--- _id: '10389' abstract: - lang: eng text: We perform numerical simulations to study self-assembly of nanoparticles mediated by an elastic planar surface. We show how the nontrivial elastic response to deformations of these surfaces leads to anisotropic interactions between the particles resulting in aggregates having different geometrical features. The morphology of the patterns can be controlled by the mechanical properties of the surface and the strength of the particle adhesion. We use simple scaling arguments to understand the formation of the different structures, and we show how the adhering particles can cause the underlying elastic substrate to wrinkle if two of its opposite edges are clamped. Finally, we discuss the implications of our results and suggest how elastic surfaces could be used in nanofabrication. acknowledgement: This work was supported by the National Science Foundation under Career Grant No. DMR-0846426. We thank Josep C. Pàmies and William L. Miller for helpful discussions. article_number: '8324' article_processing_charge: No article_type: original author: - first_name: Anđela full_name: Šarić, Anđela id: bf63d406-f056-11eb-b41d-f263a6566d8b last_name: Šarić orcid: 0000-0002-7854-2139 - first_name: Angelo full_name: Cacciuto, Angelo last_name: Cacciuto citation: ama: Šarić A, Cacciuto A. Soft elastic surfaces as a platform for particle self-assembly. Soft Matter. 2011;7(18). doi:10.1039/c1sm05773a apa: Šarić, A., & Cacciuto, A. (2011). Soft elastic surfaces as a platform for particle self-assembly. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c1sm05773a chicago: Šarić, Anđela, and Angelo Cacciuto. “Soft Elastic Surfaces as a Platform for Particle Self-Assembly.” Soft Matter. Royal Society of Chemistry, 2011. https://doi.org/10.1039/c1sm05773a. ieee: A. Šarić and A. Cacciuto, “Soft elastic surfaces as a platform for particle self-assembly,” Soft Matter, vol. 7, no. 18. Royal Society of Chemistry, 2011. ista: Šarić A, Cacciuto A. 2011. Soft elastic surfaces as a platform for particle self-assembly. Soft Matter. 7(18), 8324. mla: Šarić, Anđela, and Angelo Cacciuto. “Soft Elastic Surfaces as a Platform for Particle Self-Assembly.” Soft Matter, vol. 7, no. 18, 8324, Royal Society of Chemistry, 2011, doi:10.1039/c1sm05773a. short: A. Šarić, A. Cacciuto, Soft Matter 7 (2011). date_created: 2021-11-29T14:33:18Z date_published: 2011-08-08T00:00:00Z date_updated: 2021-11-29T15:12:10Z day: '08' doi: 10.1039/c1sm05773a extern: '1' external_id: arxiv: - '1106.2995' intvolume: ' 7' issue: '18' keyword: - condensed matter physics - general chemistry language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1106.2995 month: '08' oa: 1 oa_version: Preprint publication: Soft Matter publication_identifier: eissn: - 1744-6848 issn: - 1744-683X publication_status: published publisher: Royal Society of Chemistry quality_controlled: '1' scopus_import: '1' status: public title: Soft elastic surfaces as a platform for particle self-assembly type: journal_article user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 volume: 7 year: '2011' ... --- _id: '1050' abstract: - lang: eng text: We present experimentally derived potential curves 1?and spin-orbit interaction functions for the strongly perturbed AΣu+ 3?and bΠu states of the cesium dimer. The results are based on data from several sources. Laser-induced fluorescence Fourier transform spectroscopy (LIF FTS) was used some time ago in the Laboratoire Aimé Cotton primarily to study the XΣg+ state. More recent work at Tsinghua University provides information from moderate 3?resolution spectroscopy on the lowest levels of the bΠ0u± state as well as additional high-resolution data. From Innsbruck University, we have precision data obtained with cold Cs2 molecules. Recent data from Temple University was obtained using the optical-optical double resonance polarization spectroscopy technique, and finally, a group at the University of Latvia has added additional LIF FTS data. In the Hamiltonian matrix, we have used analytic potentials (the expanded Morse oscillator form) with both finite-difference (FD) coupled-channel and discrete variable representation (DVR) calculations of the term values. Fitted diagonal and off-diagonal spin-orbit functions are obtained and compared with ab initio results from Temple and Moscow State universities. acknowledgement: The work in Temple University was supported by NSF grant no. PHY-0855502. S.K. acknowledges support from AFOSR and from NSF grant no. PHY-1005453. S.A., C.M., and J.H. were supported by NSF grants no. PHY-0652938 and PHY-0968898. The work at Stony Brook was supported by NSF grants no. PHY-0652459 and PHY-0968905. The work in Tsinghua University was supported by NSFC of China, under grant no. 20773072. The Moscow team thanks the Russian Foundation for Basic Researches by the grant no. 10-03-00195 and MSU Priority Direction 2.3. M.T. and R.F. are grateful to Ilze Klincare, Olga Nikolayeva, and Artis Kruzins for their help in spectra analysis, as well as appreciate the support from the ESF 2009/0223/1DP/1.1.1.2.0/09/APIA/VIAA/008 project. article_processing_charge: No author: - first_name: Jianmei full_name: Bai, Jianmei last_name: Bai - first_name: Ergin full_name: Ahmed, Ergin last_name: Ahmed - first_name: Bediha full_name: Beser, Bediha last_name: Beser - first_name: Yafei full_name: Guan, Yafei last_name: Guan - first_name: Svetlana full_name: Kotochigova, Svetlana last_name: Kotochigova - first_name: Marjatta full_name: Lyyra, Marjatta last_name: Lyyra - first_name: Seth full_name: Ashman, Seth last_name: Ashman - first_name: Christopher full_name: Wolfe, Christopher last_name: Wolfe - first_name: John full_name: Huennekens, John last_name: Huennekens - first_name: Feng full_name: Xie, Feng last_name: Xie - first_name: Dan full_name: Li, Dan last_name: Li - first_name: Li full_name: Li, Li last_name: Li - first_name: Maris full_name: Tamanis, Maris last_name: Tamanis - first_name: Ruvin full_name: Ferber, Ruvin last_name: Ferber - first_name: Anastasia full_name: Drozdova, Anastasia last_name: Drozdova - first_name: Elena full_name: Pazyuk, Elena last_name: Pazyuk - first_name: Andrey full_name: Stolyarov, Andrey last_name: Stolyarov - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Hanns full_name: Nägerl, Hanns last_name: Nägerl - first_name: Nadia full_name: Bouloufa, Nadia last_name: Bouloufa - first_name: Olivier full_name: Dulieu, Olivier last_name: Dulieu - first_name: Claude full_name: Amiot, Claude last_name: Amiot - first_name: Houssam full_name: Salami, Houssam last_name: Salami - first_name: Thomas full_name: Bergeman, Thomas last_name: Bergeman citation: ama: Bai J, Ahmed E, Beser B, et al. Global analysis of data on the spin-orbit-coupled A 1Σu+ and b 3Πu inf states of Cs2. Physical Review A - Atomic, Molecular, and Optical Physics. 2011;83(3). doi:10.1103/PhysRevA.83.032514 apa: Bai, J., Ahmed, E., Beser, B., Guan, Y., Kotochigova, S., Lyyra, M., … Bergeman, T. (2011). Global analysis of data on the spin-orbit-coupled A 1Σu+ and b 3Πu inf states of Cs2. Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society. https://doi.org/10.1103/PhysRevA.83.032514 chicago: Bai, Jianmei, Ergin Ahmed, Bediha Beser, Yafei Guan, Svetlana Kotochigova, Marjatta Lyyra, Seth Ashman, et al. “Global Analysis of Data on the Spin-Orbit-Coupled A 1Σu+ and b 3Πu Inf States of Cs2.” Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society, 2011. https://doi.org/10.1103/PhysRevA.83.032514. ieee: J. Bai et al., “Global analysis of data on the spin-orbit-coupled A 1Σu+ and b 3Πu inf states of Cs2,” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 3. American Physical Society, 2011. ista: Bai J, Ahmed E, Beser B, Guan Y, Kotochigova S, Lyyra M, Ashman S, Wolfe C, Huennekens J, Xie F, Li D, Li L, Tamanis M, Ferber R, Drozdova A, Pazyuk E, Stolyarov A, Danzl JG, Nägerl H, Bouloufa N, Dulieu O, Amiot C, Salami H, Bergeman T. 2011. Global analysis of data on the spin-orbit-coupled A 1Σu+ and b 3Πu inf states of Cs2. Physical Review A - Atomic, Molecular, and Optical Physics. 83(3). mla: Bai, Jianmei, et al. “Global Analysis of Data on the Spin-Orbit-Coupled A 1Σu+ and b 3Πu Inf States of Cs2.” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 3, American Physical Society, 2011, doi:10.1103/PhysRevA.83.032514. short: J. Bai, E. Ahmed, B. Beser, Y. Guan, S. Kotochigova, M. Lyyra, S. Ashman, C. Wolfe, J. Huennekens, F. Xie, D. Li, L. Li, M. Tamanis, R. Ferber, A. Drozdova, E. Pazyuk, A. Stolyarov, J.G. Danzl, H. Nägerl, N. Bouloufa, O. Dulieu, C. Amiot, H. Salami, T. Bergeman, Physical Review A - Atomic, Molecular, and Optical Physics 83 (2011). date_created: 2018-12-11T11:49:53Z date_published: 2011-03-28T00:00:00Z date_updated: 2021-01-12T06:47:55Z day: '28' doi: 10.1103/PhysRevA.83.032514 extern: '1' external_id: arxiv: - '1101.5412' intvolume: ' 83' issue: '3' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1101.5412 month: '03' oa: 1 oa_version: Preprint publication: ' Physical Review A - Atomic, Molecular, and Optical Physics' publication_status: published publisher: American Physical Society publist_id: '6339' status: public title: Global analysis of data on the spin-orbit-coupled A 1Σu+ and b 3Πu inf states of Cs2 type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 83 year: '2011' ... --- _id: '1048' abstract: - lang: eng text: We produce an ultracold and dense sample of rovibronic ground state Cs 2 molecules close to the regime of quantum degeneracy, in a single hyperfine level, in the presence of an optical lattice. The molecules are individually trapped, in the motional ground state of an optical lattice well, with a lifetime of 8 s. For preparation, we start with a zero-temperature atomic Mott-insulator state with optimized double-site occupancy and efficiently associate weakly-bound dimer molecules on a Feshbach resonance. Despite extremely weak Franck-Condon wavefunction overlap, the molecules are subsequently transferred with >50% efficiency to the rovibronic ground state by a stimulated four-photon process. Our results present a crucial step towards the generation of Bose-Einstein condensates of ground-state molecules and, when suitably generalized to polar heteronuclear molecules such as RbCs, the realization of dipolar many-body quantum-gas phases in periodic potentials. acknowledgement: "We thank H. Ritsch, N. Bouloufa, O. Dulieu, J. Aldegunde, J. M. Hutson, H. Salami, T. Bergeman, S. D ̈urr, and K. Bergmann for valuable discussions and H. Telle, H. Schnatz, B. Lipphardt, and J. Alnis for sharing technical expertise. We are indebted to R. Grimm for generous support. We gratefully acknowledge funding by the Austrian Ministry of Science and\r\nResearch (Bundesministerium f ̈ur Wissenschaft und Forschung) and the Austrian Science Fund\r\n(Fonds zur F ̈orderung der wissenschaftlichen Forschung) in the form of a START prize grant\r\nand by the European Science Foundation within the framework of the EuroQUASAR collective\r\nresearch project QuDeGPM (Project I 153-N16) and within the framework of the EuroQUAM\r\ncollective research project QuDipMol (Project I 124-N16). R.H. was supported by a Marie Curie\r\nInternational Incoming Fellowship within the 7th European Community Framework Programme" article_processing_charge: No author: - first_name: Hanns full_name: Nägerl, Hanns last_name: Nägerl - first_name: Manfred full_name: Mark, Manfred last_name: Mark - first_name: Elmar full_name: Haller, Elmar last_name: Haller - first_name: Mattias full_name: Gustavsson, Mattias last_name: Gustavsson - first_name: Russell full_name: Hart, Russell last_name: Hart - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 citation: ama: 'Nägerl H, Mark M, Haller E, Gustavsson M, Hart R, Danzl JG. Ultracold and dense samples of ground-state molecules in lattice potentials. Journal of Physics: Conference Series. 2011;264(1). doi:10.1088/1742-6596/264/1/012015' apa: 'Nägerl, H., Mark, M., Haller, E., Gustavsson, M., Hart, R., & Danzl, J. G. (2011). Ultracold and dense samples of ground-state molecules in lattice potentials. Journal of Physics: Conference Series. IOP Publishing Ltd. https://doi.org/10.1088/1742-6596/264/1/012015' chicago: 'Nägerl, Hanns, Manfred Mark, Elmar Haller, Mattias Gustavsson, Russell Hart, and Johann G Danzl. “Ultracold and Dense Samples of Ground-State Molecules in Lattice Potentials.” Journal of Physics: Conference Series. IOP Publishing Ltd., 2011. https://doi.org/10.1088/1742-6596/264/1/012015.' ieee: 'H. Nägerl, M. Mark, E. Haller, M. Gustavsson, R. Hart, and J. G. Danzl, “Ultracold and dense samples of ground-state molecules in lattice potentials,” Journal of Physics: Conference Series, vol. 264, no. 1. IOP Publishing Ltd., 2011.' ista: 'Nägerl H, Mark M, Haller E, Gustavsson M, Hart R, Danzl JG. 2011. Ultracold and dense samples of ground-state molecules in lattice potentials. Journal of Physics: Conference Series. 264(1).' mla: 'Nägerl, Hanns, et al. “Ultracold and Dense Samples of Ground-State Molecules in Lattice Potentials.” Journal of Physics: Conference Series, vol. 264, no. 1, IOP Publishing Ltd., 2011, doi:10.1088/1742-6596/264/1/012015.' short: 'H. Nägerl, M. Mark, E. Haller, M. Gustavsson, R. Hart, J.G. Danzl, Journal of Physics: Conference Series 264 (2011).' date_created: 2018-12-11T11:49:52Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:47:54Z day: '01' doi: 10.1088/1742-6596/264/1/012015 extern: '1' external_id: arxiv: - '1011.0179' intvolume: ' 264' issue: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1011.0179 month: '01' oa: 1 oa_version: Preprint publication: 'Journal of Physics: Conference Series' publication_status: published publisher: IOP Publishing Ltd. publist_id: '6340' status: public title: Ultracold and dense samples of ground-state molecules in lattice potentials type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 264 year: '2011' ... --- _id: '1052' abstract: - lang: eng text: The present paper aims at finding optimal parameters for trapping of Cs 2 molecules in optical lattices, with the perspective of creating a quantum degenerate gas of ground-state molecules. We have calculated dynamic polarizabilities of Cs 2 molecules subject to an oscillating electric field, using accurate potential curves and electronic transition dipole moments. We show that for some particular wavelengths of the optical lattice, called "magic wavelengths", the polarizability of the ground-state molecules is equal to the one of a Feshbach molecule. As the creation of the sample of ground-state molecules relies on an adiabatic population transfer from weakly-bound molecules created on a Feshbach resonance, such a coincidence ensures that both the initial and final states are favorably trapped by the lattice light, allowing optimized transfer in agreement with the experimental observation. acknowledgement: "We thank E. Haller for important contributions to the experimental work and R. Grimm for generous support. We acknowledge funding by the Austrian \ Science Fund (FWF) within\r\nproject Quantum Gases of Ground-State Molecules, \ project\r\nnumber P 21555-N20." article_processing_charge: No author: - first_name: Romain full_name: Vexiau, Romain last_name: Vexiau - first_name: Nadia full_name: Bouloufa, Nadia last_name: Bouloufa - first_name: Mireille full_name: Aymar, Mireille last_name: Aymar - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Manfred full_name: Mark, Manfred last_name: Mark - first_name: Hanns full_name: Nägerl, Hanns last_name: Nägerl - first_name: Olivier full_name: Dulieu, Olivier last_name: Dulieu citation: ama: Vexiau R, Bouloufa N, Aymar M, et al. Optimal trapping wavelengths of Cs 2 molecules in an optical lattice. European Physical Journal D. 2011;65(1-2):243-250. doi:10.1140/epjd/e2011-20085-4 apa: Vexiau, R., Bouloufa, N., Aymar, M., Danzl, J. G., Mark, M., Nägerl, H., & Dulieu, O. (2011). Optimal trapping wavelengths of Cs 2 molecules in an optical lattice. European Physical Journal D. Springer. https://doi.org/10.1140/epjd/e2011-20085-4 chicago: Vexiau, Romain, Nadia Bouloufa, Mireille Aymar, Johann G Danzl, Manfred Mark, Hanns Nägerl, and Olivier Dulieu. “Optimal Trapping Wavelengths of Cs 2 Molecules in an Optical Lattice.” European Physical Journal D. Springer, 2011. https://doi.org/10.1140/epjd/e2011-20085-4. ieee: R. Vexiau et al., “Optimal trapping wavelengths of Cs 2 molecules in an optical lattice,” European Physical Journal D, vol. 65, no. 1–2. Springer, pp. 243–250, 2011. ista: Vexiau R, Bouloufa N, Aymar M, Danzl JG, Mark M, Nägerl H, Dulieu O. 2011. Optimal trapping wavelengths of Cs 2 molecules in an optical lattice. European Physical Journal D. 65(1–2), 243–250. mla: Vexiau, Romain, et al. “Optimal Trapping Wavelengths of Cs 2 Molecules in an Optical Lattice.” European Physical Journal D, vol. 65, no. 1–2, Springer, 2011, pp. 243–50, doi:10.1140/epjd/e2011-20085-4. short: R. Vexiau, N. Bouloufa, M. Aymar, J.G. Danzl, M. Mark, H. Nägerl, O. Dulieu, European Physical Journal D 65 (2011) 243–250. date_created: 2018-12-11T11:49:53Z date_published: 2011-11-01T00:00:00Z date_updated: 2021-01-12T06:47:56Z day: '01' doi: 10.1140/epjd/e2011-20085-4 extern: '1' external_id: arxiv: - '1102.1793' intvolume: ' 65' issue: 1-2 language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1102.1793 month: '11' oa: 1 oa_version: Preprint page: 243 - 250 publication: European Physical Journal D publication_status: published publisher: Springer publist_id: '6336' status: public title: Optimal trapping wavelengths of Cs 2 molecules in an optical lattice type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 65 year: '2011' ... --- _id: '1051' abstract: - lang: eng text: We demonstrate the temporal Talbot effect for trapped matter waves using ultracold atoms in an optical lattice. We investigate the phase evolution of an array of essentially non-interacting matter waves and observe matter-wave collapse and revival in the form of a Talbot interference pattern. By using long expansion times, we image momentum space with sub-recoil resolution, allowing us to observe fractional Talbot fringes up to tenth order. acknowledgement: We are indebted to R Grimm for generous support and we thank A Daley for valuable discussions. We gratefully acknowledge funding by the Austrian Science Fund (FWF) within project I153-N16 and within the framework of the European Science Foundation (ESF) EuroQUASAR collective research project QuDeGPM. article_processing_charge: No author: - first_name: Manfred full_name: Mark, Manfred last_name: Mark - first_name: Elmar full_name: Haller, Elmar last_name: Haller - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Katharina full_name: Lauber, Katharina last_name: Lauber - first_name: Mattias full_name: Gustavsson, Mattias last_name: Gustavsson - first_name: Hanns full_name: Nägerl, Hanns last_name: Nägerl citation: ama: Mark M, Haller E, Danzl JG, Lauber K, Gustavsson M, Nägerl H. Demonstration of the temporal matter-wave Talbot effect for trapped matter waves. New Journal of Physics. 2011;13. doi:10.1088/1367-2630/13/8/085008 apa: Mark, M., Haller, E., Danzl, J. G., Lauber, K., Gustavsson, M., & Nägerl, H. (2011). Demonstration of the temporal matter-wave Talbot effect for trapped matter waves. New Journal of Physics. IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/13/8/085008 chicago: Mark, Manfred, Elmar Haller, Johann G Danzl, Katharina Lauber, Mattias Gustavsson, and Hanns Nägerl. “Demonstration of the Temporal Matter-Wave Talbot Effect for Trapped Matter Waves.” New Journal of Physics. IOP Publishing Ltd., 2011. https://doi.org/10.1088/1367-2630/13/8/085008. ieee: M. Mark, E. Haller, J. G. Danzl, K. Lauber, M. Gustavsson, and H. Nägerl, “Demonstration of the temporal matter-wave Talbot effect for trapped matter waves,” New Journal of Physics, vol. 13. IOP Publishing Ltd., 2011. ista: Mark M, Haller E, Danzl JG, Lauber K, Gustavsson M, Nägerl H. 2011. Demonstration of the temporal matter-wave Talbot effect for trapped matter waves. New Journal of Physics. 13. mla: Mark, Manfred, et al. “Demonstration of the Temporal Matter-Wave Talbot Effect for Trapped Matter Waves.” New Journal of Physics, vol. 13, IOP Publishing Ltd., 2011, doi:10.1088/1367-2630/13/8/085008. short: M. Mark, E. Haller, J.G. Danzl, K. Lauber, M. Gustavsson, H. Nägerl, New Journal of Physics 13 (2011). date_created: 2018-12-11T11:49:53Z date_published: 2011-08-01T00:00:00Z date_updated: 2021-01-12T06:47:56Z day: '01' doi: 10.1088/1367-2630/13/8/085008 extern: '1' intvolume: ' 13' language: - iso: eng month: '08' oa_version: None publication: New Journal of Physics publication_status: published publisher: IOP Publishing Ltd. publist_id: '6338' status: public title: Demonstration of the temporal matter-wave Talbot effect for trapped matter waves type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13 year: '2011' ... --- _id: '1053' abstract: - lang: eng text: We perform precision measurements on a Mott-insulator quantum state of ultracold atoms with tunable interactions. We probe the dependence of the superfluid-to-Mott-insulator transition on the interaction strength and explore the limits of the standard Bose-Hubbard model description. By tuning the on-site interaction energies to values comparable to the interband separation, we are able to quantitatively measure number-dependent shifts in the excitation spectrum caused by effective multibody interactions. acknowledgement: We are indebted to R. Grimm for generous support. We thank D. Boyanovsky, H. Büchler, P. Johnson, W. Niedenzu, and E. Tiesinga for fruitful discussions. We gratefully acknowledge funding by the Austrian Science Fund (FWF) within project I153-N16 and within the framework of the European Science Foundation (ESF) EuroQUASAR collective research project QuDeGPM. article_processing_charge: No author: - first_name: Manfred full_name: Mark, Manfred last_name: Mark - first_name: Elmar full_name: Haller, Elmar last_name: Haller - first_name: Katharina full_name: Lauber, Katharina last_name: Lauber - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Andrew full_name: Daley, Andrew last_name: Daley - first_name: Hanns full_name: Nägerl, Hanns last_name: Nägerl citation: ama: Mark M, Haller E, Lauber K, Danzl JG, Daley A, Nägerl H. Precision measurements on a tunable Mott insulator of ultracold atoms. Physical Review Letters. 2011;107(17). doi:10.1103/PhysRevLett.107.175301 apa: Mark, M., Haller, E., Lauber, K., Danzl, J. G., Daley, A., & Nägerl, H. (2011). Precision measurements on a tunable Mott insulator of ultracold atoms. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.107.175301 chicago: Mark, Manfred, Elmar Haller, Katharina Lauber, Johann G Danzl, Andrew Daley, and Hanns Nägerl. “Precision Measurements on a Tunable Mott Insulator of Ultracold Atoms.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.107.175301. ieee: M. Mark, E. Haller, K. Lauber, J. G. Danzl, A. Daley, and H. Nägerl, “Precision measurements on a tunable Mott insulator of ultracold atoms,” Physical Review Letters, vol. 107, no. 17. American Physical Society, 2011. ista: Mark M, Haller E, Lauber K, Danzl JG, Daley A, Nägerl H. 2011. Precision measurements on a tunable Mott insulator of ultracold atoms. Physical Review Letters. 107(17). mla: Mark, Manfred, et al. “Precision Measurements on a Tunable Mott Insulator of Ultracold Atoms.” Physical Review Letters, vol. 107, no. 17, American Physical Society, 2011, doi:10.1103/PhysRevLett.107.175301. short: M. Mark, E. Haller, K. Lauber, J.G. Danzl, A. Daley, H. Nägerl, Physical Review Letters 107 (2011). date_created: 2018-12-11T11:49:54Z date_published: 2011-10-18T00:00:00Z date_updated: 2021-01-12T06:47:56Z day: '18' doi: 10.1103/PhysRevLett.107.175301 extern: '1' external_id: arxiv: - '1107.1803' intvolume: ' 107' issue: '17' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1107.1803 month: '10' oa: 1 oa_version: Preprint publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '6337' status: public title: Precision measurements on a tunable Mott insulator of ultracold atoms type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 107 year: '2011' ... --- _id: '1054' abstract: - lang: eng text: We investigate local three-body correlations for bosonic particles in three dimensions and one dimension as a function of the interaction strength. The three-body correlation function g(3) is determined by measuring the three-body recombination rate in an ultracold gas of Cs atoms. In three dimensions, we measure the dependence of g(3) on the gas parameter in a BEC, finding good agreement with the theoretical prediction accounting for beyond-mean-field effects. In one dimension, we observe a reduction of g( 3) by several orders of magnitude upon increasing interactions from the weakly interacting BEC to the strongly interacting Tonks-Girardeau regime, in good agreement with predictions from the Lieb-Liniger model for all strengths of interaction. acknowledgement: We thank R. Grimm for generous support. We gratefully acknowledge funding by the Austrian Science Fund (FWF) within Project No. I153-N16 and within the framework of the European Science Foundation (ESF) EuroQUASAR collective research project QuDeGPM. G. P. acknowledges funding from the EU through NAME-QUAM and AQUTE. article_processing_charge: No author: - first_name: Elmar full_name: Haller, Elmar last_name: Haller - first_name: Mahmoud full_name: Rabie, Mahmoud last_name: Rabie - first_name: Manfred full_name: Mark, Manfred last_name: Mark - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 - first_name: Russell full_name: Hart, Russell last_name: Hart - first_name: Katharina full_name: Lauber, Katharina last_name: Lauber - first_name: Guido full_name: Pupillo, Guido last_name: Pupillo - first_name: Hanns full_name: Nägerl, Hanns last_name: Nägerl citation: ama: Haller E, Rabie M, Mark M, et al. Three-body correlation functions and recombination rates for bosons in three dimensions and one dimension. Physical Review Letters. 2011;107(23). doi:10.1103/PhysRevLett.107.230404 apa: Haller, E., Rabie, M., Mark, M., Danzl, J. G., Hart, R., Lauber, K., … Nägerl, H. (2011). Three-body correlation functions and recombination rates for bosons in three dimensions and one dimension. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.107.230404 chicago: Haller, Elmar, Mahmoud Rabie, Manfred Mark, Johann G Danzl, Russell Hart, Katharina Lauber, Guido Pupillo, and Hanns Nägerl. “Three-Body Correlation Functions and Recombination Rates for Bosons in Three Dimensions and One Dimension.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.107.230404. ieee: E. Haller et al., “Three-body correlation functions and recombination rates for bosons in three dimensions and one dimension,” Physical Review Letters, vol. 107, no. 23. American Physical Society, 2011. ista: Haller E, Rabie M, Mark M, Danzl JG, Hart R, Lauber K, Pupillo G, Nägerl H. 2011. Three-body correlation functions and recombination rates for bosons in three dimensions and one dimension. Physical Review Letters. 107(23). mla: Haller, Elmar, et al. “Three-Body Correlation Functions and Recombination Rates for Bosons in Three Dimensions and One Dimension.” Physical Review Letters, vol. 107, no. 23, American Physical Society, 2011, doi:10.1103/PhysRevLett.107.230404. short: E. Haller, M. Rabie, M. Mark, J.G. Danzl, R. Hart, K. Lauber, G. Pupillo, H. Nägerl, Physical Review Letters 107 (2011). date_created: 2018-12-11T11:49:54Z date_published: 2011-12-02T00:00:00Z date_updated: 2021-01-12T06:47:57Z day: '02' doi: 10.1103/PhysRevLett.107.230404 extern: '1' external_id: arxiv: - '1107.4516' intvolume: ' 107' issue: '23' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1107.4516 month: '12' oa: 1 oa_version: Preprint publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '6335' status: public title: Three-body correlation functions and recombination rates for bosons in three dimensions and one dimension type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 107 year: '2011' ... --- _id: '11094' abstract: - lang: eng text: Nuclear pore complexes (NPCs) assemble at the end of mitosis during nuclear envelope (NE) reformation and into an intact NE as cells progress through interphase. Although recent studies have shown that NPC formation occurs by two different molecular mechanisms at two distinct cell cycle stages, little is known about the molecular players that mediate the fusion of the outer and inner nuclear membranes to form pores. In this paper, we provide evidence that the transmembrane nucleoporin (Nup), POM121, but not the Nup107–160 complex, is present at new pore assembly sites at a time that coincides with inner nuclear membrane (INM) and outer nuclear membrane (ONM) fusion. Overexpression of POM121 resulted in juxtaposition of the INM and ONM. Additionally, Sun1, an INM protein that is known to interact with the cytoskeleton, was specifically required for interphase assembly and localized with POM121 at forming pores. We propose a model in which POM121 and Sun1 interact transiently to promote early steps of interphase NPC assembly. article_processing_charge: No article_type: original author: - first_name: Jessica A. full_name: Talamas, Jessica A. last_name: Talamas - first_name: Martin W full_name: HETZER, Martin W id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed last_name: HETZER orcid: 0000-0002-2111-992X citation: ama: Talamas JA, Hetzer M. POM121 and Sun1 play a role in early steps of interphase NPC assembly. Journal of Cell Biology. 2011;194(1):27-37. doi:10.1083/jcb.201012154 apa: Talamas, J. A., & Hetzer, M. (2011). POM121 and Sun1 play a role in early steps of interphase NPC assembly. Journal of Cell Biology. Rockefeller University Press. https://doi.org/10.1083/jcb.201012154 chicago: Talamas, Jessica A., and Martin Hetzer. “POM121 and Sun1 Play a Role in Early Steps of Interphase NPC Assembly.” Journal of Cell Biology. Rockefeller University Press, 2011. https://doi.org/10.1083/jcb.201012154. ieee: J. A. Talamas and M. Hetzer, “POM121 and Sun1 play a role in early steps of interphase NPC assembly,” Journal of Cell Biology, vol. 194, no. 1. Rockefeller University Press, pp. 27–37, 2011. ista: Talamas JA, Hetzer M. 2011. POM121 and Sun1 play a role in early steps of interphase NPC assembly. Journal of Cell Biology. 194(1), 27–37. mla: Talamas, Jessica A., and Martin Hetzer. “POM121 and Sun1 Play a Role in Early Steps of Interphase NPC Assembly.” Journal of Cell Biology, vol. 194, no. 1, Rockefeller University Press, 2011, pp. 27–37, doi:10.1083/jcb.201012154. short: J.A. Talamas, M. Hetzer, Journal of Cell Biology 194 (2011) 27–37. date_created: 2022-04-07T07:52:18Z date_published: 2011-07-04T00:00:00Z date_updated: 2022-07-18T08:53:46Z day: '04' doi: 10.1083/jcb.201012154 extern: '1' external_id: pmid: - '21727197' intvolume: ' 194' issue: '1' keyword: - Cell Biology language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1083/jcb.201012154 month: '07' oa: 1 oa_version: Published Version page: 27-37 pmid: 1 publication: Journal of Cell Biology publication_identifier: eissn: - 1540-8140 issn: - 0021-9525 publication_status: published publisher: Rockefeller University Press quality_controlled: '1' scopus_import: '1' status: public title: POM121 and Sun1 play a role in early steps of interphase NPC assembly type: journal_article user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd volume: 194 year: '2011' ... --- _id: '11096' abstract: - lang: eng text: As the gatekeepers of the eukaryotic cell nucleus, nuclear pore complexes (NPCs) mediate all molecular trafficking between the nucleoplasm and the cytoplasm. In recent years, transport-independent functions of NPC components, nucleoporins, have been identified including roles in chromatin organization and gene regulation. Here, we summarize our current view of the NPC as a dynamic hub for the integration of chromatin regulation and nuclear trafficking and discuss the functional interplay between nucleoporins and the nuclear genome. article_processing_charge: No article_type: original author: - first_name: Yun full_name: Liang, Yun last_name: Liang - first_name: Martin W full_name: HETZER, Martin W id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed last_name: HETZER orcid: 0000-0002-2111-992X citation: ama: Liang Y, Hetzer M. Functional interactions between nucleoporins and chromatin. Current Opinion in Cell Biology. 2011;23(1):65-70. doi:10.1016/j.ceb.2010.09.008 apa: Liang, Y., & Hetzer, M. (2011). Functional interactions between nucleoporins and chromatin. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2010.09.008 chicago: Liang, Yun, and Martin Hetzer. “Functional Interactions between Nucleoporins and Chromatin.” Current Opinion in Cell Biology. Elsevier, 2011. https://doi.org/10.1016/j.ceb.2010.09.008. ieee: Y. Liang and M. Hetzer, “Functional interactions between nucleoporins and chromatin,” Current Opinion in Cell Biology, vol. 23, no. 1. Elsevier, pp. 65–70, 2011. ista: Liang Y, Hetzer M. 2011. Functional interactions between nucleoporins and chromatin. Current Opinion in Cell Biology. 23(1), 65–70. mla: Liang, Yun, and Martin Hetzer. “Functional Interactions between Nucleoporins and Chromatin.” Current Opinion in Cell Biology, vol. 23, no. 1, Elsevier, 2011, pp. 65–70, doi:10.1016/j.ceb.2010.09.008. short: Y. Liang, M. Hetzer, Current Opinion in Cell Biology 23 (2011) 65–70. date_created: 2022-04-07T07:52:37Z date_published: 2011-02-01T00:00:00Z date_updated: 2022-07-18T08:53:48Z day: '01' doi: 10.1016/j.ceb.2010.09.008 extern: '1' external_id: pmid: - '21030234' intvolume: ' 23' issue: '1' keyword: - Cell Biology language: - iso: eng month: '02' oa_version: None page: 65-70 pmid: 1 publication: Current Opinion in Cell Biology publication_identifier: issn: - 0955-0674 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Functional interactions between nucleoporins and chromatin type: journal_article user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd volume: 23 year: '2011' ... --- _id: '11095' article_processing_charge: No article_type: letter_note author: - first_name: Martin W full_name: HETZER, Martin W id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed last_name: HETZER orcid: 0000-0002-2111-992X - first_name: Giacomo full_name: Cavalli, Giacomo last_name: Cavalli citation: ama: Hetzer M, Cavalli G. Editorial overview. Current Opinion in Cell Biology. 2011;23(3):255-257. doi:10.1016/j.ceb.2011.04.013 apa: Hetzer, M., & Cavalli, G. (2011). Editorial overview. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2011.04.013 chicago: Hetzer, Martin, and Giacomo Cavalli. “Editorial Overview.” Current Opinion in Cell Biology. Elsevier, 2011. https://doi.org/10.1016/j.ceb.2011.04.013. ieee: M. Hetzer and G. Cavalli, “Editorial overview,” Current Opinion in Cell Biology, vol. 23, no. 3. Elsevier, pp. 255–257, 2011. ista: Hetzer M, Cavalli G. 2011. Editorial overview. Current Opinion in Cell Biology. 23(3), 255–257. mla: Hetzer, Martin, and Giacomo Cavalli. “Editorial Overview.” Current Opinion in Cell Biology, vol. 23, no. 3, Elsevier, 2011, pp. 255–57, doi:10.1016/j.ceb.2011.04.013. short: M. Hetzer, G. Cavalli, Current Opinion in Cell Biology 23 (2011) 255–257. date_created: 2022-04-07T07:52:27Z date_published: 2011-06-01T00:00:00Z date_updated: 2022-07-18T08:39:40Z day: '01' doi: 10.1016/j.ceb.2011.04.013 extern: '1' external_id: pmid: - '21592757' intvolume: ' 23' issue: '3' keyword: - Cell Biology language: - iso: eng month: '06' oa_version: None page: 255-257 pmid: 1 publication: Current Opinion in Cell Biology publication_identifier: issn: - 0955-0674 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Editorial overview type: journal_article user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd volume: 23 year: '2011' ... --- _id: '11100' abstract: - lang: eng text: Eukaryotic cell function depends on the physical separation of nucleoplasmic and cytoplasmic components by the nuclear envelope (NE). Molecular communication between the two compartments involves active, signal-mediated trafficking, a function that is exclusively performed by nuclear pore complexes (NPCs). The individual NPC components and the mechanisms that are involved in nuclear trafficking are well documented and have become textbook knowledge. However, in addition to their roles as nuclear gatekeepers, NPC components-nucleoporins-have been shown to have critical roles in chromatin organization and gene regulation. These findings have sparked new enthusiasm to study the roles of this multiprotein complex in nuclear organization and explore novel functions that in some cases appear to go beyond a role in transport. Here, we discuss our present view of NPC biogenesis, which is tightly linked to proper cell cycle progression and cell differentiation. In addition, we summarize new data suggesting that NPCs represent dynamic hubs for the integration of gene regulation and nuclear transport processes. article_processing_charge: No article_type: original author: - first_name: M. full_name: Capelson, M. last_name: Capelson - first_name: C. full_name: Doucet, C. last_name: Doucet - first_name: Martin W full_name: HETZER, Martin W id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed last_name: HETZER orcid: 0000-0002-2111-992X citation: ama: 'Capelson M, Doucet C, Hetzer M. Nuclear pore complexes: Guardians of the nuclear genome. Cold Spring Harbor Symposia on Quantitative Biology. 2011;75:585-597. doi:10.1101/sqb.2010.75.059' apa: 'Capelson, M., Doucet, C., & Hetzer, M. (2011). Nuclear pore complexes: Guardians of the nuclear genome. Cold Spring Harbor Symposia on Quantitative Biology. Cold Spring Harbor Laboratory Press. https://doi.org/10.1101/sqb.2010.75.059' chicago: 'Capelson, M., C. Doucet, and Martin Hetzer. “Nuclear Pore Complexes: Guardians of the Nuclear Genome.” Cold Spring Harbor Symposia on Quantitative Biology. Cold Spring Harbor Laboratory Press, 2011. https://doi.org/10.1101/sqb.2010.75.059.' ieee: 'M. Capelson, C. Doucet, and M. Hetzer, “Nuclear pore complexes: Guardians of the nuclear genome,” Cold Spring Harbor Symposia on Quantitative Biology, vol. 75. Cold Spring Harbor Laboratory Press, pp. 585–597, 2011.' ista: 'Capelson M, Doucet C, Hetzer M. 2011. Nuclear pore complexes: Guardians of the nuclear genome. Cold Spring Harbor Symposia on Quantitative Biology. 75, 585–597.' mla: 'Capelson, M., et al. “Nuclear Pore Complexes: Guardians of the Nuclear Genome.” Cold Spring Harbor Symposia on Quantitative Biology, vol. 75, Cold Spring Harbor Laboratory Press, 2011, pp. 585–97, doi:10.1101/sqb.2010.75.059.' short: M. Capelson, C. Doucet, M. Hetzer, Cold Spring Harbor Symposia on Quantitative Biology 75 (2011) 585–597. date_created: 2022-04-07T07:53:18Z date_published: 2011-04-18T00:00:00Z date_updated: 2022-07-18T08:54:23Z day: '18' doi: 10.1101/sqb.2010.75.059 extern: '1' external_id: pmid: - '21502404' intvolume: ' 75' keyword: - Genetics - Molecular Biology - Biochemistry language: - iso: eng month: '04' oa_version: None page: 585-597 pmid: 1 publication: Cold Spring Harbor Symposia on Quantitative Biology publication_identifier: isbn: - '9781936113071' issn: - 0091-7451 - 1943-4456 publication_status: published publisher: Cold Spring Harbor Laboratory Press quality_controlled: '1' scopus_import: '1' status: public title: 'Nuclear pore complexes: Guardians of the nuclear genome' type: journal_article user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd volume: 75 year: '2011' ... --- _id: '112' abstract: - lang: eng text: Particle beams are important tools for probing atomic and molecular interactions. Here we demonstrate that particle beams also offer a unique opportunity to investigate interactions in macroscopic systems, such as granular media. Motivated by recent experiments on streams of grains that exhibit liquid-like breakup into droplets, we use molecular dynamics simulations to investigate the evolution of a dense stream of macroscopic spheres accelerating out of an opening at the bottom of a reservoir. We show how nanoscale details associated with energy dissipation during collisions modify the stream\'s macroscopic behavior. We find that inelastic collisions collimate the stream, while the presence of short-range attractive interactions drives structure formation. Parameterizing the collision dynamics by the coefficient of restitution (i.e., the ratio of relative velocities before and after impact) and the strength of the cohesive interaction, we map out a spectrum of behaviors that ranges from gaslike jets in which all grains drift apart to liquid-like streams that break into large droplets containing hundreds of grains. We also find a new, intermediate regime in which small aggregates form by capture from the gas phase, similar to what can be observed in molecular beams. Our results show that nearly all aspects of stream behavior are closely related to the velocity gradient associated with vertical free fall. Led by this observation, we propose a simple energy balance model to explain the droplet formation process. The qualitative as well as many quantitative features of the simulations and the model compare well with available experimental data and provide a first quantitative measure of the role of attractions in freely cooling granular streams. acknowledgement: This work was supported by the NSF through CBET-0933242. We acknowledge use of shared facilities provided by the Keck Facility for Ultrafast Imaging at the University of Chicago and by the Chicago MRSEC through NSF DMR-0820054. Software support by Itasca Consulting Group, Inc., under the Itasca Educational Partnership is gratefully acknowledged. H.G. thanks the German-American Fulbright Commission for fellowship support during his stay at the University of Chicago. article_number: '051302' author: - first_name: Scott R full_name: Waitukaitis, Scott R id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87 last_name: Waitukaitis orcid: 0000-0002-2299-3176 - first_name: Helge full_name: Grütjen, Helge last_name: Grütjen - first_name: John full_name: Royer, John last_name: Royer - first_name: Heinrich full_name: Jaeger, Heinrich last_name: Jaeger citation: ama: Waitukaitis SR, Grütjen H, Royer J, Jaeger H. Droplet and cluster formation in freely falling granular streams. Physical Review E. 2011;83(5). doi:10.1103/PhysRevE.83.051302 apa: Waitukaitis, S. R., Grütjen, H., Royer, J., & Jaeger, H. (2011). Droplet and cluster formation in freely falling granular streams. Physical Review E. American Physical Society. https://doi.org/10.1103/PhysRevE.83.051302 chicago: Waitukaitis, Scott R, Helge Grütjen, John Royer, and Heinrich Jaeger. “Droplet and Cluster Formation in Freely Falling Granular Streams.” Physical Review E. American Physical Society, 2011. https://doi.org/10.1103/PhysRevE.83.051302. ieee: S. R. Waitukaitis, H. Grütjen, J. Royer, and H. Jaeger, “Droplet and cluster formation in freely falling granular streams,” Physical Review E, vol. 83, no. 5. American Physical Society, 2011. ista: Waitukaitis SR, Grütjen H, Royer J, Jaeger H. 2011. Droplet and cluster formation in freely falling granular streams. Physical Review E. 83(5), 051302. mla: Waitukaitis, Scott R., et al. “Droplet and Cluster Formation in Freely Falling Granular Streams.” Physical Review E, vol. 83, no. 5, 051302, American Physical Society, 2011, doi:10.1103/PhysRevE.83.051302. short: S.R. Waitukaitis, H. Grütjen, J. Royer, H. Jaeger, Physical Review E 83 (2011). date_created: 2018-12-11T11:44:41Z date_published: 2011-05-12T00:00:00Z date_updated: 2021-01-12T06:48:25Z day: '12' doi: 10.1103/PhysRevE.83.051302 extern: '1' external_id: arxiv: - '1006.1371' intvolume: ' 83' issue: '5' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1006.1371 month: '05' oa: 1 oa_version: Preprint publication: Physical Review E publication_status: published publisher: American Physical Society publist_id: '7942' quality_controlled: '1' status: public title: Droplet and cluster formation in freely falling granular streams type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 83 year: '2011' ... --- _id: '11673' abstract: - lang: eng text: Given only the URL of a Web page, can we identify its topic? We study this problem in detail by exploring a large number of different feature sets and algorithms on several datasets. We also show that the inherent overlap between topics and the sparsity of the information in URLs makes this a very challenging problem. Web page classification without a page’s content is desirable when the content is not available at all, when a classification is needed before obtaining the content, or when classification speed is of utmost importance. For our experiments we used five different corpora comprising a total of about 3 million (URL, classification) pairs. We evaluated several techniques for feature generation and classification algorithms. The individual binary classifiers were then combined via boosting into metabinary classifiers. We achieve typical F-measure values between 80 and 85, and a typical precision of around 86. The precision can be pushed further over 90 while maintaining a typical level of recall between 30 and 40. article_number: '15' article_processing_charge: No article_type: original author: - first_name: Eda full_name: Baykan, Eda last_name: Baykan - first_name: Monika H full_name: Henzinger, Monika H id: 540c9bbd-f2de-11ec-812d-d04a5be85630 last_name: Henzinger orcid: 0000-0002-5008-6530 - first_name: Ludmila full_name: Marian, Ludmila last_name: Marian - first_name: Ingmar full_name: Weber, Ingmar last_name: Weber citation: ama: Baykan E, Henzinger MH, Marian L, Weber I. A comprehensive study of features and algorithms for URL-based topic classification. ACM Transactions on the Web. 2011;5(3). doi:10.1145/1993053.1993057 apa: Baykan, E., Henzinger, M. H., Marian, L., & Weber, I. (2011). A comprehensive study of features and algorithms for URL-based topic classification. ACM Transactions on the Web. Association for Computing Machinery. https://doi.org/10.1145/1993053.1993057 chicago: Baykan, Eda, Monika H Henzinger, Ludmila Marian, and Ingmar Weber. “A Comprehensive Study of Features and Algorithms for URL-Based Topic Classification.” ACM Transactions on the Web. Association for Computing Machinery, 2011. https://doi.org/10.1145/1993053.1993057. ieee: E. Baykan, M. H. Henzinger, L. Marian, and I. Weber, “A comprehensive study of features and algorithms for URL-based topic classification,” ACM Transactions on the Web, vol. 5, no. 3. Association for Computing Machinery, 2011. ista: Baykan E, Henzinger MH, Marian L, Weber I. 2011. A comprehensive study of features and algorithms for URL-based topic classification. ACM Transactions on the Web. 5(3), 15. mla: Baykan, Eda, et al. “A Comprehensive Study of Features and Algorithms for URL-Based Topic Classification.” ACM Transactions on the Web, vol. 5, no. 3, 15, Association for Computing Machinery, 2011, doi:10.1145/1993053.1993057. short: E. Baykan, M.H. Henzinger, L. Marian, I. Weber, ACM Transactions on the Web 5 (2011). date_created: 2022-07-27T13:48:11Z date_published: 2011-07-01T00:00:00Z date_updated: 2022-09-12T08:46:56Z day: '01' doi: 10.1145/1993053.1993057 extern: '1' intvolume: ' 5' issue: '3' keyword: - Topic classification - URL - ODP language: - iso: eng month: '07' oa_version: None publication: ACM Transactions on the Web publication_identifier: eissn: - 1559-114X issn: - 1559-1131 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' scopus_import: '1' status: public title: A comprehensive study of features and algorithms for URL-based topic classification type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 5 year: '2011' ... --- _id: '11760' abstract: - lang: eng text: "We study a novel load balancing problem that arises in web search engines. The problem is a combination of an offline assignment problem, where files need to be (copied and) assigned to machines, and an online load balancing problem, where requests ask for specific files and need to be assigned to a corresponding machine, whose load is increased\r\nby this. We present simple deterministic algorithms for this problem and exhibit an interesting trade-off between the available space to make file copies and the obtainable makespan. We also give non-trivial lower bounds for a large class of deterministic algorithms and present a randomized algorithm that beats these bounds with high probability." article_processing_charge: No article_type: original author: - first_name: Paul full_name: Dütting, Paul last_name: Dütting - first_name: Monika H full_name: Henzinger, Monika H id: 540c9bbd-f2de-11ec-812d-d04a5be85630 last_name: Henzinger orcid: 0000-0002-5008-6530 - first_name: Ingmar full_name: Weber, Ingmar last_name: Weber citation: ama: Dütting P, Henzinger MH, Weber I. Offline file assignments for online load balancing. Information Processing Letters. 2011;111(4):178-183. doi:10.1016/j.ipl.2010.11.022 apa: Dütting, P., Henzinger, M. H., & Weber, I. (2011). Offline file assignments for online load balancing. Information Processing Letters. Elsevier. https://doi.org/10.1016/j.ipl.2010.11.022 chicago: Dütting, Paul, Monika H Henzinger, and Ingmar Weber. “Offline File Assignments for Online Load Balancing.” Information Processing Letters. Elsevier, 2011. https://doi.org/10.1016/j.ipl.2010.11.022. ieee: P. Dütting, M. H. Henzinger, and I. Weber, “Offline file assignments for online load balancing,” Information Processing Letters, vol. 111, no. 4. Elsevier, pp. 178–183, 2011. ista: Dütting P, Henzinger MH, Weber I. 2011. Offline file assignments for online load balancing. Information Processing Letters. 111(4), 178–183. mla: Dütting, Paul, et al. “Offline File Assignments for Online Load Balancing.” Information Processing Letters, vol. 111, no. 4, Elsevier, 2011, pp. 178–83, doi:10.1016/j.ipl.2010.11.022. short: P. Dütting, M.H. Henzinger, I. Weber, Information Processing Letters 111 (2011) 178–183. date_created: 2022-08-08T11:33:03Z date_published: 2011-01-15T00:00:00Z date_updated: 2022-09-12T09:38:05Z day: '15' doi: 10.1016/j.ipl.2010.11.022 extern: '1' intvolume: ' 111' issue: '4' language: - iso: eng month: '01' oa_version: None page: 178-183 publication: Information Processing Letters publication_identifier: issn: - 0020-0190 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: Offline file assignments for online load balancing type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 111 year: '2011' ... --- _id: '11796' abstract: - lang: eng text: "The design of truthful auctions that approximate the optimal expected revenue is a central problem in algorithmic mechanism design. 30 years after Myerson’s characterization of Bayesian optimal auctions in single-parameter domains [8], characterizing but also providing efficient mechanisms for multi-parameter domains still remains a very important unsolved problem. Our work improves upon recent results in this area, introducing new techniques for tackling the problem, while also combining and extending recently introduced tools.\r\n\r\nIn particular we give the first approximation algorithms for Bayesian auctions with multiple heterogeneous items when bidders have additive valuations, budget constraints and general matroid feasibility constraints." alternative_title: - LNCS article_processing_charge: No author: - first_name: Monika H full_name: Henzinger, Monika H id: 540c9bbd-f2de-11ec-812d-d04a5be85630 last_name: Henzinger orcid: 0000-0002-5008-6530 - first_name: Angelina full_name: Vidali, Angelina last_name: Vidali citation: ama: 'Henzinger MH, Vidali A. Multi-parameter mechanism design under budget and matroid constraints. In: 19th Annual European Symposium on Algorithms. Vol 6942. Springer Nature; 2011:192–202. doi:10.1007/978-3-642-23719-5_17' apa: 'Henzinger, M. H., & Vidali, A. (2011). Multi-parameter mechanism design under budget and matroid constraints. In 19th Annual European Symposium on Algorithms (Vol. 6942, pp. 192–202). Saarbrücken, Germany: Springer Nature. https://doi.org/10.1007/978-3-642-23719-5_17' chicago: Henzinger, Monika H, and Angelina Vidali. “Multi-Parameter Mechanism Design under Budget and Matroid Constraints.” In 19th Annual European Symposium on Algorithms, 6942:192–202. Springer Nature, 2011. https://doi.org/10.1007/978-3-642-23719-5_17. ieee: M. H. Henzinger and A. Vidali, “Multi-parameter mechanism design under budget and matroid constraints,” in 19th Annual European Symposium on Algorithms, Saarbrücken, Germany, 2011, vol. 6942, pp. 192–202. ista: 'Henzinger MH, Vidali A. 2011. Multi-parameter mechanism design under budget and matroid constraints. 19th Annual European Symposium on Algorithms. ESA: European Symposium on Algorithms, LNCS, vol. 6942, 192–202.' mla: Henzinger, Monika H., and Angelina Vidali. “Multi-Parameter Mechanism Design under Budget and Matroid Constraints.” 19th Annual European Symposium on Algorithms, vol. 6942, Springer Nature, 2011, pp. 192–202, doi:10.1007/978-3-642-23719-5_17. short: M.H. Henzinger, A. Vidali, in:, 19th Annual European Symposium on Algorithms, Springer Nature, 2011, pp. 192–202. conference: end_date: 2011-09-09 location: Saarbrücken, Germany name: 'ESA: European Symposium on Algorithms' start_date: 2011-09-05 date_created: 2022-08-11T11:51:39Z date_published: 2011-09-01T00:00:00Z date_updated: 2023-02-13T11:32:41Z day: '01' doi: 10.1007/978-3-642-23719-5_17 extern: '1' intvolume: ' 6942' language: - iso: eng month: '09' oa_version: None page: 192–202 publication: 19th Annual European Symposium on Algorithms publication_identifier: isbn: - '9783642237188' issn: - 1611-3349 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Multi-parameter mechanism design under budget and matroid constraints type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 6942 year: '2011' ... --- _id: '11864' abstract: - lang: eng text: Auctions are widely used on the Web. Applications range from internet advertising to platforms such as eBay. In most of these applications the auctions in use are single/multi-item auctions with unit demand. The main drawback of standard mechanisms for this type of auctions, such as VCG and GSP, is the limited expressiveness that they offer to the bidders. The General Auction Mechanism (GAM) of [1] is taking a first step towards addressing the problem of limited expressiveness by computing a bidder optimal, envy free outcome for linear utility functions with identical slopes and a single discontinuity per bidder-item pair. We show that in many practical situations this does not suffice to adequately model the preferences of the bidders, and we overcome this problem by presenting the first mechanism for piece-wise linear utility functions with non-identical slopes and multiple discontinuities. Our mechanism runs in polynomial time. Like GAM it is incentive compatible for inputs that fulfill a certain non-degeneracy requirement, but our requirement is more general than the requirement of GAM. For discontinuous utility functions that are non-degenerate as well as for continuous utility functions the outcome of our mechanism is a competitive equilibrium. We also show how our mechanism can be used to compute approximately bidder optimal, envy free outcomes for a general class of continuous utility functions via piece-wise linear approximation. Finally, we prove hardness results for even more expressive settings. article_processing_charge: No author: - first_name: Paul full_name: Dütting, Paul last_name: Dütting - first_name: Monika H full_name: Henzinger, Monika H id: 540c9bbd-f2de-11ec-812d-d04a5be85630 last_name: Henzinger orcid: 0000-0002-5008-6530 - first_name: Ingmar full_name: Weber, Ingmar last_name: Weber citation: ama: 'Dütting P, Henzinger MH, Weber I. An expressive mechanism for auctions on the web. In: Proceedings of the 20th International Conference on World Wide Web. Association for Computing Machinery; 2011:127-136. doi:10.1145/1963405.1963427' apa: 'Dütting, P., Henzinger, M. H., & Weber, I. (2011). An expressive mechanism for auctions on the web. In Proceedings of the 20th international conference on World wide web (pp. 127–136). Hyderabad, India: Association for Computing Machinery. https://doi.org/10.1145/1963405.1963427' chicago: Dütting, Paul, Monika H Henzinger, and Ingmar Weber. “An Expressive Mechanism for Auctions on the Web.” In Proceedings of the 20th International Conference on World Wide Web, 127–36. Association for Computing Machinery, 2011. https://doi.org/10.1145/1963405.1963427. ieee: P. Dütting, M. H. Henzinger, and I. Weber, “An expressive mechanism for auctions on the web,” in Proceedings of the 20th international conference on World wide web, Hyderabad, India, 2011, pp. 127–136. ista: 'Dütting P, Henzinger MH, Weber I. 2011. An expressive mechanism for auctions on the web. Proceedings of the 20th international conference on World wide web. WWW: International Conference on World Wide Web, 127–136.' mla: Dütting, Paul, et al. “An Expressive Mechanism for Auctions on the Web.” Proceedings of the 20th International Conference on World Wide Web, Association for Computing Machinery, 2011, pp. 127–36, doi:10.1145/1963405.1963427. short: P. Dütting, M.H. Henzinger, I. Weber, in:, Proceedings of the 20th International Conference on World Wide Web, Association for Computing Machinery, 2011, pp. 127–136. conference: end_date: 2011-04-01 location: Hyderabad, India name: 'WWW: International Conference on World Wide Web' start_date: 2011-03-28 date_created: 2022-08-16T09:05:34Z date_published: 2011-04-01T00:00:00Z date_updated: 2023-02-17T10:21:18Z day: '01' doi: 10.1145/1963405.1963427 extern: '1' language: - iso: eng month: '04' oa_version: None page: 127 - 136 publication: Proceedings of the 20th international conference on World wide web publication_identifier: isbn: - 978-145030632-4 publication_status: published publisher: Association for Computing Machinery quality_controlled: '1' scopus_import: '1' status: public title: An expressive mechanism for auctions on the web type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2011' ... --- _id: '12651' abstract: - lang: eng text: Temperature data from three Automatic Weather Stations and twelve Temperature Loggers are used to investigate the spatiotemporal variability of temperature over a glacier, its main atmospheric controls, the suitability of extrapolation techniques and their effect on melt modeling. We use data collected on Juncal Norte Glacier, central Chile, during one ablation season. We examine temporal and spatial variability in lapse rates (LRs), together with alternative statistical interpolation methods. The main control over the glacier thermal regime is the development of a katabatic boundary layer (KBL). Katabatic wind occurs at night and in the morning and is eroded in the afternoon. LRs reveal strong diurnal variability, with steeper LRs during the day when the katabatic wind weakens and shallower LRs during the night and morning. We suggest that temporally variable LRs should be used to account for the observed change. They tend to be steeper than equivalent constant LRs, and therefore result in a reduction in simulated melt compared to use of constant LRs when extrapolating from lower to higher elevations. In addition to the temporal variability, the temperature-elevation relationship varies also in space. Differences are evident between local LRs and including such variability in melt modeling affects melt simulations. Extrapolation methods based on the spatial variability of the observations after removal of the elevation trend, such as Inverse Distance Weighting or Kriging, do not seem necessary for simulations of gridded temperature data over a glacier. article_number: D23109 article_processing_charge: No article_type: original author: - first_name: L. full_name: Petersen, L. last_name: Petersen - first_name: Francesca full_name: Pellicciotti, Francesca id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70 last_name: Pellicciotti citation: ama: 'Petersen L, Pellicciotti F. Spatial and temporal variability of air temperature on a melting glacier: Atmospheric controls, extrapolation methods and their effect on melt modeling, Juncal Norte Glacier, Chile. Journal of Geophysical Research: Atmospheres. 2011;116(D23). doi:10.1029/2011jd015842' apa: 'Petersen, L., & Pellicciotti, F. (2011). Spatial and temporal variability of air temperature on a melting glacier: Atmospheric controls, extrapolation methods and their effect on melt modeling, Juncal Norte Glacier, Chile. Journal of Geophysical Research: Atmospheres. American Geophysical Union. https://doi.org/10.1029/2011jd015842' chicago: 'Petersen, L., and Francesca Pellicciotti. “Spatial and Temporal Variability of Air Temperature on a Melting Glacier: Atmospheric Controls, Extrapolation Methods and Their Effect on Melt Modeling, Juncal Norte Glacier, Chile.” Journal of Geophysical Research: Atmospheres. American Geophysical Union, 2011. https://doi.org/10.1029/2011jd015842.' ieee: 'L. Petersen and F. Pellicciotti, “Spatial and temporal variability of air temperature on a melting glacier: Atmospheric controls, extrapolation methods and their effect on melt modeling, Juncal Norte Glacier, Chile,” Journal of Geophysical Research: Atmospheres, vol. 116, no. D23. American Geophysical Union, 2011.' ista: 'Petersen L, Pellicciotti F. 2011. Spatial and temporal variability of air temperature on a melting glacier: Atmospheric controls, extrapolation methods and their effect on melt modeling, Juncal Norte Glacier, Chile. Journal of Geophysical Research: Atmospheres. 116(D23), D23109.' mla: 'Petersen, L., and Francesca Pellicciotti. “Spatial and Temporal Variability of Air Temperature on a Melting Glacier: Atmospheric Controls, Extrapolation Methods and Their Effect on Melt Modeling, Juncal Norte Glacier, Chile.” Journal of Geophysical Research: Atmospheres, vol. 116, no. D23, D23109, American Geophysical Union, 2011, doi:10.1029/2011jd015842.' short: 'L. Petersen, F. Pellicciotti, Journal of Geophysical Research: Atmospheres 116 (2011).' date_created: 2023-02-20T08:18:14Z date_published: 2011-12-16T00:00:00Z date_updated: 2023-02-20T10:29:44Z day: '16' doi: 10.1029/2011jd015842 extern: '1' intvolume: ' 116' issue: D23 keyword: - Paleontology - Space and Planetary Science - Earth and Planetary Sciences (miscellaneous) - Atmospheric Science - Earth-Surface Processes - Geochemistry and Petrology - Soil Science - Water Science and Technology - Ecology - Aquatic Science - Forestry - Oceanography - Geophysics language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1029/2011JD01584 month: '12' oa: 1 oa_version: Published Version publication: 'Journal of Geophysical Research: Atmospheres' publication_identifier: issn: - 0148-0227 publication_status: published publisher: American Geophysical Union quality_controlled: '1' scopus_import: '1' status: public title: 'Spatial and temporal variability of air temperature on a melting glacier: Atmospheric controls, extrapolation methods and their effect on melt modeling, Juncal Norte Glacier, Chile' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 116 year: '2011' ... --- _id: '12649' abstract: - lang: eng text: Physically based hydrological models describe natural processes more accurately than conceptual models but require extensive data sets to produce accurate results. To identify the value of different data sets for improving the performance of the distributed hydrological model TOPKAPI we combine a multivariable validation technique with Monte Carlo simulations. The study is carried out in the snow and ice-dominated Rhonegletscher basin, as these types of mountainous basins are generally the most critical with respect to data availability and sensitivity to climate fluctuations. Each observational data set is used individually and in combination with the other data sets to determine a subset of best parameter combinations out of 10,000 Monte Carlos runs performed with randomly generated parameter sets. We validate model results against discharge, glacier mass balance, and satellite snow cover images for a 14 year time period (1994–2007). While the use of all data sets combined provides the best overall model performance (defined by the concurrent best agreement of simulated discharge, snow cover and mass balance with their respective measurements), the use of one or two variables for constraining the model results in poorer performance. Using only one data set for constraining the model glacier mass balance proved to be the most efficient observation leading to the best overall model performance. Our main result is that a combination of discharge and satellite snow cover images is best for improving model performance, since the volumetric information of discharge data and the spatial information of snow cover images are complementary. article_number: W07519 article_processing_charge: No article_type: original author: - first_name: David full_name: Finger, David last_name: Finger - first_name: Francesca full_name: Pellicciotti, Francesca id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70 last_name: Pellicciotti - first_name: Markus full_name: Konz, Markus last_name: Konz - first_name: Stefan full_name: Rimkus, Stefan last_name: Rimkus - first_name: Paolo full_name: Burlando, Paolo last_name: Burlando citation: ama: Finger D, Pellicciotti F, Konz M, Rimkus S, Burlando P. The value of glacier mass balance, satellite snow cover images, and hourly discharge for improving the performance of a physically based distributed hydrological model. Water Resources Research. 2011;47(7). doi:10.1029/2010wr009824 apa: Finger, D., Pellicciotti, F., Konz, M., Rimkus, S., & Burlando, P. (2011). The value of glacier mass balance, satellite snow cover images, and hourly discharge for improving the performance of a physically based distributed hydrological model. Water Resources Research. American Geophysical Union. https://doi.org/10.1029/2010wr009824 chicago: Finger, David, Francesca Pellicciotti, Markus Konz, Stefan Rimkus, and Paolo Burlando. “The Value of Glacier Mass Balance, Satellite Snow Cover Images, and Hourly Discharge for Improving the Performance of a Physically Based Distributed Hydrological Model.” Water Resources Research. American Geophysical Union, 2011. https://doi.org/10.1029/2010wr009824. ieee: D. Finger, F. Pellicciotti, M. Konz, S. Rimkus, and P. Burlando, “The value of glacier mass balance, satellite snow cover images, and hourly discharge for improving the performance of a physically based distributed hydrological model,” Water Resources Research, vol. 47, no. 7. American Geophysical Union, 2011. ista: Finger D, Pellicciotti F, Konz M, Rimkus S, Burlando P. 2011. The value of glacier mass balance, satellite snow cover images, and hourly discharge for improving the performance of a physically based distributed hydrological model. Water Resources Research. 47(7), W07519. mla: Finger, David, et al. “The Value of Glacier Mass Balance, Satellite Snow Cover Images, and Hourly Discharge for Improving the Performance of a Physically Based Distributed Hydrological Model.” Water Resources Research, vol. 47, no. 7, W07519, American Geophysical Union, 2011, doi:10.1029/2010wr009824. short: D. Finger, F. Pellicciotti, M. Konz, S. Rimkus, P. Burlando, Water Resources Research 47 (2011). date_created: 2023-02-20T08:18:03Z date_published: 2011-07-01T00:00:00Z date_updated: 2023-02-20T10:39:57Z day: '01' doi: 10.1029/2010wr009824 extern: '1' intvolume: ' 47' issue: '7' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1029/2010WR009824 month: '07' oa: 1 oa_version: Published Version publication: Water Resources Research publication_identifier: issn: - 0043-1397 publication_status: published publisher: American Geophysical Union quality_controlled: '1' scopus_import: '1' status: public title: The value of glacier mass balance, satellite snow cover images, and hourly discharge for improving the performance of a physically based distributed hydrological model type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 47 year: '2011' ... --- _id: '12652' abstract: - lang: eng text: We explore the robustness and transferability of parameterizations of cloud radiative forcing used in glacier melt models at two sites in the Swiss Alps. We also look at the rationale behind some of the most commonly used approaches, and explore the relationship between cloud transmittance and several standard meteorological variables. The 2 m air-temperature diurnal range is the best predictor of variations in cloud transmittance. However, linear and exponential parameterizations can only explain 30–50% of the observed variance in computed cloud transmittance factors. We examine the impact of modelled cloud transmittance factors on both solar radiation and ablation rates computed with an enhanced temperature-index model. The melt model performance decreases when modelled radiation is used, the reduction being due to an underestimation of incoming solar radiation on clear-sky days. The model works well under overcast conditions. We also seek alternatives to the use of in situ ground data. However, outputs from an atmospheric model (2.2 km horizontal resolution) do not seem to provide an alternative to the parameterizations of cloud radiative forcing based on observations of air temperature at glacier automatic weather stations. Conversely, the correct definition of overcast conditions is important. article_processing_charge: No article_type: original author: - first_name: Francesca full_name: Pellicciotti, Francesca id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70 last_name: Pellicciotti - first_name: Thomas full_name: Raschle, Thomas last_name: Raschle - first_name: Thomas full_name: Huerlimann, Thomas last_name: Huerlimann - first_name: Marco full_name: Carenzo, Marco last_name: Carenzo - first_name: Paolo full_name: Burlando, Paolo last_name: Burlando citation: ama: 'Pellicciotti F, Raschle T, Huerlimann T, Carenzo M, Burlando P. Transmission of solar radiation through clouds on melting glaciers: A comparison of parameterizations and their impact on melt modelling. Journal of Glaciology. 2011;57(202):367-381. doi:10.3189/002214311796406013' apa: 'Pellicciotti, F., Raschle, T., Huerlimann, T., Carenzo, M., & Burlando, P. (2011). Transmission of solar radiation through clouds on melting glaciers: A comparison of parameterizations and their impact on melt modelling. Journal of Glaciology. Cambridge University Press. https://doi.org/10.3189/002214311796406013' chicago: 'Pellicciotti, Francesca, Thomas Raschle, Thomas Huerlimann, Marco Carenzo, and Paolo Burlando. “Transmission of Solar Radiation through Clouds on Melting Glaciers: A Comparison of Parameterizations and Their Impact on Melt Modelling.” Journal of Glaciology. Cambridge University Press, 2011. https://doi.org/10.3189/002214311796406013.' ieee: 'F. Pellicciotti, T. Raschle, T. Huerlimann, M. Carenzo, and P. Burlando, “Transmission of solar radiation through clouds on melting glaciers: A comparison of parameterizations and their impact on melt modelling,” Journal of Glaciology, vol. 57, no. 202. Cambridge University Press, pp. 367–381, 2011.' ista: 'Pellicciotti F, Raschle T, Huerlimann T, Carenzo M, Burlando P. 2011. Transmission of solar radiation through clouds on melting glaciers: A comparison of parameterizations and their impact on melt modelling. Journal of Glaciology. 57(202), 367–381.' mla: 'Pellicciotti, Francesca, et al. “Transmission of Solar Radiation through Clouds on Melting Glaciers: A Comparison of Parameterizations and Their Impact on Melt Modelling.” Journal of Glaciology, vol. 57, no. 202, Cambridge University Press, 2011, pp. 367–81, doi:10.3189/002214311796406013.' short: F. Pellicciotti, T. Raschle, T. Huerlimann, M. Carenzo, P. Burlando, Journal of Glaciology 57 (2011) 367–381. date_created: 2023-02-20T08:18:21Z date_published: 2011-03-01T00:00:00Z date_updated: 2023-02-20T09:47:00Z day: '01' doi: 10.3189/002214311796406013 extern: '1' intvolume: ' 57' issue: '202' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.3189/002214311796406013 month: '03' oa: 1 oa_version: Published Version page: 367-381 publication: Journal of Glaciology publication_identifier: eissn: - 1727-5652 issn: - 0022-1430 publication_status: published publisher: Cambridge University Press quality_controlled: '1' scopus_import: '1' status: public title: 'Transmission of solar radiation through clouds on melting glaciers: A comparison of parameterizations and their impact on melt modelling' type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 57 year: '2011' ... --- _id: '12650' abstract: - lang: eng text: Streamflow is a hydrological variable measured at a defined river cross-section; it spatially integrates the runoff generating processes in the contributing watershed, including precipitation and air temperature. Trends in streamflow are progressive changes in the time series of streamflow that can be detected with statistical methods and their statistical significance can be assessed. Mountainous regions are particularly vulnerable to streamflow change because of their high specific runoff and the sensitivity to the distribution of precipitation and air temperature, and the processes of snow accumulation and melt. alternative_title: - Encyclopedia of Earth Sciences Series article_processing_charge: No author: - first_name: Peter full_name: Molnar, Peter last_name: Molnar - first_name: Paolo full_name: Burlando, Paolo last_name: Burlando - first_name: Francesca full_name: Pellicciotti, Francesca id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70 last_name: Pellicciotti citation: ama: 'Molnar P, Burlando P, Pellicciotti F. Streamflow Trends in Mountainous Regions. In: Singh V, Singh P, Haritashya U, eds. Encyclopedia of Snow, Ice and Glaciers. 1st ed. Dordrecht: Springer Nature; 2011:1084-1089. doi:10.1007/978-90-481-2642-2_543' apa: 'Molnar, P., Burlando, P., & Pellicciotti, F. (2011). Streamflow Trends in Mountainous Regions. In V. Singh, P. Singh, & U. Haritashya (Eds.), Encyclopedia of Snow, Ice and Glaciers (1st ed., pp. 1084–1089). Dordrecht: Springer Nature. https://doi.org/10.1007/978-90-481-2642-2_543' chicago: 'Molnar, Peter, Paolo Burlando, and Francesca Pellicciotti. “Streamflow Trends in Mountainous Regions.” In Encyclopedia of Snow, Ice and Glaciers, edited by Vijay Singh, Pratap Singh, and Umesh Haritashya, 1st ed., 1084–89. Dordrecht: Springer Nature, 2011. https://doi.org/10.1007/978-90-481-2642-2_543.' ieee: 'P. Molnar, P. Burlando, and F. Pellicciotti, “Streamflow Trends in Mountainous Regions,” in Encyclopedia of Snow, Ice and Glaciers, 1st ed., V. Singh, P. Singh, and U. Haritashya, Eds. Dordrecht: Springer Nature, 2011, pp. 1084–1089.' ista: 'Molnar P, Burlando P, Pellicciotti F. 2011.Streamflow Trends in Mountainous Regions. In: Encyclopedia of Snow, Ice and Glaciers. Encyclopedia of Earth Sciences Series, , 1084–1089.' mla: Molnar, Peter, et al. “Streamflow Trends in Mountainous Regions.” Encyclopedia of Snow, Ice and Glaciers, edited by Vijay Singh et al., 1st ed., Springer Nature, 2011, pp. 1084–89, doi:10.1007/978-90-481-2642-2_543. short: P. Molnar, P. Burlando, F. Pellicciotti, in:, V. Singh, P. Singh, U. Haritashya (Eds.), Encyclopedia of Snow, Ice and Glaciers, 1st ed., Springer Nature, Dordrecht, 2011, pp. 1084–1089. date_created: 2023-02-20T08:18:07Z date_published: 2011-07-01T00:00:00Z date_updated: 2023-02-20T10:35:28Z day: '01' doi: 10.1007/978-90-481-2642-2_543 edition: '1' editor: - first_name: Vijay full_name: Singh, Vijay last_name: Singh - first_name: Pratap full_name: Singh, Pratap last_name: Singh - first_name: Umesh full_name: Haritashya, Umesh last_name: Haritashya extern: '1' language: - iso: eng month: '07' oa_version: None page: 1084-1089 place: Dordrecht publication: Encyclopedia of Snow, Ice and Glaciers publication_identifier: eisbn: - 978-90-481-2642-2 eissn: - 1871-756X isbn: - 978-90-481-2641-5 issn: - 1388-4360 publication_status: published publisher: Springer Nature quality_controlled: '1' scopus_import: '1' status: public title: Streamflow Trends in Mountainous Regions type: book_chapter user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2011' ... --- _id: '1299' abstract: - lang: eng text: Recent experiments have shown that motion detection in Drosophila starts with splitting the visual input into two parallel channels encoding brightness increments (ON) or decrements (OFF). This suggests the existence of either two (ON-ON, OFF-OFF) or four (for all pairwise interactions) separate motion detectors. To decide between these possibilities, we stimulated flies using sequences of ON and OFF brightness pulses while recording from motion-sensitive tangential cells. We found direction-selective responses to sequences of same sign (ON-ON, OFF-OFF), but not of opposite sign (ON-OFF, OFF-ON), refuting the existence of four separate detectors. Based on further measurements, we propose a model that reproduces a variety of additional experimental data sets, including ones that were previously interpreted as support for four separate detectors. Our experiments and the derived model mark an important step in guiding further dissection of the fly motion detection circuit. author: - first_name: Hubert full_name: Eichner, Hubert last_name: Eichner - first_name: Maximilian A full_name: Maximilian Jösch id: 2BD278E6-F248-11E8-B48F-1D18A9856A87 last_name: Jösch orcid: 0000-0002-3937-1330 - first_name: Bettina full_name: Schnell, Bettina last_name: Schnell - first_name: Dierk full_name: Reiff, Dierk F last_name: Reiff - first_name: Alexander full_name: Borst, Alexander last_name: Borst citation: ama: Eichner H, Jösch MA, Schnell B, Reiff D, Borst A. Internal structure of the fly elementary motion detector. Neuron. 2011;70(6):1155-1164. doi:10.1016/j.neuron.2011.03.028 apa: Eichner, H., Jösch, M. A., Schnell, B., Reiff, D., & Borst, A. (2011). Internal structure of the fly elementary motion detector. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2011.03.028 chicago: Eichner, Hubert, Maximilian A Jösch, Bettina Schnell, Dierk Reiff, and Alexander Borst. “Internal Structure of the Fly Elementary Motion Detector.” Neuron. Elsevier, 2011. https://doi.org/10.1016/j.neuron.2011.03.028. ieee: H. Eichner, M. A. Jösch, B. Schnell, D. Reiff, and A. Borst, “Internal structure of the fly elementary motion detector,” Neuron, vol. 70, no. 6. Elsevier, pp. 1155–1164, 2011. ista: Eichner H, Jösch MA, Schnell B, Reiff D, Borst A. 2011. Internal structure of the fly elementary motion detector. Neuron. 70(6), 1155–1164. mla: Eichner, Hubert, et al. “Internal Structure of the Fly Elementary Motion Detector.” Neuron, vol. 70, no. 6, Elsevier, 2011, pp. 1155–64, doi:10.1016/j.neuron.2011.03.028. short: H. Eichner, M.A. Jösch, B. Schnell, D. Reiff, A. Borst, Neuron 70 (2011) 1155–1164. date_created: 2018-12-11T11:51:14Z date_published: 2011-06-23T00:00:00Z date_updated: 2021-01-12T06:49:43Z day: '23' doi: 10.1016/j.neuron.2011.03.028 extern: 1 intvolume: ' 70' issue: '6' month: '06' page: 1155 - 1164 publication: Neuron publication_status: published publisher: Elsevier publist_id: '5969' quality_controlled: 0 status: public title: Internal structure of the fly elementary motion detector type: journal_article volume: 70 year: '2011' ... --- _id: '1467' abstract: - lang: eng text: We propose a general conjecture for the mixed Hodge polynomial of the generic character varieties of representations of the fundamental group of a Riemann surface of genus g to GLn(C) with fixed generic semisimple conjugacy classes at k punctures. This conjecture generalizes the Cauchy identity for Macdonald polynomials and is a common generalization of two formulas that we prove in this paper. The first is a formula for the E-polynomial of these character varieties which we obtain using the character table of GLn(Fq). We use this formula to compute the Euler characteristic of character varieties. The second formula gives the Poincaré polynomial of certain associated quiver varieties which we obtain using the character table of gln(Fq). In the last main result we prove that the Poincaré polynomials of the quiver varieties equal certain multiplicities in the tensor product of irreducible characters of GLn(Fq). As a consequence we find a curious connection between Kac-Moody algebras associated with comet-shaped, and typically wild, quivers and the representation theory of GLn(Fq). acknowledgement: |- Hausel’s work was supported by National Science Foundation grants DMS-0305505 and DMS-0604775, by an Alfred Sloan Fellowship, and by a Royal Society University Research Fellowship. Letellier’s work supported by Agence Nationale de la Recherche grant ANR-09-JCJC-0102-01. Rodriguez-Villegas’s work supported by National Science Foundation grant DMS-0200605, by an FRA from the University of Texas at Austin, by EPSRC grant EP/G027110/1, by visiting fellowships at All Souls and Wadham Colleges in Oxford, and by a Research Scholarship from the Clay Mathematical Institute. author: - first_name: Tamas full_name: Tamas Hausel id: 4A0666D8-F248-11E8-B48F-1D18A9856A87 last_name: Hausel - first_name: Emmanuel full_name: Letellier, Emmanuel last_name: Letellier - first_name: Fernando full_name: Rodríguez Villegas, Fernando last_name: Rodríguez Villegas citation: ama: Hausel T, Letellier E, Rodríguez Villegas F. Arithmetic harmonic analysis on character and quiver varieties. Duke Mathematical Journal. 2011;160(2):323-400. doi:10.1215/00127094-1444258 apa: Hausel, T., Letellier, E., & Rodríguez Villegas, F. (2011). Arithmetic harmonic analysis on character and quiver varieties. Duke Mathematical Journal. Duke University Press. https://doi.org/10.1215/00127094-1444258 chicago: Hausel, Tamás, Emmanuel Letellier, and Fernando Rodríguez Villegas. “Arithmetic Harmonic Analysis on Character and Quiver Varieties.” Duke Mathematical Journal. Duke University Press, 2011. https://doi.org/10.1215/00127094-1444258. ieee: T. Hausel, E. Letellier, and F. Rodríguez Villegas, “Arithmetic harmonic analysis on character and quiver varieties,” Duke Mathematical Journal, vol. 160, no. 2. Duke University Press, pp. 323–400, 2011. ista: Hausel T, Letellier E, Rodríguez Villegas F. 2011. Arithmetic harmonic analysis on character and quiver varieties. Duke Mathematical Journal. 160(2), 323–400. mla: Hausel, Tamás, et al. “Arithmetic Harmonic Analysis on Character and Quiver Varieties.” Duke Mathematical Journal, vol. 160, no. 2, Duke University Press, 2011, pp. 323–400, doi:10.1215/00127094-1444258. short: T. Hausel, E. Letellier, F. Rodríguez Villegas, Duke Mathematical Journal 160 (2011) 323–400. date_created: 2018-12-11T11:52:11Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:50:56Z day: '01' doi: 10.1215/00127094-1444258 extern: 1 intvolume: ' 160' issue: '2' main_file_link: - open_access: '1' url: http://arxiv.org/abs/0810.2076 month: '01' oa: 1 page: 323 - 400 publication: Duke Mathematical Journal publication_status: published publisher: Duke University Press publist_id: '5728' quality_controlled: 0 status: public title: Arithmetic harmonic analysis on character and quiver varieties type: journal_article volume: 160 year: '2011' ... --- _id: '1723' abstract: - lang: eng text: The emergence of differences in the arrangement of cells is the first step towards the establishment of many organs. Understanding this process is limited by the lack of systematic characterization of epithelial organisation. Here we apply network theory at the scale of individual cells to uncover patterns in cell-to-cell contacts that govern epithelial organisation. We provide an objective characterisation of epithelia using network representation, where cells are nodes and cell contacts are links. The features of individual cells, together with attributes of the cellular network, produce a defining signature that distinguishes epithelia from different organs, species, developmental stages and genetic conditions. The approach permits characterization, quantification and classification of normal and perturbed epithelia, and establishes a framework for understanding molecular mechanisms that underpin the architecture of complex tissues. acknowledgement: We acknowledge the MRC for funding, M.M.B. acknowledges Darwin College, EMBO YIP and Schlumberger Ltd for support. L.M.E. is funded by the Marie Curie and the EMBO fellowships. L.d.F.C. is grateful to FAPESP (05/00587-5) and CNPq (301303/06-1) for financial support. Part of this work was performed during a Visiting Scholarship to L.d.F.C. from St Catharine's College, University of Cambridge. J.B. is supported by the MRC (UK) and A.K. by a FEBS fellowship author: - first_name: Luis full_name: Escudero, Luis M last_name: Escudero - first_name: Luciano full_name: Costa, Luciano last_name: Costa - first_name: Anna full_name: Anna Kicheva id: 3959A2A0-F248-11E8-B48F-1D18A9856A87 last_name: Kicheva orcid: 0000-0003-4509-4998 - first_name: James full_name: Briscoe, James last_name: Briscoe - first_name: Matthew full_name: Freeman, Matthew last_name: Freeman - first_name: Madan full_name: Babu, Madan M last_name: Babu citation: ama: Escudero L, Costa L, Kicheva A, Briscoe J, Freeman M, Babu M. Epithelial organisation revealed by a network of cellular contacts. Nature Communications. 2011;2(1). doi:10.1038/ncomms1536 apa: Escudero, L., Costa, L., Kicheva, A., Briscoe, J., Freeman, M., & Babu, M. (2011). Epithelial organisation revealed by a network of cellular contacts. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms1536 chicago: Escudero, Luis, Luciano Costa, Anna Kicheva, James Briscoe, Matthew Freeman, and Madan Babu. “Epithelial Organisation Revealed by a Network of Cellular Contacts.” Nature Communications. Nature Publishing Group, 2011. https://doi.org/10.1038/ncomms1536. ieee: L. Escudero, L. Costa, A. Kicheva, J. Briscoe, M. Freeman, and M. Babu, “Epithelial organisation revealed by a network of cellular contacts,” Nature Communications, vol. 2, no. 1. Nature Publishing Group, 2011. ista: Escudero L, Costa L, Kicheva A, Briscoe J, Freeman M, Babu M. 2011. Epithelial organisation revealed by a network of cellular contacts. Nature Communications. 2(1). mla: Escudero, Luis, et al. “Epithelial Organisation Revealed by a Network of Cellular Contacts.” Nature Communications, vol. 2, no. 1, Nature Publishing Group, 2011, doi:10.1038/ncomms1536. short: L. Escudero, L. Costa, A. Kicheva, J. Briscoe, M. Freeman, M. Babu, Nature Communications 2 (2011). date_created: 2018-12-11T11:53:40Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:52:46Z day: '01' doi: 10.1038/ncomms1536 extern: 1 intvolume: ' 2' issue: '1' month: '01' publication: Nature Communications publication_status: published publisher: Nature Publishing Group publist_id: '5405' quality_controlled: 0 status: public title: Epithelial organisation revealed by a network of cellular contacts type: journal_article volume: 2 year: '2011' ... --- _id: '1724' abstract: - lang: eng text: Morphogens, such as Decapentaplegic (Dpp) in the fly imaginal discs, form graded concentration profiles that control patterning and growth of developing organs. In the imaginal discs, proliferative growth is homogeneous in space, posing the conundrum of how morphogen concentration gradients could control position-independent growth. To understand the mechanism of proliferation control by the Dpp gradient, we quantified Dpp concentration and signaling levels during wing disc growth. Both Dpp concentration and signaling gradients scale with tissue size during development. On average, cells divide when Dpp signaling levels have increased by 50%. Our observations are consistent with a growth control mechanism based on temporal changes of cellular morphogen signaling levels. For a scaling gradient, this mechanism generates position-independent growth rates. acknowledgement: P.M., T.B., and F.J. were supported by the Max-Planck-Gesellschaft. O.W., A.K., C.S., and M.G.-G. were supported by Geneva University and by European Research Council advanced investigator grant (SARA), SystemsX (LipidX), Swiss National Science Foundation (SNF), National Centre of Competence in Research (NCCR) chemical biology and Frontiers in Genetics and R'equip grants author: - first_name: Ortrud full_name: Wartlick, Ortrud last_name: Wartlick - first_name: Peer full_name: Mumcu, Peer last_name: Mumcu - first_name: Anna full_name: Anna Kicheva id: 3959A2A0-F248-11E8-B48F-1D18A9856A87 last_name: Kicheva orcid: 0000-0003-4509-4998 - first_name: Thomas full_name: Bittig, Thomas last_name: Bittig - first_name: Carole full_name: Seum, Carole last_name: Seum - first_name: Frank full_name: Jülicher, Frank last_name: Jülicher - first_name: Marcos full_name: González-Gaitán, Marcos A last_name: González Gaitán citation: ama: Wartlick O, Mumcu P, Kicheva A, et al. Dynamics of Dpp signaling and proliferation control. Science. 2011;331(6021):1154-1159. doi:10.1126/science.1200037 apa: Wartlick, O., Mumcu, P., Kicheva, A., Bittig, T., Seum, C., Jülicher, F., & González Gaitán, M. (2011). Dynamics of Dpp signaling and proliferation control. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1200037 chicago: Wartlick, Ortrud, Peer Mumcu, Anna Kicheva, Thomas Bittig, Carole Seum, Frank Jülicher, and Marcos González Gaitán. “Dynamics of Dpp Signaling and Proliferation Control.” Science. American Association for the Advancement of Science, 2011. https://doi.org/10.1126/science.1200037. ieee: O. Wartlick et al., “Dynamics of Dpp signaling and proliferation control,” Science, vol. 331, no. 6021. American Association for the Advancement of Science, pp. 1154–1159, 2011. ista: Wartlick O, Mumcu P, Kicheva A, Bittig T, Seum C, Jülicher F, González Gaitán M. 2011. Dynamics of Dpp signaling and proliferation control. Science. 331(6021), 1154–1159. mla: Wartlick, Ortrud, et al. “Dynamics of Dpp Signaling and Proliferation Control.” Science, vol. 331, no. 6021, American Association for the Advancement of Science, 2011, pp. 1154–59, doi:10.1126/science.1200037. short: O. Wartlick, P. Mumcu, A. Kicheva, T. Bittig, C. Seum, F. Jülicher, M. González Gaitán, Science 331 (2011) 1154–1159. date_created: 2018-12-11T11:53:40Z date_published: 2011-03-04T00:00:00Z date_updated: 2021-01-12T06:52:46Z day: '04' doi: 10.1126/science.1200037 extern: 1 intvolume: ' 331' issue: '6021' month: '03' page: 1154 - 1159 publication: Science publication_status: published publisher: American Association for the Advancement of Science publist_id: '5406' quality_controlled: 0 status: public title: Dynamics of Dpp signaling and proliferation control type: journal_article volume: 331 year: '2011' ... --- _id: '1754' abstract: - lang: eng text: 'We report on a technique enabling electrical control of the contact silicidation process in silicon nanowire devices. Undoped silicon nanowires were contacted by pairs of nickel electrodes and each contact was selectively silicided by means of the Joule effect. By a realtime monitoring of the nanowire electrical resistance during the contact silicidation process we were able to fabricate nickel-silicide/silicon/nickel- silicide devices with controlled silicon channel length down to 8 nm. ' acknowledgement: This work was supported by the Agence Nationale de la Recherche (ANR) through the ACCESS and COHESION projects and by the European Commission through the Chemtronics program MEST-CT-2005-020513 author: - first_name: Massimo full_name: Mongillo, Massimo last_name: Mongillo - first_name: Panayotis full_name: Spathis, Panayotis last_name: Spathis - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros - first_name: Pascal full_name: Gentile, Pascal last_name: Gentile - first_name: Marc full_name: Sanquer, Marc last_name: Sanquer - first_name: Silvano full_name: De Franceschi, Silvano last_name: De Franceschi citation: ama: Mongillo M, Spathis P, Katsaros G, Gentile P, Sanquer M, De Franceschi S. Joule-assisted silicidation for short-channel silicon nanowire devices. ACS Nano. 2011;5(9):7117-7123. doi:10.1021/nn202524j apa: Mongillo, M., Spathis, P., Katsaros, G., Gentile, P., Sanquer, M., & De Franceschi, S. (2011). Joule-assisted silicidation for short-channel silicon nanowire devices. ACS Nano. American Chemical Society. https://doi.org/10.1021/nn202524j chicago: Mongillo, Massimo, Panayotis Spathis, Georgios Katsaros, Pascal Gentile, Marc Sanquer, and Silvano De Franceschi. “Joule-Assisted Silicidation for Short-Channel Silicon Nanowire Devices.” ACS Nano. American Chemical Society, 2011. https://doi.org/10.1021/nn202524j. ieee: M. Mongillo, P. Spathis, G. Katsaros, P. Gentile, M. Sanquer, and S. De Franceschi, “Joule-assisted silicidation for short-channel silicon nanowire devices,” ACS Nano, vol. 5, no. 9. American Chemical Society, pp. 7117–7123, 2011. ista: Mongillo M, Spathis P, Katsaros G, Gentile P, Sanquer M, De Franceschi S. 2011. Joule-assisted silicidation for short-channel silicon nanowire devices. ACS Nano. 5(9), 7117–7123. mla: Mongillo, Massimo, et al. “Joule-Assisted Silicidation for Short-Channel Silicon Nanowire Devices.” ACS Nano, vol. 5, no. 9, American Chemical Society, 2011, pp. 7117–23, doi:10.1021/nn202524j. short: M. Mongillo, P. Spathis, G. Katsaros, P. Gentile, M. Sanquer, S. De Franceschi, ACS Nano 5 (2011) 7117–7123. date_created: 2018-12-11T11:53:50Z date_published: 2011-09-27T00:00:00Z date_updated: 2021-01-12T06:52:59Z day: '27' doi: 10.1021/nn202524j extern: '1' external_id: arxiv: - '1110.5668' intvolume: ' 5' issue: '9' language: - iso: eng main_file_link: - open_access: '1' url: http://arxiv.org/abs/1110.5668 month: '09' oa: 1 oa_version: Preprint page: 7117 - 7123 publication: ACS Nano publication_status: published publisher: American Chemical Society publist_id: '5370' quality_controlled: '1' status: public title: Joule-assisted silicidation for short-channel silicon nanowire devices type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 5 year: '2011' ... --- _id: '1755' abstract: - lang: eng text: Spin-selective tunneling of holes in SiGe nanocrystals contacted by normal-metal leads is reported. The spin selectivity arises from an interplay of the orbital effect of the magnetic field with the strong spin-orbit interaction present in the valence band of the semiconductor. We demonstrate both experimentally and theoretically that spin-selective tunneling in semiconductor nanostructures can be achieved without the use of ferromagnetic contacts. The reported effect, which relies on mixing the light and heavy holes, should be observable in a broad class of quantum-dot systems formed in semiconductors with a degenerate valence band. acknowledgement: The work was supported by the Agence Nationale de la Recherche (through the ACCESS and COHESION projects), U.S. DOE Contract No. DE-FG02-08ER46482 (Yale), and the Nanosciences Foundation at Grenoble, France. G. K. acknowledges support from the Deutsche Forschungsgemeinschaft author: - first_name: Georgios full_name: Georgios Katsaros id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros - first_name: Vitaly full_name: Golovach, Vitaly N last_name: Golovach - first_name: Panayotis full_name: Spathis, Panayotis N last_name: Spathis - first_name: Natalia full_name: Ares, Natalia last_name: Ares - first_name: Mathieu full_name: Stoffel, Mathieu last_name: Stoffel - first_name: Frank full_name: Fournel, Frank last_name: Fournel - first_name: Oliver full_name: Schmidt, Oliver G last_name: Schmidt - first_name: Leonid full_name: Glazman, Leonid I last_name: Glazman - first_name: Silvano full_name: De Franceschi, Silvano last_name: De Franceschi citation: ama: Katsaros G, Golovach V, Spathis P, et al. Observation of spin-selective tunneling in sige nanocrystals. Physical Review Letters. 2011;107(24). doi:10.1103/PhysRevLett.107.246601 apa: Katsaros, G., Golovach, V., Spathis, P., Ares, N., Stoffel, M., Fournel, F., … De Franceschi, S. (2011). Observation of spin-selective tunneling in sige nanocrystals. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.107.246601 chicago: Katsaros, Georgios, Vitaly Golovach, Panayotis Spathis, Natalia Ares, Mathieu Stoffel, Frank Fournel, Oliver Schmidt, Leonid Glazman, and Silvano De Franceschi. “Observation of Spin-Selective Tunneling in Sige Nanocrystals.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.107.246601. ieee: G. Katsaros et al., “Observation of spin-selective tunneling in sige nanocrystals,” Physical Review Letters, vol. 107, no. 24. American Physical Society, 2011. ista: Katsaros G, Golovach V, Spathis P, Ares N, Stoffel M, Fournel F, Schmidt O, Glazman L, De Franceschi S. 2011. Observation of spin-selective tunneling in sige nanocrystals. Physical Review Letters. 107(24). mla: Katsaros, Georgios, et al. “Observation of Spin-Selective Tunneling in Sige Nanocrystals.” Physical Review Letters, vol. 107, no. 24, American Physical Society, 2011, doi:10.1103/PhysRevLett.107.246601. short: G. Katsaros, V. Golovach, P. Spathis, N. Ares, M. Stoffel, F. Fournel, O. Schmidt, L. Glazman, S. De Franceschi, Physical Review Letters 107 (2011). date_created: 2018-12-11T11:53:50Z date_published: 2011-12-07T00:00:00Z date_updated: 2021-01-12T06:53:00Z day: '07' doi: 10.1103/PhysRevLett.107.246601 extern: 1 intvolume: ' 107' issue: '24' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1107.3919 month: '12' oa: 1 publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '5369' quality_controlled: 0 status: public title: Observation of spin-selective tunneling in sige nanocrystals type: journal_article volume: 107 year: '2011' ... --- _id: '1776' abstract: - lang: eng text: Superconducting circuits have been successfully established as systems to prepare and investigate microwave light fields at the quantum level. In contrast to optical experiments where light is detected using photon counters, microwaves are usually measured with well developed linear amplifiers. This makes measurements of correlation functions - one of the important tools in optics - harder to achieve because they traditionally rely on photon counters and beam splitters. Here, we demonstrate a system where we can prepare on demand single microwave photons in a cavity and detect them at the two outputs of the cavity using linear amplifiers. Together with efficient data processing, this allows us to measure different observables of the cavity photons, including the first-order correlation function. Using these techniques we demonstrate cooling of a thermal background field in the cavity. acknowledgement: Australian National University,Aust. Res. Counc. Cent. Excellence Quantum-Atom Opt.,Griffith University,Ian Potter Foundation,International Union of Pure and Applied Physics alternative_title: - 'Journal of Physics: Conference Series' author: - first_name: Deniz full_name: Bozyigit, Deniz last_name: Bozyigit - first_name: C full_name: Lang, C last_name: Lang - first_name: L. full_name: Steffen, L. Kraig last_name: Steffen - first_name: Johannes M full_name: Johannes Fink id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X - first_name: Christopher full_name: Eichler, Christopher last_name: Eichler - first_name: Matthias full_name: Baur, Matthias P last_name: Baur - first_name: R full_name: Bianchetti, R last_name: Bianchetti - first_name: Peter full_name: Leek, Peter J last_name: Leek - first_name: Stefan full_name: Filipp, Stefan last_name: Filipp - first_name: Andreas full_name: Wallraff, Andreas last_name: Wallraff - first_name: Marcus full_name: Da Silva, Marcus P last_name: Da Silva - first_name: Alexandre full_name: Blais, Alexandre last_name: Blais citation: ama: 'Bozyigit D, Lang C, Steffen L, et al. Correlation measurements of individual microwave photons emitted from a symmetric cavity. In: Vol 264. IOP Publishing Ltd.; 2011. doi:10.1088/1742-6596/264/1/012024' apa: Bozyigit, D., Lang, C., Steffen, L., Fink, J. M., Eichler, C., Baur, M., … Blais, A. (2011). Correlation measurements of individual microwave photons emitted from a symmetric cavity (Vol. 264). Presented at the International Conference on Atomic Physics, IOP Publishing Ltd. https://doi.org/10.1088/1742-6596/264/1/012024 chicago: Bozyigit, Deniz, C Lang, L. Steffen, Johannes M Fink, Christopher Eichler, Matthias Baur, R Bianchetti, et al. “Correlation Measurements of Individual Microwave Photons Emitted from a Symmetric Cavity,” Vol. 264. IOP Publishing Ltd., 2011. https://doi.org/10.1088/1742-6596/264/1/012024. ieee: D. Bozyigit et al., “Correlation measurements of individual microwave photons emitted from a symmetric cavity,” presented at the International Conference on Atomic Physics, 2011, vol. 264, no. 1. ista: 'Bozyigit D, Lang C, Steffen L, Fink JM, Eichler C, Baur M, Bianchetti R, Leek P, Filipp S, Wallraff A, Da Silva M, Blais A. 2011. Correlation measurements of individual microwave photons emitted from a symmetric cavity. International Conference on Atomic Physics, Journal of Physics: Conference Series, vol. 264.' mla: Bozyigit, Deniz, et al. Correlation Measurements of Individual Microwave Photons Emitted from a Symmetric Cavity. Vol. 264, no. 1, IOP Publishing Ltd., 2011, doi:10.1088/1742-6596/264/1/012024. short: D. Bozyigit, C. Lang, L. Steffen, J.M. Fink, C. Eichler, M. Baur, R. Bianchetti, P. Leek, S. Filipp, A. Wallraff, M. Da Silva, A. Blais, in:, IOP Publishing Ltd., 2011. conference: name: International Conference on Atomic Physics date_created: 2018-12-11T11:53:57Z date_published: 2011-01-01T00:00:00Z date_updated: 2019-04-26T07:22:05Z day: '01' doi: 10.1088/1742-6596/264/1/012024 extern: 1 intvolume: ' 264' issue: '1' month: '01' publication_status: published publisher: IOP Publishing Ltd. publist_id: '5339' quality_controlled: 0 status: public title: Correlation measurements of individual microwave photons emitted from a symmetric cavity type: conference volume: 264 year: '2011' ... --- _id: '1777' abstract: - lang: eng text: A wide range of experiments studying microwave photons localized in superconducting cavities have made important contributions to our understanding of the quantum properties of radiation. Propagating microwave photons, however, have so far been studied much less intensely. Here we present measurements in which we reconstruct the quantum state of itinerant single photon Fock states and their superposition with the vacuum by analyzing moments of the measured amplitude distribution up to fourth order. Using linear amplifiers and quadrature amplitude detectors, we have developed efficient methods to separate the detected single photon signal from the noise added by the amplifier. From our measurement data we have also reconstructed the corresponding Wigner function. acknowledgement: This work was supported by the European Research Council (ERC) through a Starting Grant and by ETHZ article_processing_charge: No author: - first_name: Christopher full_name: Eichler, Christopher last_name: Eichler - first_name: Deniz full_name: Bozyigit, Deniz last_name: Bozyigit - first_name: C full_name: Lang, C last_name: Lang - first_name: L. full_name: Steffen, L. last_name: Steffen - first_name: Johannes M full_name: Fink, Johannes M id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X - first_name: Andreas full_name: Wallraff, Andreas last_name: Wallraff citation: ama: Eichler C, Bozyigit D, Lang C, Steffen L, Fink JM, Wallraff A. Experimental state tomography of itinerant single microwave photons. Physical Review Letters. 2011;106(22). doi:10.1103/PhysRevLett.106.220503 apa: Eichler, C., Bozyigit, D., Lang, C., Steffen, L., Fink, J. M., & Wallraff, A. (2011). Experimental state tomography of itinerant single microwave photons. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.106.220503 chicago: Eichler, Christopher, Deniz Bozyigit, C Lang, L. Steffen, Johannes M Fink, and Andreas Wallraff. “Experimental State Tomography of Itinerant Single Microwave Photons.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.106.220503. ieee: C. Eichler, D. Bozyigit, C. Lang, L. Steffen, J. M. Fink, and A. Wallraff, “Experimental state tomography of itinerant single microwave photons,” Physical Review Letters, vol. 106, no. 22. American Physical Society, 2011. ista: Eichler C, Bozyigit D, Lang C, Steffen L, Fink JM, Wallraff A. 2011. Experimental state tomography of itinerant single microwave photons. Physical Review Letters. 106(22). mla: Eichler, Christopher, et al. “Experimental State Tomography of Itinerant Single Microwave Photons.” Physical Review Letters, vol. 106, no. 22, American Physical Society, 2011, doi:10.1103/PhysRevLett.106.220503. short: C. Eichler, D. Bozyigit, C. Lang, L. Steffen, J.M. Fink, A. Wallraff, Physical Review Letters 106 (2011). date_created: 2018-12-11T11:53:57Z date_published: 2011-06-01T00:00:00Z date_updated: 2021-11-16T07:57:13Z day: '01' doi: 10.1103/PhysRevLett.106.220503 extern: '1' intvolume: ' 106' issue: '22' language: - iso: eng main_file_link: - open_access: '1' url: http://arxiv.org/abs/1011.6668 month: '06' oa: 1 oa_version: None publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '5338' related_material: link: - relation: erratum url: https://doi.org/10.1103/PhysRevLett.106.249901 status: public title: Experimental state tomography of itinerant single microwave photons type: journal_article user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 volume: 106 year: '2011' ... --- _id: '1778' abstract: - lang: eng text: Creating a train of single photons and monitoring its propagation and interaction is challenging in most physical systems, as photons generally interact very weakly with other systems. However, when confining microwave frequency photons in a transmission line resonator, effective photon-photon interactions can be mediated by qubits embedded in the resonator. Here, we observe the phenomenon of photon blockade through second-order correlation function measurements. The experiments clearly demonstrate antibunching in a continuously pumped source of single microwave photons measured by using microwave beam splitters, linear amplifiers, and quadrature amplitude detectors. We also investigate resonance fluorescence and Rayleigh scattering in Mollow-triplet-like spectra. acknowledgement: This work was supported by the European Research Council (ERC) through a Starting Grant and by ETHZ. M. P. d. S. was supported by NSERC. A. B. was supported by NSERC, CIFAR, and the Alfred P. Sloan Foundation author: - first_name: C full_name: Lang, C last_name: Lang - first_name: Deniz full_name: Bozyigit, Deniz last_name: Bozyigit - first_name: Christopher full_name: Eichler, Christopher last_name: Eichler - first_name: L. full_name: Steffen, L. Kraig last_name: Steffen - first_name: Johannes M full_name: Johannes Fink id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X - first_name: Abdufarrukh full_name: Abdumalikov, Abdufarrukh A last_name: Abdumalikov - first_name: Matthias full_name: Baur, Matthias P last_name: Baur - first_name: Stefan full_name: Filipp, Stefan last_name: Filipp - first_name: Marcus full_name: Da Silva, Marcus P last_name: Da Silva - first_name: Alexandre full_name: Blais, Alexandre last_name: Blais - first_name: Andreas full_name: Wallraff, Andreas last_name: Wallraff citation: ama: Lang C, Bozyigit D, Eichler C, et al. Observation of resonant photon blockade at microwave frequencies using correlation function measurements. Physical Review Letters. 2011;106(24). doi:10.1103/PhysRevLett.106.243601 apa: Lang, C., Bozyigit, D., Eichler, C., Steffen, L., Fink, J. M., Abdumalikov, A., … Wallraff, A. (2011). Observation of resonant photon blockade at microwave frequencies using correlation function measurements. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.106.243601 chicago: Lang, C, Deniz Bozyigit, Christopher Eichler, L. Steffen, Johannes M Fink, Abdufarrukh Abdumalikov, Matthias Baur, et al. “Observation of Resonant Photon Blockade at Microwave Frequencies Using Correlation Function Measurements.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.106.243601. ieee: C. Lang et al., “Observation of resonant photon blockade at microwave frequencies using correlation function measurements,” Physical Review Letters, vol. 106, no. 24. American Physical Society, 2011. ista: Lang C, Bozyigit D, Eichler C, Steffen L, Fink JM, Abdumalikov A, Baur M, Filipp S, Da Silva M, Blais A, Wallraff A. 2011. Observation of resonant photon blockade at microwave frequencies using correlation function measurements. Physical Review Letters. 106(24). mla: Lang, C., et al. “Observation of Resonant Photon Blockade at Microwave Frequencies Using Correlation Function Measurements.” Physical Review Letters, vol. 106, no. 24, American Physical Society, 2011, doi:10.1103/PhysRevLett.106.243601. short: C. Lang, D. Bozyigit, C. Eichler, L. Steffen, J.M. Fink, A. Abdumalikov, M. Baur, S. Filipp, M. Da Silva, A. Blais, A. Wallraff, Physical Review Letters 106 (2011). date_created: 2018-12-11T11:53:57Z date_published: 2011-06-15T00:00:00Z date_updated: 2021-01-12T06:53:08Z day: '15' doi: 10.1103/PhysRevLett.106.243601 extern: 1 intvolume: ' 106' issue: '24' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1102.0461 month: '06' oa: 1 publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '5336' quality_controlled: 0 status: public title: Observation of resonant photon blockade at microwave frequencies using correlation function measurements type: journal_article volume: 106 year: '2011' ... --- _id: '1775' abstract: - lang: eng text: At optical frequencies the radiation produced by a source, such as a laser, a black body or a single-photon emitter, is frequently characterized by analysing the temporal correlations of emitted photons using single-photon counters. At microwave frequencies, however, there are no efficient single-photon counters yet. Instead, well-developed linear amplifiers allow for efficient measurement of the amplitude of an electromagnetic field. Here, we demonstrate first- and second-order correlation function measurements of a pulsed microwave-frequency single-photon source integrated on the same chip with a 50/50 beam splitter followed by linear amplifiers and quadrature amplitude detectors. We clearly observe single-photon coherence in first-order and photon antibunching in second-order correlation function measurements of the propagating fields. acknowledgement: This work was supported by the European Research Council (ERC) through a Starting Grant and by ETHZ. M.P.d.S. was supported by a NSERC postdoctoral fellowship. A.B. was supported by NSERC, CIFAR and the Alfred P. Sloan Foundation author: - first_name: Deniz full_name: Bozyigit, Deniz last_name: Bozyigit - first_name: C full_name: Lang, C last_name: Lang - first_name: L. full_name: Steffen, L. Kraig last_name: Steffen - first_name: Johannes M full_name: Johannes Fink id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X - first_name: Christopher full_name: Eichler, Christopher last_name: Eichler - first_name: Matthias full_name: Baur, Matthias P last_name: Baur - first_name: R full_name: Bianchetti, R last_name: Bianchetti - first_name: Peter full_name: Leek, Peter J last_name: Leek - first_name: Stefan full_name: Filipp, Stefan last_name: Filipp - first_name: Marcus full_name: Da Silva, Marcus P last_name: Da Silva - first_name: Alexandre full_name: Blais, Alexandre last_name: Blais - first_name: Andreas full_name: Wallraff, Andreas last_name: Wallraff citation: ama: Bozyigit D, Lang C, Steffen L, et al. Antibunching of microwave-frequency photons observed in correlation measurements using linear detectors. Nature Physics. 2011;7(2):154-158. doi:10.1038/nphys1845 apa: Bozyigit, D., Lang, C., Steffen, L., Fink, J. M., Eichler, C., Baur, M., … Wallraff, A. (2011). Antibunching of microwave-frequency photons observed in correlation measurements using linear detectors. Nature Physics. Nature Publishing Group. https://doi.org/10.1038/nphys1845 chicago: Bozyigit, Deniz, C Lang, L. Steffen, Johannes M Fink, Christopher Eichler, Matthias Baur, R Bianchetti, et al. “Antibunching of Microwave-Frequency Photons Observed in Correlation Measurements Using Linear Detectors.” Nature Physics. Nature Publishing Group, 2011. https://doi.org/10.1038/nphys1845. ieee: D. Bozyigit et al., “Antibunching of microwave-frequency photons observed in correlation measurements using linear detectors,” Nature Physics, vol. 7, no. 2. Nature Publishing Group, pp. 154–158, 2011. ista: Bozyigit D, Lang C, Steffen L, Fink JM, Eichler C, Baur M, Bianchetti R, Leek P, Filipp S, Da Silva M, Blais A, Wallraff A. 2011. Antibunching of microwave-frequency photons observed in correlation measurements using linear detectors. Nature Physics. 7(2), 154–158. mla: Bozyigit, Deniz, et al. “Antibunching of Microwave-Frequency Photons Observed in Correlation Measurements Using Linear Detectors.” Nature Physics, vol. 7, no. 2, Nature Publishing Group, 2011, pp. 154–58, doi:10.1038/nphys1845. short: D. Bozyigit, C. Lang, L. Steffen, J.M. Fink, C. Eichler, M. Baur, R. Bianchetti, P. Leek, S. Filipp, M. Da Silva, A. Blais, A. Wallraff, Nature Physics 7 (2011) 154–158. date_created: 2018-12-11T11:53:57Z date_published: 2011-02-01T00:00:00Z date_updated: 2021-01-12T06:53:07Z day: '01' doi: 10.1038/nphys1845 extern: 1 intvolume: ' 7' issue: '2' month: '02' page: 154 - 158 publication: Nature Physics publication_status: published publisher: Nature Publishing Group publist_id: '5340' quality_controlled: 0 status: public title: Antibunching of microwave-frequency photons observed in correlation measurements using linear detectors type: journal_article volume: 7 year: '2011' ... --- _id: '1781' abstract: - lang: eng text: Microwave cavities with high quality factors enable coherent coupling of distant quantum systems. Virtual photons lead to a transverse interaction between qubits when they are nonresonant with the cavity but resonant with each other. We experimentally investigate the inverse scaling of the interqubit coupling with the detuning from a cavity mode and its proportionality to the qubit-cavity interaction strength. We demonstrate that the enhanced coupling at higher frequencies is mediated by multiple higher-harmonic cavity modes. Moreover, we observe dark states of the coupled qubit-qubit system and analyze their relation to the symmetry of the applied driving field at different frequencies. acknowledgement: This work was supported by the Swiss National Science Foundation (SNF), the Austrian Science Foundation (FWF), and ETH Zurich author: - first_name: Stefan full_name: Filipp, Stefan last_name: Filipp - first_name: M full_name: Göppl, M last_name: Göppl - first_name: Johannes M full_name: Johannes Fink id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X - first_name: Matthias full_name: Baur, Matthias P last_name: Baur - first_name: R full_name: Bianchetti, R last_name: Bianchetti - first_name: L. full_name: Steffen, L. Kraig last_name: Steffen - first_name: Andreas full_name: Wallraff, Andreas last_name: Wallraff citation: ama: Filipp S, Göppl M, Fink JM, et al. Multimode mediated qubit-qubit coupling and dark-state symmetries in circuit quantum electrodynamics. Physical Review A - Atomic, Molecular, and Optical Physics. 2011;83(6). doi:10.1103/PhysRevA.83.063827 apa: Filipp, S., Göppl, M., Fink, J. M., Baur, M., Bianchetti, R., Steffen, L., & Wallraff, A. (2011). Multimode mediated qubit-qubit coupling and dark-state symmetries in circuit quantum electrodynamics. Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society. https://doi.org/10.1103/PhysRevA.83.063827 chicago: Filipp, Stefan, M Göppl, Johannes M Fink, Matthias Baur, R Bianchetti, L. Steffen, and Andreas Wallraff. “Multimode Mediated Qubit-Qubit Coupling and Dark-State Symmetries in Circuit Quantum Electrodynamics.” Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society, 2011. https://doi.org/10.1103/PhysRevA.83.063827. ieee: S. Filipp et al., “Multimode mediated qubit-qubit coupling and dark-state symmetries in circuit quantum electrodynamics,” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 6. American Physical Society, 2011. ista: Filipp S, Göppl M, Fink JM, Baur M, Bianchetti R, Steffen L, Wallraff A. 2011. Multimode mediated qubit-qubit coupling and dark-state symmetries in circuit quantum electrodynamics. Physical Review A - Atomic, Molecular, and Optical Physics. 83(6). mla: Filipp, Stefan, et al. “Multimode Mediated Qubit-Qubit Coupling and Dark-State Symmetries in Circuit Quantum Electrodynamics.” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 6, American Physical Society, 2011, doi:10.1103/PhysRevA.83.063827. short: S. Filipp, M. Göppl, J.M. Fink, M. Baur, R. Bianchetti, L. Steffen, A. Wallraff, Physical Review A - Atomic, Molecular, and Optical Physics 83 (2011). date_created: 2018-12-11T11:53:58Z date_published: 2011-06-22T00:00:00Z date_updated: 2021-01-12T06:53:09Z day: '22' doi: 10.1103/PhysRevA.83.063827 extern: 1 intvolume: ' 83' issue: '6' month: '06' publication: Physical Review A - Atomic, Molecular, and Optical Physics publication_status: published publisher: American Physical Society publist_id: '5335' quality_controlled: 0 status: public title: Multimode mediated qubit-qubit coupling and dark-state symmetries in circuit quantum electrodynamics type: journal_article volume: 83 year: '2011' ... --- _id: '1780' abstract: - lang: eng text: Continuous variable entanglement between two modes of a radiation field is usually studied at optical frequencies. Here we demonstrate experiments that show the entanglement between microwave photons of different energy in a broadband squeezed beam. We use a Josephson parametric amplifier to generate the two-mode correlated state and detect all four quadrature components simultaneously in a two-channel heterodyne setup using amplitude detectors. Analyzing two-dimensional phase space histograms for all possible pairs of quadratures allows us to determine the full covariance matrix, which is in good agreement with the one expected for a two-mode squeezed state. acknowledgement: This work was supported by the European Research Council (ERC) through a Starting grant and by ETHZ. S. F. acknowledges the Austrian Science Foundation (FWF) for support author: - first_name: Christopher full_name: Eichler, Christopher last_name: Eichler - first_name: Deniz full_name: Bozyigit, Deniz last_name: Bozyigit - first_name: C full_name: Lang, C last_name: Lang - first_name: Matthias full_name: Baur, Matthias P last_name: Baur - first_name: L. full_name: Steffen, L. Kraig last_name: Steffen - first_name: Johannes M full_name: Johannes Fink id: 4B591CBA-F248-11E8-B48F-1D18A9856A87 last_name: Fink orcid: 0000-0001-8112-028X - first_name: Stefan full_name: Filipp, Stefan last_name: Filipp - first_name: Andreas full_name: Wallraff, Andreas last_name: Wallraff citation: ama: Eichler C, Bozyigit D, Lang C, et al. Observation of two-mode squeezing in the microwave frequency domain. Physical Review Letters. 2011;107(11). doi:10.1103/PhysRevLett.107.113601 apa: Eichler, C., Bozyigit, D., Lang, C., Baur, M., Steffen, L., Fink, J. M., … Wallraff, A. (2011). Observation of two-mode squeezing in the microwave frequency domain. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.107.113601 chicago: Eichler, Christopher, Deniz Bozyigit, C Lang, Matthias Baur, L. Steffen, Johannes M Fink, Stefan Filipp, and Andreas Wallraff. “Observation of Two-Mode Squeezing in the Microwave Frequency Domain.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.107.113601. ieee: C. Eichler et al., “Observation of two-mode squeezing in the microwave frequency domain,” Physical Review Letters, vol. 107, no. 11. American Physical Society, 2011. ista: Eichler C, Bozyigit D, Lang C, Baur M, Steffen L, Fink JM, Filipp S, Wallraff A. 2011. Observation of two-mode squeezing in the microwave frequency domain. Physical Review Letters. 107(11). mla: Eichler, Christopher, et al. “Observation of Two-Mode Squeezing in the Microwave Frequency Domain.” Physical Review Letters, vol. 107, no. 11, American Physical Society, 2011, doi:10.1103/PhysRevLett.107.113601. short: C. Eichler, D. Bozyigit, C. Lang, M. Baur, L. Steffen, J.M. Fink, S. Filipp, A. Wallraff, Physical Review Letters 107 (2011). date_created: 2018-12-11T11:53:58Z date_published: 2011-09-06T00:00:00Z date_updated: 2021-01-12T06:53:09Z day: '06' doi: 10.1103/PhysRevLett.107.113601 extern: 1 intvolume: ' 107' issue: '11' month: '09' publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '5334' quality_controlled: 0 status: public title: Observation of two-mode squeezing in the microwave frequency domain type: journal_article volume: 107 year: '2011' ... --- _id: '1815' abstract: - lang: eng text: Many membrane channels and receptors exhibit adaptive, or desensitized, response to a strong sustained input stimulus, often supported by protein activity-dependent inactivation. Adaptive response is thought to be related to various cellular functions such as homeostasis and enlargement of dynamic range by background compensation. Here we study the quantitative relation between adaptive response and background compensation within a modeling framework. We show that any particular type of adaptive response is neither sufficient nor necessary for adaptive enlargement of dynamic range. In particular a precise adaptive response, where system activity is maintained at a constant level at steady state, does not ensure a large dynamic range neither in input signal nor in system output. A general mechanism for input dynamic range enlargement can come about from the activity-dependent modulation of protein responsiveness by multiple biochemical modification, regardless of the type of adaptive response it induces. Therefore hierarchical biochemical processes such as methylation and phosphorylation are natural candidates to induce this property in signaling systems. author: - first_name: Tamar full_name: Tamar Friedlander id: 36A5845C-F248-11E8-B48F-1D18A9856A87 last_name: Friedlander - first_name: Naama full_name: Brenner, Naama last_name: Brenner citation: ama: Friedlander T, Brenner N. Adaptive response and enlargement of dynamic range. Mathematical Biosciences and Engineering. 2011;8(2):515-526. doi:10.3934/mbe.2011.8.515 apa: Friedlander, T., & Brenner, N. (2011). Adaptive response and enlargement of dynamic range. Mathematical Biosciences and Engineering. Arizona State University. https://doi.org/10.3934/mbe.2011.8.515 chicago: Friedlander, Tamar, and Naama Brenner. “Adaptive Response and Enlargement of Dynamic Range.” Mathematical Biosciences and Engineering. Arizona State University, 2011. https://doi.org/10.3934/mbe.2011.8.515. ieee: T. Friedlander and N. Brenner, “Adaptive response and enlargement of dynamic range,” Mathematical Biosciences and Engineering, vol. 8, no. 2. Arizona State University, pp. 515–526, 2011. ista: Friedlander T, Brenner N. 2011. Adaptive response and enlargement of dynamic range. Mathematical Biosciences and Engineering. 8(2), 515–526. mla: Friedlander, Tamar, and Naama Brenner. “Adaptive Response and Enlargement of Dynamic Range.” Mathematical Biosciences and Engineering, vol. 8, no. 2, Arizona State University, 2011, pp. 515–26, doi:10.3934/mbe.2011.8.515. short: T. Friedlander, N. Brenner, Mathematical Biosciences and Engineering 8 (2011) 515–526. date_created: 2018-12-11T11:54:10Z date_published: 2011-04-02T00:00:00Z date_updated: 2021-01-12T06:53:23Z day: '02' doi: 10.3934/mbe.2011.8.515 extern: 1 intvolume: ' 8' issue: '2' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1003.2791 month: '04' oa: 1 page: 515 - 526 publication: Mathematical Biosciences and Engineering publication_status: published publisher: Arizona State University publist_id: '5291' quality_controlled: 0 status: public title: Adaptive response and enlargement of dynamic range type: journal_article volume: 8 year: '2011' ... --- _id: '1863' abstract: - lang: eng text: The Levene model is the simplest mathematical model to describe the evolution of gene frequencies in spatially subdivided populations. It provides insight into how locally varying selection promotes a population’s genetic diversity. Despite its simplicity, interesting problems have remained unsolved even in the diallelic case. In this paper we answer an open problem by establishing that for two alleles at one locus and J demes, up to 2J−1 polymorphic equilibria may coexist. We first present a proof for the case of stable monomorphisms and then show that the result also holds for protected alleles. These findings allow us to prove that any odd number (up to 2J−1) of equilibria is possible, before we extend the proof to even numbers. We conclude with some numerical results and show that for J>2, the proportion of parameter space affording this maximum is extremely small. acknowledgement: FWF 21305 author: - first_name: Sebastian full_name: Sebastian Novak id: 461468AE-F248-11E8-B48F-1D18A9856A87 last_name: Novak citation: ama: Novak S. The number of equilibria in the diallelic Levene model with multiple demes. Theoretical Population Biology. 2011;79(3):97-101. doi:10.1016/j.tpb.2010.12.002 apa: Novak, S. (2011). The number of equilibria in the diallelic Levene model with multiple demes. Theoretical Population Biology. Academic Press. https://doi.org/10.1016/j.tpb.2010.12.002 chicago: Novak, Sebastian. “The Number of Equilibria in the Diallelic Levene Model with Multiple Demes.” Theoretical Population Biology. Academic Press, 2011. https://doi.org/10.1016/j.tpb.2010.12.002. ieee: S. Novak, “The number of equilibria in the diallelic Levene model with multiple demes,” Theoretical Population Biology, vol. 79, no. 3. Academic Press, pp. 97–101, 2011. ista: Novak S. 2011. The number of equilibria in the diallelic Levene model with multiple demes. Theoretical Population Biology. 79(3), 97–101. mla: Novak, Sebastian. “The Number of Equilibria in the Diallelic Levene Model with Multiple Demes.” Theoretical Population Biology, vol. 79, no. 3, Academic Press, 2011, pp. 97–101, doi:10.1016/j.tpb.2010.12.002. short: S. Novak, Theoretical Population Biology 79 (2011) 97–101. date_created: 2018-12-11T11:54:25Z date_published: 2011-05-01T00:00:00Z date_updated: 2021-01-12T06:53:42Z day: '01' doi: 10.1016/j.tpb.2010.12.002 extern: 1 intvolume: ' 79' issue: '3' month: '05' page: 97 - 101 publication: Theoretical Population Biology publication_status: published publisher: Academic Press publist_id: '5236' quality_controlled: 0 status: public title: The number of equilibria in the diallelic Levene model with multiple demes tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article volume: 79 year: '2011' ... --- _id: '1975' abstract: - lang: eng text: 'Modern α-proteobacteria are thought to be closely related to the ancient symbiont of eukaryotes, an ancestor of mitochondria. Respiratory complex I from α-proteobacteria and mitochondria is well conserved at the level of the 14 "core" subunits, consistent with that notion. Mitochondrial complex I contains the core subunits, present in all species, and up to 31 "supernumerary" subunits, generally thought to have originated only within eukaryotic lineages. However, the full protein composition of an α-proteobacterial complex I has not been established previously. Here, we report the first purification and characterization of complex I from the α-proteobacterium Paracoccus denitrificans. Single particle electron microscopy shows that the complex has a well defined L-shape. Unexpectedly, in addition to the 14 core subunits, the enzyme also contains homologues of three supernumerary mitochondrial subunits as follows: B17.2, AQDQ/18, and 13 kDa (bovine nomenclature). This finding suggests that evolution of complex I via addition of supernumerary or "accessory" subunits started before the original endosymbiotic event that led to the creation of the eukaryotic cell. It also provides further confirmation that α-proteobacteria are the closest extant relatives of mitochondria.' acknowledgement: 'This work was supported by the Medical Research Council. ' author: - first_name: Chui full_name: Yip, Chui Y last_name: Yip - first_name: Michael full_name: Harbour, Michael E last_name: Harbour - first_name: Kamburapola full_name: Jayawardena, Kamburapola G last_name: Jayawardena - first_name: Ian full_name: Fearnley, Ian M last_name: Fearnley - first_name: Leonid A full_name: Leonid Sazanov id: 338D39FE-F248-11E8-B48F-1D18A9856A87 last_name: Sazanov orcid: 0000-0002-0977-7989 citation: ama: Yip C, Harbour M, Jayawardena K, Fearnley I, Sazanov LA. Evolution of respiratory complex I &quot;Supernumerary&quot; subunits are present in the α-proteobacterial enzyme. Journal of Biological Chemistry. 2011;286(7):5023-5033. doi:10.1074/jbc.M110.194993 apa: Yip, C., Harbour, M., Jayawardena, K., Fearnley, I., & Sazanov, L. A. (2011). Evolution of respiratory complex I &quot;Supernumerary&quot; subunits are present in the α-proteobacterial enzyme. Journal of Biological Chemistry. American Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/jbc.M110.194993 chicago: Yip, Chui, Michael Harbour, Kamburapola Jayawardena, Ian Fearnley, and Leonid A Sazanov. “Evolution of Respiratory Complex I &quot;Supernumerary&quot; Subunits Are Present in the α-Proteobacterial Enzyme.” Journal of Biological Chemistry. American Society for Biochemistry and Molecular Biology, 2011. https://doi.org/10.1074/jbc.M110.194993. ieee: C. Yip, M. Harbour, K. Jayawardena, I. Fearnley, and L. A. Sazanov, “Evolution of respiratory complex I &quot;Supernumerary&quot; subunits are present in the α-proteobacterial enzyme,” Journal of Biological Chemistry, vol. 286, no. 7. American Society for Biochemistry and Molecular Biology, pp. 5023–5033, 2011. ista: Yip C, Harbour M, Jayawardena K, Fearnley I, Sazanov LA. 2011. Evolution of respiratory complex I &quot;Supernumerary&quot; subunits are present in the α-proteobacterial enzyme. Journal of Biological Chemistry. 286(7), 5023–5033. mla: Yip, Chui, et al. “Evolution of Respiratory Complex I &quot;Supernumerary&quot; Subunits Are Present in the α-Proteobacterial Enzyme.” Journal of Biological Chemistry, vol. 286, no. 7, American Society for Biochemistry and Molecular Biology, 2011, pp. 5023–33, doi:10.1074/jbc.M110.194993. short: C. Yip, M. Harbour, K. Jayawardena, I. Fearnley, L.A. Sazanov, Journal of Biological Chemistry 286 (2011) 5023–5033. date_created: 2018-12-11T11:55:00Z date_published: 2011-02-18T00:00:00Z date_updated: 2021-01-12T06:54:27Z day: '18' doi: 10.1074/jbc.M110.194993 extern: 1 intvolume: ' 286' issue: '7' month: '02' page: 5023 - 5033 publication: Journal of Biological Chemistry publication_status: published publisher: American Society for Biochemistry and Molecular Biology publist_id: '5112' quality_controlled: 0 status: public title: Evolution of respiratory complex I "Supernumerary" subunits are present in the α-proteobacterial enzyme type: journal_article volume: 286 year: '2011' ... --- _id: '1973' abstract: - lang: eng text: Complex I is the first and largest enzyme of the respiratory chain, coupling electron transfer between NADH and ubiquinone to the translocation of four protons across the membrane. It has a central role in cellular energy production and has been implicated in many human neurodegenerative diseases. The L-shaped enzyme consists of hydrophilic and membrane domains. Previously, we determined the structure of the hydrophilic domain. Here we report the crystal structure of the Esherichia coli complex I membrane domain at 3.0 Ã. resolution. It includes six subunits, NuoL, NuoM, NuoN, NuoA, NuoJ and NuoK, with 55 transmembrane helices. The fold of the homologous antiporter-like subunits L, M and N is novel, with two inverted structural repeats of five transmembrane helices arranged, unusually, face-to-back. Each repeat includes a discontinuous transmembrane helix and forms half of a channel across the membrane. A network of conserved polar residues connects the two half-channels, completing the proton translocation pathway. Unexpectedly, lysines rather than carboxylate residues act as the main elements of the proton pump in these subunits. The fourth probable proton-translocation channel is at the interface of subunits N, K, J and A. The structure indicates that proton translocation in complex I, uniquely, involves coordinated conformational changes in six symmetrical structural elements. acknowledgement: This work was funded by the Medical Research Council. author: - first_name: Rouslan full_name: Efremov, Rouslan G last_name: Efremov - first_name: Leonid A full_name: Leonid Sazanov id: 338D39FE-F248-11E8-B48F-1D18A9856A87 last_name: Sazanov orcid: 0000-0002-0977-7989 citation: ama: Efremov R, Sazanov LA. Structure of the membrane domain of respiratory complex i. Nature. 2011;476(7361):414-421. doi:10.1038/nature10330 apa: Efremov, R., & Sazanov, L. A. (2011). Structure of the membrane domain of respiratory complex i. Nature. Nature Publishing Group. https://doi.org/10.1038/nature10330 chicago: Efremov, Rouslan, and Leonid A Sazanov. “Structure of the Membrane Domain of Respiratory Complex I.” Nature. Nature Publishing Group, 2011. https://doi.org/10.1038/nature10330. ieee: R. Efremov and L. A. Sazanov, “Structure of the membrane domain of respiratory complex i,” Nature, vol. 476, no. 7361. Nature Publishing Group, pp. 414–421, 2011. ista: Efremov R, Sazanov LA. 2011. Structure of the membrane domain of respiratory complex i. Nature. 476(7361), 414–421. mla: Efremov, Rouslan, and Leonid A. Sazanov. “Structure of the Membrane Domain of Respiratory Complex I.” Nature, vol. 476, no. 7361, Nature Publishing Group, 2011, pp. 414–21, doi:10.1038/nature10330. short: R. Efremov, L.A. Sazanov, Nature 476 (2011) 414–421. date_created: 2018-12-11T11:54:59Z date_published: 2011-08-25T00:00:00Z date_updated: 2021-01-12T06:54:26Z day: '25' doi: 10.1038/nature10330 extern: 1 intvolume: ' 476' issue: '7361' month: '08' page: 414 - 421 publication: Nature publication_status: published publisher: Nature Publishing Group publist_id: '5110' quality_controlled: 0 status: public title: Structure of the membrane domain of respiratory complex i type: journal_article volume: 476 year: '2011' ... --- _id: '1974' abstract: - lang: eng text: Complex I is the first enzyme of the respiratory chain and plays a central role in cellular energy production. It has been implicated in many human neurodegenerative diseases, as well as in ageing. One of the biggest membrane protein complexes, it is an L-shaped assembly consisting of hydrophilic and membrane domains. Previously, we have determined structures of the hydrophilic domain in several redox states. Last year was marked by fascinating breakthroughs in the understanding of the complete structure. We described the architecture of the membrane domain and of the entire bacterial complex I. X-ray analysis of the larger mitochondrial enzyme has also been published. The core subunits of the bacterial and mitochondrial enzymes have remarkably similar structures. The proposed mechanism of coupling between electron transfer and proton translocation involves long-range conformational changes, coordinated in part by a long α-helix, akin to the coupling rod of a steam engine. acknowledgement: The work in authors’ laboratory was funded by the Medical Research Council. author: - first_name: Rouslan full_name: Efremov, Rouslan G last_name: Efremov - first_name: Leonid A full_name: Leonid Sazanov id: 338D39FE-F248-11E8-B48F-1D18A9856A87 last_name: Sazanov orcid: 0000-0002-0977-7989 citation: ama: 'Efremov R, Sazanov LA. Respiratory complex I: “steam engine” of the cell? Current Opinion in Structural Biology. 2011;21(4):532-540. doi:10.1016/j.sbi.2011.07.002' apa: 'Efremov, R., & Sazanov, L. A. (2011). Respiratory complex I: “steam engine” of the cell? Current Opinion in Structural Biology. Elsevier. https://doi.org/10.1016/j.sbi.2011.07.002' chicago: 'Efremov, Rouslan, and Leonid A Sazanov. “Respiratory Complex I: ‘steam Engine’ of the Cell?” Current Opinion in Structural Biology. Elsevier, 2011. https://doi.org/10.1016/j.sbi.2011.07.002.' ieee: 'R. Efremov and L. A. Sazanov, “Respiratory complex I: ‘steam engine’ of the cell?,” Current Opinion in Structural Biology, vol. 21, no. 4. Elsevier, pp. 532–540, 2011.' ista: 'Efremov R, Sazanov LA. 2011. Respiratory complex I: ‘steam engine’ of the cell? Current Opinion in Structural Biology. 21(4), 532–540.' mla: 'Efremov, Rouslan, and Leonid A. Sazanov. “Respiratory Complex I: ‘steam Engine’ of the Cell?” Current Opinion in Structural Biology, vol. 21, no. 4, Elsevier, 2011, pp. 532–40, doi:10.1016/j.sbi.2011.07.002.' short: R. Efremov, L.A. Sazanov, Current Opinion in Structural Biology 21 (2011) 532–540. date_created: 2018-12-11T11:54:59Z date_published: 2011-08-01T00:00:00Z date_updated: 2021-01-12T06:54:27Z day: '01' doi: 10.1016/j.sbi.2011.07.002 extern: 1 intvolume: ' 21' issue: '4' month: '08' page: 532 - 540 publication: Current Opinion in Structural Biology publication_status: published publisher: Elsevier publist_id: '5111' quality_controlled: 0 status: public title: 'Respiratory complex I: ''steam engine'' of the cell?' type: journal_article volume: 21 year: '2011' ... --- _id: '1985' abstract: - lang: eng text: |2- In Escherichia coli, the pole-to-pole oscillation of the Min proteins directs septum formation to midcell, which is required for symmetric cell division. In vitro, protein waves emerge from the self-organization of MinD, a membrane-binding ATPase, and its activator MinE. For wave propagation, the proteins need to cycle through states of collective membrane binding and unbinding. Although MinD presumably undergoes cooperative membrane attachment, it is unclear how synchronous detachment is coordinated. We used confocal and single-molecule microscopy to elucidate the order of events during Min wave propagation. We propose that protein detachment at the rear of the wave, and the formation of the E-ring, are accomplished by two complementary processes: first, local accumulation of MinE due to rapid rebinding, leading to dynamic instability; and second, a structural change induced by membrane-interaction of MinE in an equimolar MinD-MinE (MinDE) complex, which supports the robustness of pattern formation. acknowledgement: This work was also supported by the Max Planck Society (M.L., E.F.-F., P.S.). author: - first_name: Martin full_name: Martin Loose id: 462D4284-F248-11E8-B48F-1D18A9856A87 last_name: Loose orcid: 0000-0001-7309-9724 - first_name: Elisabeth full_name: Fischer-Friedrich, Elisabeth last_name: Fischer Friedrich - first_name: Christoph full_name: Herold, Christoph last_name: Herold - first_name: Karsten full_name: Kruse, Karsten last_name: Kruse - first_name: Petra full_name: 'Schwille, Petra ' last_name: Schwille citation: ama: Loose M, Fischer Friedrich E, Herold C, Kruse K, Schwille P. Min protein patterns emerge from rapid rebinding and membrane interaction of MinE. Nature Structural and Molecular Biology. 2011;18(5):577-583. doi:10.1038/nsmb.2037 apa: Loose, M., Fischer Friedrich, E., Herold, C., Kruse, K., & Schwille, P. (2011). Min protein patterns emerge from rapid rebinding and membrane interaction of MinE. Nature Structural and Molecular Biology. Nature Publishing Group. https://doi.org/10.1038/nsmb.2037 chicago: Loose, Martin, Elisabeth Fischer Friedrich, Christoph Herold, Karsten Kruse, and Petra Schwille. “Min Protein Patterns Emerge from Rapid Rebinding and Membrane Interaction of MinE.” Nature Structural and Molecular Biology. Nature Publishing Group, 2011. https://doi.org/10.1038/nsmb.2037. ieee: M. Loose, E. Fischer Friedrich, C. Herold, K. Kruse, and P. Schwille, “Min protein patterns emerge from rapid rebinding and membrane interaction of MinE,” Nature Structural and Molecular Biology, vol. 18, no. 5. Nature Publishing Group, pp. 577–583, 2011. ista: Loose M, Fischer Friedrich E, Herold C, Kruse K, Schwille P. 2011. Min protein patterns emerge from rapid rebinding and membrane interaction of MinE. Nature Structural and Molecular Biology. 18(5), 577–583. mla: Loose, Martin, et al. “Min Protein Patterns Emerge from Rapid Rebinding and Membrane Interaction of MinE.” Nature Structural and Molecular Biology, vol. 18, no. 5, Nature Publishing Group, 2011, pp. 577–83, doi:10.1038/nsmb.2037. short: M. Loose, E. Fischer Friedrich, C. Herold, K. Kruse, P. Schwille, Nature Structural and Molecular Biology 18 (2011) 577–583. date_created: 2018-12-11T11:55:03Z date_published: 2011-05-01T00:00:00Z date_updated: 2021-01-12T06:54:31Z day: '01' doi: 10.1038/nsmb.2037 extern: 1 intvolume: ' 18' issue: '5' month: '05' page: 577 - 583 publication: Nature Structural and Molecular Biology publication_status: published publisher: Nature Publishing Group publist_id: '5098' quality_controlled: 0 status: public title: Min protein patterns emerge from rapid rebinding and membrane interaction of MinE type: journal_article volume: 18 year: '2011' ... --- _id: '1986' abstract: - lang: eng text: One of the most fundamental features of biological systems is probably their ability to self-organize in space and time on different scales. Despite many elaborate theoretical models of how molecular self-organization can come about, only a few experimental systems of biological origin have so far been rigorously described, due mostly to their inherent complexity. The most promising strategy of modern biophysics is thus to identify minimal biological systems showing self-organized emergent behavior. One of the best-understood examples of protein self-organization, which has recently been successfully reconstituted in vitro, is represented by the oscillations of the Min proteins in Escherichia coli. In this review, we summarize the current understanding of the mechanism of Min protein self-organization in vivo and in vitro. We discuss the potential of the Min oscillations to sense the geometry of the cell and suggest that spontaneous protein waves could be a general means of intracellular organization. We hypothesize that cooperative membrane binding and unbinding, e.g., as an energy-dependent switch, may act as an important regulatory mechanism for protein oscillations and pattern formation in the cell. author: - first_name: Martin full_name: Martin Loose id: 462D4284-F248-11E8-B48F-1D18A9856A87 last_name: Loose orcid: 0000-0001-7309-9724 - first_name: Karsten full_name: Kruse, Karsten last_name: Kruse - first_name: Petra full_name: 'Schwille, Petra ' last_name: Schwille citation: ama: 'Loose M, Kruse K, Schwille P. Protein self-organization: Lessons from the min system. Annual Review of Biophysics. 2011;40(1):315-336. doi:10.1146/annurev-biophys-042910-155332' apa: 'Loose, M., Kruse, K., & Schwille, P. (2011). Protein self-organization: Lessons from the min system. Annual Review of Biophysics. Annual Reviews. https://doi.org/10.1146/annurev-biophys-042910-155332' chicago: 'Loose, Martin, Karsten Kruse, and Petra Schwille. “Protein Self-Organization: Lessons from the Min System.” Annual Review of Biophysics. Annual Reviews, 2011. https://doi.org/10.1146/annurev-biophys-042910-155332.' ieee: 'M. Loose, K. Kruse, and P. Schwille, “Protein self-organization: Lessons from the min system,” Annual Review of Biophysics, vol. 40, no. 1. Annual Reviews, pp. 315–336, 2011.' ista: 'Loose M, Kruse K, Schwille P. 2011. Protein self-organization: Lessons from the min system. Annual Review of Biophysics. 40(1), 315–336.' mla: 'Loose, Martin, et al. “Protein Self-Organization: Lessons from the Min System.” Annual Review of Biophysics, vol. 40, no. 1, Annual Reviews, 2011, pp. 315–36, doi:10.1146/annurev-biophys-042910-155332.' short: M. Loose, K. Kruse, P. Schwille, Annual Review of Biophysics 40 (2011) 315–336. date_created: 2018-12-11T11:55:04Z date_published: 2011-06-09T00:00:00Z date_updated: 2021-01-12T06:54:31Z day: '09' doi: 10.1146/annurev-biophys-042910-155332 extern: 1 intvolume: ' 40' issue: '1' month: '06' page: 315 - 336 publication: Annual Review of Biophysics publication_status: published publisher: Annual Reviews publist_id: '5097' quality_controlled: 0 status: public title: 'Protein self-organization: Lessons from the min system' type: journal_article volume: 40 year: '2011' ... --- _id: '2072' abstract: - lang: eng text: Many species have morphologically and genetically differentiated sex chromosomes, such as the XY pair of mammals. Y chromosomes are often highly degenerated and carry few functional genes, so that XY males have only one copy of most Xlinked genes (whereas females have two). As a result, chromosome-wide mechanisms of dosage compensation, such as the mammalian X-inactivation, often evolve to reestablish expression balance. A similar phenomenon is expected in femaleheterogametic species, where ZW females should suffer from imbalances due to W-chromosome degeneration. However, no global dosage compensation mechanisms have been detected in the two independent ZW systems that have been studied systematically (birds and silkworm), leading to the suggestion that lack of global dosage compensation may be a general feature of female-heterogametic species. However, analyses of other independently evolved ZW systems are required to test if this is the case. In this study, we use published genomic and expression data to test for the presence of global dosage compensation in Schistosoma mansoni, a trematode parasite that causes schistosomiasis in humans. We find that Z-linked expression is reduced relative to autosomal expression in females but not males, consistent with incomplete or localized dosage compensation. This gives further support to the theory that female-heterogametic species may not require global mechanisms of dosage compensation. author: - first_name: Beatriz full_name: Vicoso, Beatriz id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87 last_name: Vicoso orcid: 0000-0002-4579-8306 - first_name: Doris full_name: Bachtrog, Doris last_name: Bachtrog citation: ama: Vicoso B, Bachtrog D. Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite. Genome Biology and Evolution. 2011;3(1):230-235. doi:10.1093/gbe/evr010 apa: Vicoso, B., & Bachtrog, D. (2011). Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite. Genome Biology and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evr010 chicago: Vicoso, Beatriz, and Doris Bachtrog. “Lack of Global Dosage Compensation in Schistosoma Mansoni, a Female-Heterogametic Parasite.” Genome Biology and Evolution. Oxford University Press, 2011. https://doi.org/10.1093/gbe/evr010. ieee: B. Vicoso and D. Bachtrog, “Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite,” Genome Biology and Evolution, vol. 3, no. 1. Oxford University Press, pp. 230–235, 2011. ista: Vicoso B, Bachtrog D. 2011. Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite. Genome Biology and Evolution. 3(1), 230–235. mla: Vicoso, Beatriz, and Doris Bachtrog. “Lack of Global Dosage Compensation in Schistosoma Mansoni, a Female-Heterogametic Parasite.” Genome Biology and Evolution, vol. 3, no. 1, Oxford University Press, 2011, pp. 230–35, doi:10.1093/gbe/evr010. short: B. Vicoso, D. Bachtrog, Genome Biology and Evolution 3 (2011) 230–235. date_created: 2018-12-11T11:55:33Z date_published: 2011-02-11T00:00:00Z date_updated: 2021-01-12T06:55:08Z day: '11' ddc: - '570' doi: 10.1093/gbe/evr010 extern: '1' file: - access_level: open_access checksum: 7855c134436e4f6a13d63b6606d7e8dd content_type: application/pdf creator: dernst date_created: 2019-05-10T07:41:28Z date_updated: 2020-07-14T12:45:27Z file_id: '6395' file_name: 2011_GBE_Vicoso.pdf file_size: 212547 relation: main_file file_date_updated: 2020-07-14T12:45:27Z has_accepted_license: '1' intvolume: ' 3' issue: '1' language: - iso: eng license: https://creativecommons.org/licenses/by-nc/4.0/ month: '02' oa: 1 oa_version: Published Version page: 230 - 235 publication: Genome Biology and Evolution publication_status: published publisher: Oxford University Press publist_id: '4966' quality_controlled: '1' status: public title: Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite tmp: image: /images/cc_by_nc.png legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) short: CC BY-NC (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 3 year: '2011' ... --- _id: '2099' abstract: - lang: eng text: We present a new technique for passive and markerless facial performance capture based on anchor frames. Our method starts with high resolution per-frame geometry acquisition using state-of-theart stereo reconstruction, and proceeds to establish a single triangle mesh that is propagated through the entire performance. Leveraging the fact that facial performances often contain repetitive subsequences, we identify anchor frames as those which contain similar facial expressions to a manually chosen reference expression. Anchor frames are automatically computed over one or even multiple performances. We introduce a robust image-space tracking method that computes pixel matches directly from the reference frame to all anchor frames, and thereby to the remaining frames in the sequence via sequential matching. This allows us to propagate one reconstructed frame to an entire sequence in parallel, in contrast to previous sequential methods. Our anchored reconstruction approach also limits tracker drift and robustly handles occlusions and motion blur. The parallel tracking and mesh propagation offer low computation times. Our technique will even automatically match anchor frames across different sequences captured on different occasions, propagating a single mesh to all performances. author: - first_name: Thabo full_name: Beeler, Thabo last_name: Beeler - first_name: Fabian full_name: Hahn, Fabian last_name: Hahn - first_name: Derek full_name: Bradley, Derek J last_name: Bradley - first_name: Bernd full_name: Bernd Bickel id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 - first_name: Paul full_name: Beardsley, Paul A last_name: Beardsley - first_name: Craig full_name: Gotsman, Craig last_name: Gotsman - first_name: Robert full_name: Sumner, Robert W last_name: Sumner - first_name: Markus full_name: Groß, Markus S last_name: Groß citation: ama: Beeler T, Hahn F, Bradley D, et al. High-quality passive facial performance capture using anchor frames. ACM Transactions on Graphics. 2011;30(4). doi:10.1145/2010324.1964970 apa: Beeler, T., Hahn, F., Bradley, D., Bickel, B., Beardsley, P., Gotsman, C., … Groß, M. (2011). High-quality passive facial performance capture using anchor frames. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2010324.1964970 chicago: Beeler, Thabo, Fabian Hahn, Derek Bradley, Bernd Bickel, Paul Beardsley, Craig Gotsman, Robert Sumner, and Markus Groß. “High-Quality Passive Facial Performance Capture Using Anchor Frames.” ACM Transactions on Graphics. ACM, 2011. https://doi.org/10.1145/2010324.1964970. ieee: T. Beeler et al., “High-quality passive facial performance capture using anchor frames,” ACM Transactions on Graphics, vol. 30, no. 4. ACM, 2011. ista: Beeler T, Hahn F, Bradley D, Bickel B, Beardsley P, Gotsman C, Sumner R, Groß M. 2011. High-quality passive facial performance capture using anchor frames. ACM Transactions on Graphics. 30(4). mla: Beeler, Thabo, et al. “High-Quality Passive Facial Performance Capture Using Anchor Frames.” ACM Transactions on Graphics, vol. 30, no. 4, ACM, 2011, doi:10.1145/2010324.1964970. short: T. Beeler, F. Hahn, D. Bradley, B. Bickel, P. Beardsley, C. Gotsman, R. Sumner, M. Groß, ACM Transactions on Graphics 30 (2011). date_created: 2018-12-11T11:55:42Z date_published: 2011-07-01T00:00:00Z date_updated: 2021-01-12T06:55:17Z day: '01' doi: 10.1145/2010324.1964970 extern: 1 intvolume: ' 30' issue: '4' month: '07' publication: ACM Transactions on Graphics publication_status: published publisher: ACM publist_id: '4936' quality_controlled: 0 status: public title: High-quality passive facial performance capture using anchor frames type: journal_article volume: 30 year: '2011' ... --- _id: '2098' abstract: - lang: eng text: This chapter presents a method for real-time animation of highly detailed facial expressions based on sparse motion captures data and a limited set of static example poses. The method for real-time animation of highly detailed facial expressions decomposes geometry into large-scale motion and fine-scale details, such as expression wrinkles. Both large- and fine-scale deformation algorithms run entirely on the GPU, and our implementation based on CUDA achieves an overall performance of about 30 fps. The face conveys the most relevant visual characteristics of human identity and expression. Hence, realistic facial animations or interactions with virtual avatars are important for storytelling and gameplay. However, current approaches are either computationally expensive, require very specialized capture hardware, or are extremely labor intensive. At runtime, given an arbitrary facial expression, the algorithm computes the skin strain from the relative distance between marker points and derives fine-scale corrections for the largescale deformation. During gameplay only the sparse set of marker-point positions is transmitted to the GPU. The face animation is entirely computed on the GPU where the resulting mesh can directly be used as input for the rendering stages. This data can be easily obtained by traditional capture hardware. The proposed in-game algorithm is fast. It also is easy to implement and maps well onto programmable GPUs. author: - first_name: Bernd full_name: Bernd Bickel id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 - first_name: Manuel full_name: Lang, Manuel last_name: Lang citation: ama: 'Bickel B, Lang M. From sparse mocap to highly detailed facial animation. In: GPU Computing Gems Emerald Edition. Science Direct; 2011:413-426. doi:10.1016/B978-0-12-384988-5.00027-9' apa: Bickel, B., & Lang, M. (2011). From sparse mocap to highly detailed facial animation. In GPU Computing Gems Emerald Edition (pp. 413–426). Science Direct. https://doi.org/10.1016/B978-0-12-384988-5.00027-9 chicago: Bickel, Bernd, and Manuel Lang. “From Sparse Mocap to Highly Detailed Facial Animation.” In GPU Computing Gems Emerald Edition, 413–26. Science Direct, 2011. https://doi.org/10.1016/B978-0-12-384988-5.00027-9. ieee: B. Bickel and M. Lang, “From sparse mocap to highly detailed facial animation,” in GPU Computing Gems Emerald Edition, Science Direct, 2011, pp. 413–426. ista: 'Bickel B, Lang M. 2011.From sparse mocap to highly detailed facial animation. In: GPU Computing Gems Emerald Edition. , 413–426.' mla: Bickel, Bernd, and Manuel Lang. “From Sparse Mocap to Highly Detailed Facial Animation.” GPU Computing Gems Emerald Edition, Science Direct, 2011, pp. 413–26, doi:10.1016/B978-0-12-384988-5.00027-9. short: B. Bickel, M. Lang, in:, GPU Computing Gems Emerald Edition, Science Direct, 2011, pp. 413–426. date_created: 2018-12-11T11:55:42Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:55:17Z day: '01' doi: 10.1016/B978-0-12-384988-5.00027-9 extern: 1 month: '01' page: 413 - 426 publication: GPU Computing Gems Emerald Edition publication_status: published publisher: Science Direct publist_id: '4935' quality_controlled: 0 status: public title: From sparse mocap to highly detailed facial animation type: book_chapter year: '2011' ... --- _id: '2100' abstract: - lang: eng text: Acquiring panoramic images using stitching takes a lot of time and moving objects may cause ghosting. It is also difficult to obtain a full spherical panorama, because the downward picture cannot be captured while the camera is mounted on the tripod. author: - first_name: Jonas full_name: Pfeil, Jonas last_name: Pfeil - first_name: Kristian full_name: Hildebrand, Kristian last_name: Hildebrand - first_name: Carsten full_name: Gremzow, Carsten last_name: Gremzow - first_name: Bernd full_name: Bernd Bickel id: 49876194-F248-11E8-B48F-1D18A9856A87 last_name: Bickel orcid: 0000-0001-6511-9385 - first_name: Marc full_name: Alexa, Marc last_name: Alexa citation: ama: 'Pfeil J, Hildebrand K, Gremzow C, Bickel B, Alexa M. Throwable panoramic ball camera. In: ACM; 2011. doi:10.1145/2073370.2073373' apa: Pfeil, J., Hildebrand, K., Gremzow, C., Bickel, B., & Alexa, M. (2011). Throwable panoramic ball camera. Presented at the SIGGRAPH Asia, ACM. https://doi.org/10.1145/2073370.2073373 chicago: Pfeil, Jonas, Kristian Hildebrand, Carsten Gremzow, Bernd Bickel, and Marc Alexa. “Throwable Panoramic Ball Camera.” ACM, 2011. https://doi.org/10.1145/2073370.2073373. ieee: J. Pfeil, K. Hildebrand, C. Gremzow, B. Bickel, and M. Alexa, “Throwable panoramic ball camera,” presented at the SIGGRAPH Asia, 2011. ista: Pfeil J, Hildebrand K, Gremzow C, Bickel B, Alexa M. 2011. Throwable panoramic ball camera. SIGGRAPH Asia. mla: Pfeil, Jonas, et al. Throwable Panoramic Ball Camera. ACM, 2011, doi:10.1145/2073370.2073373. short: J. Pfeil, K. Hildebrand, C. Gremzow, B. Bickel, M. Alexa, in:, ACM, 2011. conference: name: SIGGRAPH Asia date_created: 2018-12-11T11:55:43Z date_published: 2011-12-01T00:00:00Z date_updated: 2021-01-12T06:55:19Z day: '01' doi: 10.1145/2073370.2073373 extern: 1 month: '12' publication_status: published publisher: ACM publist_id: '4934' quality_controlled: 0 status: public title: Throwable panoramic ball camera type: conference year: '2011' ... --- _id: '2116' abstract: - lang: eng text: Let P be the Ornstein-Uhlenbeck semigroup associated with the stochastic Cauchy problem dU(t)=AU(t)dt+dWH(t), where A is the generator of a C 0-semigroup S on a Banach space E, H is a Hilbert subspace of E, and W H is an H-cylindrical Brownian motion. Assuming that S restricts to a C 0-semigroup on H, we obtain L p -bounds for D H P(t). We show that if P is analytic, then the invariance assumption is fulfilled. As an application we determine the L p -domain of the generator of P explicitly in the case where S restricts to a C 0-semigroup on H which is similar to an analytic contraction semigroup. The results are applied to the 1D stochastic heat equation driven by additive space-time white noise. acknowledgement: 'The authors are supported by VIDI subsidy 639.032.201 (JM) and VICI subsidy 639.033.604 (JvN) of the Netherlands Organisation for Scientific Research (NWO). ' author: - first_name: Jan full_name: Jan Maas id: 4C5696CE-F248-11E8-B48F-1D18A9856A87 last_name: Maas orcid: 0000-0002-0845-1338 - first_name: Jan full_name: Van Neerven, Jan last_name: Van Neerven citation: ama: 'Maas J, Van Neerven J. Gradient estimates and domain identification for analytic Ornstein-Uhlenbeck operators. In: Parabolic Problems. Vol 80. Birkhäuser; 2011:463-477. doi:10.1007/978-3-0348-0075-4_24' apa: Maas, J., & Van Neerven, J. (2011). Gradient estimates and domain identification for analytic Ornstein-Uhlenbeck operators. In Parabolic Problems (Vol. 80, pp. 463–477). Birkhäuser. https://doi.org/10.1007/978-3-0348-0075-4_24 chicago: Maas, Jan, and Jan Van Neerven. “Gradient Estimates and Domain Identification for Analytic Ornstein-Uhlenbeck Operators.” In Parabolic Problems, 80:463–77. Birkhäuser, 2011. https://doi.org/10.1007/978-3-0348-0075-4_24. ieee: J. Maas and J. Van Neerven, “Gradient estimates and domain identification for analytic Ornstein-Uhlenbeck operators,” in Parabolic Problems, vol. 80, Birkhäuser, 2011, pp. 463–477. ista: 'Maas J, Van Neerven J. 2011.Gradient estimates and domain identification for analytic Ornstein-Uhlenbeck operators. In: Parabolic Problems. vol. 80, 463–477.' mla: Maas, Jan, and Jan Van Neerven. “Gradient Estimates and Domain Identification for Analytic Ornstein-Uhlenbeck Operators.” Parabolic Problems, vol. 80, Birkhäuser, 2011, pp. 463–77, doi:10.1007/978-3-0348-0075-4_24. short: J. Maas, J. Van Neerven, in:, Parabolic Problems, Birkhäuser, 2011, pp. 463–477. date_created: 2018-12-11T11:55:48Z date_published: 2011-06-10T00:00:00Z date_updated: 2021-01-12T06:55:24Z day: '10' doi: 10.1007/978-3-0348-0075-4_24 extern: 1 intvolume: ' 80' main_file_link: - open_access: '1' url: 'http://arxiv.org/abs/0911.4336 ' month: '06' oa: 1 page: 463 - 477 publication: Parabolic Problems publication_status: published publisher: Birkhäuser publist_id: '4918' quality_controlled: 0 status: public title: Gradient estimates and domain identification for analytic Ornstein-Uhlenbeck operators type: book_chapter volume: 80 year: '2011' ... --- _id: '2122' abstract: - lang: eng text: We study, in L1(R̃n; γ) with respect to the gaussian measure, non- tangential maximal functions and conical square functions associ- ated with the Ornstein-Uhlenbeck operator by developing a set of techniques which allow us, to some extent, to compensate for the non-doubling character of the gaussian measure. The main result asserts that conical square functions can be controlled in L1-norm by non-tangential maximal functions. Along the way we prove a change of aperture result for the latter. This complements recent results on gaussian Hardy spaces due to Mauceri and Meda. acknowledgement: The first named author is supported by Rubicon subsidy 680-50-0901 of the Netherlands Organisation for Scientific Research (NWO). The second named author is supported by VICI subsidy 639.033.604 of the Netherlands Organisation for Scientific Research (NWO author: - first_name: Jan full_name: Jan Maas id: 4C5696CE-F248-11E8-B48F-1D18A9856A87 last_name: Maas orcid: 0000-0002-0845-1338 - first_name: Jan full_name: van Neerven, Jan M last_name: Van Neerven - first_name: Pierre full_name: Portal, Pierre last_name: Portal citation: ama: Maas J, Van Neerven J, Portal P. Conical square functions and non-tangential maximal functions with respect to the Gaussian measure. Publicacions Matemàtiques. 2011;55(2):313-341. doi:10.5565/PUBLMAT_55211_03  apa: Maas, J., Van Neerven, J., & Portal, P. (2011). Conical square functions and non-tangential maximal functions with respect to the Gaussian measure. Publicacions Matemàtiques. Universitat Autònoma de Barcelona, Departament de Matemàtique. https://doi.org/10.5565/PUBLMAT_55211_03  chicago: Maas, Jan, Jan Van Neerven, and Pierre Portal. “Conical Square Functions and Non-Tangential Maximal Functions with Respect to the Gaussian Measure.” Publicacions Matemàtiques. Universitat Autònoma de Barcelona, Departament de Matemàtique, 2011. https://doi.org/10.5565/PUBLMAT_55211_03  . ieee: J. Maas, J. Van Neerven, and P. Portal, “Conical square functions and non-tangential maximal functions with respect to the Gaussian measure,” Publicacions Matemàtiques, vol. 55, no. 2. Universitat Autònoma de Barcelona, Departament de Matemàtique, pp. 313–341, 2011. ista: Maas J, Van Neerven J, Portal P. 2011. Conical square functions and non-tangential maximal functions with respect to the Gaussian measure. Publicacions Matemàtiques. 55(2), 313–341. mla: Maas, Jan, et al. “Conical Square Functions and Non-Tangential Maximal Functions with Respect to the Gaussian Measure.” Publicacions Matemàtiques, vol. 55, no. 2, Universitat Autònoma de Barcelona, Departament de Matemàtique, 2011, pp. 313–41, doi:10.5565/PUBLMAT_55211_03  . short: J. Maas, J. Van Neerven, P. Portal, Publicacions Matemàtiques 55 (2011) 313–341. date_created: 2018-12-11T11:55:50Z date_published: 2011-07-01T00:00:00Z date_updated: 2021-01-12T06:55:26Z day: '01' doi: "10.5565/PUBLMAT_55211_03\t " extern: 1 intvolume: ' 55' issue: '2' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1003.4092 month: '07' oa: 1 page: 313 - 341 publication: Publicacions Matemàtiques publication_status: published publisher: Universitat Autònoma de Barcelona, Departament de Matemàtique publist_id: '4910' quality_controlled: 0 status: public title: Conical square functions and non-tangential maximal functions with respect to the Gaussian measure type: journal_article volume: 55 year: '2011' ... --- _id: '2123' abstract: - lang: eng text: We prove a Trotter product formula for gradient flows in metric spaces. This result is applied to establish convergence in the L 2-Wasserstein metric of the splitting method for some Fokker-Planck equations and porous medium type equations perturbed by a potential. acknowledgement: The second named author is supported by Rubicon subsidy 680-50-0901 of the Netherlands Organisation for Scientific Research (NWO). article_processing_charge: No author: - first_name: Philippe full_name: Clément, Philippe last_name: Clément - first_name: Jan full_name: Maas, Jan id: 4C5696CE-F248-11E8-B48F-1D18A9856A87 last_name: Maas orcid: 0000-0002-0845-1338 citation: ama: Clément P, Maas J. A Trotter product formula for gradient flows in metric spaces. Journal of Evolution Equations. 2011;11(2):405-427. doi:10.1007/s00028-010-0096-5 apa: Clément, P., & Maas, J. (2011). A Trotter product formula for gradient flows in metric spaces. Journal of Evolution Equations. Birkhäuser. https://doi.org/10.1007/s00028-010-0096-5 chicago: Clément, Philippe, and Jan Maas. “A Trotter Product Formula for Gradient Flows in Metric Spaces.” Journal of Evolution Equations. Birkhäuser, 2011. https://doi.org/10.1007/s00028-010-0096-5. ieee: P. Clément and J. Maas, “A Trotter product formula for gradient flows in metric spaces,” Journal of Evolution Equations, vol. 11, no. 2. Birkhäuser, pp. 405–427, 2011. ista: Clément P, Maas J. 2011. A Trotter product formula for gradient flows in metric spaces. Journal of Evolution Equations. 11(2), 405–427. mla: Clément, Philippe, and Jan Maas. “A Trotter Product Formula for Gradient Flows in Metric Spaces.” Journal of Evolution Equations, vol. 11, no. 2, Birkhäuser, 2011, pp. 405–27, doi:10.1007/s00028-010-0096-5. short: P. Clément, J. Maas, Journal of Evolution Equations 11 (2011) 405–427. date_created: 2018-12-11T11:55:51Z date_published: 2011-01-21T00:00:00Z date_updated: 2021-11-16T08:05:46Z day: '21' doi: 10.1007/s00028-010-0096-5 extern: '1' intvolume: ' 11' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: http://arxiv.org/abs/1005.0998 month: '01' oa: 1 oa_version: None page: 405 - 427 publication: Journal of Evolution Equations publication_status: published publisher: Birkhäuser publist_id: '4911' related_material: link: - relation: erratum url: https://doi.org/10.1007/s00028-012-0173-z status: public title: A Trotter product formula for gradient flows in metric spaces type: journal_article user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 volume: 11 year: '2011' ... --- _id: '2126' abstract: - lang: eng text: | Let K be an irreducible and reversible Markov kernel on a finite set X. We construct a metric W on the set of probability measures on X and show that with respect to this metric, the law of the continuous time Markov chain evolves as the gradient flow of the entropy. This result is a discrete counterpart of the Wasserstein gradient flow interpretation of the heat flow in Rn by Jordan, Kinderlehrer and Otto (1998). The metric W is similar to, but different from, the L2-Wasserstein metric, and is defined via a discrete variant of the Benamou–Brenier formula. acknowledgement: Supported by Rubicon subsidy 680-50-0901 of the Netherlands Organisation for Scientific Research (NWO) author: - first_name: Jan full_name: Jan Maas id: 4C5696CE-F248-11E8-B48F-1D18A9856A87 last_name: Maas orcid: 0000-0002-0845-1338 citation: ama: Maas J. Gradient flows of the entropy for finite Markov chains. Journal of Functional Analysis. 2011;261(8):2250-2292. doi:10.1016/j.jfa.2011.06.009 apa: Maas, J. (2011). Gradient flows of the entropy for finite Markov chains. Journal of Functional Analysis. Academic Press. https://doi.org/10.1016/j.jfa.2011.06.009 chicago: Maas, Jan. “Gradient Flows of the Entropy for Finite Markov Chains.” Journal of Functional Analysis. Academic Press, 2011. https://doi.org/10.1016/j.jfa.2011.06.009 . ieee: J. Maas, “Gradient flows of the entropy for finite Markov chains,” Journal of Functional Analysis, vol. 261, no. 8. Academic Press, pp. 2250–2292, 2011. ista: Maas J. 2011. Gradient flows of the entropy for finite Markov chains. Journal of Functional Analysis. 261(8), 2250–2292. mla: Maas, Jan. “Gradient Flows of the Entropy for Finite Markov Chains.” Journal of Functional Analysis, vol. 261, no. 8, Academic Press, 2011, pp. 2250–92, doi:10.1016/j.jfa.2011.06.009 . short: J. Maas, Journal of Functional Analysis 261 (2011) 2250–2292. date_created: 2018-12-11T11:55:51Z date_published: 2011-03-04T00:00:00Z date_updated: 2021-01-12T06:55:28Z day: '04' doi: '10.1016/j.jfa.2011.06.009 ' extern: 1 intvolume: ' 261' issue: '8' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1102.5238 month: '03' oa: 1 page: 2250 - 2292 publication: Journal of Functional Analysis publication_status: published publisher: Academic Press publist_id: '4909' quality_controlled: 0 status: public title: Gradient flows of the entropy for finite Markov chains type: journal_article volume: 261 year: '2011' ... --- _id: '2138' abstract: - lang: eng text: A (diatomic) shape resonance is a metastable state of a pair of colliding atoms quasi-bound by the centrifugal barrier imposed by the angular momentum involved in the collision. The temporary trapping of the atoms' scattering wavefunction corresponds to an enhanced atom pair density at low interatomic separations. This leads to larger overlap of the wavefunctions involved in a molecule formation process such as photoassociation, rendering the process more efficient. However, for an ensemble of atoms, the atom pair density will only be enhanced if the energy of the resonance comes close to the temperature of the atomic ensemble. Herein we explore the possibility of controlling the energy of a shape resonance by shifting it toward the temperature of atoms confined in a trap. The shifts are imparted by the interaction of non-resonant light with the anisotropic polarizability of the atom pair, which affects both the centrifugal barrier and the pair's rotational and vibrational levels. We find that at laser intensities of up to 5×109 W/cm2 the pair density is increased by one order of magnitude for 87Rb atoms at 100μK and by two orders of magnitude for 88Sr atoms at 20μK. acknowledgement: Financial support from the Deutsche Forschungsgemeinschaft (Grant No. KO 2301/2), by the Spanish project FIS2008-02380 (MICINN) as well as the Grants FQM-2445 and FQM-4643 (Junta de Andaluc´ıa), Campus de Excelencia Internacional Proyecto GENIL CEB09-0010 author: - first_name: Ruzin full_name: Ağanoğlu, Ruzin last_name: Ağanoğlu - first_name: Mikhail full_name: Mikhail Lemeshko id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 - first_name: Břetislav full_name: Friedrich, Břetislav last_name: Friedrich - first_name: Rosario full_name: González-Férez, Rosario last_name: González Férez - first_name: Christiane full_name: Koch, Christiane P last_name: Koch citation: ama: Ağanoğlu R, Lemeshko M, Friedrich B, González Férez R, Koch C. Controlling a diatomic shape resonance with non-resonant light. Unknown. 2011. apa: Ağanoğlu, R., Lemeshko, M., Friedrich, B., González Férez, R., & Koch, C. (2011). Controlling a diatomic shape resonance with non-resonant light. Unknown. ArXiv. chicago: Ağanoğlu, Ruzin, Mikhail Lemeshko, Břetislav Friedrich, Rosario González Férez, and Christiane Koch. “Controlling a Diatomic Shape Resonance with Non-Resonant Light.” Unknown. ArXiv, 2011. ieee: R. Ağanoğlu, M. Lemeshko, B. Friedrich, R. González Férez, and C. Koch, “Controlling a diatomic shape resonance with non-resonant light,” Unknown. ArXiv, 2011. ista: Ağanoğlu R, Lemeshko M, Friedrich B, González Férez R, Koch C. 2011. Controlling a diatomic shape resonance with non-resonant light. Unknown, . mla: Ağanoğlu, Ruzin, et al. “Controlling a Diatomic Shape Resonance with Non-Resonant Light.” Unknown, ArXiv, 2011. short: R. Ağanoğlu, M. Lemeshko, B. Friedrich, R. González Férez, C. Koch, Unknown (2011). date_created: 2018-12-11T11:55:55Z date_published: 2011-05-04T00:00:00Z date_updated: 2021-01-12T06:55:32Z day: '04' extern: 1 main_file_link: - open_access: '1' url: http://arxiv.org/abs/1105.0761 month: '05' oa: 1 publication: Unknown publication_status: published publisher: ArXiv publist_id: '4886' quality_controlled: 0 status: public title: Controlling a diatomic shape resonance with non-resonant light type: preprint year: '2011' ... --- _id: '2200' abstract: - lang: eng text: We made use of supersymmetric (SUSY) quantum mechanics to find the condition under which the Stark effect problem for a polar and polarizable closed-shell diatomic molecule subjected to collinear electrostatic and nonresonant radiative fields becomes exactly solvable. The condition Δω = ω2/4(m+1)2 connects values of the dimensionless parameters ω and Δω that characterize the strengths of the permanent and induced dipole interactions of the molecule with the respective fields. The exact solutions are obtained for the \J̃ = m, m; ω, Δω) family of 'stretched' states. The field-free and strong-field limits of the combined-fields problem were found to exhibit supersymmetry and shape invariance, which is indeed the reason why they are analytically solvable. By making use of the analytic form of the \J̃ = m,m; ω, Δω) wavefunctions, we obtained simple formulae for the expectation values of the space-fixed electric dipole moment, the alignment cosine and the angular momentum squared, and derived a 'sum rule' that combines the above expectation values into a formula for the eigenenergy. The analytic expressions for the characteristics of the strongly oriented and aligned states provide direct access to the values of the interaction parameters required for creating such states in the laboratory. acknowledgement: SK thanks the ARO for financial support author: - first_name: Mikhail full_name: Mikhail Lemeshko id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 - first_name: Mustafa full_name: Mustafa, Mustafa K last_name: Mustafa - first_name: Sabre full_name: Kais, Sabre last_name: Kais - first_name: Břetislav full_name: Friedrich, Břetislav last_name: Friedrich citation: ama: Lemeshko M, Mustafa M, Kais S, Friedrich B. Supersymmetry identifies molecular Stark states whose eigenproperties can be obtained analytically. New Journal of Physics. 2011;13. doi:10.1088/1367-2630/13/6/063036 apa: Lemeshko, M., Mustafa, M., Kais, S., & Friedrich, B. (2011). Supersymmetry identifies molecular Stark states whose eigenproperties can be obtained analytically. New Journal of Physics. IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/13/6/063036 chicago: Lemeshko, Mikhail, Mustafa Mustafa, Sabre Kais, and Břetislav Friedrich. “Supersymmetry Identifies Molecular Stark States Whose Eigenproperties Can Be Obtained Analytically.” New Journal of Physics. IOP Publishing Ltd., 2011. https://doi.org/10.1088/1367-2630/13/6/063036. ieee: M. Lemeshko, M. Mustafa, S. Kais, and B. Friedrich, “Supersymmetry identifies molecular Stark states whose eigenproperties can be obtained analytically,” New Journal of Physics, vol. 13. IOP Publishing Ltd., 2011. ista: Lemeshko M, Mustafa M, Kais S, Friedrich B. 2011. Supersymmetry identifies molecular Stark states whose eigenproperties can be obtained analytically. New Journal of Physics. 13. mla: Lemeshko, Mikhail, et al. “Supersymmetry Identifies Molecular Stark States Whose Eigenproperties Can Be Obtained Analytically.” New Journal of Physics, vol. 13, IOP Publishing Ltd., 2011, doi:10.1088/1367-2630/13/6/063036. short: M. Lemeshko, M. Mustafa, S. Kais, B. Friedrich, New Journal of Physics 13 (2011). date_created: 2018-12-11T11:56:17Z date_published: 2011-06-20T00:00:00Z date_updated: 2021-01-12T06:55:57Z day: '20' doi: 10.1088/1367-2630/13/6/063036 extern: 1 intvolume: ' 13' main_file_link: - open_access: '1' url: 'http://arxiv.org/abs/1106.4402 ' month: '06' oa: 1 publication: New Journal of Physics publication_status: published publisher: IOP Publishing Ltd. publist_id: '4774' quality_controlled: 0 status: public title: Supersymmetry identifies molecular Stark states whose eigenproperties can be obtained analytically type: journal_article volume: 13 year: '2011' ... --- _id: '2199' abstract: - lang: eng text: By invoking supersymmetry, we found a condition under which the Stark-effect problem for a polar and polarizable molecule subject to nonresonant electric fields becomes exactly solvable for the family of stretched states. The analytic expressions for the wave function and eigenenergy and other expectation values allow one to readily reverse-engineer the problem of finding the values of the interaction parameters required for creating quantum states with preordained characteristics. The method also allows the construction of families of isospectral potentials, realizable with combined fields. acknowledgement: 'ARO ' author: - first_name: Mikhail full_name: Mikhail Lemeshko id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 - first_name: Mustafa full_name: Mustafa, Mustafa K last_name: Mustafa - first_name: Sabre full_name: Kais, Sabre last_name: Kais - first_name: Břetislav full_name: Friedrich, Břetislav last_name: Friedrich citation: ama: Lemeshko M, Mustafa M, Kais S, Friedrich B. Supersymmetric factorization yields exact solutions to the molecular Stark-effect problem for &quot;stretched&quot; states. Physical Review A - Atomic, Molecular, and Optical Physics. 2011;83(4). doi:10.1103/PhysRevA.83.043415 apa: Lemeshko, M., Mustafa, M., Kais, S., & Friedrich, B. (2011). Supersymmetric factorization yields exact solutions to the molecular Stark-effect problem for &quot;stretched&quot; states. Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society. https://doi.org/10.1103/PhysRevA.83.043415 chicago: Lemeshko, Mikhail, Mustafa Mustafa, Sabre Kais, and Břetislav Friedrich. “Supersymmetric Factorization Yields Exact Solutions to the Molecular Stark-Effect Problem for &quot;Stretched&quot; States.” Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society, 2011. https://doi.org/10.1103/PhysRevA.83.043415. ieee: M. Lemeshko, M. Mustafa, S. Kais, and B. Friedrich, “Supersymmetric factorization yields exact solutions to the molecular Stark-effect problem for &quot;stretched&quot; states,” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 4. American Physical Society, 2011. ista: Lemeshko M, Mustafa M, Kais S, Friedrich B. 2011. Supersymmetric factorization yields exact solutions to the molecular Stark-effect problem for &quot;stretched&quot; states. Physical Review A - Atomic, Molecular, and Optical Physics. 83(4). mla: Lemeshko, Mikhail, et al. “Supersymmetric Factorization Yields Exact Solutions to the Molecular Stark-Effect Problem for &quot;Stretched&quot; States.” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 4, American Physical Society, 2011, doi:10.1103/PhysRevA.83.043415. short: M. Lemeshko, M. Mustafa, S. Kais, B. Friedrich, Physical Review A - Atomic, Molecular, and Optical Physics 83 (2011). date_created: 2018-12-11T11:56:17Z date_published: 2011-04-25T00:00:00Z date_updated: 2021-01-12T06:55:56Z day: '25' doi: 10.1103/PhysRevA.83.043415 extern: 1 intvolume: ' 83' issue: '4' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1105.5262 month: '04' oa: 1 publication: Physical Review A - Atomic, Molecular, and Optical Physics publication_status: published publisher: American Physical Society publist_id: '4776' quality_controlled: 0 status: public title: Supersymmetric factorization yields exact solutions to the molecular Stark-effect problem for "stretched" states type: journal_article volume: 83 year: '2011' ... --- _id: '2198' abstract: - lang: eng text: We show that dressing polar molecules with a far-off-resonant optical field leads to new types of intermolecular potentials, which undergo a crossover from the inverse power to oscillating behavior depending on the intermolecular distance, and whose parameters can be tuned by varying the laser intensity and wavelength. We present analytic expressions for the potential energy surfaces, thereby providing direct access to the parameters of an optical field required to design intermolecular interactions experimentally. author: - first_name: Mikhail full_name: Mikhail Lemeshko id: 37CB05FA-F248-11E8-B48F-1D18A9856A87 last_name: Lemeshko orcid: 0000-0002-6990-7802 citation: ama: Lemeshko M. Shaping interactions between polar molecules with far-off-resonant light. Physical Review A - Atomic, Molecular, and Optical Physics. 2011;83(5). doi:10.1103/PhysRevA.83.051402 apa: Lemeshko, M. (2011). Shaping interactions between polar molecules with far-off-resonant light. Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society. https://doi.org/10.1103/PhysRevA.83.051402 chicago: Lemeshko, Mikhail. “Shaping Interactions between Polar Molecules with Far-off-Resonant Light.” Physical Review A - Atomic, Molecular, and Optical Physics. American Physical Society, 2011. https://doi.org/10.1103/PhysRevA.83.051402. ieee: M. Lemeshko, “Shaping interactions between polar molecules with far-off-resonant light,” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 5. American Physical Society, 2011. ista: Lemeshko M. 2011. Shaping interactions between polar molecules with far-off-resonant light. Physical Review A - Atomic, Molecular, and Optical Physics. 83(5). mla: Lemeshko, Mikhail. “Shaping Interactions between Polar Molecules with Far-off-Resonant Light.” Physical Review A - Atomic, Molecular, and Optical Physics, vol. 83, no. 5, American Physical Society, 2011, doi:10.1103/PhysRevA.83.051402. short: M. Lemeshko, Physical Review A - Atomic, Molecular, and Optical Physics 83 (2011). date_created: 2018-12-11T11:56:17Z date_published: 2011-05-27T00:00:00Z date_updated: 2021-01-12T06:55:55Z day: '27' doi: 10.1103/PhysRevA.83.051402 extern: 1 intvolume: ' 83' issue: '5' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1104.1046 month: '05' oa: 1 publication: Physical Review A - Atomic, Molecular, and Optical Physics publication_status: published publisher: American Physical Society publist_id: '4775' quality_controlled: 0 status: public title: Shaping interactions between polar molecules with far-off-resonant light type: journal_article volume: 83 year: '2011' ... --- _id: '2312' abstract: - lang: eng text: Soon, the genetic basis of most human Mendelian diseases will be solved. The next challenge will be to leverage this information to uncover basic mechanisms of disease and develop new therapies. To understand how this transformation is already beginning to unfold, we focus on the ciliopathies, a class of multi-organ diseases caused by disruption of the primary cilium. Through a convergence of data involving mutant gene discovery, proteomics, and cell biology, more than a dozen phenotypically distinguishable conditions are now united as ciliopathies. Sitting at the interface between simple and complex genetic conditions, these diseases provide clues to the future direction of human genetics. author: - first_name: Gaia full_name: Gaia Novarino id: 3E57A680-F248-11E8-B48F-1D18A9856A87 last_name: Novarino orcid: 0000-0002-7673-7178 - first_name: Naiara full_name: Akizu, Naiara last_name: Akizu - first_name: Joseph full_name: Gleeson, Joseph G last_name: Gleeson citation: ama: 'Novarino G, Akizu N, Gleeson J. Modeling human disease in humans: The ciliopathies. Cell. 2011;147(1):70-79. doi:10.1016/j.cell.2011.09.014' apa: 'Novarino, G., Akizu, N., & Gleeson, J. (2011). Modeling human disease in humans: The ciliopathies. Cell. Cell Press. https://doi.org/10.1016/j.cell.2011.09.014' chicago: 'Novarino, Gaia, Naiara Akizu, and Joseph Gleeson. “Modeling Human Disease in Humans: The Ciliopathies.” Cell. Cell Press, 2011. https://doi.org/10.1016/j.cell.2011.09.014.' ieee: 'G. Novarino, N. Akizu, and J. Gleeson, “Modeling human disease in humans: The ciliopathies,” Cell, vol. 147, no. 1. Cell Press, pp. 70–79, 2011.' ista: 'Novarino G, Akizu N, Gleeson J. 2011. Modeling human disease in humans: The ciliopathies. Cell. 147(1), 70–79.' mla: 'Novarino, Gaia, et al. “Modeling Human Disease in Humans: The Ciliopathies.” Cell, vol. 147, no. 1, Cell Press, 2011, pp. 70–79, doi:10.1016/j.cell.2011.09.014.' short: G. Novarino, N. Akizu, J. Gleeson, Cell 147 (2011) 70–79. date_created: 2018-12-11T11:56:55Z date_published: 2011-01-01T00:00:00Z date_updated: 2019-04-26T07:22:10Z day: '01' doi: 10.1016/j.cell.2011.09.014 extern: 1 intvolume: ' 147' issue: '1' month: '01' page: 70 - 79 publication: Cell publication_status: published publisher: Cell Press publist_id: '4615' quality_controlled: 0 status: public title: 'Modeling human disease in humans: The ciliopathies' type: review volume: 147 year: '2011' ... --- _id: '2320' abstract: - lang: eng text: The binding of polarons, or its absence, is an old and subtle topic. After defining the model we state some recent theorems of ours. First, the transition from many-body collapse to the existence of a thermodynamic limit for N polarons occurs precisely at U = 2α, where U is the electronic Coulomb repulsion and α is the polaron coupling constant. Second, if U is large enough, there is no multi-polaron binding of any kind. We also discuss the Pekar-Tomasevich approximation to the ground state energy, which is valid for large α. Finally, we derive exact results, not reported before, about the one-dimensional toy model introduced by E. P. Gross. author: - first_name: Rupert full_name: Frank, Rupert L last_name: Frank - first_name: Élliott full_name: Lieb, Élliott H last_name: Lieb - first_name: Robert full_name: Robert Seiringer id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 - first_name: Lawrence full_name: Thomas, Lawrence E last_name: Thomas citation: ama: 'Frank R, Lieb É, Seiringer R, Thomas L. Binding, stability, and non-binding of multi-polaron systems. In: World Scientific Publishing; 2011:21-32. doi:10.1142/9789814350365_0002' apa: 'Frank, R., Lieb, É., Seiringer, R., & Thomas, L. (2011). Binding, stability, and non-binding of multi-polaron systems (pp. 21–32). Presented at the QMath: Mathematical Results in Quantum Physics, World Scientific Publishing. https://doi.org/10.1142/9789814350365_0002' chicago: Frank, Rupert, Élliott Lieb, Robert Seiringer, and Lawrence Thomas. “Binding, Stability, and Non-Binding of Multi-Polaron Systems,” 21–32. World Scientific Publishing, 2011. https://doi.org/10.1142/9789814350365_0002. ieee: 'R. Frank, É. Lieb, R. Seiringer, and L. Thomas, “Binding, stability, and non-binding of multi-polaron systems,” presented at the QMath: Mathematical Results in Quantum Physics, 2011, pp. 21–32.' ista: 'Frank R, Lieb É, Seiringer R, Thomas L. 2011. Binding, stability, and non-binding of multi-polaron systems. QMath: Mathematical Results in Quantum Physics, 21–32.' mla: Frank, Rupert, et al. Binding, Stability, and Non-Binding of Multi-Polaron Systems. World Scientific Publishing, 2011, pp. 21–32, doi:10.1142/9789814350365_0002. short: R. Frank, É. Lieb, R. Seiringer, L. Thomas, in:, World Scientific Publishing, 2011, pp. 21–32. conference: name: 'QMath: Mathematical Results in Quantum Physics' date_created: 2018-12-11T11:56:58Z date_published: 2011-05-26T00:00:00Z date_updated: 2021-01-12T06:56:45Z day: '26' doi: 10.1142/9789814350365_0002 extern: 1 main_file_link: - open_access: '1' url: http://arxiv.org/abs/1010.0737 month: '05' oa: 1 page: 21 - 32 publication_status: published publisher: World Scientific Publishing publist_id: '4607' quality_controlled: 0 status: public title: Binding, stability, and non-binding of multi-polaron systems type: conference year: '2011' ... --- _id: '2321' abstract: - lang: eng text: We derive a sharp bound on the location of non-positive eigenvalues of Schrödinger operators on the half-line with complex-valued potentials. alternative_title: - 'Operator Theory: Advances and Applications' author: - first_name: Rupert full_name: Frank, Rupert L last_name: Frank - first_name: Ari full_name: Laptev, Ari last_name: Laptev - first_name: Robert full_name: Robert Seiringer id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: 'Frank R, Laptev A, Seiringer R. A sharp bound on eigenvalues of Schrödinger operators on the halfline with complex-valued potentials. In: Vol 214. Springer; 2011:39-44. doi:10.1007/978-3-7643-9994-8_3' apa: 'Frank, R., Laptev, A., & Seiringer, R. (2011). A sharp bound on eigenvalues of Schrödinger operators on the halfline with complex-valued potentials (Vol. 214, pp. 39–44). Presented at the OTAMP: Operator Theory, Analysis and Mathematical Physics, Springer. https://doi.org/10.1007/978-3-7643-9994-8_3' chicago: Frank, Rupert, Ari Laptev, and Robert Seiringer. “ A Sharp Bound on Eigenvalues of Schrödinger Operators on the Halfline with Complex-Valued Potentials,” 214:39–44. Springer, 2011. https://doi.org/10.1007/978-3-7643-9994-8_3. ieee: 'R. Frank, A. Laptev, and R. Seiringer, “ A sharp bound on eigenvalues of Schrödinger operators on the halfline with complex-valued potentials,” presented at the OTAMP: Operator Theory, Analysis and Mathematical Physics, 2011, vol. 214, pp. 39–44.' ista: 'Frank R, Laptev A, Seiringer R. 2011. A sharp bound on eigenvalues of Schrödinger operators on the halfline with complex-valued potentials. OTAMP: Operator Theory, Analysis and Mathematical Physics, Operator Theory: Advances and Applications, vol. 214, 39–44.' mla: Frank, Rupert, et al. A Sharp Bound on Eigenvalues of Schrödinger Operators on the Halfline with Complex-Valued Potentials. Vol. 214, Springer, 2011, pp. 39–44, doi:10.1007/978-3-7643-9994-8_3. short: R. Frank, A. Laptev, R. Seiringer, in:, Springer, 2011, pp. 39–44. conference: name: 'OTAMP: Operator Theory, Analysis and Mathematical Physics' date_created: 2018-12-11T11:56:59Z date_published: 2011-03-31T00:00:00Z date_updated: 2021-01-12T06:56:46Z day: '31' doi: 10.1007/978-3-7643-9994-8_3 extern: 1 intvolume: ' 214' main_file_link: - open_access: '1' url: http://arxiv.org/abs/0903.2053 month: '03' oa: 1 page: 39 - 44 publication_status: published publisher: Springer publist_id: '4606' quality_controlled: 0 status: public title: ' A sharp bound on eigenvalues of Schrödinger operators on the halfline with complex-valued potentials' type: conference volume: 214 year: '2011' ... --- _id: '233' abstract: - lang: eng text: 'For an irreducible polynomial in at most two variables the problem of representing power-free integers is investigated. ' acknowledgement: "EP/E053262/1\tEngineering and Physical Sciences Research Council" author: - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: Browning TD. Power-free values of polynomials. Archiv der Mathematik. 2011;96(2):139-150. doi:10.1007/s00013-011-0224-7 apa: Browning, T. D. (2011). Power-free values of polynomials. Archiv Der Mathematik. Birkhäuser. https://doi.org/10.1007/s00013-011-0224-7 chicago: Browning, Timothy D. “Power-Free Values of Polynomials.” Archiv Der Mathematik. Birkhäuser, 2011. https://doi.org/10.1007/s00013-011-0224-7. ieee: T. D. Browning, “Power-free values of polynomials,” Archiv der Mathematik, vol. 96, no. 2. Birkhäuser, pp. 139–150, 2011. ista: Browning TD. 2011. Power-free values of polynomials. Archiv der Mathematik. 96(2), 139–150. mla: Browning, Timothy D. “Power-Free Values of Polynomials.” Archiv Der Mathematik, vol. 96, no. 2, Birkhäuser, 2011, pp. 139–50, doi:10.1007/s00013-011-0224-7. short: T.D. Browning, Archiv Der Mathematik 96 (2011) 139–150. date_created: 2018-12-11T11:45:21Z date_published: 2011-02-19T00:00:00Z date_updated: 2021-01-12T06:56:49Z day: '19' doi: 10.1007/s00013-011-0224-7 extern: 1 intvolume: ' 96' issue: '2' month: '02' page: 139 - 150 publication: Archiv der Mathematik publication_status: published publisher: Birkhäuser publist_id: '7670' quality_controlled: 0 status: public title: Power-free values of polynomials type: journal_article volume: 96 year: '2011' ... --- _id: '234' abstract: - lang: eng text: We investigate the average order of the divisor function at values of binary cubic forms that are reducible over Q and discuss some applications. author: - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: Browning TD. The divisor problem for binary cubic forms. Journal de Theorie des Nombres de Bordeaux. 2011;23(3):579-602. doi:10.5802/jtnb.778 apa: Browning, T. D. (2011). The divisor problem for binary cubic forms. Journal de Theorie Des Nombres de Bordeaux. Universite de Bordeaux. https://doi.org/10.5802/jtnb.778 chicago: Browning, Timothy D. “The Divisor Problem for Binary Cubic Forms.” Journal de Theorie Des Nombres de Bordeaux. Universite de Bordeaux, 2011. https://doi.org/10.5802/jtnb.778. ieee: T. D. Browning, “The divisor problem for binary cubic forms,” Journal de Theorie des Nombres de Bordeaux, vol. 23, no. 3. Universite de Bordeaux, pp. 579–602, 2011. ista: Browning TD. 2011. The divisor problem for binary cubic forms. Journal de Theorie des Nombres de Bordeaux. 23(3), 579–602. mla: Browning, Timothy D. “The Divisor Problem for Binary Cubic Forms.” Journal de Theorie Des Nombres de Bordeaux, vol. 23, no. 3, Universite de Bordeaux, 2011, pp. 579–602, doi:10.5802/jtnb.778. short: T.D. Browning, Journal de Theorie Des Nombres de Bordeaux 23 (2011) 579–602. date_created: 2018-12-11T11:45:21Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:56:53Z day: '01' doi: 10.5802/jtnb.778 extern: 1 intvolume: ' 23' issue: '3' month: '01' page: 579 - 602 publication: Journal de Theorie des Nombres de Bordeaux publication_status: published publisher: Universite de Bordeaux publist_id: '7671' quality_controlled: 0 status: public title: The divisor problem for binary cubic forms type: journal_article volume: 23 year: '2011' ... --- _id: '235' abstract: - lang: eng text: For given positive integers m and n, we consider the frequency of representations of m/n as a sum of unit fractions. article_processing_charge: No article_type: original author: - first_name: Timothy D full_name: Browning, Timothy D id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 - first_name: Christian full_name: Elsholtz, Christian last_name: Elsholtz citation: ama: Browning TD, Elsholtz C. The number of representations of rationals as a sum of unit fractions. Illinois Journal of Mathematics. 2011;55(2):685-696. apa: Browning, T. D., & Elsholtz, C. (2011). The number of representations of rationals as a sum of unit fractions. Illinois Journal of Mathematics. University of Illinois Press. chicago: Browning, Timothy D, and Christian Elsholtz. “The Number of Representations of Rationals as a Sum of Unit Fractions.” Illinois Journal of Mathematics. University of Illinois Press, 2011. ieee: T. D. Browning and C. Elsholtz, “The number of representations of rationals as a sum of unit fractions,” Illinois Journal of Mathematics, vol. 55, no. 2. University of Illinois Press, pp. 685–696, 2011. ista: Browning TD, Elsholtz C. 2011. The number of representations of rationals as a sum of unit fractions. Illinois Journal of Mathematics. 55(2), 685–696. mla: Browning, Timothy D., and Christian Elsholtz. “The Number of Representations of Rationals as a Sum of Unit Fractions.” Illinois Journal of Mathematics, vol. 55, no. 2, University of Illinois Press, 2011, pp. 685–96. short: T.D. Browning, C. Elsholtz, Illinois Journal of Mathematics 55 (2011) 685–696. date_created: 2018-12-11T11:45:21Z date_published: 2011-07-01T00:00:00Z date_updated: 2021-01-12T06:56:57Z day: '01' extern: '1' intvolume: ' 55' issue: '2' language: - iso: eng month: '07' oa_version: None page: 685 - 696 publication: Illinois Journal of Mathematics publication_status: published publisher: University of Illinois Press publist_id: '7669' quality_controlled: '1' status: public title: The number of representations of rationals as a sum of unit fractions type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 55 year: '2011' ... --- _id: '236' abstract: - lang: eng text: An asymptotic formula is established for the number of Q-rational points of bounded height on a nonsingular quartic Del Pezzo surface with a conic bundle structure. acknowledgement: "EP/E053262/1\tEngineering and Physical Sciences Research Council" author: - first_name: Régis full_name: de la Bretèche, Régis last_name: De La Bretèche - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: De La Bretèche R, Browning TD. Manin’s conjecture for quartic Del Pezzo surfaces with a conic fibration. Duke Mathematical Journal. 2011;160(1):1-69. doi:10.1215/00127094-1443466 apa: De La Bretèche, R., & Browning, T. D. (2011). Manin’s conjecture for quartic Del Pezzo surfaces with a conic fibration. Duke Mathematical Journal. Duke University Press. https://doi.org/10.1215/00127094-1443466 chicago: De La Bretèche, Régis, and Timothy D Browning. “Manin’s Conjecture for Quartic Del Pezzo Surfaces with a Conic Fibration.” Duke Mathematical Journal. Duke University Press, 2011. https://doi.org/10.1215/00127094-1443466. ieee: R. De La Bretèche and T. D. Browning, “Manin’s conjecture for quartic Del Pezzo surfaces with a conic fibration,” Duke Mathematical Journal, vol. 160, no. 1. Duke University Press, pp. 1–69, 2011. ista: De La Bretèche R, Browning TD. 2011. Manin’s conjecture for quartic Del Pezzo surfaces with a conic fibration. Duke Mathematical Journal. 160(1), 1–69. mla: De La Bretèche, Régis, and Timothy D. Browning. “Manin’s Conjecture for Quartic Del Pezzo Surfaces with a Conic Fibration.” Duke Mathematical Journal, vol. 160, no. 1, Duke University Press, 2011, pp. 1–69, doi:10.1215/00127094-1443466. short: R. De La Bretèche, T.D. Browning, Duke Mathematical Journal 160 (2011) 1–69. date_created: 2018-12-11T11:45:21Z date_published: 2011-09-27T00:00:00Z date_updated: 2021-01-12T06:57:00Z day: '27' doi: 10.1215/00127094-1443466 extern: 1 intvolume: ' 160' issue: '1' month: '09' page: 1 - 69 publication: Duke Mathematical Journal publication_status: published publisher: Duke University Press publist_id: '7668' quality_controlled: 0 status: public title: Manin's conjecture for quartic Del Pezzo surfaces with a conic fibration type: journal_article volume: 160 year: '2011' ... --- _id: '2390' abstract: - lang: eng text: 'We resolve several longstanding problems concerning the stability and the absence of multi-particle binding for N≥2 polarons. Fröhlich''s 1937 polaron model describes non-relativistic particles interacting with a scalar quantized field with coupling √α, and with each other by Coulomb repulsion of strength U. We prove the following: (i) While there is a known thermodynamic instability for U<2α, stability of matter does hold for U>2α, that is, the ground state energy per particle has a finite limit as N→∞. (ii) There is no binding of any kind if U exceeds a critical value that depends on α but not on N. The same results are shown to hold for the Pekar-Tomasevich model.' author: - first_name: Rupert full_name: Frank, Rupert L last_name: Frank - first_name: Élliott full_name: Lieb, Élliott H last_name: Lieb - first_name: Robert full_name: Robert Seiringer id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 - first_name: Lawrence full_name: Thomas, Lawrence E last_name: Thomas citation: ama: Frank R, Lieb É, Seiringer R, Thomas L. Stability and absence of binding for multi-polaron systems. Publications Mathematiques de l Institut des Hautes Etudes Scientifiques. 2011;113(1):39-67. doi:10.1007/s10240-011-0031-5 apa: Frank, R., Lieb, É., Seiringer, R., & Thomas, L. (2011). Stability and absence of binding for multi-polaron systems. Publications Mathematiques de l Institut Des Hautes Etudes Scientifiques. Springer. https://doi.org/10.1007/s10240-011-0031-5 chicago: Frank, Rupert, Élliott Lieb, Robert Seiringer, and Lawrence Thomas. “Stability and Absence of Binding for Multi-Polaron Systems.” Publications Mathematiques de l Institut Des Hautes Etudes Scientifiques. Springer, 2011. https://doi.org/10.1007/s10240-011-0031-5. ieee: R. Frank, É. Lieb, R. Seiringer, and L. Thomas, “Stability and absence of binding for multi-polaron systems,” Publications Mathematiques de l Institut des Hautes Etudes Scientifiques, vol. 113, no. 1. Springer, pp. 39–67, 2011. ista: Frank R, Lieb É, Seiringer R, Thomas L. 2011. Stability and absence of binding for multi-polaron systems. Publications Mathematiques de l Institut des Hautes Etudes Scientifiques. 113(1), 39–67. mla: Frank, Rupert, et al. “Stability and Absence of Binding for Multi-Polaron Systems.” Publications Mathematiques de l Institut Des Hautes Etudes Scientifiques, vol. 113, no. 1, Springer, 2011, pp. 39–67, doi:10.1007/s10240-011-0031-5. short: R. Frank, É. Lieb, R. Seiringer, L. Thomas, Publications Mathematiques de l Institut Des Hautes Etudes Scientifiques 113 (2011) 39–67. date_created: 2018-12-11T11:57:23Z date_published: 2011-06-01T00:00:00Z date_updated: 2021-01-12T06:57:12Z day: '01' doi: 10.1007/s10240-011-0031-5 extern: 1 intvolume: ' 113' issue: '1' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1004.4892 month: '06' oa: 1 page: 39 - 67 publication: Publications Mathematiques de l Institut des Hautes Etudes Scientifiques publication_status: published publisher: Springer publist_id: '4534' quality_controlled: 0 status: public title: Stability and absence of binding for multi-polaron systems type: journal_article volume: 113 year: '2011' ... --- _id: '2391' abstract: - lang: eng text: The change in energy of an ideal Fermi gas when a local one-body potential is inserted into the system, or when the density is changed locally, are important quantities in condensed matter physics. We show that they can be rigorously bounded from below by a universal constant times the value given by the semiclassical approximation. author: - first_name: Rupert full_name: Frank, Rupert L last_name: Frank - first_name: Mathieu full_name: Lewin, Mathieu last_name: Lewin - first_name: Élliott full_name: Lieb, Élliott H last_name: Lieb - first_name: Robert full_name: Robert Seiringer id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Frank R, Lewin M, Lieb É, Seiringer R. Energy cost to make a hole in the fermi sea. Physical Review Letters. 2011;106(15). doi:10.1103/PhysRevLett.106.150402 apa: Frank, R., Lewin, M., Lieb, É., & Seiringer, R. (2011). Energy cost to make a hole in the fermi sea. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.106.150402 chicago: Frank, Rupert, Mathieu Lewin, Élliott Lieb, and Robert Seiringer. “Energy Cost to Make a Hole in the Fermi Sea.” Physical Review Letters. American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.106.150402. ieee: R. Frank, M. Lewin, É. Lieb, and R. Seiringer, “Energy cost to make a hole in the fermi sea,” Physical Review Letters, vol. 106, no. 15. American Physical Society, 2011. ista: Frank R, Lewin M, Lieb É, Seiringer R. 2011. Energy cost to make a hole in the fermi sea. Physical Review Letters. 106(15). mla: Frank, Rupert, et al. “Energy Cost to Make a Hole in the Fermi Sea.” Physical Review Letters, vol. 106, no. 15, American Physical Society, 2011, doi:10.1103/PhysRevLett.106.150402. short: R. Frank, M. Lewin, É. Lieb, R. Seiringer, Physical Review Letters 106 (2011). date_created: 2018-12-11T11:57:24Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:57:12Z day: '01' doi: 10.1103/PhysRevLett.106.150402 extern: 1 intvolume: ' 106' issue: '15' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1102.1414 month: '01' oa: 1 publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '4535' quality_controlled: 0 status: public title: Energy cost to make a hole in the fermi sea type: journal_article volume: 106 year: '2011' ... --- _id: '239' abstract: - lang: eng text: An effective search bound is established for the least non-trivial integer zero of an arbitrary cubic form C ε ℤ[X 1,...,X n], provided that n ≥ 17. acknowledgement: "EP/E053262/1\tEngineering and Physical Sciences Research Council" author: - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 - first_name: Rainer full_name: Dietmann, Rainer last_name: Dietmann - first_name: Peter full_name: Elliott, Peter last_name: Elliott citation: ama: Browning TD, Dietmann R, Elliott P. Least zero of a cubic form. Mathematische Annalen. 2011;352(3):745-778. doi:10.1007/s00208-011-0651-6 apa: Browning, T. D., Dietmann, R., & Elliott, P. (2011). Least zero of a cubic form. Mathematische Annalen. Springer. https://doi.org/10.1007/s00208-011-0651-6 chicago: Browning, Timothy D, Rainer Dietmann, and Peter Elliott. “Least Zero of a Cubic Form.” Mathematische Annalen. Springer, 2011. https://doi.org/10.1007/s00208-011-0651-6. ieee: T. D. Browning, R. Dietmann, and P. Elliott, “Least zero of a cubic form,” Mathematische Annalen, vol. 352, no. 3. Springer, pp. 745–778, 2011. ista: Browning TD, Dietmann R, Elliott P. 2011. Least zero of a cubic form. Mathematische Annalen. 352(3), 745–778. mla: Browning, Timothy D., et al. “Least Zero of a Cubic Form.” Mathematische Annalen, vol. 352, no. 3, Springer, 2011, pp. 745–78, doi:10.1007/s00208-011-0651-6. short: T.D. Browning, R. Dietmann, P. Elliott, Mathematische Annalen 352 (2011) 745–778. date_created: 2018-12-11T11:45:22Z date_published: 2011-03-06T00:00:00Z date_updated: 2021-01-12T06:57:11Z day: '06' doi: 10.1007/s00208-011-0651-6 extern: 1 intvolume: ' 352' issue: '3' month: '03' page: 745 - 778 publication: Mathematische Annalen publication_status: published publisher: Springer publist_id: '7665' quality_controlled: 0 status: public title: Least zero of a cubic form type: journal_article volume: 352 year: '2011' ... --- _id: '2393' abstract: - lang: eng text: We investigate the low energy excitation spectrum of a Bose gas with weak, long range repulsive interactions. In particular, we prove that the Bogoliubov spectrum of elementary excitations with linear dispersion relation for small momentum becomes exact in the mean-field limit. author: - first_name: Robert full_name: Robert Seiringer id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Seiringer R. The excitation spectrum for weakly interacting Bosons. Communications in Mathematical Physics. 2011;306(2):565-578. doi:10.1007/s00220-011-1261-6 apa: Seiringer, R. (2011). The excitation spectrum for weakly interacting Bosons. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-011-1261-6 chicago: Seiringer, Robert. “The Excitation Spectrum for Weakly Interacting Bosons.” Communications in Mathematical Physics. Springer, 2011. https://doi.org/10.1007/s00220-011-1261-6. ieee: R. Seiringer, “The excitation spectrum for weakly interacting Bosons,” Communications in Mathematical Physics, vol. 306, no. 2. Springer, pp. 565–578, 2011. ista: Seiringer R. 2011. The excitation spectrum for weakly interacting Bosons. Communications in Mathematical Physics. 306(2), 565–578. mla: Seiringer, Robert. “The Excitation Spectrum for Weakly Interacting Bosons.” Communications in Mathematical Physics, vol. 306, no. 2, Springer, 2011, pp. 565–78, doi:10.1007/s00220-011-1261-6. short: R. Seiringer, Communications in Mathematical Physics 306 (2011) 565–578. date_created: 2018-12-11T11:57:24Z date_published: 2011-09-01T00:00:00Z date_updated: 2021-01-12T06:57:13Z day: '01' doi: 10.1007/s00220-011-1261-6 extern: 1 intvolume: ' 306' issue: '2' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1008.5349 month: '09' oa: 1 page: 565 - 578 publication: Communications in Mathematical Physics publication_status: published publisher: Springer publist_id: '4533' quality_controlled: 0 status: public title: The excitation spectrum for weakly interacting Bosons type: journal_article volume: 306 year: '2011' ... --- _id: '2436' abstract: - lang: eng text: 'Let EMBEDk→d be the following algorithmic problem: Given a finite simplicial complex K of dimension at most k, does there exist a (piecewise linear) embedding of K into Rd? Known results easily imply the polynomiality of EMBEDk→2 (k = 1; 2; the case k = 1, d = 2 is graph planarity) and of EMBEDk→2k for all k ≥ 3. We show that the celebrated result of Novikov on the algorithmic unsolvability of recognizing the 5-sphere implies that EMBEDd→d and EMBED (d-1)→d are undecidable for each d ≥ 5. Our main result is the NP-hardness of EMBED2→4 and, more generally, of EMBED k→d for all k; d with d ≥ 4 and d ≥ k ≥ (2d - 2)/3. These dimensions fall outside the metastable range of a theorem of Haefliger and Weber, which characterizes embeddability using the deleted product obstruction. Our reductions are based on examples, due to Segal, Spież, Freedman, Krushkal, Teichner, and Skopenkov, showing that outside the metastable range the deleted product obstruction is not sufficient to characterize embeddability. ' acknowledgement: |- We would like to thank Colin Rourke for explanations concerning PL topology and for examples showing the difference between PL embeddability and topological embeddability mentioned in Section 2. We also thank Michael Joswig, Gil Kalai, Frank Lutz, Alexander Nabutovsky, and Robin Thomas for kindly answering our questions. The second author would also like to thank Sergio Cabello for helpful discussions regarding linear-time algorithms for EMBED2!2. Finally, we are grateful to two anonymous referees for careful reading and valuable suggestions. Research of U.Wagner was supported by the Swiss National Science Foundation (SNF Projects 200021-116741 and 200021-125309). author: - first_name: Jiří full_name: Matoušek, Jiří last_name: Matoušek - first_name: Martin full_name: Martin Tancer id: 38AC689C-F248-11E8-B48F-1D18A9856A87 last_name: Tancer orcid: 0000-0002-1191-6714 - first_name: Uli full_name: Uli Wagner id: 36690CA2-F248-11E8-B48F-1D18A9856A87 last_name: Wagner orcid: 0000-0002-1494-0568 citation: ama: Matoušek J, Tancer M, Wagner U. Hardness of embedding simplicial complexes in Rd. Journal of the European Mathematical Society. 2011;13(2):259-295. doi:10.4171/JEMS/252 apa: Matoušek, J., Tancer, M., & Wagner, U. (2011). Hardness of embedding simplicial complexes in Rd. Journal of the European Mathematical Society. European Mathematical Society. https://doi.org/10.4171/JEMS/252 chicago: Matoušek, Jiří, Martin Tancer, and Uli Wagner. “Hardness of Embedding Simplicial Complexes in Rd.” Journal of the European Mathematical Society. European Mathematical Society, 2011. https://doi.org/10.4171/JEMS/252. ieee: J. Matoušek, M. Tancer, and U. Wagner, “Hardness of embedding simplicial complexes in Rd,” Journal of the European Mathematical Society, vol. 13, no. 2. European Mathematical Society, pp. 259–295, 2011. ista: Matoušek J, Tancer M, Wagner U. 2011. Hardness of embedding simplicial complexes in Rd. Journal of the European Mathematical Society. 13(2), 259–295. mla: Matoušek, Jiří, et al. “Hardness of Embedding Simplicial Complexes in Rd.” Journal of the European Mathematical Society, vol. 13, no. 2, European Mathematical Society, 2011, pp. 259–95, doi:10.4171/JEMS/252. short: J. Matoušek, M. Tancer, U. Wagner, Journal of the European Mathematical Society 13 (2011) 259–295. date_created: 2018-12-11T11:57:39Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:57:28Z day: '01' doi: 10.4171/JEMS/252 extern: 1 intvolume: ' 13' issue: '2' month: '01' page: 259 - 295 publication: Journal of the European Mathematical Society publication_status: published publisher: European Mathematical Society publist_id: '4470' quality_controlled: 0 status: public title: Hardness of embedding simplicial complexes in Rd type: journal_article volume: 13 year: '2011' ... --- _id: '2437' abstract: - lang: eng text: We introduce a new notion of minors for simplicial complexes (hypergraphs), so-called homological minors. Our motivation is to propose a general approach to attack certain extremal problems for sparse simplicial complexes and the corresponding threshold problems for random complexes. In this paper, we focus on threshold problems. The basic model for random complexes is the Linial-Meshulam model Xk(n, p). By definition, such a complex has n vertices, a complete (k -1)-dimensional skeleton, and every possible k-dimensional simplex is chosen independently with probability p. We show that for every k, t≥ 1, there is a constant C = C(k, t) such that for p≥ C/n, the random complex Xk(n, p) asymptotically almost surely contains K tk (the complete k-dimensional complex on t vertices) as a homological minor. As corollary, the threshold for (topological) embeddability of Xk(n, p) into R2k is at p = θ(1/n). The method can be extended to other models of random complexes (for which the lower skeleta are not necessarily complete) and also to more general Tverberg-type problems, where instead of continuous maps without doubly covered image points (embeddings), we consider maps without qfold covered image points. author: - first_name: Uli full_name: Uli Wagner id: 36690CA2-F248-11E8-B48F-1D18A9856A87 last_name: Wagner orcid: 0000-0002-1494-0568 citation: ama: 'Wagner U. Minors in random and expanding hypergraphs. In: ACM; 2011:351-360. doi:10.1145/1998196.1998256' apa: 'Wagner, U. (2011). Minors in random and expanding hypergraphs (pp. 351–360). Presented at the SGC: Symposuim on Computational Geometry, ACM. https://doi.org/10.1145/1998196.1998256' chicago: Wagner, Uli. “Minors in Random and Expanding Hypergraphs,” 351–60. ACM, 2011. https://doi.org/10.1145/1998196.1998256. ieee: 'U. Wagner, “Minors in random and expanding hypergraphs,” presented at the SGC: Symposuim on Computational Geometry, 2011, pp. 351–360.' ista: 'Wagner U. 2011. Minors in random and expanding hypergraphs. SGC: Symposuim on Computational Geometry, 351–360.' mla: Wagner, Uli. Minors in Random and Expanding Hypergraphs. ACM, 2011, pp. 351–60, doi:10.1145/1998196.1998256. short: U. Wagner, in:, ACM, 2011, pp. 351–360. conference: name: 'SGC: Symposuim on Computational Geometry' date_created: 2018-12-11T11:57:39Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:57:29Z day: '01' doi: 10.1145/1998196.1998256 extern: 1 month: '01' page: 351 - 360 publication_status: published publisher: ACM publist_id: '4469' quality_controlled: 0 status: public title: Minors in random and expanding hypergraphs type: conference year: '2011' ... --- _id: '2454' abstract: - lang: eng text: Within a multicellular tissue cells may coordinately form a singular or multiple polar axes, but it is unclear whether a common mechanism governs different types of polar axis formation. The phosphorylation status of PIN proteins, which is directly affected by the PINOID (PID) protein kinase and the PP2A protein phosphatase, is known to regulate the apical-basal polarity of PIN localization in bipolar cells of roots and shoot apices. Here, we provide evidence that the phosphorylation status-mediated PIN polarity switch is widely used to modulate cellular processes in Arabidopsis including multipolar pavement cells (PC) with interdigitated lobes and indentations. The degree of PC interdigitation was greatly reduced either when the FYPP1 gene, which encodes a PP2A called phytochrome-associated serine/threonine protein phosphatase, was knocked out or when the PID gene was overexpressed (35S:PID). These genetic modifications caused PIN1 localization to switch from lobe to indentation regions. The PP2A and PID mediated switching of PIN1 localization is strikingly similar to their regulation of the apical-basal polarity switch of PIN proteins in other cells. Our findings suggest a common mechanism for the regulation of PIN1 polarity formation, a fundamental cellular process that is crucial for pattern formation both at the tissue/organ and cellular levels. author: - first_name: Hongjiang full_name: Hongjiang Li id: 33CA54A6-F248-11E8-B48F-1D18A9856A87 last_name: Li orcid: 0000-0001-5039-9660 - first_name: Deshu full_name: Lin, Deshu last_name: Lin - first_name: Pankaj full_name: Dhonukshe, Pankaj B last_name: Dhonukshe - first_name: Shingo full_name: Nagawa, Shingo last_name: Nagawa - first_name: Dandan full_name: Chen, Dandan last_name: Chen - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Ben full_name: Scheres, Ben last_name: Scheres - first_name: Hongwei full_name: Guo, Hongwei last_name: Guo - first_name: Zhenbiao full_name: Yang, Zhenbiao last_name: Yang citation: ama: Li H, Lin D, Dhonukshe P, et al. Phosphorylation switch modulates the interdigitated pattern of PIN1 localization and cell expansion in Arabidopsis leaf epidermis. Cell Research. 2011;21(6):970-978. doi:10.1038/cr.2011.49 apa: Li, H., Lin, D., Dhonukshe, P., Nagawa, S., Chen, D., Friml, J., … Yang, Z. (2011). Phosphorylation switch modulates the interdigitated pattern of PIN1 localization and cell expansion in Arabidopsis leaf epidermis. Cell Research. Nature Publishing Group. https://doi.org/10.1038/cr.2011.49 chicago: Li, Hongjiang, Deshu Lin, Pankaj Dhonukshe, Shingo Nagawa, Dandan Chen, Jiří Friml, Ben Scheres, Hongwei Guo, and Zhenbiao Yang. “Phosphorylation Switch Modulates the Interdigitated Pattern of PIN1 Localization and Cell Expansion in Arabidopsis Leaf Epidermis.” Cell Research. Nature Publishing Group, 2011. https://doi.org/10.1038/cr.2011.49. ieee: H. Li et al., “Phosphorylation switch modulates the interdigitated pattern of PIN1 localization and cell expansion in Arabidopsis leaf epidermis,” Cell Research, vol. 21, no. 6. Nature Publishing Group, pp. 970–978, 2011. ista: Li H, Lin D, Dhonukshe P, Nagawa S, Chen D, Friml J, Scheres B, Guo H, Yang Z. 2011. Phosphorylation switch modulates the interdigitated pattern of PIN1 localization and cell expansion in Arabidopsis leaf epidermis. Cell Research. 21(6), 970–978. mla: Li, Hongjiang, et al. “Phosphorylation Switch Modulates the Interdigitated Pattern of PIN1 Localization and Cell Expansion in Arabidopsis Leaf Epidermis.” Cell Research, vol. 21, no. 6, Nature Publishing Group, 2011, pp. 970–78, doi:10.1038/cr.2011.49. short: H. Li, D. Lin, P. Dhonukshe, S. Nagawa, D. Chen, J. Friml, B. Scheres, H. Guo, Z. Yang, Cell Research 21 (2011) 970–978. date_created: 2018-12-11T11:57:45Z date_published: 2011-06-01T00:00:00Z date_updated: 2021-01-12T06:57:35Z day: '01' doi: 10.1038/cr.2011.49 extern: 1 intvolume: ' 21' issue: '6' main_file_link: - open_access: '1' url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3203702/ month: '06' oa: 1 page: 970 - 978 publication: Cell Research publication_status: published publisher: Nature Publishing Group publist_id: '4449' quality_controlled: 0 status: public title: Phosphorylation switch modulates the interdigitated pattern of PIN1 localization and cell expansion in Arabidopsis leaf epidermis type: journal_article volume: 21 year: '2011' ... --- _id: '2460' abstract: - lang: eng text: In unicellular and multicellular organisms, cell polarity is essential for a wide range of biological processes. An important feature of cell polarity is the asymmetric distribution of proteins in or at the plasma membrane. In plants such polar localized proteins play various specific roles ranging from organizing cell morphogenesis, asymmetric cell division, pathogen defense, nutrient transport and establishment of hormone gradients for developmental patterning. Moreover, flexible respecification of cell polarities enables plants to adjust their physiology and development to environmental changes. Having evolved multicellularity independently and lacking major cell polarity mechanisms of animal cells, plants came up with alternative solutions to generate and respecify cell polarity as well as to regulate polar domains at the plasma membrane. author: - first_name: Jan full_name: Dettmer, Jan last_name: Dettmer - first_name: Jirí full_name: Friml, Jirí id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: 'Dettmer J, Friml J. Cell polarity in plants: When two do the same, it is not the same... Current Opinion in Cell Biology. 2011;23(6):686-696. doi:10.1016/j.ceb.2011.09.006' apa: 'Dettmer, J., & Friml, J. (2011). Cell polarity in plants: When two do the same, it is not the same... Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2011.09.006' chicago: 'Dettmer, Jan, and Jiří Friml. “Cell Polarity in Plants: When Two Do the Same, It Is Not the Same...” Current Opinion in Cell Biology. Elsevier, 2011. https://doi.org/10.1016/j.ceb.2011.09.006.' ieee: 'J. Dettmer and J. Friml, “Cell polarity in plants: When two do the same, it is not the same...,” Current Opinion in Cell Biology, vol. 23, no. 6. Elsevier, pp. 686–696, 2011.' ista: 'Dettmer J, Friml J. 2011. Cell polarity in plants: When two do the same, it is not the same... Current Opinion in Cell Biology. 23(6), 686–696.' mla: 'Dettmer, Jan, and Jiří Friml. “Cell Polarity in Plants: When Two Do the Same, It Is Not the Same...” Current Opinion in Cell Biology, vol. 23, no. 6, Elsevier, 2011, pp. 686–96, doi:10.1016/j.ceb.2011.09.006.' short: J. Dettmer, J. Friml, Current Opinion in Cell Biology 23 (2011) 686–696. date_created: 2018-12-11T11:57:47Z date_published: 2011-12-01T00:00:00Z date_updated: 2021-01-12T06:57:37Z day: '01' doi: 10.1016/j.ceb.2011.09.006 extern: '1' intvolume: ' 23' issue: '6' language: - iso: eng month: '12' oa_version: None page: 686 - 696 publication: Current Opinion in Cell Biology publication_status: published publisher: Elsevier publist_id: '4443' quality_controlled: '1' status: public title: 'Cell polarity in plants: When two do the same, it is not the same...' type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 23 year: '2011' ... --- _id: '2511' abstract: - lang: eng text: Parkinson's disease is a common neurodegenerative disorder characterized by a profound motor disability that is traceable to the emergence of synchronous, rhythmic spiking in neurons of the external segment of the globus pallidus (GPe). The origins of this pathophysiology are poorly defined for the generation of pacemaking. After the induction of a parkinsonian state in mice, there was a progressive decline in autonomous GPe pacemaking, which normally serves to desynchronize activity. The loss was attributable to the downregulation of an ion channel that is essential in pacemaking, the hyperpolarization and cyclic nucleotide-gated (HCN) channel. Viral delivery of HCN2 subunits restored pacemaking and reduced burst spiking in GPe neurons. However, the motor disability induced by dopamine (DA) depletion was not reversed, suggesting that the loss of pacemaking was a consequence, rather than a cause, of key network pathophysiology, a conclusion that is consistent with the ability of L-type channel antagonists to attenuate silencing after DA depletion. author: - first_name: Savio full_name: Chan, Savio last_name: Chan - first_name: Kelly full_name: Glajch, Kelly E last_name: Glajch - first_name: Tracy full_name: Gertler, Tracy S last_name: Gertler - first_name: Jaime full_name: Guzmán, Jaime N last_name: Guzmán - first_name: Jeff full_name: Mercer, Jeff N last_name: Mercer - first_name: Alan full_name: Lewis, Alan S last_name: Lewis - first_name: Alan full_name: Goldberg, Alan B last_name: Goldberg - first_name: Tatiana full_name: Tkatch, Tatiana last_name: Tkatch - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Sheila full_name: Fleming, Sheila M last_name: Fleming - first_name: Dane full_name: Chetkovich, Dane M last_name: Chetkovich - first_name: Pavel full_name: Osten, Pavel last_name: Osten - first_name: Hitoshi full_name: Kita, Hitoshi last_name: Kita - first_name: James full_name: Surmeier, James D last_name: Surmeier citation: ama: Chan S, Glajch K, Gertler T, et al. HCN channelopathy in external globus pallidus neurons in models of Parkinson s disease. Nature Neuroscience. 2011;14(1):85-94. doi:10.1038/nn.2692 apa: Chan, S., Glajch, K., Gertler, T., Guzmán, J., Mercer, J., Lewis, A., … Surmeier, J. (2011). HCN channelopathy in external globus pallidus neurons in models of Parkinson s disease. Nature Neuroscience. Nature Publishing Group. https://doi.org/10.1038/nn.2692 chicago: Chan, Savio, Kelly Glajch, Tracy Gertler, Jaime Guzmán, Jeff Mercer, Alan Lewis, Alan Goldberg, et al. “HCN Channelopathy in External Globus Pallidus Neurons in Models of Parkinson s Disease.” Nature Neuroscience. Nature Publishing Group, 2011. https://doi.org/10.1038/nn.2692. ieee: S. Chan et al., “HCN channelopathy in external globus pallidus neurons in models of Parkinson s disease,” Nature Neuroscience, vol. 14, no. 1. Nature Publishing Group, pp. 85–94, 2011. ista: Chan S, Glajch K, Gertler T, Guzmán J, Mercer J, Lewis A, Goldberg A, Tkatch T, Shigemoto R, Fleming S, Chetkovich D, Osten P, Kita H, Surmeier J. 2011. HCN channelopathy in external globus pallidus neurons in models of Parkinson s disease. Nature Neuroscience. 14(1), 85–94. mla: Chan, Savio, et al. “HCN Channelopathy in External Globus Pallidus Neurons in Models of Parkinson s Disease.” Nature Neuroscience, vol. 14, no. 1, Nature Publishing Group, 2011, pp. 85–94, doi:10.1038/nn.2692. short: S. Chan, K. Glajch, T. Gertler, J. Guzmán, J. Mercer, A. Lewis, A. Goldberg, T. Tkatch, R. Shigemoto, S. Fleming, D. Chetkovich, P. Osten, H. Kita, J. Surmeier, Nature Neuroscience 14 (2011) 85–94. date_created: 2018-12-11T11:58:06Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T06:57:56Z day: '01' doi: 10.1038/nn.2692 extern: 1 intvolume: ' 14' issue: '1' month: '01' page: 85 - 94 publication: Nature Neuroscience publication_status: published publisher: Nature Publishing Group publist_id: '4390' quality_controlled: 0 status: public title: HCN channelopathy in external globus pallidus neurons in models of Parkinson s disease type: journal_article volume: 14 year: '2011' ... --- _id: '2512' abstract: - lang: eng text: GABAergic inhibition plays a central role in the control of pyramidal cell ensemble activities; thus, any signaling mechanism that regulates inhibition is able to fine-tune network patterns. Here, we provide evidence that the retrograde nitric oxide (NO)- cGMP cascade triggered by NMDA receptor (NMDAR) activation plays a role in the control of hippocampal GABAergic transmission in mice. GABAergic synapses express neuronal nitric oxide synthase (nNOS) postsynaptically and NO receptors (NO-sensitive guanylyl cyclase) in the presynaptic terminals. We hypothesized that-similar to glutamatergic synapses-the Ca 2+ transients required to activate nNOS were provided by NMDA receptor activation. Indeed, administration of 5 μm NMDA induced a robust nNOS-dependent cGMP production in GABAergic terminals, selectively in the CA1 and CA3c areas. Furthermore, using preembedding, postembedding, and SDS-digested freeze-fracture replica immunogold labeling, we provided quantitative immunocytochemical evidence that NMDAR subunits GluN1, GluN2A, and GluN2B were present in most somatic GABAergic synapses postsynaptically. These data indicate that NMDARs can modulate hippocampal GABAergic inhibition via NO- cGMP signaling in an activity-dependent manner and that this effect is subregion specific in the mouse hippocampus. author: - first_name: Eszter full_name: Szabadits, Eszter last_name: Szabadits - first_name: Csaba full_name: Cserép, Csaba last_name: Cserép - first_name: András full_name: Szonyi, András last_name: Szonyi - first_name: Yugo full_name: Fukazawa, Yugo last_name: Fukazawa - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Masahiko full_name: Watanabe, Masahiko last_name: Watanabe - first_name: Shigeyoshi full_name: Itohara, Shigeyoshi last_name: Itohara - first_name: Tamás full_name: Freund, Tamás F last_name: Freund - first_name: Gábor full_name: Nyíri, Gábor last_name: Nyíri citation: ama: Szabadits E, Cserép C, Szonyi A, et al. NMDA receptors in hippocampal GABAergic synapses and their role in nitric oxide signaling. Journal of Neuroscience. 2011;31(16):5893-5904. doi:10.1523/JNEUROSCI.5938-10.2011 apa: Szabadits, E., Cserép, C., Szonyi, A., Fukazawa, Y., Shigemoto, R., Watanabe, M., … Nyíri, G. (2011). NMDA receptors in hippocampal GABAergic synapses and their role in nitric oxide signaling. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.5938-10.2011 chicago: Szabadits, Eszter, Csaba Cserép, András Szonyi, Yugo Fukazawa, Ryuichi Shigemoto, Masahiko Watanabe, Shigeyoshi Itohara, Tamás Freund, and Gábor Nyíri. “NMDA Receptors in Hippocampal GABAergic Synapses and Their Role in Nitric Oxide Signaling.” Journal of Neuroscience. Society for Neuroscience, 2011. https://doi.org/10.1523/JNEUROSCI.5938-10.2011. ieee: E. Szabadits et al., “NMDA receptors in hippocampal GABAergic synapses and their role in nitric oxide signaling,” Journal of Neuroscience, vol. 31, no. 16. Society for Neuroscience, pp. 5893–5904, 2011. ista: Szabadits E, Cserép C, Szonyi A, Fukazawa Y, Shigemoto R, Watanabe M, Itohara S, Freund T, Nyíri G. 2011. NMDA receptors in hippocampal GABAergic synapses and their role in nitric oxide signaling. Journal of Neuroscience. 31(16), 5893–5904. mla: Szabadits, Eszter, et al. “NMDA Receptors in Hippocampal GABAergic Synapses and Their Role in Nitric Oxide Signaling.” Journal of Neuroscience, vol. 31, no. 16, Society for Neuroscience, 2011, pp. 5893–904, doi:10.1523/JNEUROSCI.5938-10.2011. short: E. Szabadits, C. Cserép, A. Szonyi, Y. Fukazawa, R. Shigemoto, M. Watanabe, S. Itohara, T. Freund, G. Nyíri, Journal of Neuroscience 31 (2011) 5893–5904. date_created: 2018-12-11T11:58:06Z date_published: 2011-04-20T00:00:00Z date_updated: 2021-01-12T06:57:56Z day: '20' doi: 10.1523/JNEUROSCI.5938-10.2011 extern: 1 intvolume: ' 31' issue: '16' month: '04' page: 5893 - 5904 publication: Journal of Neuroscience publication_status: published publisher: Society for Neuroscience publist_id: '4389' quality_controlled: 0 status: public title: NMDA receptors in hippocampal GABAergic synapses and their role in nitric oxide signaling type: journal_article volume: 31 year: '2011' ... --- _id: '2513' abstract: - lang: eng text: 'SK2-containing channels are expressed in the postsynaptic density (PSD) of dendritic spines on mouse hippocampal area CA1 pyramidal neurons and influence synaptic responses, plasticity and learning. The Sk2 gene (also known as Kcnn2) encodes two isoforms that differ only in the length of their N-terminal domains. SK2-long (SK2-L) and SK2-short (SK2-S) are coexpressed in CA1 pyramidal neurons and likely form heteromeric channels. In mice lacking SK2-L (SK2-S only mice), SK2-S-containing channels were expressed in the extrasynaptic membrane, but were excluded from the PSD. The SK channel contribution to excitatory postsynaptic potentials was absent in SK2-S only mice and was restored by SK2-L re-expression. Blocking SK channels increased the amount of long-term potentiation induced in area CA1 in slices from wild-type mice but had no effect in slices from SK2-S only mice. Furthermore, SK2-S only mice outperformed wild-type mice in the novel object recognition task. These results indicate that SK2-L directs synaptic SK2-containing channel expression and is important for normal synaptic signaling, plasticity and learning. ' author: - first_name: Duane full_name: Allen, Duane H last_name: Allen - first_name: Chris full_name: Bond, Chris T last_name: Bond - first_name: Rafael full_name: Luján, Rafael last_name: Luján - first_name: Carmen full_name: Ballesteros-Merino, Carmen last_name: Ballesteros Merino - first_name: Michael full_name: Lin, Michael T last_name: Lin - first_name: Kang full_name: Wang, Kang last_name: Wang - first_name: Nathan full_name: Klett, Nathan last_name: Klett - first_name: Masahiko full_name: Watanabe, Masahiko last_name: Watanabe - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Robert full_name: Stackman, Robert W last_name: Stackman - first_name: James full_name: Maylie, James G last_name: Maylie - first_name: John full_name: Adelman, John P last_name: Adelman citation: ama: Allen D, Bond C, Luján R, et al. The SK2-long isoform directs synaptic localization and function of SK2-containing channels. Nature Neuroscience. 2011;14(6):744-749. doi:10.1038/nn.2832 apa: Allen, D., Bond, C., Luján, R., Ballesteros Merino, C., Lin, M., Wang, K., … Adelman, J. (2011). The SK2-long isoform directs synaptic localization and function of SK2-containing channels. Nature Neuroscience. Nature Publishing Group. https://doi.org/10.1038/nn.2832 chicago: Allen, Duane, Chris Bond, Rafael Luján, Carmen Ballesteros Merino, Michael Lin, Kang Wang, Nathan Klett, et al. “The SK2-Long Isoform Directs Synaptic Localization and Function of SK2-Containing Channels.” Nature Neuroscience. Nature Publishing Group, 2011. https://doi.org/10.1038/nn.2832. ieee: D. Allen et al., “The SK2-long isoform directs synaptic localization and function of SK2-containing channels,” Nature Neuroscience, vol. 14, no. 6. Nature Publishing Group, pp. 744–749, 2011. ista: Allen D, Bond C, Luján R, Ballesteros Merino C, Lin M, Wang K, Klett N, Watanabe M, Shigemoto R, Stackman R, Maylie J, Adelman J. 2011. The SK2-long isoform directs synaptic localization and function of SK2-containing channels. Nature Neuroscience. 14(6), 744–749. mla: Allen, Duane, et al. “The SK2-Long Isoform Directs Synaptic Localization and Function of SK2-Containing Channels.” Nature Neuroscience, vol. 14, no. 6, Nature Publishing Group, 2011, pp. 744–49, doi:10.1038/nn.2832. short: D. Allen, C. Bond, R. Luján, C. Ballesteros Merino, M. Lin, K. Wang, N. Klett, M. Watanabe, R. Shigemoto, R. Stackman, J. Maylie, J. Adelman, Nature Neuroscience 14 (2011) 744–749. date_created: 2018-12-11T11:58:07Z date_published: 2011-06-01T00:00:00Z date_updated: 2021-01-12T06:57:56Z day: '01' doi: 10.1038/nn.2832 extern: 1 intvolume: ' 14' issue: '6' month: '06' page: 744 - 749 publication: Nature Neuroscience publication_status: published publisher: Nature Publishing Group publist_id: '4388' quality_controlled: 0 status: public title: The SK2-long isoform directs synaptic localization and function of SK2-containing channels type: journal_article volume: 14 year: '2011' ... --- _id: '2717' abstract: - lang: eng text: 'We consider Hermitian and symmetric random band matrices H in d ≥ 1 dimensions. The matrix elements H xy, indexed by, are independent, uniformly distributed random variables if {pipe}x-y{pipe} is less than the band width W, and zero otherwise. We prove that the time evolution of a quantum particle subject to the Hamiltonian H is diffusive on time scales. We also show that the localization length of the eigenvectors of H is larger than a factor W d/6 times the band width. All results are uniform in the size of the matrix. ' author: - first_name: László full_name: László Erdös id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Antti full_name: Knowles, Antti last_name: Knowles citation: ama: Erdös L, Knowles A. Quantum diffusion and eigenfunction delocalization in a random band matrix model. Communications in Mathematical Physics. 2011;303(2):509-554. doi:10.1007/s00220-011-1204-2 apa: Erdös, L., & Knowles, A. (2011). Quantum diffusion and eigenfunction delocalization in a random band matrix model. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-011-1204-2 chicago: Erdös, László, and Antti Knowles. “Quantum Diffusion and Eigenfunction Delocalization in a Random Band Matrix Model.” Communications in Mathematical Physics. Springer, 2011. https://doi.org/10.1007/s00220-011-1204-2. ieee: L. Erdös and A. Knowles, “Quantum diffusion and eigenfunction delocalization in a random band matrix model,” Communications in Mathematical Physics, vol. 303, no. 2. Springer, pp. 509–554, 2011. ista: Erdös L, Knowles A. 2011. Quantum diffusion and eigenfunction delocalization in a random band matrix model. Communications in Mathematical Physics. 303(2), 509–554. mla: Erdös, László, and Antti Knowles. “Quantum Diffusion and Eigenfunction Delocalization in a Random Band Matrix Model.” Communications in Mathematical Physics, vol. 303, no. 2, Springer, 2011, pp. 509–54, doi:10.1007/s00220-011-1204-2. short: L. Erdös, A. Knowles, Communications in Mathematical Physics 303 (2011) 509–554. date_created: 2018-12-11T11:59:14Z date_published: 2011-04-01T00:00:00Z date_updated: 2021-01-12T06:59:15Z day: '01' doi: 10.1007/s00220-011-1204-2 extern: 1 intvolume: ' 303' issue: '2' month: '04' page: 509 - 554 publication: Communications in Mathematical Physics publication_status: published publisher: Springer publist_id: '4175' quality_controlled: 0 status: public title: Quantum diffusion and eigenfunction delocalization in a random band matrix model type: journal_article volume: 303 year: '2011' ... --- _id: '2765' abstract: - lang: eng text: 'This is a study of the universality of spectral statistics for large random matrices. Considered are N×N symmetric, Hermitian, or quaternion self-dual random matrices with independent identically distributed entries (Wigner matrices), where the probability distribution of each matrix element is given by a measure v with zero expectation and with subexponential decay. The main result is that the correlation functions of the local eigenvalue statistics in the bulk of the spectrum coincide with those of the Gaussian Orthogonal Ensemble (GOE), the Gaussian Unitary Ensemble (GUE), and the Gaussian Symplectic Ensemble (GSE), respectively, in the limit as N → ∞. This approach is based on a study of the Dyson Brownian motion via a related new dynamics, the local relaxation flow. As a main input, it is established that the density of the eigenvalues converges to the Wigner semicircle law, and this holds even down to the smallest possible scale. Moreover, it is shown that the eigenvectors are completely delocalized. These results hold even without the condition that the matrix elements are identically distributed: only independence is used. In fact, for the matrix elements of the Green function strong estimates are given that imply that the local statistics of any two ensembles in the bulk are identical if the first four moments of the matrix elements match. Universality at the spectral edges requires matching only two moments. A Wigner-type estimate is also proved, and it is shown that the eigenvalues repel each other on arbitrarily small scales.' author: - first_name: László full_name: László Erdös id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 citation: ama: 'Erdös L. Universality of Wigner random matrices: A survey of recent results. Russian Mathematical Surveys. 2011;66(3):507-626. doi:10.1070/RM2011v066n03ABEH004749' apa: 'Erdös, L. (2011). Universality of Wigner random matrices: A survey of recent results. Russian Mathematical Surveys. IOP Publishing Ltd. https://doi.org/10.1070/RM2011v066n03ABEH004749' chicago: 'Erdös, László. “Universality of Wigner Random Matrices: A Survey of Recent Results.” Russian Mathematical Surveys. IOP Publishing Ltd., 2011. https://doi.org/10.1070/RM2011v066n03ABEH004749.' ieee: 'L. Erdös, “Universality of Wigner random matrices: A survey of recent results,” Russian Mathematical Surveys, vol. 66, no. 3. IOP Publishing Ltd., pp. 507–626, 2011.' ista: 'Erdös L. 2011. Universality of Wigner random matrices: A survey of recent results. Russian Mathematical Surveys. 66(3), 507–626.' mla: 'Erdös, László. “Universality of Wigner Random Matrices: A Survey of Recent Results.” Russian Mathematical Surveys, vol. 66, no. 3, IOP Publishing Ltd., 2011, pp. 507–626, doi:10.1070/RM2011v066n03ABEH004749.' short: L. Erdös, Russian Mathematical Surveys 66 (2011) 507–626. date_created: 2018-12-11T11:59:29Z date_published: 2011-01-01T00:00:00Z date_updated: 2019-04-26T07:22:20Z day: '01' doi: 10.1070/RM2011v066n03ABEH004749 extern: 1 intvolume: ' 66' issue: '3' main_file_link: - open_access: '0' url: http://arxiv.org/abs/1004.0861 month: '01' page: 507 - 626 publication: Russian Mathematical Surveys publication_status: published publisher: IOP Publishing Ltd. publist_id: '4125' quality_controlled: 0 status: public title: 'Universality of Wigner random matrices: A survey of recent results' type: review volume: 66 year: '2011' ... --- _id: '2766' abstract: - lang: eng text: We consider Hermitian and symmetric random band matrices H in d ≥ dimensions. The matrix elements Hxy, indexed by x,y ∈ Λ ⊂ ℤd are independent and their variances satisfy σ2xy:= E{pipe}Hxy{pipe}2 = W-d f((x-y)/W for some probability density f. We assume that the law of each matrix element Hxy is symmetric and exhibits subexponential decay. We prove that the time evolution of a quantum particle subject to the Hamiltonian H is diffusive on time scales ≪ Wd/3. We also show that the localization length of the eigenvectors of H is larger than a factor Wd/6 times the band width W. All results are uniform in the size {pipe}Λ{pipe} of the matrix. This extends our recent result (Erdo{double acute}s and Knowles in Commun. Math. Phys., 2011) to general band matrices. As another consequence of our proof we show that, for a larger class of random matrices satisfying Σx σ2xy for all y, the largest eigenvalue of H is bounded with high probability by 2+M-2/3+e{open} for any e{open} > 0, where M:= 1/(maxx,y σ2xy). author: - first_name: László full_name: László Erdös id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Antti full_name: Knowles, Antti last_name: Knowles citation: ama: Erdös L, Knowles A. Quantum diffusion and delocalization for band matrices with general distribution. Annales Henri Poincare. 2011;12(7):1227-1319. doi:10.1007/s00023-011-0104-5 apa: Erdös, L., & Knowles, A. (2011). Quantum diffusion and delocalization for band matrices with general distribution. Annales Henri Poincare. Birkhäuser. https://doi.org/10.1007/s00023-011-0104-5 chicago: Erdös, László, and Antti Knowles. “Quantum Diffusion and Delocalization for Band Matrices with General Distribution.” Annales Henri Poincare. Birkhäuser, 2011. https://doi.org/10.1007/s00023-011-0104-5. ieee: L. Erdös and A. Knowles, “Quantum diffusion and delocalization for band matrices with general distribution,” Annales Henri Poincare, vol. 12, no. 7. Birkhäuser, pp. 1227–1319, 2011. ista: Erdös L, Knowles A. 2011. Quantum diffusion and delocalization for band matrices with general distribution. Annales Henri Poincare. 12(7), 1227–1319. mla: Erdös, László, and Antti Knowles. “Quantum Diffusion and Delocalization for Band Matrices with General Distribution.” Annales Henri Poincare, vol. 12, no. 7, Birkhäuser, 2011, pp. 1227–319, doi:10.1007/s00023-011-0104-5. short: L. Erdös, A. Knowles, Annales Henri Poincare 12 (2011) 1227–1319. date_created: 2018-12-11T11:59:29Z date_published: 2011-11-01T00:00:00Z date_updated: 2021-01-12T06:59:33Z day: '01' doi: 10.1007/s00023-011-0104-5 extern: 1 intvolume: ' 12' issue: '7' month: '11' page: 1227 - 1319 publication: Annales Henri Poincare publication_status: published publisher: Birkhäuser publist_id: '4124' quality_controlled: 0 status: public title: Quantum diffusion and delocalization for band matrices with general distribution type: journal_article volume: 12 year: '2011' ... --- _id: '2764' abstract: - lang: eng text: Consider the Dyson Brownian motion with parameter β, where β=1,2,4 corresponds to the eigenvalue flows for the eigenvalues of symmetric, hermitian and quaternion self-dual ensembles. For any β≥1, we prove that the relaxation time to local equilibrium for the Dyson Brownian motion is bounded above by N -ζ for some ζ> 0. The proof is based on an estimate of the entropy flow of the Dyson Brownian motion w. r. t. a "pseudo equilibrium measure". As an application of this estimate, we prove that the eigenvalue spacing statistics in the bulk of the spectrum for N×N symmetric Wigner ensemble is the same as that of the Gaussian Orthogonal Ensemble (GOE) in the limit N→∞. The assumptions on the probability distribution of the matrix elements of the Wigner ensemble are a subexponential decay and some minor restriction on the support. author: - first_name: László full_name: László Erdös id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Benjamin full_name: Schlein, Benjamin last_name: Schlein - first_name: Horng full_name: Yau, Horng-Tzer last_name: Yau citation: ama: Erdös L, Schlein B, Yau H. Universality of random matrices and local relaxation flow. Inventiones Mathematicae. 2011;185(1):75-119. doi:10.1007/s00222-010-0302-7 apa: Erdös, L., Schlein, B., & Yau, H. (2011). Universality of random matrices and local relaxation flow. Inventiones Mathematicae. Springer. https://doi.org/10.1007/s00222-010-0302-7 chicago: Erdös, László, Benjamin Schlein, and Horng Yau. “Universality of Random Matrices and Local Relaxation Flow.” Inventiones Mathematicae. Springer, 2011. https://doi.org/10.1007/s00222-010-0302-7. ieee: L. Erdös, B. Schlein, and H. Yau, “Universality of random matrices and local relaxation flow,” Inventiones Mathematicae, vol. 185, no. 1. Springer, pp. 75–119, 2011. ista: Erdös L, Schlein B, Yau H. 2011. Universality of random matrices and local relaxation flow. Inventiones Mathematicae. 185(1), 75–119. mla: Erdös, László, et al. “Universality of Random Matrices and Local Relaxation Flow.” Inventiones Mathematicae, vol. 185, no. 1, Springer, 2011, pp. 75–119, doi:10.1007/s00222-010-0302-7. short: L. Erdös, B. Schlein, H. Yau, Inventiones Mathematicae 185 (2011) 75–119. date_created: 2018-12-11T11:59:29Z date_published: 2011-07-01T00:00:00Z date_updated: 2021-01-12T06:59:32Z day: '01' doi: 10.1007/s00222-010-0302-7 extern: 1 intvolume: ' 185' issue: '1' month: '07' page: 75 - 119 publication: Inventiones Mathematicae publication_status: published publisher: Springer publist_id: '4126' quality_controlled: 0 status: public title: Universality of random matrices and local relaxation flow type: journal_article volume: 185 year: '2011' ... --- _id: '2799' abstract: - lang: eng text: Shear flows undergo a sudden transition from laminar to turbulent motion as the velocity increases, and the onset of turbulence radically changes transport efficiency and mixing properties. Even for the well-studied case of pipe flow, it has not been possible to determine at what Reynolds number the motion will be either persistently turbulent or ultimately laminar. We show that in pipes, turbulence that is transient at low Reynolds numbers becomes sustained at a distinct critical point. Through extensive experiments and computer simulations, we were able to identify and characterize the processes ultimately responsible for sustaining turbulence. In contrast to the classical Landau-Ruelle-Takens view that turbulence arises from an increase in the temporal complexity of fluid motion, here, spatial proliferation of chaotic domains is the decisive process and intrinsic to the nature of fluid turbulence. author: - first_name: Kerstin full_name: Avila, Kerstin last_name: Avila - first_name: David full_name: Moxey, David last_name: Moxey - first_name: Alberto full_name: de Lózar, Alberto last_name: De Lózar - first_name: Marc full_name: Avila, Marc last_name: Avila - first_name: Dwight full_name: Barkley, Dwight last_name: Barkley - first_name: Björn full_name: Björn Hof id: 3A374330-F248-11E8-B48F-1D18A9856A87 last_name: Hof orcid: 0000-0003-2057-2754 citation: ama: Avila K, Moxey D, De Lózar A, Avila M, Barkley D, Hof B. The onset of turbulence in pipe flow. Science. 2011;333(6039):192-196. doi:10.1126/science.1203223 apa: Avila, K., Moxey, D., De Lózar, A., Avila, M., Barkley, D., & Hof, B. (2011). The onset of turbulence in pipe flow. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1203223 chicago: Avila, Kerstin, David Moxey, Alberto De Lózar, Marc Avila, Dwight Barkley, and Björn Hof. “The Onset of Turbulence in Pipe Flow.” Science. American Association for the Advancement of Science, 2011. https://doi.org/10.1126/science.1203223. ieee: K. Avila, D. Moxey, A. De Lózar, M. Avila, D. Barkley, and B. Hof, “The onset of turbulence in pipe flow,” Science, vol. 333, no. 6039. American Association for the Advancement of Science, pp. 192–196, 2011. ista: Avila K, Moxey D, De Lózar A, Avila M, Barkley D, Hof B. 2011. The onset of turbulence in pipe flow. Science. 333(6039), 192–196. mla: Avila, Kerstin, et al. “The Onset of Turbulence in Pipe Flow.” Science, vol. 333, no. 6039, American Association for the Advancement of Science, 2011, pp. 192–96, doi:10.1126/science.1203223. short: K. Avila, D. Moxey, A. De Lózar, M. Avila, D. Barkley, B. Hof, Science 333 (2011) 192–196. date_created: 2018-12-11T11:59:39Z date_published: 2011-07-08T00:00:00Z date_updated: 2021-01-12T06:59:47Z day: '08' doi: 10.1126/science.1203223 extern: 1 intvolume: ' 333' issue: '6039' month: '07' page: 192 - 196 publication: Science publication_status: published publisher: American Association for the Advancement of Science publist_id: '4090' quality_controlled: 0 status: public title: The onset of turbulence in pipe flow type: journal_article volume: 333 year: '2011' ... --- _id: '2800' abstract: - lang: eng text: In shear flows, turbulence first occurs in the form of localized structures (puffs/spots) surrounded by laminar fluid. We here investigate such spatially intermittent flows in a pipe experiment showing that turbulent puffs have a well-defined interaction distance, which sets their minimum spacing as well as the maximum observable turbulent fraction. Two methodologies are employed. Starting from a laminar flow, puffs are first created by locally injecting a jet of fluid through the pipe wall. When the perturbation is applied periodically at low frequencies, as expected, a regular sequence of puffs is observed where the puff spacing is given by the ratio of the mean flow speed to the perturbation frequency. At large frequencies however puffs are found to interact and annihilate each other. Varying the perturbation frequency, an interaction distance is determined which sets the highest possible turbulence fraction. This enables us to establish an upper bound for the friction factor in the transitional regime, which provides a well-defined link between the Blasius and the Hagen-Poiseuille friction laws. In the second set of experiments, the Reynolds number is reduced suddenly from fully turbulent to the intermittent regime. The resulting flow reorganizes itself to a sequence of constant size puffs which, unlike in Couette and Taylor–Couette flow are randomly spaced. The minimum distance between the turbulent patches is identical to the puff interaction length. The puff interaction length is found to be in agreement with the wavelength of regular stripe and spiral patterns in plane Couette and Taylor–Couette flow. author: - first_name: Devranjan full_name: Samanta, Devranjan last_name: Samanta - first_name: Alberto full_name: de Lózar, Alberto last_name: De Lózar - first_name: Björn full_name: Björn Hof id: 3A374330-F248-11E8-B48F-1D18A9856A87 last_name: Hof orcid: 0000-0003-2057-2754 citation: ama: Samanta D, De Lózar A, Hof B. Experimental investigation of laminar turbulent intermittency in pipe flow. Journal of Fluid Mechanics. 2011;681:193-204. doi:10.1017/jfm.2011.189 apa: Samanta, D., De Lózar, A., & Hof, B. (2011). Experimental investigation of laminar turbulent intermittency in pipe flow. Journal of Fluid Mechanics. Cambridge University Press. https://doi.org/10.1017/jfm.2011.189 chicago: Samanta, Devranjan, Alberto De Lózar, and Björn Hof. “Experimental Investigation of Laminar Turbulent Intermittency in Pipe Flow.” Journal of Fluid Mechanics. Cambridge University Press, 2011. https://doi.org/10.1017/jfm.2011.189. ieee: D. Samanta, A. De Lózar, and B. Hof, “Experimental investigation of laminar turbulent intermittency in pipe flow,” Journal of Fluid Mechanics, vol. 681. Cambridge University Press, pp. 193–204, 2011. ista: Samanta D, De Lózar A, Hof B. 2011. Experimental investigation of laminar turbulent intermittency in pipe flow. Journal of Fluid Mechanics. 681, 193–204. mla: Samanta, Devranjan, et al. “Experimental Investigation of Laminar Turbulent Intermittency in Pipe Flow.” Journal of Fluid Mechanics, vol. 681, Cambridge University Press, 2011, pp. 193–204, doi:10.1017/jfm.2011.189. short: D. Samanta, A. De Lózar, B. Hof, Journal of Fluid Mechanics 681 (2011) 193–204. date_created: 2018-12-11T11:59:40Z date_published: 2011-08-25T00:00:00Z date_updated: 2021-01-12T06:59:48Z day: '25' doi: 10.1017/jfm.2011.189 extern: 1 intvolume: ' 681' month: '08' page: 193 - 204 publication: Journal of Fluid Mechanics publication_status: published publisher: Cambridge University Press publist_id: '4089' quality_controlled: 0 status: public title: Experimental investigation of laminar turbulent intermittency in pipe flow type: journal_article volume: 681 year: '2011' ... --- _id: '2801' abstract: - lang: eng text: Turbulent puffs in pipe flow are characterized by a sharp laminar-turbulent interface at the trailing edge and a more diffused leading interface. It is known that these laminar-turbulent interfaces propagate at a speed that is approximately equal to the flow rate. Our results from direct numerical simulation show that, locally, the interface velocity relative to the fluid (i) counteracts the advection due to the laminar velocity profile so that the puff can preserve its characteristic overall shape, (ii) is very small in magnitude, but involves a large interface area so that the global propagation velocity relative to the mean flow can be large and (iii) is determined by both inertial and viscous effects. The analysis provides some new insights into the mechanisms that sustain or expand localized turbulence and might be relevant for the design of new control strategies. alternative_title: - 'Journal of Physics: Conference Series' author: - first_name: Markus full_name: Holzner, Markus last_name: Holzner - first_name: Marc full_name: Avila, Marc last_name: Avila - first_name: Alberto full_name: de Lózar, Alberto last_name: De Lózar - first_name: Björn full_name: Björn Hof id: 3A374330-F248-11E8-B48F-1D18A9856A87 last_name: Hof orcid: 0000-0003-2057-2754 citation: ama: 'Holzner M, Avila M, De Lózar A, Hof B. A Lagrangian approach to the interface velocity of turbulent puffs in pipe flow. In: Vol 318. IOP Publishing Ltd.; 2011. doi:10.1088/1742-6596/318/5/052031' apa: 'Holzner, M., Avila, M., De Lózar, A., & Hof, B. (2011). A Lagrangian approach to the interface velocity of turbulent puffs in pipe flow (Vol. 318). Presented at the ETC13: European Turbulence Conference, IOP Publishing Ltd. https://doi.org/10.1088/1742-6596/318/5/052031' chicago: Holzner, Markus, Marc Avila, Alberto De Lózar, and Björn Hof. “A Lagrangian Approach to the Interface Velocity of Turbulent Puffs in Pipe Flow,” Vol. 318. IOP Publishing Ltd., 2011. https://doi.org/10.1088/1742-6596/318/5/052031. ieee: 'M. Holzner, M. Avila, A. De Lózar, and B. Hof, “A Lagrangian approach to the interface velocity of turbulent puffs in pipe flow,” presented at the ETC13: European Turbulence Conference, 2011, vol. 318, no. 5.' ista: 'Holzner M, Avila M, De Lózar A, Hof B. 2011. A Lagrangian approach to the interface velocity of turbulent puffs in pipe flow. ETC13: European Turbulence Conference, Journal of Physics: Conference Series, vol. 318.' mla: Holzner, Markus, et al. A Lagrangian Approach to the Interface Velocity of Turbulent Puffs in Pipe Flow. Vol. 318, no. 5, IOP Publishing Ltd., 2011, doi:10.1088/1742-6596/318/5/052031. short: M. Holzner, M. Avila, A. De Lózar, B. Hof, in:, IOP Publishing Ltd., 2011. conference: name: 'ETC13: European Turbulence Conference' date_created: 2018-12-11T11:59:40Z date_published: 2011-09-01T00:00:00Z date_updated: 2019-04-26T07:22:20Z day: '01' doi: 10.1088/1742-6596/318/5/052031 extern: 1 intvolume: ' 318' issue: '5' month: '09' publication_status: published publisher: IOP Publishing Ltd. publist_id: '4088' quality_controlled: 0 status: public title: A Lagrangian approach to the interface velocity of turbulent puffs in pipe flow type: conference volume: 318 year: '2011' ... --- _id: '2874' abstract: - lang: eng text: The apical hook develops in the upper part of the hypocotyl when seeds buried in the soil germinate, and serves to protect cotyledons and the shoot apical meristem from possible damage caused by pushing through the soil. The curvature is formed through differential cell growth that occurs at the two opposite sides of the hypocotyl, and it is established by a gradient of auxin activity and refined by the coordinated action of auxin and ethylene. Here we show that gibberellins (GAs) promote hook development through the transcriptional regulation of several genes of the ethylene and auxin pathways in Arabidopsis. The level of GA activity determines the speed of hook formation and the extent of the curvature during the formation phase independently of ethylene, probably by modulating auxin transport and response through HLS1, PIN3, and PIN7. Moreover, GAs cooperate with ethylene in preventing hook opening, in part through the induction of ethylene production mediated by ACS5/ETO2 and ACS8. author: - first_name: Javier full_name: Gallego-Bartolomé, Javier last_name: Gallego Bartolomé - first_name: María full_name: Arana, María V last_name: Arana - first_name: Filip full_name: Vandenbussche, Filip last_name: Vandenbussche - first_name: Petra full_name: Žádníková, Petra last_name: Žádníková - first_name: Eugenio full_name: Minguet, Eugenio G last_name: Minguet - first_name: Vicente full_name: Guardiola, Vicente last_name: Guardiola - first_name: Dominique full_name: Van Der Straeten, Dominique last_name: Van Der Straeten - first_name: Eva full_name: Eva Benková id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: David full_name: Alabadí, David last_name: Alabadí - first_name: Miguel full_name: Blázquez, Miguel A last_name: Blázquez citation: ama: Gallego Bartolomé J, Arana M, Vandenbussche F, et al. Hierarchy of hormone action controlling apical hook development in Arabidopsis. Plant Journal. 2011;67(4):622-634. doi:10.1111/j.1365-313X.2011.04621.x apa: Gallego Bartolomé, J., Arana, M., Vandenbussche, F., Žádníková, P., Minguet, E., Guardiola, V., … Blázquez, M. (2011). Hierarchy of hormone action controlling apical hook development in Arabidopsis. Plant Journal. Wiley-Blackwell. https://doi.org/10.1111/j.1365-313X.2011.04621.x chicago: Gallego Bartolomé, Javier, María Arana, Filip Vandenbussche, Petra Žádníková, Eugenio Minguet, Vicente Guardiola, Dominique Van Der Straeten, Eva Benková, David Alabadí, and Miguel Blázquez. “Hierarchy of Hormone Action Controlling Apical Hook Development in Arabidopsis.” Plant Journal. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1365-313X.2011.04621.x. ieee: J. Gallego Bartolomé et al., “Hierarchy of hormone action controlling apical hook development in Arabidopsis,” Plant Journal, vol. 67, no. 4. Wiley-Blackwell, pp. 622–634, 2011. ista: Gallego Bartolomé J, Arana M, Vandenbussche F, Žádníková P, Minguet E, Guardiola V, Van Der Straeten D, Benková E, Alabadí D, Blázquez M. 2011. Hierarchy of hormone action controlling apical hook development in Arabidopsis. Plant Journal. 67(4), 622–634. mla: Gallego Bartolomé, Javier, et al. “Hierarchy of Hormone Action Controlling Apical Hook Development in Arabidopsis.” Plant Journal, vol. 67, no. 4, Wiley-Blackwell, 2011, pp. 622–34, doi:10.1111/j.1365-313X.2011.04621.x. short: J. Gallego Bartolomé, M. Arana, F. Vandenbussche, P. Žádníková, E. Minguet, V. Guardiola, D. Van Der Straeten, E. Benková, D. Alabadí, M. Blázquez, Plant Journal 67 (2011) 622–634. date_created: 2018-12-11T12:00:04Z date_published: 2011-08-01T00:00:00Z date_updated: 2021-01-12T07:00:24Z day: '01' doi: 10.1111/j.1365-313X.2011.04621.x extern: 1 intvolume: ' 67' issue: '4' month: '08' page: 622 - 634 publication: Plant Journal publication_status: published publisher: Wiley-Blackwell publist_id: '3891' quality_controlled: 0 status: public title: Hierarchy of hormone action controlling apical hook development in Arabidopsis type: journal_article volume: 67 year: '2011' ... --- _id: '2871' abstract: - lang: eng text: Despite their relatively simple appearance, roots are incredibly complex organs that are highly adapted to differing environments. Many aspects of root development are co-ordinated by subtle spatial differences in the concentrations of the phytohormones auxin and cytokinin. Events from the formation of a root during embryogenesis to the determination of the network of lateral roots are controlled by interactions between these hormones. Recently, interactions have been defined where auxin signaling promotes the expression of cytokinin signaling inhibitors, cytokinin signaling promotes the expression of auxin signaling inhibitors and finally where cytokinin signaling regulates the complex network of auxin transport proteins to position zones of high auxin signaling. We are witnessing a period of discovery in which we are beginning to understand how these hormonal pathways communicate to regulate root formation. author: - first_name: Anthony full_name: Bishopp, Anthony last_name: Bishopp - first_name: Eva full_name: Eva Benková id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Ykä full_name: Helariutta, Ykä last_name: Helariutta citation: ama: 'Bishopp A, Benková E, Helariutta Y. Sending mixed messages: Auxin-cytokinin crosstalk in roots. Current Opinion in Plant Biology. 2011;14(1):10-16. doi:10.1016/j.pbi.2010.08.014' apa: 'Bishopp, A., Benková, E., & Helariutta, Y. (2011). Sending mixed messages: Auxin-cytokinin crosstalk in roots. Current Opinion in Plant Biology. Elsevier. https://doi.org/10.1016/j.pbi.2010.08.014' chicago: 'Bishopp, Anthony, Eva Benková, and Ykä Helariutta. “Sending Mixed Messages: Auxin-Cytokinin Crosstalk in Roots.” Current Opinion in Plant Biology. Elsevier, 2011. https://doi.org/10.1016/j.pbi.2010.08.014.' ieee: 'A. Bishopp, E. Benková, and Y. Helariutta, “Sending mixed messages: Auxin-cytokinin crosstalk in roots,” Current Opinion in Plant Biology, vol. 14, no. 1. Elsevier, pp. 10–16, 2011.' ista: 'Bishopp A, Benková E, Helariutta Y. 2011. Sending mixed messages: Auxin-cytokinin crosstalk in roots. Current Opinion in Plant Biology. 14(1), 10–16.' mla: 'Bishopp, Anthony, et al. “Sending Mixed Messages: Auxin-Cytokinin Crosstalk in Roots.” Current Opinion in Plant Biology, vol. 14, no. 1, Elsevier, 2011, pp. 10–16, doi:10.1016/j.pbi.2010.08.014.' short: A. Bishopp, E. Benková, Y. Helariutta, Current Opinion in Plant Biology 14 (2011) 10–16. date_created: 2018-12-11T12:00:03Z date_published: 2011-02-01T00:00:00Z date_updated: 2021-01-12T07:00:23Z day: '01' doi: 10.1016/j.pbi.2010.08.014 extern: 1 intvolume: ' 14' issue: '1' month: '02' page: 10 - 16 publication: Current Opinion in Plant Biology publication_status: published publisher: Elsevier publist_id: '3894' quality_controlled: 0 status: public title: 'Sending mixed messages: Auxin-cytokinin crosstalk in roots' type: journal_article volume: 14 year: '2011' ... --- _id: '2898' abstract: - lang: eng text: Sex allocation theory has been remarkably successful at explaining the prevalence of even sex ratios in natural populations and at identifying specific conditions that can result in biased sex ratios. Much of this theory focuses on parental sex determination (SD) strategies. Here, we consider instead the evolutionary causes and consequences of mixed offspring SD strategies, in which the genotype of an individual determines not its sex, but the probability of developing one of multiple sexes. We find that alleles specifying mixed offspring SD strategies can generally outcompete alleles that specify pure strategies, but generate constraints that may prevent a population from reaching an even sex ratio. We use our model to analyze sex ratios in natural populations of Tetrahymena thermophila, a ciliate with seven sexes determined by mixed SD alleles. We show that probabilistic SD is sufficient to account for the occurrence of skewed sex ratios in natural populations of T. thermophila, provided that their effective population sizes are small. Our results highlight the importance of genetic drift in sex ratio evolution and suggest that mixed offspring SD strategies should be more common than currently thought. author: - first_name: Tiago full_name: Tiago Paixao id: 2C5658E6-F248-11E8-B48F-1D18A9856A87 last_name: Paixao orcid: 0000-0003-2361-3953 - first_name: Sujal full_name: Phadke, Sujal S last_name: Phadke - first_name: Ricardo full_name: Azevedo, Ricardo B last_name: Azevedo - first_name: Rebecca full_name: Zufall, Rebecca A last_name: Zufall citation: ama: Paixao T, Phadke S, Azevedo R, Zufall R. Sex ratio evolution under probabilistic sex determination. Evolution; International Journal of Organic Evolution. 2011;65(7):2050-2060. doi:10.1111/j.1558-5646.2011.01266.x apa: Paixao, T., Phadke, S., Azevedo, R., & Zufall, R. (2011). Sex ratio evolution under probabilistic sex determination. Evolution; International Journal of Organic Evolution. Wiley-Blackwell. https://doi.org/10.1111/j.1558-5646.2011.01266.x chicago: Paixao, Tiago, Sujal Phadke, Ricardo Azevedo, and Rebecca Zufall. “Sex Ratio Evolution under Probabilistic Sex Determination.” Evolution; International Journal of Organic Evolution. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1558-5646.2011.01266.x. ieee: T. Paixao, S. Phadke, R. Azevedo, and R. Zufall, “Sex ratio evolution under probabilistic sex determination,” Evolution; International Journal of Organic Evolution, vol. 65, no. 7. Wiley-Blackwell, pp. 2050–2060, 2011. ista: Paixao T, Phadke S, Azevedo R, Zufall R. 2011. Sex ratio evolution under probabilistic sex determination. Evolution; International Journal of Organic Evolution. 65(7), 2050–2060. mla: Paixao, Tiago, et al. “Sex Ratio Evolution under Probabilistic Sex Determination.” Evolution; International Journal of Organic Evolution, vol. 65, no. 7, Wiley-Blackwell, 2011, pp. 2050–60, doi:10.1111/j.1558-5646.2011.01266.x. short: T. Paixao, S. Phadke, R. Azevedo, R. Zufall, Evolution; International Journal of Organic Evolution 65 (2011) 2050–2060. date_created: 2018-12-11T12:00:13Z date_published: 2011-03-01T00:00:00Z date_updated: 2021-01-12T07:00:33Z day: '01' doi: 10.1111/j.1558-5646.2011.01266.x extern: 1 intvolume: ' 65' issue: '7' month: '03' page: 2050 - 2060 publication: Evolution; International Journal of Organic Evolution publication_status: published publisher: Wiley-Blackwell publist_id: '3860' quality_controlled: 0 status: public title: Sex ratio evolution under probabilistic sex determination type: journal_article volume: 65 year: '2011' ... --- _id: '2897' acknowledgement: TFs regulate gene expression by binding to specific sequences in the promoter regions of their target genes. Promoters often contain multiple copies of the same TF binding sites. How does this multiplicity evolve? One possibility is that individuals with multiple, redundant binding sites have higher fitness. However, nonadaptive processes are also likely to be important. Here, we develop a mathematical model of the evolution of TF binding sites to help us disentangle how different evolutionary mechanisms contribute to the evolution of binding site redundancy and multiplicity. We show that recombination is expected to promote the evolution of multiple binding sites. This prediction is corroborated by genome-wide data from yeast. Another important factor in the evolution of multiplicity predicted in our analysis is TF promiscuity, that is, the ability of a TF to bind to multiple sequences. In addition, our analysis indicated that direct selection can have large effects on the evolution of redundancy and multiplicity. Data from yeast identified selection for changes in expression level as a candidate mechanism for the evolution of multiple binding sites. We conclude that, although selection may play a major role in the evolution of multiplicity in regulatory regions, nonadaptive forces can also lead to high levels of multiplicity. author: - first_name: Tiago full_name: Tiago Paixao id: 2C5658E6-F248-11E8-B48F-1D18A9856A87 last_name: Paixao orcid: 0000-0003-2361-3953 - first_name: Ricardo full_name: Azevedo, Ricardo B last_name: Azevedo citation: ama: Paixao T, Azevedo R. Redundancy and the Evolution of Cis Regulatory Element Multiplicity. PLoS Computational Biology. 2011;6(7). doi:10.1371/journal.pcbi.1000848 apa: Paixao, T., & Azevedo, R. (2011). Redundancy and the Evolution of Cis Regulatory Element Multiplicity. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1000848 chicago: Paixao, Tiago, and Ricardo Azevedo. “Redundancy and the Evolution of Cis Regulatory Element Multiplicity.” PLoS Computational Biology. Public Library of Science, 2011. https://doi.org/10.1371/journal.pcbi.1000848. ieee: T. Paixao and R. Azevedo, “Redundancy and the Evolution of Cis Regulatory Element Multiplicity,” PLoS Computational Biology, vol. 6, no. 7. Public Library of Science, 2011. ista: Paixao T, Azevedo R. 2011. Redundancy and the Evolution of Cis Regulatory Element Multiplicity. PLoS Computational Biology. 6(7). mla: Paixao, Tiago, and Ricardo Azevedo. “Redundancy and the Evolution of Cis Regulatory Element Multiplicity.” PLoS Computational Biology, vol. 6, no. 7, Public Library of Science, 2011, doi:10.1371/journal.pcbi.1000848. short: T. Paixao, R. Azevedo, PLoS Computational Biology 6 (2011). date_created: 2018-12-11T12:00:13Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:00:33Z day: '01' doi: 10.1371/journal.pcbi.1000848 extern: 1 intvolume: ' 6' issue: '7' month: '01' publication: PLoS Computational Biology publication_status: published publisher: Public Library of Science publist_id: '3861' quality_controlled: 0 status: public title: Redundancy and the Evolution of Cis Regulatory Element Multiplicity tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article volume: 6 year: '2011' ... --- _id: '2922' author: - first_name: Sara full_name: Vicente, Sara last_name: Vicente - first_name: Vladimir full_name: Vladimir Kolmogorov id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov - first_name: Carsten full_name: Rother, Carsten last_name: Rother citation: ama: 'Vicente S, Kolmogorov V, Rother C. Graph-cut Based Image Segmentation with Connectivity Priors. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press; 2011.' apa: Vicente, S., Kolmogorov, V., & Rother, C. (2011). Graph-cut Based Image Segmentation with Connectivity Priors. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press. chicago: Vicente, Sara, Vladimir Kolmogorov, and Carsten Rother. “Graph-Cut Based Image Segmentation with Connectivity Priors.” In Markov Random Fields for Vision and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother. Massachusetts Institute of Technology Press, 2011. ieee: S. Vicente, V. Kolmogorov, and C. Rother, “Graph-cut Based Image Segmentation with Connectivity Priors,” in Markov Random Fields for Vision and Image Processing, A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology Press, 2011. ista: 'Vicente S, Kolmogorov V, Rother C. 2011.Graph-cut Based Image Segmentation with Connectivity Priors. In: Markov Random Fields for Vision and Image Processing. .' mla: Vicente, Sara, et al. “Graph-Cut Based Image Segmentation with Connectivity Priors.” Markov Random Fields for Vision and Image Processing, edited by Andrew Blake et al., Massachusetts Institute of Technology Press, 2011. short: S. Vicente, V. Kolmogorov, C. Rother, in:, A. Blake, P. Kohli, C. Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts Institute of Technology Press, 2011. date_created: 2018-12-11T12:00:21Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:00:43Z day: '01' editor: - first_name: Andrew full_name: Blake, Andrew last_name: Blake - first_name: Pushmeet full_name: Kohli, Pushmeet last_name: Kohli - first_name: Carsten full_name: Rother, Carsten last_name: Rother extern: 1 month: '01' publication: Markov Random Fields for Vision and Image Processing publication_status: published publisher: Massachusetts Institute of Technology Press publist_id: '3815' quality_controlled: 0 status: public title: Graph-cut Based Image Segmentation with Connectivity Priors type: book_chapter year: '2011' ... --- _id: '2923' author: - first_name: M Pawan full_name: Kumar, M Pawan last_name: Kumar - first_name: Vladimir full_name: Vladimir Kolmogorov id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov - first_name: Philip full_name: Torr, Philip H last_name: Torr citation: ama: 'Kumar MP, Kolmogorov V, Torr P. Analyzing Convex Relaxations for MAP Estimation. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press; 2011.' apa: Kumar, M. P., Kolmogorov, V., & Torr, P. (2011). Analyzing Convex Relaxations for MAP Estimation. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press. chicago: Kumar, M Pawan, Vladimir Kolmogorov, and Philip Torr. “Analyzing Convex Relaxations for MAP Estimation.” In Markov Random Fields for Vision and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother. Massachusetts Institute of Technology Press, 2011. ieee: M. P. Kumar, V. Kolmogorov, and P. Torr, “Analyzing Convex Relaxations for MAP Estimation,” in Markov Random Fields for Vision and Image Processing, A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology Press, 2011. ista: 'Kumar MP, Kolmogorov V, Torr P. 2011.Analyzing Convex Relaxations for MAP Estimation. In: Markov Random Fields for Vision and Image Processing. .' mla: Kumar, M. Pawan, et al. “Analyzing Convex Relaxations for MAP Estimation.” Markov Random Fields for Vision and Image Processing, edited by Andrew Blake et al., Massachusetts Institute of Technology Press, 2011. short: M.P. Kumar, V. Kolmogorov, P. Torr, in:, A. Blake, P. Kohli, C. Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts Institute of Technology Press, 2011. date_created: 2018-12-11T12:00:21Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:00:43Z day: '01' editor: - first_name: Andrew full_name: Blake, Andrew last_name: Blake - first_name: Pushmeet full_name: Kohli, Pushmeet last_name: Kohli - first_name: Carsten full_name: Rother, Carsten last_name: Rother extern: 1 month: '01' publication: Markov Random Fields for Vision and Image Processing publication_status: published publisher: Massachusetts Institute of Technology Press publist_id: '3814' quality_controlled: 0 status: public title: Analyzing Convex Relaxations for MAP Estimation type: book_chapter year: '2011' ... --- _id: '2924' author: - first_name: Antonio full_name: Criminisi, Antonio last_name: Criminisi - first_name: Geoffrey full_name: Cross, Geoffrey last_name: Cross - first_name: Andrew full_name: Blake, Andrew last_name: Blake - first_name: Vladimir full_name: Vladimir Kolmogorov id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov citation: ama: 'Criminisi A, Cross G, Blake A, Kolmogorov V. Bilayer Segmentation of Video. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press; 2011.' apa: Criminisi, A., Cross, G., Blake, A., & Kolmogorov, V. (2011). Bilayer Segmentation of Video. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press. chicago: Criminisi, Antonio, Geoffrey Cross, Andrew Blake, and Vladimir Kolmogorov. “Bilayer Segmentation of Video.” In Markov Random Fields for Vision and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother. Massachusetts Institute of Technology Press, 2011. ieee: A. Criminisi, G. Cross, A. Blake, and V. Kolmogorov, “Bilayer Segmentation of Video,” in Markov Random Fields for Vision and Image Processing, A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology Press, 2011. ista: 'Criminisi A, Cross G, Blake A, Kolmogorov V. 2011.Bilayer Segmentation of Video. In: Markov Random Fields for Vision and Image Processing. .' mla: Criminisi, Antonio, et al. “Bilayer Segmentation of Video.” Markov Random Fields for Vision and Image Processing, edited by Andrew Blake et al., Massachusetts Institute of Technology Press, 2011. short: A. Criminisi, G. Cross, A. Blake, V. Kolmogorov, in:, A. Blake, P. Kohli, C. Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts Institute of Technology Press, 2011. date_created: 2018-12-11T12:00:22Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:00:43Z day: '01' editor: - first_name: Andrew full_name: Blake, Andrew last_name: Blake - first_name: Pushmeet full_name: Kohli, Pushmeet last_name: Kohli - first_name: Carsten full_name: Rother, Carsten last_name: Rother extern: 1 month: '01' publication: Markov Random Fields for Vision and Image Processing publication_status: published publisher: Massachusetts Institute of Technology Press publist_id: '3813' quality_controlled: 0 status: public title: Bilayer Segmentation of Video type: book_chapter year: '2011' ... --- _id: '2925' author: - first_name: Carsten full_name: Rother, Carsten last_name: Rother - first_name: Vladimir full_name: Vladimir Kolmogorov id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov - first_name: Yuri full_name: Boykov, Yuri last_name: Boykov - first_name: Andrew full_name: Blake, Andrew last_name: Blake citation: ama: 'Rother C, Kolmogorov V, Boykov Y, Blake A. Interactive Foreground Extraction using graph cut. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press; 2011.' apa: Rother, C., Kolmogorov, V., Boykov, Y., & Blake, A. (2011). Interactive Foreground Extraction using graph cut. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press. chicago: Rother, Carsten, Vladimir Kolmogorov, Yuri Boykov, and Andrew Blake. “Interactive Foreground Extraction Using Graph Cut.” In Markov Random Fields for Vision and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother. Massachusetts Institute of Technology Press, 2011. ieee: C. Rother, V. Kolmogorov, Y. Boykov, and A. Blake, “Interactive Foreground Extraction using graph cut,” in Markov Random Fields for Vision and Image Processing, A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology Press, 2011. ista: 'Rother C, Kolmogorov V, Boykov Y, Blake A. 2011.Interactive Foreground Extraction using graph cut. In: Markov Random Fields for Vision and Image Processing. .' mla: Rother, Carsten, et al. “Interactive Foreground Extraction Using Graph Cut.” Markov Random Fields for Vision and Image Processing, edited by Andrew Blake et al., Massachusetts Institute of Technology Press, 2011. short: C. Rother, V. Kolmogorov, Y. Boykov, A. Blake, in:, A. Blake, P. Kohli, C. Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts Institute of Technology Press, 2011. date_created: 2018-12-11T12:00:22Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:00:44Z day: '01' editor: - first_name: Andrew full_name: Blake, Andrew last_name: Blake - first_name: Pushmeet full_name: Kohli, Pushmeet last_name: Kohli - first_name: Carsten full_name: Rother, Carsten last_name: Rother extern: 1 month: '01' publication: Markov Random Fields for Vision and Image Processing publication_status: published publisher: Massachusetts Institute of Technology Press publist_id: '3812' quality_controlled: 0 status: public title: Interactive Foreground Extraction using graph cut type: book_chapter year: '2011' ... --- _id: '2935' author: - first_name: Yuri full_name: Boykov, Yuri last_name: Boykov - first_name: Vladimir full_name: Vladimir Kolmogorov id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov citation: ama: 'Boykov Y, Kolmogorov V. Basic graph cut algorithms. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image Processing. Massachusetts Institute of Technology Press; 2011:31-50.' apa: Boykov, Y., & Kolmogorov, V. (2011). Basic graph cut algorithms. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields for Vision and Image Processing (pp. 31–50). Massachusetts Institute of Technology Press. chicago: Boykov, Yuri, and Vladimir Kolmogorov. “Basic Graph Cut Algorithms.” In Markov Random Fields for Vision and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother, 31–50. Massachusetts Institute of Technology Press, 2011. ieee: Y. Boykov and V. Kolmogorov, “Basic graph cut algorithms,” in Markov Random Fields for Vision and Image Processing, A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology Press, 2011, pp. 31–50. ista: 'Boykov Y, Kolmogorov V. 2011.Basic graph cut algorithms. In: Markov Random Fields for Vision and Image Processing. , 31–50.' mla: Boykov, Yuri, and Vladimir Kolmogorov. “Basic Graph Cut Algorithms.” Markov Random Fields for Vision and Image Processing, edited by Andrew Blake et al., Massachusetts Institute of Technology Press, 2011, pp. 31–50. short: Y. Boykov, V. Kolmogorov, in:, A. Blake, P. Kohli, C. Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts Institute of Technology Press, 2011, pp. 31–50. date_created: 2018-12-11T12:00:26Z date_published: 2011-07-22T00:00:00Z date_updated: 2021-01-12T07:39:53Z day: '22' editor: - first_name: Andrew full_name: Blake, Andrew last_name: Blake - first_name: Pushmeet full_name: Kohli, Pushmeet last_name: Kohli - first_name: Carsten full_name: Rother, Carsten last_name: Rother extern: 1 month: '07' page: 31 - 50 publication: Markov Random Fields for Vision and Image Processing publication_status: published publisher: Massachusetts Institute of Technology Press publist_id: '3801' quality_controlled: 0 status: public title: Basic graph cut algorithms type: book_chapter year: '2011' ... --- _id: '2961' abstract: - lang: eng text: |- Rapid research progress in genotyping techniques have allowed large genome-wide association studies. Existing methods often focus on determining associations between single loci and a specic phenotype. However, a particular phenotype is usually the result of complex relationships between multiple loci and the environment. In this paper, we describe a two-stage method for detecting epistasis by combining the traditionally used single-locus search with a search for multiway interactions. Our method is based on an extended version of Fisher's exact test. To perform this test, a Markov chain is constructed on the space of multidimensional contingency tables using the elements of a Markov basis as moves. We test our method on simulated data and compare it to a two-stage logistic regression method and to a fully Bayesian method, showing that we are able to detect the interacting loci when other methods fail to do so. Finally, we apply our method to a genome-wide data set consisting of 685 dogs and identify epistasis associated with canine hair length for four pairs of single nucleotide polymorphisms (SNPs). acknowledgement: Anna-Sapfo Malaspinas is supported by a Janggen-Poehn Fellowship. Caroline Uhler is supported by an International Fulbright Science and Technology Fellowship. author: - first_name: Anna full_name: 'Malaspinas, Anna-Sapfo ' last_name: Malaspinas - first_name: Caroline full_name: Caroline Uhler id: 49ADD78E-F248-11E8-B48F-1D18A9856A87 last_name: Uhler orcid: 0000-0002-7008-0216 citation: ama: Malaspinas A, Uhler C. Detecting epistasis via Markov bases. Journal of Algebraic Statistics. 2011;2(1):36-53. doi:http://dx.doi.org/10.18409/jas.v2i1.27 apa: Malaspinas, A., & Uhler, C. (2011). Detecting epistasis via Markov bases. Journal of Algebraic Statistics. Public Knowledge Project. http://dx.doi.org/10.18409/jas.v2i1.27 chicago: Malaspinas, Anna, and Caroline Uhler. “Detecting Epistasis via Markov Bases.” Journal of Algebraic Statistics. Public Knowledge Project, 2011. http://dx.doi.org/10.18409/jas.v2i1.27. ieee: A. Malaspinas and C. Uhler, “Detecting epistasis via Markov bases,” Journal of Algebraic Statistics, vol. 2, no. 1. Public Knowledge Project, pp. 36–53, 2011. ista: Malaspinas A, Uhler C. 2011. Detecting epistasis via Markov bases. Journal of Algebraic Statistics. 2(1), 36–53. mla: Malaspinas, Anna, and Caroline Uhler. “Detecting Epistasis via Markov Bases.” Journal of Algebraic Statistics, vol. 2, no. 1, Public Knowledge Project, 2011, pp. 36–53, doi:http://dx.doi.org/10.18409/jas.v2i1.27. short: A. Malaspinas, C. Uhler, Journal of Algebraic Statistics 2 (2011) 36–53. date_created: 2018-12-11T12:00:34Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:40:05Z day: '01' doi: http://dx.doi.org/10.18409/jas.v2i1.27 extern: 1 intvolume: ' 2' issue: '1' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1006.4929 month: '01' oa: 1 page: 36 - 53 publication: Journal of Algebraic Statistics publication_status: published publisher: Public Knowledge Project publist_id: '3764' quality_controlled: 0 status: public title: Detecting epistasis via Markov bases type: journal_article volume: 2 year: '2011' ... --- _id: '2960' abstract: - lang: eng text: Traditional statistical methods for the confidentiality protection for statistical databases do not scale well to deal with GWAS (genome-wide association studies) databases and external information on them. The more recent concept of differential privacy, introduced by the cryptographic community, is an approach which provides a rigorous definition of privacy with meaningful privacy guarantees in the presence of arbitrary external information. Building on such notions, we propose new methods to release aggregate GWAS data without compromising an individual's privacy. We present methods for releasing differentially private minor allele frequencies, chi-square statistics and p-values. We compare these approaches on simulated data and on a GWAS study of canine hair length involving 685 dogs. We also propose a privacy-preserving method for finding genome-wide associations based on a differentially private approach to penalized logistic regression. author: - first_name: Stephen full_name: Fienberg, Stephen E last_name: Fienberg - first_name: Aleksandra full_name: Slavkovic, Aleksandra last_name: Slavkovic - first_name: Caroline full_name: Caroline Uhler id: 49ADD78E-F248-11E8-B48F-1D18A9856A87 last_name: Uhler orcid: 0000-0002-7008-0216 citation: ama: 'Fienberg S, Slavkovic A, Uhler C. Privacy Preserving GWAS Data Sharing. In: IEEE; 2011. doi:10.1109/ICDMW.2011.140' apa: Fienberg, S., Slavkovic, A., & Uhler, C. (2011). Privacy Preserving GWAS Data Sharing. Presented at the Proceedings of the 11th IEEE International Conference on Data Mining, IEEE. https://doi.org/10.1109/ICDMW.2011.140 chicago: Fienberg, Stephen, Aleksandra Slavkovic, and Caroline Uhler. “Privacy Preserving GWAS Data Sharing.” IEEE, 2011. https://doi.org/10.1109/ICDMW.2011.140. ieee: S. Fienberg, A. Slavkovic, and C. Uhler, “Privacy Preserving GWAS Data Sharing,” presented at the Proceedings of the 11th IEEE International Conference on Data Mining, 2011. ista: Fienberg S, Slavkovic A, Uhler C. 2011. Privacy Preserving GWAS Data Sharing. Proceedings of the 11th IEEE International Conference on Data Mining. mla: Fienberg, Stephen, et al. Privacy Preserving GWAS Data Sharing. IEEE, 2011, doi:10.1109/ICDMW.2011.140. short: S. Fienberg, A. Slavkovic, C. Uhler, in:, IEEE, 2011. conference: name: Proceedings of the 11th IEEE International Conference on Data Mining date_created: 2018-12-11T12:00:34Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:40:05Z day: '01' doi: 10.1109/ICDMW.2011.140 extern: 1 month: '01' publication_status: published publisher: IEEE publist_id: '3766' quality_controlled: 0 status: public title: Privacy Preserving GWAS Data Sharing type: conference year: '2011' ... --- _id: '2975' abstract: - lang: eng text: "Zero-knowledge proofs of knowledge (ZK-PoK) for discrete logarithms and related problems are indispensable for practical cryptographic protocols. Recently, Camenisch, Kiayias, and Yung provided a specification language (the CKY-language) for such protocols which allows for a modular design and protocol analysis: for every zero-knowledge proof specified in this language, protocol designers are ensured that there exists an efficient protocol which indeed proves the specified statement.\n\nHowever, the protocols resulting from their compilation techniques only satisfy the classical notion of ZK-PoK, which is not retained are when they used as building blocks for higher-level applications or composed with other protocols.\nThis problem can be tackled by moving to the Universal Composability (UC) framework, which guarantees retention of security when composing protocols in arbitrary ways. \nWhile there exist generic transformations from $\\Sigma$-protocols to UC-secure protocols, these transformation are often too inefficient for practice.\n \nIn this paper we introduce a specification language akin to the CKY-language and a compiler such that the resulting protocols are UC-secure and efficient. \nTo this end, we propose an extension of the UC-framework addressing the \nissue that UC-secure zero-knowledge proofs are by definition proofs of knowledge, and state a special composition theorem which allows one to use the weaker -- but more efficient and often sufficient -- notion of proofs of membership in the UC-framework. \nWe believe that our contributions enable the design of practically efficient protocols that are UC-secure and thus themselves can be used as building blocks." acknowledgement: This work was in part funded by the Swiss Hasler Foundation, and the EU FP7 grants 216483 and 216499, as well as by the NSF grant CNS-0716690. alternative_title: - LNCS author: - first_name: Jan full_name: Camenisch, Jan last_name: Camenisch - first_name: Stephan full_name: Stephan Krenn id: 329FCCF0-F248-11E8-B48F-1D18A9856A87 last_name: Krenn orcid: 0000-0003-2835-9093 - first_name: Victor full_name: Shoup, Victor last_name: Shoup citation: ama: 'Camenisch J, Krenn S, Shoup V. A Framework for Practical Universally Composable Zero-Knowledge Protocols. In: Lee D, Wang X, eds. Vol 7073. Springer; 2011:449-467. doi:10.1007/978-3-642-25385-0' apa: 'Camenisch, J., Krenn, S., & Shoup, V. (2011). A Framework for Practical Universally Composable Zero-Knowledge Protocols. In D. Lee & X. Wang (Eds.) (Vol. 7073, pp. 449–467). Presented at the ASIACRYPT: Theory and Application of Cryptology and Information Security, Springer. https://doi.org/10.1007/978-3-642-25385-0' chicago: Camenisch, Jan, Stephan Krenn, and Victor Shoup. “A Framework for Practical Universally Composable Zero-Knowledge Protocols.” edited by Dong Lee and Xiaoyun Wang, 7073:449–67. Springer, 2011. https://doi.org/10.1007/978-3-642-25385-0. ieee: 'J. Camenisch, S. Krenn, and V. Shoup, “A Framework for Practical Universally Composable Zero-Knowledge Protocols,” presented at the ASIACRYPT: Theory and Application of Cryptology and Information Security, 2011, vol. 7073, pp. 449–467.' ista: 'Camenisch J, Krenn S, Shoup V. 2011. A Framework for Practical Universally Composable Zero-Knowledge Protocols. ASIACRYPT: Theory and Application of Cryptology and Information Security, LNCS, vol. 7073, 449–467.' mla: Camenisch, Jan, et al. A Framework for Practical Universally Composable Zero-Knowledge Protocols. Edited by Dong Lee and Xiaoyun Wang, vol. 7073, Springer, 2011, pp. 449–67, doi:10.1007/978-3-642-25385-0. short: J. Camenisch, S. Krenn, V. Shoup, in:, D. Lee, X. Wang (Eds.), Springer, 2011, pp. 449–467. conference: name: 'ASIACRYPT: Theory and Application of Cryptology and Information Security' date_created: 2018-12-11T12:00:39Z date_published: 2011-11-21T00:00:00Z date_updated: 2021-01-12T07:40:11Z day: '21' doi: 10.1007/978-3-642-25385-0 editor: - first_name: Dong full_name: Lee, Dong Hoon last_name: Lee - first_name: Xiaoyun full_name: Wang, Xiaoyun last_name: Wang extern: 1 intvolume: ' 7073' main_file_link: - open_access: '0' url: http://eprint.iacr.org/2011/228.pdf month: '11' page: 449 - 467 publication_status: published publisher: Springer publist_id: '3728' quality_controlled: 0 status: public title: A Framework for Practical Universally Composable Zero-Knowledge Protocols type: conference volume: 7073 year: '2011' ... --- _id: '2977' abstract: - lang: eng text: "Cryptographic two-party protocols are used ubiquitously in\n everyday life. While some of these protocols are easy to\n understand and implement (e.g., key exchange or transmission of\n encrypted data), many of them are much more complex (e.g.,\n e-banking and e-voting applications, or anonymous authentication\n and credential systems).\n\n For a software engineer without appropriate cryptographic skills\n the implementation of such protocols is often difficult, time\n consuming and error-prone. For this reason, a number of compilers\n supporting programmers have been published in recent\n years. However, they are either designed for very specific\n cryptographic primitives (e.g., zero-knowledge proofs of\n knowledge), or they only offer a very low level of abstraction and\n thus again demand substantial mathematical and cryptographic\n \ skills from the programmer. Finally, some of the existing\n compilers do not produce executable code, but only metacode which\n has to be instantiated with mathematical libraries, encryption\n routines, etc. before it can actually be used.\n \n In this paper we present a cryptographically aware compiler which\n is equally useful to cryptographers who want to benchmark\n protocols designed on paper, and to programmers who want to\n implement complex security sensitive protocols without having to\n understand all subtleties. Our tool offers a high level of\n abstraction and outputs well-structured and documented Java\n code. We believe that our compiler can contribute to shortening\n the development cycles of cryptographic applications and to\n reducing their error-proneness." acknowledgement: This work was in part funded by the European Community’s Seventh Framework Programme (FP7) under grant agreement no. 216499 and the Swiss Hasler Foundation under projects no. 09037 and 10069. author: - first_name: Endre full_name: Bangerter, Endre last_name: Bangerter - first_name: Stephan full_name: Stephan Krenn id: 329FCCF0-F248-11E8-B48F-1D18A9856A87 last_name: Krenn orcid: 0000-0003-2835-9093 - first_name: Martial full_name: Seifriz, Martial last_name: Seifriz - first_name: Ulrich full_name: Ultes-Nitsche, Ulrich last_name: Ultes Nitsche citation: ama: 'Bangerter E, Krenn S, Seifriz M, Ultes Nitsche U. cPLC - A Cryptographic Programming Language and Compiler. In: Venter H, Coetzee M, Loock M, eds. IEEE; 2011. doi:10.1109/ISSA.2011.6027533' apa: 'Bangerter, E., Krenn, S., Seifriz, M., & Ultes Nitsche, U. (2011). cPLC - A Cryptographic Programming Language and Compiler. In H. Venter, M. Coetzee, & M. Loock (Eds.). Presented at the ISSA: Information Security South Africa, IEEE. https://doi.org/10.1109/ISSA.2011.6027533' chicago: Bangerter, Endre, Stephan Krenn, Martial Seifriz, and Ulrich Ultes Nitsche. “CPLC - A Cryptographic Programming Language and Compiler.” edited by Hein Venter, Marijke Coetzee, and Marianne Loock. IEEE, 2011. https://doi.org/10.1109/ISSA.2011.6027533. ieee: 'E. Bangerter, S. Krenn, M. Seifriz, and U. Ultes Nitsche, “cPLC - A Cryptographic Programming Language and Compiler,” presented at the ISSA: Information Security South Africa, 2011.' ista: 'Bangerter E, Krenn S, Seifriz M, Ultes Nitsche U. 2011. cPLC - A Cryptographic Programming Language and Compiler. ISSA: Information Security South Africa.' mla: Bangerter, Endre, et al. CPLC - A Cryptographic Programming Language and Compiler. Edited by Hein Venter et al., IEEE, 2011, doi:10.1109/ISSA.2011.6027533. short: E. Bangerter, S. Krenn, M. Seifriz, U. Ultes Nitsche, in:, H. Venter, M. Coetzee, M. Loock (Eds.), IEEE, 2011. conference: name: 'ISSA: Information Security South Africa' date_created: 2018-12-11T12:00:39Z date_published: 2011-08-01T00:00:00Z date_updated: 2021-01-12T07:40:12Z day: '01' doi: 10.1109/ISSA.2011.6027533 editor: - first_name: Hein full_name: Venter, Hein S. last_name: Venter - first_name: Marijke full_name: Coetzee, Marijke last_name: Coetzee - first_name: Marianne full_name: Loock, Marianne last_name: Loock extern: 1 month: '08' publication_status: published publisher: IEEE publist_id: '3726' quality_controlled: 0 status: public title: cPLC - A Cryptographic Programming Language and Compiler type: conference year: '2011' ... --- _id: '2976' abstract: - lang: eng text: |- Side channel attacks on cryptographic systems exploit information gained from physical implementations rather than theoretical weaknesses of a scheme. In recent years, major achievements were made for the class of so called access-driven cache attacks. Such attacks exploit the leakage of the memory locations accessed by a victim process. In this paper we consider the AES block cipher and present an attack which is capable of recovering the full secret key in almost realtime for AES-128, requiring only a very limited number of observed encryptions. Unlike previous attacks, we do not require any information about the plaintext (such as its distribution, etc.). Moreover, for the first time, we also show how the plaintext can be recovered without having access to the ciphertext at all. It is the first working attack on AES implementations using compressed tables. There, no efficient techniques to identify the beginning of AES rounds is known, which is the fundamental assumption underlying previous attacks. We have a fully working implementation of our attack which is able to recover AES keys after observing as little as 100 encryptions. It works against the OpenSSL 0.9.8n implementation of AES on Linux systems. Our spy process does not require any special privileges beyond those of a standard Linux user. A contribution of probably independent interest is a denial of service attack on the task scheduler of current Linux systems (CFS), which allows one to observe (on average) every single memory access of a victim process. acknowledgement: |- This work was in part funded by the European Community’s Seventh Framework Programme (FP7) under grant agreement no. 216499 and the Swiss Hasler Foundation. An extended abstract was also accepted for COSADE 2011. author: - first_name: David full_name: Gullasch, David last_name: Gullasch - first_name: Endre full_name: Bangerter, Endre last_name: Bangerter - first_name: Stephan full_name: Stephan Krenn id: 329FCCF0-F248-11E8-B48F-1D18A9856A87 last_name: Krenn orcid: 0000-0003-2835-9093 citation: ama: 'Gullasch D, Bangerter E, Krenn S. Cache Games - Bringing Access-Based Cache Attacks on AES to Practice. In: IEEE; 2011:490-505. doi:10.1109/SP.2011.22' apa: 'Gullasch, D., Bangerter, E., & Krenn, S. (2011). Cache Games - Bringing Access-Based Cache Attacks on AES to Practice (pp. 490–505). Presented at the S&P: IEEE Symposium on Security and Privacy, IEEE. https://doi.org/10.1109/SP.2011.22' chicago: Gullasch, David, Endre Bangerter, and Stephan Krenn. “Cache Games - Bringing Access-Based Cache Attacks on AES to Practice,” 490–505. IEEE, 2011. https://doi.org/10.1109/SP.2011.22. ieee: 'D. Gullasch, E. Bangerter, and S. Krenn, “Cache Games - Bringing Access-Based Cache Attacks on AES to Practice,” presented at the S&P: IEEE Symposium on Security and Privacy, 2011, pp. 490–505.' ista: 'Gullasch D, Bangerter E, Krenn S. 2011. Cache Games - Bringing Access-Based Cache Attacks on AES to Practice. S&P: IEEE Symposium on Security and Privacy, 490–505.' mla: Gullasch, David, et al. Cache Games - Bringing Access-Based Cache Attacks on AES to Practice. IEEE, 2011, pp. 490–505, doi:10.1109/SP.2011.22. short: D. Gullasch, E. Bangerter, S. Krenn, in:, IEEE, 2011, pp. 490–505. conference: name: 'S&P: IEEE Symposium on Security and Privacy' date_created: 2018-12-11T12:00:39Z date_published: 2011-01-01T00:00:00Z date_updated: 2021-01-12T07:40:11Z day: '01' doi: 10.1109/SP.2011.22 extern: 1 main_file_link: - open_access: '0' url: http://eprint.iacr.org/2010/594.pdf month: '01' page: 490 - 505 publication_status: published publisher: IEEE publist_id: '3727' quality_controlled: 0 status: public title: Cache Games - Bringing Access-Based Cache Attacks on AES to Practice type: conference year: '2011' ... --- _id: '3092' abstract: - lang: eng text: The phytohormone auxin is vital to plant growth and development. A unique property of auxin among all other plant hormones is its cell-to-cell polar transport that requires activity of polarly localized PIN-FORMED (PIN) auxin efflux transporters. Despite the substantial molecular insight into the cellular PIN polarization, the mechanistic understanding for developmentally and environmentally regulated PIN polarization is scarce. The long-standing belief that auxin modulates its own transport by means of a positive feedback mechanism has inspired both experimentalists and theoreticians for more than two decades. Recently, theoretical models for auxin-dependent patterning in plants include the feedback between auxin transport and the PIN protein localization. These computer models aid to assess the complexity of plant development by testing and predicting plausible scenarios for various developmental processes that occur in planta. Although the majority of these models rely on purely heuristic principles, the most recent mechanistic models tentatively integrate biologically testable components into known cellular processes that underlie the PIN polarity regulation. The existing and emerging computational approaches to describe PIN polarization are presented and discussed in the light of recent experimental data on the PIN polar targeting. author: - first_name: Krzysztof T full_name: Wabnik, Krzysztof T id: 4DE369A4-F248-11E8-B48F-1D18A9856A87 last_name: Wabnik orcid: 0000-0001-7263-0560 - first_name: Willy full_name: Govaerts, Willy last_name: Govaerts - first_name: Jirí full_name: Friml, Jirí id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Jürgen full_name: Kleine Vehn, Jürgen last_name: Kleine Vehn citation: ama: 'Wabnik KT, Govaerts W, Friml J, Kleine Vehn J. Feedback models for polarized auxin transport: An emerging trend. Molecular BioSystems. 2011;7(8):2352-2359. doi:10.1039/c1mb05109a' apa: 'Wabnik, K. T., Govaerts, W., Friml, J., & Kleine Vehn, J. (2011). Feedback models for polarized auxin transport: An emerging trend. Molecular BioSystems. Royal Society of Chemistry. https://doi.org/10.1039/c1mb05109a' chicago: 'Wabnik, Krzysztof T, Willy Govaerts, Jiří Friml, and Jürgen Kleine Vehn. “Feedback Models for Polarized Auxin Transport: An Emerging Trend.” Molecular BioSystems. Royal Society of Chemistry, 2011. https://doi.org/10.1039/c1mb05109a.' ieee: 'K. T. Wabnik, W. Govaerts, J. Friml, and J. Kleine Vehn, “Feedback models for polarized auxin transport: An emerging trend,” Molecular BioSystems, vol. 7, no. 8. Royal Society of Chemistry, pp. 2352–2359, 2011.' ista: 'Wabnik KT, Govaerts W, Friml J, Kleine Vehn J. 2011. Feedback models for polarized auxin transport: An emerging trend. Molecular BioSystems. 7(8), 2352–2359.' mla: 'Wabnik, Krzysztof T., et al. “Feedback Models for Polarized Auxin Transport: An Emerging Trend.” Molecular BioSystems, vol. 7, no. 8, Royal Society of Chemistry, 2011, pp. 2352–59, doi:10.1039/c1mb05109a.' short: K.T. Wabnik, W. Govaerts, J. Friml, J. Kleine Vehn, Molecular BioSystems 7 (2011) 2352–2359. date_created: 2018-12-11T12:01:20Z date_published: 2011-06-10T00:00:00Z date_updated: 2021-01-12T07:41:00Z day: '10' doi: 10.1039/c1mb05109a extern: '1' external_id: pmid: - '21660355' intvolume: ' 7' issue: '8' language: - iso: eng main_file_link: - open_access: '1' url: https://www.ncbi.nlm.nih.gov/pubmed/21660355 month: '06' oa: 1 oa_version: Published Version page: 2352 - 2359 pmid: 1 publication: Molecular BioSystems publication_status: published publisher: Royal Society of Chemistry publist_id: '3608' quality_controlled: '1' status: public title: 'Feedback models for polarized auxin transport: An emerging trend' type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 7 year: '2011' ... --- _id: '3089' abstract: - lang: eng text: The phytohormone auxin is an important determinant of plant development. Directional auxin flow within tissues depends on polar localization of PIN auxin transporters. To explore regulation of PIN-mediated auxin transport, we screened for suppressors of PIN1 overexpression (supo) and identified an inositol polyphosphate 1-phosphatase mutant (supo1), with elevated inositol trisphosphate (InsP 3) and cytosolic Ca 2+ levels. Pharmacological and genetic increases in InsP 3 or Ca 2+ levels also suppressed the PIN1 gain-of-function phenotypes and caused defects in basal PIN localization, auxin transport and auxin-mediated development. In contrast, the reductions in InsP 3 levels and Ca 2+ signaling antagonized the effects of the supo1 mutation and disrupted preferentially apical PIN localization. InsP 3 and Ca 2+ are evolutionarily conserved second messengers involved in various cellular functions, particularly stress responses. Our findings implicate them as modifiers of cell polarity and polar auxin transport, and highlight a potential integration point through which Ca 2+ signaling-related stimuli could influence auxin-mediated development. author: - first_name: Jing full_name: Zhang, Jing last_name: Zhang - first_name: Steffen full_name: Vanneste, Steffen last_name: Vanneste - first_name: Philip full_name: Brewer, Philip B last_name: Brewer - first_name: Marta full_name: Michniewicz, Marta last_name: Michniewicz - first_name: Peter full_name: Peter Grones id: 399876EC-F248-11E8-B48F-1D18A9856A87 last_name: Grones - first_name: Jürgen full_name: Kleine-Vehn, Jürgen last_name: Kleine Vehn - first_name: Christian full_name: Löfke, Christian last_name: Löfke - first_name: Thomas full_name: Teichmann, Thomas last_name: Teichmann - first_name: Agnieszka full_name: Bielach, Agnieszka last_name: Bielach - first_name: Bernard full_name: Cannoot, Bernard last_name: Cannoot - first_name: Klára full_name: Hoyerová, Klára last_name: Hoyerová - first_name: Xu full_name: Xu Chen id: 4E5ADCAA-F248-11E8-B48F-1D18A9856A87 last_name: Chen - first_name: Hong full_name: Xue, Hong-Wei last_name: Xue - first_name: Eva full_name: Eva Benková id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Eva full_name: Zažímalová, Eva last_name: Zažímalová - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Zhang J, Vanneste S, Brewer P, et al. Inositol trisphosphate-induced ca^2+ signaling modulates auxin transport and pin polarity. Developmental Cell. 2011;20(6):855-866. doi:10.1016/j.devcel.2011.05.013 apa: Zhang, J., Vanneste, S., Brewer, P., Michniewicz, M., Grones, P., Kleine Vehn, J., … Friml, J. (2011). Inositol trisphosphate-induced ca^2+ signaling modulates auxin transport and pin polarity. Developmental Cell. Cell Press. https://doi.org/10.1016/j.devcel.2011.05.013 chicago: Zhang, Jing, Steffen Vanneste, Philip Brewer, Marta Michniewicz, Peter Grones, Jürgen Kleine Vehn, Christian Löfke, et al. “Inositol Trisphosphate-Induced Ca^2+ Signaling Modulates Auxin Transport and Pin Polarity.” Developmental Cell. Cell Press, 2011. https://doi.org/10.1016/j.devcel.2011.05.013. ieee: J. Zhang et al., “Inositol trisphosphate-induced ca^2+ signaling modulates auxin transport and pin polarity,” Developmental Cell, vol. 20, no. 6. Cell Press, pp. 855–866, 2011. ista: Zhang J, Vanneste S, Brewer P, Michniewicz M, Grones P, Kleine Vehn J, Löfke C, Teichmann T, Bielach A, Cannoot B, Hoyerová K, Chen X, Xue H, Benková E, Zažímalová E, Friml J. 2011. Inositol trisphosphate-induced ca^2+ signaling modulates auxin transport and pin polarity. Developmental Cell. 20(6), 855–866. mla: Zhang, Jing, et al. “Inositol Trisphosphate-Induced Ca^2+ Signaling Modulates Auxin Transport and Pin Polarity.” Developmental Cell, vol. 20, no. 6, Cell Press, 2011, pp. 855–66, doi:10.1016/j.devcel.2011.05.013. short: J. Zhang, S. Vanneste, P. Brewer, M. Michniewicz, P. Grones, J. Kleine Vehn, C. Löfke, T. Teichmann, A. Bielach, B. Cannoot, K. Hoyerová, X. Chen, H. Xue, E. Benková, E. Zažímalová, J. Friml, Developmental Cell 20 (2011) 855–866. date_created: 2018-12-11T12:01:18Z date_published: 2011-06-14T00:00:00Z date_updated: 2021-01-12T07:40:58Z day: '14' doi: 10.1016/j.devcel.2011.05.013 extern: 1 intvolume: ' 20' issue: '6' month: '06' page: 855 - 866 publication: Developmental Cell publication_status: published publisher: Cell Press publist_id: '3612' quality_controlled: 0 status: public title: Inositol trisphosphate-induced ca^2+ signaling modulates auxin transport and pin polarity type: journal_article volume: 20 year: '2011' ... --- _id: '3090' abstract: - lang: eng text: The polarized transport of the phytohormone auxin [1], which is crucial for the regulation of different stages of plant development [2, 3], depends on the asymmetric plasma membrane distribution of the PIN-FORMED (PIN) auxin efflux carriers [4, 5]. The PIN polar localization results from clathrin-mediated endocytosis (CME) from the plasma membrane and subsequent polar recycling [6]. The Arabidopsis genome encodes two groups of dynamin-related proteins (DRPs) that show homology to mammalian dynamin - a protein required for fission of endocytic vesicles during CME [7, 8]. Here we show by coimmunoprecipitation (coIP), bimolecular fluorescence complementation (BiFC), and Förster resonance energy transfer (FRET) that members of the DRP1 group closely associate with PIN proteins at the cell plate. Localization and phenotypic analysis of novel drp1 mutants revealed a requirement for DRP1 function in correct PIN distribution and in auxin-mediated development. We propose that rapid and specific internalization of PIN proteins mediated by the DRP1 proteins and the associated CME machinery from the cell plate membranes during cytokinesis is an important mechanism for proper polar PIN positioning in interphase cells. author: - first_name: Jozef full_name: Mravec, Jozef last_name: Mravec - first_name: Jan full_name: Petrášek, Jan last_name: Petrášek - first_name: Na full_name: Li, Na last_name: Li - first_name: Sjef full_name: Boeren, Sjef last_name: Boeren - first_name: Rumyana full_name: Karlova, Rumyana last_name: Karlova - first_name: Saeko full_name: Kitakura, Saeko last_name: Kitakura - first_name: Markéta full_name: Pařezová, Markéta last_name: Pařezová - first_name: Satoshi full_name: Naramoto, Satoshi last_name: Naramoto - first_name: Thomasz full_name: Nodzyński, Thomasz last_name: Nodzyński - first_name: Pankaj full_name: Dhonukshe, Pankaj last_name: Dhonukshe - first_name: Sebastian full_name: Bednarek, Sebastian Y last_name: Bednarek - first_name: Eva full_name: Zažímalová, Eva last_name: Zažímalová - first_name: Sacco full_name: De Vries, Sacco last_name: De Vries - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Mravec J, Petrášek J, Li N, et al. Cell plate restricted association of DRP1A and PIN proteins is required for cell polarity establishment in arabidopsis. Current Biology. 2011;21(12):1055-1060. doi:10.1016/j.cub.2011.05.018 apa: Mravec, J., Petrášek, J., Li, N., Boeren, S., Karlova, R., Kitakura, S., … Friml, J. (2011). Cell plate restricted association of DRP1A and PIN proteins is required for cell polarity establishment in arabidopsis. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2011.05.018 chicago: Mravec, Jozef, Jan Petrášek, Na Li, Sjef Boeren, Rumyana Karlova, Saeko Kitakura, Markéta Pařezová, et al. “Cell Plate Restricted Association of DRP1A and PIN Proteins Is Required for Cell Polarity Establishment in Arabidopsis.” Current Biology. Cell Press, 2011. https://doi.org/10.1016/j.cub.2011.05.018. ieee: J. Mravec et al., “Cell plate restricted association of DRP1A and PIN proteins is required for cell polarity establishment in arabidopsis,” Current Biology, vol. 21, no. 12. Cell Press, pp. 1055–1060, 2011. ista: Mravec J, Petrášek J, Li N, Boeren S, Karlova R, Kitakura S, Pařezová M, Naramoto S, Nodzyński T, Dhonukshe P, Bednarek S, Zažímalová E, De Vries S, Friml J. 2011. Cell plate restricted association of DRP1A and PIN proteins is required for cell polarity establishment in arabidopsis. Current Biology. 21(12), 1055–1060. mla: Mravec, Jozef, et al. “Cell Plate Restricted Association of DRP1A and PIN Proteins Is Required for Cell Polarity Establishment in Arabidopsis.” Current Biology, vol. 21, no. 12, Cell Press, 2011, pp. 1055–60, doi:10.1016/j.cub.2011.05.018. short: J. Mravec, J. Petrášek, N. Li, S. Boeren, R. Karlova, S. Kitakura, M. Pařezová, S. Naramoto, T. Nodzyński, P. Dhonukshe, S. Bednarek, E. Zažímalová, S. De Vries, J. Friml, Current Biology 21 (2011) 1055–1060. date_created: 2018-12-11T12:01:19Z date_published: 2011-06-21T00:00:00Z date_updated: 2021-01-12T07:40:59Z day: '21' doi: 10.1016/j.cub.2011.05.018 extern: 1 intvolume: ' 21' issue: '12' month: '06' page: 1055 - 1060 publication: Current Biology publication_status: published publisher: Cell Press publist_id: '3611' quality_controlled: 0 status: public title: Cell plate restricted association of DRP1A and PIN proteins is required for cell polarity establishment in arabidopsis type: journal_article volume: 21 year: '2011' ... --- _id: '3088' abstract: - lang: eng text: 'Background: Whereas the majority of animals develop toward a predetermined body plan, plants show iterative growth and continually produce new organs and structures from actively dividing meristems. This raises an intriguing question: How are these newly developed organs patterned? In Arabidopsis embryos, radial symmetry is broken by the bisymmetric specification of the cotyledons in the apical domain. Subsequently, this bisymmetry is propagated to the root promeristem. Results: Here we present a mutually inhibitory feedback loop between auxin and cytokinin that sets distinct boundaries of hormonal output. Cytokinins promote the bisymmetric distribution of the PIN-FORMED (PIN) auxin efflux proteins, which channel auxin toward a central domain. High auxin promotes transcription of the cytokinin signaling inhibitor AHP6, which closes the interaction loop. This bisymmetric auxin response domain specifies the differentiation of protoxylem in a bisymmetric pattern. In embryonic roots, cytokinin is required to translate a bisymmetric auxin response in the cotyledons to a bisymmetric vascular pattern in the root promeristem. Conclusions: Our results present an interactive feedback loop between hormonal signaling and transport by which small biases in hormonal input are propagated into distinct signaling domains to specify the vascular pattern in the root meristem. It is an intriguing possibility that such a mechanism could transform radial patterns and allow continuous vascular connections between other newly emerging organs.' author: - first_name: Anthony full_name: Bishopp, Anthony last_name: Bishopp - first_name: Hanna full_name: Help, Hanna last_name: Help - first_name: Sedeer full_name: El-Showk, Sedeer last_name: El Showk - first_name: Dolf full_name: Weijers, Dolf last_name: Weijers - first_name: Ben full_name: Scheres, Ben last_name: Scheres - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Eva full_name: Eva Benková id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Ari full_name: Mähönen, Ari Pekka last_name: Mähönen - first_name: Ykä full_name: Helariutta, Ykä last_name: Helariutta citation: ama: Bishopp A, Help H, El Showk S, et al. A mutually inhibitory interaction between auxin and cytokinin specifies vascular pattern in roots. Current Biology. 2011;21(11):917-926. doi:10.1016/j.cub.2011.04.017 apa: Bishopp, A., Help, H., El Showk, S., Weijers, D., Scheres, B., Friml, J., … Helariutta, Y. (2011). A mutually inhibitory interaction between auxin and cytokinin specifies vascular pattern in roots. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2011.04.017 chicago: Bishopp, Anthony, Hanna Help, Sedeer El Showk, Dolf Weijers, Ben Scheres, Jiří Friml, Eva Benková, Ari Mähönen, and Ykä Helariutta. “A Mutually Inhibitory Interaction between Auxin and Cytokinin Specifies Vascular Pattern in Roots.” Current Biology. Cell Press, 2011. https://doi.org/10.1016/j.cub.2011.04.017. ieee: A. Bishopp et al., “A mutually inhibitory interaction between auxin and cytokinin specifies vascular pattern in roots,” Current Biology, vol. 21, no. 11. Cell Press, pp. 917–926, 2011. ista: Bishopp A, Help H, El Showk S, Weijers D, Scheres B, Friml J, Benková E, Mähönen A, Helariutta Y. 2011. A mutually inhibitory interaction between auxin and cytokinin specifies vascular pattern in roots. Current Biology. 21(11), 917–926. mla: Bishopp, Anthony, et al. “A Mutually Inhibitory Interaction between Auxin and Cytokinin Specifies Vascular Pattern in Roots.” Current Biology, vol. 21, no. 11, Cell Press, 2011, pp. 917–26, doi:10.1016/j.cub.2011.04.017. short: A. Bishopp, H. Help, S. El Showk, D. Weijers, B. Scheres, J. Friml, E. Benková, A. Mähönen, Y. Helariutta, Current Biology 21 (2011) 917–926. date_created: 2018-12-11T12:01:18Z date_published: 2011-06-07T00:00:00Z date_updated: 2021-01-12T07:40:58Z day: '07' doi: 10.1016/j.cub.2011.04.017 extern: 1 intvolume: ' 21' issue: '11' month: '06' page: 917 - 926 publication: Current Biology publication_status: published publisher: Cell Press publist_id: '3613' quality_controlled: 0 status: public title: A mutually inhibitory interaction between auxin and cytokinin specifies vascular pattern in roots type: journal_article volume: 21 year: '2011' ... --- _id: '3093' abstract: - lang: eng text: |2- Plants take up iron from the soil using the IRON-REGULATED TRANSPORTER 1 (IRT1) high-affinity iron transporter at the root surface. Sophisticated regulatory mechanisms allow plants to tightly control the levels of IRT1, ensuring optimal absorption of essential but toxic iron. Here, we demonstrate that overexpression of Arabidopsis thaliana IRT1 leads to constitutive IRT1 protein accumulation, metal overload, and oxidative stress. IRT1 is unexpectedly found in trans-Golgi network/early endosomes of root hair cells, and its levels and localization are unaffected by iron nutrition. Using pharmacological approaches, we show that IRT1 cycles to the plasma membrane to perform iron and metal uptake at the cell surface and is sent to the vacuole for proper turnover. We also prove that IRT1 is monoubiquitinated on several cytosol-exposed residues in vivo and that mutation of two putative monoubiquitination target residues in IRT1 triggers stabilization at the plasma membrane and leads to extreme lethality. Together, these data suggest a model in which monoubiquitin-dependent internalization/sorting and turnover keep the plasma membrane pool of IRT1 low to ensure proper iron uptake and to prevent metal toxicity. More generally, our work demonstrates the existence of monoubiquitin-dependent trafficking to lytic vacuoles in plants and points to proteasome-independent turnover of plasma membrane proteins. author: - first_name: Marie full_name: Barberon, Marie last_name: Barberon - first_name: Enric full_name: Zelazny, Enric last_name: Zelazny - first_name: Stéphanie full_name: Robert, Stéphanie last_name: Robert - first_name: Geneviève full_name: Conéjéro, Geneviève last_name: Conéjéro - first_name: Cathy full_name: Curie, Cathy last_name: Curie - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Grégory full_name: Vert, Grégory last_name: Vert citation: ama: Barberon M, Zelazny E, Robert S, et al. Monoubiquitin dependent endocytosis of the Iron Regulated Transporter 1 IRT1 transporter controls iron uptake in plants. PNAS. 2011;108(32):E450-E458. doi:10.1073/pnas.1100659108 apa: Barberon, M., Zelazny, E., Robert, S., Conéjéro, G., Curie, C., Friml, J., & Vert, G. (2011). Monoubiquitin dependent endocytosis of the Iron Regulated Transporter 1 IRT1 transporter controls iron uptake in plants. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1100659108 chicago: Barberon, Marie, Enric Zelazny, Stéphanie Robert, Geneviève Conéjéro, Cathy Curie, Jiří Friml, and Grégory Vert. “Monoubiquitin Dependent Endocytosis of the Iron Regulated Transporter 1 IRT1 Transporter Controls Iron Uptake in Plants.” PNAS. National Academy of Sciences, 2011. https://doi.org/10.1073/pnas.1100659108. ieee: M. Barberon et al., “Monoubiquitin dependent endocytosis of the Iron Regulated Transporter 1 IRT1 transporter controls iron uptake in plants,” PNAS, vol. 108, no. 32. National Academy of Sciences, pp. E450–E458, 2011. ista: Barberon M, Zelazny E, Robert S, Conéjéro G, Curie C, Friml J, Vert G. 2011. Monoubiquitin dependent endocytosis of the Iron Regulated Transporter 1 IRT1 transporter controls iron uptake in plants. PNAS. 108(32), E450–E458. mla: Barberon, Marie, et al. “Monoubiquitin Dependent Endocytosis of the Iron Regulated Transporter 1 IRT1 Transporter Controls Iron Uptake in Plants.” PNAS, vol. 108, no. 32, National Academy of Sciences, 2011, pp. E450–58, doi:10.1073/pnas.1100659108. short: M. Barberon, E. Zelazny, S. Robert, G. Conéjéro, C. Curie, J. Friml, G. Vert, PNAS 108 (2011) E450–E458. date_created: 2018-12-11T12:01:20Z date_published: 2011-08-09T00:00:00Z date_updated: 2021-01-12T07:41:00Z day: '09' doi: 10.1073/pnas.1100659108 extern: 1 intvolume: ' 108' issue: '32' month: '08' page: E450 - E458 publication: PNAS publication_status: published publisher: National Academy of Sciences publist_id: '3607' quality_controlled: 0 status: public title: Monoubiquitin dependent endocytosis of the Iron Regulated Transporter 1 IRT1 transporter controls iron uptake in plants type: journal_article volume: 108 year: '2011' ... --- _id: '3094' abstract: - lang: eng text: Summary Gravitropism aligns plant growth with gravity. It involves gravity perception and the asymmetric distribution of the phytohormone auxin. Here we provide insights into the mechanism for hypocotyl gravitropic growth. We show that the Arabidopsis thaliana PIN3 auxin transporter is required for the asymmetric auxin distribution for the gravitropic response. Gravistimulation polarizes PIN3 to the bottom side of hypocotyl endodermal cells, which correlates with an increased auxin response at the lower hypocotyl side. Both PIN3 polarization and hypocotyl bending require the activity of the trafficking regulator GNOM and the protein kinase PINOID. Our data suggest that gravity-induced PIN3 polarization diverts the auxin flow to mediate the asymmetric distribution of auxin for gravitropic shoot bending. author: - first_name: Hana full_name: Rakusová, Hana last_name: Rakusová - first_name: Javier full_name: Gallego-Bartolomé, Javier last_name: Gallego Bartolomé - first_name: Marleen full_name: Vanstraelen, Marleen last_name: Vanstraelen - first_name: Hélène full_name: Robert, Hélène S last_name: Robert - first_name: David full_name: Alabadí, David last_name: Alabadí - first_name: Miguel full_name: Blázquez, Miguel A last_name: Blázquez - first_name: Eva full_name: Eva Benková id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Rakusová H, Gallego Bartolomé J, Vanstraelen M, et al. Polarization of PIN3 dependent auxin transport for hypocotyl gravitropic response in Arabidopsis thaliana. Plant Journal. 2011;67(5):817-826. doi:10.1111/j.1365-313X.2011.04636.x apa: Rakusová, H., Gallego Bartolomé, J., Vanstraelen, M., Robert, H., Alabadí, D., Blázquez, M., … Friml, J. (2011). Polarization of PIN3 dependent auxin transport for hypocotyl gravitropic response in Arabidopsis thaliana. Plant Journal. Wiley-Blackwell. https://doi.org/10.1111/j.1365-313X.2011.04636.x chicago: Rakusová, Hana, Javier Gallego Bartolomé, Marleen Vanstraelen, Hélène Robert, David Alabadí, Miguel Blázquez, Eva Benková, and Jiří Friml. “Polarization of PIN3 Dependent Auxin Transport for Hypocotyl Gravitropic Response in Arabidopsis Thaliana.” Plant Journal. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1365-313X.2011.04636.x. ieee: H. Rakusová et al., “Polarization of PIN3 dependent auxin transport for hypocotyl gravitropic response in Arabidopsis thaliana,” Plant Journal, vol. 67, no. 5. Wiley-Blackwell, pp. 817–826, 2011. ista: Rakusová H, Gallego Bartolomé J, Vanstraelen M, Robert H, Alabadí D, Blázquez M, Benková E, Friml J. 2011. Polarization of PIN3 dependent auxin transport for hypocotyl gravitropic response in Arabidopsis thaliana. Plant Journal. 67(5), 817–826. mla: Rakusová, Hana, et al. “Polarization of PIN3 Dependent Auxin Transport for Hypocotyl Gravitropic Response in Arabidopsis Thaliana.” Plant Journal, vol. 67, no. 5, Wiley-Blackwell, 2011, pp. 817–26, doi:10.1111/j.1365-313X.2011.04636.x. short: H. Rakusová, J. Gallego Bartolomé, M. Vanstraelen, H. Robert, D. Alabadí, M. Blázquez, E. Benková, J. Friml, Plant Journal 67 (2011) 817–826. date_created: 2018-12-11T12:01:21Z date_published: 2011-09-01T00:00:00Z date_updated: 2021-01-12T07:41:01Z day: '01' doi: 10.1111/j.1365-313X.2011.04636.x extern: 1 intvolume: ' 67' issue: '5' month: '09' page: 817 - 826 publication: Plant Journal publication_status: published publisher: Wiley-Blackwell publist_id: '3606' quality_controlled: 0 status: public title: Polarization of PIN3 dependent auxin transport for hypocotyl gravitropic response in Arabidopsis thaliana type: journal_article volume: 67 year: '2011' ... --- _id: '3091' author: - first_name: Michael full_name: Sauer, Michael last_name: Sauer - first_name: Jirí full_name: Friml, Jirí id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Sauer M, Friml J. Fleeting hormone cues get stabilized for plant organogenesis. Molecular Systems Biology. 2011;7. doi:10.1038/msb.2011.45 apa: Sauer, M., & Friml, J. (2011). Fleeting hormone cues get stabilized for plant organogenesis. Molecular Systems Biology. Nature Publishing Group. https://doi.org/10.1038/msb.2011.45 chicago: Sauer, Michael, and Jiří Friml. “Fleeting Hormone Cues Get Stabilized for Plant Organogenesis.” Molecular Systems Biology. Nature Publishing Group, 2011. https://doi.org/10.1038/msb.2011.45. ieee: M. Sauer and J. Friml, “Fleeting hormone cues get stabilized for plant organogenesis,” Molecular Systems Biology, vol. 7. Nature Publishing Group, 2011. ista: Sauer M, Friml J. 2011. Fleeting hormone cues get stabilized for plant organogenesis. Molecular Systems Biology. 7. mla: Sauer, Michael, and Jiří Friml. “Fleeting Hormone Cues Get Stabilized for Plant Organogenesis.” Molecular Systems Biology, vol. 7, Nature Publishing Group, 2011, doi:10.1038/msb.2011.45. short: M. Sauer, J. Friml, Molecular Systems Biology 7 (2011). date_created: 2018-12-11T12:01:19Z date_published: 2011-07-05T00:00:00Z date_updated: 2021-01-12T07:41:00Z day: '05' doi: 10.1038/msb.2011.45 extern: '1' external_id: pmid: - '21734646' intvolume: ' 7' language: - iso: eng main_file_link: - open_access: '1' url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3159970/ month: '07' oa: 1 oa_version: Published Version pmid: 1 publication: Molecular Systems Biology publication_status: published publisher: Nature Publishing Group publist_id: '3610' quality_controlled: '1' status: public title: Fleeting hormone cues get stabilized for plant organogenesis type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 7 year: '2011' ... --- _id: '3102' abstract: - lang: eng text: 'Multicellular organisms depend on cell production, cell fate specification, and correct patterning to shape their adult body. In plants, auxin plays a prominent role in the timely coordination of these different cellular processes. A well-studied example is lateral root initiation, in which auxin triggers founder cell specification and cell cycle activation of xylem pole–positioned pericycle cells. Here, we report that the E2Fa transcription factor of Arabidopsis thaliana is an essential component that regulates the asymmetric cell division marking lateral root initiation. Moreover, we demonstrate that E2Fa expression is regulated by the LATERAL ORGAN BOUNDARY DOMAIN18/LATERAL ORGAN BOUNDARY DOMAIN33 (LBD18/LBD33) dimer that is, in turn, regulated by the auxin signaling pathway. LBD18/LBD33 mediates lateral root organogenesis through E2Fa transcriptional activation, whereas E2Fa expression under control of the LBD18 promoter eliminates the need for LBD18. Besides lateral root initiation, vascular patterning is disrupted in E2Fa knockout plants, similarly as it is affected in auxin signaling and lbd mutants, indicating that the transcriptional induction of E2Fa through LBDs represents a general mechanism for auxin-dependent cell cycle activation. Our data illustrate how a conserved mechanism driving cell cycle entry has been adapted evolutionarily to connect auxin signaling with control of processes determining plant architecture. ' author: - first_name: Barbara full_name: Berckmans, Barbara last_name: Berckmans - first_name: Valya full_name: Vassileva, Valya last_name: Vassileva - first_name: Stephan full_name: Schmid, Stephan P last_name: Schmid - first_name: Sara full_name: Maes, Sara last_name: Maes - first_name: Boris full_name: Parizot, Boris last_name: Parizot - first_name: Satoshi full_name: Naramoto, Satoshi last_name: Naramoto - first_name: Zoltan full_name: Magyar, Zoltan last_name: Magyar - first_name: Claire full_name: Lessa Alvim Kamei, Claire last_name: Lessa Alvim Kamei - first_name: Csaba full_name: Koncz, Csaba last_name: Koncz - first_name: Laszlo full_name: Bögre, Laszlo last_name: Bögre - first_name: Geert full_name: Persiau, Geert last_name: Persiau - first_name: Geert full_name: De Jaeger, Geert last_name: De Jaeger - first_name: Jirí full_name: Jirí Friml id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Rüdiger full_name: Simon, Rüdiger last_name: Simon - first_name: Tom full_name: Beeckman, Tom last_name: Beeckman - first_name: Lieven full_name: de Veyldera, Lieven last_name: De Veyldera citation: ama: Berckmans B, Vassileva V, Schmid S, et al. Auxin Dependent cell cycle reactivation through transcriptional regulation of arabidopsis E2Fa by lateral organ boundary proteins. Plant Cell. 2011;23(10):3671-3683. doi:10.1105/tpc.111.088377 apa: Berckmans, B., Vassileva, V., Schmid, S., Maes, S., Parizot, B., Naramoto, S., … De Veyldera, L. (2011). Auxin Dependent cell cycle reactivation through transcriptional regulation of arabidopsis E2Fa by lateral organ boundary proteins. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.111.088377 chicago: Berckmans, Barbara, Valya Vassileva, Stephan Schmid, Sara Maes, Boris Parizot, Satoshi Naramoto, Zoltan Magyar, et al. “Auxin Dependent Cell Cycle Reactivation through Transcriptional Regulation of Arabidopsis E2Fa by Lateral Organ Boundary Proteins.” Plant Cell. American Society of Plant Biologists, 2011. https://doi.org/10.1105/tpc.111.088377. ieee: B. Berckmans et al., “Auxin Dependent cell cycle reactivation through transcriptional regulation of arabidopsis E2Fa by lateral organ boundary proteins,” Plant Cell, vol. 23, no. 10. American Society of Plant Biologists, pp. 3671–3683, 2011. ista: Berckmans B, Vassileva V, Schmid S, Maes S, Parizot B, Naramoto S, Magyar Z, Lessa Alvim Kamei C, Koncz C, Bögre L, Persiau G, De Jaeger G, Friml J, Simon R, Beeckman T, De Veyldera L. 2011. Auxin Dependent cell cycle reactivation through transcriptional regulation of arabidopsis E2Fa by lateral organ boundary proteins. Plant Cell. 23(10), 3671–3683. mla: Berckmans, Barbara, et al. “Auxin Dependent Cell Cycle Reactivation through Transcriptional Regulation of Arabidopsis E2Fa by Lateral Organ Boundary Proteins.” Plant Cell, vol. 23, no. 10, American Society of Plant Biologists, 2011, pp. 3671–83, doi:10.1105/tpc.111.088377. short: B. Berckmans, V. Vassileva, S. Schmid, S. Maes, B. Parizot, S. Naramoto, Z. Magyar, C. Lessa Alvim Kamei, C. Koncz, L. Bögre, G. Persiau, G. De Jaeger, J. Friml, R. Simon, T. Beeckman, L. De Veyldera, Plant Cell 23 (2011) 3671–3683. date_created: 2018-12-11T12:01:24Z date_published: 2011-10-14T00:00:00Z date_updated: 2021-01-12T07:41:04Z day: '14' doi: 10.1105/tpc.111.088377 extern: 1 intvolume: ' 23' issue: '10' month: '10' page: 3671 - 3683 publication: Plant Cell publication_status: published publisher: American Society of Plant Biologists publist_id: '3598' quality_controlled: 0 status: public title: Auxin Dependent cell cycle reactivation through transcriptional regulation of arabidopsis E2Fa by lateral organ boundary proteins type: journal_article volume: 23 year: '2011' ... --- _id: '3103' abstract: - lang: eng text: Endocytosis in plants has an essential role not only for basic cellular functions but also for growth and development, hormonal signaling and communication with the environment including nutrient delivery, toxin avoidance, and pathogen defense. The major endocytic mechanism in plants depends on the coat protein clathrin. It starts by clathrin-coated vesicle formation at the plasma membrane, where specific cargoes are recognized and packaged for internalization. Recently, genetic, biochemical and advanced microscopy studies provided initial insights into mechanisms and roles of clathrin-mediated endocytosis in plants. Here we summarize the present state of knowledge and compare mechanisms of clathrin-mediated endocytosis in plants with animal and yeast paradigms as well as review plant-specific regulations and roles of this process. author: - first_name: Xu full_name: Chen, Xu id: 4E5ADCAA-F248-11E8-B48F-1D18A9856A87 last_name: Chen - first_name: Niloufer full_name: Irani, Niloufer last_name: Irani - first_name: Jirí full_name: Friml, Jirí id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: 'Chen X, Irani N, Friml J. Clathrin-mediated endocytosis: The gateway into plant cells. Current Opinion in Plant Biology. 2011;14(6):674-682. doi:10.1016/j.pbi.2011.08.006' apa: 'Chen, X., Irani, N., & Friml, J. (2011). Clathrin-mediated endocytosis: The gateway into plant cells. Current Opinion in Plant Biology. Elsevier. https://doi.org/10.1016/j.pbi.2011.08.006' chicago: 'Chen, Xu, Niloufer Irani, and Jiří Friml. “Clathrin-Mediated Endocytosis: The Gateway into Plant Cells.” Current Opinion in Plant Biology. Elsevier, 2011. https://doi.org/10.1016/j.pbi.2011.08.006.' ieee: 'X. Chen, N. Irani, and J. Friml, “Clathrin-mediated endocytosis: The gateway into plant cells,” Current Opinion in Plant Biology, vol. 14, no. 6. Elsevier, pp. 674–682, 2011.' ista: 'Chen X, Irani N, Friml J. 2011. Clathrin-mediated endocytosis: The gateway into plant cells. Current Opinion in Plant Biology. 14(6), 674–682.' mla: 'Chen, Xu, et al. “Clathrin-Mediated Endocytosis: The Gateway into Plant Cells.” Current Opinion in Plant Biology, vol. 14, no. 6, Elsevier, 2011, pp. 674–82, doi:10.1016/j.pbi.2011.08.006.' short: X. Chen, N. Irani, J. Friml, Current Opinion in Plant Biology 14 (2011) 674–682. date_created: 2018-12-11T12:01:24Z date_published: 2011-12-01T00:00:00Z date_updated: 2021-01-12T07:41:05Z day: '01' doi: 10.1016/j.pbi.2011.08.006 extern: '1' intvolume: ' 14' issue: '6' language: - iso: eng month: '12' oa_version: None page: 674 - 682 publication: Current Opinion in Plant Biology publication_status: published publisher: Elsevier publist_id: '3596' quality_controlled: '1' status: public title: 'Clathrin-mediated endocytosis: The gateway into plant cells' type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 14 year: '2011' ... --- _id: '3147' abstract: - lang: eng text: Cancer cell of origin is difficult to identify by analyzing cells within terminal stage tumors, whose identity could be concealed by the acquired plasticity. Thus, an ideal approach to identify the cell of origin is to analyze proliferative abnormalities in distinct lineages prior to malignancy. Here, we use mosaic analysis with double markers (MADM) in mice to model gliomagenesis by initiating concurrent p53/Nf1 mutations sporadically in neural stem cells (NSCs). Surprisingly, MADM-based lineage tracing revealed significant aberrant growth prior to malignancy only in oligodendrocyte precursor cells (OPCs), but not in any other NSC-derived lineages or NSCs themselves. Upon tumor formation, phenotypic and transcriptome analyses of tumor cells revealed salient OPC features. Finally, introducing the same p53/Nf1 mutations directly into OPCs consistently led to gliomagenesis. Our findings suggest OPCs as the cell of origin in this model, even when initial mutations occur in NSCs, and highlight the importance of analyzing premalignant stages to identify the cancer cell of origin. author: - first_name: Chong full_name: Liu, Chong last_name: Liu - first_name: Jonathan full_name: Sage, Jonathan C last_name: Sage - first_name: Michael full_name: Miller, Michael R last_name: Miller - first_name: Roel full_name: Verhaak, Roel G last_name: Verhaak - first_name: Simon full_name: Simon Hippenmeyer id: 37B36620-F248-11E8-B48F-1D18A9856A87 last_name: Hippenmeyer orcid: 0000-0003-2279-1061 - first_name: Hannes full_name: Vogel, Hannes last_name: Vogel - first_name: Oded full_name: Foreman, Oded last_name: Foreman - first_name: Roderick full_name: Bronson, Roderick T last_name: Bronson - first_name: Akiko full_name: Nishiyama, Akiko last_name: Nishiyama - first_name: Liqun full_name: Luo, Liqun last_name: Luo - first_name: Hui full_name: Zong, Hui last_name: Zong citation: ama: Liu C, Sage J, Miller M, et al. Mosaic analysis with double markers reveals tumor cell of origin in glioma. Cell. 2011;146(2):209-221. doi:10.1016/j.cell.2011.06.014 apa: Liu, C., Sage, J., Miller, M., Verhaak, R., Hippenmeyer, S., Vogel, H., … Zong, H. (2011). Mosaic analysis with double markers reveals tumor cell of origin in glioma. Cell. Cell Press. https://doi.org/10.1016/j.cell.2011.06.014 chicago: Liu, Chong, Jonathan Sage, Michael Miller, Roel Verhaak, Simon Hippenmeyer, Hannes Vogel, Oded Foreman, et al. “Mosaic Analysis with Double Markers Reveals Tumor Cell of Origin in Glioma.” Cell. Cell Press, 2011. https://doi.org/10.1016/j.cell.2011.06.014. ieee: C. Liu et al., “Mosaic analysis with double markers reveals tumor cell of origin in glioma,” Cell, vol. 146, no. 2. Cell Press, pp. 209–221, 2011. ista: Liu C, Sage J, Miller M, Verhaak R, Hippenmeyer S, Vogel H, Foreman O, Bronson R, Nishiyama A, Luo L, Zong H. 2011. Mosaic analysis with double markers reveals tumor cell of origin in glioma. Cell. 146(2), 209–221. mla: Liu, Chong, et al. “Mosaic Analysis with Double Markers Reveals Tumor Cell of Origin in Glioma.” Cell, vol. 146, no. 2, Cell Press, 2011, pp. 209–21, doi:10.1016/j.cell.2011.06.014. short: C. Liu, J. Sage, M. Miller, R. Verhaak, S. Hippenmeyer, H. Vogel, O. Foreman, R. Bronson, A. Nishiyama, L. Luo, H. Zong, Cell 146 (2011) 209–221. date_created: 2018-12-11T12:01:40Z date_published: 2011-07-22T00:00:00Z date_updated: 2021-01-12T07:41:23Z day: '22' doi: 10.1016/j.cell.2011.06.014 extern: 1 intvolume: ' 146' issue: '2' month: '07' page: 209 - 221 publication: Cell publication_status: published publisher: Cell Press publist_id: '3548' quality_controlled: 0 status: public title: Mosaic analysis with double markers reveals tumor cell of origin in glioma type: journal_article volume: 146 year: '2011' ...