[{"article_type":"original","date_updated":"2021-01-12T08:19:17Z","extern":"1","publication_status":"published","type":"journal_article","date_published":"2018-06-01T00:00:00Z","language":[{"iso":"eng"}],"date_created":"2020-09-18T10:05:18Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","quality_controlled":"1","intvolume":"       293","citation":{"short":"K. Weinhäupl, M. Brennich, U. Kazmaier, J. Lelievre, L. Ballell, A. Goldberg, P. Schanda, H. Fraga, Journal of Biological Chemistry 293 (2018) 8379–8393.","ieee":"K. Weinhäupl <i>et al.</i>, “The antibiotic cyclomarin blocks arginine-phosphate–induced millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis,” <i>Journal of Biological Chemistry</i>, vol. 293, no. 22. American Society for Biochemistry &#38; Molecular Biology, pp. 8379–8393, 2018.","apa":"Weinhäupl, K., Brennich, M., Kazmaier, U., Lelievre, J., Ballell, L., Goldberg, A., … Fraga, H. (2018). The antibiotic cyclomarin blocks arginine-phosphate–induced millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis. <i>Journal of Biological Chemistry</i>. American Society for Biochemistry &#38; Molecular Biology. <a href=\"https://doi.org/10.1074/jbc.ra118.002251\">https://doi.org/10.1074/jbc.ra118.002251</a>","mla":"Weinhäupl, Katharina, et al. “The Antibiotic Cyclomarin Blocks Arginine-Phosphate–Induced Millisecond Dynamics in the N-Terminal Domain of ClpC1 from Mycobacterium Tuberculosis.” <i>Journal of Biological Chemistry</i>, vol. 293, no. 22, American Society for Biochemistry &#38; Molecular Biology, 2018, pp. 8379–93, doi:<a href=\"https://doi.org/10.1074/jbc.ra118.002251\">10.1074/jbc.ra118.002251</a>.","ista":"Weinhäupl K, Brennich M, Kazmaier U, Lelievre J, Ballell L, Goldberg A, Schanda P, Fraga H. 2018. The antibiotic cyclomarin blocks arginine-phosphate–induced millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis. Journal of Biological Chemistry. 293(22), 8379–8393.","ama":"Weinhäupl K, Brennich M, Kazmaier U, et al. The antibiotic cyclomarin blocks arginine-phosphate–induced millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis. <i>Journal of Biological Chemistry</i>. 2018;293(22):8379-8393. doi:<a href=\"https://doi.org/10.1074/jbc.ra118.002251\">10.1074/jbc.ra118.002251</a>","chicago":"Weinhäupl, Katharina, Martha Brennich, Uli Kazmaier, Joel Lelievre, Lluis Ballell, Alfred Goldberg, Paul Schanda, and Hugo Fraga. “The Antibiotic Cyclomarin Blocks Arginine-Phosphate–Induced Millisecond Dynamics in the N-Terminal Domain of ClpC1 from Mycobacterium Tuberculosis.” <i>Journal of Biological Chemistry</i>. American Society for Biochemistry &#38; Molecular Biology, 2018. <a href=\"https://doi.org/10.1074/jbc.ra118.002251\">https://doi.org/10.1074/jbc.ra118.002251</a>."},"page":"8379-8393","issue":"22","volume":293,"fulldoi":"https://doi.org/10.1074/jbc.ra118.002251","doi":"10.1074/jbc.ra118.002251","publisher":"American Society for Biochemistry & Molecular Biology","publication_identifier":{"issn":["0021-9258","1083-351X"]},"day":"01","publication":"Journal of Biological Chemistry","status":"public","month":"06","_id":"8440","year":"2018","article_processing_charge":"No","title":"The antibiotic cyclomarin blocks arginine-phosphate–induced millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis","keyword":["Cell Biology","Biochemistry","Molecular Biology"],"abstract":[{"text":"Mycobacterium tuberculosis can remain dormant in the host, an ability that explains the failure of many current tuberculosis treatments. Recently, the natural products cyclomarin, ecumicin, and lassomycin have been shown to efficiently kill Mycobacterium tuberculosis persisters. Their target is the N-terminal domain of the hexameric AAA+ ATPase ClpC1, which recognizes, unfolds, and translocates protein substrates, such as proteins containing phosphorylated arginine residues, to the ClpP1P2 protease for degradation. Surprisingly, these antibiotics do not inhibit ClpC1 ATPase activity, and how they cause cell death is still unclear. Here, using NMR and small-angle X-ray scattering, we demonstrate that arginine-phosphate binding to the ClpC1 N-terminal domain induces millisecond dynamics. We show that these dynamics are caused by conformational changes and do not result from unfolding or oligomerization of this domain. Cyclomarin binding to this domain specifically blocked these N-terminal dynamics. On the basis of these results, we propose a mechanism of action involving cyclomarin-induced restriction of ClpC1 dynamics, which modulates the chaperone enzymatic activity leading eventually to cell death.","lang":"eng"}],"author":[{"last_name":"Weinhäupl","first_name":"Katharina","full_name":"Weinhäupl, Katharina"},{"full_name":"Brennich, Martha","first_name":"Martha","last_name":"Brennich"},{"last_name":"Kazmaier","full_name":"Kazmaier, Uli","first_name":"Uli"},{"last_name":"Lelievre","first_name":"Joel","full_name":"Lelievre, Joel"},{"last_name":"Ballell","first_name":"Lluis","full_name":"Ballell, Lluis"},{"first_name":"Alfred","full_name":"Goldberg, Alfred","last_name":"Goldberg"},{"orcid":"0000-0002-9350-7606","first_name":"Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","last_name":"Schanda"},{"first_name":"Hugo","full_name":"Fraga, Hugo","last_name":"Fraga"}]},{"extern":"1","publication_status":"published","day":"30","date_updated":"2021-01-12T08:19:17Z","publication_identifier":{"issn":["0925-2738","1573-5001"]},"doi":"10.1007/s10858-018-0191-4","article_type":"original","publisher":"Springer Nature","fulldoi":"https://doi.org/10.1007/s10858-018-0191-4","intvolume":"        71","quality_controlled":"1","title":"Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments: The model case of protein overall-rocking in crystals","article_processing_charge":"No","language":[{"iso":"eng"}],"date_created":"2020-09-18T10:05:28Z","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8441","month":"05","status":"public","date_published":"2018-05-30T00:00:00Z","year":"2018","publication":"Journal of Biomolecular NMR","type":"journal_article","issue":"1","page":"53-67","citation":{"short":"A. Krushelnitsky, D. Gauto, D.C. Rodriguez Camargo, P. Schanda, K. Saalwächter, Journal of Biomolecular NMR 71 (2018) 53–67.","ieee":"A. Krushelnitsky, D. Gauto, D. C. Rodriguez Camargo, P. Schanda, and K. Saalwächter, “Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments: The model case of protein overall-rocking in crystals,” <i>Journal of Biomolecular NMR</i>, vol. 71, no. 1. Springer Nature, pp. 53–67, 2018.","apa":"Krushelnitsky, A., Gauto, D., Rodriguez Camargo, D. C., Schanda, P., &#38; Saalwächter, K. (2018). Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments: The model case of protein overall-rocking in crystals. <i>Journal of Biomolecular NMR</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10858-018-0191-4\">https://doi.org/10.1007/s10858-018-0191-4</a>","mla":"Krushelnitsky, Alexey, et al. “Microsecond Motions Probed by Near-Rotary-Resonance R1ρ 15N MAS NMR Experiments: The Model Case of Protein Overall-Rocking in Crystals.” <i>Journal of Biomolecular NMR</i>, vol. 71, no. 1, Springer Nature, 2018, pp. 53–67, doi:<a href=\"https://doi.org/10.1007/s10858-018-0191-4\">10.1007/s10858-018-0191-4</a>.","ama":"Krushelnitsky A, Gauto D, Rodriguez Camargo DC, Schanda P, Saalwächter K. Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments: The model case of protein overall-rocking in crystals. <i>Journal of Biomolecular NMR</i>. 2018;71(1):53-67. doi:<a href=\"https://doi.org/10.1007/s10858-018-0191-4\">10.1007/s10858-018-0191-4</a>","ista":"Krushelnitsky A, Gauto D, Rodriguez Camargo DC, Schanda P, Saalwächter K. 2018. Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments: The model case of protein overall-rocking in crystals. Journal of Biomolecular NMR. 71(1), 53–67.","chicago":"Krushelnitsky, Alexey, Diego Gauto, Diana C. Rodriguez Camargo, Paul Schanda, and Kay Saalwächter. “Microsecond Motions Probed by Near-Rotary-Resonance R1ρ 15N MAS NMR Experiments: The Model Case of Protein Overall-Rocking in Crystals.” <i>Journal of Biomolecular NMR</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1007/s10858-018-0191-4\">https://doi.org/10.1007/s10858-018-0191-4</a>."},"author":[{"last_name":"Krushelnitsky","first_name":"Alexey","full_name":"Krushelnitsky, Alexey"},{"last_name":"Gauto","first_name":"Diego","full_name":"Gauto, Diego"},{"full_name":"Rodriguez Camargo, Diana C.","first_name":"Diana C.","last_name":"Rodriguez Camargo"},{"last_name":"Schanda","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","first_name":"Paul","orcid":"0000-0002-9350-7606"},{"first_name":"Kay","full_name":"Saalwächter, Kay","last_name":"Saalwächter"}],"volume":71,"abstract":[{"text":"Solid-state near-rotary-resonance measurements of the spin–lattice relaxation rate in the rotating frame (R1ρ) is a powerful NMR technique for studying molecular dynamics in the microsecond time scale. The small difference between the spin-lock (SL) and magic-angle-spinning (MAS) frequencies allows sampling very slow motions, at the same time it brings up some methodological challenges. In this work, several issues affecting correct measurements and analysis of 15N R1ρ data are considered in detail. Among them are signal amplitude as a function of the difference between SL and MAS frequencies, “dead time” in the initial part of the relaxation decay caused by transient spin-dynamic oscillations, measurements under HORROR condition and proper treatment of the multi-exponential relaxation decays. The multiple 15N R1ρ measurements at different SL fields and temperatures have been conducted in 1D mode (i.e. without site-specific resolution) for a set of four different microcrystalline protein samples (GB1, SH3, MPD-ubiquitin and cubic-PEG-ubiquitin) to study the overall protein rocking in a crystal. While the amplitude of this motion varies very significantly, its correlation time for all four sample is practically the same, 30–50 μs. The amplitude of the rocking motion correlates with the packing density of a protein crystal. It has been suggested that the rocking motion is not diffusive but likely a jump-like dynamic process.","lang":"eng"}]},{"article_processing_charge":"No","title":"Perturbations of native membrane protein structure in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical studies","publication":"Chemical Reviews","_id":"8442","status":"public","month":"02","year":"2018","publication_identifier":{"issn":["0009-2665","1520-6890"]},"day":"28","fulldoi":"https://doi.org/10.1021/acs.chemrev.7b00570","doi":"10.1021/acs.chemrev.7b00570","publisher":"American Chemical Society","author":[{"first_name":"Christophe","full_name":"Chipot, Christophe","last_name":"Chipot"},{"last_name":"Dehez","full_name":"Dehez, François","first_name":"François"},{"full_name":"Schnell, Jason R.","first_name":"Jason R.","last_name":"Schnell"},{"full_name":"Zitzmann, Nicole","first_name":"Nicole","last_name":"Zitzmann"},{"first_name":"Eva","full_name":"Pebay-Peyroula, Eva","last_name":"Pebay-Peyroula"},{"last_name":"Catoire","full_name":"Catoire, Laurent J.","first_name":"Laurent J."},{"last_name":"Miroux","first_name":"Bruno","full_name":"Miroux, Bruno"},{"first_name":"Edmund R. S.","full_name":"Kunji, Edmund R. S.","last_name":"Kunji"},{"full_name":"Veglia, Gianluigi","first_name":"Gianluigi","last_name":"Veglia"},{"last_name":"Cross","full_name":"Cross, Timothy A.","first_name":"Timothy A."},{"full_name":"Schanda, Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606","first_name":"Paul","last_name":"Schanda"}],"abstract":[{"text":"Membrane proteins perform a host of vital cellular functions. Deciphering the molecular mechanisms whereby they fulfill these functions requires detailed biophysical and structural investigations. Detergents have proven pivotal to extract the protein from its native surroundings. Yet, they provide a milieu that departs significantly from that of the biological membrane, to the extent that the structure, the dynamics, and the interactions of membrane proteins in detergents may considerably vary, as compared to the native environment. Understanding the impact of detergents on membrane proteins is, therefore, crucial to assess the biological relevance of results obtained in detergents. Here, we review the strengths and weaknesses of alkyl phosphocholines (or foscholines), the most widely used detergent in solution-NMR studies of membrane proteins. While this class of detergents is often successful for membrane protein solubilization, a growing list of examples points to destabilizing and denaturing properties, in particular for α-helical membrane proteins. Our comprehensive analysis stresses the importance of stringent controls when working with this class of detergents and when analyzing the structure and dynamics of membrane proteins in alkyl phosphocholine detergents.","lang":"eng"}],"keyword":["General Chemistry"],"language":[{"iso":"eng"}],"date_created":"2020-09-18T10:05:35Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","quality_controlled":"1","intvolume":"       118","type":"journal_article","date_published":"2018-02-28T00:00:00Z","date_updated":"2021-01-12T08:19:18Z","publication_status":"published","extern":"1","article_type":"original","volume":118,"issue":"7","citation":{"chicago":"Chipot, Christophe, François Dehez, Jason R. Schnell, Nicole Zitzmann, Eva Pebay-Peyroula, Laurent J. Catoire, Bruno Miroux, et al. “Perturbations of Native Membrane Protein Structure in Alkyl Phosphocholine Detergents: A Critical Assessment of NMR and Biophysical Studies.” <i>Chemical Reviews</i>. American Chemical Society, 2018. <a href=\"https://doi.org/10.1021/acs.chemrev.7b00570\">https://doi.org/10.1021/acs.chemrev.7b00570</a>.","short":"C. Chipot, F. Dehez, J.R. Schnell, N. Zitzmann, E. Pebay-Peyroula, L.J. Catoire, B. Miroux, E.R.S. Kunji, G. Veglia, T.A. Cross, P. Schanda, Chemical Reviews 118 (2018) 3559–3607.","ieee":"C. Chipot <i>et al.</i>, “Perturbations of native membrane protein structure in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical studies,” <i>Chemical Reviews</i>, vol. 118, no. 7. American Chemical Society, pp. 3559–3607, 2018.","mla":"Chipot, Christophe, et al. “Perturbations of Native Membrane Protein Structure in Alkyl Phosphocholine Detergents: A Critical Assessment of NMR and Biophysical Studies.” <i>Chemical Reviews</i>, vol. 118, no. 7, American Chemical Society, 2018, pp. 3559–607, doi:<a href=\"https://doi.org/10.1021/acs.chemrev.7b00570\">10.1021/acs.chemrev.7b00570</a>.","apa":"Chipot, C., Dehez, F., Schnell, J. R., Zitzmann, N., Pebay-Peyroula, E., Catoire, L. J., … Schanda, P. (2018). Perturbations of native membrane protein structure in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical studies. <i>Chemical Reviews</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.chemrev.7b00570\">https://doi.org/10.1021/acs.chemrev.7b00570</a>","ista":"Chipot C, Dehez F, Schnell JR, Zitzmann N, Pebay-Peyroula E, Catoire LJ, Miroux B, Kunji ERS, Veglia G, Cross TA, Schanda P. 2018. Perturbations of native membrane protein structure in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical studies. Chemical Reviews. 118(7), 3559–3607.","ama":"Chipot C, Dehez F, Schnell JR, et al. Perturbations of native membrane protein structure in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical studies. <i>Chemical Reviews</i>. 2018;118(7):3559-3607. doi:<a href=\"https://doi.org/10.1021/acs.chemrev.7b00570\">10.1021/acs.chemrev.7b00570</a>"},"page":"3559-3607"},{"publisher":"American Chemical Society","doi":"10.1021/acs.jpclett.8b00269","fulldoi":"https://doi.org/10.1021/acs.jpclett.8b00269","day":"03","publication_identifier":{"issn":["1948-7185"]},"year":"2018","month":"02","status":"public","_id":"8443","publication":"The Journal of Physical Chemistry Letters","title":"How detergent impacts membrane proteins: Atomic-level views of mitochondrial carriers in dodecylphosphocholine","article_processing_charge":"No","keyword":["General Materials Science"],"abstract":[{"lang":"eng","text":"Characterizing the structure of membrane proteins (MPs) generally requires extraction from their native environment, most commonly with detergents. Yet, the physicochemical properties of detergent micelles and lipid bilayers differ markedly and could alter the structural organization of MPs, albeit without general rules. Dodecylphosphocholine (DPC) is the most widely used detergent for MP structure determination by NMR, but the physiological relevance of several prominent structures has been questioned, though indirectly, by other biophysical techniques, e.g., functional/thermostability assay (TSA) and molecular dynamics (MD) simulations. Here, we resolve unambiguously this controversy by probing the functional relevance of three different mitochondrial carriers (MCs) in DPC at the atomic level, using an exhaustive set of solution-NMR experiments, complemented by functional/TSA and MD data. Our results provide atomic-level insight into the structure, substrate interaction and dynamics of the detergent–membrane protein complexes and demonstrates cogently that, while high-resolution NMR signals can be obtained for MCs in DPC, they systematically correspond to nonfunctional states."}],"author":[{"last_name":"Kurauskas","full_name":"Kurauskas, Vilius","first_name":"Vilius"},{"last_name":"Hessel","full_name":"Hessel, Audrey","first_name":"Audrey"},{"first_name":"Peixiang","full_name":"Ma, Peixiang","last_name":"Ma"},{"first_name":"Paola","full_name":"Lunetti, Paola","last_name":"Lunetti"},{"last_name":"Weinhäupl","full_name":"Weinhäupl, Katharina","first_name":"Katharina"},{"last_name":"Imbert","full_name":"Imbert, Lionel","first_name":"Lionel"},{"full_name":"Brutscher, Bernhard","first_name":"Bernhard","last_name":"Brutscher"},{"full_name":"King, Martin S.","first_name":"Martin S.","last_name":"King"},{"first_name":"Rémy","full_name":"Sounier, Rémy","last_name":"Sounier"},{"last_name":"Dolce","first_name":"Vincenza","full_name":"Dolce, Vincenza"},{"full_name":"Kunji, Edmund R. S.","first_name":"Edmund R. S.","last_name":"Kunji"},{"last_name":"Capobianco","full_name":"Capobianco, Loredana","first_name":"Loredana"},{"last_name":"Chipot","full_name":"Chipot, Christophe","first_name":"Christophe"},{"last_name":"Dehez","first_name":"François","full_name":"Dehez, François"},{"last_name":"Bersch","first_name":"Beate","full_name":"Bersch, Beate"},{"last_name":"Schanda","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","first_name":"Paul","orcid":"0000-0002-9350-7606"}],"article_type":"original","extern":"1","publication_status":"published","date_updated":"2021-01-12T08:19:18Z","date_published":"2018-02-03T00:00:00Z","type":"journal_article","quality_controlled":"1","intvolume":"         9","date_created":"2020-09-18T10:05:45Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","language":[{"iso":"eng"}],"page":"933-938","citation":{"apa":"Kurauskas, V., Hessel, A., Ma, P., Lunetti, P., Weinhäupl, K., Imbert, L., … Schanda, P. (2018). How detergent impacts membrane proteins: Atomic-level views of mitochondrial carriers in dodecylphosphocholine. <i>The Journal of Physical Chemistry Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.jpclett.8b00269\">https://doi.org/10.1021/acs.jpclett.8b00269</a>","mla":"Kurauskas, Vilius, et al. “How Detergent Impacts Membrane Proteins: Atomic-Level Views of Mitochondrial Carriers in Dodecylphosphocholine.” <i>The Journal of Physical Chemistry Letters</i>, vol. 9, no. 5, American Chemical Society, 2018, pp. 933–38, doi:<a href=\"https://doi.org/10.1021/acs.jpclett.8b00269\">10.1021/acs.jpclett.8b00269</a>.","ista":"Kurauskas V, Hessel A, Ma P, Lunetti P, Weinhäupl K, Imbert L, Brutscher B, King MS, Sounier R, Dolce V, Kunji ERS, Capobianco L, Chipot C, Dehez F, Bersch B, Schanda P. 2018. How detergent impacts membrane proteins: Atomic-level views of mitochondrial carriers in dodecylphosphocholine. The Journal of Physical Chemistry Letters. 9(5), 933–938.","ama":"Kurauskas V, Hessel A, Ma P, et al. How detergent impacts membrane proteins: Atomic-level views of mitochondrial carriers in dodecylphosphocholine. <i>The Journal of Physical Chemistry Letters</i>. 2018;9(5):933-938. doi:<a href=\"https://doi.org/10.1021/acs.jpclett.8b00269\">10.1021/acs.jpclett.8b00269</a>","short":"V. Kurauskas, A. Hessel, P. Ma, P. Lunetti, K. Weinhäupl, L. Imbert, B. Brutscher, M.S. King, R. Sounier, V. Dolce, E.R.S. Kunji, L. Capobianco, C. Chipot, F. Dehez, B. Bersch, P. Schanda, The Journal of Physical Chemistry Letters 9 (2018) 933–938.","ieee":"V. Kurauskas <i>et al.</i>, “How detergent impacts membrane proteins: Atomic-level views of mitochondrial carriers in dodecylphosphocholine,” <i>The Journal of Physical Chemistry Letters</i>, vol. 9, no. 5. American Chemical Society, pp. 933–938, 2018.","chicago":"Kurauskas, Vilius, Audrey Hessel, Peixiang Ma, Paola Lunetti, Katharina Weinhäupl, Lionel Imbert, Bernhard Brutscher, et al. “How Detergent Impacts Membrane Proteins: Atomic-Level Views of Mitochondrial Carriers in Dodecylphosphocholine.” <i>The Journal of Physical Chemistry Letters</i>. American Chemical Society, 2018. <a href=\"https://doi.org/10.1021/acs.jpclett.8b00269\">https://doi.org/10.1021/acs.jpclett.8b00269</a>."},"issue":"5","volume":9},{"abstract":[{"lang":"eng","text":"Concurrent accesses to shared data structures must be synchronized to avoid data races. Coarse-grained synchronization, which locks the entire data structure, is easy to implement but does not scale. Fine-grained synchronization can scale well, but can be hard to reason about. Hand-over-hand locking, in which operations are pipelined as they traverse the data structure, combines fine-grained synchronization with ease of use. However, the traditional implementation suffers from inherent overheads. This paper introduces snapshot-based synchronization (SBS), a novel hand-over-hand locking mechanism. SBS decouples the synchronization state from the data, significantly improving cache utilization. Further, it relies on guarantees provided by pipelining to minimize synchronization that requires cross-thread communication. Snapshot-based synchronization thus scales much better than traditional hand-over-hand locking, while maintaining the same ease of use."}],"author":[{"last_name":"Gilad","first_name":"Eran","full_name":"Gilad, Eran"},{"last_name":"Brown","id":"3569F0A0-F248-11E8-B48F-1D18A9856A87","full_name":"Brown, Trevor A","first_name":"Trevor A"},{"first_name":"Mark","full_name":"Oskin, Mark","last_name":"Oskin"},{"full_name":"Etsion, Yoav","first_name":"Yoav","last_name":"Etsion"}],"isi":1,"alternative_title":["LNCS"],"conference":{"end_date":"2018-08-31","name":"Euro-Par: European Conference on Parallel Processing","location":"Turin, Italy","start_date":"2018-08-27"},"_id":"85","status":"public","month":"08","year":"2018","article_processing_charge":"No","oa":1,"scopus_import":"1","title":"Snapshot based synchronization: A fast replacement for Hand-over-Hand locking","fulldoi":"https://doi.org/10.1007/978-3-319-96983-1_33","ddc":["000"],"file_date_updated":"2020-07-14T12:48:14Z","doi":"10.1007/978-3-319-96983-1_33","publisher":"Springer","publication_identifier":{"issn":["0302-9743"]},"day":"01","publist_id":"7969","acknowledgement":"Trevor Brown was supported in part by the ISF (grants 2005/17 & 1749/14) and by a NSERC post-doctoral fellowship.","volume":11014,"project":[{"name":"NSERC Postdoctoral fellowship","_id":"26450934-B435-11E9-9278-68D0E5697425"}],"page":"465 - 479","citation":{"chicago":"Gilad, Eran, Trevor A Brown, Mark Oskin, and Yoav Etsion. “Snapshot Based Synchronization: A Fast Replacement for Hand-over-Hand Locking,” 11014:465–79. Springer, 2018. <a href=\"https://doi.org/10.1007/978-3-319-96983-1_33\">https://doi.org/10.1007/978-3-319-96983-1_33</a>.","ieee":"E. Gilad, T. A. Brown, M. Oskin, and Y. Etsion, “Snapshot based synchronization: A fast replacement for Hand-over-Hand locking,” presented at the Euro-Par: European Conference on Parallel Processing, Turin, Italy, 2018, vol. 11014, pp. 465–479.","short":"E. Gilad, T.A. Brown, M. Oskin, Y. Etsion, in:, Springer, 2018, pp. 465–479.","ista":"Gilad E, Brown TA, Oskin M, Etsion Y. 2018. Snapshot based synchronization: A fast replacement for Hand-over-Hand locking. Euro-Par: European Conference on Parallel Processing, LNCS, vol. 11014, 465–479.","ama":"Gilad E, Brown TA, Oskin M, Etsion Y. Snapshot based synchronization: A fast replacement for Hand-over-Hand locking. In: Vol 11014. Springer; 2018:465-479. doi:<a href=\"https://doi.org/10.1007/978-3-319-96983-1_33\">10.1007/978-3-319-96983-1_33</a>","apa":"Gilad, E., Brown, T. A., Oskin, M., &#38; Etsion, Y. (2018). Snapshot based synchronization: A fast replacement for Hand-over-Hand locking (Vol. 11014, pp. 465–479). Presented at the Euro-Par: European Conference on Parallel Processing, Turin, Italy: Springer. <a href=\"https://doi.org/10.1007/978-3-319-96983-1_33\">https://doi.org/10.1007/978-3-319-96983-1_33</a>","mla":"Gilad, Eran, et al. <i>Snapshot Based Synchronization: A Fast Replacement for Hand-over-Hand Locking</i>. Vol. 11014, Springer, 2018, pp. 465–79, doi:<a href=\"https://doi.org/10.1007/978-3-319-96983-1_33\">10.1007/978-3-319-96983-1_33</a>."},"external_id":{"isi":["000851042300031"]},"type":"conference","has_accepted_license":"1","date_published":"2018-08-01T00:00:00Z","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:44:33Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","oa_version":"Preprint","intvolume":"     11014","quality_controlled":"1","file":[{"date_created":"2019-02-12T07:40:40Z","creator":"dernst","file_size":665372,"access_level":"open_access","date_updated":"2020-07-14T12:48:14Z","relation":"main_file","checksum":"13a3f250be8878405e791b53c19722ad","file_id":"5954","file_name":"2018_Brown.pdf","content_type":"application/pdf"}],"date_updated":"2026-04-16T09:53:41Z","publication_status":"published","department":[{"_id":"DaAl"}]},{"volume":10760,"acknowledgement":"This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23, S11407-N23 (RiSE/SHiNE) and Z211-N23 (Wittgenstein Award), ERC Start grant (279307: Graph Games), Vienna Science and Technology Fund (WWTF) through project ICT15-003 and by the National Science Centre (NCN), Poland under grant 2014/15/D/ST6/04543.","project":[{"call_identifier":"FWF","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407","call_identifier":"FWF"},{"call_identifier":"FWF","_id":"25F42A32-B435-11E9-9278-68D0E5697425","name":"Formal methods for the design and analysis of complex systems","grant_number":"Z211"},{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425"},{"_id":"25892FC0-B435-11E9-9278-68D0E5697425","name":"Efficient Algorithms for Computer Aided Verification","grant_number":"ICT15-003"}],"publist_id":"7968","ec_funded":1,"page":"143 - 161","citation":{"ieee":"K. Chatterjee, T. A. Henzinger, and J. Otop, “Computing average response time,” in <i>Principles of Modeling</i>, vol. 10760, M. Lohstroh, P. Derler, and M. Sirjani, Eds. Springer, 2018, pp. 143–161.","short":"K. Chatterjee, T.A. Henzinger, J. Otop, in:, M. Lohstroh, P. Derler, M. Sirjani (Eds.), Principles of Modeling, Springer, 2018, pp. 143–161.","ista":"Chatterjee K, Henzinger TA, Otop J. 2018.Computing average response time. In: Principles of Modeling. LNCS, vol. 10760, 143–161.","ama":"Chatterjee K, Henzinger TA, Otop J. Computing average response time. In: Lohstroh M, Derler P, Sirjani M, eds. <i>Principles of Modeling</i>. Vol 10760. Springer; 2018:143-161. doi:<a href=\"https://doi.org/10.1007/978-3-319-95246-8_9\">10.1007/978-3-319-95246-8_9</a>","mla":"Chatterjee, Krishnendu, et al. “Computing Average Response Time.” <i>Principles of Modeling</i>, edited by Marten Lohstroh et al., vol. 10760, Springer, 2018, pp. 143–61, doi:<a href=\"https://doi.org/10.1007/978-3-319-95246-8_9\">10.1007/978-3-319-95246-8_9</a>.","apa":"Chatterjee, K., Henzinger, T. A., &#38; Otop, J. (2018). Computing average response time. In M. Lohstroh, P. Derler, &#38; M. Sirjani (Eds.), <i>Principles of Modeling</i> (Vol. 10760, pp. 143–161). Springer. <a href=\"https://doi.org/10.1007/978-3-319-95246-8_9\">https://doi.org/10.1007/978-3-319-95246-8_9</a>","chicago":"Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Computing Average Response Time.” In <i>Principles of Modeling</i>, edited by Marten Lohstroh, Patricia Derler, and Marjan Sirjani, 10760:143–61. Springer, 2018. <a href=\"https://doi.org/10.1007/978-3-319-95246-8_9\">https://doi.org/10.1007/978-3-319-95246-8_9</a>."},"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:44:33Z","oa_version":"Submitted Version","quality_controlled":"1","intvolume":"     10760","type":"book_chapter","has_accepted_license":"1","date_published":"2018-07-20T00:00:00Z","date_updated":"2025-04-15T06:26:15Z","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"publication_status":"published","file":[{"access_level":"open_access","date_created":"2019-11-19T08:22:18Z","creator":"dernst","file_size":516307,"file_name":"2018_PrinciplesModeling_Chatterjee.pdf","content_type":"application/pdf","date_updated":"2020-07-14T12:48:14Z","checksum":"9995c6ce6957333baf616fc4f20be597","relation":"main_file","file_id":"7053"}],"editor":[{"full_name":"Lohstroh, Marten","first_name":"Marten","last_name":"Lohstroh"},{"last_name":"Derler","first_name":"Patricia","full_name":"Derler, Patricia"},{"full_name":"Sirjani, Marjan","first_name":"Marjan","last_name":"Sirjani"}],"author":[{"orcid":"0000-0002-4561-241X","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A","orcid":"0000−0002−2985−7724","first_name":"Thomas A","last_name":"Henzinger"},{"first_name":"Jan","full_name":"Otop, Jan","id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87","last_name":"Otop"}],"abstract":[{"text":"Responsiveness—the requirement that every request to a system be eventually handled—is one of the fundamental liveness properties of a reactive system. Average response time is a quantitative measure for the responsiveness requirement used commonly in performance evaluation. We show how average response time can be computed on state-transition graphs, on Markov chains, and on game graphs. In all three cases, we give polynomial-time algorithms.","lang":"eng"}],"oa":1,"scopus_import":1,"title":"Computing average response time","publication":"Principles of Modeling","alternative_title":["LNCS"],"_id":"86","month":"07","status":"public","year":"2018","day":"20","fulldoi":"https://doi.org/10.1007/978-3-319-95246-8_9","ddc":["000"],"file_date_updated":"2020-07-14T12:48:14Z","doi":"10.1007/978-3-319-95246-8_9","publisher":"Springer"},{"abstract":[{"text":"The reversibly switchable fluorescent proteins (RSFPs) commonly used for RESOLFT nanoscopy have been developed from fluorescent proteins of the GFP superfamily. These proteins are bright, but exhibit several drawbacks such as relatively large size, oxygen-dependence, sensitivity to low pH, and limited switching speed. Therefore, RSFPs from other origins with improved properties need to be explored. Here, we report the development of two RSFPs based on the LOV domain of the photoreceptor protein YtvA from Bacillus subtilis. LOV domains obtain their fluorescence by association with the abundant cellular cofactor flavin mononucleotide (FMN). Under illumination with blue and ultraviolet light, they undergo a photocycle, making these proteins inherently photoswitchable. Our first improved variant, rsLOV1, can be used for RESOLFT imaging, whereas rsLOV2 proved useful for STED nanoscopy of living cells with a resolution of down to 50 nm. In addition to their smaller size compared to GFP-related proteins (17 kDa instead of 27 kDa) and their usability at low pH, rsLOV1 and rsLOV2 exhibit faster switching kinetics, switching on and off 3 times faster than rsEGFP2, the fastest-switching RSFP reported to date. Therefore, LOV-domain-based RSFPs have potential for applications where the switching speed of GFP-based proteins is limiting.","lang":"eng"}],"author":[{"last_name":"Gregor","full_name":"Gregor, Carola","first_name":"Carola"},{"first_name":"Sven C.","full_name":"Sidenstein, Sven C.","last_name":"Sidenstein"},{"last_name":"Andresen","full_name":"Andresen, Martin","first_name":"Martin"},{"last_name":"Sahl","full_name":"Sahl, Steffen J.","first_name":"Steffen J."},{"first_name":"Johann G","orcid":"0000-0001-8559-3973","full_name":"Danzl, Johann G","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","last_name":"Danzl"},{"last_name":"Hell","full_name":"Hell, Stefan W.","first_name":"Stefan W."}],"pmid":1,"article_number":"2724","isi":1,"keyword":["Multidisciplinary"],"year":"2018","_id":"8618","month":"02","status":"public","publication":"Scientific Reports","title":"Novel reversibly switchable fluorescent proteins for RESOLFT and STED nanoscopy engineered from the bacterial photoreceptor YtvA","scopus_import":"1","oa":1,"article_processing_charge":"No","publisher":"Springer Nature","file_date_updated":"2020-10-06T16:35:16Z","doi":"10.1038/s41598-018-19947-1","ddc":["570"],"fulldoi":"https://doi.org/10.1038/s41598-018-19947-1","license":"https://creativecommons.org/licenses/by/4.0/","day":"09","publication_identifier":{"issn":["2045-2322"]},"volume":8,"external_id":{"isi":["000424630400037"],"pmid":["29426833"]},"citation":{"chicago":"Gregor, Carola, Sven C. Sidenstein, Martin Andresen, Steffen J. Sahl, Johann G Danzl, and Stefan W. Hell. “Novel Reversibly Switchable Fluorescent Proteins for RESOLFT and STED Nanoscopy Engineered from the Bacterial Photoreceptor YtvA.” <i>Scientific Reports</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1038/s41598-018-19947-1\">https://doi.org/10.1038/s41598-018-19947-1</a>.","ieee":"C. Gregor, S. C. Sidenstein, M. Andresen, S. J. Sahl, J. G. Danzl, and S. W. Hell, “Novel reversibly switchable fluorescent proteins for RESOLFT and STED nanoscopy engineered from the bacterial photoreceptor YtvA,” <i>Scientific Reports</i>, vol. 8. Springer Nature, 2018.","short":"C. Gregor, S.C. Sidenstein, M. Andresen, S.J. Sahl, J.G. Danzl, S.W. Hell, Scientific Reports 8 (2018).","ista":"Gregor C, Sidenstein SC, Andresen M, Sahl SJ, Danzl JG, Hell SW. 2018. Novel reversibly switchable fluorescent proteins for RESOLFT and STED nanoscopy engineered from the bacterial photoreceptor YtvA. Scientific Reports. 8, 2724.","ama":"Gregor C, Sidenstein SC, Andresen M, Sahl SJ, Danzl JG, Hell SW. Novel reversibly switchable fluorescent proteins for RESOLFT and STED nanoscopy engineered from the bacterial photoreceptor YtvA. <i>Scientific Reports</i>. 2018;8. doi:<a href=\"https://doi.org/10.1038/s41598-018-19947-1\">10.1038/s41598-018-19947-1</a>","mla":"Gregor, Carola, et al. “Novel Reversibly Switchable Fluorescent Proteins for RESOLFT and STED Nanoscopy Engineered from the Bacterial Photoreceptor YtvA.” <i>Scientific Reports</i>, vol. 8, 2724, Springer Nature, 2018, doi:<a href=\"https://doi.org/10.1038/s41598-018-19947-1\">10.1038/s41598-018-19947-1</a>.","apa":"Gregor, C., Sidenstein, S. C., Andresen, M., Sahl, S. J., Danzl, J. G., &#38; Hell, S. W. (2018). Novel reversibly switchable fluorescent proteins for RESOLFT and STED nanoscopy engineered from the bacterial photoreceptor YtvA. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-018-19947-1\">https://doi.org/10.1038/s41598-018-19947-1</a>"},"date_published":"2018-02-09T00:00:00Z","has_accepted_license":"1","type":"journal_article","quality_controlled":"1","intvolume":"         8","oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_created":"2020-10-06T16:33:37Z","language":[{"iso":"eng"}],"article_type":"original","file":[{"file_name":"2018_ScientificReports_Gregor.pdf","content_type":"application/pdf","success":1,"date_updated":"2020-10-06T16:35:16Z","relation":"main_file","checksum":"e642080fcbde9584c63544f587c74f03","file_id":"8619","access_level":"open_access","date_created":"2020-10-06T16:35:16Z","creator":"dernst","file_size":2818077}],"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)"},"department":[{"_id":"JoDa"}],"publication_status":"published","date_updated":"2024-10-21T06:02:43Z"},{"issue":"5","citation":{"ista":"Edelsbrunner H, Nikitenko A. 2018. Random inscribed polytopes have similar radius functions as Poisson-Delaunay mosaics. Annals of Applied Probability. 28(5), 3215–3238.","ama":"Edelsbrunner H, Nikitenko A. Random inscribed polytopes have similar radius functions as Poisson-Delaunay mosaics. <i>Annals of Applied Probability</i>. 2018;28(5):3215-3238. doi:<a href=\"https://doi.org/10.1214/18-AAP1389\">10.1214/18-AAP1389</a>","mla":"Edelsbrunner, Herbert, and Anton Nikitenko. “Random Inscribed Polytopes Have Similar Radius Functions as Poisson-Delaunay Mosaics.” <i>Annals of Applied Probability</i>, vol. 28, no. 5, Institute of Mathematical Statistics, 2018, pp. 3215–38, doi:<a href=\"https://doi.org/10.1214/18-AAP1389\">10.1214/18-AAP1389</a>.","apa":"Edelsbrunner, H., &#38; Nikitenko, A. (2018). Random inscribed polytopes have similar radius functions as Poisson-Delaunay mosaics. <i>Annals of Applied Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/18-AAP1389\">https://doi.org/10.1214/18-AAP1389</a>","ieee":"H. Edelsbrunner and A. Nikitenko, “Random inscribed polytopes have similar radius functions as Poisson-Delaunay mosaics,” <i>Annals of Applied Probability</i>, vol. 28, no. 5. Institute of Mathematical Statistics, pp. 3215–3238, 2018.","short":"H. Edelsbrunner, A. Nikitenko, Annals of Applied Probability 28 (2018) 3215–3238.","chicago":"Edelsbrunner, Herbert, and Anton Nikitenko. “Random Inscribed Polytopes Have Similar Radius Functions as Poisson-Delaunay Mosaics.” <i>Annals of Applied Probability</i>. Institute of Mathematical Statistics, 2018. <a href=\"https://doi.org/10.1214/18-AAP1389\">https://doi.org/10.1214/18-AAP1389</a>."},"page":"3215 - 3238","external_id":{"isi":["000442893500018"],"arxiv":["1705.02870"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1705.02870"}],"volume":28,"project":[{"call_identifier":"FWF","grant_number":"I02979-N35","name":"Persistence and stability of geometric complexes","_id":"2561EBF4-B435-11E9-9278-68D0E5697425"}],"publist_id":"7967","date_updated":"2026-04-08T14:19:30Z","department":[{"_id":"HeEd"}],"publication_status":"published","article_type":"original","language":[{"iso":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa_version":"Preprint","date_created":"2018-12-11T11:44:33Z","arxiv":1,"intvolume":"        28","quality_controlled":"1","type":"journal_article","date_published":"2018-10-01T00:00:00Z","isi":1,"author":[{"last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","first_name":"Herbert"},{"last_name":"Nikitenko","id":"3E4FF1BA-F248-11E8-B48F-1D18A9856A87","full_name":"Nikitenko, Anton","first_name":"Anton","orcid":"0000-0002-0659-3201"}],"abstract":[{"text":"Using the geodesic distance on the n-dimensional sphere, we study the expected radius function of the Delaunay mosaic of a random set of points. Specifically, we consider the partition of the mosaic into intervals of the radius function and determine the expected number of intervals whose radii are less than or equal to a given threshold. We find that the expectations are essentially the same as for the Poisson–Delaunay mosaic in n-dimensional Euclidean space. Assuming the points are not contained in a hemisphere, the Delaunay mosaic is isomorphic to the boundary complex of the convex hull in Rn+1, so we also get the expected number of faces of a random inscribed polytope. As proved in Antonelli et al. [Adv. in Appl. Probab. 9–12 (1977–1980)], an orthant section of the n-sphere is isometric to the standard n-simplex equipped with the Fisher information metric. It follows that the latter space has similar stochastic properties as the n-dimensional Euclidean space. Our results are therefore relevant in information geometry and in population genetics.","lang":"eng"}],"related_material":{"record":[{"status":"public","id":"6287","relation":"dissertation_contains"}]},"day":"01","fulldoi":"https://doi.org/10.1214/18-AAP1389","doi":"10.1214/18-AAP1389","publisher":"Institute of Mathematical Statistics","article_processing_charge":"No","oa":1,"scopus_import":"1","title":"Random inscribed polytopes have similar radius functions as Poisson-Delaunay mosaics","publication":"Annals of Applied Probability","status":"public","_id":"87","month":"10","year":"2018"},{"publication":"Soft Matter","year":"2018","_id":"9053","month":"12","status":"public","oa":1,"article_processing_charge":"No","title":"Diffusiophoretic design of self-spinning microgears from colloidal microswimmers","scopus_import":"1","fulldoi":"https://doi.org/10.1039/c8sm01760c","publisher":"Royal Society of Chemistry ","doi":"10.1039/c8sm01760c","publication_identifier":{"eissn":["1744-6848"],"issn":["1744-683X"]},"day":"21","abstract":[{"text":"The development of strategies to assemble microscopic machines from dissipative building blocks are essential on the route to novel active materials. We recently demonstrated the hierarchical self-assembly of phoretic microswimmers into self-spinning microgears and their synchronization by diffusiophoretic interactions [Aubret et al., Nat. Phys., 2018]. In this paper, we adopt a pedagogical approach and expose our strategy to control self-assembly and build machines using phoretic phenomena. We notably introduce Highly Inclined Laminated Optical sheets microscopy (HILO) to image and characterize anisotropic and dynamic diffusiophoretic interactions, which cannot be performed by conventional fluorescence microscopy. The dynamics of a (haematite) photocatalytic material immersed in (hydrogen peroxide) fuel under various illumination patterns is first described and quantitatively rationalized by a model of diffusiophoresis, the migration of a colloidal particle in a concentration gradient. It is further exploited to design phototactic microswimmers that direct towards the high intensity of light, as a result of the reorientation of the haematite in a light gradient. We finally show the assembly of self-spinning microgears from colloidal microswimmers and carefully characterize the interactions using HILO techniques. The results are compared with analytical and numerical predictions and agree quantitatively, stressing the important role played by concentration gradients induced by chemical activity to control and design interactions. Because the approach described hereby is generic, this works paves the way for the rational design of machines by controlling phoretic phenomena.","lang":"eng"}],"pmid":1,"author":[{"last_name":"Aubret","first_name":"Antoine","full_name":"Aubret, Antoine"},{"orcid":"0000-0002-7253-9465","first_name":"Jérémie A","id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","full_name":"Palacci, Jérémie A","last_name":"Palacci"}],"keyword":["General Chemistry","Condensed Matter Physics"],"type":"journal_article","date_published":"2018-12-21T00:00:00Z","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","date_created":"2021-02-01T13:44:41Z","oa_version":"Preprint","language":[{"iso":"eng"}],"quality_controlled":"1","arxiv":1,"intvolume":"        14","article_type":"original","date_updated":"2023-02-23T13:47:43Z","extern":"1","publication_status":"published","volume":14,"external_id":{"pmid":["30456407"],"arxiv":["1909.11121"]},"citation":{"ieee":"A. Aubret and J. A. Palacci, “Diffusiophoretic design of self-spinning microgears from colloidal microswimmers,” <i>Soft Matter</i>, vol. 14, no. 47. Royal Society of Chemistry , pp. 9577–9588, 2018.","short":"A. Aubret, J.A. Palacci, Soft Matter 14 (2018) 9577–9588.","ama":"Aubret A, Palacci JA. Diffusiophoretic design of self-spinning microgears from colloidal microswimmers. <i>Soft Matter</i>. 2018;14(47):9577-9588. doi:<a href=\"https://doi.org/10.1039/c8sm01760c\">10.1039/c8sm01760c</a>","ista":"Aubret A, Palacci JA. 2018. Diffusiophoretic design of self-spinning microgears from colloidal microswimmers. Soft Matter. 14(47), 9577–9588.","apa":"Aubret, A., &#38; Palacci, J. A. (2018). Diffusiophoretic design of self-spinning microgears from colloidal microswimmers. <i>Soft Matter</i>. Royal Society of Chemistry . <a href=\"https://doi.org/10.1039/c8sm01760c\">https://doi.org/10.1039/c8sm01760c</a>","mla":"Aubret, Antoine, and Jérémie A. Palacci. “Diffusiophoretic Design of Self-Spinning Microgears from Colloidal Microswimmers.” <i>Soft Matter</i>, vol. 14, no. 47, Royal Society of Chemistry , 2018, pp. 9577–88, doi:<a href=\"https://doi.org/10.1039/c8sm01760c\">10.1039/c8sm01760c</a>.","chicago":"Aubret, Antoine, and Jérémie A Palacci. “Diffusiophoretic Design of Self-Spinning Microgears from Colloidal Microswimmers.” <i>Soft Matter</i>. Royal Society of Chemistry , 2018. <a href=\"https://doi.org/10.1039/c8sm01760c\">https://doi.org/10.1039/c8sm01760c</a>."},"page":"9577-9588","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1909.11121"}],"issue":"47"},{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1810.01033"}],"page":"1114-1118","citation":{"ieee":"A. Aubret, M. Youssef, S. Sacanna, and J. A. Palacci, “Targeted assembly and synchronization of self-spinning microgears,” <i>Nature Physics</i>, vol. 14, no. 11. Springer Nature, pp. 1114–1118, 2018.","short":"A. Aubret, M. Youssef, S. Sacanna, J.A. Palacci, Nature Physics 14 (2018) 1114–1118.","ama":"Aubret A, Youssef M, Sacanna S, Palacci JA. Targeted assembly and synchronization of self-spinning microgears. <i>Nature Physics</i>. 2018;14(11):1114-1118. doi:<a href=\"https://doi.org/10.1038/s41567-018-0227-4\">10.1038/s41567-018-0227-4</a>","ista":"Aubret A, Youssef M, Sacanna S, Palacci JA. 2018. Targeted assembly and synchronization of self-spinning microgears. Nature Physics. 14(11), 1114–1118.","apa":"Aubret, A., Youssef, M., Sacanna, S., &#38; Palacci, J. A. (2018). Targeted assembly and synchronization of self-spinning microgears. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-018-0227-4\">https://doi.org/10.1038/s41567-018-0227-4</a>","mla":"Aubret, Antoine, et al. “Targeted Assembly and Synchronization of Self-Spinning Microgears.” <i>Nature Physics</i>, vol. 14, no. 11, Springer Nature, 2018, pp. 1114–18, doi:<a href=\"https://doi.org/10.1038/s41567-018-0227-4\">10.1038/s41567-018-0227-4</a>.","chicago":"Aubret, Antoine, Mena Youssef, Stefano Sacanna, and Jérémie A Palacci. “Targeted Assembly and Synchronization of Self-Spinning Microgears.” <i>Nature Physics</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1038/s41567-018-0227-4\">https://doi.org/10.1038/s41567-018-0227-4</a>."},"external_id":{"arxiv":["1810.01033"]},"issue":"11","volume":14,"article_type":"original","extern":"1","publication_status":"published","date_updated":"2023-02-23T13:48:02Z","date_published":"2018-11-01T00:00:00Z","type":"journal_article","quality_controlled":"1","intvolume":"        14","arxiv":1,"language":[{"iso":"eng"}],"user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","date_created":"2021-02-02T13:52:49Z","oa_version":"Preprint","abstract":[{"lang":"eng","text":"Self-assembly is the autonomous organization of components into patterns or structures: an essential ingredient of biology and a desired route to complex organization1. At equilibrium, the structure is encoded through specific interactions2,3,4,5,6,7,8, at an unfavourable entropic cost for the system. An alternative approach, widely used by nature, uses energy input to bypass the entropy bottleneck and develop features otherwise impossible at equilibrium9. Dissipative building blocks that inject energy locally were made available by recent advances in colloidal science10,11 but have not been used to control self-assembly. Here we show the targeted formation of self-powered microgears from active particles and their autonomous synchronization into dynamical superstructures. We use a photoactive component that consumes fuel, haematite, to devise phototactic microswimmers that form self-spinning microgears following spatiotemporal light patterns. The gears are coupled via their chemical clouds by diffusiophoresis12 and constitute the elementary bricks of synchronized superstructures, which autonomously regulate their dynamics. The results are quantitatively rationalized on the basis of a stochastic description of diffusio-phoretic oscillators dynamically coupled by chemical gradients. Our findings harness non-equilibrium phoretic phenomena to program interactions and direct self-assembly with fidelity and specificity. It lays the groundwork for the autonomous construction of dynamical architectures and functional micro-machinery."}],"author":[{"last_name":"Aubret","full_name":"Aubret, Antoine","first_name":"Antoine"},{"first_name":"Mena","full_name":"Youssef, Mena","last_name":"Youssef"},{"last_name":"Sacanna","first_name":"Stefano","full_name":"Sacanna, Stefano"},{"first_name":"Jérémie A","orcid":"0000-0002-7253-9465","full_name":"Palacci, Jérémie A","id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","last_name":"Palacci"}],"doi":"10.1038/s41567-018-0227-4","publisher":"Springer Nature","fulldoi":"https://doi.org/10.1038/s41567-018-0227-4","day":"01","publication_identifier":{"eissn":["1745-2481"],"issn":["1745-2473"]},"_id":"9062","month":"11","status":"public","year":"2018","publication":"Nature Physics","scopus_import":"1","title":"Targeted assembly and synchronization of self-spinning microgears","article_processing_charge":"No","oa":1},{"article_number":"1805564","keyword":["Mechanical Engineering","General Materials Science","Mechanics of Materials"],"author":[{"last_name":"Lee","first_name":"Nara","full_name":"Lee, Nara"},{"first_name":"Eunjung","full_name":"Ko, Eunjung","last_name":"Ko"},{"first_name":"Hwan Young","full_name":"Choi, Hwan Young","last_name":"Choi"},{"last_name":"Hong","full_name":"Hong, Yun Jeong","first_name":"Yun Jeong"},{"first_name":"Muhammad","orcid":"0000-0002-2111-4846","id":"32c21954-2022-11eb-9d5f-af9f93c24e71","full_name":"Nauman, Muhammad","last_name":"Nauman"},{"first_name":"Woun","full_name":"Kang, Woun","last_name":"Kang"},{"first_name":"Hyoung Joon","full_name":"Choi, Hyoung Joon","last_name":"Choi"},{"last_name":"Choi","first_name":"Young Jai","full_name":"Choi, Young Jai"},{"full_name":"Jo, Younjung","first_name":"Younjung","last_name":"Jo"}],"abstract":[{"text":"The novel electronic state of the canted antiferromagnetic (AFM) insulator, strontium iridate (Sr2IrO4) has been well described by the spin-orbit-entangled isospin Jeff = 1/2, but the role of isospin in transport phenomena remains poorly understood. In this study, antiferromagnet-based spintronic functionality is demonstrated by combining unique characteristics of the isospin state in Sr2IrO4. Based on magnetic and transport measurements, large and highly anisotropic magnetoresistance (AMR) is obtained by manipulating the antiferromagnetic isospin domains. First-principles calculations suggest that electrons whose isospin directions are strongly coupled to in-plane net magnetic moment encounter the isospin mismatch when moving across antiferromagnetic domain boundaries, which generates a high resistance state. By rotating a magnetic field that aligns in-plane net moments and removes domain boundaries, the macroscopically-ordered isospins govern dynamic transport through the system, which leads to the extremely angle-sensitive AMR. As with this work that establishes a link between isospins and magnetotransport in strongly spin-orbit-coupled AFM Sr2IrO4, the peculiar AMR effect provides a beneficial foundation for fundamental and applied research on AFM spintronics.","lang":"eng"}],"day":"29","publication_identifier":{"issn":["0935-9648","1521-4095"]},"publisher":"Wiley","doi":"10.1002/adma.201805564","fulldoi":"https://doi.org/10.1002/adma.201805564","title":"Antiferromagnet‐based spintronic functionality by controlling isospin domains in a layered perovskite iridate","article_processing_charge":"No","year":"2018","status":"public","_id":"9066","month":"10","publication":"Advanced Materials","issue":"52","external_id":{"arxiv":["1811.04562"]},"citation":{"ieee":"N. Lee <i>et al.</i>, “Antiferromagnet‐based spintronic functionality by controlling isospin domains in a layered perovskite iridate,” <i>Advanced Materials</i>, vol. 30, no. 52. Wiley, 2018.","short":"N. Lee, E. Ko, H.Y. Choi, Y.J. Hong, M. Nauman, W. Kang, H.J. Choi, Y.J. Choi, Y. Jo, Advanced Materials 30 (2018).","ista":"Lee N, Ko E, Choi HY, Hong YJ, Nauman M, Kang W, Choi HJ, Choi YJ, Jo Y. 2018. Antiferromagnet‐based spintronic functionality by controlling isospin domains in a layered perovskite iridate. Advanced Materials. 30(52), 1805564.","ama":"Lee N, Ko E, Choi HY, et al. Antiferromagnet‐based spintronic functionality by controlling isospin domains in a layered perovskite iridate. <i>Advanced Materials</i>. 2018;30(52). doi:<a href=\"https://doi.org/10.1002/adma.201805564\">10.1002/adma.201805564</a>","mla":"Lee, Nara, et al. “Antiferromagnet‐based Spintronic Functionality by Controlling Isospin Domains in a Layered Perovskite Iridate.” <i>Advanced Materials</i>, vol. 30, no. 52, 1805564, Wiley, 2018, doi:<a href=\"https://doi.org/10.1002/adma.201805564\">10.1002/adma.201805564</a>.","apa":"Lee, N., Ko, E., Choi, H. Y., Hong, Y. J., Nauman, M., Kang, W., … Jo, Y. (2018). Antiferromagnet‐based spintronic functionality by controlling isospin domains in a layered perovskite iridate. <i>Advanced Materials</i>. Wiley. <a href=\"https://doi.org/10.1002/adma.201805564\">https://doi.org/10.1002/adma.201805564</a>","chicago":"Lee, Nara, Eunjung Ko, Hwan Young Choi, Yun Jeong Hong, Muhammad Nauman, Woun Kang, Hyoung Joon Choi, Young Jai Choi, and Younjung Jo. “Antiferromagnet‐based Spintronic Functionality by Controlling Isospin Domains in a Layered Perovskite Iridate.” <i>Advanced Materials</i>. Wiley, 2018. <a href=\"https://doi.org/10.1002/adma.201805564\">https://doi.org/10.1002/adma.201805564</a>."},"volume":30,"extern":"1","publication_status":"published","date_updated":"2021-02-03T13:58:39Z","article_type":"original","arxiv":1,"intvolume":"        30","quality_controlled":"1","oa_version":"Preprint","date_created":"2021-02-02T15:50:58Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"date_published":"2018-10-29T00:00:00Z","type":"journal_article"},{"publication":"Physica B: Condensed Matter","type":"journal_article","status":"public","_id":"9068","date_published":"2018-05-01T00:00:00Z","month":"05","year":"2018","language":[{"iso":"eng"}],"article_processing_charge":"No","date_created":"2021-02-02T15:52:43Z","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se","quality_controlled":"1","intvolume":"       536","fulldoi":"https://doi.org/10.1016/j.physb.2017.11.032","doi":"10.1016/j.physb.2017.11.032","article_type":"original","publisher":"Elsevier","date_updated":"2021-02-04T07:18:57Z","publication_identifier":{"issn":["0921-4526"]},"extern":"1","publication_status":"published","day":"01","abstract":[{"text":"We report the temperature-dependent resistivity ρ(T) of chalcogenide NiS2-xSex (x = 0.1) using hydrostatic pressure as a control parameter in the temperature range of 4–300 K. The insulating behavior of ρ(T) survives at low temperatures in the pressure regime below 7.5 kbar, whereas a clear insulator-to-metallic transition is observed above 7.5 kbar. Two types of magnetic transitions, from the paramagnetic (PM) to the antiferromagnetic (AFM) state and from the AFM state to the weak ferromagnetic (WF) state, were evaluated and confirmed by magnetization measurement. According to the temperature–pressure phase diagram, the WF phase survives up to 7.5 kbar, and the transition temperature of the WF transition decreases as the pressure increases, whereas the metal–insulator transition temperature increases up to 9.4 kbar. We analyzed the metallic behavior and proposed Fermi-liquid behavior of NiS1.9Se0.1.","lang":"eng"}],"volume":536,"author":[{"last_name":"Hussain","first_name":"Tayyaba","full_name":"Hussain, Tayyaba"},{"last_name":"Oh","first_name":"Myeong-jun","full_name":"Oh, Myeong-jun"},{"id":"32c21954-2022-11eb-9d5f-af9f93c24e71","full_name":"Nauman, Muhammad","orcid":"0000-0002-2111-4846","first_name":"Muhammad","last_name":"Nauman"},{"full_name":"Jo, Younjung","first_name":"Younjung","last_name":"Jo"},{"full_name":"Han, Garam","first_name":"Garam","last_name":"Han"},{"first_name":"Changyoung","full_name":"Kim, Changyoung","last_name":"Kim"},{"last_name":"Kang","full_name":"Kang, Woun","first_name":"Woun"}],"citation":{"ama":"Hussain T, Oh M, Nauman M, et al. Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se. <i>Physica B: Condensed Matter</i>. 2018;536:235-238. doi:<a href=\"https://doi.org/10.1016/j.physb.2017.11.032\">10.1016/j.physb.2017.11.032</a>","ista":"Hussain T, Oh M, Nauman M, Jo Y, Han G, Kim C, Kang W. 2018. Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se. Physica B: Condensed Matter. 536, 235–238.","apa":"Hussain, T., Oh, M., Nauman, M., Jo, Y., Han, G., Kim, C., &#38; Kang, W. (2018). Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se. <i>Physica B: Condensed Matter</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.physb.2017.11.032\">https://doi.org/10.1016/j.physb.2017.11.032</a>","mla":"Hussain, Tayyaba, et al. “Pressure-Induced Metal–Insulator Transitions in Chalcogenide NiS2-Se.” <i>Physica B: Condensed Matter</i>, vol. 536, Elsevier, 2018, pp. 235–38, doi:<a href=\"https://doi.org/10.1016/j.physb.2017.11.032\">10.1016/j.physb.2017.11.032</a>.","ieee":"T. Hussain <i>et al.</i>, “Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se,” <i>Physica B: Condensed Matter</i>, vol. 536. Elsevier, pp. 235–238, 2018.","short":"T. Hussain, M. Oh, M. Nauman, Y. Jo, G. Han, C. Kim, W. Kang, Physica B: Condensed Matter 536 (2018) 235–238.","chicago":"Hussain, Tayyaba, Myeong-jun Oh, Muhammad Nauman, Younjung Jo, Garam Han, Changyoung Kim, and Woun Kang. “Pressure-Induced Metal–Insulator Transitions in Chalcogenide NiS2-Se.” <i>Physica B: Condensed Matter</i>. Elsevier, 2018. <a href=\"https://doi.org/10.1016/j.physb.2017.11.032\">https://doi.org/10.1016/j.physb.2017.11.032</a>."},"page":"235-238"},{"isi":1,"corr_author":"1","article_number":"jcs.204198","author":[{"first_name":"Ricardo","full_name":"Tejos, Ricardo","last_name":"Tejos"},{"first_name":"Cecilia","full_name":"Rodríguez Furlán, Cecilia","last_name":"Rodríguez Furlán"},{"full_name":"Adamowski, Maciek","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257","first_name":"Maciek","last_name":"Adamowski"},{"full_name":"Sauer, Michael","first_name":"Michael","last_name":"Sauer"},{"last_name":"Norambuena","full_name":"Norambuena, Lorena","first_name":"Lorena"},{"last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596"}],"abstract":[{"lang":"eng","text":"Coordinated cell polarization in developing tissues is a recurrent theme in multicellular organisms. In plants, a directional distribution of the plant hormone auxin is at the core of many developmental programs. A feedback regulation of auxin on the polarized localization of PIN auxin transporters in individual cells has been proposed as a self-organizing mechanism for coordinated tissue polarization, but the molecular mechanisms linking auxin signalling to PIN-dependent auxin transport remain unknown. We performed a microarray-based approach to find regulators of the auxin-induced PIN relocation in the Arabidopsis thaliana root. We identified a subset of a family of phosphatidylinositol transfer proteins (PITP), the PATELLINs (PATL). Here, we show that PATLs are expressed in partially overlapping cells types in different tissues going through mitosis or initiating differentiation programs. PATLs are plasma membrane-associated proteins accumulated in Arabidopsis embryos, primary roots, lateral root primordia, and developing stomata. Higher order patl mutants display reduced PIN1 repolarization in response to auxin, shorter root apical meristem, and drastic defects in embryo and seedling development. This suggests PATLs redundantly play a crucial role in polarity and patterning in Arabidopsis."}],"publication_identifier":{"issn":["0021-9533"]},"day":"29","fulldoi":"https://doi.org/10.1242/jcs.204198","ddc":["581"],"doi":"10.1242/jcs.204198","file_date_updated":"2020-07-14T12:48:15Z","publisher":"Company of Biologists","article_processing_charge":"No","oa":1,"scopus_import":"1","title":"PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana","publication":"Journal of Cell Science","month":"01","_id":"913","status":"public","year":"2018","issue":"2","ec_funded":1,"citation":{"short":"R. Tejos, C. Rodríguez Furlán, M. Adamowski, M. Sauer, L. Norambuena, J. Friml, Journal of Cell Science 131 (2018).","ieee":"R. Tejos, C. Rodríguez Furlán, M. Adamowski, M. Sauer, L. Norambuena, and J. Friml, “PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana,” <i>Journal of Cell Science</i>, vol. 131, no. 2. Company of Biologists, 2018.","mla":"Tejos, Ricardo, et al. “PATELLINS Are Regulators of Auxin Mediated PIN1 Relocation and Plant Development in Arabidopsis Thaliana.” <i>Journal of Cell Science</i>, vol. 131, no. 2, jcs. 204198, Company of Biologists, 2018, doi:<a href=\"https://doi.org/10.1242/jcs.204198\">10.1242/jcs.204198</a>.","apa":"Tejos, R., Rodríguez Furlán, C., Adamowski, M., Sauer, M., Norambuena, L., &#38; Friml, J. (2018). PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana. <i>Journal of Cell Science</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.204198\">https://doi.org/10.1242/jcs.204198</a>","ama":"Tejos R, Rodríguez Furlán C, Adamowski M, Sauer M, Norambuena L, Friml J. PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana. <i>Journal of Cell Science</i>. 2018;131(2). doi:<a href=\"https://doi.org/10.1242/jcs.204198\">10.1242/jcs.204198</a>","ista":"Tejos R, Rodríguez Furlán C, Adamowski M, Sauer M, Norambuena L, Friml J. 2018. PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana. Journal of Cell Science. 131(2), jcs. 204198.","chicago":"Tejos, Ricardo, Cecilia Rodríguez Furlán, Maciek Adamowski, Michael Sauer, Lorena Norambuena, and Jiří Friml. “PATELLINS Are Regulators of Auxin Mediated PIN1 Relocation and Plant Development in Arabidopsis Thaliana.” <i>Journal of Cell Science</i>. Company of Biologists, 2018. <a href=\"https://doi.org/10.1242/jcs.204198\">https://doi.org/10.1242/jcs.204198</a>."},"external_id":{"isi":["000424842400019"]},"volume":131,"project":[{"call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"publist_id":"6530","date_updated":"2025-07-10T12:01:38Z","department":[{"_id":"JiFr"}],"publication_status":"published","file":[{"content_type":"application/pdf","file_name":"2017_adamowski_PATELLINS_are.pdf","file_id":"6299","checksum":"bf156c20a4f117b4b932370d54cbac8c","relation":"main_file","date_updated":"2020-07-14T12:48:15Z","access_level":"open_access","file_size":14925985,"creator":"dernst","date_created":"2019-04-12T08:46:32Z"}],"pubrep_id":"988","language":[{"iso":"eng"}],"date_created":"2018-12-11T11:49:10Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","intvolume":"       131","quality_controlled":"1","type":"journal_article","has_accepted_license":"1","date_published":"2018-01-29T00:00:00Z"},{"abstract":[{"lang":"eng","text":"Several studies have shown the existence of a critical latitude where the dissipation of internal tides is strongly enhanced. Internal tides are internal waves generated by barotropic tidal currents impinging rough topography at the seafloor. Their dissipation and concomitant diapycnal mixing are believed to be important for water masses and the large‐scale ocean circulation. The purpose of this study is to clarify the physical processes at the origin of this strong latitudinal dependence of tidal energy dissipation. We find that different mechanisms are involved equatorward and poleward of the critical latitude. Triadic resonant instabilities are responsible for the dissipation of internal tides equatorward of the critical latitude. In particular, a dominant triad involving the primary internal tide and near‐inertial waves is key. At the critical latitude, the peak of energy dissipation is explained by both increased instability growth rates, and smaller scales of secondary waves thus more prone to break and dissipate their energy. Surprisingly, poleward of the critical latitude, the generation of evanescent waves appears to be crucial. Triadic instabilities have been widely studied, but the transfer of energy to evanescent waves has received comparatively little attention. Our work suggests that the nonlinear transfer of energy from the internal tide to evanescent waves (corresponding to the 2f‐pump mechanism described by Young et al., 2008, https://doi.org/10.1017/S0022112008001742) is an efficient mechanism to dissipate internal tide energy near and poleward of the critical latitude. The theoretical results are confirmed in idealized high‐resolution numerical simulations of a barotropic M2 tide impinging sinusoidal topography in a linearly stratified fluid."}],"author":[{"first_name":"O.","full_name":"Richet, O.","last_name":"Richet"},{"full_name":"Chomaz, J.-M.","first_name":"J.-M.","last_name":"Chomaz"},{"orcid":"0000-0001-5836-5350","first_name":"Caroline J","full_name":"Muller, Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","last_name":"Muller"}],"month":"09","status":"public","_id":"9134","year":"2018","publication":"Journal of Geophysical Research: Oceans","title":"Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude","article_processing_charge":"No","oa":1,"doi":"10.1029/2017jc013591","publisher":"American Geophysical Union","fulldoi":"https://doi.org/10.1029/2017jc013591","day":"01","publication_identifier":{"issn":["2169-9275"]},"volume":123,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1029/2017JC013591"}],"citation":{"apa":"Richet, O., Chomaz, J.-M., &#38; Muller, C. J. (2018). Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude. <i>Journal of Geophysical Research: Oceans</i>. American Geophysical Union. <a href=\"https://doi.org/10.1029/2017jc013591\">https://doi.org/10.1029/2017jc013591</a>","mla":"Richet, O., et al. “Internal Tide Dissipation at Topography: Triadic Resonant Instability Equatorward and Evanescent Waves Poleward of the Critical Latitude.” <i>Journal of Geophysical Research: Oceans</i>, vol. 123, no. 9, American Geophysical Union, 2018, pp. 6136–55, doi:<a href=\"https://doi.org/10.1029/2017jc013591\">10.1029/2017jc013591</a>.","ama":"Richet O, Chomaz J-M, Muller CJ. Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude. <i>Journal of Geophysical Research: Oceans</i>. 2018;123(9):6136-6155. doi:<a href=\"https://doi.org/10.1029/2017jc013591\">10.1029/2017jc013591</a>","ista":"Richet O, Chomaz J-M, Muller CJ. 2018. Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude. Journal of Geophysical Research: Oceans. 123(9), 6136–6155.","short":"O. Richet, J.-M. Chomaz, C.J. Muller, Journal of Geophysical Research: Oceans 123 (2018) 6136–6155.","ieee":"O. Richet, J.-M. Chomaz, and C. J. Muller, “Internal tide dissipation at topography: Triadic resonant instability equatorward and evanescent waves poleward of the critical latitude,” <i>Journal of Geophysical Research: Oceans</i>, vol. 123, no. 9. American Geophysical Union, pp. 6136–6155, 2018.","chicago":"Richet, O., J.-M. Chomaz, and Caroline J Muller. “Internal Tide Dissipation at Topography: Triadic Resonant Instability Equatorward and Evanescent Waves Poleward of the Critical Latitude.” <i>Journal of Geophysical Research: Oceans</i>. American Geophysical Union, 2018. <a href=\"https://doi.org/10.1029/2017jc013591\">https://doi.org/10.1029/2017jc013591</a>."},"page":"6136-6155","issue":"9","date_published":"2018-09-01T00:00:00Z","type":"journal_article","quality_controlled":"1","intvolume":"       123","language":[{"iso":"eng"}],"date_created":"2021-02-15T14:17:25Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","article_type":"original","publication_status":"published","extern":"1","date_updated":"2022-01-24T12:39:03Z"},{"quality_controlled":"1","intvolume":"       115","date_created":"2021-02-15T14:18:16Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","language":[{"iso":"eng"}],"date_published":"2018-03-20T00:00:00Z","type":"journal_article","extern":"1","publication_status":"published","date_updated":"2022-01-24T12:39:49Z","article_type":"original","volume":115,"issue":"12","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1719967115"}],"page":"2930-2935","citation":{"chicago":"Muller, Caroline J, and David M. Romps. “Acceleration of Tropical Cyclogenesis by Self-Aggregation Feedbacks.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1719967115\">https://doi.org/10.1073/pnas.1719967115</a>.","ama":"Muller CJ, Romps DM. Acceleration of tropical cyclogenesis by self-aggregation feedbacks. <i>Proceedings of the National Academy of Sciences</i>. 2018;115(12):2930-2935. doi:<a href=\"https://doi.org/10.1073/pnas.1719967115\">10.1073/pnas.1719967115</a>","ista":"Muller CJ, Romps DM. 2018. Acceleration of tropical cyclogenesis by self-aggregation feedbacks. Proceedings of the National Academy of Sciences. 115(12), 2930–2935.","mla":"Muller, Caroline J., and David M. Romps. “Acceleration of Tropical Cyclogenesis by Self-Aggregation Feedbacks.” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 12, Proceedings of the National Academy of Sciences, 2018, pp. 2930–35, doi:<a href=\"https://doi.org/10.1073/pnas.1719967115\">10.1073/pnas.1719967115</a>.","apa":"Muller, C. J., &#38; Romps, D. M. (2018). Acceleration of tropical cyclogenesis by self-aggregation feedbacks. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1719967115\">https://doi.org/10.1073/pnas.1719967115</a>","ieee":"C. J. Muller and D. M. Romps, “Acceleration of tropical cyclogenesis by self-aggregation feedbacks,” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 12. Proceedings of the National Academy of Sciences, pp. 2930–2935, 2018.","short":"C.J. Muller, D.M. Romps, Proceedings of the National Academy of Sciences 115 (2018) 2930–2935."},"title":"Acceleration of tropical cyclogenesis by self-aggregation feedbacks","oa":1,"article_processing_charge":"No","year":"2018","_id":"9135","month":"03","status":"public","publication":"Proceedings of the National Academy of Sciences","day":"20","publication_identifier":{"issn":["0027-8424","1091-6490"]},"publisher":"Proceedings of the National Academy of Sciences","doi":"10.1073/pnas.1719967115","fulldoi":"https://doi.org/10.1073/pnas.1719967115","author":[{"last_name":"Muller","orcid":"0000-0001-5836-5350","first_name":"Caroline J","full_name":"Muller, Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b"},{"first_name":"David M.","full_name":"Romps, David M.","last_name":"Romps"}],"abstract":[{"lang":"eng","text":"Idealized simulations of tropical moist convection have revealed that clouds can spontaneously clump together in a process called self-aggregation. This results in a state where a moist cloudy region with intense deep convection is surrounded by extremely dry subsiding air devoid of deep convection. Because of the idealized settings of the simulations where it was discovered, the relevance of self-aggregation to the real world is still debated. Here, we show that self-aggregation feedbacks play a leading-order role in the spontaneous genesis of tropical cyclones in cloud-resolving simulations. Those feedbacks accelerate the cyclogenesis process by a factor of 2, and the feedbacks contributing to the cyclone formation show qualitative and quantitative agreement with the self-aggregation process. Once the cyclone is formed, wind-induced surface heat exchange (WISHE) effects dominate, although we find that self-aggregation feedbacks have a small but nonnegligible contribution to the maintenance of the mature cyclone. Our results suggest that self-aggregation, and the framework developed for its study, can help shed more light into the physical processes leading to cyclogenesis and cyclone intensification. In particular, our results point out the importance of the longwave radiative cooling outside the cyclone."}],"keyword":["Multidisciplinary"]},{"publication_identifier":{"issn":["0930-7575","1432-0894"]},"day":"01","fulldoi":"https://doi.org/10.1007/s00382-016-3083-x","publisher":"Springer Nature","doi":"10.1007/s00382-016-3083-x","oa":1,"article_processing_charge":"No","title":"Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios","publication":"Climate Dynamics","year":"2018","_id":"9136","month":"08","status":"public","keyword":["Atmospheric Science"],"author":[{"first_name":"Philippe","full_name":"Drobinski, Philippe","last_name":"Drobinski"},{"last_name":"Silva","first_name":"Nicolas Da","full_name":"Silva, Nicolas Da"},{"full_name":"Panthou, Gérémy","first_name":"Gérémy","last_name":"Panthou"},{"first_name":"Sophie","full_name":"Bastin, Sophie","last_name":"Bastin"},{"last_name":"Muller","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","full_name":"Muller, Caroline J","first_name":"Caroline J","orcid":"0000-0001-5836-5350"},{"last_name":"Ahrens","first_name":"Bodo","full_name":"Ahrens, Bodo"},{"last_name":"Borga","full_name":"Borga, Marco","first_name":"Marco"},{"full_name":"Conte, Dario","first_name":"Dario","last_name":"Conte"},{"first_name":"Giorgia","full_name":"Fosser, Giorgia","last_name":"Fosser"},{"last_name":"Giorgi","full_name":"Giorgi, Filippo","first_name":"Filippo"},{"last_name":"Güttler","first_name":"Ivan","full_name":"Güttler, Ivan"},{"last_name":"Kotroni","first_name":"Vassiliki","full_name":"Kotroni, Vassiliki"},{"first_name":"Laurent","full_name":"Li, Laurent","last_name":"Li"},{"last_name":"Morin","first_name":"Efrat","full_name":"Morin, Efrat"},{"first_name":"Bariş","full_name":"Önol, Bariş","last_name":"Önol"},{"first_name":"Pere","full_name":"Quintana-Segui, Pere","last_name":"Quintana-Segui"},{"first_name":"Raquel","full_name":"Romera, Raquel","last_name":"Romera"},{"last_name":"Torma","first_name":"Csaba Zsolt","full_name":"Torma, Csaba Zsolt"}],"abstract":[{"lang":"eng","text":"In this study we investigate the scaling of precipitation extremes with temperature in the Mediterranean region by assessing against observations the present day and future regional climate simulations performed in the frame of the HyMeX and MED-CORDEX programs. Over the 1979–2008 period, despite differences in quantitative precipitation simulation across the various models, the change in precipitation extremes with respect to temperature is robust and consistent. The spatial variability of the temperature–precipitation extremes relationship displays a hook shape across the Mediterranean, with negative slope at high temperatures and a slope following Clausius–Clapeyron (CC)-scaling at low temperatures. The temperature at which the slope of the temperature–precipitation extreme relation sharply changes (or temperature break), ranges from about 20 °C in the western Mediterranean to <10 °C in Greece. In addition, this slope is always negative in the arid regions of the Mediterranean. The scaling of the simulated precipitation extremes is insensitive to ocean–atmosphere coupling, while it depends very weakly on the resolution at high temperatures for short precipitation accumulation times. In future climate scenario simulations covering the 2070–2100 period, the temperature break shifts to higher temperatures by a value which is on average the mean regional temperature change due to global warming. The slope of the simulated future temperature–precipitation extremes relationship is close to CC-scaling at temperatures below the temperature break, while at high temperatures, the negative slope is close, but somewhat flatter or steeper, than in the current climate depending on the model. Overall, models predict more intense precipitation extremes in the future. Adjusting the temperature–precipitation extremes relationship in the present climate using the CC law and the temperature shift in the future allows the recovery of the temperature–precipitation extremes relationship in the future climate. This implies negligible regional changes of relative humidity in the future despite the large warming and drying over the Mediterranean. This suggests that the Mediterranean Sea is the primary source of moisture which counteracts the drying and warming impacts on relative humidity in parts of the Mediterranean region."}],"date_updated":"2022-01-24T12:40:40Z","extern":"1","publication_status":"published","article_type":"original","oa_version":"Published Version","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_created":"2021-02-15T14:18:53Z","language":[{"iso":"eng"}],"intvolume":"        51","quality_controlled":"1","type":"journal_article","date_published":"2018-08-01T00:00:00Z","issue":"3","citation":{"chicago":"Drobinski, Philippe, Nicolas Da Silva, Gérémy Panthou, Sophie Bastin, Caroline J Muller, Bodo Ahrens, Marco Borga, et al. “Scaling Precipitation Extremes with Temperature in the Mediterranean: Past Climate Assessment and Projection in Anthropogenic Scenarios.” <i>Climate Dynamics</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1007/s00382-016-3083-x\">https://doi.org/10.1007/s00382-016-3083-x</a>.","short":"P. Drobinski, N.D. Silva, G. Panthou, S. Bastin, C.J. Muller, B. Ahrens, M. Borga, D. Conte, G. Fosser, F. Giorgi, I. Güttler, V. Kotroni, L. Li, E. Morin, B. Önol, P. Quintana-Segui, R. Romera, C.Z. Torma, Climate Dynamics 51 (2018) 1237–1257.","ieee":"P. Drobinski <i>et al.</i>, “Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios,” <i>Climate Dynamics</i>, vol. 51, no. 3. Springer Nature, pp. 1237–1257, 2018.","apa":"Drobinski, P., Silva, N. D., Panthou, G., Bastin, S., Muller, C. J., Ahrens, B., … Torma, C. Z. (2018). Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios. <i>Climate Dynamics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00382-016-3083-x\">https://doi.org/10.1007/s00382-016-3083-x</a>","mla":"Drobinski, Philippe, et al. “Scaling Precipitation Extremes with Temperature in the Mediterranean: Past Climate Assessment and Projection in Anthropogenic Scenarios.” <i>Climate Dynamics</i>, vol. 51, no. 3, Springer Nature, 2018, pp. 1237–57, doi:<a href=\"https://doi.org/10.1007/s00382-016-3083-x\">10.1007/s00382-016-3083-x</a>.","ama":"Drobinski P, Silva ND, Panthou G, et al. Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios. <i>Climate Dynamics</i>. 2018;51(3):1237-1257. doi:<a href=\"https://doi.org/10.1007/s00382-016-3083-x\">10.1007/s00382-016-3083-x</a>","ista":"Drobinski P, Silva ND, Panthou G, Bastin S, Muller CJ, Ahrens B, Borga M, Conte D, Fosser G, Giorgi F, Güttler I, Kotroni V, Li L, Morin E, Önol B, Quintana-Segui P, Romera R, Torma CZ. 2018. Scaling precipitation extremes with temperature in the Mediterranean: Past climate assessment and projection in anthropogenic scenarios. Climate Dynamics. 51(3), 1237–1257."},"page":"1237-1257","main_file_link":[{"url":"https://doi.org/10.1007/s00382-016-3083-x","open_access":"1"}],"volume":51},{"volume":4,"citation":{"chicago":"Danzl, Johann G. “Diffraction-Unlimited Optical Imaging for Synaptic Physiology.” <i>Opera Medica et Physiologica</i>. Lobachevsky State University of Nizhny Novgorod, 2018. <a href=\"https://doi.org/10.20388/omp2018.00s1.001\">https://doi.org/10.20388/omp2018.00s1.001</a>.","ieee":"J. G. Danzl, “Diffraction-unlimited optical imaging for synaptic physiology,” <i>Opera Medica et Physiologica</i>, vol. 4, no. S1. Lobachevsky State University of Nizhny Novgorod, p. 11, 2018.","short":"J.G. Danzl, Opera Medica et Physiologica 4 (2018) 11.","ama":"Danzl JG. Diffraction-unlimited optical imaging for synaptic physiology. <i>Opera Medica et Physiologica</i>. 2018;4(S1):11. doi:<a href=\"https://doi.org/10.20388/omp2018.00s1.001\">10.20388/omp2018.00s1.001</a>","ista":"Danzl JG. 2018. Diffraction-unlimited optical imaging for synaptic physiology. Opera Medica et Physiologica. 4(S1), 11.","apa":"Danzl, J. G. (2018). Diffraction-unlimited optical imaging for synaptic physiology. <i>Opera Medica et Physiologica</i>. Lobachevsky State University of Nizhny Novgorod. <a href=\"https://doi.org/10.20388/omp2018.00s1.001\">https://doi.org/10.20388/omp2018.00s1.001</a>","mla":"Danzl, Johann G. “Diffraction-Unlimited Optical Imaging for Synaptic Physiology.” <i>Opera Medica et Physiologica</i>, vol. 4, no. S1, Lobachevsky State University of Nizhny Novgorod, 2018, p. 11, doi:<a href=\"https://doi.org/10.20388/omp2018.00s1.001\">10.20388/omp2018.00s1.001</a>."},"page":"11","main_file_link":[{"url":"http://operamedphys.org/content/molecular-and-cellular-neuroscience","open_access":"1"}],"issue":"S1","type":"journal_article","date_published":"2018-06-30T00:00:00Z","language":[{"iso":"eng"}],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2021-03-07T23:01:25Z","quality_controlled":"1","intvolume":"         4","article_type":"letter_note","date_updated":"2026-06-18T19:43:22Z","department":[{"_id":"JoDa"}],"publication_status":"published","author":[{"last_name":"Danzl","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973","first_name":"Johann G"}],"alternative_title":["Molecular and cellular neuroscience"],"publication":"Opera Medica et Physiologica","month":"06","_id":"9229","status":"public","year":"2018","article_processing_charge":"No","oa":1,"scopus_import":"1","title":"Diffraction-unlimited optical imaging for synaptic physiology","ddc":["570"],"fulldoi":"https://doi.org/10.20388/omp2018.00s1.001","doi":"10.20388/omp2018.00s1.001","publisher":"Lobachevsky State University of Nizhny Novgorod","publication_identifier":{"issn":["2500-2287"],"eissn":["2500-2295"]},"day":"30"},{"abstract":[{"lang":"eng","text":"The DEMETER (DME) DNA glycosylase catalyzes genome-wide DNA demethylation and is required for endosperm genomic imprinting and embryo viability. Targets of DME-mediated DNA demethylation reside in small, euchromatic, AT-rich transposons and at the boundaries of large transposons, but how DME interacts with these diverse chromatin states is unknown. The STRUCTURE SPECIFIC RECOGNITION PROTEIN 1 (SSRP1) subunit of the chromatin remodeler FACT (facilitates chromatin transactions), was previously shown to be involved in the DME-dependent regulation of genomic imprinting in Arabidopsis endosperm. Therefore, to investigate the interaction between DME and chromatin, we focused on the activity of the two FACT subunits, SSRP1 and SUPPRESSOR of TY16 (SPT16), during reproduction in Arabidopsis. We found that FACT colocalizes with nuclear DME in vivo, and that DME has two classes of target sites, the first being euchromatic and accessible to DME, but the second, representing over half of DME targets, requiring the action of FACT for DME-mediated DNA demethylation genome-wide. Our results show that the FACT-dependent DME targets are GC-rich heterochromatin domains with high nucleosome occupancy enriched with H3K9me2 and H3K27me1. Further, we demonstrate that heterochromatin-associated linker histone H1 specifically mediates the requirement for FACT at a subset of DME-target loci. Overall, our results demonstrate that FACT is required for DME targeting by facilitating its access to heterochromatin."}],"related_material":{"link":[{"url":"https://doi.org/10.1101/187674 ","relation":"earlier_version"}]},"pmid":1,"author":[{"full_name":"Frost, Jennifer M.","first_name":"Jennifer M.","last_name":"Frost"},{"last_name":"Kim","first_name":"M. Yvonne","full_name":"Kim, M. Yvonne"},{"last_name":"Park","full_name":"Park, Guen Tae","first_name":"Guen Tae"},{"last_name":"Hsieh","full_name":"Hsieh, Ping-Hung","first_name":"Ping-Hung"},{"first_name":"Miyuki","full_name":"Nakamura, Miyuki","last_name":"Nakamura"},{"last_name":"Lin","first_name":"Samuel J. H.","full_name":"Lin, Samuel J. H."},{"last_name":"Yoo","full_name":"Yoo, Hyunjin","first_name":"Hyunjin"},{"last_name":"Choi","full_name":"Choi, Jaemyung","first_name":"Jaemyung"},{"full_name":"Ikeda, Yoko","first_name":"Yoko","last_name":"Ikeda"},{"full_name":"Kinoshita, Tetsu","first_name":"Tetsu","last_name":"Kinoshita"},{"first_name":"Yeonhee","full_name":"Choi, Yeonhee","last_name":"Choi"},{"last_name":"Zilberman","first_name":"Daniel","orcid":"0000-0002-0123-8649","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","full_name":"Zilberman, Daniel"},{"last_name":"Fischer","first_name":"Robert L.","full_name":"Fischer, Robert L."}],"keyword":["Multidisciplinary"],"publication":"Proceedings of the National Academy of Sciences","status":"public","_id":"9471","month":"05","year":"2018","article_processing_charge":"No","oa":1,"scopus_import":"1","title":"FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis","fulldoi":"https://doi.org/10.1073/pnas.1713333115","ddc":["580"],"doi":"10.1073/pnas.1713333115","file_date_updated":"2021-06-07T06:16:38Z","publisher":"National Academy of Sciences","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"day":"15","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","volume":115,"citation":{"chicago":"Frost, Jennifer M., M. Yvonne Kim, Guen Tae Park, Ping-Hung Hsieh, Miyuki Nakamura, Samuel J. H. Lin, Hyunjin Yoo, et al. “FACT Complex Is Required for DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1713333115\">https://doi.org/10.1073/pnas.1713333115</a>.","mla":"Frost, Jennifer M., et al. “FACT Complex Is Required for DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 20, National Academy of Sciences, 2018, pp. E4720–29, doi:<a href=\"https://doi.org/10.1073/pnas.1713333115\">10.1073/pnas.1713333115</a>.","apa":"Frost, J. M., Kim, M. Y., Park, G. T., Hsieh, P.-H., Nakamura, M., Lin, S. J. H., … Fischer, R. L. (2018). FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1713333115\">https://doi.org/10.1073/pnas.1713333115</a>","ista":"Frost JM, Kim MY, Park GT, Hsieh P-H, Nakamura M, Lin SJH, Yoo H, Choi J, Ikeda Y, Kinoshita T, Choi Y, Zilberman D, Fischer RL. 2018. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. 115(20), E4720–E4729.","ama":"Frost JM, Kim MY, Park GT, et al. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. <i>Proceedings of the National Academy of Sciences</i>. 2018;115(20):E4720-E4729. doi:<a href=\"https://doi.org/10.1073/pnas.1713333115\">10.1073/pnas.1713333115</a>","short":"J.M. Frost, M.Y. Kim, G.T. Park, P.-H. Hsieh, M. Nakamura, S.J.H. Lin, H. Yoo, J. Choi, Y. Ikeda, T. Kinoshita, Y. Choi, D. Zilberman, R.L. Fischer, Proceedings of the National Academy of Sciences 115 (2018) E4720–E4729.","ieee":"J. M. Frost <i>et al.</i>, “FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis,” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 20. National Academy of Sciences, pp. E4720–E4729, 2018."},"page":"E4720-E4729","external_id":{"pmid":["29712855"]},"issue":"20","type":"journal_article","has_accepted_license":"1","date_published":"2018-05-15T00:00:00Z","language":[{"iso":"eng"}],"date_created":"2021-06-07T06:11:28Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","intvolume":"       115","quality_controlled":"1","tmp":{"short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png"},"file":[{"file_name":"2018_PNAS_Frost.pdf","content_type":"application/pdf","success":1,"date_updated":"2021-06-07T06:16:38Z","relation":"main_file","checksum":"810260dc0e3cc3033e15c19ad0dc123e","file_id":"9472","access_level":"open_access","date_created":"2021-06-07T06:16:38Z","creator":"asandaue","file_size":3045260}],"article_type":"original","date_updated":"2021-12-14T07:53:40Z","publication_status":"published","extern":"1","department":[{"_id":"DaZi"}]},{"article_number":"035602","abstract":[{"lang":"eng","text":"Electrostatic charging of insulating fine particles can be responsible for numerous phenomena ranging from lightning in volcanic plumes to dust explosions. However, even basic aspects of how fine particles become charged are still unclear. Studying particle charging is challenging because it usually involves the complexities associated with many-particle collisions. To address these issues, we introduce a method based on acoustic levitation, which makes it possible to initiate sequences of repeated collisions of a single submillimeter particle with a flat plate, and to precisely measure the particle charge in situ after each collision. We show that collisional charge transfer between insulators is dependent on the hydrophobicity of the contacting surfaces. We use glass, which we modify by attaching nonpolar molecules to the particle, the plate, or both. We find that hydrophilic surfaces develop significant positive charges after contacting hydrophobic surfaces. Moreover, we demonstrate that charging between a hydrophilic and a hydrophobic surface is suppressed in an acidic environment and enhanced in a basic one. Application of an electric field during each collision is found to modify the charge transfer, again depending on surface hydrophobicity. We discuss these results within the context of contact charging due to ion transfer, and we show that they lend strong support to OH− ions as the charge carriers."}],"author":[{"first_name":"Victor","full_name":"Lee, Victor","last_name":"Lee"},{"last_name":"James","first_name":"Nicole","full_name":"James, Nicole"},{"last_name":"Waitukaitis","orcid":"0000-0002-2299-3176","first_name":"Scott R","full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Heinrich","full_name":"Jaeger, Heinrich","last_name":"Jaeger"}],"publisher":"American Physical Society","doi":"10.1103/PhysRevMaterials.2.035602","fulldoi":"https://doi.org/10.1103/PhysRevMaterials.2.035602","day":"29","year":"2018","_id":"95","status":"public","month":"03","publication":"Physical Review Materials","title":"Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer","oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1801.09278"}],"external_id":{"arxiv":["1801.09278"]},"citation":{"chicago":"Lee, Victor, Nicole James, Scott R Waitukaitis, and Heinrich Jaeger. “Collisional Charging of Individual Submillimeter Particles: Using Ultrasonic Levitation to Initiate and Track Charge Transfer.” <i>Physical Review Materials</i>. American Physical Society, 2018. <a href=\"https://doi.org/10.1103/PhysRevMaterials.2.035602\">https://doi.org/10.1103/PhysRevMaterials.2.035602</a>.","ista":"Lee V, James N, Waitukaitis SR, Jaeger H. 2018. Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer. Physical Review Materials. 2(3), 035602.","ama":"Lee V, James N, Waitukaitis SR, Jaeger H. Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer. <i>Physical Review Materials</i>. 2018;2(3). doi:<a href=\"https://doi.org/10.1103/PhysRevMaterials.2.035602\">10.1103/PhysRevMaterials.2.035602</a>","apa":"Lee, V., James, N., Waitukaitis, S. R., &#38; Jaeger, H. (2018). Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer. <i>Physical Review Materials</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevMaterials.2.035602\">https://doi.org/10.1103/PhysRevMaterials.2.035602</a>","mla":"Lee, Victor, et al. “Collisional Charging of Individual Submillimeter Particles: Using Ultrasonic Levitation to Initiate and Track Charge Transfer.” <i>Physical Review Materials</i>, vol. 2, no. 3, 035602, American Physical Society, 2018, doi:<a href=\"https://doi.org/10.1103/PhysRevMaterials.2.035602\">10.1103/PhysRevMaterials.2.035602</a>.","ieee":"V. Lee, N. James, S. R. Waitukaitis, and H. Jaeger, “Collisional charging of individual submillimeter particles: Using ultrasonic levitation to initiate and track charge transfer,” <i>Physical Review Materials</i>, vol. 2, no. 3. American Physical Society, 2018.","short":"V. Lee, N. James, S.R. Waitukaitis, H. Jaeger, Physical Review Materials 2 (2018)."},"issue":"3","publist_id":"7959","volume":2,"publication_status":"published","extern":"1","date_updated":"2021-01-12T08:22:09Z","date_published":"2018-03-29T00:00:00Z","type":"journal_article","quality_controlled":"1","arxiv":1,"intvolume":"         2","oa_version":"Preprint","date_created":"2018-12-11T11:44:36Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}]},{"publication_identifier":{"eissn":["1098-2418"],"issn":["1042-9832"]},"day":"01","fulldoi":"https://doi.org/10.1002/rsa.20815","publisher":"Wiley","doi":"10.1002/rsa.20815","oa":1,"article_processing_charge":"No","title":"Counting Hamilton cycles in sparse random directed graphs","scopus_import":"1","publication":"Random Structures and Algorithms","year":"2018","status":"public","_id":"9565","month":"12","author":[{"full_name":"Ferber, Asaf","first_name":"Asaf","last_name":"Ferber"},{"id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","full_name":"Kwan, Matthew Alan","orcid":"0000-0002-4003-7567","first_name":"Matthew Alan","last_name":"Kwan"},{"first_name":"Benny","full_name":"Sudakov, Benny","last_name":"Sudakov"}],"abstract":[{"lang":"eng","text":"Let D(n,p) be the random directed graph on n vertices where each of the n(n-1) possible arcs is present independently with probability p. A celebrated result of Frieze shows that if p≥(logn+ω(1))/n then D(n,p) typically has a directed Hamilton cycle, and this is best possible. In this paper, we obtain a strengthening of this result, showing that under the same condition, the number of directed Hamilton cycles in D(n,p) is typically n!(p(1+o(1)))n. We also prove a hitting-time version of this statement, showing that in the random directed graph process, as soon as every vertex has in-/out-degrees at least 1, there are typically n!(logn/n(1+o(1)))n directed Hamilton cycles."}],"date_updated":"2023-02-23T14:01:03Z","publication_status":"published","extern":"1","article_type":"original","date_created":"2021-06-18T12:06:28Z","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","oa_version":"Preprint","language":[{"iso":"eng"}],"arxiv":1,"intvolume":"        53","quality_controlled":"1","type":"journal_article","date_published":"2018-12-01T00:00:00Z","issue":"4","external_id":{"arxiv":["1708.07746"]},"page":"592-603","citation":{"ieee":"A. Ferber, M. A. Kwan, and B. Sudakov, “Counting Hamilton cycles in sparse random directed graphs,” <i>Random Structures and Algorithms</i>, vol. 53, no. 4. Wiley, pp. 592–603, 2018.","short":"A. Ferber, M.A. Kwan, B. Sudakov, Random Structures and Algorithms 53 (2018) 592–603.","ista":"Ferber A, Kwan MA, Sudakov B. 2018. Counting Hamilton cycles in sparse random directed graphs. Random Structures and Algorithms. 53(4), 592–603.","ama":"Ferber A, Kwan MA, Sudakov B. Counting Hamilton cycles in sparse random directed graphs. <i>Random Structures and Algorithms</i>. 2018;53(4):592-603. doi:<a href=\"https://doi.org/10.1002/rsa.20815\">10.1002/rsa.20815</a>","apa":"Ferber, A., Kwan, M. A., &#38; Sudakov, B. (2018). Counting Hamilton cycles in sparse random directed graphs. <i>Random Structures and Algorithms</i>. Wiley. <a href=\"https://doi.org/10.1002/rsa.20815\">https://doi.org/10.1002/rsa.20815</a>","mla":"Ferber, Asaf, et al. “Counting Hamilton Cycles in Sparse Random Directed Graphs.” <i>Random Structures and Algorithms</i>, vol. 53, no. 4, Wiley, 2018, pp. 592–603, doi:<a href=\"https://doi.org/10.1002/rsa.20815\">10.1002/rsa.20815</a>.","chicago":"Ferber, Asaf, Matthew Alan Kwan, and Benny Sudakov. “Counting Hamilton Cycles in Sparse Random Directed Graphs.” <i>Random Structures and Algorithms</i>. Wiley, 2018. <a href=\"https://doi.org/10.1002/rsa.20815\">https://doi.org/10.1002/rsa.20815</a>."},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1708.07746"}],"volume":53}]