spatial scale is modulated by phasic variations in neuronal excitability induced by lower frequency oscillations that emerge on a larger spatial scale. Following this general principle, it is possible to scale up or scale down the multiscale brain dynamics. It is expected that large-scale network oscillations in the low-frequency range, mediating downward effects, may play an important role in attention and consciousness.","lang":"eng"}],"publication_identifier":{"isbn":["9783527411986 "],"eisbn":["9783527671632"]},"day":"01","doi":"10.1002/9783527671632.ch08","type":"book_chapter","date_published":"2013-08-01T00:00:00Z","year":"2013","citation":{"ama":"Valderrama M, Botella Soler V, Le Van Quyen M. Neuronal oscillations scale up and scale down the brain dynamics . In: Meyer M, Pesenson Z, eds. <i>Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain</i>. Wiley-VCH; 2013. doi:<a href=\"https://doi.org/10.1002/9783527671632.ch08\">10.1002/9783527671632.ch08</a>","apa":"Valderrama, M., Botella Soler, V., &#38; Le Van Quyen, M. (2013). Neuronal oscillations scale up and scale down the brain dynamics . In M. Meyer &#38; Z. Pesenson (Eds.), <i>Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain</i>. Wiley-VCH. <a href=\"https://doi.org/10.1002/9783527671632.ch08\">https://doi.org/10.1002/9783527671632.ch08</a>","chicago":"Valderrama, Mario, Vicente Botella Soler, and Michel Le Van Quyen. “Neuronal Oscillations Scale up and Scale down the Brain Dynamics .” In <i>Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain</i>, edited by Misha Meyer and Z. Pesenson. Wiley-VCH, 2013. <a href=\"https://doi.org/10.1002/9783527671632.ch08\">https://doi.org/10.1002/9783527671632.ch08</a>.","ieee":"M. Valderrama, V. Botella Soler, and M. Le Van Quyen, “Neuronal oscillations scale up and scale down the brain dynamics ,” in <i>Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain</i>, M. Meyer and Z. Pesenson, Eds. Wiley-VCH, 2013.","mla":"Valderrama, Mario, et al. “Neuronal Oscillations Scale up and Scale down the Brain Dynamics .” <i>Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain</i>, edited by Misha Meyer and Z. Pesenson, Wiley-VCH, 2013, doi:<a href=\"https://doi.org/10.1002/9783527671632.ch08\">10.1002/9783527671632.ch08</a>.","short":"M. Valderrama, V. Botella Soler, M. Le Van Quyen, in:, M. Meyer, Z. Pesenson (Eds.), Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain, Wiley-VCH, 2013.","ista":"Valderrama M, Botella Soler V, Le Van Quyen M. 2013.Neuronal oscillations scale up and scale down the brain dynamics . In: Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain. Reviews of Nonlinear Dynamics and Complexity, ."},"date_updated":"2021-01-12T06:57:20Z","editor":[{"last_name":"Meyer","first_name":"Misha","full_name":"Meyer, Misha"},{"last_name":"Pesenson","first_name":"Z.","full_name":"Pesenson, Z."}],"publisher":"Wiley-VCH","language":[{"iso":"eng"}],"quality_controlled":"1","alternative_title":["Reviews of Nonlinear Dynamics and Complexity"],"month":"08","title":"Neuronal oscillations scale up and scale down the brain dynamics ","department":[{"_id":"GaTk"}],"date_created":"2018-12-11T11:57:31Z","publication_status":"published","oa_version":"None","author":[{"last_name":"Valderrama","first_name":"Mario","full_name":"Valderrama, Mario"},{"orcid":"0000-0002-8790-1914","full_name":"Botella Soler, Vicente","first_name":"Vicente","last_name":"Botella Soler","id":"421234E8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Le Van Quyen, Michel","first_name":"Michel","last_name":"Le Van Quyen"}],"scopus_import":1,"publication":"Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain","_id":"2413"},{"has_accepted_license":"1","publication":"Image Processing On Line","oa_version":"Published Version","month":"07","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","short":"CC BY-NC-SA (4.0)"},"type":"journal_article","date_published":"2013-07-11T00:00:00Z","publication_identifier":{"issn":["2105-1232"]},"oa":1,"file":[{"relation":"main_file","access_level":"open_access","file_id":"6769","creator":"dernst","date_created":"2019-08-05T12:33:40Z","file_size":4306158,"checksum":"83b7d429bc248c6c461229d3504fb139","date_updated":"2020-07-14T12:47:40Z","content_type":"application/pdf","file_name":"2013_IPOL_Mondelli.pdf"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"6768","author":[{"full_name":"Mondelli, Marco","orcid":"0000-0002-3242-7020","last_name":"Mondelli","first_name":"Marco","id":"27EB676C-8706-11E9-9510-7717E6697425"}],"date_created":"2019-08-05T12:30:38Z","publication_status":"published","intvolume":"         3","title":"A finite difference scheme for the stack filter simulating the MCM","quality_controlled":"1","page":"68-111","file_date_updated":"2020-07-14T12:47:40Z","publisher":"Image Processing On Line","article_type":"original","year":"2013","citation":{"ista":"Mondelli M. 2013. A finite difference scheme for the stack filter simulating the MCM. Image Processing On Line. 3, 68–111.","short":"M. Mondelli, Image Processing On Line 3 (2013) 68–111.","mla":"Mondelli, Marco. “A Finite Difference Scheme for the Stack Filter Simulating the MCM.” <i>Image Processing On Line</i>, vol. 3, Image Processing On Line, 2013, pp. 68–111, doi:<a href=\"https://doi.org/10.5201/ipol.2013.53\">10.5201/ipol.2013.53</a>.","chicago":"Mondelli, Marco. “A Finite Difference Scheme for the Stack Filter Simulating the MCM.” <i>Image Processing On Line</i>. Image Processing On Line, 2013. <a href=\"https://doi.org/10.5201/ipol.2013.53\">https://doi.org/10.5201/ipol.2013.53</a>.","ieee":"M. Mondelli, “A finite difference scheme for the stack filter simulating the MCM,” <i>Image Processing On Line</i>, vol. 3. Image Processing On Line, pp. 68–111, 2013.","ama":"Mondelli M. A finite difference scheme for the stack filter simulating the MCM. <i>Image Processing On Line</i>. 2013;3:68-111. doi:<a href=\"https://doi.org/10.5201/ipol.2013.53\">10.5201/ipol.2013.53</a>","apa":"Mondelli, M. (2013). A finite difference scheme for the stack filter simulating the MCM. <i>Image Processing On Line</i>. Image Processing On Line. <a href=\"https://doi.org/10.5201/ipol.2013.53\">https://doi.org/10.5201/ipol.2013.53</a>"},"date_updated":"2021-01-12T08:08:56Z","day":"11","doi":"10.5201/ipol.2013.53","abstract":[{"text":"The paper presents an algorithm that applies a stack filter simulating the Mean Curvature Motion equation via a finite difference scheme.","lang":"eng"}],"volume":3,"ddc":["510"],"extern":"1"},{"year":"2013","citation":{"mla":"Ottakam Thotiyl, Muhammed M., et al. “A Stable Cathode for the Aprotic Li–O2 Battery.” <i>Nature Materials</i>, vol. 12, no. 11, Springer Nature, 2013, pp. 1050–56, doi:<a href=\"https://doi.org/10.1038/nmat3737\">10.1038/nmat3737</a>.","short":"M.M. Ottakam Thotiyl, S.A. Freunberger, Z. Peng, Y. Chen, Z. Liu, P.G. Bruce, Nature Materials 12 (2013) 1050–1056.","ista":"Ottakam Thotiyl MM, Freunberger SA, Peng Z, Chen Y, Liu Z, Bruce PG. 2013. A stable cathode for the aprotic Li–O2 battery. Nature Materials. 12(11), 1050–1056.","apa":"Ottakam Thotiyl, M. M., Freunberger, S. A., Peng, Z., Chen, Y., Liu, Z., &#38; Bruce, P. G. (2013). A stable cathode for the aprotic Li–O2 battery. <i>Nature Materials</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nmat3737\">https://doi.org/10.1038/nmat3737</a>","ama":"Ottakam Thotiyl MM, Freunberger SA, Peng Z, Chen Y, Liu Z, Bruce PG. A stable cathode for the aprotic Li–O2 battery. <i>Nature Materials</i>. 2013;12(11):1050-1056. doi:<a href=\"https://doi.org/10.1038/nmat3737\">10.1038/nmat3737</a>","ieee":"M. M. Ottakam Thotiyl, S. A. Freunberger, Z. Peng, Y. Chen, Z. Liu, and P. G. Bruce, “A stable cathode for the aprotic Li–O2 battery,” <i>Nature Materials</i>, vol. 12, no. 11. Springer Nature, pp. 1050–1056, 2013.","chicago":"Ottakam Thotiyl, Muhammed M., Stefan Alexander Freunberger, Zhangquan Peng, Yuhui Chen, Zheng Liu, and Peter G. Bruce. “A Stable Cathode for the Aprotic Li–O2 Battery.” <i>Nature Materials</i>. Springer Nature, 2013. <a href=\"https://doi.org/10.1038/nmat3737\">https://doi.org/10.1038/nmat3737</a>."},"date_updated":"2021-01-12T08:12:55Z","type":"journal_article","date_published":"2013-09-01T00:00:00Z","day":"01","publication_identifier":{"issn":["1476-1122","1476-4660"]},"doi":"10.1038/nmat3737","abstract":[{"text":"Rechargeable lithium–air (O2) batteries are receiving intense interest because their high theoretical specific energy exceeds that of lithium-ion batteries. If the Li–O2 battery is ever to succeed, highly reversible formation/decomposition of Li2O2 must take place at the cathode on cycling. However, carbon, used ubiquitously as the basis of the cathode, decomposes during Li2O2 oxidation on charge and actively promotes electrolyte decomposition on cycling. Replacing carbon with a nanoporous gold cathode, when in contact with a dimethyl sulphoxide-based electrolyte, does seem to demonstrate better stability. However, nanoporous gold is not a suitable cathode; its high mass destroys the key advantage of Li–O2 over Li ion (specific energy), it is too expensive and too difficult to fabricate. Identifying a suitable cathode material for the Li–O2 cell is one of the greatest challenges at present. Here we show that a TiC-based cathode reduces greatly side reactions (arising from the electrolyte and electrode degradation) compared with carbon and exhibits better reversible formation/decomposition of Li2O2 even than nanoporous gold (>98% capacity retention after 100 cycles, compared with 95% for nanoporous gold); it is also four times lighter, of lower cost and easier to fabricate. The stability may originate from the presence of TiO2 (along with some TiOC) on the surface of TiC. In contrast to carbon or nanoporous gold, TiC seems to represent a more viable, stable, cathode for aprotic Li–O2 cells.","lang":"eng"}],"volume":12,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","extern":"1","_id":"7306","publication":"Nature Materials","issue":"11","author":[{"full_name":"Ottakam Thotiyl, Muhammed M.","first_name":"Muhammed M.","last_name":"Ottakam Thotiyl"},{"id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","first_name":"Stefan Alexander","full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319"},{"last_name":"Peng","first_name":"Zhangquan","full_name":"Peng, Zhangquan"},{"full_name":"Chen, Yuhui","last_name":"Chen","first_name":"Yuhui"},{"full_name":"Liu, Zheng","last_name":"Liu","first_name":"Zheng"},{"full_name":"Bruce, Peter G.","first_name":"Peter G.","last_name":"Bruce"}],"date_created":"2020-01-15T12:18:29Z","article_processing_charge":"No","oa_version":"None","publication_status":"published","intvolume":"        12","title":"A stable cathode for the aprotic Li–O2 battery","month":"09","quality_controlled":"1","page":"1050-1056","language":[{"iso":"eng"}],"publisher":"Springer Nature","article_type":"original"},{"_id":"7307","publication":"Nature Chemistry","issue":"6","author":[{"full_name":"Chen, Yuhui","first_name":"Yuhui","last_name":"Chen"},{"last_name":"Freunberger","first_name":"Stefan Alexander","full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"},{"last_name":"Peng","first_name":"Zhangquan","full_name":"Peng, Zhangquan"},{"first_name":"Olivier","last_name":"Fontaine","full_name":"Fontaine, Olivier"},{"full_name":"Bruce, Peter G.","first_name":"Peter G.","last_name":"Bruce"}],"article_processing_charge":"No","date_created":"2020-01-15T12:18:43Z","publication_status":"published","oa_version":"None","intvolume":"         5","title":"Charging a Li–O2 battery using a redox mediator","month":"05","quality_controlled":"1","page":"489-494","language":[{"iso":"eng"}],"publisher":"Springer Nature","article_type":"original","year":"2013","citation":{"chicago":"Chen, Yuhui, Stefan Alexander Freunberger, Zhangquan Peng, Olivier Fontaine, and Peter G. Bruce. “Charging a Li–O2 Battery Using a Redox Mediator.” <i>Nature Chemistry</i>. Springer Nature, 2013. <a href=\"https://doi.org/10.1038/nchem.1646\">https://doi.org/10.1038/nchem.1646</a>.","ieee":"Y. Chen, S. A. Freunberger, Z. Peng, O. Fontaine, and P. G. Bruce, “Charging a Li–O2 battery using a redox mediator,” <i>Nature Chemistry</i>, vol. 5, no. 6. Springer Nature, pp. 489–494, 2013.","ama":"Chen Y, Freunberger SA, Peng Z, Fontaine O, Bruce PG. Charging a Li–O2 battery using a redox mediator. <i>Nature Chemistry</i>. 2013;5(6):489-494. doi:<a href=\"https://doi.org/10.1038/nchem.1646\">10.1038/nchem.1646</a>","apa":"Chen, Y., Freunberger, S. A., Peng, Z., Fontaine, O., &#38; Bruce, P. G. (2013). Charging a Li–O2 battery using a redox mediator. <i>Nature Chemistry</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nchem.1646\">https://doi.org/10.1038/nchem.1646</a>","ista":"Chen Y, Freunberger SA, Peng Z, Fontaine O, Bruce PG. 2013. Charging a Li–O2 battery using a redox mediator. Nature Chemistry. 5(6), 489–494.","mla":"Chen, Yuhui, et al. “Charging a Li–O2 Battery Using a Redox Mediator.” <i>Nature Chemistry</i>, vol. 5, no. 6, Springer Nature, 2013, pp. 489–94, doi:<a href=\"https://doi.org/10.1038/nchem.1646\">10.1038/nchem.1646</a>.","short":"Y. Chen, S.A. Freunberger, Z. Peng, O. Fontaine, P.G. Bruce, Nature Chemistry 5 (2013) 489–494."},"date_updated":"2021-01-12T08:12:56Z","type":"journal_article","date_published":"2013-05-12T00:00:00Z","day":"12","publication_identifier":{"issn":["1755-4330","1755-4349"]},"doi":"10.1038/nchem.1646","abstract":[{"lang":"eng","text":"The non-aqueous Li–air (O2) battery is receiving intense interest because its theoretical specific energy exceeds that of Li-ion batteries. Recharging the Li–O2 battery depends on oxidizing solid lithium peroxide (Li2O2), which is formed on discharge within the porous cathode. However, transporting charge between Li2O2 particles and the solid electrode surface is at best very difficult and leads to voltage polarization on charging, even at modest rates. This is a significant problem facing the non-aqueous Li–O2 battery. Here we show that incorporation of a redox mediator, tetrathiafulvalene (TTF), enables recharging at rates that are impossible for the cell in the absence of the mediator. On charging, TTF is oxidized to TTF+ at the cathode surface; TTF+ in turn oxidizes the solid Li2O2, which results in the regeneration of TTF. The mediator acts as an electron–hole transfer agent that permits efficient oxidation of solid Li2O2. The cell with the mediator demonstrated 100 charge/discharge cycles."}],"volume":5,"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1"},{"language":[{"iso":"eng"}],"publication":"Acta Biochimica et Biophysica Sinica","month":"07","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","date_published":"2013-07-01T00:00:00Z","type":"journal_article","publication_identifier":{"issn":["1745-7270","1672-9145"]},"page":"549-560","quality_controlled":"1","article_type":"original","publisher":"Oxford University Press","author":[{"full_name":"Tang, Yong","last_name":"Tang","first_name":"Yong"},{"first_name":"Shutang","last_name":"Tan","orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Hongwei","last_name":"Xue","full_name":"Xue, Hongwei"}],"issue":"7","pmid":1,"_id":"7595","title":"Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development","intvolume":"        45","publication_status":"published","date_created":"2020-03-21T16:06:36Z","article_processing_charge":"No","extern":"1","volume":45,"external_id":{"pmid":["23595027"]},"date_updated":"2021-01-12T08:14:23Z","citation":{"ieee":"Y. Tang, S. Tan, and H. Xue, “Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development,” <i>Acta Biochimica et Biophysica Sinica</i>, vol. 45, no. 7. Oxford University Press, pp. 549–560, 2013.","chicago":"Tang, Yong, Shutang Tan, and Hongwei Xue. “Arabidopsis Inositol 1,3,4-Trisphosphate 5/6 Kinase 2 Is Required for Seed Coat Development.” <i>Acta Biochimica et Biophysica Sinica</i>. Oxford University Press, 2013. <a href=\"https://doi.org/10.1093/abbs/gmt039\">https://doi.org/10.1093/abbs/gmt039</a>.","ama":"Tang Y, Tan S, Xue H. Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development. <i>Acta Biochimica et Biophysica Sinica</i>. 2013;45(7):549-560. doi:<a href=\"https://doi.org/10.1093/abbs/gmt039\">10.1093/abbs/gmt039</a>","apa":"Tang, Y., Tan, S., &#38; Xue, H. (2013). Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development. <i>Acta Biochimica et Biophysica Sinica</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/abbs/gmt039\">https://doi.org/10.1093/abbs/gmt039</a>","ista":"Tang Y, Tan S, Xue H. 2013. Arabidopsis inositol 1,3,4-trisphosphate 5/6 kinase 2 is required for seed coat development. Acta Biochimica et Biophysica Sinica. 45(7), 549–560.","short":"Y. Tang, S. Tan, H. Xue, Acta Biochimica et Biophysica Sinica 45 (2013) 549–560.","mla":"Tang, Yong, et al. “Arabidopsis Inositol 1,3,4-Trisphosphate 5/6 Kinase 2 Is Required for Seed Coat Development.” <i>Acta Biochimica et Biophysica Sinica</i>, vol. 45, no. 7, Oxford University Press, 2013, pp. 549–60, doi:<a href=\"https://doi.org/10.1093/abbs/gmt039\">10.1093/abbs/gmt039</a>."},"year":"2013","abstract":[{"text":"Inositol 1,3,4-trisphosphate 5/6 kinase (ITPK) phosphorylates inositol 1,3,4-trisphosphate to form inositol 1,3,4,5-tetrakisphosphate and inositol 1,3,4,6-tetrakisphosphate which can be finally transferred to inositol hexaphosphate (IP6) and play important roles during plant growth and development. There are 4 putative ITPK members in Arabidopsis. Expression pattern analysis showed that ITPK2 is constitutively expressed in various tissues. A T-DNA knockout mutant of ITPK2 was identified and scanning electron microscopy (SEM) analysis showed that the epidermis structure of seed coat was irregularly formed in seeds of itpk2-1 mutant, resulting in the increased permeability of seed coat to tetrazolium salts. Further analysis by gas chromatography coupled with mass spectrometry of lipid polyester monomers in cell wall confirmed a dramatic decrease in composition of suberin and cutin, which relate to the permeability of seed coat and the formation of which is accompanied with seed coat development. These results indicate that ITPK2 plays an essential role in seed coat development and lipid polyester barrier formation.","lang":"eng"}],"doi":"10.1093/abbs/gmt039","day":"01"},{"publisher":"American Society of Plant Biologists","article_type":"original","quality_controlled":"1","page":"2618-2632","date_created":"2020-03-21T16:06:55Z","article_processing_charge":"No","publication_status":"published","intvolume":"        25","title":"Arabidopsis casein kinase1 proteins CK1.3 and CK1.4 phosphorylate cryptochrome2 to regulate blue light signaling","_id":"7596","pmid":1,"issue":"7","author":[{"id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang","first_name":"Shutang","last_name":"Tan"},{"full_name":"Dai, C.","first_name":"C.","last_name":"Dai"},{"first_name":"H.-T.","last_name":"Liu","full_name":"Liu, H.-T."},{"last_name":"Xue","first_name":"H.-W.","full_name":"Xue, H.-W."}],"volume":25,"extern":"1","day":"26","doi":"10.1105/tpc.113.114322","abstract":[{"lang":"eng","text":"Casein kinase1 (CK1) plays crucial roles in regulating growth and development via phosphorylating various substrates throughout the eukaryote kingdom. Blue light is crucial for normal growth of both plants and animals, and blue light receptor cryptochrome2 (CRY2) undergoes blue light–dependent phosphorylation and degradation in planta. To study the function of plant CK1s, systematic genetic analysis showed that deficiency of two paralogous Arabidopsis thaliana CK1s, CK1.3 and CK1.4, caused shortened hypocotyls, especially under blue light, while overexpression of either CK1.3 or CK1.4 resulted in the insensitive response to blue light and delayed flowering under long-day conditions. CK1.3 or CK1.4 act dependently on CRY2, and overexpression of CK1.3 or CK1.4 significantly suppresses the hypersensitive response to blue light by CRY2 overexpression. Biochemical studies showed that CK1.3 and CK1.4 directly phosphorylate CRY2 at Ser-587 and Thr-603 in vitro and negatively regulate CRY2 stability in planta, which are stimulated by blue light, further confirming the crucial roles of CK1.3 and CK1.4 in blue light responses through phosphorylating CRY2. Interestingly, expression of CK1.3 and CK1.4 is stimulated by blue light and feedback regulated by CRY2-mediated signaling. These results provide direct evidence for CRY2 phosphorylation and informative clues on the mechanisms of CRY2-mediated light responses."}],"citation":{"apa":"Tan, S., Dai, C., Liu, H.-T., &#38; Xue, H.-W. (2013). Arabidopsis casein kinase1 proteins CK1.3 and CK1.4 phosphorylate cryptochrome2 to regulate blue light signaling. <i>The Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1105/tpc.113.114322\">https://doi.org/10.1105/tpc.113.114322</a>","ama":"Tan S, Dai C, Liu H-T, Xue H-W. Arabidopsis casein kinase1 proteins CK1.3 and CK1.4 phosphorylate cryptochrome2 to regulate blue light signaling. <i>The Plant Cell</i>. 2013;25(7):2618-2632. doi:<a href=\"https://doi.org/10.1105/tpc.113.114322\">10.1105/tpc.113.114322</a>","ieee":"S. Tan, C. Dai, H.-T. Liu, and H.-W. Xue, “Arabidopsis casein kinase1 proteins CK1.3 and CK1.4 phosphorylate cryptochrome2 to regulate blue light signaling,” <i>The Plant Cell</i>, vol. 25, no. 7. American Society of Plant Biologists, pp. 2618–2632, 2013.","chicago":"Tan, Shutang, C. Dai, H.-T. Liu, and H.-W. Xue. “Arabidopsis Casein Kinase1 Proteins CK1.3 and CK1.4 Phosphorylate Cryptochrome2 to Regulate Blue Light Signaling.” <i>The Plant Cell</i>. American Society of Plant Biologists, 2013. <a href=\"https://doi.org/10.1105/tpc.113.114322\">https://doi.org/10.1105/tpc.113.114322</a>.","mla":"Tan, Shutang, et al. “Arabidopsis Casein Kinase1 Proteins CK1.3 and CK1.4 Phosphorylate Cryptochrome2 to Regulate Blue Light Signaling.” <i>The Plant Cell</i>, vol. 25, no. 7, American Society of Plant Biologists, 2013, pp. 2618–32, doi:<a href=\"https://doi.org/10.1105/tpc.113.114322\">10.1105/tpc.113.114322</a>.","short":"S. Tan, C. Dai, H.-T. Liu, H.-W. Xue, The Plant Cell 25 (2013) 2618–2632.","ista":"Tan S, Dai C, Liu H-T, Xue H-W. 2013. Arabidopsis casein kinase1 proteins CK1.3 and CK1.4 phosphorylate cryptochrome2 to regulate blue light signaling. The Plant Cell. 25(7), 2618–2632."},"year":"2013","date_updated":"2021-01-12T08:14:24Z","external_id":{"pmid":["23897926"]},"language":[{"iso":"eng"}],"oa_version":"None","month":"08","publication":"The Plant Cell","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","publication_identifier":{"issn":["1040-4651","1532-298X"]},"type":"journal_article","date_published":"2013-08-26T00:00:00Z"}]