Relevant bibliographies by topics / Ensemble FRET

Contents

  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers

Academic literature on the topic 'Ensemble FRET'

Author: Grafiati
Published: 6 September 2023

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Journal articles on the topic "Ensemble FRET"

1

Dagher, Milad, Michael Kleinman, Andy Ng, and David Juncker. "Ensemble multicolour FRET model enables barcoding at extreme FRET levels." Nature Nanotechnology 13, no. 10 (July 30, 2018): 925–32. http://dx.doi.org/10.1038/s41565-018-0205-0.

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Warrier, Anita R., Chithra Parameswaran, Jayachandra Bingi, and C. Vijayan. "FRET controlled photoluminescence inβ-In2S3microflower—Au nanoparticle ensemble." Materials Research Express 3, no. 6 (June 16, 2016): 065016. http://dx.doi.org/10.1088/2053-1591/3/6/065016.

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LeBlanc, Sharonda, Prakash Kulkarni, and Keith Weninger. "Single Molecule FRET: A Powerful Tool to Study Intrinsically Disordered Proteins." Biomolecules 8, no. 4 (November 8, 2018): 140. http://dx.doi.org/10.3390/biom8040140.

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Intrinsically disordered proteins (IDPs) are often modeled using ideas from polymer physics that suggest they smoothly explore all corners of configuration space. Experimental verification of this random, dynamic behavior is difficult as random fluctuations of IDPs cannot be synchronized across an ensemble. Single molecule fluorescence (or Förster) resonance energy transfer (smFRET) is one of the few approaches that are sensitive to transient populations of sub-states within molecular ensembles. In some implementations, smFRET has sufficient time resolution to resolve transitions in IDP behaviors. Here we present experimental issues to consider when applying smFRET to study IDP configuration. We illustrate the power of applying smFRET to IDPs by discussing two cases in the literature of protein systems for which smFRET has successfully reported phosphorylation-induced modification (but not elimination) of the disordered properties that have been connected to impacts on the related biological function. The examples we discuss, PAGE4 and a disordered segment of the GluN2B subunit of the NMDA receptor, illustrate the great potential of smFRET to inform how IDP function can be regulated by controlling the detailed ensemble of disordered states within biological networks.
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Lai, Wan-Jung C., and Dmitri N. Ermolenko. "Ensemble and single-molecule FRET studies of protein synthesis." Methods 137 (March 2018): 37–48. http://dx.doi.org/10.1016/j.ymeth.2017.12.007.

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Vandenberk, Niels. "Comparison of Organic Blue/Red Dye FRET Pairs via Ensemble and Single-Molecule FRET Spectroscopy." Biophysical Journal 114, no. 3 (February 2018): 167a—168a. http://dx.doi.org/10.1016/j.bpj.2017.11.938.

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Tang, Chun. "Decomposing NMR Ensemble with the Assistance of Single Molecule FRET." Biophysical Journal 116, no. 3 (February 2019): 470a. http://dx.doi.org/10.1016/j.bpj.2018.11.2541.

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Aznauryan, Mikayel, Leonildo Delgado, Andrea Soranno, Daniel Nettels, Jie-rong Huang, Alexander M. Labhardt, Stephan Grzesiek, and Benjamin Schuler. "Comprehensive structural and dynamical view of an unfolded protein from the combination of single-molecule FRET, NMR, and SAXS." Proceedings of the National Academy of Sciences 113, no. 37 (August 26, 2016): E5389—E5398. http://dx.doi.org/10.1073/pnas.1607193113.

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The properties of unfolded proteins are essential both for the mechanisms of protein folding and for the function of the large group of intrinsically disordered proteins. However, the detailed structural and dynamical characterization of these highly dynamic and conformationally heterogeneous ensembles has remained challenging. Here we combine and compare three of the leading techniques for the investigation of unfolded proteins, NMR spectroscopy (NMR), small-angle X-ray scattering (SAXS), and single-molecule Förster resonance energy transfer (FRET), with the goal of quantitatively testing their consistency and complementarity and for obtaining a comprehensive view of the unfolded-state ensemble. Using unfolded ubiquitin as a test case, we find that its average dimensions derived from FRET and from structural ensembles calculated using the program X-PLOR-NIH based on NMR and SAXS restraints agree remarkably well; even the shapes of the underlying intramolecular distance distributions are in good agreement, attesting to the reliability of the approaches. The NMR-based results provide a highly sensitive way of quantifying residual structure in the unfolded state. FRET-based nanosecond fluorescence correlation spectroscopy allows long-range distances and chain dynamics to be probed in a time range inaccessible by NMR. The combined techniques thus provide a way of optimally using the complementarity of the available methods for a quantitative structural and dynamical description of unfolded proteins both at the global and the local level.
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Pushina, Mariia, Sepideh Farshbaf, Elena G. Shcherbakova, and Pavel Anzenbacher. "A dual chromophore sensor for the detection of amines, diols, hydroxy acids, and amino alcohols." Chemical Communications 55, no. 31 (2019): 4495–98. http://dx.doi.org/10.1039/c9cc01051c.

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The determination of enantiomeric excess (ee) in various groups of chiral compounds, namely amines, amino alcohols, diols, and hydroxy acids is performed using a dual chromophore FRET/PET based sensor ensemble.
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Schaaf, Tory M., Kurt C. Peterson, Benjamin D. Grant, David D. Thomas, and Gregory D. Gillispie. "Spectral Unmixing Plate Reader: High-Throughput, High-Precision FRET Assays in Living Cells." SLAS DISCOVERY: Advancing the Science of Drug Discovery 22, no. 3 (November 23, 2016): 250–61. http://dx.doi.org/10.1177/1087057116679637.

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We have developed a microplate reader that records a complete high-quality fluorescence emission spectrum on a well-by-well basis under true high-throughput screening (HTS) conditions. The read time for an entire 384-well plate is less than 3 min. This instrument is particularly well suited for assays based on fluorescence resonance energy transfer (FRET). Intramolecular protein biosensors with genetically encoded green fluorescent protein (GFP) donor and red fluorescent protein (RFP) acceptor tags at positions sensitive to structural changes were stably expressed and studied in living HEK cells. Accurate quantitation of FRET was achieved by decomposing each observed spectrum into a linear combination of four component (basis) spectra (GFP emission, RFP emission, water Raman, and cell autofluorescence). Excitation and detection are both conducted from the top, allowing for thermoelectric control of the sample temperature from below. This spectral unmixing plate reader (SUPR) delivers an unprecedented combination of speed, precision, and accuracy for studying ensemble-averaged FRET in living cells. It complements our previously reported fluorescence lifetime plate reader, which offers the feature of resolving multiple FRET populations within the ensemble. The combination of these two direct waveform-recording technologies greatly enhances the precision and information content for HTS in drug discovery.
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Bhattacharya, Supriyo, and Xingcheng Lin. "Recent Advances in Computational Protocols Addressing Intrinsically Disordered Proteins." Biomolecules 9, no. 4 (April 11, 2019): 146. http://dx.doi.org/10.3390/biom9040146.

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Intrinsically disordered proteins (IDP) are abundant in the human genome and have recently emerged as major therapeutic targets for various diseases. Unlike traditional proteins that adopt a definitive structure, IDPs in free solution are disordered and exist as an ensemble of conformations. This enables the IDPs to signal through multiple signaling pathways and serve as scaffolds for multi-protein complexes. The challenge in studying IDPs experimentally stems from their disordered nature. Nuclear magnetic resonance (NMR), circular dichroism, small angle X-ray scattering, and single molecule Förster resonance energy transfer (FRET) can give the local structural information and overall dimension of IDPs, but seldom provide a unified picture of the whole protein. To understand the conformational dynamics of IDPs and how their structural ensembles recognize multiple binding partners and small molecule inhibitors, knowledge-based and physics-based sampling techniques are utilized in-silico, guided by experimental structural data. However, efficient sampling of the IDP conformational ensemble requires traversing the numerous degrees of freedom in the IDP energy landscape, as well as force-fields that accurately model the protein and solvent interactions. In this review, we have provided an overview of the current state of computational methods for studying IDP structure and dynamics and discussed the major challenges faced in this field.
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Dissertations / Theses on the topic "Ensemble FRET"

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Sharma, Shruti. "Unfolding and compaction in chaperonin-assisted protein folding followed by single molecule and ensemble FRET." Diss., lmu, 2007. http://nbn-resolving.de/urn:nbn:de:bvb:19-76225.

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Stenström, Harald. "Free ensemble improvisation /." Göteborg : Faculty of Fine, Applied and Performing Arts, Academy of Music and Drama, University of Gothenburg, 2009. http://hdl.handle.net/2077/20293.

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Stubblefield, Cedrick L. "Extracting value from ensembles for cloud-free forecasting." Monterey, California. Naval Postgraduate School, 2011. http://hdl.handle.net/10945/10796.

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The Air Force Weather Agency (AFWA) is currently producing cloud-free forecasts for several agencies, but operational forecasts do not incorporate forecast uncertainty. Uncertainty can be forecasted via an ensemble created with perturbed initial conditions. We combine AFWA's global cloud analysis and cloud advection model with the National Centers for Environmental Prediction's global weather ensemble to study the potential for ensemble cloud-free forecasting in support of space-based image collection. A year of ensemble forecasts forms the evaluation dataset. The operationally relevant cloud-free forecast threshold (cloud cover less than 30%) is evaluated over sets of 24-km grid boxes in three climatologically different regions. The analyses and forecasts favor cloud-cover values near 0% and 100% cloud cover, making skill metrics that assume normal statistics mostly inappropriate. Thus we focus on contingency table metrics at the 30% threshold and argue that the odds ratio is most appropriate. Because costs of satellite image collection are largely unknown or classified, and typical cost/loss models may not apply, we also invoke utility theory to quantify operator benefits obtainable from the ensemble. Ensemble skill is apparent, and utility for risk-averse users in persistently clear, cloudy, and variable regions/seasons yields up to a 20% increase in operational efficiency.
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Watson, Samuel Stewart 1986. "Conformal loop ensembles and the Gaussian free field." Thesis, Massachusetts Institute of Technology, 2015. http://hdl.handle.net/1721.1/97319.

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Thesis: Ph. D., Massachusetts Institute of Technology, Department of Mathematics, 2015.
Cataloged from PDF version of thesis.
Includes bibliographical references (pages 173-178).
The study of two-dimensional statistical physics models leads naturally to the analysis of various conformally invariant mathematical objects, such as the Gaussian free field, the Schramm-Loewner evolution, and the conformal loop ensemble. Just as Brownian motion is a scaling limit of discrete random walks, these objects serve as universal scaling limits of functions or paths associated with the underlying discrete models. We establish a new convergence result for percolation, a well-studied discrete model. We also study random sets of points surrounded by exceptional numbers of conformal loop ensemble loops and establish the existence of a random generalized function describing the nesting of the conformal loop ensemble. Using this framework, we study the relationship between Gaussian free field extrema and nesting extrema of the ensemble of Gaussian free field level loops. Finally, we describe a coupling between the set of all Gaussian free field level loops and a conformal loop ensemble growth process introduced by Werner and Wu. We prove that the dynamics are determined by the conformal loop ensemble in this coupling, and we use this result to construct a conformally invariant metric space.
by Samuel Stewart Watson.
Ph. D.
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Li, Rui. "OVERCOMING INITIAL HURDLES: STRATEGIES FOR DEVELOPING A UNIVERSITY FREE IMPROVISATION ENSEMBLE." UKnowledge, 2015. http://uknowledge.uky.edu/music_etds/52.

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New free improvisers may come across six major problems as they learn to improvise: imbalance between technique and music, incorrect perception of limitation, imbalance between rationality and emotion, lack of enthusiasm, inability to view criticism as a source of creativity, and misunderstanding of mistakes and risks. In this thesis, I propose a set of effective pedagogical tools as possible solutions for students and groups interested in exploring the beauty of free improvisation.
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Eriksson, Jesper. "My Improvisation Practice : the act of improvising in individual instrumental practice, collaboration projects and performance." Thesis, Kungl. Musikhögskolan, Institutionen för klassisk musik, 2014. http://urn.kb.se/resolve?urn=urn:nbn:se:kmh:diva-1654.

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In this study I research and reflect on the way I have been practicing with my saxophone, how I have been collaborating with others and how I’ve worked with performance during my two master years, with a focus on improvisation. The study is a presentation of my Professional Integration Project on NAIP-European Master of Music-program. I have had many different projects that will be presented. By playing, listening, and analyzing free improvisation I wanted to learn more about myself as a musician and about improvisation in general. I am also going to present individual exercises for improvisation I’ve been using, as well as exercises for group improvisation. I am going to present time-lines of events to see how one thing leads to another. I will present the product of a piece with improvised aspects, that led me and my collaborators to find our own ways of rehearsing. By summarizing the many aspects, I present my findings by describing what I want to learn, and how I want to learn it, and how I’ve been working with free improvisation groups and music collaboration, and what is important for me while performing improvisations. The findings of my studies suggest that I have developed my improvisational skills by playing free improvisation and doing exercises. My projects has also shown that you can combine written music with improvisational aspects in a classical setting by using different ways of rehearsing. Lastly, I found that it is important that, while improvising, musicians have a total mental presence to avoid energy loss in the music.

Självständiga arbete, Master, 40 hp.

Program examenskonsert:

ImprovisationKvintett

Jesper Eriksson saxofon, Linnea Andreassen röst, Maiju Kopra röst, Viktor Rydén röst, Amanda Larsson röst.

Jesper ErikssonKvartett (2014), uruppförande

Alexander Rydberg violin, Jesper Eriksson saxofon, Emma Augustsson cello, Anton Svanberg tuba.

ImprovisationTrio

Jesper Eriksson saxofon, Jaan Krivel röst och klarinett, Kristoffer Linder slagverk

Extranummer: Friimprovisationsorkester

Jesper Eriksson saxofon, Alexander Rydberg violin, Emma Augustsson cello, Anton Svanberg tuba, Linnea Andreassen röst, Maiju Kopra röst, Viktor Rydén röst, Amanda Larsson röst, Jaan Krivel röst och klarinett, Kristoffer Linder slagverk, Bernhard Greter piano.

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Martínez, Monge Álvaro. "Free energy and information-content measurements in thermodynamic and molecular ensembles." Doctoral thesis, Universitat de Barcelona, 2019. http://hdl.handle.net/10803/667026.

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Single-molecule experiments have emerged as a powerful tool that allow researchers to investigate the physical behavior of individual molecules with unprecedented resolution. The feasibility exerting forces at the piconewton scale (10^-12 N) and measuring nanometric displacements in the sub-millisecond scale, offer a widespread range of exciting possibilities. The major part of this thesis is devoted to address fundamental topics of statistical physics using single-molecule experiments. In particular, in the first part of the thesis, we aimed to study one of the eldest questions in statistical mechanics: the issue of ensemble inequivalence. By performing single- molecule experiments on a well-known molecule (the CD4 DNA hairpin), we have been able of exploring two conjugate ensembles: the fixed-extension and the force-fixed ensemble. Both ensembles are conjugate with respect to energy since the product force times extension equals has energy dimensions. We carried out experiments in the fixed-force ensemble using both optical tweezers and magnetic tweezers, and in the fixed-extension using optical tweezers. We have found that these two conjugate ensembles are not equivalent at the level of thermodynamics nor in kinetics. Moreover, we showed that the often-neglected boundary terms in the definition of the thermodynamic work are essential to the validity of the fluctuation theorem. The second part of this thesis is also merely theoretical. Recent single-molecule assays confirmed the connection between information theory and statistical physics. Single- molecule experiments have turned out to be the perfect playground to explore the thermodynamic implications of having —or lacking— information. It is worthwhile to mention the experimental realization of the Szilard engine and the experimental verification of Landauer’s limit. With the current existing results, the information-to- energy connection is well established. We have been able to experimentally demonstrate, for the first time, the reversed implication. We have been able to quantify the information-content of neutral molecular ensembles by means of thermodynamic measurements. That is, we experimentally demonstrated the energy- to-information conversion. Our works are built on what we call ensemble force spectroscopy, a systematic procedure capable of obtaining a robust characterization of molecular ensembles in the best tradition of statistical physics, by measuring few tens of molecules. In the final part of the thesis we aimed to measure the specific binding energy of a metallic ion to the tertiary structure of a three-way RNA junction belonging to the central domain of the 16S ribosomal RNA (rRNA). From the physics perspective, to the best of our knowledge, first time we have been able to discern the free energy contribution due to the specific binding of magnesium ions to an RNA substrate by means of single-molecule assays. On the other hand, such molecule is able to form, besides its native conformation, a force-induced misfolded state. Despite this fact was already pointed out in previous single-molecule studies, there was a lack of knowledge regarding the molecular kinetics and the folding pathway. Aiming to fill this gap, we performed a thorough study of the three-helix RNA junction using dynamic force spectroscopy. As a result, we have characterized the full folding pathway of the molecule, including both the native and the misfolded structure. Furthermore, we have experimentally confirmed the fact that the presence of magnesium promotes the stabilization of the native structure and we have measured this contribution. We have found that magnesium is able to rescue the native structure from the misfolded structure via electrostatic interactions due to magnesium binding. This fact is biologically relevant, since we have been able to characterize the conditions in which a misfolded molecule is able to recover its native conformation.
En esta tesis hemos abordado cuestiones fundamentales de la física estadística. En particular, hemos estudiado el problema de la equivalencia entre colectivos estadísticos, la conversión de energía a información y el estudio de las energías específicas de unión de iones metálicos a sustratos de RNA. Esta tesis doctoral se ha llevado a cabo empleando dos de los instrumentos de molécula individual más conocidos, las pinzas ópticas y las pinzas magnéticas. Ambas son técnicas que permiten la aplicación controlada de fuerzas mecánicas a los extremos de una molécula individual. El poder aplicar fuerzas a sistemas moleculares permite llevar a cabo una profunda caracterización de las propiedades físicas de los llamados sistemas pequeños. Las dimensiones de estos sistemas abarcan desde unos pocos nanómetros —una millonésima parte del metro— hasta varios cientos de nanómetros. Además, los sistemas pequeños están lejos del llamado límite termodinámico y están dominados por las fluctuaciones térmicas del entorno. Por lo tanto, debido a estas peculiaridades, el estudio de sistemas pequeños mediante los instrumentos de molécula individual permite impulsar y extender los horizontes de la física de no equilibrio.
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Westerlund, Annie M. "Computational Study of Calmodulin’s Ca2+-dependent Conformational Ensembles." Licentiate thesis, KTH, Biofysik, 2018. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-234888.

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Ca2+ and calmodulin play important roles in many physiologically crucial pathways. The conformational landscape of calmodulin is intriguing. Conformational changes allow for binding target-proteins, while binding Ca2+ yields population shifts within the landscape. Thus, target-proteins become Ca2+-sensitive upon calmodulin binding. Calmodulin regulates more than 300 target-proteins, and mutations are linked to lethal disorders. The mechanisms underlying Ca2+ and target-protein binding are complex and pose interesting questions. Such questions are typically addressed with experiments which fail to provide simultaneous molecular and dynamics insights. In this thesis, questions on binding mechanisms are probed with molecular dynamics simulations together with tailored unsupervised learning and data analysis. In Paper 1, a free energy landscape estimator based on Gaussian mixture models with cross-validation was developed and used to evaluate the efficiency of regular molecular dynamics compared to temperature-enhanced molecular dynamics. This comparison revealed interesting properties of the free energy landscapes, highlighting different behaviors of the Ca2+-bound and unbound calmodulin conformational ensembles. In Paper 2, spectral clustering was used to shed light on Ca2+ and target protein binding. With these tools, it was possible to characterize differences in target-protein binding depending on Ca2+-state as well as N-terminal or C-terminal lobe binding. This work invites data-driven analysis into the field of biomolecule molecular dynamics, provides further insight into calmodulin’s Ca2+ and targetprotein binding, and serves as a stepping-stone towards a complete understanding of calmodulin’s Ca2+-dependent conformational ensembles.

QC 20180912

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Nungesser, Ernesto [Verfasser]. "The future of some Bianchi A spacetimes with an ensemble of free falling particles / Ernesto Nungesser." Berlin : Freie Universität Berlin, 2012. http://d-nb.info/1027308546/34.

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Hartz, Barry C. "Cultivating Individual Musicianship and Ensemble Performance Through Notation-Free Learning in Three High School Band Programs." Case Western Reserve University School of Graduate Studies / OhioLINK, 2015. http://rave.ohiolink.edu/etdc/view?acc_num=case1435244359.

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Books on the topic "Ensemble FRET"

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Coleman, Ornette. Live Manchester free trade Hall 1966. [Place of publication not identified]: Hi Hat Records, 2018.

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Schickele, Peter. Fanfare for Fred: (S. F4F) for trumpets, horns, and percussion. Bryn Mawr, Pa: T. Presser, 1993.

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Seitz, Evan Elliott. Analysis of Conformational Continuum and Free-energy Landscapes from Manifold Embedding of Single-particle Cryo-EM Ensembles of Biomolecules. [New York, N.Y.?]: [publisher not identified], 2022.

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Barzel, Tamar. “We Began from Silence”. Oxford University Press, 2018. http://dx.doi.org/10.1093/oso/9780190842741.003.0010.

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In the late 1970s, the Mexican ensemble Atrás del Cosmos, a pioneering free improvisation collective (1975–1983), held an eight-month residency at El Galeón, a city theater. Jazz and experimental theater were twin touchstones for the ensemble, which adapted ideas borrowed from Alejandro Jodorowsky, a Chilean expatriate known for his radical influence on the city’s 1960s theater scene, including the notion that theatrical performance should shatter social decorum and elicit liberating ways of being-in-the-world. For Atrás del Cosmos, art’s transformative potential also lay in articulating a personal voice in a collective context—a central tenet of jazz and African-American expressive culture. The ensemble’s multivalent genealogy, as well as its collaborations with US-based improvisers—notably trumpeter Don Cherry—bolster arguments for the transnational nature of twentieth-century “American” music. This chapter proposes Vijay Iyer’s notion of “embodied empathy” as a key to understanding the ensemble’s immediate social impact and its lasting historical significance.
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Horing, Norman J. Morgenstern. Quantum Mechanical Ensemble Averages and Statistical Thermodynamics. Oxford University Press, 2018. http://dx.doi.org/10.1093/oso/9780198791942.003.0006.

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Chapter 6 introduces quantum-mechanical ensemble theory by proving the asymptotic equivalence of the quantum-mechanical, microcanonical ensemble average with the quantum grand canonical ensemble average for many-particle systems, based on the method of Darwin and Fowler. The procedures involved identify the grand partition function, entropy and other statistical thermodynamic variables, including the grand potential, Helmholtz free energy, thermodynamic potential, Gibbs free energy, Enthalpy and their relations in accordance with the fundamental laws of thermodynamics. Accompanying saddle-point integrations define temperature (inverse thermal energy) and chemical potential (Fermi energy). The concomitant emergence of quantum statistical mechanics and Bose–Einstein and Fermi–Dirac distribution functions are discussed in detail (including Bose condensation). The magnetic moment is derived from the Helmholtz free energy and is expressed in terms of a one-particle retarded Green’s function with an imaginary time argument related to inverse thermal energy. This is employed in a discussion of diamagnetism and the de Haas-van Alphen effect.
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Kravtsov, Vladimir. Heavy-tailed random matrices. Edited by Gernot Akemann, Jinho Baik, and Philippe Di Francesco. Oxford University Press, 2018. http://dx.doi.org/10.1093/oxfordhb/9780198744191.013.13.

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This article considers non-Gaussian random matrices consisting of random variables with heavy-tailed probability distributions. In probability theory heavy tails of distributions describe rare but violent events which usually have a dominant influence on the statistics. Furthermore, they completely change the universal properties of eigenvalues and eigenvectors of random matrices. This article focuses on the universal macroscopic properties of Wigner matrices belonging to the Lévy basin of attraction, matrices representing stable free random variables, and a class of heavy-tailed matrices obtained by parametric deformations of standard ensembles. It first examines the properties of heavy-tailed symmetric matrices known as Wigner–Lévy matrices before discussing free random variables and free Lévy matrices as well as heavy-tailed deformations. In particular, it describes random matrix ensembles obtained from standard ensembles by a reweighting of the probability measure. It also analyses several matrix models belonging to heavy-tailed random matrices and presents methods for integrating them.
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van Moerbeke, Pierre. Determinantal point processes. Edited by Gernot Akemann, Jinho Baik, and Philippe Di Francesco. Oxford University Press, 2018. http://dx.doi.org/10.1093/oxfordhb/9780198744191.013.11.

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This article presents a list of algebraic, combinatorial, and analytic mechanisms that give rise to determinantal point processes. Determinantal point processes have been used in random matrix theory (RMT) since the early 1960s. As a separate class, determinantal processes were first used to model fermions in thermal equilibrium and the term ‘fermion’ point processes were adopted. The article first provides an overview of the generalities associated with determinantal point processes before discussing loop-free Markov chains, that is, the trajectories of the Markov chain do not pass through the same point twice almost surely. It then considers the measures given by products of determinants, namely, biorthogonal ensembles. An especially important subclass of biorthogonal ensembles consists of orthogonal polynomial ensembles. The article also describes L-ensembles, a general construction of determinantal point processes via the Fock space formalism, dimer models, uniform spanning trees, Hermitian correlation kernels, and Pfaffian point processes.
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Anchors Aweigh: Legally Reproducible Orchestra Parts for Elementary Ensemble with Free Online, MP3 Accompaniment Track. Independently Published, 2018.

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Newman, Larry E. Holiday Medley: Legally Reproducible Orchestra Parts for Elementary Ensemble with Free Online MP3 Accompaniment Track. Independently Published, 2018.

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Deruelle, Nathalie, and Jean-Philippe Uzan. Rotating systems. Oxford University Press, 2018. http://dx.doi.org/10.1093/oso/9780198786399.003.0025.

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This chapter continues the discussion of the laws of relativistic dynamics for systems of point particles, beginning with the law of angular momentum conservation in collisions. It considers an ensemble of free particles each characterized by its (constant) momentum pa. The total momentum p = Σ‎apa does not depend on the inertial frame used, but the angular momentum will depend on the frame, because its definition involves radius vectors between an event reference point and points qa on the particle world lines. Furthermore, these are chosen to be simultaneous in a given frame. The chapter also formulates the equations of motion for particles possessing an internal rotation or ‘spin’.
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Book chapters on the topic "Ensemble FRET"

1

Haas, Elisha. "Ensemble FRET Methods in Studies of Intrinsically Disordered Proteins." In Methods in Molecular Biology, 467–98. Totowa, NJ: Humana Press, 2012. http://dx.doi.org/10.1007/978-1-61779-927-3_28.

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Islam, Farhana, Manali Basu, and Padmaja Prasad Mishra. "From Ensemble FRET to Single-Molecule Imaging: Monitoring Individual Cellular Machinery in Action." In Optical Spectroscopic and Microscopic Techniques, 113–42. Singapore: Springer Singapore, 2022. http://dx.doi.org/10.1007/978-981-16-4550-1_6.

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Orevi, Tomer, Eitan Lerner, Gil Rahamim, Dan Amir, and Elisha Haas. "Ensemble and Single-Molecule Detected Time-Resolved FRET Methods in Studies of Protein Conformations and Dynamics." In Methods in Molecular Biology, 113–69. Totowa, NJ: Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-649-8_7.

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Abaimov, Sergey G. "Ensemble Theory in Statistical Physics: Free Energy Potential." In Springer Series in Synergetics, 55–147. Cham: Springer International Publishing, 2015. http://dx.doi.org/10.1007/978-3-319-12469-8_2.

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Stephenson, Janet. "Cultural Stability." In Culture and Sustainability, 95–123. Cham: Springer International Publishing, 2023. http://dx.doi.org/10.1007/978-3-031-25515-1_5.

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AbstractCulture’s tendency to resist change, or to change only incrementally, is often described as one of its defining features. This resilience can be beneficial if cultural ensembles have positive sustainability outcomes, but problematic where they do not. This chapter draws from research that has used the cultures framework to examine cultural stasis and the mechanisms by which cultural ensembles endure. It starts with examples of culture’s role in sustainability-related outcomes. Consistent cultural patterns relating to particular outcomes (e.g. household energy efficiency, mobility choices) can be identified across populations. The chapter then describes the various processes by which cultural arrangements resist change. These include dynamic alignments within cultural ensembles, cultural actors’ lack of agency and external influences on cultural arrangements. The examples show how the framework offers a universal, scale-free model for the analysis of culture in the context of sustainability.
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Sugita, Yuji, and Yuko Okamoto. "Free-Energy Calculations in Protein Folding by Generalized-Ensemble Algorithms." In Lecture Notes in Computational Science and Engineering, 304–32. Berlin, Heidelberg: Springer Berlin Heidelberg, 2002. http://dx.doi.org/10.1007/978-3-642-56080-4_13.

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Backhaus, Hendrik, Nicolas Ruffini, Anna Wierczeiko, and Albrecht Stroh. "An All-Optical Physiology Pipeline Toward Highly Specific and Artifact-Free Circuit Mapping." In Neuromethods, 137–63. New York, NY: Springer US, 2023. http://dx.doi.org/10.1007/978-1-0716-2764-8_5.

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AbstractAll-optical physiology of neuronal microcircuits requires the integration of optogenetic perturbation and optical imaging, efficient opsin and indicator co-expression, and tailored illumination schemes. It furthermore demands concepts for system integration and a dedicated analysis pipeline for calcium transients in an event-related manner. Here, firstly, we put forward a framework for the specific requirements for technical system integration particularly focusing on temporal precision. Secondly, we devise a step-by-step guide for the image analysis in the context of an all-optical physiology experiment. Starting with the raw image, we present concepts for artifact avoidance, the extraction of fluorescence intensity traces on single-neuron basis, the identification and binarization of putatively action-potential-related calcium transients, and finally ensemble activity analysis.
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Hukushima, K. "Domain-Wall Free Energy of Spin-Glass Models: An Extended Ensemble Approach." In Springer Proceedings in Physics, 137–52. Berlin, Heidelberg: Springer Berlin Heidelberg, 2001. http://dx.doi.org/10.1007/978-3-642-56577-9_17.

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Johnson, Peter, and Mariana Lilley. "Software Prototype for the Ensemble of Automated Accessibility Evaluation Tools." In Communications in Computer and Information Science, 532–39. Cham: Springer International Publishing, 2022. http://dx.doi.org/10.1007/978-3-031-06417-3_71.

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AbstractWeb accessibility evaluation is concerned with assessing the extent to which web content meets accessibility guidelines. Web accessibility evaluation is typically conducted using manual inspection, user testing and automated testing. The process of automating aspects of accessibility evaluation is of interest to accessibility evaluation practitioners due to manual evaluations requiring substantial time and effort [1]. The use of multiple evaluation tools is recommended [9, 9]; however, aggregating and summarising the results from multiple tools can be challenging [1].This paper presents a Python software prototype for the automatic ensemble of web accessibility evaluation tools. The software prototype performs website accessibility evaluations against the WCAG 2.1 AA guidelines by utilising a combination of four free and commercial evaluation tools. The results from the tools are aggregated and presented in a report for evaluation.The tool enables practitioners to benefit from a coherent report of the findings of different accessibility conformance testing tools, without having to run each separately and then manually combine the results of the tests. Thus, it is envisaged that the tool will provide practitioners with reliable data about unmet accessibility guidelines in an efficient manner.
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Barber-Kersovan, Alenka, and Volker Kirchberg. "Free ensembles and small (chamber) orchestras as innovative drivers of classical music in Germany." In Innovation in Music, 290–305. New York: Routledge, 2021. | Series: Perspectives on music production: Focal Press, 2020. http://dx.doi.org/10.4324/9780429345388-22.

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Conference papers on the topic "Ensemble FRET"

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Pons, Thomas, Igor L. Medintz, and Hedi Mattoussi. "Probing the effects of spectral overlap on quantum-dot-based FRET: Ensemble and single molecule studies." In Biomedical Optics 2006, edited by Marek Osinski, Kenji Yamamoto, and Thomas M. Jovin. SPIE, 2006. http://dx.doi.org/10.1117/12.663321.

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Bisaillon, Philippe, Ajit Desai, Mohammad Khalil, Chris Pettit, Dominique Poirel, and Abhijit Sarkar. "A parallel update step of a sampling-free EnKF-type %0Clter." In Proposed for presentation at the Ensemble Kalman Filter Workshop held June 7-11, 2021. US DOE, 2021. http://dx.doi.org/10.2172/1872702.

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Georgiou, Ioannis T. "Acquirement and Interpretation of Spatially Distributed Impulsive Acceleration Signals in a Flexible Shaft-Propeller System." In ASME 2012 International Design Engineering Technical Conferences and Computers and Information in Engineering Conference. American Society of Mechanical Engineers, 2012. http://dx.doi.org/10.1115/detc2012-70510.

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This work reports on the spatio-temporal characterization of collocated ensembles of experimental time series of the impulsive dynamics in a complex flexible structural-machinery system composed of a shaft supporting at its free end a three-bladed boat propeller. A few state-of-the-art piezoelectric accelerometers sample simultaneously the impulsive response of the system as a function of the location of a modal hammer force applied sequentially over a global interrogation curve. The typical ensemble of collocated signals is subject to a systematic coherence analysis by advanced tools based on the theory of Proper Orthogonal Decomposition (POD) transforms. It turns out that three different collocated ensembles of acceleration signals, collected at the blades at symmetric locations, are very coherent and robust as distributed information over the space-time domain. The characteristics of coherence of the collocated databases are studied in depth by presenting a detailed POD analysis at the system and subsystems levels. The main result is the fact that the POD modes of collocated acceleration databases that exploit structural symmetries seem to provide reliable means to detect sharply differences-due to damage and perhaps design fault-in the subsystem impulsive response.
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Zhong, Chong Xia, Yue Qing Xu, Jun Yang, and Sheng Kang Zhang. "Study of algorithm to ensemble atomic time." In 2009 Joint Meeting of the European Frequency and Time Forum (EFTF) and the IEEE International Frequency Control Symposium (FCS). IEEE, 2009. http://dx.doi.org/10.1109/freq.2009.5168266.

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Maliakal, Ashok. "Estimation of multimode pump ensemble reliability using Monte Carlo simulation to account for derating and variable stress profiles." In Free-Space Laser Communications XXXI, edited by Hamid Hemmati and Don M. Boroson. SPIE, 2019. http://dx.doi.org/10.1117/12.2510227.

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Peil, Steven, Scott Crane, Thomas B. Swanson, and Christopher R. Ekstrom. "Rubidium-Fountain Characterization Using the USNO Clock Ensemble." In 2007 IEEE International Frequency Control Symposium Joint with the 21st European Frequency and Time Forum. IEEE, 2007. http://dx.doi.org/10.1109/freq.2007.4319119.

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Gagné, Christian, Michèle Sebag, Marc Schoenauer, and Marco Tomassini. "Ensemble learning for free with evolutionary algorithms?" In the 9th annual conference. New York, New York, USA: ACM Press, 2007. http://dx.doi.org/10.1145/1276958.1277317.

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Guena, J., F. Chapelet, P. Rosenbusch, P. Laurent, M. Abgrall, G. D. Rovera, G. Santarelli, S. Bize, A. Clairon, and M. E. Tobar. "New measurement of the rubidium hyperfine frequency using LNE-SYRTE fountain ensemble." In 2008 IEEE International Frequency Control Symposium. IEEE, 2008. http://dx.doi.org/10.1109/freq.2008.4623021.

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Steuben, J. C., J. G. Michopoulos, A. P. Iliopoulos, B. D. Graber, and A. J. Birnbaum. "Multiscale Tomographic Wave-Matter Interaction Modeling to Enable Artifact-Free Material Defect Reconstruction." In ASME 2020 International Design Engineering Technical Conferences and Computers and Information in Engineering Conference. American Society of Mechanical Engineers, 2020. http://dx.doi.org/10.1115/detc2020-22474.

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Abstract The fabrication and subsequent in-service excitation of materials/structures invariably generates significant defects including cracks, voids and inclusions, spanning many length scales. The various technologies available for detecting and qualitatively describing such defects suffer from the introduction of various degrees inaccuracy when it comes to the quantification of defect geometry. This can have an adverse impact on modeling and understanding how the material/part/structure performance is effected by these defects. The main cause of this shortcoming is that aspects of the physical processes used to interrogate the material system, using monochromatic or polychromatic waves such as X-ray, mm-wave, or ultrasound, are not taken into account. These waves interact with the multiscale defect ensemble in a complex fashion that inevitably produces spurious “artifacts” in the resulting data, which cannot be removed via conventional data post-processing. These artifacts then introduce unacceptable levels of error when reconstructing defect geometry and computing the remaining lifespan of defect-bearing materials/structures. The present work introduces preliminary efforts towards a multiscale modeling and simulation framework for capturing the interactions of waves (such as X-rays) with materials bearing defect ensembles. It is shown that conventional approaches such as ray tracing are not adequate, and a more robust solution to the relevant wave equations utilizing the Finite Element discretization is employed. A general parameterization of defect geometries based on superquadratic functions is also introduced, and the interactions of defects modeled in this fashion with X-rays are investigated. It is also shown that this combination of parameterization and modeling techniques allows the recovery of true, artifact-free defect geometry utilizing classical inverse methods. The methodology is demonstrated using synthetic tomographic data, and the path forward to a more complete realization of this technology is outlined.
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Tachioka, Yuuki, Tomohiro Narita, Shinji Watanabe, and Jonathan Le Roux. "Ensemble integration of calibrated speaker localization and statistical speech detection in domestic environments." In 2014 4th Joint Workshop on Hands-free Speech Communication and Microphone Arrays (HSCMA). IEEE, 2014. http://dx.doi.org/10.1109/hscma.2014.6843272.

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