[{"department":[{"_id":"RoSe"}],"publist_id":"5599","year":"2015","month":"06","citation":{"ista":"Correggi M, Giuliani A, Seiringer R. 2015. Validity of the spin-wave approximation for the free energy of the Heisenberg ferromagnet. Communications in Mathematical Physics. 339(1), 279–307.","chicago":"Correggi, Michele, Alessandro Giuliani, and Robert Seiringer. “Validity of the Spin-Wave Approximation for the Free Energy of the Heisenberg Ferromagnet.” <i>Communications in Mathematical Physics</i>. Springer, 2015. <a href=\"https://doi.org/10.1007/s00220-015-2402-0\">https://doi.org/10.1007/s00220-015-2402-0</a>.","apa":"Correggi, M., Giuliani, A., &#38; Seiringer, R. (2015). Validity of the spin-wave approximation for the free energy of the Heisenberg ferromagnet. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-015-2402-0\">https://doi.org/10.1007/s00220-015-2402-0</a>","mla":"Correggi, Michele, et al. “Validity of the Spin-Wave Approximation for the Free Energy of the Heisenberg Ferromagnet.” <i>Communications in Mathematical Physics</i>, vol. 339, no. 1, Springer, 2015, pp. 279–307, doi:<a href=\"https://doi.org/10.1007/s00220-015-2402-0\">10.1007/s00220-015-2402-0</a>.","ama":"Correggi M, Giuliani A, Seiringer R. Validity of the spin-wave approximation for the free energy of the Heisenberg ferromagnet. <i>Communications in Mathematical Physics</i>. 2015;339(1):279-307. doi:<a href=\"https://doi.org/10.1007/s00220-015-2402-0\">10.1007/s00220-015-2402-0</a>","ieee":"M. Correggi, A. Giuliani, and R. Seiringer, “Validity of the spin-wave approximation for the free energy of the Heisenberg ferromagnet,” <i>Communications in Mathematical Physics</i>, vol. 339, no. 1. Springer, pp. 279–307, 2015.","short":"M. Correggi, A. Giuliani, R. Seiringer, Communications in Mathematical Physics 339 (2015) 279–307."},"issue":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2015-06-23T00:00:00Z","oa":1,"status":"public","language":[{"iso":"eng"}],"publication":"Communications in Mathematical Physics","volume":339,"_id":"1572","date_updated":"2021-01-12T06:51:41Z","date_created":"2018-12-11T11:52:47Z","type":"journal_article","scopus_import":1,"day":"23","doi":"10.1007/s00220-015-2402-0","author":[{"last_name":"Correggi","full_name":"Correggi, Michele","first_name":"Michele"},{"full_name":"Giuliani, Alessandro","last_name":"Giuliani","first_name":"Alessandro"},{"full_name":"Seiringer, Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521"}],"publisher":"Springer","title":"Validity of the spin-wave approximation for the free energy of the Heisenberg ferromagnet","oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1312.7873"}],"publication_status":"published","quality_controlled":"1","page":"279 - 307","intvolume":"       339","abstract":[{"text":"We consider the quantum ferromagnetic Heisenberg model in three dimensions, for all spins S ≥ 1/2. We rigorously prove the validity of the spin-wave approximation for the excitation spectrum, at the level of the first non-trivial contribution to the free energy at low temperatures. Our proof comes with explicit, constructive upper and lower bounds on the error term. It uses in an essential way the bosonic formulation of the model in terms of the Holstein-Primakoff representation. In this language, the model describes interacting bosons with a hard-core on-site repulsion and a nearest-neighbor attraction. This attractive interaction makes the lower bound on the free energy particularly tricky: the key idea there is to prove a differential inequality for the two-particle density, which is thereby shown to be smaller than the probability density of a suitably weighted two-particle random process on the lattice.\r\n","lang":"eng"}]},{"publist_id":"5598","year":"2015","date_published":"2015-10-01T00:00:00Z","project":[{"_id":"26450934-B435-11E9-9278-68D0E5697425","name":"NSERC Postdoctoral fellowship"}],"status":"public","publication":"Communications on Pure and Applied Mathematics","type":"journal_article","date_updated":"2021-01-12T06:51:41Z","_id":"1573","publisher":"Wiley","doi":"10.1002/cpa.21552","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1307.3168"}],"page":"1845 - 1884","department":[{"_id":"RoSe"}],"month":"10","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"10","citation":{"mla":"Chen, Thomas, et al. “Unconditional Uniqueness for the Cubic Gross Pitaevskii Hierarchy via Quantum de Finetti.” <i>Communications on Pure and Applied Mathematics</i>, vol. 68, no. 10, Wiley, 2015, pp. 1845–84, doi:<a href=\"https://doi.org/10.1002/cpa.21552\">10.1002/cpa.21552</a>.","apa":"Chen, T., Hainzl, C., Pavlović, N., &#38; Seiringer, R. (2015). Unconditional uniqueness for the cubic gross pitaevskii hierarchy via quantum de finetti. <i>Communications on Pure and Applied Mathematics</i>. Wiley. <a href=\"https://doi.org/10.1002/cpa.21552\">https://doi.org/10.1002/cpa.21552</a>","ista":"Chen T, Hainzl C, Pavlović N, Seiringer R. 2015. Unconditional uniqueness for the cubic gross pitaevskii hierarchy via quantum de finetti. Communications on Pure and Applied Mathematics. 68(10), 1845–1884.","chicago":"Chen, Thomas, Christian Hainzl, Nataša Pavlović, and Robert Seiringer. “Unconditional Uniqueness for the Cubic Gross Pitaevskii Hierarchy via Quantum de Finetti.” <i>Communications on Pure and Applied Mathematics</i>. Wiley, 2015. <a href=\"https://doi.org/10.1002/cpa.21552\">https://doi.org/10.1002/cpa.21552</a>.","short":"T. Chen, C. Hainzl, N. Pavlović, R. Seiringer, Communications on Pure and Applied Mathematics 68 (2015) 1845–1884.","ieee":"T. Chen, C. Hainzl, N. Pavlović, and R. Seiringer, “Unconditional uniqueness for the cubic gross pitaevskii hierarchy via quantum de finetti,” <i>Communications on Pure and Applied Mathematics</i>, vol. 68, no. 10. Wiley, pp. 1845–1884, 2015.","ama":"Chen T, Hainzl C, Pavlović N, Seiringer R. Unconditional uniqueness for the cubic gross pitaevskii hierarchy via quantum de finetti. <i>Communications on Pure and Applied Mathematics</i>. 2015;68(10):1845-1884. doi:<a href=\"https://doi.org/10.1002/cpa.21552\">10.1002/cpa.21552</a>"},"language":[{"iso":"eng"}],"oa":1,"date_created":"2018-12-11T11:52:48Z","volume":68,"title":"Unconditional uniqueness for the cubic gross pitaevskii hierarchy via quantum de finetti","oa_version":"Preprint","author":[{"first_name":"Thomas","full_name":"Chen, Thomas","last_name":"Chen"},{"last_name":"Hainzl","full_name":"Hainzl, Christian","first_name":"Christian"},{"first_name":"Nataša","last_name":"Pavlović","full_name":"Pavlović, Nataša"},{"orcid":"0000-0002-6781-0521","first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","full_name":"Seiringer, Robert"}],"day":"01","scopus_import":1,"publication_status":"published","abstract":[{"text":"We present a new, simpler proof of the unconditional uniqueness of solutions to the cubic Gross-Pitaevskii hierarchy in ℝ3. One of the main tools in our analysis is the quantum de Finetti theorem. Our uniqueness result is equivalent to the one established in the celebrated works of Erdos, Schlein, and Yau.","lang":"eng"}],"intvolume":"        68"},{"file_date_updated":"2020-07-14T12:45:02Z","publication_status":"published","has_accepted_license":"1","intvolume":"         6","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"lang":"eng","text":"Multiple plant developmental processes, such as lateral root development, depend on auxin distribution patterns that are in part generated by the PIN-formed family of auxin-efflux transporters. Here we propose that AUXIN RESPONSE FACTOR7 (ARF7) and the ARF7-regulated FOUR LIPS/MYB124 (FLP) transcription factors jointly form a coherent feed-forward motif that mediates the auxin-responsive PIN3 transcription in planta to steer the early steps of lateral root formation. This regulatory mechanism might endow the PIN3 circuitry with a temporal 'memory' of auxin stimuli, potentially maintaining and enhancing the robustness of the auxin flux directionality during lateral root development. The cooperative action between canonical auxin signalling and other transcription factors might constitute a general mechanism by which transcriptional auxin-sensitivity can be regulated at a tissue-specific level."}],"volume":6,"date_created":"2018-12-11T11:52:48Z","scopus_import":1,"day":"18","author":[{"full_name":"Chen, Qian","last_name":"Chen","first_name":"Qian"},{"last_name":"Liu","full_name":"Liu, Yang","first_name":"Yang"},{"first_name":"Steven","full_name":"Maere, Steven","last_name":"Maere"},{"first_name":"Eunkyoung","last_name":"Lee","full_name":"Lee, Eunkyoung"},{"first_name":"Gert","full_name":"Van Isterdael, Gert","last_name":"Van Isterdael"},{"full_name":"Xie, Zidian","last_name":"Xie","first_name":"Zidian"},{"first_name":"Wei","full_name":"Xuan, Wei","last_name":"Xuan"},{"first_name":"Jessica","full_name":"Lucas, Jessica","last_name":"Lucas"},{"full_name":"Vassileva, Valya","last_name":"Vassileva","first_name":"Valya"},{"first_name":"Saeko","last_name":"Kitakura","full_name":"Kitakura, Saeko"},{"id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavy, Peter","last_name":"Marhavy","orcid":"0000-0001-5227-5741","first_name":"Peter"},{"first_name":"Krzysztof T","orcid":"0000-0001-7263-0560","full_name":"Wabnik, Krzysztof T","id":"4DE369A4-F248-11E8-B48F-1D18A9856A87","last_name":"Wabnik"},{"first_name":"Niko","last_name":"Geldner","full_name":"Geldner, Niko"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva","orcid":"0000-0002-8510-9739"},{"first_name":"Jie","full_name":"Le, Jie","last_name":"Le"},{"first_name":"Hidehiro","full_name":"Fukaki, Hidehiro","last_name":"Fukaki"},{"last_name":"Grotewold","full_name":"Grotewold, Erich","first_name":"Erich"},{"last_name":"Li","full_name":"Li, Chuanyou","first_name":"Chuanyou"},{"last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596"},{"full_name":"Sack, Fred","last_name":"Sack","first_name":"Fred"},{"last_name":"Beeckman","full_name":"Beeckman, Tom","first_name":"Tom"},{"first_name":"Steffen","full_name":"Vanneste, Steffen","last_name":"Vanneste"}],"oa_version":"Published Version","title":"A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development","citation":{"chicago":"Chen, Qian, Yang Liu, Steven Maere, Eunkyoung Lee, Gert Van Isterdael, Zidian Xie, Wei Xuan, et al. “A Coherent Transcriptional Feed-Forward Motif Model for Mediating Auxin-Sensitive PIN3 Expression during Lateral Root Development.” <i>Nature Communications</i>. Nature Publishing Group, 2015. <a href=\"https://doi.org/10.1038/ncomms9821\">https://doi.org/10.1038/ncomms9821</a>.","ista":"Chen Q, Liu Y, Maere S, Lee E, Van Isterdael G, Xie Z, Xuan W, Lucas J, Vassileva V, Kitakura S, Marhavý P, Wabnik KT, Geldner N, Benková E, Le J, Fukaki H, Grotewold E, Li C, Friml J, Sack F, Beeckman T, Vanneste S. 2015. A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development. Nature Communications. 6, 8821.","apa":"Chen, Q., Liu, Y., Maere, S., Lee, E., Van Isterdael, G., Xie, Z., … Vanneste, S. (2015). A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncomms9821\">https://doi.org/10.1038/ncomms9821</a>","mla":"Chen, Qian, et al. “A Coherent Transcriptional Feed-Forward Motif Model for Mediating Auxin-Sensitive PIN3 Expression during Lateral Root Development.” <i>Nature Communications</i>, vol. 6, 8821, Nature Publishing Group, 2015, doi:<a href=\"https://doi.org/10.1038/ncomms9821\">10.1038/ncomms9821</a>.","ama":"Chen Q, Liu Y, Maere S, et al. A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development. <i>Nature Communications</i>. 2015;6. doi:<a href=\"https://doi.org/10.1038/ncomms9821\">10.1038/ncomms9821</a>","ieee":"Q. Chen <i>et al.</i>, “A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development,” <i>Nature Communications</i>, vol. 6. Nature Publishing Group, 2015.","short":"Q. Chen, Y. Liu, S. Maere, E. Lee, G. Van Isterdael, Z. Xie, W. Xuan, J. Lucas, V. Vassileva, S. Kitakura, P. Marhavý, K.T. Wabnik, N. Geldner, E. Benková, J. Le, H. Fukaki, E. Grotewold, C. Li, J. Friml, F. Sack, T. Beeckman, S. Vanneste, Nature Communications 6 (2015)."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"pubrep_id":"477","language":[{"iso":"eng"}],"department":[{"_id":"EvBe"},{"_id":"JiFr"}],"file":[{"file_name":"IST-2016-477-v1+1_ncomms9821.pdf","content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"8ff5c108899b548806e1cb7a302fe76d","date_created":"2018-12-12T10:14:32Z","file_size":1701815,"date_updated":"2020-07-14T12:45:02Z","creator":"system","file_id":"5085"}],"article_number":"8821","month":"11","quality_controlled":"1","ddc":["580"],"_id":"1574","date_updated":"2021-01-12T06:51:42Z","type":"journal_article","doi":"10.1038/ncomms9821","publisher":"Nature Publishing Group","acknowledgement":"of the European Research Council (project ERC-2011-StG-20101109-PSDP) (to J.F.), a FEBS long-term fellowship (to P.M.) ","date_published":"2015-11-18T00:00:00Z","publication":"Nature Communications","status":"public","publist_id":"5597","year":"2015"},{"ddc":["570"],"quality_controlled":"1","doi":"10.1038/ncomms8526","publisher":"Nature Publishing Group","date_updated":"2021-01-12T06:51:42Z","_id":"1575","type":"journal_article","publication":"Nature Communications","status":"public","acknowledgement":"M.C. and M.L.H. were supported by fellowships from the Fondation pour la Recherche Médicale and the Association pour la Recherche contre le Cancer, respectively. This work was funded by grants from the City of Paris and the European Research Council to A.-M.L.-D. (Strapacemi 243103), the Association Nationale pour la Recherche (ANR-09-PIRI-0027-PCVI) and the InnaBiosanté foundation (Micemico) to A.-M.L.-D., M.P. and R.V., and the DCBIOL Labex from the French Government (ANR-10-IDEX-0001-02-PSL* and ANR-11-LABX-0043). The super-resolution SIM microscope was funded through an ERC Advanced Investigator Grant (250367) to Edith Heard (CNRS UMR3215/Inserm U934, Institut Curie).","date_published":"2015-06-25T00:00:00Z","year":"2015","publist_id":"5596","has_accepted_license":"1","intvolume":"         6","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"text":"The immune response relies on the migration of leukocytes and on their ability to stop in precise anatomical locations to fulfil their task. How leukocyte migration and function are coordinated is unknown. Here we show that in immature dendritic cells, which patrol their environment by engulfing extracellular material, cell migration and antigen capture are antagonistic. This antagonism results from transient enrichment of myosin IIA at the cell front, which disrupts the back-to-front gradient of the motor protein, slowing down locomotion but promoting antigen capture. We further highlight that myosin IIA enrichment at the cell front requires the MHC class II-associated invariant chain (Ii). Thus, by controlling myosin IIA localization, Ii imposes on dendritic cells an intermittent antigen capture behaviour that might facilitate environment patrolling. We propose that the requirement for myosin II in both cell migration and specific cell functions may provide a general mechanism for their coordination in time and space.","lang":"eng"}],"publication_status":"published","file_date_updated":"2020-07-14T12:45:02Z","author":[{"first_name":"Mélanie","full_name":"Chabaud, Mélanie","last_name":"Chabaud"},{"last_name":"Heuzé","full_name":"Heuzé, Mélina","first_name":"Mélina"},{"last_name":"Bretou","full_name":"Bretou, Marine","first_name":"Marine"},{"first_name":"Pablo","full_name":"Vargas, Pablo","last_name":"Vargas"},{"last_name":"Maiuri","full_name":"Maiuri, Paolo","first_name":"Paolo"},{"first_name":"Paola","full_name":"Solanes, Paola","last_name":"Solanes"},{"full_name":"Maurin, Mathieu","last_name":"Maurin","first_name":"Mathieu"},{"full_name":"Terriac, Emmanuel","last_name":"Terriac","first_name":"Emmanuel"},{"first_name":"Maël","full_name":"Le Berre, Maël","last_name":"Le Berre"},{"first_name":"Danielle","last_name":"Lankar","full_name":"Lankar, Danielle"},{"first_name":"Tristan","full_name":"Piolot, Tristan","last_name":"Piolot"},{"full_name":"Adelstein, Robert","last_name":"Adelstein","first_name":"Robert"},{"last_name":"Zhang","full_name":"Zhang, Yingfan","first_name":"Yingfan"},{"orcid":"0000-0002-6620-9179","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","full_name":"Sixt, Michael K","last_name":"Sixt"},{"last_name":"Jacobelli","full_name":"Jacobelli, Jordan","first_name":"Jordan"},{"first_name":"Olivier","full_name":"Bénichou, Olivier","last_name":"Bénichou"},{"first_name":"Raphaël","last_name":"Voituriez","full_name":"Voituriez, Raphaël"},{"first_name":"Matthieu","full_name":"Piel, Matthieu","last_name":"Piel"},{"last_name":"Lennon Duménil","full_name":"Lennon Duménil, Ana","first_name":"Ana"}],"scopus_import":1,"day":"25","title":"Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells","oa_version":"Published Version","volume":6,"date_created":"2018-12-11T11:52:48Z","oa":1,"language":[{"iso":"eng"}],"pubrep_id":"476","citation":{"short":"M. Chabaud, M. Heuzé, M. Bretou, P. Vargas, P. Maiuri, P. Solanes, M. Maurin, E. Terriac, M. Le Berre, D. Lankar, T. Piolot, R. Adelstein, Y. Zhang, M.K. Sixt, J. Jacobelli, O. Bénichou, R. Voituriez, M. Piel, A. Lennon Duménil, Nature Communications 6 (2015).","ieee":"M. Chabaud <i>et al.</i>, “Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells,” <i>Nature Communications</i>, vol. 6. Nature Publishing Group, 2015.","ama":"Chabaud M, Heuzé M, Bretou M, et al. Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells. <i>Nature Communications</i>. 2015;6. doi:<a href=\"https://doi.org/10.1038/ncomms8526\">10.1038/ncomms8526</a>","mla":"Chabaud, Mélanie, et al. “Cell Migration and Antigen Capture Are Antagonistic Processes Coupled by Myosin II in Dendritic Cells.” <i>Nature Communications</i>, vol. 6, 7526, Nature Publishing Group, 2015, doi:<a href=\"https://doi.org/10.1038/ncomms8526\">10.1038/ncomms8526</a>.","apa":"Chabaud, M., Heuzé, M., Bretou, M., Vargas, P., Maiuri, P., Solanes, P., … Lennon Duménil, A. (2015). Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncomms8526\">https://doi.org/10.1038/ncomms8526</a>","ista":"Chabaud M, Heuzé M, Bretou M, Vargas P, Maiuri P, Solanes P, Maurin M, Terriac E, Le Berre M, Lankar D, Piolot T, Adelstein R, Zhang Y, Sixt MK, Jacobelli J, Bénichou O, Voituriez R, Piel M, Lennon Duménil A. 2015. Cell migration and antigen capture are antagonistic processes coupled by myosin II in dendritic cells. Nature Communications. 6, 7526.","chicago":"Chabaud, Mélanie, Mélina Heuzé, Marine Bretou, Pablo Vargas, Paolo Maiuri, Paola Solanes, Mathieu Maurin, et al. “Cell Migration and Antigen Capture Are Antagonistic Processes Coupled by Myosin II in Dendritic Cells.” <i>Nature Communications</i>. Nature Publishing Group, 2015. <a href=\"https://doi.org/10.1038/ncomms8526\">https://doi.org/10.1038/ncomms8526</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"06","department":[{"_id":"MiSi"}],"article_number":"7526","file":[{"checksum":"bae12e86be2adb28253f890b8bba8315","relation":"main_file","content_type":"application/pdf","access_level":"open_access","file_name":"IST-2016-476-v1+1_ncomms8526.pdf","file_id":"4915","date_updated":"2020-07-14T12:45:02Z","creator":"system","file_size":4530215,"date_created":"2018-12-12T10:11:58Z"}]},{"month":"12","department":[{"_id":"GaTk"}],"article_number":"248101","oa":1,"language":[{"iso":"eng"}],"citation":{"short":"S.A. Cepeda Humerez, G. Rieckh, G. Tkačik, Physical Review Letters 115 (2015).","ieee":"S. A. Cepeda Humerez, G. Rieckh, and G. Tkačik, “Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation,” <i>Physical Review Letters</i>, vol. 115, no. 24. American Physical Society, 2015.","ama":"Cepeda Humerez SA, Rieckh G, Tkačik G. Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. <i>Physical Review Letters</i>. 2015;115(24). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.115.248101\">10.1103/PhysRevLett.115.248101</a>","mla":"Cepeda Humerez, Sarah A., et al. “Stochastic Proofreading Mechanism Alleviates Crosstalk in Transcriptional Regulation.” <i>Physical Review Letters</i>, vol. 115, no. 24, 248101, American Physical Society, 2015, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.115.248101\">10.1103/PhysRevLett.115.248101</a>.","apa":"Cepeda Humerez, S. A., Rieckh, G., &#38; Tkačik, G. (2015). Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.115.248101\">https://doi.org/10.1103/PhysRevLett.115.248101</a>","chicago":"Cepeda Humerez, Sarah A, Georg Rieckh, and Gašper Tkačik. “Stochastic Proofreading Mechanism Alleviates Crosstalk in Transcriptional Regulation.” <i>Physical Review Letters</i>. American Physical Society, 2015. <a href=\"https://doi.org/10.1103/PhysRevLett.115.248101\">https://doi.org/10.1103/PhysRevLett.115.248101</a>.","ista":"Cepeda Humerez SA, Rieckh G, Tkačik G. 2015. Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. Physical Review Letters. 115(24), 248101."},"issue":"24","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1,"day":"08","author":[{"last_name":"Cepeda Humerez","full_name":"Cepeda Humerez, Sarah A","id":"3DEE19A4-F248-11E8-B48F-1D18A9856A87","first_name":"Sarah A"},{"first_name":"Georg","id":"34DA8BD6-F248-11E8-B48F-1D18A9856A87","full_name":"Rieckh, Georg","last_name":"Rieckh"},{"last_name":"Tkacik","full_name":"Tkacik, Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","first_name":"Gasper"}],"oa_version":"Preprint","title":"Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation","volume":115,"date_created":"2018-12-11T11:52:49Z","intvolume":"       115","abstract":[{"lang":"eng","text":"Gene expression is controlled primarily by interactions between transcription factor proteins (TFs) and the regulatory DNA sequence, a process that can be captured well by thermodynamic models of regulation. These models, however, neglect regulatory crosstalk: the possibility that noncognate TFs could initiate transcription, with potentially disastrous effects for the cell. Here, we estimate the importance of crosstalk, suggest that its avoidance strongly constrains equilibrium models of TF binding, and propose an alternative nonequilibrium scheme that implements kinetic proofreading to suppress erroneous initiation. This proposal is consistent with the observed covalent modifications of the transcriptional apparatus and predicts increased noise in gene expression as a trade-off for improved specificity. Using information theory, we quantify this trade-off to find when optimal proofreading architectures are favored over their equilibrium counterparts. Such architectures exhibit significant super-Poisson noise at low expression in steady state."}],"publication_status":"published","year":"2015","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"6473"}]},"publist_id":"5595","publication":"Physical Review Letters","status":"public","project":[{"name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","call_identifier":"FP7","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"ec_funded":1,"date_published":"2015-12-08T00:00:00Z","doi":"10.1103/PhysRevLett.115.248101","publisher":"American Physical Society","_id":"1576","date_updated":"2023-09-07T12:55:21Z","type":"journal_article","main_file_link":[{"url":"http://arxiv.org/abs/1504.05716","open_access":"1"}],"quality_controlled":"1"},{"page":"12450 - 12455","quality_controlled":"1","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4603513/","open_access":"1"}],"publisher":"National Academy of Sciences","article_processing_charge":"No","doi":"10.1073/pnas.1516543112","type":"journal_article","_id":"1577","date_updated":"2021-01-12T06:51:43Z","status":"public","publication":"PNAS","date_published":"2015-10-06T00:00:00Z","acknowledgement":"This work was supported by grants from Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), FAPERJ, and CAPES (to A.B.C.), and National Institutes of Health Grant R01 GM64590 (to A.G.C. and A.B.C.).\r\nWe thank M. Vibranovski, C. Bergman, and the Berkeley Drosophila Genome Project for access to unpublished data; M. Vibranovski, R. Hoskins, S. Celniker, C. Kennedy, J. Carlson, S. Galasinski, B. Wakimoto, J. Yasuhara, G. Sutton, M. Kuhner, J. Felsenstein, and C. Santos for help in various steps of the work; and B. Bitner-Mathe, R. Ventura, the members of the A.B.C. and A.G.C. laboratories, and two reviewers for many valuable comments on the manuscript.","pmid":1,"external_id":{"pmid":["26385968"]},"year":"2015","publist_id":"5594","abstract":[{"text":"Contrary to the pattern seen in mammalian sex chromosomes, where most Y-linked genes have X-linked homologs, the Drosophila X and Y chromosomes appear to be unrelated. Most of the Y-linked genes have autosomal paralogs, so autosome-to-Y transposition must be the main source of Drosophila Y-linked genes. Here we show how these genes were acquired. We found a previously unidentified gene (flagrante delicto Y, FDY) that originated from a recent duplication of the autosomal gene vig2 to the Y chromosome of Drosophila melanogaster. Four contiguous genes were duplicated along with vig2, but they became pseudogenes through the accumulation of deletions and transposable element insertions, whereas FDY remained functional, acquired testis-specific expression, and now accounts for ∼20% of the vig2-like mRNA in testis. FDY is absent in the closest relatives of D. melanogaster, and DNA sequence divergence indicates that the duplication to the Y chromosome occurred ∼2 million years ago. Thus, FDY provides a snapshot of the early stages of the establishment of a Y-linked gene and demonstrates how the Drosophila Y has been accumulating autosomal genes.","lang":"eng"}],"intvolume":"       112","publication_status":"published","oa_version":"Published Version","title":"Birth of a new gene on the Y chromosome of Drosophila melanogaster","day":"06","scopus_import":1,"author":[{"full_name":"Carvalho, Antonio","last_name":"Carvalho","first_name":"Antonio"},{"last_name":"Vicoso","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","orcid":"0000-0002-4579-8306"},{"last_name":"Russo","full_name":"Russo, Claudia","first_name":"Claudia"},{"full_name":"Swenor, Bonnielin","last_name":"Swenor","first_name":"Bonnielin"},{"last_name":"Clark","full_name":"Clark, Andrew","first_name":"Andrew"}],"date_created":"2018-12-11T11:52:49Z","article_type":"original","volume":112,"language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Carvalho, Antonio, Beatriz Vicoso, Claudia Russo, Bonnielin Swenor, and Andrew Clark. “Birth of a New Gene on the Y Chromosome of Drosophila Melanogaster.” <i>PNAS</i>. National Academy of Sciences, 2015. <a href=\"https://doi.org/10.1073/pnas.1516543112\">https://doi.org/10.1073/pnas.1516543112</a>.","ista":"Carvalho A, Vicoso B, Russo C, Swenor B, Clark A. 2015. Birth of a new gene on the Y chromosome of Drosophila melanogaster. PNAS. 112(40), 12450–12455.","apa":"Carvalho, A., Vicoso, B., Russo, C., Swenor, B., &#38; Clark, A. (2015). Birth of a new gene on the Y chromosome of Drosophila melanogaster. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1516543112\">https://doi.org/10.1073/pnas.1516543112</a>","mla":"Carvalho, Antonio, et al. “Birth of a New Gene on the Y Chromosome of Drosophila Melanogaster.” <i>PNAS</i>, vol. 112, no. 40, National Academy of Sciences, 2015, pp. 12450–55, doi:<a href=\"https://doi.org/10.1073/pnas.1516543112\">10.1073/pnas.1516543112</a>.","ama":"Carvalho A, Vicoso B, Russo C, Swenor B, Clark A. Birth of a new gene on the Y chromosome of Drosophila melanogaster. <i>PNAS</i>. 2015;112(40):12450-12455. doi:<a href=\"https://doi.org/10.1073/pnas.1516543112\">10.1073/pnas.1516543112</a>","ieee":"A. Carvalho, B. Vicoso, C. Russo, B. Swenor, and A. Clark, “Birth of a new gene on the Y chromosome of Drosophila melanogaster,” <i>PNAS</i>, vol. 112, no. 40. National Academy of Sciences, pp. 12450–12455, 2015.","short":"A. Carvalho, B. Vicoso, C. Russo, B. Swenor, A. Clark, PNAS 112 (2015) 12450–12455."},"issue":"40","month":"10","department":[{"_id":"BeVi"}]},{"publisher":"Elsevier","oa_version":"None","title":"Triangulations from topologically correct digital Voronoi diagrams","doi":"10.1016/j.comgeo.2015.04.001","author":[{"full_name":"Cao, Thanhtung","last_name":"Cao","first_name":"Thanhtung"},{"orcid":"0000-0002-9823-6833","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","full_name":"Edelsbrunner, Herbert","last_name":"Edelsbrunner"},{"last_name":"Tan","full_name":"Tan, Tiowseng","first_name":"Tiowseng"}],"scopus_import":1,"day":"01","type":"journal_article","date_created":"2018-12-11T11:52:49Z","date_updated":"2021-01-12T06:51:43Z","_id":"1578","volume":48,"intvolume":"        48","abstract":[{"lang":"eng","text":"We prove that the dual of the digital Voronoi diagram constructed by flooding the plane from the data points gives a geometrically and topologically correct dual triangulation. This provides the proof of correctness for recently developed GPU algorithms that outperform traditional CPU algorithms for constructing two-dimensional Delaunay triangulations."}],"page":"507 - 519","quality_controlled":"1","publication_status":"published","month":"08","year":"2015","publist_id":"5593","department":[{"_id":"HeEd"}],"publication":"Computational Geometry","language":[{"iso":"eng"}],"status":"public","date_published":"2015-08-01T00:00:00Z","acknowledgement":"The research of the second author is partially supported by NSF under grant DBI-0820624 and by DARPA under grants HR011-05-1-0057 and HR0011-09-006\r\n","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"7","citation":{"chicago":"Cao, Thanhtung, Herbert Edelsbrunner, and Tiowseng Tan. “Triangulations from Topologically Correct Digital Voronoi Diagrams.” <i>Computational Geometry</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.comgeo.2015.04.001\">https://doi.org/10.1016/j.comgeo.2015.04.001</a>.","ista":"Cao T, Edelsbrunner H, Tan T. 2015. Triangulations from topologically correct digital Voronoi diagrams. Computational Geometry. 48(7), 507–519.","mla":"Cao, Thanhtung, et al. “Triangulations from Topologically Correct Digital Voronoi Diagrams.” <i>Computational Geometry</i>, vol. 48, no. 7, Elsevier, 2015, pp. 507–19, doi:<a href=\"https://doi.org/10.1016/j.comgeo.2015.04.001\">10.1016/j.comgeo.2015.04.001</a>.","apa":"Cao, T., Edelsbrunner, H., &#38; Tan, T. (2015). Triangulations from topologically correct digital Voronoi diagrams. <i>Computational Geometry</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.comgeo.2015.04.001\">https://doi.org/10.1016/j.comgeo.2015.04.001</a>","ama":"Cao T, Edelsbrunner H, Tan T. Triangulations from topologically correct digital Voronoi diagrams. <i>Computational Geometry</i>. 2015;48(7):507-519. doi:<a href=\"https://doi.org/10.1016/j.comgeo.2015.04.001\">10.1016/j.comgeo.2015.04.001</a>","short":"T. Cao, H. Edelsbrunner, T. Tan, Computational Geometry 48 (2015) 507–519.","ieee":"T. Cao, H. Edelsbrunner, and T. Tan, “Triangulations from topologically correct digital Voronoi diagrams,” <i>Computational Geometry</i>, vol. 48, no. 7. Elsevier, pp. 507–519, 2015."}},{"intvolume":"       367","abstract":[{"lang":"eng","text":"We show that the Galois group of any Schubert problem involving lines in projective space contains the alternating group. This constitutes the largest family of enumerative problems whose Galois groups have been largely determined. Using a criterion of Vakil and a special position argument due to Schubert, our result follows from a particular inequality among Kostka numbers of two-rowed tableaux. In most cases, a combinatorial injection proves the inequality. For the remaining cases, we use the Weyl integral formulas to obtain an integral formula for these Kostka numbers. This rewrites the inequality as an integral, which we estimate to establish the inequality."}],"publication_status":"published","oa_version":"Preprint","title":"Galois groups of Schubert problems of lines are at least alternating","scopus_import":1,"day":"01","author":[{"full_name":"Brooks, Christopher","last_name":"Brooks","first_name":"Christopher"},{"last_name":"Martin Del Campo Sanchez","id":"4CF47F6A-F248-11E8-B48F-1D18A9856A87","full_name":"Martin Del Campo Sanchez, Abraham","first_name":"Abraham"},{"first_name":"Frank","last_name":"Sottile","full_name":"Sottile, Frank"}],"date_created":"2018-12-11T11:52:50Z","volume":367,"language":[{"iso":"eng"}],"oa":1,"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Brooks, Christopher, Abraham Martin del Campo Sanchez, and Frank Sottile. “Galois Groups of Schubert Problems of Lines Are at Least Alternating.” <i>Transactions of the American Mathematical Society</i>. American Mathematical Society, 2015. <a href=\"https://doi.org/10.1090/S0002-9947-2014-06192-8\">https://doi.org/10.1090/S0002-9947-2014-06192-8</a>.","ista":"Brooks C, Martin del Campo Sanchez A, Sottile F. 2015. Galois groups of Schubert problems of lines are at least alternating. Transactions of the American Mathematical Society. 367(6), 4183–4206.","mla":"Brooks, Christopher, et al. “Galois Groups of Schubert Problems of Lines Are at Least Alternating.” <i>Transactions of the American Mathematical Society</i>, vol. 367, no. 6, American Mathematical Society, 2015, pp. 4183–206, doi:<a href=\"https://doi.org/10.1090/S0002-9947-2014-06192-8\">10.1090/S0002-9947-2014-06192-8</a>.","apa":"Brooks, C., Martin del Campo Sanchez, A., &#38; Sottile, F. (2015). Galois groups of Schubert problems of lines are at least alternating. <i>Transactions of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/S0002-9947-2014-06192-8\">https://doi.org/10.1090/S0002-9947-2014-06192-8</a>","ama":"Brooks C, Martin del Campo Sanchez A, Sottile F. Galois groups of Schubert problems of lines are at least alternating. <i>Transactions of the American Mathematical Society</i>. 2015;367(6):4183-4206. doi:<a href=\"https://doi.org/10.1090/S0002-9947-2014-06192-8\">10.1090/S0002-9947-2014-06192-8</a>","short":"C. Brooks, A. Martin del Campo Sanchez, F. Sottile, Transactions of the American Mathematical Society 367 (2015) 4183–4206.","ieee":"C. Brooks, A. Martin del Campo Sanchez, and F. Sottile, “Galois groups of Schubert problems of lines are at least alternating,” <i>Transactions of the American Mathematical Society</i>, vol. 367, no. 6. American Mathematical Society, pp. 4183–4206, 2015."},"issue":"6","month":"06","department":[{"_id":"CaUh"}],"page":"4183 - 4206","quality_controlled":"1","main_file_link":[{"url":"http://arxiv.org/abs/1207.4280","open_access":"1"}],"publisher":"American Mathematical Society","article_processing_charge":"No","doi":"10.1090/S0002-9947-2014-06192-8","type":"journal_article","_id":"1579","date_updated":"2021-01-12T06:51:43Z","publication":"Transactions of the American Mathematical Society","status":"public","date_published":"2015-06-01T00:00:00Z","acknowledgement":"This research was supported in part by NSF grant DMS-915211 and the Institut Mittag-Leffler.\r\n","year":"2015","publist_id":"5592"},{"oa_version":"Submitted Version","title":"Knock-down of synapsin alters cell excitability and action potential waveform by potentiating BK and voltage gated Ca2 currents in Helix serotonergic neurons","scopus_import":1,"day":"17","author":[{"last_name":"Brenes","full_name":"Brenes, Oscar","first_name":"Oscar"},{"last_name":"Vandael","id":"3AE48E0A-F248-11E8-B48F-1D18A9856A87","full_name":"Vandael, David H","orcid":"0000-0001-7577-1676","first_name":"David H"},{"first_name":"Emilio","last_name":"Carbone","full_name":"Carbone, Emilio"},{"first_name":"Pier","last_name":"Montarolo","full_name":"Montarolo, Pier"},{"first_name":"Mirella","full_name":"Ghirardi, Mirella","last_name":"Ghirardi"}],"date_created":"2018-12-11T11:52:50Z","article_type":"original","volume":311,"tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"intvolume":"       311","abstract":[{"lang":"eng","text":"Synapsins (Syns) are an evolutionarily conserved family of presynaptic proteins crucial for the fine-tuning of synaptic function. A large amount of experimental evidences has shown that Syns are involved in the development of epileptic phenotypes and several mutations in Syn genes have been associated with epilepsy in humans and animal models. Syn mutations induce alterations in circuitry and neurotransmitter release, differentially affecting excitatory and inhibitory synapses, thus causing an excitation/inhibition imbalance in network excitability toward hyperexcitability that may be a determinant with regard to the development of epilepsy. Another approach to investigate epileptogenic mechanisms is to understand how silencing Syn affects the cellular behavior of single neurons and is associated with the hyperexcitable phenotypes observed in epilepsy. Here, we examined the functional effects of antisense-RNA inhibition of Syn expression on individually identified and isolated serotonergic cells of the Helix land snail. We found that Helix synapsin silencing increases cell excitability characterized by a slightly depolarized resting membrane potential, decreases the rheobase, reduces the threshold for action potential (AP) firing and increases the mean and instantaneous firing rates, with respect to control cells. The observed increase of Ca2+ and BK currents in Syn-silenced cells seems to be related to changes in the shape of the AP waveform. These currents sustain the faster spiking in Syn-deficient cells by increasing the after hyperpolarization and limiting the Na+ and Ca2+ channel inactivation during repetitive firing. This in turn speeds up the depolarization phase by reaching the AP threshold faster. Our results provide evidence that Syn silencing increases intrinsic cell excitability associated with increased Ca2+ and Ca2+-dependent BK currents in the absence of excitatory or inhibitory inputs."}],"has_accepted_license":"1","file_date_updated":"2020-07-14T12:45:02Z","publication_status":"published","month":"12","file":[{"file_id":"7849","file_size":5563015,"date_created":"2020-05-15T06:50:20Z","creator":"dernst","date_updated":"2020-07-14T12:45:02Z","relation":"main_file","checksum":"af2c4c994718c7be417eba0dc746aac9","file_name":"2015_Neuroscience_Brenes.pdf","access_level":"open_access","content_type":"application/pdf"}],"department":[{"_id":"PeJo"}],"language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Brenes, Oscar, et al. “Knock-down of Synapsin Alters Cell Excitability and Action Potential Waveform by Potentiating BK and Voltage Gated Ca2 Currents in Helix Serotonergic Neurons.” <i>Neuroscience</i>, vol. 311, Elsevier, 2015, pp. 430–43, doi:<a href=\"https://doi.org/10.1016/j.neuroscience.2015.10.046\">10.1016/j.neuroscience.2015.10.046</a>.","apa":"Brenes, O., Vandael, D. H., Carbone, E., Montarolo, P., &#38; Ghirardi, M. (2015). Knock-down of synapsin alters cell excitability and action potential waveform by potentiating BK and voltage gated Ca2 currents in Helix serotonergic neurons. <i>Neuroscience</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuroscience.2015.10.046\">https://doi.org/10.1016/j.neuroscience.2015.10.046</a>","ista":"Brenes O, Vandael DH, Carbone E, Montarolo P, Ghirardi M. 2015. Knock-down of synapsin alters cell excitability and action potential waveform by potentiating BK and voltage gated Ca2 currents in Helix serotonergic neurons. Neuroscience. 311, 430–443.","chicago":"Brenes, Oscar, David H Vandael, Emilio Carbone, Pier Montarolo, and Mirella Ghirardi. “Knock-down of Synapsin Alters Cell Excitability and Action Potential Waveform by Potentiating BK and Voltage Gated Ca2 Currents in Helix Serotonergic Neurons.” <i>Neuroscience</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.neuroscience.2015.10.046\">https://doi.org/10.1016/j.neuroscience.2015.10.046</a>.","short":"O. Brenes, D.H. Vandael, E. Carbone, P. Montarolo, M. Ghirardi, Neuroscience 311 (2015) 430–443.","ieee":"O. Brenes, D. H. Vandael, E. Carbone, P. Montarolo, and M. Ghirardi, “Knock-down of synapsin alters cell excitability and action potential waveform by potentiating BK and voltage gated Ca2 currents in Helix serotonergic neurons,” <i>Neuroscience</i>, vol. 311. Elsevier, pp. 430–443, 2015.","ama":"Brenes O, Vandael DH, Carbone E, Montarolo P, Ghirardi M. Knock-down of synapsin alters cell excitability and action potential waveform by potentiating BK and voltage gated Ca2 currents in Helix serotonergic neurons. <i>Neuroscience</i>. 2015;311:430-443. doi:<a href=\"https://doi.org/10.1016/j.neuroscience.2015.10.046\">10.1016/j.neuroscience.2015.10.046</a>"},"publisher":"Elsevier","article_processing_charge":"No","doi":"10.1016/j.neuroscience.2015.10.046","type":"journal_article","_id":"1580","date_updated":"2021-01-12T06:51:44Z","ddc":["570"],"page":"430 - 443","quality_controlled":"1","year":"2015","publist_id":"5591","status":"public","publication":"Neuroscience","date_published":"2015-12-17T00:00:00Z"},{"language":[{"iso":"eng"}],"status":"public","publication":"Cell","date_published":"2015-04-23T00:00:00Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","issue":"3","citation":{"ista":"Bollenbach MT, Heisenberg C-PJ. 2015. Gradients are shaping up. Cell. 161(3), 431–432.","chicago":"Bollenbach, Mark Tobias, and Carl-Philipp J Heisenberg. “Gradients Are Shaping Up.” <i>Cell</i>. Cell Press, 2015. <a href=\"https://doi.org/10.1016/j.cell.2015.04.009\">https://doi.org/10.1016/j.cell.2015.04.009</a>.","mla":"Bollenbach, Mark Tobias, and Carl-Philipp J. Heisenberg. “Gradients Are Shaping Up.” <i>Cell</i>, vol. 161, no. 3, Cell Press, 2015, pp. 431–32, doi:<a href=\"https://doi.org/10.1016/j.cell.2015.04.009\">10.1016/j.cell.2015.04.009</a>.","apa":"Bollenbach, M. T., &#38; Heisenberg, C.-P. J. (2015). Gradients are shaping up. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2015.04.009\">https://doi.org/10.1016/j.cell.2015.04.009</a>","ama":"Bollenbach MT, Heisenberg C-PJ. Gradients are shaping up. <i>Cell</i>. 2015;161(3):431-432. doi:<a href=\"https://doi.org/10.1016/j.cell.2015.04.009\">10.1016/j.cell.2015.04.009</a>","short":"M.T. Bollenbach, C.-P.J. Heisenberg, Cell 161 (2015) 431–432.","ieee":"M. T. Bollenbach and C.-P. J. Heisenberg, “Gradients are shaping up,” <i>Cell</i>, vol. 161, no. 3. Cell Press, pp. 431–432, 2015."},"month":"04","year":"2015","publist_id":"5590","department":[{"_id":"ToBo"},{"_id":"CaHe"}],"intvolume":"       161","abstract":[{"lang":"eng","text":"In animal embryos, morphogen gradients determine tissue patterning and morphogenesis. Shyer et al. provide evidence that, during vertebrate gut formation, tissue folding generates graded activity of signals required for subsequent steps of gut growth and differentiation, thereby revealing an intriguing link between tissue morphogenesis and morphogen gradient formation."}],"page":"431 - 432","quality_controlled":"1","publication_status":"published","publisher":"Cell Press","oa_version":"None","title":"Gradients are shaping up","author":[{"orcid":"0000-0003-4398-476X","first_name":"Mark Tobias","last_name":"Bollenbach","full_name":"Bollenbach, Mark Tobias","id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566","first_name":"Carl-Philipp J"}],"doi":"10.1016/j.cell.2015.04.009","scopus_import":"1","article_processing_charge":"No","day":"23","type":"journal_article","date_created":"2018-12-11T11:52:50Z","date_updated":"2022-08-25T13:56:10Z","_id":"1581","volume":161},{"title":"Weighted straight skeletons in the plane","oa_version":"Published Version","scopus_import":1,"day":"01","author":[{"first_name":"Therese","full_name":"Biedl, Therese","last_name":"Biedl"},{"first_name":"Martin","last_name":"Held","full_name":"Held, Martin"},{"first_name":"Stefan","orcid":"0000-0002-8871-5814","last_name":"Huber","id":"4700A070-F248-11E8-B48F-1D18A9856A87","full_name":"Huber, Stefan"},{"full_name":"Kaaser, Dominik","last_name":"Kaaser","first_name":"Dominik"},{"full_name":"Palfrader, Peter","last_name":"Palfrader","first_name":"Peter"}],"date_created":"2018-12-11T11:52:51Z","volume":48,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"lang":"eng","text":"We investigate weighted straight skeletons from a geometric, graph-theoretical, and combinatorial point of view. We start with a thorough definition and shed light on some ambiguity issues in the procedural definition. We investigate the geometry, combinatorics, and topology of faces and the roof model, and we discuss in which cases a weighted straight skeleton is connected. Finally, we show that the weighted straight skeleton of even a simple polygon may be non-planar and may contain cycles, and we discuss under which restrictions on the weights and/or the input polygon the weighted straight skeleton still behaves similar to its unweighted counterpart. In particular, we obtain a non-procedural description and a linear-time construction algorithm for the straight skeleton of strictly convex polygons with arbitrary weights."}],"intvolume":"        48","has_accepted_license":"1","file_date_updated":"2020-07-14T12:45:02Z","publication_status":"published","month":"02","file":[{"date_updated":"2020-07-14T12:45:02Z","creator":"system","date_created":"2018-12-12T10:16:28Z","file_size":505987,"file_id":"5215","content_type":"application/pdf","access_level":"open_access","file_name":"IST-2016-474-v1+1_1-s2.0-S0925772114000807-main.pdf","checksum":"c1ef67f6ec925e12f73a96b8fe285ab4","relation":"main_file"}],"department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"pubrep_id":"474","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ama":"Biedl T, Held M, Huber S, Kaaser D, Palfrader P. 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Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.comgeo.2014.08.006\">https://doi.org/10.1016/j.comgeo.2014.08.006</a>.","apa":"Biedl, T., Held, M., Huber, S., Kaaser, D., &#38; Palfrader, P. (2015). Weighted straight skeletons in the plane. <i>Computational Geometry: Theory and Applications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.comgeo.2014.08.006\">https://doi.org/10.1016/j.comgeo.2014.08.006</a>","mla":"Biedl, Therese, et al. “Weighted Straight Skeletons in the Plane.” <i>Computational Geometry: Theory and Applications</i>, vol. 48, no. 2, Elsevier, 2015, pp. 120–33, doi:<a href=\"https://doi.org/10.1016/j.comgeo.2014.08.006\">10.1016/j.comgeo.2014.08.006</a>."},"issue":"2","publisher":"Elsevier","doi":"10.1016/j.comgeo.2014.08.006","type":"journal_article","_id":"1582","date_updated":"2023-02-23T10:05:27Z","ddc":["000"],"page":"120 - 133","quality_controlled":"1","related_material":{"record":[{"id":"1584","status":"public","relation":"other"}]},"year":"2015","publist_id":"5589","status":"public","publication":"Computational Geometry: Theory and Applications","date_published":"2015-02-01T00:00:00Z"},{"date_created":"2018-12-11T11:52:51Z","volume":115,"oa_version":"Published Version","title":"A simple algorithm for computing positively weighted straight skeletons of monotone polygons","day":"01","scopus_import":1,"author":[{"first_name":"Therese","full_name":"Biedl, Therese","last_name":"Biedl"},{"first_name":"Martin","full_name":"Held, Martin","last_name":"Held"},{"full_name":"Huber, Stefan","id":"4700A070-F248-11E8-B48F-1D18A9856A87","last_name":"Huber","orcid":"0000-0002-8871-5814","first_name":"Stefan"},{"last_name":"Kaaser","full_name":"Kaaser, Dominik","first_name":"Dominik"},{"full_name":"Palfrader, Peter","last_name":"Palfrader","first_name":"Peter"}],"file_date_updated":"2020-07-14T12:45:03Z","publication_status":"published","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"text":"We study the characteristics of straight skeletons of monotone polygonal chains and use them to devise an algorithm for computing positively weighted straight skeletons of monotone polygons. Our algorithm runs in O(nlogn) time and O(n) space, where n denotes the number of vertices of the polygon.","lang":"eng"}],"intvolume":"       115","has_accepted_license":"1","file":[{"file_id":"5367","file_size":270137,"date_created":"2018-12-12T10:18:45Z","creator":"system","date_updated":"2020-07-14T12:45:03Z","relation":"main_file","checksum":"2779a648610c9b5c86d0b51a62816d23","file_name":"IST-2016-473-v1+1_1-s2.0-S0020019014001987-main.pdf","content_type":"application/pdf","access_level":"open_access"}],"department":[{"_id":"HeEd"}],"month":"02","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ieee":"T. Biedl, M. Held, S. Huber, D. Kaaser, and P. Palfrader, “A simple algorithm for computing positively weighted straight skeletons of monotone polygons,” <i>Information Processing Letters</i>, vol. 115, no. 2. Elsevier, pp. 243–247, 2015.","short":"T. Biedl, M. Held, S. Huber, D. Kaaser, P. Palfrader, Information Processing Letters 115 (2015) 243–247.","ama":"Biedl T, Held M, Huber S, Kaaser D, Palfrader P. A simple algorithm for computing positively weighted straight skeletons of monotone polygons. <i>Information Processing Letters</i>. 2015;115(2):243-247. doi:<a href=\"https://doi.org/10.1016/j.ipl.2014.09.021\">10.1016/j.ipl.2014.09.021</a>","apa":"Biedl, T., Held, M., Huber, S., Kaaser, D., &#38; Palfrader, P. (2015). A simple algorithm for computing positively weighted straight skeletons of monotone polygons. <i>Information Processing Letters</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ipl.2014.09.021\">https://doi.org/10.1016/j.ipl.2014.09.021</a>","mla":"Biedl, Therese, et al. “A Simple Algorithm for Computing Positively Weighted Straight Skeletons of Monotone Polygons.” <i>Information Processing Letters</i>, vol. 115, no. 2, Elsevier, 2015, pp. 243–47, doi:<a href=\"https://doi.org/10.1016/j.ipl.2014.09.021\">10.1016/j.ipl.2014.09.021</a>.","ista":"Biedl T, Held M, Huber S, Kaaser D, Palfrader P. 2015. A simple algorithm for computing positively weighted straight skeletons of monotone polygons. Information Processing Letters. 115(2), 243–247.","chicago":"Biedl, Therese, Martin Held, Stefan Huber, Dominik Kaaser, and Peter Palfrader. “A Simple Algorithm for Computing Positively Weighted Straight Skeletons of Monotone Polygons.” <i>Information Processing Letters</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.ipl.2014.09.021\">https://doi.org/10.1016/j.ipl.2014.09.021</a>."},"issue":"2","language":[{"iso":"eng"}],"pubrep_id":"473","oa":1,"type":"journal_article","_id":"1583","date_updated":"2021-01-12T06:51:45Z","publisher":"Elsevier","doi":"10.1016/j.ipl.2014.09.021","quality_controlled":"1","ddc":["000"],"page":"243 - 247","publist_id":"5588","year":"2015","date_published":"2015-02-01T00:00:00Z","publication":"Information Processing Letters","status":"public"},{"oa_version":"Published Version","title":"Reprint of: Weighted straight skeletons in the plane","author":[{"first_name":"Therese","full_name":"Biedl, Therese","last_name":"Biedl"},{"first_name":"Martin","last_name":"Held","full_name":"Held, Martin"},{"orcid":"0000-0002-8871-5814","first_name":"Stefan","full_name":"Huber, Stefan","id":"4700A070-F248-11E8-B48F-1D18A9856A87","last_name":"Huber"},{"last_name":"Kaaser","full_name":"Kaaser, Dominik","first_name":"Dominik"},{"full_name":"Palfrader, Peter","last_name":"Palfrader","first_name":"Peter"}],"day":"01","scopus_import":1,"date_created":"2018-12-11T11:52:51Z","volume":48,"abstract":[{"text":"We investigate weighted straight skeletons from a geometric, graph-theoretical, and combinatorial point of view. We start with a thorough definition and shed light on some ambiguity issues in the procedural definition. We investigate the geometry, combinatorics, and topology of faces and the roof model, and we discuss in which cases a weighted straight skeleton is connected. Finally, we show that the weighted straight skeleton of even a simple polygon may be non-planar and may contain cycles, and we discuss under which restrictions on the weights and/or the input polygon the weighted straight skeleton still behaves similar to its unweighted counterpart. In particular, we obtain a non-procedural description and a linear-time construction algorithm for the straight skeleton of strictly convex polygons with arbitrary weights.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"intvolume":"        48","has_accepted_license":"1","publication_status":"published","file_date_updated":"2020-07-14T12:45:03Z","month":"07","file":[{"creator":"system","date_updated":"2020-07-14T12:45:03Z","date_created":"2018-12-12T10:17:36Z","file_size":508379,"file_id":"5292","access_level":"open_access","content_type":"application/pdf","file_name":"IST-2016-475-v1+1_1-s2.0-S092577211500005X-main.pdf","checksum":"5b33719a86f7f4c8e5dc62c1b6893f49","relation":"main_file"}],"department":[{"_id":"HeEd"}],"language":[{"iso":"eng"}],"pubrep_id":"475","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"5","citation":{"short":"T. Biedl, M. Held, S. Huber, D. Kaaser, P. Palfrader, Computational Geometry: Theory and Applications 48 (2015) 429–442.","ieee":"T. Biedl, M. Held, S. Huber, D. Kaaser, and P. Palfrader, “Reprint of: Weighted straight skeletons in the plane,” <i>Computational Geometry: Theory and Applications</i>, vol. 48, no. 5. Elsevier, pp. 429–442, 2015.","ama":"Biedl T, Held M, Huber S, Kaaser D, Palfrader P. Reprint of: Weighted straight skeletons in the plane. <i>Computational Geometry: Theory and Applications</i>. 2015;48(5):429-442. doi:<a href=\"https://doi.org/10.1016/j.comgeo.2015.01.004\">10.1016/j.comgeo.2015.01.004</a>","mla":"Biedl, Therese, et al. “Reprint of: Weighted Straight Skeletons in the Plane.” <i>Computational Geometry: Theory and Applications</i>, vol. 48, no. 5, Elsevier, 2015, pp. 429–42, doi:<a href=\"https://doi.org/10.1016/j.comgeo.2015.01.004\">10.1016/j.comgeo.2015.01.004</a>.","apa":"Biedl, T., Held, M., Huber, S., Kaaser, D., &#38; Palfrader, P. (2015). Reprint of: Weighted straight skeletons in the plane. <i>Computational Geometry: Theory and Applications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.comgeo.2015.01.004\">https://doi.org/10.1016/j.comgeo.2015.01.004</a>","ista":"Biedl T, Held M, Huber S, Kaaser D, Palfrader P. 2015. Reprint of: Weighted straight skeletons in the plane. Computational Geometry: Theory and Applications. 48(5), 429–442.","chicago":"Biedl, Therese, Martin Held, Stefan Huber, Dominik Kaaser, and Peter Palfrader. “Reprint of: Weighted Straight Skeletons in the Plane.” <i>Computational Geometry: Theory and Applications</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.comgeo.2015.01.004\">https://doi.org/10.1016/j.comgeo.2015.01.004</a>."},"publisher":"Elsevier","doi":"10.1016/j.comgeo.2015.01.004","type":"journal_article","date_updated":"2023-02-23T10:05:22Z","_id":"1584","ddc":["000"],"page":"429 - 442","quality_controlled":"1","related_material":{"record":[{"id":"1582","status":"public","relation":"other"}]},"year":"2015","publist_id":"5587","status":"public","publication":"Computational Geometry: Theory and Applications","date_published":"2015-07-01T00:00:00Z"},{"acknowledgement":"G. Pan was supported by MOE Tier 2 under Grant 2014-T2-2-060 and in part by Tier 1 under Grant RG25/14 through the Nanyang Technological University, Singapore. W. Zhou was supported by the National University of Singapore, Singapore, under Grant R-155-000-131-112.\r\n","date_published":"2015-06-01T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"6","citation":{"ista":"Bao Z, Pan G, Zhou W. 2015. Asymptotic mutual information statistics of MIMO channels and CLT of sample covariance matrices. IEEE Transactions on Information Theory. 61(6), 3413–3426.","chicago":"Bao, Zhigang, Guangming Pan, and Wang Zhou. “Asymptotic Mutual Information Statistics of MIMO Channels and CLT of Sample Covariance Matrices.” <i>IEEE Transactions on Information Theory</i>. IEEE, 2015. <a href=\"https://doi.org/10.1109/TIT.2015.2421894\">https://doi.org/10.1109/TIT.2015.2421894</a>.","apa":"Bao, Z., Pan, G., &#38; Zhou, W. (2015). Asymptotic mutual information statistics of MIMO channels and CLT of sample covariance matrices. <i>IEEE Transactions on Information Theory</i>. IEEE. <a href=\"https://doi.org/10.1109/TIT.2015.2421894\">https://doi.org/10.1109/TIT.2015.2421894</a>","mla":"Bao, Zhigang, et al. “Asymptotic Mutual Information Statistics of MIMO Channels and CLT of Sample Covariance Matrices.” <i>IEEE Transactions on Information Theory</i>, vol. 61, no. 6, IEEE, 2015, pp. 3413–26, doi:<a href=\"https://doi.org/10.1109/TIT.2015.2421894\">10.1109/TIT.2015.2421894</a>.","ama":"Bao Z, Pan G, Zhou W. Asymptotic mutual information statistics of MIMO channels and CLT of sample covariance matrices. <i>IEEE Transactions on Information Theory</i>. 2015;61(6):3413-3426. doi:<a href=\"https://doi.org/10.1109/TIT.2015.2421894\">10.1109/TIT.2015.2421894</a>","ieee":"Z. Bao, G. Pan, and W. Zhou, “Asymptotic mutual information statistics of MIMO channels and CLT of sample covariance matrices,” <i>IEEE Transactions on Information Theory</i>, vol. 61, no. 6. IEEE, pp. 3413–3426, 2015.","short":"Z. Bao, G. Pan, W. Zhou, IEEE Transactions on Information Theory 61 (2015) 3413–3426."},"publication":"IEEE Transactions on Information Theory","language":[{"iso":"eng"}],"status":"public","publist_id":"5586","department":[{"_id":"LaEr"}],"month":"06","year":"2015","quality_controlled":"1","publication_status":"published","intvolume":"        61","abstract":[{"text":"In this paper, we consider the fluctuation of mutual information statistics of a multiple input multiple output channel communication systems without assuming that the entries of the channel matrix have zero pseudovariance. To this end, we also establish a central limit theorem of the linear spectral statistics for sample covariance matrices under general moment conditions by removing the restrictions imposed on the second moment and fourth moment on the matrix entries in Bai and Silverstein (2004).","lang":"eng"}],"page":"3413 - 3426","type":"journal_article","date_created":"2018-12-11T11:52:52Z","date_updated":"2021-01-12T06:51:46Z","volume":61,"_id":"1585","publisher":"IEEE","title":"Asymptotic mutual information statistics of MIMO channels and CLT of sample covariance matrices","oa_version":"None","doi":"10.1109/TIT.2015.2421894","author":[{"last_name":"Bao","full_name":"Bao, Zhigang","id":"442E6A6C-F248-11E8-B48F-1D18A9856A87","first_name":"Zhigang","orcid":"0000-0003-3036-1475"},{"first_name":"Guangming","last_name":"Pan","full_name":"Pan, Guangming"},{"first_name":"Wang","last_name":"Zhou","full_name":"Zhou, Wang"}],"day":"01","scopus_import":1},{"department":[{"_id":"ToBo"}],"publist_id":"5585","year":"2015","month":"06","issue":"6","citation":{"apa":"Angermayr, A., Gorchs, A., &#38; Hellingwerf, K. (2015). Metabolic engineering of cyanobacteria for the synthesis of commodity products. <i>Trends in Biotechnology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tibtech.2015.03.009\">https://doi.org/10.1016/j.tibtech.2015.03.009</a>","mla":"Angermayr, Andreas, et al. “Metabolic Engineering of Cyanobacteria for the Synthesis of Commodity Products.” <i>Trends in Biotechnology</i>, vol. 33, no. 6, Elsevier, 2015, pp. 352–61, doi:<a href=\"https://doi.org/10.1016/j.tibtech.2015.03.009\">10.1016/j.tibtech.2015.03.009</a>.","ista":"Angermayr A, Gorchs A, Hellingwerf K. 2015. Metabolic engineering of cyanobacteria for the synthesis of commodity products. Trends in Biotechnology. 33(6), 352–361.","chicago":"Angermayr, Andreas, Aleix Gorchs, and Klaas Hellingwerf. “Metabolic Engineering of Cyanobacteria for the Synthesis of Commodity Products.” <i>Trends in Biotechnology</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.tibtech.2015.03.009\">https://doi.org/10.1016/j.tibtech.2015.03.009</a>.","ieee":"A. Angermayr, A. Gorchs, and K. Hellingwerf, “Metabolic engineering of cyanobacteria for the synthesis of commodity products,” <i>Trends in Biotechnology</i>, vol. 33, no. 6. Elsevier, pp. 352–361, 2015.","short":"A. Angermayr, A. Gorchs, K. Hellingwerf, Trends in Biotechnology 33 (2015) 352–361.","ama":"Angermayr A, Gorchs A, Hellingwerf K. Metabolic engineering of cyanobacteria for the synthesis of commodity products. <i>Trends in Biotechnology</i>. 2015;33(6):352-361. doi:<a href=\"https://doi.org/10.1016/j.tibtech.2015.03.009\">10.1016/j.tibtech.2015.03.009</a>"},"date_published":"2015-06-01T00:00:00Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"status":"public","publication":"Trends in Biotechnology","date_updated":"2021-01-12T06:51:46Z","volume":33,"_id":"1586","type":"journal_article","date_created":"2018-12-11T11:52:52Z","doi":"10.1016/j.tibtech.2015.03.009","author":[{"orcid":"0000-0001-8619-2223","first_name":"Andreas","last_name":"Angermayr","id":"4677C796-F248-11E8-B48F-1D18A9856A87","full_name":"Angermayr, Andreas"},{"first_name":"Aleix","last_name":"Gorchs","full_name":"Gorchs, Aleix"},{"first_name":"Klaas","full_name":"Hellingwerf, Klaas","last_name":"Hellingwerf"}],"day":"01","scopus_import":1,"publisher":"Elsevier","oa_version":"None","title":"Metabolic engineering of cyanobacteria for the synthesis of commodity products","quality_controlled":"1","publication_status":"published","page":"352 - 361","abstract":[{"lang":"eng","text":"Through metabolic engineering cyanobacteria can be employed in biotechnology. Combining the capacity for oxygenic photosynthesis and carbon fixation with an engineered metabolic pathway allows carbon-based product formation from CO2, light, and water directly. Such cyanobacterial 'cell factories' are constructed to produce biofuels, bioplastics, and commodity chemicals. Efforts of metabolic engineers and synthetic biologists allow the modification of the intermediary metabolism at various branching points, expanding the product range. The new biosynthesis routes 'tap' the metabolism ever more efficiently, particularly through the engineering of driving forces and utilization of cofactors generated during the light reactions of photosynthesis, resulting in higher product titers. High rates of carbon rechanneling ultimately allow an almost-complete allocation of fixed carbon to product above biomass."}],"intvolume":"        33"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"6","citation":{"short":"P. Amaro, F. Fratini, L. Safari, A. Antognini, P. Indelicato, R. Pohl, J. Santos, Physical Review A - Atomic, Molecular, and Optical Physics 92 (2015).","ieee":"P. Amaro <i>et al.</i>, “Quantum interference shifts in laser spectroscopy with elliptical polarization,” <i>Physical Review A - Atomic, Molecular, and Optical Physics</i>, vol. 92, no. 6. American Physical Society, 2015.","ama":"Amaro P, Fratini F, Safari L, et al. Quantum interference shifts in laser spectroscopy with elliptical polarization. <i>Physical Review A - Atomic, Molecular, and Optical Physics</i>. 2015;92(6). doi:<a href=\"https://doi.org/10.1103/PhysRevA.92.062506\">10.1103/PhysRevA.92.062506</a>","mla":"Amaro, Pedro, et al. “Quantum Interference Shifts in Laser Spectroscopy with Elliptical Polarization.” <i>Physical Review A - Atomic, Molecular, and Optical Physics</i>, vol. 92, no. 6, 062506, American Physical Society, 2015, doi:<a href=\"https://doi.org/10.1103/PhysRevA.92.062506\">10.1103/PhysRevA.92.062506</a>.","apa":"Amaro, P., Fratini, F., Safari, L., Antognini, A., Indelicato, P., Pohl, R., &#38; Santos, J. (2015). Quantum interference shifts in laser spectroscopy with elliptical polarization. <i>Physical Review A - Atomic, Molecular, and Optical Physics</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevA.92.062506\">https://doi.org/10.1103/PhysRevA.92.062506</a>","chicago":"Amaro, Pedro, Filippo Fratini, Laleh Safari, Aldo Antognini, Paul Indelicato, Randolf Pohl, and José Santos. “Quantum Interference Shifts in Laser Spectroscopy with Elliptical Polarization.” <i>Physical Review A - Atomic, Molecular, and Optical Physics</i>. American Physical Society, 2015. <a href=\"https://doi.org/10.1103/PhysRevA.92.062506\">https://doi.org/10.1103/PhysRevA.92.062506</a>.","ista":"Amaro P, Fratini F, Safari L, Antognini A, Indelicato P, Pohl R, Santos J. 2015. Quantum interference shifts in laser spectroscopy with elliptical polarization. Physical Review A - Atomic, Molecular, and Optical Physics. 92(6), 062506."},"language":[{"iso":"eng"}],"oa":1,"article_number":"062506","department":[{"_id":"MiLe"}],"arxiv":1,"month":"12","publication_status":"published","intvolume":"        92","abstract":[{"text":"We investigate the quantum interference shifts between energetically close states, where the state structure is observed by laser spectroscopy. We report a compact and analytical expression that models the quantum interference induced shift for any admixture of circular polarization of the incident laser and angle of observation. An experimental scenario free of quantum interference can thus be predicted with this formula. Although this study is exemplified here for muonic deuterium, it can be applied to any other laser spectroscopy measurement of ns-n′p frequencies of a nonrelativistic atomic system, via an ns→n′p→n′′s scheme.","lang":"eng"}],"article_type":"original","date_created":"2018-12-11T11:52:53Z","volume":92,"title":"Quantum interference shifts in laser spectroscopy with elliptical polarization","oa_version":"Preprint","author":[{"full_name":"Amaro, Pedro","last_name":"Amaro","first_name":"Pedro"},{"last_name":"Fratini","full_name":"Fratini, Filippo","first_name":"Filippo"},{"first_name":"Laleh","last_name":"Safari","full_name":"Safari, Laleh","id":"3C325E5E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Aldo","last_name":"Antognini","full_name":"Antognini, Aldo"},{"last_name":"Indelicato","full_name":"Indelicato, Paul","first_name":"Paul"},{"first_name":"Randolf","full_name":"Pohl, Randolf","last_name":"Pohl"},{"full_name":"Santos, José","last_name":"Santos","first_name":"José"}],"scopus_import":1,"day":"31","date_published":"2015-12-31T00:00:00Z","ec_funded":1,"project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7"}],"status":"public","publication":"Physical Review A - Atomic, Molecular, and Optical Physics","publist_id":"5584","external_id":{"arxiv":["1511.03585"]},"year":"2015","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1511.03585"}],"type":"journal_article","date_updated":"2021-01-12T06:51:47Z","_id":"1587","publisher":"American Physical Society","doi":"10.1103/PhysRevA.92.062506","article_processing_charge":"No"},{"citation":{"ista":"Altmeyer S, Do Y, Lai Y. 2015. Ring-bursting behavior en route to turbulence in narrow-gap Taylor-Couette flows. Physical Review E. 92(5), 053018.","chicago":"Altmeyer, Sebastian, Younghae Do, and Ying Lai. “Ring-Bursting Behavior En Route to Turbulence in Narrow-Gap Taylor-Couette Flows.” <i>Physical Review E</i>. American Physical Society, 2015. <a href=\"https://doi.org/10.1103/PhysRevE.92.053018\">https://doi.org/10.1103/PhysRevE.92.053018</a>.","mla":"Altmeyer, Sebastian, et al. “Ring-Bursting Behavior En Route to Turbulence in Narrow-Gap Taylor-Couette Flows.” <i>Physical Review E</i>, vol. 92, no. 5, 053018, American Physical Society, 2015, doi:<a href=\"https://doi.org/10.1103/PhysRevE.92.053018\">10.1103/PhysRevE.92.053018</a>.","apa":"Altmeyer, S., Do, Y., &#38; Lai, Y. (2015). Ring-bursting behavior en route to turbulence in narrow-gap Taylor-Couette flows. <i>Physical Review E</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevE.92.053018\">https://doi.org/10.1103/PhysRevE.92.053018</a>","ama":"Altmeyer S, Do Y, Lai Y. Ring-bursting behavior en route to turbulence in narrow-gap Taylor-Couette flows. <i>Physical Review E</i>. 2015;92(5). doi:<a href=\"https://doi.org/10.1103/PhysRevE.92.053018\">10.1103/PhysRevE.92.053018</a>","short":"S. Altmeyer, Y. Do, Y. Lai, Physical Review E 92 (2015).","ieee":"S. Altmeyer, Y. Do, and Y. Lai, “Ring-bursting behavior en route to turbulence in narrow-gap Taylor-Couette flows,” <i>Physical Review E</i>, vol. 92, no. 5. American Physical Society, 2015."},"issue":"5","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2015-11-24T00:00:00Z","publication":"Physical Review E","language":[{"iso":"eng"}],"status":"public","department":[{"_id":"BjHo"}],"article_number":"053018","publist_id":"5583","year":"2015","month":"11","quality_controlled":"1","publication_status":"published","intvolume":"        92","abstract":[{"lang":"eng","text":"We investigate the Taylor-Couette system where the radius ratio is close to unity. Systematically increasing the Reynolds number, we observe a number of previously known transitions, such as one from the classical Taylor vortex flow (TVF) to wavy vortex flow (WVF) and the transition to fully developed turbulence. Prior to the onset of turbulence, we observe intermittent bursting patterns of localized turbulent patches, confirming the experimentally observed pattern of very short wavelength bursts (VSWBs). A striking finding is that, for a Reynolds number larger than that for the onset of VSWBs, a new type of intermittently bursting behavior emerges: patterns of azimuthally closed rings of various orders. We call them ring-bursting patterns, which surround the cylinder completely but remain localized and separated in the axial direction through nonturbulent wavy structures. We employ a number of quantitative measures including the cross-flow energy to characterize the ring-bursting patterns and to distinguish them from the background flow. These patterns are interesting because they do not occur in the wide-gap Taylor-Couette flow systems. The narrow-gap regime is less studied but certainly deserves further attention to gain deeper insights into complex flow dynamics in fluids."}],"_id":"1588","volume":92,"date_updated":"2021-01-12T06:51:47Z","date_created":"2018-12-11T11:52:53Z","type":"journal_article","day":"24","scopus_import":1,"author":[{"orcid":"0000-0001-5964-0203","first_name":"Sebastian","last_name":"Altmeyer","full_name":"Altmeyer, Sebastian","id":"2EE67FDC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Do","full_name":"Do, Younghae","first_name":"Younghae"},{"full_name":"Lai, Ying","last_name":"Lai","first_name":"Ying"}],"doi":"10.1103/PhysRevE.92.053018","title":"Ring-bursting behavior en route to turbulence in narrow-gap Taylor-Couette flows","oa_version":"None","publisher":"American Physical Society"},{"oa_version":"Published Version","title":"Magnetic field induced flow pattern reversal in a ferrofluidic Taylor-Couette system","scopus_import":1,"day":"21","author":[{"orcid":"0000-0001-5964-0203","first_name":"Sebastian","full_name":"Altmeyer, Sebastian","id":"2EE67FDC-F248-11E8-B48F-1D18A9856A87","last_name":"Altmeyer"},{"first_name":"Younghae","full_name":"Do, Younghae","last_name":"Do"},{"first_name":"Ying","full_name":"Lai, Ying","last_name":"Lai"}],"date_created":"2018-12-11T11:52:53Z","article_type":"original","volume":5,"intvolume":"         5","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"abstract":[{"text":"We investigate the dynamics of ferrofluidic wavy vortex flows in the counter-rotating Taylor-Couette system, with a focus on wavy flows with a mixture of the dominant azimuthal modes. Without external magnetic field flows are stable and pro-grade with respect to the rotation of the inner cylinder. More complex behaviors can arise when an axial or a transverse magnetic field is applied. Depending on the direction and strength of the field, multi-stable wavy states and bifurcations can occur. We uncover the phenomenon of flow pattern reversal as the strength of the magnetic field is increased through a critical value. In between the regimes of pro-grade and retrograde flow rotations, standing waves with zero angular velocities can emerge. A striking finding is that, under a transverse magnetic field, a second reversal in the flow pattern direction can occur, where the flow pattern evolves into pro-grade rotation again from a retrograde state. Flow reversal is relevant to intriguing phenomena in nature such as geomagnetic reversal. Our results suggest that, in ferrofluids, flow pattern reversal can be induced by varying a magnetic field in a controlled manner, which can be realized in laboratory experiments with potential applications in the development of modern fluid devices.","lang":"eng"}],"has_accepted_license":"1","file_date_updated":"2020-07-14T12:45:03Z","publication_status":"published","month":"12","article_number":"18589","file":[{"file_name":"IST-2016-472-v1+1_srep18589.pdf","content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"927e151674347661ce36eae2818dafdc","file_size":2771236,"date_created":"2018-12-12T10:13:49Z","date_updated":"2020-07-14T12:45:03Z","creator":"system","file_id":"5036"}],"department":[{"_id":"BjHo"}],"pubrep_id":"472","language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Altmeyer, Sebastian, Younghae Do, and Ying Lai. “Magnetic Field Induced Flow Pattern Reversal in a Ferrofluidic Taylor-Couette System.” <i>Scientific Reports</i>. Nature Publishing Group, 2015. <a href=\"https://doi.org/10.1038/srep18589\">https://doi.org/10.1038/srep18589</a>.","ista":"Altmeyer S, Do Y, Lai Y. 2015. Magnetic field induced flow pattern reversal in a ferrofluidic Taylor-Couette system. Scientific Reports. 5, 18589.","apa":"Altmeyer, S., Do, Y., &#38; Lai, Y. (2015). Magnetic field induced flow pattern reversal in a ferrofluidic Taylor-Couette system. <i>Scientific Reports</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/srep18589\">https://doi.org/10.1038/srep18589</a>","mla":"Altmeyer, Sebastian, et al. “Magnetic Field Induced Flow Pattern Reversal in a Ferrofluidic Taylor-Couette System.” <i>Scientific Reports</i>, vol. 5, 18589, Nature Publishing Group, 2015, doi:<a href=\"https://doi.org/10.1038/srep18589\">10.1038/srep18589</a>.","ama":"Altmeyer S, Do Y, Lai Y. Magnetic field induced flow pattern reversal in a ferrofluidic Taylor-Couette system. <i>Scientific Reports</i>. 2015;5. doi:<a href=\"https://doi.org/10.1038/srep18589\">10.1038/srep18589</a>","ieee":"S. Altmeyer, Y. Do, and Y. Lai, “Magnetic field induced flow pattern reversal in a ferrofluidic Taylor-Couette system,” <i>Scientific Reports</i>, vol. 5. Nature Publishing Group, 2015.","short":"S. Altmeyer, Y. Do, Y. Lai, Scientific Reports 5 (2015)."},"publisher":"Nature Publishing Group","doi":"10.1038/srep18589","type":"journal_article","_id":"1589","date_updated":"2021-01-12T06:51:48Z","ddc":["530","540"],"quality_controlled":"1","year":"2015","publist_id":"5582","publication":"Scientific Reports","status":"public","date_published":"2015-12-21T00:00:00Z"},{"publist_id":"5581","year":"2015","conference":{"name":"GD: International Symposium on Graph Drawing","end_date":"2015-09-26","start_date":"2015-09-24","location":"Los Angeles, CA, United States"},"date_published":"2015-11-27T00:00:00Z","publication":"Graph Drawing and Network Visualization","status":"public","type":"book_chapter","date_updated":"2022-01-28T09:10:37Z","_id":"1590","publisher":"Springer Nature","doi":"10.1007/978-3-319-27261-0_28","alternative_title":["LNCS"],"article_processing_charge":"No","quality_controlled":"1","main_file_link":[{"url":"http://arxiv.org/abs/1508.01076","open_access":"1"}],"page":"335 - 347","department":[{"_id":"HeEd"}],"month":"11","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","citation":{"apa":"Aichholzer, O., Biedl, T., Hackl, T., Held, M., Huber, S., Palfrader, P., &#38; Vogtenhuber, B. (2015). Representing directed trees as straight skeletons. In <i>Graph Drawing and Network Visualization</i> (Vol. 9411, pp. 335–347). Los Angeles, CA, United States: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-319-27261-0_28\">https://doi.org/10.1007/978-3-319-27261-0_28</a>","mla":"Aichholzer, Oswin, et al. “Representing Directed Trees as Straight Skeletons.” <i>Graph Drawing and Network Visualization</i>, vol. 9411, Springer Nature, 2015, pp. 335–47, doi:<a href=\"https://doi.org/10.1007/978-3-319-27261-0_28\">10.1007/978-3-319-27261-0_28</a>.","chicago":"Aichholzer, Oswin, Therese Biedl, Thomas Hackl, Martin Held, Stefan Huber, Peter Palfrader, and Birgit Vogtenhuber. “Representing Directed Trees as Straight Skeletons.” In <i>Graph Drawing and Network Visualization</i>, 9411:335–47. Springer Nature, 2015. <a href=\"https://doi.org/10.1007/978-3-319-27261-0_28\">https://doi.org/10.1007/978-3-319-27261-0_28</a>.","ista":"Aichholzer O, Biedl T, Hackl T, Held M, Huber S, Palfrader P, Vogtenhuber B. 2015.Representing directed trees as straight skeletons. In: Graph Drawing and Network Visualization. LNCS, vol. 9411, 335–347.","ieee":"O. Aichholzer <i>et al.</i>, “Representing directed trees as straight skeletons,” in <i>Graph Drawing and Network Visualization</i>, vol. 9411, Springer Nature, 2015, pp. 335–347.","short":"O. Aichholzer, T. Biedl, T. Hackl, M. Held, S. Huber, P. Palfrader, B. Vogtenhuber, in:, Graph Drawing and Network Visualization, Springer Nature, 2015, pp. 335–347.","ama":"Aichholzer O, Biedl T, Hackl T, et al. Representing directed trees as straight skeletons. In: <i>Graph Drawing and Network Visualization</i>. Vol 9411. Springer Nature; 2015:335-347. doi:<a href=\"https://doi.org/10.1007/978-3-319-27261-0_28\">10.1007/978-3-319-27261-0_28</a>"},"language":[{"iso":"eng"}],"oa":1,"date_created":"2018-12-11T11:52:54Z","volume":9411,"title":"Representing directed trees as straight skeletons","oa_version":"Preprint","author":[{"last_name":"Aichholzer","full_name":"Aichholzer, Oswin","first_name":"Oswin"},{"full_name":"Biedl, Therese","last_name":"Biedl","first_name":"Therese"},{"first_name":"Thomas","last_name":"Hackl","full_name":"Hackl, Thomas"},{"first_name":"Martin","last_name":"Held","full_name":"Held, Martin"},{"full_name":"Huber, Stefan","id":"4700A070-F248-11E8-B48F-1D18A9856A87","last_name":"Huber","first_name":"Stefan","orcid":"0000-0002-8871-5814"},{"first_name":"Peter","last_name":"Palfrader","full_name":"Palfrader, Peter"},{"first_name":"Birgit","full_name":"Vogtenhuber, Birgit","last_name":"Vogtenhuber"}],"scopus_import":"1","day":"27","publication_identifier":{"isbn":["978-3-319-27260-3"],"eisbn":["978-3-319-27261-0"]},"publication_status":"published","abstract":[{"lang":"eng","text":"The straight skeleton of a polygon is the geometric graph obtained by tracing the vertices during a mitered offsetting process. It is known that the straight skeleton of a simple polygon is a tree, and one can naturally derive directions on the edges of the tree from the propagation of the shrinking process. In this paper, we ask the reverse question: Given a tree with directed edges, can it be the straight skeleton of a polygon? And if so, can we find a suitable simple polygon? We answer these questions for all directed trees where the order of edges around each node is fixed."}],"intvolume":"      9411"},{"title":"PIN-dependent auxin transport: Action, regulation, and evolution","oa_version":"Submitted Version","author":[{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","full_name":"Adamowski, Maciek","last_name":"Adamowski","orcid":"0000-0001-6463-5257","first_name":"Maciek"},{"first_name":"Jirí","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":1,"day":"20","date_created":"2018-12-11T11:52:54Z","volume":27,"intvolume":"        27","abstract":[{"lang":"eng","text":"Auxin participates in a multitude of developmental processes, as well as responses to environmental cues. Compared with other plant hormones, auxin exhibits a unique property, as it undergoes directional, cell-to-cell transport facilitated by plasma membrane-localized transport proteins. Among them, a prominent role has been ascribed to the PIN family of auxin efflux facilitators. PIN proteins direct polar auxin transport on account of their asymmetric subcellular localizations. In this review, we provide an overview of the multiple developmental roles of PIN proteins, including the atypical endoplasmic reticulum-localized members of the family, and look at the family from an evolutionary perspective. Next, we cover the cell biological and molecular aspects of PIN function, in particular the establishment of their polar subcellular localization. Hormonal and environmental inputs into the regulation of PIN action are summarized as well."}],"publication_status":"published","month":"01","department":[{"_id":"JiFr"}],"language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"1","citation":{"ieee":"M. Adamowski and J. Friml, “PIN-dependent auxin transport: Action, regulation, and evolution,” <i>Plant Cell</i>, vol. 27, no. 1. American Society of Plant Biologists, pp. 20–32, 2015.","short":"M. Adamowski, J. Friml, Plant Cell 27 (2015) 20–32.","ama":"Adamowski M, Friml J. PIN-dependent auxin transport: Action, regulation, and evolution. <i>Plant Cell</i>. 2015;27(1):20-32. doi:<a href=\"https://doi.org/10.1105/tpc.114.134874\">10.1105/tpc.114.134874</a>","apa":"Adamowski, M., &#38; Friml, J. (2015). PIN-dependent auxin transport: Action, regulation, and evolution. <i>Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1105/tpc.114.134874\">https://doi.org/10.1105/tpc.114.134874</a>","mla":"Adamowski, Maciek, and Jiří Friml. “PIN-Dependent Auxin Transport: Action, Regulation, and Evolution.” <i>Plant Cell</i>, vol. 27, no. 1, American Society of Plant Biologists, 2015, pp. 20–32, doi:<a href=\"https://doi.org/10.1105/tpc.114.134874\">10.1105/tpc.114.134874</a>.","ista":"Adamowski M, Friml J. 2015. PIN-dependent auxin transport: Action, regulation, and evolution. Plant Cell. 27(1), 20–32.","chicago":"Adamowski, Maciek, and Jiří Friml. “PIN-Dependent Auxin Transport: Action, Regulation, and Evolution.” <i>Plant Cell</i>. American Society of Plant Biologists, 2015. <a href=\"https://doi.org/10.1105/tpc.114.134874\">https://doi.org/10.1105/tpc.114.134874</a>."},"publisher":"American Society of Plant Biologists","doi":"10.1105/tpc.114.134874","type":"journal_article","date_updated":"2023-09-07T12:06:09Z","_id":"1591","page":"20 - 32","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4330589/"}],"external_id":{"pmid":["25604445"]},"related_material":{"record":[{"id":"938","relation":"dissertation_contains","status":"public"}]},"year":"2015","publist_id":"5580","publication":"Plant Cell","status":"public","date_published":"2015-01-20T00:00:00Z","pmid":1}]