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1. Laser-FLASH: radiobiology at high dose, ultra-high dose-rate, single pulse laser-driven proton source

Author

Flacco, A., Bayart, E., Giaccaglia, C., Monzac, J., Romagnani, L., Cavallone, M., Patriarca, A., DeMarzi, L., Heinrich, S., Lamarre-Jouenne, I., Parodi, K., Rösch, T., Schreiber, J., and Tischendorf, L.

Subjects
Physics - Medical Physics, Physics - Applied Physics, Physics - Plasma Physics
Abstract

Laser-driven proton sources have long been developed with an eye on their potential for medical application to radiation therapy. These sources are compact, versatile, and show peculiar characteristics such as extreme instantaneous dose rates, short duration and broad energy spectrum. Typical temporal modality of laser-driven irradiation, the so-called fast-fractionation, results from the composition of multiple, temporally separated, ultra-short dose fractions. In this paper we present the use of a high-energy laser system for delivering the target dose in a single nanosecond pulse, for ultra-fast irradiation of biological samples. A transport line composed by two permanent magnet quadrupoles and a scattering system is used to improve the dose profile and to control the delivered dose-per-pulse. A single-shot dosimetry protocol for the broad-spectrum proton source using Monte Carlo simulations was developed. Doses as high as 20Gy could be delivered in a single shot, lasting less than 10ns over a 1.0cm diameter sample holder, at a dose-rate exceeding 10^9 Gy/s. Exploratory application of extreme laser-driven irradiation conditions, falling within the FLASH irradiation protocol, are presented for in vitro and in vivo irradiation are presented. A reduction of radiation-induced oxidative stress in-vitro and radiation-induced developmental damage in vivo were observed, whereas anti-tumoral efficacy was confirmed by cell survival assay., Comment: 13 pages, 15 figures

Published
2024

2. The Importance of Adaptive Decision-Making for Autonomous Long-Range Planetary Surface Mobility

Author

Lamarre, Olivier and Kelly, Jonathan

Subjects
Computer Science - Robotics
Abstract

Long-distance driving is an important component of planetary surface exploration. Unforeseen events often require human operators to adjust mobility plans, but this approach does not scale and will be insufficient for future missions. Interest in self-reliant rovers is increasing, however the research community has not yet given significant attention to autonomous, adaptive decision-making. In this paper, we look back at specific planetary mobility operations where human-guided adaptive planning played an important role in mission safety and productivity. Inspired by the abilities of human experts, we identify shortcomings of existing autonomous mobility algorithms for robots operating in off-road environments like planetary surfaces. We advocate for adaptive decision-making capabilities such as unassisted learning from past experiences and more reliance on stochastic world models. The aim of this work is to highlight promising research avenues to enhance ground planning tools and, ultimately, long-range autonomy algorithms on board planetary rovers., Comment: Accepted to the International Symposium on Artificial Intelligence, Robotics and Automation in Space (i-SAIRAS'24), Brisbane, Australia, Nov. 19-21, 2024

Published
2024

3. Trace Moments for Schr\'odinger Operators with Matrix White Noise and the Rigidity of the Multivariate Stochastic Airy Operator

Author

Lamarre, Pierre Yves Gaudreau

Subjects
Mathematics - Probability, Mathematical Physics
Abstract

We study the semigroups of random Schr\"odinger operators of the form $\widehat{H}f=-\frac12f''+(V+\xi)f$, where $f:I\to\mathbb F^r$ ($\mathbb F=\mathbb R,\mathbb C,\mathbb H$) are vector-valued functions on a possibly infinite interval $I\subset\mathbb R$ that satisfy a mix of Robin and Dirichlet boundary conditions, $V$ is a deterministic diagonal potential with power-law growth at infinity, and $\xi$ is a matrix white noise. Our main result consists of Feynman-Kac formulas for trace moments of the form $\mathbf E[\prod_{k=1}^n\mathrm{Tr}[\mathrm e^{-t_k\widehat{H}}]]$ ($n\in\mathbb N$, $t_k>0$). One notable example covered by our main result consists of the multivariate stochastic Airy operator (SAO) of Bloemendal and Vir\'ag (Ann. Probab., 44(4):2726-2769, 2016), which characterizes the soft-edge eigenvalue fluctuations of critical rank-$r$ spiked Wishart and GO/U/SE random matrices. As a corollary of our main result, we prove that if $V$'s growth is at least linear (this includes the multivariate SAO), then $\widehat{H}$'s spectrum is number rigid in the sense of Ghosh and Peres (Duke Math. J., 166(10):1789-1858, 2017). Together with the rigidity of the scalar SAO, this completes the characterization of number rigidity in the soft-edge limits of Gaussian $\beta$-ensembles and their finite-rank spiked versions., Comment: 90 pages, 8 figures. This preprint supersedes arXiv:2311.08564, along with some important bibliographical updates

Published
2024

4. Exact Multi-Point Correlations in the Stochastic Heat Equation for Strictly Sublinear Coordinates

Author

Lamarre, Pierre Yves Gaudreau and Lin, Yier

Subjects
Mathematics - Probability, Mathematical Physics
Abstract

We consider the Stochastic Heat Equation (SHE) in $(1+1)$ dimensions with delta Dirac initial data and spacetime white noise. We prove exact large-time asymptotics for multi-point correlations of the SHE for strictly sublinear space coordinates. The sublinear condition is optimal, in the sense that different asymptotics are known to occur when the space coordinates grow linearly [Lin 2023, Theorem 1.1]. Lastly, a notable feature of our result is that it confirms the connection between multi-point correlations in the SHE and the ground state of the Hamiltonian of the delta-Bose gas., Comment: 10 pages, comments welcome!

Published
2024

5. Computational supremacy in quantum simulation

Author

King, Andrew D., Nocera, Alberto, Rams, Marek M., Dziarmaga, Jacek, Wiersema, Roeland, Bernoudy, William, Raymond, Jack, Kaushal, Nitin, Heinsdorf, Niclas, Harris, Richard, Boothby, Kelly, Altomare, Fabio, Berkley, Andrew J., Boschnak, Martin, Chern, Kevin, Christiani, Holly, Cibere, Samantha, Connor, Jake, Dehn, Martin H., Deshpande, Rahul, Ejtemaee, Sara, Farré, Pau, Hamer, Kelsey, Hoskinson, Emile, Huang, Shuiyuan, Johnson, Mark W., Kortas, Samuel, Ladizinsky, Eric, Lai, Tony, Lanting, Trevor, Li, Ryan, MacDonald, Allison J. R., Marsden, Gaelen, McGeoch, Catherine C., Molavi, Reza, Neufeld, Richard, Norouzpour, Mana, Oh, Travis, Pasvolsky, Joel, Poitras, Patrick, Poulin-Lamarre, Gabriel, Prescott, Thomas, Reis, Mauricio, Rich, Chris, Samani, Mohammad, Sheldan, Benjamin, Smirnov, Anatoly, Sterpka, Edward, Clavera, Berta Trullas, Tsai, Nicholas, Volkmann, Mark, Whiticar, Alexander, Whittaker, Jed D., Wilkinson, Warren, Yao, Jason, Yi, T. J., Sandvik, Anders W., Alvarez, Gonzalo, Melko, Roger G., Carrasquilla, Juan, Franz, Marcel, and Amin, Mohammad H.

Subjects
Quantum Physics, Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics
Abstract

Quantum computers hold the promise of solving certain problems that lie beyond the reach of conventional computers. Establishing this capability, especially for impactful and meaningful problems, remains a central challenge. One such problem is the simulation of nonequilibrium dynamics of a magnetic spin system quenched through a quantum phase transition. State-of-the-art classical simulations demand resources that grow exponentially with system size. Here we show that superconducting quantum annealing processors can rapidly generate samples in close agreement with solutions of the Schr\"odinger equation. We demonstrate area-law scaling of entanglement in the model quench in two-, three- and infinite-dimensional spin glasses, supporting the observed stretched-exponential scaling of effort for classical approaches. We assess approximate methods based on tensor networks and neural networks and conclude that no known approach can achieve the same accuracy as the quantum annealer within a reasonable timeframe. Thus quantum annealers can answer questions of practical importance that classical computers cannot.

Published
2024

7. Energy Definition and Minimization in Avalanche Models for Solar Flares

Author

Lamarre, Henri, Charbonneau, Paul, and Strugarek, Antoine

Subjects
Astrophysics - Solar and Stellar Astrophysics
Abstract

Self-organised critical avalanche models are a class of cellular automata that, despite their simplicity, can be applied to the modeling of solar (and stellar) flares and generate robust power-law distributions in event size measures. However, bridging the conceptual gap to both magnetohydrodynamics and real flare observations continues to prove challenging. In this paper, we focus on a specific, key aspect of this endeavour, namely the definition of magnetic energy and its consequences for the model's internal dynamics and energy release statistics. We show that the dual requirement of releasing energy and restoring local stability demands that the instability criterion and boundary conditions be set in a manner internally consistent with a given energy definition, otherwise unphysical behavior ensues, e.g., negative energy release. Working with three energy definitions previously used in the literature, we construct such internally consistent avalanche models and compare/contrast their energy release statistics. Using the same set of models, we also explore a recent proposal by Farhang et al. (2018, 2019), namely that avalanches/flares should maximize the amount of energy released by the lattice when instabilities are triggered. This tends to produce avalanches of shorter duration but higher peak energy release, but adding up to similar total energy release. For the three energy definition we tested, such avalanche models exhibit almost identical distributions of event size measures. Our results indicate that the key to reproduce solar-like power-law slopes in these size measures is lattice configurations in which most nodes remain relatively far from the instability threshold., Comment: 28 Pages, 9 Figures, 2 Tables

Published
2024
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8. Safe Mission-Level Path Planning for Exploration of Lunar Shadowed Regions by a Solar-Powered Rover

Author

Lamarre, Olivier, Malhotra, Shantanu, and Kelly, Jonathan

Subjects
Computer Science - Robotics
Abstract

Exploration of the lunar south pole with a solar-powered rover is challenging due to the highly dynamic solar illumination conditions and the presence of permanently shadowed regions (PSRs). In turn, careful planning in space and time is essential. Mission-level path planning is a global, spatiotemporal paradigm that addresses this challenge, taking into account rover resources and mission requirements. However, existing approaches do not proactively account for random disturbances, such as recurring faults, that may temporarily delay rover traverse progress. In this paper, we formulate a chance-constrained mission-level planning problem for the exploration of PSRs by a solar-powered rover affected by random faults. The objective is to find a policy that visits as many waypoints of scientific interest as possible while respecting an upper bound on the probability of mission failure. Our approach assumes that faults occur randomly, but at a known, constant average rate. Each fault is resolved within a fixed time, simulating the recovery period of an autonomous system or the time required for a team of human operators to intervene. Unlike solutions based upon dynamic programming alone, our method breaks the chance-constrained optimization problem into smaller offline and online subtasks to make the problem computationally tractable. Specifically, our solution combines existing mission-level path planning techniques with a stochastic reachability analysis component. We find mission plans that remain within reach of safety throughout large state spaces. To empirically validate our algorithm, we simulate mission scenarios using orbital terrain and illumination maps of Cabeus Crater. Results from simulations of multi-day, long-range drives in the LCROSS impact region are also presented., Comment: Accepted to the IEEE Aerospace Conference (AERO'24), Big Sky, Montana, March 2-9, 2024

Published
2024

9. Probabilistic Representations of Ordered Exponentials: Vector-Valued Schr\'odinger Semigroups and the Combinatorics of Anderson Localization

Author

Lamarre, Pierre Yves Gaudreau

Subjects
Mathematics - Probability, Mathematical Physics
Abstract

We provide two applications of an elementary (yet seemingly unknown) probabilistic representation of matrix ordered exponentials, which generalizes the Feynman-Kac formula in finite dimensions and the change of measure formula between two continuous-time Markov processes on a finite state space. Our first and main application consists of a new Feynman-Kac formula for a class of vector-valued Schr\"odinger operators on the line, which is driven by two sources of randomness: The usual Brownian motion, and a continuous-time Markov process on a finite state space. An important feature of these formulas -- which is at the core of our motivation -- is that they enable the calculation of the joint moments of the semigroup kernels when the matrix potential function contains a continuous Gaussian noise. In particular, our moment formulas shed new light on what the joint moments of the Feynman-Kac kernels of the multivariate stochastic Airy operators of Bloemendal and Vir\'ag (Ann. Probab., 44(4):2726--2769, 2016.) should be; we state a precise conjecture to that effect, which we pursue in a forthcoming paper. Our second application consists of Feynman-Kac formulas for the expected square modulus $\mathbf E\big[|\Psi(t,x)|^2\big]$ of the solutions of the Schr\"odinger equation $\partial_t\Psi=-\mathsf i\mathcal H(t)\Psi$ with a time-dependent Hamiltonian $\mathcal H(t)$. Using this, we show that when we take $\mathcal H(t)=-\Delta+q(t,x)$ restricted to a finite box within $\mathbb Z^d$, where $q(t,x)$ is a possibly time-dependent Gaussian process, $\mathbf E\big[|\Psi(t,x)|^2\big]$ can be written as a relatively simple expectation that involves self- and mutual-intersections of random walks. In particular, this formula hints at a unified combinatorial mechanism that explains the occurrence of localization for both time-dependent and time-independent noises., Comment: The basic idea of using probabilistic representations for OEs has been used before in the mathematical physics literature. The novel technical contributions in this preprint have been incorporated in arXiv:2405.12316 to obtain a different result, which completely supersedes the current preprint

Published
2023

10. Quantum error mitigation in quantum annealing

Author

Amin, Mohammad H., King, Andrew D., Raymond, Jack, Harris, Richard, Bernoudy, William, Berkley, Andrew J., Boothby, Kelly, Smirnov, Anatoly, Altomare, Fabio, Babcock, Michael, Baron, Catia, Connor, Jake, Dehn, Martin, Enderud, Colin, Hoskinson, Emile, Huang, Shuiyuan, Johnson, Mark W., Ladizinsky, Eric, Lanting, Trevor, MacDonald, Allison J. R., Marsden, Gaelen, Molavi, Reza, Oh, Travis, Poulin-Lamarre, Gabriel, Ramp, Hugh, Rich, Chris, Clavera, Berta Trullas, Tsai, Nicholas, Volkmann, Mark, Whittaker, Jed D., Yao, Jason, Heinsdorf, Niclas, Kaushal, Nitin, Nocera, Alberto, and Franz, Marcel

Subjects
Quantum Physics
Abstract

Quantum Error Mitigation (QEM) presents a promising near-term approach to reduce error when estimating expectation values in quantum computing. Here, we introduce QEM techniques tailored for quantum annealing, using Zero-Noise Extrapolation (ZNE). We implement ZNE through zero-temperature extrapolation as well as energy-time rescaling. We conduct experimental investigations into the quantum critical dynamics of a transverse-field Ising spin chain, demonstrating the successful mitigation of thermal noise through both of these techniques. Moreover, we show that energy-time rescaling effectively mitigates control errors in the coherent regime where the effect of thermal noise is minimal. Our ZNE results agree with exact calculations of the coherent evolution over a range of annealing times that exceeds the coherent annealing range by almost an order of magnitude., Comment: 10 pages, 5 figures

Published
2023

12. A Framework to Assess Knowledge Graphs Accountability

Author

Andersen, Jennie, Cazalens, Sylvie, Lamarre, Philippe, and Maillot, Pierre

Subjects
Computer Science - Databases
Abstract

Knowledge Graphs (KGs), and Linked Open Data in particular, enable the generation and exchange of more and more information on the Web. In order to use and reuse these data properly, the presence of accountability information is essential. Accountability requires specific and accurate information about people's responsibilities and actions. In this article, we define KGAcc, a framework dedicated to the assessment of RDF graphs accountability. It consists of accountability requirements and a measure of accountability for KGs. Then, we evaluate KGs from the LOD cloud and describe the results obtained. Finally, we compare our approach with data quality and FAIR assessment frameworks to highlight the differences., Comment: 8 pages, to be published in: 2023 IEEE International Conference on Web Intelligence and Intelligent Agent Technology (WI-IAT)

Published
2023

13. Peer support for eating disorders in Canada: program user perspectives

Author

Andrea LaMarre, Jennifer Couturier, Gina Dimitropoulos, Shaleen Jones, Sonia Kumar, Nicole Obeid, and Lori Wozney

Subjects
Peer support, Peer mentorship, Eating disorders, Qualitative, Psychiatry, RC435-571
Abstract

Abstract Evidence for the value of peer support for eating disorders (EDs) is growing. Peer support is not a replacement for treatment, but can provide hope for recovery, enhance motivation for treatment, and increase feelings of connectedness and belonging for those experiencing EDs. In this study, we explored peer mentees’ experiences of peer support for EDs to better understand the impact of peer support and its role in the Canadian treatment and support continuum. We conducted semi-structured interviews with 20 people who had received peer support (group, one-on-one, or chat) and conducted a reflexive thematic analysis through a critical realist lens. We developed four themes. Participants described the importance of connecting with others who had “been there,” which helped generate a sense of belonging and connectedness. They also highlighted aspects of the peer support “container” that needed to be in place, such as guidelines for groups and agreements for one-on-one mentoring. When peer support was delivered well, participants described how it helped them help themselves through increasing motivation, communication skills, and other coping skills. Finally, participants described the unique role of peer support within the treatment continuum, as a modality that was accessible, free, and delivered in a way that focused on the whole person. Together, our findings illustrate the value of peer support and considerations for enabling effective and safe peer support delivery.

Published
2024
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14. Recovery Policies for Safe Exploration of Lunar Permanently Shadowed Regions by a Solar-Powered Rover

Author

Lamarre, Olivier, Malhotra, Shantanu, and Kelly, Jonathan

Subjects
Computer Science - Robotics
Abstract

The success of a multi-kilometre drive by a solar-powered rover at the lunar south pole depends upon careful planning in space and time due to highly dynamic solar illumination conditions. An additional challenge is that the rover may be subject to random faults that can temporarily delay long-range traverses. The majority of existing global spatiotemporal planners assume a deterministic rover-environment model and do not account for random faults. In this paper, we consider a random fault profile with a known, average spatial fault rate. We introduce a methodology to compute recovery policies that maximize the probability of survival of a solar-powered rover from different start states. A recovery policy defines a set of recourse actions to reach a safe location with sufficient battery energy remaining, given the local solar illumination conditions. We solve a stochastic reach-avoid problem using dynamic programming to find an optimal recovery policy. Our focus, in part, is on the implications of state space discretization, which is required in practical implementations. We propose a modified dynamic programming algorithm that conservatively accounts for approximation errors. To demonstrate the benefits of our approach, we compare against existing methods in scenarios where a solar-powered rover seeks to safely exit from permanently shadowed regions in the Cabeus area at the lunar south pole. We also highlight the relevance of our methodology for mission formulation and trade safety analysis by comparing different rover mobility models in simulated recovery drives from the LCROSS impact region., Comment: In Acta Astronautica, vol. 213, pp. 708-724, Dec. 2023

Published
2023
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19. Are self-citations a normal feature of knowledge accumulation?

Author

Vincent-Lamarre, Philippe and Larivière, Vincent

Subjects
Computer Science - Digital Libraries, H.4, I.7, J.4
Abstract

Science is a cumulative activity, which can manifest itself through the act of citing. Citations are also central to research evaluation, thus creating incentives for researchers to cite their own work. Using a dataset containing more than 63 million articles and 51 million disambiguated authors, this paper examines the relative importance of self-citations and self-references in the scholarly communication landscape, their relationship with the age and gender of authors, as well as their effects on various research evaluation indicators. Results show that self-citations and self-references evolve in different directions throughout researchers' careers, and that men and older researchers are more likely to self-cite. Although self-citations have, on average, a small to moderate effect on author's citation rates, they highly inflate citations for a subset of researchers. Comparison of the abstracts of cited and citing papers to assess the relatedness of different types of citations shows that self-citations are more similar to each other than other types of citations, and therefore more relevant. However, researchers that self-reference more tend to include less relevant citations. The paper concludes with a discussion of the role of self-citations in scholarly communication.

Published
2023

20. 'It’s like building a new person': lived experience perspectives on eating disorder recovery processes

Author

Andrea LaMarre, Megan Hellner, Scout Silverstein, Jessica H. Baker, Bek Urban, Jacqlyn Yourell, Hannah Wolfe, Taylor Perry, and Dori Steinberg

Subjects
Psychiatry, RC435-571
Abstract

Abstract Background Deeply engaging with the expertise of those who have experienced or supported someone with an eating disorder can add to a growing body of knowledge about recovery processes. In this qualitative study, we sought to explore and generate nuanced understandings of recovery experiences of people with a lived ED experience (first hand or as a caregiver) who were working as mentors in the field. To do this, we focused on changes that occur in personality, traits, and interests over the course of an eating disorder and into recovery. Method We conducted semi-structured interviews with 27 people with an eating disorder history, either through personal lived experience (n = 14) or as a caregiver of a loved one with an eating disorder (n = 13). We undertook a reflexive thematic analysis of the data through a critical realist lens. Results We developed three themes, which illustrate the nonlinearity, relationality, and systemically linked nature of changes across experiences of having and recovering from an eating disorder. The first theme focuses on expansion; participants described how their worlds got bigger as they explored who they were becoming and discovered new ways of living in line with their values. The second theme emphasizes the balance between support and autonomy participants described as important for enabling change to occur across the recovery process. The last theme highlights the ways in which changes throughout the recovery process entwined with systemic factors, including actively pushing back against diet culture and weight stigma. Conclusions Participants’ stories highlight interactions between individual, relational, and societal shifts that occur throughout the course of an ED and into recovery. They support ongoing calls to orient to ED recovery as situated within a broader social milieu, which invites us to build supportive environments to enable expansion and flourishing.

Published
2024
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21. Discordant conceptualisations of eating disorder recovery and their influence on the construct of terminality

Author

Rosiel Elwyn, Marissa Adams, Sam L. Sharpe, Scout Silverstein, Andrea LaMarre, James Downs, and C. Blair Burnette

Subjects
Longstanding eating disorder, Severe and enduring eating disorders, Iatrogenic harm, Futility, Terminality, Terminal anorexia nervosa, Psychiatry, RC435-571
Abstract

Abstract Eating disorders (EDs) are complex, multifaceted conditions that significantly impact quality-of-life, often co-occur with multiple medical and psychiatric diagnoses, and are associated with a high risk of medical sequelae and mortality. Fortunately, many people recover even after decades of illness, although there are different conceptualisations of recovery and understandings of how recovery is experienced. Differences in these conceptualisations influence categorisations of ED experiences (e.g., longstanding vs. short-duration EDs), prognoses, recommended treatment pathways, and research into treatment outcomes. Within recent years, the proposal of a ‘terminal’ illness stage for a subset of individuals with anorexia nervosa and arguments for the prescription of end-of-life pathways for such individuals has ignited debate. Semantic choices are influential in ED care, and it is critical to consider how conceptualisations of illness and recovery and power dynamics influence outcomes and the ED ‘staging’ discourse. Conceptually, ‘terminality’ interrelates with understandings of recovery, efficacy of available treatments, iatrogenic harm, and complex co-occurring diagnoses, as well as the functions of an individual’s eating disorder, and the personal and symbolic meanings an individual may hold regarding suffering, self-starvation, death, health and life. Our authorship represents a wide range of lived and living experiences of EDs, treatment, and recovery, ranging from longstanding and severe EDs that may meet descriptors of a ‘terminal’ ED to a variety of definitions of ‘recovery’. Our experiences have given rise to a shared motivation to analyse how existing discourses of terminality and recovery, as found in existing research literature and policy, may shape the conceptualisations, beliefs, and actions of individuals with EDs and the healthcare systems that seek to serve them.

Published
2024
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22. Short-term dietary changes are reflected in the cerebral content of adult ring-billed gulls

Author

Jessika Lamarre and David R. Wilson

Subjects
omega-3 fatty acids, bird, brain plasticity, stable isotope, diet specialization, marine ecosystem, Science
Abstract

Omega-3 long-chain polyunsaturated fatty acids (n3-LCPUFAs) are produced primarily in aquatic ecosystems and are considered essential nutrients for predators given their structural role in vertebrates’ cerebral tissues. Alarmingly, with urbanization, many aquatic animals now rely on anthropogenic foods lacking n3-LCPUFAs. In this study undertaken in Newfoundland (Canada), we tested whether recent or longer term diet explains the cerebral fatty acid composition of ring-billed gulls (Larus delawarensis), a seabird that now thrives in cities. During the breeding season, cerebral levels of n3-LCPUFAs were significantly higher for gulls nesting in a natural habitat and foraging on marine food (mean ± s.d.: 32 ± 1% of total identified fatty acids) than for urban nesters exploiting rubbish (27 ± 1%). Stable isotope analysis of blood and feathers showed that urban and natural nesters shared similar diets in autumn and winter, suggesting that the difference in cerebral n3-LCPUFAs during the breeding season was owing to concomitant and transient differences in diet. We also experimentally manipulated gulls’ diets throughout incubation by supplementing them with fish oil rich in n3-LCPUFAs, a caloric control lacking n3-LCPUFAs, or nothing, and found evidence that fish oil increased urban nesters’ cerebral n3-LCPUFAs. These complementary analyses provide evidence that the brain of this seabird remains plastic during adulthood and responds to short-term dietary changes.

Published
2024
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26. N-Phenylpyridine-3-Carboxamide and 6-Acetyl-1H-Indazole Inhibit the RNA Replication Step of the Dengue Virus Life Cycle.

Author

Sow, Aïssatou Aïcha, Pahmeier, Felix, Ayotte, Yann, Anton, Anaïs, Mazeaud, Clément, Charpentier, Tania, Angelo, Léna, Woo, Simon, Cerikan, Berati, Falzarano, Darryl, Abrahamyan, Levon, Lamarre, Alain, Labonté, Patrick, Cortese, Mirko, Bartenschlager, Ralf, LaPlante, Steven R, and Chatel-Chaix, Laurent

Subjects
Animals, Humans, Flavivirus, Dengue Virus, Dengue, RNA, Viral, Antiviral Agents, Virus Replication, Life Cycle Stages, Zika Virus, Zika Virus Infection, RNA Replication, SARS-CoV-2, West Nile virus, Zika virus, antivirals, dengue virus, Vaccine Related, Infectious Diseases, Rare Diseases, Genetics, Prevention, West Nile Virus, Vector-Borne Diseases, Biodefense, Emerging Infectious Diseases, 5.1 Pharmaceuticals, Development of treatments and therapeutic interventions, Infection, Good Health and Well Being, Microbiology, Medical Microbiology, Pharmacology and Pharmaceutical Sciences
Abstract

Dengue virus (DENV) is a Flavivirus that causes the most prevalent arthropod-borne viral disease. Clinical manifestation of DENV infection ranges from asymptomatic to severe symptoms that can lead to death. Unfortunately, no antiviral treatments against DENV are currently available. In order to identify novel DENV inhibitors, we screened a library of 1,604 chemically diversified fragment-based compounds using DENV reporter viruses that allowed quantification of viral replication in infected cells. Following a validation screening, the two best inhibitor candidates were N-phenylpyridine-3-carboxamide (NPP3C) and 6-acetyl-1H-indazole (6A1HI). The half maximal effective concentration of NPP3C and 6A1H1 against DENV were 7.1 μM and 6.5 μM, respectively. 6A1H1 decreased infectious DENV particle production up to 1,000-fold without any cytotoxicity at the used concentrations. While 6A1HI was DENV-specific, NPP3C also inhibited the replication of other flaviviruses such as West Nile virus and Zika virus. Structure-activity relationship (SAR) studies with 151 analogues revealed key structural elements of NPP3C and 6A1HI required for their antiviral activity. Time-of-drug-addition experiments identified a postentry step as a target of these compounds. Consistently, using a DENV subgenomic replicon, we demonstrated that these compounds specifically impede the viral RNA replication step and exhibit a high genetic barrier-to-resistance. In contrast, viral RNA translation and the de novo biogenesis of DENV replication organelles were not affected. Overall, our data unveil NPP3C and 6A1H1 as novel DENV inhibitors. The information revealed by our SAR studies will help chemically optimize NPP3C and 6A1H1 in order to improve their anti-flaviviral potency and to challenge them in in vivo models.

Published
2023

27. Quantum critical dynamics in a 5000-qubit programmable spin glass

Author

King, Andrew D., Raymond, Jack, Lanting, Trevor, Harris, Richard, Zucca, Alex, Altomare, Fabio, Berkley, Andrew J., Boothby, Kelly, Ejtemaee, Sara, Enderud, Colin, Hoskinson, Emile, Huang, Shuiyuan, Ladizinsky, Eric, MacDonald, Allison J. R., Marsden, Gaelen, Molavi, Reza, Oh, Travis, Poulin-Lamarre, Gabriel, Reis, Mauricio, Rich, Chris, Sato, Yuki, Tsai, Nicholas, Volkmann, Mark, Whittaker, Jed D., Yao, Jason, Sandvik, Anders W., and Amin, Mohammad H.

Subjects
Quantum Physics, Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics
Abstract

Experiments on disordered alloys suggest that spin glasses can be brought into low-energy states faster by annealing quantum fluctuations than by conventional thermal annealing. Due to the importance of spin glasses as a paradigmatic computational testbed, reproducing this phenomenon in a programmable system has remained a central challenge in quantum optimization. Here we achieve this goal by realizing quantum critical spin-glass dynamics on thousands of qubits with a superconducting quantum annealer. We first demonstrate quantitative agreement between quantum annealing and time-evolution of the Schr\"odinger equation in small spin glasses. We then measure dynamics in 3D spin glasses on thousands of qubits, where simulation of many-body quantum dynamics is intractable. We extract critical exponents that clearly distinguish quantum annealing from the slower stochastic dynamics of analogous Monte Carlo algorithms, providing both theoretical and experimental support for a scaling advantage in reducing energy as a function of annealing time.

Published
2022
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28. Moment Intermittency in the PAM with Asymptotically Singular Noise

Author

Lamarre, Pierre Yves Gaudreau, Ghosal, Promit, and Liao, Yuchen

Subjects
Mathematics - Probability, Mathematical Physics
Abstract

Let $\xi$ be a singular Gaussian noise on $\mathbb R^d$ that is either white, fractional, or with the Riesz covariance kernel; in particular, there exists a scaling parameter $\omega>0$ such that $c^{\omega/2}\xi(c\cdot)$ is equal in distribution to $\xi$ for all $c>0$. Let $(\xi_\varepsilon)_{\varepsilon>0}$ be a sequence of smooth mollifications such that $\xi_\varepsilon\to\xi$ as $\varepsilon\to0$. We study the asymptotics of the moments of the parabolic Anderson model (PAM) with noise $\xi_\varepsilon$ as $\varepsilon\to0$, both for large (i.e., $t\to\infty$) and fixed times $t$. This approach makes it possible to study the moments of the PAM with regular and singular noises in a unified fashion, as well as interpolate between the two settings. As corollaries of our main results, we obtain the following: $\textbf{(1)}$ When $\xi$ is subcritical (i.e., $0<\omega<2$), our results extend the known large-time moment and tail asymptotics for the Stratonovich PAM with noise $\xi$. Our method of proof clarifies the role of the maximizers of the variational problems (known as Hartree ground states) that appear in these moment asymptotics in describing the geometry of intermittency. We take this opportunity to prove the existence and study the properties of the Hartree ground state with a fractional kernel, which we believe is of independent interest. $\textbf{(2)}$ When $\xi$ is critical or supercritical (i.e., $\omega=2$ or $\omega>2$), our results provide a new interpretation of the moment blowup phenomenon observed in the Stratonovich PAM with noise $\xi$. That is, we uncover that the latter is related to an intermittency effect that occurs in the PAM with noise $\xi_\varepsilon$ as $\varepsilon\to0$ for $\textit{fixed finite times}$ $t>0$., Comment: 48 pages, 3 figures, minor corrections

Published
2022

30. Contributors

Author

Abello, Eric H., primary, Abiri, Arash, additional, Adappa, Nithin D., additional, Ahmad, Meleha, additional, Almeida, Joao Paulo, additional, Alrasheed, Abdulaziz S., additional, Arrighi-Allisan, Annie, additional, Barton, Blair M., additional, Bastien, Amanda J., additional, Battaglia, Paolo, additional, Biousse, Valérie, additional, Bleier, Benjamin S., additional, Carrau, Ricardo L., additional, Castelnuovo, Paolo, additional, Chaaban, Mohamad R., additional, Chan, David, additional, Chemas-Velez, Maria Manuela, additional, Chen, Benson S., additional, Chou, Brian W., additional, Cote, David J., additional, Cutsforth-Gregory, Jeremy K., additional, Czaczkes, Camilla, additional, Dalfino, Gianluca, additional, Das, Paramita, additional, Junior de Andrade, Erion, additional, Filho, Leonardo de Macedo, additional, Eloy, Jean Anderson, additional, Evans, James J., additional, Fang, Christina H., additional, Filip, Peter, additional, Francis, Courtney E., additional, Gallia, Gary L., additional, Gardner, Paul A., additional, Gentili, Fred, additional, Georgalas, Christos, additional, Ginat, Daniel T., additional, Gogia, Angad S., additional, Govindaraj, Satish, additional, Grayson, Jessica W., additional, Gudis, David A., additional, Halderman, Ashleigh A., additional, Harvey, Richard J., additional, Hernandez, Stephen, additional, Higgins, Mamie, additional, Horowitz, Peleg Moshe, additional, Illing, Elisa A., additional, Ishii, Masaru, additional, Kamel, Peter, additional, Kang, Keiko M., additional, Karp, Emily, additional, Karsy, Michael J., additional, Kshettry, Varun R., additional, Kshirsagar, Rijul S., additional, Kuan, Edward C., additional, Lamarre, Eric, additional, Levy, Joshua M., additional, Link, Michael, additional, Little, Andrew S., additional, Liu, Ann, additional, Liu, James K., additional, Locatelli, Davide, additional, Luna, Licia P., additional, Mahomva, Chengetai, additional, McCulley, Timothy J., additional, Medina, Eduardo J., additional, Michael, Alex P., additional, Miglani, Amar, additional, Mihal, David, additional, Moe, Kris S., additional, Nadgir, Rohini, additional, Nicholson, Patrick, additional, Nyquist, Gurston G., additional, Oostra, Amanda, additional, Oswald, Aaron, additional, Palmer, James N., additional, Parsel, Sean M., additional, Patel, Prayag, additional, Petrauskas, Laura, additional, Porto, Edoardo, additional, Pradilla, Gustavo, additional, Prashant, Giyarpuram N., additional, Prevedello, Daniel, additional, Qureshi, Hannan A., additional, Rabinowitz, Mindy R., additional, Radovanovic, Ivan, additional, Ramanathan, Murugappan, additional, Rao, Shilpa M., additional, Ray, Amrita, additional, Rech, Matheus, additional, Recinos, Pablo F., additional, Barbero, J. Manuel Revuelta, additional, Rincon-Torroella, Jordina, additional, Rosen, Marc R., additional, Roxbury, Christopher R., additional, Ruggieri, Paul, additional, Safi, Chetan, additional, Santarelli, Griffin D., additional, Sarris, Christina E., additional, Schlosser, Rodney J., additional, Schwartz, Theodore H., additional, Shah, Janki, additional, Sindwani, Raj, additional, Snyderman, Carl H., additional, Sommerfeld, Connor, additional, Soriano, Roberto M., additional, Sreenath, Satyan B., additional, Stokken, Janalee, additional, Tabaee, Abtin, additional, Tang, Dennis M., additional, Timmons, Shelly D., additional, Ting, Jonathan, additional, Turri-Zanoni, Mario, additional, Vorster, Sarel J., additional, Vyskocil, Erich, additional, Warren, Zachary, additional, Watley, Duncan C., additional, White, Alexandra J., additional, Williams, Michael A., additional, Woodard, Troy D., additional, Woodworth, Bradford A., additional, Workman, Alan D., additional, Wormald, Peter-John, additional, Wrobel, Bozena B., additional, Zada, Gabriel, additional, Zanation, Adam, additional, Zhao, Jiawei, additional, and Zimmer, David I., additional

Published
2024
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32. Lack of association between classical HLA genes and asymptomatic SARS-CoV-2 infection

Author

Astrid Marchal, Elizabeth T. Cirulli, Iva Neveux, Evangelos Bellos, Ryan S. Thwaites, Kelly M. Schiabor Barrett, Yu Zhang, Ivana Nemes-Bokun, Mariya Kalinova, Andrew Catchpole, Stuart G. Tangye, András N. Spaan, Justin B. Lack, Jade Ghosn, Charles Burdet, Guy Gorochov, Florence Tubach, Pierre Hausfater, Clifton L. Dalgard, Shen-Ying Zhang, Qian Zhang, Christopher Chiu, Jacques Fellay, Joseph J. Grzymski, Vanessa Sancho-Shimizu, Laurent Abel, Jean-Laurent Casanova, Aurélie Cobat, Alexandre Bolze, Alessandro Aiuti, Saleh Al-Muhsen, Fahd Al-Mulla, Ali Amara, Mark S. Anderson, Evangelos Andreakos, Andrés A. Arias, Lisa M. Arkin, Hagit Baris Feldman, Paul Bastard, Alexandre Belot, Catherine M. Biggs, Dusan Bogunovic, Anastasiia Bondarenko, Alessandro Borghesi, Ahmed A. Bousfiha, Petter Brodin, Yenan Bryceson, Manish J. Butte, Giorgio Casari, John Christodoulou, Roger Colobran, Antonio Condino-Neto, Stefan N. Constantinescu, Megan A. Cooper, Murkesh Desai, Beth A. Drolet, Xavier Duval, Jamila El Baghdadi, Philippine Eloy, Sara Espinosa-Padilla, Carlos Flores, José Luis Franco, Antoine Froidure, Peter K. Gregersen, Bodo Grimbacher, Filomeen Haerynck, David Hagin, Rabih Halwani, Lennart Hammarström, James R. Heath, Elena W.Y. Hsieh, Eystein Husebye, Kohsuke Imai, Yuval Itan, Emmanuelle Jouanguy, Elżbieta Kaja, Timokratis Karamitros, Kai Kisand, Cheng-Lung Ku, Yu-Lung Lau, Yun Ling, Carrie L. Lucas, Tom Maniatis, Davood Mansouri, László Maródi, France Mentré, Isabelle Meyts, Joshua D. Milner, Kristina Mironska, Trine H. Mogensen, Tomohiro Morio, Lisa F.P. Ng, Luigi D. Notarangelo, Antonio Novelli, Giuseppe Novelli, Cliona O'Farrelly, Satoshi Okada, Keisuke Okamoto, Tayfun Ozcelik, Qiang Pan-Hammarström, Jean W. Pape, Rebeca Perez de Diego, Jordi Perez-Tur, David S. Perlin, Graziano Pesole, Anna M. Planas, Carolina Prando, Aurora Pujol, Anne Puel, Lluis Quintana-Murci, Sathishkumar Ramaswamy, Laurent Renia, Igor Resnick, Carlos Rodríguez-Gallego, Anna Sediva, Mikko R.J. Seppänen, Mohammad Shahrooei, Anna Shcherbina, Ondrej Slaby, Andrew L. Snow, Pere Soler-Palacín, Vassili Soumelis, Ivan Tancevski, Ahmad Abou Tayoun, Şehime Gülsün Temel, Christian Thorball, Pierre Tiberghien, Sophie Trouillet-Assant, Stuart E. Turvey, K. M. Furkan Uddin, Mohammed J. Uddin, Diederik van de Beek, Donald C. Vinh, Horst von Bernuth, Joost Wauters, Mayana Zatz, Pawel Zawadzki, Serge Bureau, Yannick Vacher, Anne Gysembergh-Houal, Lauren Demerville, Abla Benleulmi-Chaachoua, Sebastien Abad, Radhiya Abassi, Abdelrafie Abdellaoui, Abdelkrim Abdelmalek, Hendy Abdoul, Helene Abergel, Fariza Abeud, Sophie Abgrall, Noemie Abisror, Marylise Adechian, Nordine Aderdour, Hakeem Farid Admane, Frederic Adnet, Sara Afritt, Helene Agostini, Claire Aguilar, Sophie Agut, Tommaso Francesco Aiello, Marc Ait Kaci, Hafid Ait Oufella, Gokula Ajeenthiravasan, Virginie Alauzy, Fanny Alby-Laurent, Lucie Allard, Marie-Alexandra Alyanakian, Blanca Amador Borrero, Sabrina Amam, Lucile Amrouche, Marc Andronikof, Dany Anglicheau, Nadia Anguel, Djillali Annane, Mohammed Aounzou, Caroline Aparicio, Gladys Aratus, Jean-Benoit Arlet, Jeremy Arzoine, Elisabeth Aslangul, Mona Assefi, Adeline Aubry, Laetitia Audiffred, Etienne Audureau, Christelle Nathalie Auger, Jean-Charles Auregan, Celine Awotar, Sonia Ayllon Milla, Delphine Azan, Laurene Azemar, Billal Azzouguen, Marwa Bachir Elrufaai, Aïda Badsi, Prissile Bakouboula, Coline Balcerowiak, Fanta Balde, Elodie Baldivia, Eliane-Flore Bangamingo, Amandine Baptiste, Fanny Baran-Marszak, Caroline Barau, Nathalie Barget, Flore Baronnet, Romain Barthelemy, Jean-Luc Baudel, Camille Baudry, Elodie Baudry, Laurent Beaugerie, Adel Belamri, Nicolas Belaube, Rhida Belilita, Pierre Bellassen, Rawan Belmokhtar, Isabel Beltran, Ruben Benainous, Mourad Benallaoua, Robert Benamouzig, Amélie Benbara, Jaouad Benhida, Anis Benkhelouf, Jihene Benlagha, Chahinez Benmostafa, Skander Benothmane, Miassa Bentifraouine, Laurence Berard, Quentin Bernier, Enora Berti, Astrid Bertier, Laure Berton, Simon Bessis, Alexandra Beurton, Celine Bianco, Clara Bianquis, Frank Bidar, Philippe Blanche, Clarisse Blayau, Alexandre Bleibtreu, Emmanuelle Blin, Coralie Bloch-Queyrat, Marie-Christophe Boissier, Diane Bollens, Marion Bolzoni, Rudy pierre Bompard, Nicolas Bonnet, Justine Bonnouvrier, Shirmonecrystal Botha, Wissam Boucenna, Fatiha Bouchama, Olivier Bouchaud, Hanane Bouchghoul, Taoueslylia Boudjebla, Noel Boudjema, Catherine Bouffard, Adrien Bougle, Meriem Bouguerra, Leila Bouras, Agnes Bourcier, Anne Bourgarit Durand, Anne Bourrier, Fabrice Bouscarat, Diane Bouvry, Nesrine Bouziri, Ons Bouzrara, Sarah Bribier, Delphine Brugier, Melanie Brunel, Eida Bui, Anne Buisson, Iryna Bukreyeva, Côme Bureau, Jacques Cadranel, Johann Cailhol, Ruxandra Calin, Clara Campos Vega, Pauline Canavaggio, Marta Cancella, Delphine Cantin, Albert Cao, Lionel Carbillon, Nicolas Carlier, Clementine Cassard, Guylaine Castor, Marion Cauchy, Olivier Cha, Benjamin Chaigne, Salima Challal, Karine Champion, Patrick Chariot, Julie Chas, Simon Chauveau, Anthony Chauvin, Clement Chauvin, Nathalie Chavarot, Kamélia Chebbout, Mustapha Cherai, Ilaria Cherubini, Amelie Chevalier, Thibault Chiarabini, Thierry Chinet, Richard Chocron, Pascaline Choinier, Juliette Chommeloux, Christophe Choquet, Laure Choupeaux, Benjamin Chousterman, Dragosmarius Ciocan, Ada Clarke, Gaëlle Clavere, Florian Clavier, Karine Clement, Sebastien Clerc, Yves Cohen, Fleur Cohen, Adrien Cohen, Audrey Coilly, Hester Colboc, Pauline Colin, Magalie Collet, Chloé Comarmond, Emeline Combacon, Alain Combes, Celine Comparon, Jean-Michel Constantin, Hugues Cordel, Anne-Gael Cordier, Adrien Costantini, Nathalie Costedoat Chalumeau, Camille Couffignal, Doriane Coupeau, Alain Creange, Yannie Cuvillier Lamarre, Charlène Da Silveira, Sandrine Dautheville Guibal El Kayani, Nathalie De Castro, Yann De Rycke, Lucie Del Pozo, Quentin Delannoy, Mathieu Delay, Robin Deleris, Juliette Delforge, Laëtitia Delphine, Noemie Demare, Sophie Demeret, Alexandre Demoule, Aurore Deniau, François Depret, Sophie Derolez, Ouda Derradji, Nawal Derridj, Vincent Descamps, Lydia Deschamps, Celine Desconclois, Cyrielle Desnos, Karine Desongins, Robin Dhote, Benjamin Diallo, Morgane Didier, Myriam Diemer, Stephane Diez, Juliette Djadi-Prat, Fatima-Zohra Djamouri Monnory, Siham Djebara, Naoual Djebra, Minette Djietcheu, Hadjer Djillali, Nouara Djouadi, Severine Donneger, Catarina Dos Santos, Nathalie Dournon, Martin Dres, Laura Droctove, Marie Drogrey, Margot Dropy, Elodie Drouet, Valérie Dubosq, Evelyne Dubreucq, Estelle Dubus, Boris Duchemann, Thibault Duchenoy, Emmanuel Dudoignon, Romain Dufau, Florence Dumas, Clara Duran, Emmanuelle Duron, Antoine Durrbach, Claudine Duvivier, Nathan Ebstein, Jihane El Khalifa, Alexandre Elabbadi, Caroline Elie, Gabriel Ernotte, Anne Esling, Martin Etienne, Xavier Eyer, Muriel Sarah Fartoukh, Takoua Fayali, Marion Fermaut, Arianna Fiorentino, Souha Fliss, Marie-Céline Fournier, Benjamin Fournier, Hélène Francois, Olivia Freynet, Yvann Frigout, Isaure Fromont, Axelle Fuentes, Thomas Furet, Joris Galand, Marc Garnier, Agnes Gaubert, Stéphane Gaudry, Samuel Gaugain, Damien Gauthier, Maxime Gautier, Sophie Georgin-Lavialle, Daniela Geromin, Mohamed Ghalayini, Bijan Ghaleh, Myriam Ghezal, Aude Gibelin, Linda Gimeno, Benoit Girard, Bénédicte Giroux Leprieur, Doryan Gomes, Elisabete Gomes-Pires, Anne Gouge, Amel Gouja, Helene Goulet, Sylvain Goupil, Jeanne Goupil De Bouille, Julien Gras, Segolene Greffe, Lamiae Grimaldi, Paul Guedeney, Bertrand Guidet, Matthias Guillo, Mariechristelle Gulczynski, Tassadit Hadjam, Didier Haguenauer, Soumeya Hammal, Nadjib Hammoudi, Olivier Hanon, Anarole Harrois, Coraline Hautem, Guillaume Hekimian, Nicholas Heming, Olivier Hermine, Sylvie Ho, Marie Houllier, Benjamin Huot, Tessa Huscenot, Wafa Ibn Saied, Ghilas Ikherbane, Meriem Imarazene, Patrick Ingiliz, Lina Iratni, Stephane Jaureguiberry, Jean-Francois Jean-Marc, Deleena Jeyarajasingham, Pauline Jouany, Veronique Jouis, Clement Jourdaine, Ouifiya Kafif, Rim Kallala, Sandrine Katsahian, Lilit Kelesyan, Vixra Keo, Flora Ketz, Warda Khamis, Enfel Khelili, Mehdi Khellaf, Christy Gaëlla Kotokpo Youkou, Ilias Kounis, Gaelle Kpalma, Jessica Krause, Vincent Labbe, Karine Lacombe, Jean-Marc Lacorte, Anne Gaelle Lafont, Emmanuel Lafont, Lynda Lagha, Lionel Lamhaut, Aymeric Lancelot, Cecilia Landman, Fanny Lanternier, Cecile Larcheveque, Caroline Lascoux Combe, Ludovic Lassel, Benjamin Laverdant, Christophe Lavergne, Jean-Rémi Lavillegrand, Pompilia Lazureanu, Loïc Le Guennec, Lamia Leberre, Claire Leblanc, Marion Leboyer, Francois Lecomte, Marine Lecorre, Romain Leenhardt, Marylou Lefebvre, Bénédicte Lefebvre, Paul Legendre, Anne Leger, Laurence Legros, Justyna Legrosse, Sébastien Lehuunghia, Julien Lemarec, Jeremie Leporrier-Ext, Manon Lesein, Hubert Lesur, Vincent Levy, Albert Levy, Edwige Lopes, Amanda Lopes, Vanessa Lopez, Julien Lopinto, Olivier Lortholary, Badr Louadah, Bénédicte Loze, Marie-Laure Lucas, Axelle Lucasamichi, Liem Binh Luong, Arouna Magazimama-Ext, David Maingret, Lakhdar Mameri, Philippe Manivet, Cylia Mansouri, Estelle Marcault, Jonathan Marey, Nathalie Marin, Clémence Marois, Olivier Martin, Lou Martineau, Cannelle Martinez-Lopez, Pierre Martyniuck, Pauline Mary De Farcy, Nessrine Marzouk, Rafik Masmoudi, Alexandre Mebazaa, Frédéric Mechai, Fabio Mecozzi, Chamseddine Mediouni, Bruno Megarbane, Mohamed Meghadecha, Élodie Mejean, Arsene Mekinian, Nour Mekki Abdelhadi, Rania Mekni, Thinhinan Sabrina Meliti, Breno Melo Lima, Paris Meng, Soraya Merbah, Fadhila Messani, Yasmine Messaoudi, Baboo-Irwinsingh Mewasing, Lydia Meziane, Carole Michelot-Burger, Françoise Mignot, Fadi Hillary Minka, Makoto Miyara, Pierre Moine, Jean-Michel Molina, Anaïs Montegnies-Boulet, Alexandra Monti, Claire Montlahuc, Anne-Lise Montout, Alexandre Moores, Caroline Morbieu, Helene Mortelette, Stéphane Mouly, Rosita Muzaffar, Cherifa Iness Nacerddine, Marine Nadal, Hajer Nadif, Kladoum Nassarmadji, Pierre Natella, Sandrine Ndingamondze, Stefan Neraal, Caroline Nguyen, Bao N'Guyen, Isabelle Nion Larmurier, Luc Nlomenyengue, Nicolas Noel, Hilario Nunes, Edris Omar, Zineb Ouazene, Elise Ouedraogo, Wassila Ouelaa, Anissa Oukhedouma, Yasmina Ould Amara, Herve Oya, Johanna Oziel, Thomas Padilla, Elena Paillaud, Solenne Paiva, Beatrice Parfait, Perrine Parize, Christophe Parizot, Antoine Parrot, Arthur Pavot, Laetitia Peaudecerf, Frédéric Pene, Marion Pepin, Julie Pernet, Claire Pernin, Mylène Petit, Olivier Peyrony, Marie-Pierre Pietri, Olivia Pietri, Marc Pineton De Chambrun, Michelle Pinson, Claire Pintado, Valentine Piquard, Christine Pires, Benjamin Planquette, Sandrine Poirier, Anne-Laure Pomel, Stéphanie Pons, Diane Ponscarme, Annegaelle Pourcelot, Valérie Pourcher, Anne Pouvaret, Florian Prever, Miresta Previlon, Margot Prevost, Marie-Julie Provoost, Cyril Quemeneur, Cédric Rafat, Agathe Rami, Brigitte Ranque, Maurice Raphael, Jean Herle Raphalen, Anna Rastoin, Mathieu Raux, Amani Rebai, Michael Reby, Alexis Regent, Asma Regrag, Matthieu Resche-Rigon, Quentin Ressaire, Christian Richard, Mariecaroline Richard, Maxence Robert, Benjamin Rohaut, Camille Rolland-Debord, Jacques Ropers, Anne-Marie Roque-Afonso, Charlotte Rosso, Mélanie Rousseaux, Nabila Rousseaux, Swasti Roux, Lorène Roux, Claire Rouzaud, Antoine Rozes, Emma Rubenstein, Jean-Marc Sabate, Sheila Sabet, Sophie-Caroline Sacleux, Nathalie Saidenberg Kermanach, Faouzi Saliba, Dominique Salmon, Laurent Savale, Guillaume Savary, Rebecca Sberro, Anne Scemla, Frederic Schlemmer, Mathieu Schwartz, Saïd Sedfi, Samia Sefir-Kribel, Philippe Seksik, Pierre Sellier, Agathe Selves, Nicole Sembach, Luca Semerano, Marie-Victoire Senat, Damien Sene, Alexandra Serris, Lucile Sese, Naima Sghiouar, Johanna Sigaux, Martin Siguier, Johanne Silvain, Noémie Simon, Tabassome Simon, Lina Innes Skandri, Miassa Slimani, Aurélie Snauwaert, Harry Sokol, Heithem Soliman, Nisrine Soltani, Benjamin Soyer, Gabriel Steg, Lydia Suarez, Tali-Anne Szwebel, Kossi Taffame, Yacine Tandjaoui-Lambiotte, Claire Tantet, Mariagrazia Tateo, Igor Theodose, Pierre clement Thiebaud, Caroline Thomas, Kelly Tiercelet, Julie Tisserand, Carole Tomczak, Krystel Torelino, Fatima Touam-Ext, Lilia Toumi, Gustave Toury, Mireille Toy-Miou, Olivia Tran Dinh Thanh Lien, Alexy Trandinh, Jean-Marc Treluyer, Baptiste Trinque, Jennifer Truchot, Sarah Tubiana, Simone Tunesi, Matthieu Turpin, Agathe Turpin, Tomas Urbina, Rafael Usubillaga Narvaez, Yurdagul Uzunhan, Prabakar Vaittinadaayar, Arnaud Valent, Maelle Valentian, Nadia Valin, Hélène Vallet, Marina Vaz, Miguel-Alejandro Vazquezibarra, Benoit Vedie, Laetitia Velly, Celine Verstuyft, Cedric Viallette, Eric Vicaut, Dorothee Vignes, Damien Vimpere, Myriam Virlouvet, Guillaume Voiriot, Lena Voisot, Emmanuel Weiss, Nicolas Weiss, Anaïs Winchenne, Youri Yordanov, Lara Zafrani, Mohamad Zaidan, Wissem Zaidi, Cathia Zak, Aida Zarhrate-Ghoul, Ouassila Zatout, Suzanne Zeino, Michel Zeitouni, Naïma Zemirli, Lorene Zerah, Ounsa Zia, Marianne Ziol, Oceane Zolario, Julien Zuber, Claire Andrejak, François Angoulvant, Delphine Bachelet, Marie Bartoli, Romain Basmaci, Sylvie Behillil, Marine Beluze, Dehbia Benkerrou, Krishna Bhavsar, Lila Bouadma, Sabelline Bouchez, Maude Bouscambert, Minerva Cervantes-Gonzalez, Anissa Chair, Catherine Chirouze, Alexandra Coelho, Sandrine Couffin-Cadiergues, Eric d’Ortenzio, Marie-Pierre Debray, Laurene Deconinck, Dominique Deplanque, Diane Descamps, Mathilde Desvallée, Alpha Diallo, Alphonsine Diouf, Céline Dorival, François Dubos, Brigitte Elharrar, Vincent Enouf, Hélène Esperou, Marina Esposito-Farese, Manuel Etienne, Eglantine Ferrand Devouge, Nathalie Gault, Alexandre Gaymard, Tristan Gigante, Morgane Gilg, Jérémie Guedj, Alexandre Hoctin, Isabelle Hoffmann, Ikram Houas, Jean-Sébastien Hulot, Salma Jaafoura, Florentia Kaguelidou, Sabrina Kali, Antoine Khalil, Coralie Khan, Cédric Laouénan, Samira Laribi, Minh Le, Quentin Le Hingrat, Soizic Le Mestre, Hervé Le Nagard, François-Xavier Lescure, Sophie Letrou, Yves Levy, Bruno Lina, Guillaume Lingas, Jean-Christophe Lucet, Denis Malvy, Marina Mambert, Amina Meziane, Hugo Mouquet, Jimmy Mullaert, Nadège Neant, Duc Nguyen, Marion Noret, Saad Nseir, Aurélie Papadopoulos, Christelle Paul, Nathan Peiffer-Smadja, Thomas Perpoint, Ventzislava Petrov-Sanchez, Gilles Peytavin, Huong Pham, Olivier Picone, Oriane Puéchal, Christian Rabaud, Manuel Rosa-Calatrava, Bénédicte Rossignol, Patrick Rossignol, Carine Roy, Marion Schneider, Richa Su, Coralie Tardivon, Marie-Capucine Tellier, François Téoulé, Olivier Terrier, Jean-François Timsit, Christelle Tual, Sylvie Van Der Werf, Noémie Vanel, Aurélie Veislinger, Benoit Visseaux, Aurélie Wiedemann, Yazdan Yazdanpanah, Loubna Alavoine, Charlotte Charpentier, Aline Dechanet, Jean-Luc Ecobichon, Wahiba Frezouls, Nadhira Houhou, Jonathan Lehacaut, Pauline Manchon, Mariama Nouroudine, Caroline Quintin, Michael Thy, Sylvie van der Werf, Valérie Vignali, Abir Chahine, Nawal Waucquier, Maria-Claire Migaud, Félix Djossou, Mayka Mergeay-Fabre, Aude Lucarelli, Magalie Demar, Léa Bruneau, Patrick Gérardin, Adrien Maillot, Christine Payet, Bruno Laviolle, Fabrice Laine, Christophe Paris, Mireille Desille-Dugast, Julie Fouchard, Thierry Pistone, Pauline Perreau, Valérie Gissot, Carole L.E. Goas, Samatha Montagne, Lucie Richard, Kévin Bouiller, Maxime Desmarets, Alexandre Meunier, Marilou Bourgeon, Benjamin Lefévre, Hélène Jeulin, Karine Legrand, Sandra Lomazzi, Bernard Tardy, Amandine Gagneux-Brunon, Frédérique Bertholon, Elisabeth Botelho-Nevers, Christelle Kouakam, Leturque Nicolas, Layidé Roufai, Karine Amat, Hélène Espérou, Samia Hendou, Giuseppe Foti, Giuseppe Citerio, Ernesto Contro, Alberto Pesci, Maria Grazia Valsecchi, Marina Cazzaniga, Giacomo Bellani, Jorge Abad, Giulia Accordino, Micol Angelini, Sergio Aguilera-Albesa, Aina Aguiló-Cucurull, Esra Akyüz Özkan, Ilad Alavi Darazam, Jonathan Antonio Roblero Albisures, Juan C. Aldave, Miquel Alfonso Ramos, Taj Ali Khan, Anna Aliberti, Seyed Alireza Nadji, Gulsum Alkan, Suzan A. AlKhater, Jerome Allardet-Servent, Luis M. Allende, Rebeca Alonso-Arias, Mohammed S. Alshahrani, Laia Alsina, Zahir Amoura, Arnau Antolí, Romain Arrestier, Mélodie Aubart, Teresa Auguet, Iryna Avramenko, Gökhan Aytekin, Axelle Azot, Seiamak Bahram, Fanny Bajolle, Fausto Baldanti, Aurélie Baldolli, Maite Ballester, Benoit Barrou, Federica Barzaghi, Sabrina Basso, Gulsum Iclal Bayhan, Liliana Bezrodnik, Agurtzane Bilbao, Geraldine Blanchard-Rohner, Ignacio Blanco, Adeline Blandinières, Daniel Blázquez-Gamero, Marketa Bloomfield, Mireia Bolivar-Prados, Raphael Borie, Elisabeth Botdhlo-Nevers, Aurore Bousquet, David Boutolleau, Claire Bouvattier, Oksana Boyarchuk, Juliette Bravais, M. Luisa Briones, Marie-Eve Brunner, Raffaele Bruno, Maria Rita P. Bueno, Huda Bukhari, Jacinta Bustamante, Juan José Cáceres Agra, Ruggero Capra, Raphael Carapito, Maria Carrabba, Carlos Casasnovas, Marion Caseris, Irene Cassaniti, Martin Castelle, Francesco Castelli, Martín Castillo de Vera, Mateus V. Castro, Emilie Catherinot, Jale Bengi Celik, Alessandro Ceschi, Martin Chalumeau, Bruno Charbit, Cécile Boulanger, Père Clavé, Bonaventura Clotet, Anna Codina, Cloé Comarmond, Patrizia Comoli, Angelo G. Corsico, Taner Coşkuner, Aleksandar Cvetkovski, Cyril Cyrus, David Dalmau, François Danion, David Ross Darley, Vincent Das, Nicolas Dauby, Stéphane Dauger, Paul De Munte, Loic de Pontual, Amin Dehban, Geoffroy Delplancq, Isabelle Desguerre, Antonio Di Sabatino, Jean-Luc Diehl, Stephanie Dobbelaere, Elena Domínguez-Garrido, Clément Dubost, Olov Ekwall, Şefika Elmas Bozdemir, Marwa H. Elnagdy, Melike Emiroglu, Akifumi Endo, Emine Hafize Erdeniz, Selma Erol Aytekin, Maria Pilar Etxart Lasa, Romain Euvrard, Giovanna Fabio, Laurence Faivre, Antonin Falck, Muriel Fartoukh, Morgane Faure, Miguel Fernandez Arquero, Ricard Ferrer, Jose Ferreres, Bruno Francois, Victoria Fumadó, Kitty S.C. Fung, Francesca Fusco, Alenka Gagro, Blanca Garcia Solis, Pierre Garçon, Pascale Gaussem, Zeynep Gayretli, Juana Gil-Herrera, Laurent Gilardin, Audrey Giraud Gatineau, Mònica Girona-Alarcón, Karen Alejandra Cifuentes Godínez, Jean-Christophe Goffard, Nacho Gonzales, Luis I. Gonzalez-Granado, Rafaela González-Montelongo, Antoine Guerder, Belgin Gülhan, Victor Daniel Gumucio, Leif Gunnar Hanitsch, Jan Gunst, Marta Gut, Jérôme Hadjadj, Selda Hancerli, Tetyana Hariyan, Nevin Hatipoglu, Deniz Heppekcan, Elisa Hernandez-Brito, Po-ki Ho, María Soledad Holanda-Peña, Juan P. Horcajada, Sami Hraiech, Linda Humbert, Ivan F.N. Hung, Alejandro D. Iglesias, Antonio Íñigo-Campos, Matthieu Jamme, María Jesús Arranz, Marie-Thérèse Jimeno, Iolanda Jordan, Saliha Kanık-Yüksek, Yalcin Kara, Aydın Karahan, Adem Karbuz, Kadriye Kart Yasar, Ozgur Kasapcopur, Kenichi Kashimada, Sevgi Keles, Yasemin Kendir Demirkol, Yasutoshi Kido, Can Kizil, Ahmet Osman Kılıç, Adam Klocperk, Antonia Koutsoukou, Zbigniew J. Król, Hatem Ksouri, Paul Kuentz, Arthur M.C. Kwan, Yat Wah M. Kwan, Janette S.Y. Kwok, Jean-Christophe Lagier, David S.Y. Lam, Vicky Lampropoulou, Fleur Le Bourgeois, Yee-Sin Leo, Rafael Leon Lopez, Daniel Leung, Michael Levin, Michael Levy, Romain Lévy, Zhi Li, Daniele Lilleri, Edson Jose Adrian Bolanos Lima, Agnes Linglart, Eduardo López-Collazo, José M. Lorenzo-Salazar, Céline Louapre, Catherine Lubetzki, Kwok-Cheung Lung, Charles-Edouard Luyt, David C. Lye, Cinthia Magnone, Enrico Marchioni, Carola Marioli, Majid Marjani, Laura Marques, Jesus Marquez Pereira, Andrea Martín-Nalda, David Martínez Pueyo, Javier Martinez-Picado, Iciar Marzana, Carmen Mata-Martínez, Alexis Mathian, Larissa R.B. Matos, Gail V. Matthews, Julien Mayaux, Raquel McLaughlin-Garcia, Philippe Meersseman, Jean-Louis Mège, Armand Mekontso-Dessap, Isabelle Melki, Federica Meloni, Jean-François Meritet, Paolo Merlani, Özge Metin Akcan, Mehdi Mezidi, Isabelle Migeotte, Maude Millereux, Matthieu Million, Tristan Mirault, Clotilde Mircher, Mehdi Mirsaeidi, Yoko Mizoguchi, Bhavi P. Modi, Francesco Mojoli, Elsa Moncomble, Abián Montesdeoca Melián, Antonio Morales Martinez, Francisco Morandeira, Pierre-Emmanuel Morange, Clémence Mordacq, Guillaume Morelle, Stéphane J. Mouly, Adrián Muñoz-Barrera, Cyril Nafati, Shintaro Nagashima, Yu Nakagama, Bénédicte Neven, João Farela Neves, Yuk-Yung Ng, Hubert Nielly, Yeray Novoa Medina, Esmeralda Nuñez Cuadros, Semsi Nur Karabela, J. Gonzalo Ocejo-Vinyals, Mehdi Oualha, Amani Ouedrani, Tayfun Özçelik, Aslinur Ozkaya-Parlakay, Michele Pagani, Maria Papadaki, Philippe Parola, Tiffany Pascreau, Stéphane Paul, Estela Paz-Artal, Sigifredo Pedraza, Nancy Carolina González Pellecer, Silvia Pellegrini, Rebeca Pérez de Diego, Xosé Luis Pérez-Fernández, Aurélien Philippe, Quentin Philippot, Adrien Picod, Marc Pineton de Chambrun, Antonio Piralla, Laura Planas-Serra, Dominique Ploin, Julien Poissy, Géraldine Poncelet, Garyphallia Poulakou, Marie S. Pouletty, Persia Pourshahnazari, Jia Li Qiu-Chen, Paul Quentric, Thomas Rambaud, Didier Raoult, Violette Raoult, Anne-Sophie Rebillat, Claire Redin, Léa Resmini, Pilar Ricart, Jean-Christophe Richard, Raúl Rigo-Bonnin, Nadia Rivet, Jacques G. Rivière, Gemma Rocamora-Blanch, Mathieu P. Rodero, Carlos Rodrigo, Luis Antonio Rodriguez, Carlos Rodriguez-Gallego, Agustí Rodriguez-Palmero, Carolina Soledad Romero, Anya Rothenbuhler, Damien Roux, Nikoletta Rovina, Flore Rozenberg, Yvon Ruch, Montse Ruiz, Maria Yolanda Ruiz del Prado, Juan Carlos Ruiz-Rodriguez, Joan Sabater-Riera, Kai Saks, Maria Salagianni, Oliver Sanchez, Adrián Sánchez-Montalvá, Silvia Sánchez-Ramón, Laire Schidlowski, Agatha Schluter, Julien Schmidt, Matthieu Schmidt, Catharina Schuetz, Cyril E. Schweitzer, Francesco Scolari, Luis Seijo, Analia Gisela Seminario, Piseth Seng, Sevtap Senoglu, Mikko Seppänen, Alex Serra Llovich, Virginie Siguret, Eleni Siouti, David M. Smadja, Nikaia Smith, Ali Sobh, Xavier Solanich, Jordi Solé-Violán, Catherine Soler, Betül Sözeri, Giulia Maria Stella, Yuriy Stepanovskiy, Annabelle Stoclin, Fabio Taccone, Jean-Luc Taupin, Simon J. Tavernier, Loreto Vidaur Tello, Benjamin Terrier, Guillaume Thiery, Karolina Thorn, Caroline Thumerelle, Imran Tipu, Martin Tolstrup, Gabriele Tomasoni, Julie Toubiana, Josep Trenado Alvarez, Vasiliki Triantafyllia, Jesús Troya, Owen T.Y. Tsang, Liina Tserel, Eugene Y.K. Tso, Alessandra Tucci, Şadiye Kübra Tüter Öz, Matilde Valeria Ursini, Takanori Utsumi, Pierre Vabres, Juan Valencia-Ramos, Ana Maria Van Den Rym, Isabelle Vandernoot, Valentina Velez-Santamaria, Silvia Patricia Zuniga Veliz, Mateus C. Vidigal, Sébastien Viel, Cédric Villain, Marie E. Vilaire-Meunier, Judit Villar-García, Audrey Vincent, Dimitri Van der Linden, Alla Volokha, Fanny Vuotto, Els Wauters, Alan K.L. Wu, Tak-Chiu Wu, Aysun Yahşi, Osman Yesilbas, Mehmet Yildiz, Barnaby E. Young, Ufuk Yükselmiş, Marco Zecca, Valentina Zuccaro, Jens Van Praet, Bart N. Lambrecht, Eva Van Braeckel, Cédric Bosteels, Levi Hoste, Eric Hoste, Fré Bauters, Jozefien De Clercq, Catherine Heijmans, Hans Slabbynck, Leslie Naesens, Benoit Florkin, Mary-Anne Young, Amanda Willis, Paloma Lapuente-Suanzes, Ana de Andrés-Martín, Matilda Berkell, Valerio Carelli, Alessia Fiorentino, Surbhi Malhotra, Alessandro Mattiaccio, Tommaso Pippucci, Marco Seri, Evelina Tacconelli, Michiel van Agtmael, Anne Geke Algera, Brent Appelman, Frank van Baarle, Diane Bax, Martijn Beudel, Harm Jan Bogaard, Marije Bomers, Peter Bonta, Lieuwe Bos, Michela Botta, Justin de Brabander, Godelieve de Bree, Sanne de Bruin, David T.P. Buis, Marianna Bugiani, Esther Bulle, Osoul Chouchane, Alex Cloherty, Mirjam Dijkstra, Dave A. Dongelmans, Romein W.G. Dujardin, Paul Elbers, Lucas Fleuren, Suzanne Geerlings, Theo Geijtenbeek, Armand Girbes, Bram Goorhuis, Martin P. Grobusch, Florianne Hafkamp, Laura Hagens, Jorg Hamann, Vanessa Harris, Robert Hemke, Sabine M. Hermans, Leo Heunks, Markus Hollmann, Janneke Horn, Joppe W. Hovius, Menno D. de Jong, Rutger Koning, Endry H.T. Lim, Niels van Mourik, Jeaninne Nellen, Esther J. Nossent, Frederique Paulus, Edgar Peters, Dan A.I. Pina-Fuentes, Tom van der Poll, Bennedikt Preckel, Jan M. Prins, Jorinde Raasveld, Tom Reijnders, Maurits C.F. J. de Rotte, Michiel Schinkel, Marcus J. Schultz, Femke A.P. Schrauwen, Alex Schuurmans, Jaap Schuurmans, Kim Sigaloff, Marleen A. Slim, Patrick Smeele, Marry Smit, Cornelis S. Stijnis, Willemke Stilma, Charlotte Teunissen, Patrick Thoral, Anissa M. Tsonas, Pieter R. Tuinman, Marc van der Valk, Denise P. Veelo, Carolien Volleman, Heder de Vries, Lonneke A. Vught, Michèle van Vugt, Dorien Wouters, A.H. Zwinderman, Matthijs C. Brouwer, W. Joost Wiersinga, Alexander P.J. Vlaar, Miranda F. Tompkins, Camille Alba, Daniel N. Hupalo, John Rosenberger, Gauthaman Sukumar, Matthew D. Wilkerson, Xijun Zhang, Justin Lack, Andrew J. Oler, Kerry Dobbs, Ottavia M. Delmonte, Jeffrey J. Danielson, Andrea Biondi, Laura Rachele Bettini, Mariella D’Angiò, Ilaria Beretta, Luisa Imberti, Alessandra Sottini, Virginia Quaresima, Eugenia Quiros-Roldan, Camillo Rossi, Riccardo Castagnoli, Daniela Montagna, Amelia Licari, and Gian Luigi Marseglia

Subjects
HLA, association, asymptomatic infection, COVID-19, population stratification, Genetics, QH426-470
Abstract

Summary: Human genetic studies of critical COVID-19 pneumonia have revealed the essential role of type I interferon-dependent innate immunity to SARS-CoV-2 infection. Conversely, an association between the HLA-B∗15:01 allele and asymptomatic SARS-CoV-2 infection in unvaccinated individuals was recently reported, suggesting a contribution of pre-existing T cell-dependent adaptive immunity. We report a lack of association of classical HLA alleles, including HLA-B∗15:01, with pre-omicron asymptomatic SARS-CoV-2 infection in unvaccinated participants in a prospective population-based study in the United States (191 asymptomatic vs. 945 symptomatic COVID-19 cases). Moreover, we found no such association in the international COVID Human Genetic Effort cohort (206 asymptomatic vs. 574 mild or moderate COVID-19 cases and 1,625 severe or critical COVID-19 cases). Finally, in the Human Challenge Characterisation study, the three HLA-B∗15:01 individuals infected with SARS-CoV-2 developed symptoms. As with other acute primary infections studied, no classical HLA alleles favoring an asymptomatic course of SARS-CoV-2 infection were identified.

Published
2024
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33. Coherent quantum annealing in a programmable 2000-qubit Ising chain

Author

King, Andrew D., Suzuki, Sei, Raymond, Jack, Zucca, Alex, Lanting, Trevor, Altomare, Fabio, Berkley, Andrew J., Ejtemaee, Sara, Hoskinson, Emile, Huang, Shuiyuan, Ladizinsky, Eric, MacDonald, Allison, Marsden, Gaelen, Oh, Travis, Poulin-Lamarre, Gabriel, Reis, Mauricio, Rich, Chris, Sato, Yuki, Whittaker, Jed D., Yao, Jason, Harris, Richard, Lidar, Daniel A., Nishimori, Hidetoshi, and Amin, Mohammad H.

Subjects
Quantum Physics
Abstract

Quantum simulation has emerged as a valuable arena for demonstrating and understanding the capabilities of near-term quantum computers. Quantum annealing has been used successfully in simulating a range of open quantum systems, both at equilibrium and out of equilibrium. However, in all previous experiments, annealing has been too slow to simulate a closed quantum system coherently, due to the onset of thermal effects from the environment. Here we demonstrate coherent evolution through a quantum phase transition in the paradigmatic setting of the 1D transverse-field Ising chain, using up to 2000 superconducting flux qubits in a programmable quantum annealer. In large systems we observe the quantum Kibble-Zurek mechanism with theoretically predicted kink statistics, as well as characteristic positive kink-kink correlations, independent of system temperature. In small chains, excitation statistics validate the picture of a Landau-Zener transition at a minimum gap. In both cases, results are in quantitative agreement with analytical solutions to the closed-system quantum model. For slower anneals we observe anti-Kibble-Zurek scaling in a crossover to the open quantum regime. These experiments demonstrate that large-scale quantum annealers can be operated coherently, paving the way to exploiting coherent dynamics in quantum optimization, machine learning, and simulation tasks.

Published
2022
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34. Prevalence and characteristics of chronic kidney disease in people with type 2 diabetes mellitus in the Autonomous Community of Aragon

Author

Sánchez-Calavera, María Antonia, Navarro, Rafael Gómez, Otal, Elena Asso, González, Isabel Blasco, Pardo, Daniel Escribano, Celma, Laia Homedes, Lamarre, Michelot, Esteban, Pilar López, Lozano del Hoyo, María Luisa, Mahulea, Liliana, Gallego, Inés Mera, Romero-Vigara, Juan Carlos, Allué, Sandra Soler, Hueso, Sira Telmo, and Gil, Fran Adán

Published
2024
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35. Patterns of failure after salvage head and neck surgery

Author

Contrera, Kevin J., Mahomva, Chengetai R., Sharma, Bhavya K., Wei, Wei, Burkey, Brian B., Fritz, Michael, Ku, Jamie A., Lamarre, Eric D., Lorenz, Robert R., Scharpf, Joseph, Silver, Natalie, Sindwani, Raj, Koyfman, Shlomo A., and Prendes, Brandon L.

Published
2024
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36. STEM SerialED: achieving high-resolution data for ab initio structure determination of beam-sensitive nanocrystalline materials

Author

Pascal Hogan-Lamarre, Yi Luo, Robert Bücker, R. J. Dwayne Miller, and Xiaodong Zou

Subjects
serial electron diffraction, scanning transmission electron microscopy, structure determination, nanocrystallography, beam-sensitive materials, zeolites, Crystallography, QD901-999
Abstract

Serial electron diffraction (SerialED), which applies a snapshot data acquisition strategy for each crystal, was introduced to tackle the problem of radiation damage in the structure determination of beam-sensitive materials by three-dimensional electron diffraction (3DED). The snapshot data acquisition in SerialED can be realized using both transmission and scanning transmission electron microscopes (TEM/STEM). However, the current SerialED workflow based on STEM setups requires special external devices and software, which limits broader adoption. Here, we present a simplified experimental implementation of STEM-based SerialED on Thermo Fisher Scientific STEMs using common proprietary software interfaced through Python scripts to automate data collection. Specifically, we utilize TEM Imaging and Analysis (TIA) scripting and TEM scripting to access the STEM functionalities of the microscope, and DigitalMicrograph scripting to control the camera for snapshot data acquisition. Data analysis adapts the existing workflow using the software CrystFEL, which was developed for serial X-ray crystallography. Our workflow for STEM SerialED can be used on any Gatan or Thermo Fisher Scientific camera. We apply this workflow to collect high-resolution STEM SerialED data from two aluminosilicate zeolites, zeolite Y and ZSM-25. We demonstrate, for the first time, ab initio structure determination through direct methods using STEM SerialED data. Zeolite Y is relatively stable under the electron beam, and STEM SerialED data extend to 0.60 Å. We show that the structural model obtained using STEM SerialED data merged from 358 crystals is nearly identical to that using continuous rotation electron diffraction data from one crystal. This demonstrates that accurate structures can be obtained from STEM SerialED. Zeolite ZSM-25 is very beam-sensitive and has a complex structure. We show that STEM SerialED greatly improves the data resolution of ZSM-25, compared with serial rotation electron diffraction (SerialRED), from 1.50 to 0.90 Å. This allows, for the first time, the use of standard phasing methods, such as direct methods, for the ab initio structure determination of ZSM-25.

Published
2024
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37. Factors influencing mercury exposure in Arctic-breeding shorebirds

Author

Perkins, Marie, Stenhouse, Iain J., Lanctot, Richard B., Brown, Stephen, Bêty, Joël, Boldenow, Megan, Cunningham, Jenny, English, Willow, Gates, River, Gilchrist, H. Grant, Giroux, Marie-Andrée, Grond, Kirsten, Hill, Brooke, Kwon, Eunbi, Lamarre, Jean-Francois, Lank, David B., Lecomte, Nicolas, Pavlik, David, Rausch, Jennie, Regan, Kevin, Robards, Martin, Saalfeld, Sarah T., Smith, Fletcher, Smith, Paul A., Wilkinson, Bradley, Woodard, Paul, and Basu, Niladri

Published
2023
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38. Rigidity of the Stochastic Airy Operator

Author

Lamarre, Pierre Yves Gaudreau, Ghosal, Promit, Li, Wenxuan, and Liao, Yuchen

Subjects
Mathematics - Probability, Mathematical Physics
Abstract

We prove that the spectrum of the stochastic Airy operator is rigid in the sense of Ghosh and Peres (Duke Math. J., 166(10):1789--1858, 2017) for Dirichlet and Robin boundary conditions. This proves the rigidity of the Airy-$\beta$ point process and the soft-edge limit of rank-$1$ perturbations of Gaussian $\beta$-Ensembles for any $\beta>0$, and solves an open problem mentioned in a previous work of Bufetov, Nikitin, and Qiu (Mosc. Math. J., 19(2):217--274, 2019). Our proof uses a combination of the semigroup theory of the stochastic Airy operator and the techniques for studying insertion and deletion tolerance of point processes developed by Holroyd and Soo (Electron. J. Probab., 18:no. 74, 24, 2013)., Comment: Final version; accepted for publication in Int. Math. Res. Not

Published
2021

41. Vehicle Detection and Tracking From Surveillance Cameras in Urban Scenes

Author

Messoussi, Oumayma, de Magalhaes, Felipe Gohring, Lamarre, Francois, Perreault, Francis, Sogoba, Ibrahima, Bilodeau, Guillaume-Alexandre, and Nicolescu, Gabriela

Subjects
Computer Science - Computer Vision and Pattern Recognition
Abstract

Detecting and tracking vehicles in urban scenes is a crucial step in many traffic-related applications as it helps to improve road user safety among other benefits. Various challenges remain unresolved in multi-object tracking (MOT) including target information description, long-term occlusions and fast motion. We propose a multi-vehicle detection and tracking system following the tracking-by-detection paradigm that tackles the previously mentioned challenges. Our MOT method extends an Intersection-over-Union (IOU)-based tracker with vehicle re-identification features. This allows us to utilize appearance information to better match objects after long occlusion phases and/or when object location is significantly shifted due to fast motion. We outperform our baseline MOT method on the UA-DETRAC benchmark while maintaining a total processing speed suitable for online use cases.

Published
2021

42. Architectural considerations in the design of a third-generation superconducting quantum annealing processor

Author

Boothby, Kelly, Enderud, Colin, Lanting, Trevor, Molavi, Reza, Tsai, Nicholas, Volkmann, Mark H., Altomare, Fabio, Amin, Mohammad H., Babcock, Michael, Berkley, Andrew J., Aznar, Catia Baron, Boschnak, Martin, Christiani, Holly, Ejtemaee, Sara, Evert, Bram, Gullen, Matthew, Hager, Markus, Harris, Richard, Hoskinson, Emile, Hilton, Jeremy P., Jooya, Kais, Huang, Ann, Johnson, Mark W., King, Andrew D., Ladizinsky, Eric, Li, Ryan, MacDonald, Allison, Fernandez, Teresa Medina, Neufeld, Richard, Norouzpour, Mana, Oh, Travis, Ozfidan, Isil, Paddon, Paul, Perminov, Ilya, Poulin-Lamarre, Gabriel, Prescott, Thomas, Raymond, Jack, Reis, Mauricio, Rich, Chris, Roy, Aidan, Esfahani, Hossein Sadeghi, Sato, Yuki, Sheldan, Ben, Smirnov, Anatoly, Swenson, Loren J., Whittaker, Jed, Yao, Jason, Yarovoy, Alexander, and Bunyk, Paul I.

Subjects
Quantum Physics
Abstract

Early generations of superconducting quantum annealing processors have provided a valuable platform for studying the performance of a scalable quantum computing technology. These studies have directly informed our approach to the design of the next-generation processor. Our design priorities for this generation include an increase in per-qubit connectivity, a problem Hamiltonian energy scale similar to previous generations, reduced Hamiltonian specification errors, and an increase in the processor scale that also leaves programming and readout times fixed or reduced. Here we discuss the specific innovations that resulted in a processor architecture that satisfies these design priorities.

Published
2021

43. Lack of association between classical HLA genes and asymptomatic SARS-CoV-2 infection

Author

Abel, Laurent, Aiuti, Alessandro, Al-Muhsen, Saleh, Al-Mulla, Fahd, Amara, Ali, Anderson, Mark S., Andreakos, Evangelos, Arias, Andrés A., Arkin, Lisa M., Feldman, Hagit Baris, Bastard, Paul, Belot, Alexandre, Biggs, Catherine M., Bogunovic, Dusan, Bolze, Alexandre, Bondarenko, Anastasiia, Borghesi, Alessandro, Bousfiha, Ahmed A., Brodin, Petter, Bryceson, Yenan, Butte, Manish J., Casanova, Jean-Laurent, Casari, Giorgio, Christodoulou, John, Cobat, Aurélie, Colobran, Roger, Condino-Neto, Antonio, Constantinescu, Stefan N., Cooper, Megan A., Dalgard, Clifton L., Desai, Murkesh, Drolet, Beth A., Duval, Xavier, El Baghdadi, Jamila, Eloy, Philippine, Espinosa-Padilla, Sara, Fellay, Jacques, Flores, Carlos, Franco, José Luis, Froidure, Antoine, Gorochov, Guy, Gregersen, Peter K., Grimbacher, Bodo, Haerynck, Filomeen, Hagin, David, Halwani, Rabih, Hammarström, Lennart, Heath, James R., Hsieh, Elena W.Y., Husebye, Eystein, Imai, Kohsuke, Itan, Yuval, Jouanguy, Emmanuelle, Kaja, Elżbieta, Karamitros, Timokratis, Kisand, Kai, Ku, Cheng-Lung, Lau, Yu-Lung, Ling, Yun, Lucas, Carrie L., Maniatis, Tom, Mansouri, Davood, Maródi, László, Mentré, France, Meyts, Isabelle, Milner, Joshua D., Mironska, Kristina, Mogensen, Trine H., Morio, Tomohiro, Ng, Lisa F.P., Notarangelo, Luigi D., Novelli, Antonio, Novelli, Giuseppe, O'Farrelly, Cliona, Okada, Satoshi, Okamoto, Keisuke, Ozcelik, Tayfun, Pan-Hammarström, Qiang, Pape, Jean W., Perez de Diego, Rebeca, Perez-Tur, Jordi, Perlin, David S., Pesole, Graziano, Planas, Anna M., Prando, Carolina, Pujol, Aurora, Puel, Anne, Quintana-Murci, Lluis, Ramaswamy, Sathishkumar, Renia, Laurent, Resnick, Igor, Rodríguez-Gallego, Carlos, Sancho-Shimizu, Vanessa, Sediva, Anna, Seppänen, Mikko R.J., Shahrooei, Mohammad, Shcherbina, Anna, Slaby, Ondrej, Snow, Andrew L., Soler-Palacín, Pere, Soumelis, Vassili, Spaan, András N., Tancevski, Ivan, Tangye, Stuart G., Tayoun, Ahmad Abou, Temel, Şehime Gülsün, Thorball, Christian, Tiberghien, Pierre, Trouillet-Assant, Sophie, Turvey, Stuart E., Uddin, K. M. Furkan, Uddin, Mohammed J., van de Beek, Diederik, Vinh, Donald C., von Bernuth, Horst, Wauters, Joost, Zatz, Mayana, Zawadzki, Pawel, Zhang, Qian, Zhang, Shen-Ying, Bureau, Serge, Vacher, Yannick, Gysembergh-Houal, Anne, Demerville, Lauren, Benleulmi-Chaachoua, Abla, Abad, Sebastien, Abassi, Radhiya, Abdellaoui, Abdelrafie, Abdelmalek, Abdelkrim, Abdoul, Hendy, Abergel, Helene, Abeud, Fariza, Abgrall, Sophie, Abisror, Noemie, Adechian, Marylise, Aderdour, Nordine, Admane, Hakeem Farid, Adnet, Frederic, Afritt, Sara, Agostini, Helene, Aguilar, Claire, Agut, Sophie, Aiello, Tommaso Francesco, Kaci, Marc Ait, Oufella, Hafid Ait, Ajeenthiravasan, Gokula, Alauzy, Virginie, Alby-Laurent, Fanny, Allard, Lucie, Alyanakian, Marie-Alexandra, Borrero, Blanca Amador, Amam, Sabrina, Amrouche, Lucile, Andronikof, Marc, Anglicheau, Dany, Anguel, Nadia, Annane, Djillali, Aounzou, Mohammed, Aparicio, Caroline, Aratus, Gladys, Arlet, Jean-Benoit, Arzoine, Jeremy, Aslangul, Elisabeth, Assefi, Mona, Aubry, Adeline, Audiffred, Laetitia, Audureau, Etienne, Auger, Christelle Nathalie, Auregan, Jean-Charles, Awotar, Celine, Milla, Sonia Ayllon, Azan, Delphine, Azemar, Laurene, Azzouguen, Billal, Elrufaai, Marwa Bachir, Badsi, Aïda, Bakouboula, Prissile, Balcerowiak, Coline, Balde, Fanta, Baldivia, Elodie, Bangamingo, Eliane-Flore, Baptiste, Amandine, Baran-Marszak, Fanny, Barau, Caroline, Barget, Nathalie, Baronnet, Flore, Barthelemy, Romain, Baudel, Jean-Luc, Baudry, Camille, Baudry, Elodie, Beaugerie, Laurent, Belamri, Adel, Belaube, Nicolas, Belilita, Rhida, Bellassen, Pierre, Belmokhtar, Rawan, Beltran, Isabel, Benainous, Ruben, Benallaoua, Mourad, Benamouzig, Robert, Benbara, Amélie, Benhida, Jaouad, Benkhelouf, Anis, Benlagha, Jihene, Benmostafa, Chahinez, Benothmane, Skander, Bentifraouine, Miassa, Berard, Laurence, Bernier, Quentin, Berti, Enora, Bertier, Astrid, Berton, Laure, Bessis, Simon, Beurton, Alexandra, Bianco, Celine, Bianquis, Clara, Bidar, Frank, Blanche, Philippe, Blayau, Clarisse, Bleibtreu, Alexandre, Blin, Emmanuelle, Bloch-Queyrat, Coralie, Boissier, Marie-Christophe, Bollens, Diane, Bolzoni, Marion, Bompard, Rudy pierre, Bonnet, Nicolas, Bonnouvrier, Justine, Botha, Shirmonecrystal, Boucenna, Wissam, Bouchama, Fatiha, Bouchaud, Olivier, Bouchghoul, Hanane, Boudjebla, Taoueslylia, Boudjema, Noel, Bouffard, Catherine, Bougle, Adrien, Bouguerra, Meriem, Bouras, Leila, Bourcier, Agnes, Durand, Anne Bourgarit, Bourrier, Anne, Bouscarat, Fabrice, Bouvry, Diane, Bouziri, Nesrine, Bouzrara, Ons, Bribier, Sarah, Brugier, Delphine, Brunel, Melanie, Bui, Eida, Buisson, Anne, Bukreyeva, Iryna, Bureau, Côme, Cadranel, Jacques, Cailhol, Johann, Calin, Ruxandra, Vega, Clara Campos, Canavaggio, Pauline, Cancella, Marta, Cantin, Delphine, Cao, Albert, Carbillon, Lionel, Carlier, Nicolas, Cassard, Clementine, Castor, Guylaine, Cauchy, Marion, Cha, Olivier, Chaigne, Benjamin, Challal, Salima, Champion, Karine, Chariot, Patrick, Chas, Julie, Chauveau, Simon, Chauvin, Anthony, Chauvin, Clement, Chavarot, Nathalie, Chebbout, Kamélia, Cherai, Mustapha, Cherubini, Ilaria, Chevalier, Amelie, Chiarabini, Thibault, Chinet, Thierry, Chocron, Richard, Choinier, Pascaline, Chommeloux, Juliette, Choquet, Christophe, Choupeaux, Laure, Chousterman, Benjamin, Ciocan, Dragosmarius, Clarke, Ada, Clavere, Gaëlle, Clavier, Florian, Clement, Karine, Clerc, Sebastien, Cohen, Yves, Cohen, Fleur, Cohen, Adrien, Coilly, Audrey, Colboc, Hester, Colin, Pauline, Collet, Magalie, Comarmond, Chloé, Combacon, Emeline, Combes, Alain, Comparon, Celine, Constantin, Jean-Michel, Cordel, Hugues, Cordier, Anne-Gael, Costantini, Adrien, Chalumeau, Nathalie Costedoat, Couffignal, Camille, Coupeau, Doriane, Creange, Alain, Lamarre, Yannie Cuvillier, Da Silveira, Charlène, Guibal El Kayani, Sandrine Dautheville, De Castro, Nathalie, De Rycke, Yann, Del Pozo, Lucie, Delannoy, Quentin, Delay, Mathieu, Deleris, Robin, Delforge, Juliette, Delphine, Laëtitia, Demare, Noemie, Demeret, Sophie, Demoule, Alexandre, Deniau, Aurore, Depret, François, Derolez, Sophie, Derradji, Ouda, Derridj, Nawal, Descamps, Vincent, Deschamps, Lydia, Desconclois, Celine, Desnos, Cyrielle, Desongins, Karine, Dhote, Robin, Diallo, Benjamin, Didier, Morgane, Diemer, Myriam, Diez, Stephane, Djadi-Prat, Juliette, Djamouri Monnory, Fatima-Zohra, Djebara, Siham, Djebra, Naoual, Djietcheu, Minette, Djillali, Hadjer, Djouadi, Nouara, Donneger, Severine, Santos, Catarina Dos, Dournon, Nathalie, Dres, Martin, Droctove, Laura, Drogrey, Marie, Dropy, Margot, Drouet, Elodie, Dubosq, Valérie, Dubreucq, Evelyne, Dubus, Estelle, Duchemann, Boris, Duchenoy, Thibault, Dudoignon, Emmanuel, Dufau, Romain, Dumas, Florence, Duran, Clara, Duron, Emmanuelle, Durrbach, Antoine, Duvivier, Claudine, Ebstein, Nathan, El Khalifa, Jihane, Elabbadi, Alexandre, Elie, Caroline, Ernotte, Gabriel, Esling, Anne, Etienne, Martin, Eyer, Xavier, Fartoukh, Muriel Sarah, Fayali, Takoua, Fermaut, Marion, Fiorentino, 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Ghilas, Imarazene, Meriem, Ingiliz, Patrick, Iratni, Lina, Jaureguiberry, Stephane, Jean-Marc, Jean-Francois, Jeyarajasingham, Deleena, Jouany, Pauline, Jouis, Veronique, Jourdaine, Clement, Kafif, Ouifiya, Kallala, Rim, Katsahian, Sandrine, Kelesyan, Lilit, Keo, Vixra, Ketz, Flora, Khamis, Warda, Khelili, Enfel, Khellaf, Mehdi, Kotokpo Youkou, Christy Gaëlla, Kounis, Ilias, Kpalma, Gaelle, Krause, Jessica, Labbe, Vincent, Lacombe, Karine, Lacorte, Jean-Marc, Lafont, Anne Gaelle, Lafont, Emmanuel, Lagha, Lynda, Lamhaut, Lionel, Lancelot, Aymeric, Landman, Cecilia, Lanternier, Fanny, Larcheveque, Cecile, Combe, Caroline Lascoux, Lassel, Ludovic, Laverdant, Benjamin, Lavergne, Christophe, Lavillegrand, Jean-Rémi, Lazureanu, Pompilia, Le Guennec, Loïc, Leberre, Lamia, Leblanc, Claire, Leboyer, Marion, Lecomte, Francois, Lecorre, Marine, Leenhardt, Romain, Lefebvre, Marylou, Lefebvre, Bénédicte, Legendre, Paul, Leger, Anne, Legros, Laurence, Legrosse, Justyna, Lehuunghia, Sébastien, 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Deplanque, Dominique, Descamps, Diane, Desvallée, Mathilde, Diallo, Alpha, Diouf, Alphonsine, Dorival, Céline, Dubos, François, Elharrar, Brigitte, Enouf, Vincent, Esperou, Hélène, Esposito-Farese, Marina, Etienne, Manuel, Devouge, Eglantine Ferrand, Gault, Nathalie, Gaymard, Alexandre, Ghosn, Jade, Gigante, Tristan, Gilg, Morgane, Guedj, Jérémie, Hoctin, Alexandre, Hoffmann, Isabelle, Houas, Ikram, Hulot, Jean-Sébastien, Jaafoura, Salma, Kaguelidou, Florentia, Kali, Sabrina, Khalil, Antoine, Khan, Coralie, Laouénan, Cédric, Laribi, Samira, Le, Minh, Le Hingrat, Quentin, Le Mestre, Soizic, Le Nagard, Hervé, Lescure, François-Xavier, Letrou, Sophie, Levy, Yves, Lina, Bruno, Lingas, Guillaume, Lucet, Jean-Christophe, Malvy, Denis, Mambert, Marina, Meziane, Amina, Mouquet, Hugo, Mullaert, Jimmy, Neant, Nadège, Nguyen, Duc, Noret, Marion, Nseir, Saad, Papadopoulos, Aurélie, Paul, Christelle, Peiffer-Smadja, Nathan, Perpoint, Thomas, Petrov-Sanchez, Ventzislava, Peytavin, Gilles, Pham, Huong, Picone, Olivier, Puéchal, Oriane, Rabaud, Christian, Rosa-Calatrava, Manuel, Rossignol, Bénédicte, Rossignol, Patrick, Roy, Carine, Schneider, Marion, Su, Richa, Tardivon, Coralie, Tellier, Marie-Capucine, Téoulé, François, Terrier, Olivier, Timsit, Jean-François, Tual, Christelle, Van Der Werf, Sylvie, Vanel, Noémie, Veislinger, Aurélie, Visseaux, Benoit, Wiedemann, Aurélie, Yazdanpanah, Yazdan, Alavoine, Loubna, Burdet, Charles, Charpentier, Charlotte, Dechanet, Aline, Ecobichon, Jean-Luc, Frezouls, Wahiba, Houhou, Nadhira, Lehacaut, Jonathan, Manchon, Pauline, Nouroudine, Mariama, Quintin, Caroline, Thy, Michael, van der Werf, Sylvie, Vignali, Valérie, Chahine, Abir, Waucquier, Nawal, Migaud, Maria-Claire, Djossou, Félix, Mergeay-Fabre, Mayka, Lucarelli, Aude, Demar, Magalie, Bruneau, Léa, Gérardin, Patrick, Maillot, Adrien, Payet, Christine, Laviolle, Bruno, Laine, Fabrice, Paris, Christophe, Desille-Dugast, Mireille, Fouchard, Julie, Pistone, Thierry, Perreau, Pauline, 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Aubart, Mélodie, Auguet, Teresa, Avramenko, Iryna, Aytekin, Gökhan, Azot, Axelle, Bahram, Seiamak, Bajolle, Fanny, Baldanti, Fausto, Baldolli, Aurélie, Ballester, Maite, Barrou, Benoit, Barzaghi, Federica, Basso, Sabrina, Bayhan, Gulsum Iclal, Bezrodnik, Liliana, Bilbao, Agurtzane, Blanchard-Rohner, Geraldine, Blanco, Ignacio, Blandinières, Adeline, Blázquez-Gamero, Daniel, Bloomfield, Marketa, Bolivar-Prados, Mireia, Borie, Raphael, Botdhlo-Nevers, Elisabeth, Bousquet, Aurore, Boutolleau, David, Bouvattier, Claire, Boyarchuk, Oksana, Bravais, Juliette, Briones, M. Luisa, Brunner, Marie-Eve, Bruno, Raffaele, Bueno, Maria Rita P., Bukhari, Huda, Bustamante, Jacinta, Cáceres Agra, Juan José, Capra, Ruggero, Carapito, Raphael, Carrabba, Maria, Casasnovas, Carlos, Caseris, Marion, Cassaniti, Irene, Castelle, Martin, Castelli, Francesco, Castillo de Vera, Martín, Castro, Mateus V., Catherinot, Emilie, Celik, Jale Bengi, Ceschi, Alessandro, Chalumeau, Martin, Charbit, Bruno, Boulanger, Cécile, Clavé, Père, Clotet, Bonaventura, Codina, Anna, Comarmond, Cloé, Comoli, Patrizia, Corsico, Angelo G., Coşkuner, Taner, Cvetkovski, Aleksandar, Cyrus, Cyril, Dalmau, David, Danion, François, Darley, David Ross, Das, Vincent, Dauby, Nicolas, Dauger, Stéphane, De Munte, Paul, de Pontual, Loic, Dehban, Amin, Delplancq, Geoffroy, Desguerre, Isabelle, Di Sabatino, Antonio, Diehl, Jean-Luc, Dobbelaere, Stephanie, Domínguez-Garrido, Elena, Dubost, Clément, Ekwall, Olov, Bozdemir, Şefika Elmas, Elnagdy, Marwa H., Emiroglu, Melike, Endo, Akifumi, Erdeniz, Emine Hafize, Aytekin, Selma Erol, Etxart Lasa, Maria Pilar, Euvrard, Romain, Fabio, Giovanna, Faivre, Laurence, Falck, Antonin, Fartoukh, Muriel, Faure, Morgane, Arquero, Miguel Fernandez, Ferrer, Ricard, Ferreres, Jose, Francois, Bruno, Fumadó, Victoria, Fung, Kitty S.C., Fusco, Francesca, Gagro, Alenka, Solis, Blanca Garcia, Garçon, Pierre, Gaussem, Pascale, Gayretli, Zeynep, Gil-Herrera, Juana, Gilardin, Laurent, Gatineau, Audrey Giraud, Girona-Alarcón, Mònica, Cifuentes Godínez, Karen Alejandra, Goffard, Jean-Christophe, Gonzales, Nacho, Gonzalez-Granado, Luis I., González-Montelongo, Rafaela, Guerder, Antoine, Gülhan, Belgin, Gumucio, Victor Daniel, Hanitsch, Leif Gunnar, Gunst, Jan, Gut, Marta, Hadjadj, Jérôme, Hancerli, Selda, Hariyan, Tetyana, Hatipoglu, Nevin, Heppekcan, Deniz, Hernandez-Brito, Elisa, Ho, Po-ki, Holanda-Peña, María Soledad, Horcajada, Juan P., Hraiech, Sami, Humbert, Linda, Hung, Ivan F.N., Iglesias, Alejandro D., Íñigo-Campos, Antonio, Jamme, Matthieu, Arranz, María Jesús, Jimeno, Marie-Thérèse, Jordan, Iolanda, Kanık-Yüksek, Saliha, Kara, Yalcin, Karahan, Aydın, Karbuz, Adem, Yasar, Kadriye Kart, Kasapcopur, Ozgur, Kashimada, Kenichi, Keles, Sevgi, Demirkol, Yasemin Kendir, Kido, Yasutoshi, Kizil, Can, Kılıç, Ahmet Osman, Klocperk, Adam, Koutsoukou, Antonia, Król, Zbigniew J., Ksouri, Hatem, Kuentz, Paul, Kwan, Arthur M.C., Kwan, Yat Wah M., Kwok, Janette S.Y., Lagier, Jean-Christophe, Lam, David S.Y., Lampropoulou, Vicky, Le Bourgeois, Fleur, Leo, Yee-Sin, Lopez, Rafael Leon, Leung, Daniel, Levin, Michael, Levy, Michael, Lévy, Romain, Li, Zhi, Lilleri, Daniele, Adrian Bolanos Lima, Edson Jose, Linglart, Agnes, López-Collazo, Eduardo, Lorenzo-Salazar, José M., Louapre, Céline, Lubetzki, Catherine, Lung, Kwok-Cheung, Luyt, Charles-Edouard, Lye, David C., Magnone, Cinthia, Marchioni, Enrico, Marioli, Carola, Marjani, Majid, Marques, Laura, Pereira, Jesus Marquez, Martín-Nalda, Andrea, Pueyo, David Martínez, Martinez-Picado, Javier, Marzana, Iciar, Mata-Martínez, Carmen, Mathian, Alexis, Matos, Larissa R.B., Matthews, Gail V., Mayaux, Julien, McLaughlin-Garcia, Raquel, Meersseman, Philippe, Mège, Jean-Louis, Mekontso-Dessap, Armand, Melki, Isabelle, Meloni, Federica, Meritet, Jean-François, Merlani, Paolo, Akcan, Özge Metin, Mezidi, Mehdi, Migeotte, Isabelle, Millereux, Maude, Million, Matthieu, Mirault, Tristan, Mircher, Clotilde, Mirsaeidi, Mehdi, Mizoguchi, Yoko, Modi, Bhavi P., Mojoli, Francesco, Moncomble, Elsa, Melián, Abián Montesdeoca, Martinez, Antonio Morales, Morandeira, Francisco, Morange, Pierre-Emmanuel, Mordacq, Clémence, Morelle, Guillaume, Mouly, Stéphane J., Muñoz-Barrera, Adrián, Nafati, Cyril, Nagashima, Shintaro, Nakagama, Yu, Neven, Bénédicte, Neves, João Farela, Ng, Yuk-Yung, Hubert Nielly, Medina, Yeray Novoa, Cuadros, Esmeralda Nuñez, Karabela, Semsi Nur, Ocejo-Vinyals, J. Gonzalo, Oualha, Mehdi, Ouedrani, Amani, Özçelik, Tayfun, Ozkaya-Parlakay, Aslinur, Pagani, Michele, Papadaki, Maria, Parola, Philippe, Pascreau, Tiffany, Paul, Stéphane, Paz-Artal, Estela, Pedraza, Sigifredo, González Pellecer, Nancy Carolina, Pellegrini, Silvia, Pérez de Diego, Rebeca, Pérez-Fernández, Xosé Luis, Philippe, Aurélien, Philippot, Quentin, Picod, Adrien, Pineton de Chambrun, Marc, Piralla, Antonio, Planas-Serra, Laura, Ploin, Dominique, Poissy, Julien, Poncelet, Géraldine, Poulakou, Garyphallia, Pouletty, Marie S., Pourshahnazari, Persia, Qiu-Chen, Jia Li, Quentric, Paul, Rambaud, Thomas, Raoult, Didier, Raoult, Violette, Rebillat, Anne-Sophie, Redin, Claire, Resmini, Léa, Ricart, Pilar, Richard, Jean-Christophe, Rigo-Bonnin, Raúl, Rivet, Nadia, Rivière, Jacques G., Rocamora-Blanch, Gemma, Rodero, Mathieu P., Rodrigo, Carlos, Rodriguez, Luis Antonio, Rodriguez-Gallego, Carlos, Rodriguez-Palmero, Agustí, Romero, Carolina Soledad, Rothenbuhler, Anya, Roux, Damien, Rovina, Nikoletta, Rozenberg, Flore, Ruch, Yvon, Ruiz, Montse, Ruiz del Prado, Maria Yolanda, Ruiz-Rodriguez, Juan Carlos, Sabater-Riera, Joan, Saks, Kai, Salagianni, Maria, Sanchez, Oliver, Sánchez-Montalvá, Adrián, Sánchez-Ramón, Silvia, Schidlowski, Laire, Schluter, Agatha, Schmidt, Julien, Schmidt, Matthieu, Schuetz, Catharina, Schweitzer, Cyril E., Scolari, Francesco, Seijo, Luis, Seminario, Analia Gisela, Seng, Piseth, Senoglu, Sevtap, Seppänen, Mikko, Llovich, Alex Serra, Siguret, Virginie, Siouti, Eleni, Smadja, David M., Smith, Nikaia, Sobh, Ali, Solanich, Xavier, Solé-Violán, Jordi, Soler, Catherine, Sözeri, Betül, Stella, Giulia Maria, Stepanovskiy, Yuriy, Stoclin, Annabelle, Taccone, Fabio, Taupin, Jean-Luc, Tavernier, Simon J., Tello, Loreto Vidaur, Terrier, Benjamin, Thiery, Guillaume, Thorn, Karolina, Thumerelle, Caroline, Tipu, Imran, Tolstrup, Martin, Tomasoni, Gabriele, Toubiana, Julie, Alvarez, Josep Trenado, Triantafyllia, Vasiliki, Troya, Jesús, Tsang, Owen T.Y., Tserel, Liina, Tso, Eugene Y.K., Tucci, Alessandra, Tüter Öz, Şadiye Kübra, Ursini, Matilde Valeria, Utsumi, Takanori, Vabres, Pierre, Valencia-Ramos, Juan, Van Den Rym, Ana Maria, Vandernoot, Isabelle, Velez-Santamaria, Valentina, Zuniga Veliz, Silvia Patricia, Vidigal, Mateus C., Viel, Sébastien, Villain, Cédric, Vilaire-Meunier, Marie E., Villar-García, Judit, Vincent, Audrey, Van der Linden, Dimitri, Volokha, Alla, Vuotto, Fanny, Wauters, Els, Wu, Alan K.L., Wu, Tak-Chiu, Yahşi, Aysun, Yesilbas, Osman, Yildiz, Mehmet, Young, Barnaby E., Yükselmiş, Ufuk, Zecca, Marco, Zuccaro, Valentina, Van Praet, Jens, Lambrecht, Bart N., Van Braeckel, Eva, Bosteels, Cédric, Hoste, Levi, Hoste, Eric, Bauters, Fré, De Clercq, Jozefien, Heijmans, Catherine, Slabbynck, Hans, Naesens, Leslie, Florkin, Benoit, Young, Mary-Anne, Willis, Amanda, Lapuente-Suanzes, Paloma, de Andrés-Martín, Ana, Berkell, Matilda, Carelli, Valerio, Fiorentino, Alessia, Malhotra, Surbhi, Mattiaccio, Alessandro, Pippucci, Tommaso, Seri, Marco, Tacconelli, Evelina, van Agtmael, Michiel, Algera, Anne Geke, Appelman, Brent, van Baarle, Frank, Bax, Diane, Beudel, Martijn, Bogaard, Harm Jan, Bomers, Marije, Bonta, Peter, Bos, Lieuwe, Botta, Michela, de Brabander, Justin, de Bree, Godelieve, de Bruin, Sanne, Buis, David T.P., Bugiani, Marianna, Bulle, Esther, Chouchane, Osoul, Cloherty, Alex, Dijkstra, Mirjam, Dongelmans, Dave A., Dujardin, Romein W.G., Elbers, Paul, Fleuren, Lucas, Geerlings, Suzanne, Geijtenbeek, Theo, Girbes, Armand, Goorhuis, Bram, Grobusch, Martin P., Hafkamp, Florianne, Hagens, Laura, Hamann, Jorg, Harris, Vanessa, Hemke, Robert, Hermans, Sabine M., Heunks, Leo, Hollmann, Markus, Horn, Janneke, Hovius, Joppe W., de Jong, Menno D., Koning, Rutger, Lim, Endry H.T., van Mourik, Niels, Nellen, Jeaninne, Nossent, Esther J., Paulus, Frederique, Peters, Edgar, Pina-Fuentes, Dan A.I., van der Poll, Tom, Preckel, Bennedikt, Prins, Jan M., Raasveld, Jorinde, Reijnders, Tom, de Rotte, Maurits C.F. J., Schinkel, Michiel, Schultz, Marcus J., Schrauwen, Femke A.P., Schuurmans, Alex, Schuurmans, Jaap, Sigaloff, Kim, Slim, Marleen A., Smeele, Patrick, Smit, Marry, Stijnis, Cornelis S., Stilma, Willemke, Teunissen, Charlotte, Thoral, Patrick, Tsonas, Anissa M., Tuinman, Pieter R., van der Valk, Marc, Veelo, Denise P., Volleman, Carolien, de Vries, Heder, Vught, Lonneke A., van Vugt, Michèle, Wouters, Dorien, Zwinderman, A.H., Brouwer, Matthijs C., Wiersinga, W. Joost, Vlaar, Alexander P.J., Tompkins, Miranda F., Alba, Camille, Hupalo, Daniel N., Rosenberger, John, Sukumar, Gauthaman, Wilkerson, Matthew D., Zhang, Xijun, Lack, Justin, Oler, Andrew J., Dobbs, Kerry, Delmonte, Ottavia M., Danielson, Jeffrey J., Biondi, Andrea, Bettini, Laura Rachele, D’Angiò, Mariella, Beretta, Ilaria, Imberti, Luisa, Sottini, Alessandra, Quaresima, Virginia, Quiros-Roldan, Eugenia, Rossi, Camillo, Castagnoli, Riccardo, Montagna, Daniela, Licari, Amelia, Marseglia, Gian Luigi, Marchal, Astrid, Cirulli, Elizabeth T., Neveux, Iva, Bellos, Evangelos, Thwaites, Ryan S., Schiabor Barrett, Kelly M., Zhang, Yu, Nemes-Bokun, Ivana, Kalinova, Mariya, Catchpole, Andrew, Lack, Justin B., Chiu, Christopher, and Grzymski, Joseph J.

Published
2024
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46. Illuminating arthropod diversity in a tropical forest: Assessing biodiversity by automatic light trapping and DNA metabarcoding

Author

Daniel Souto‐Vilarós, Yves Basset, Petr Blažek, Benita Laird‐Hopkins, Simon T. Segar, Eduardo Navarro‐Valencia, Ana Cecilia Zamora, Yahir Campusano, Richard Čtvrtečka, Amanda F. Savage, Filonila Perez, Yacksecari Lopez, Ricardo Bobadilla, José Alejandro Ramírez Silva, and Greg P. A. Lamarre

Subjects
arthropod monitoring, Barcode Index Number, Barro Colorado Island, biodiversity, light‐trapping, metabarcoding, Environmental sciences, GE1-350, Microbial ecology, QR100-130
Abstract

Abstract Although studies of insect decline have recently dominated headlines worldwide, their interpretation requires caution since for most species, we lack long‐term population baselines. In the tropics, where most insect species thrive, our knowledge is even more limited and so reliable insect assessments must originate from well‐established long‐term monitoring efforts. Combining the extensive monitoring data from the Arthropod Program of the Smithsonian Tropical Research Institute (STRI) on Barro Colorado Island (BCI), Panama, we compare whether known arthropod diversity can be detected through metabarcoding of bulk insect samples obtained through automatic light‐trapping. Our study detected 4402 species based on Barcode Index Numbers (BIN) and detected fine‐scale differences between wet and dry seasons and sampling localities. We further refined our analysis to indicate which families and genera explained seasonal turnover. Using samples collected in parallel, but sorted manually as part of the ongoing arthropod monitoring program, we compared these methods. Out of 538 BINs recovered through manual sorting, there was a 70% overlap with the metabarcoding data; however, it represented 30% of the total BINs detected through metabarcoding. Expecting higher detection through metabarcoding, we also compare the results with the 14 years of sampling in BCI to better understand how well the monitoring program has captured the diversity of focal groups. Our results revealed a ~50% overlap between both methods and similar total catch. Barcode Index Numbers manually detected but not recovered by metabarcoding highlight some of the limitations of molecular detection methods such as primer bias. Contrastingly, BINs detected with metabarcoding, but not recovered by the traditional monitoring scheme, highlight the importance of local and regional barcode reference libraries.

Published
2024
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47. LAG-3- and CXCR5-expressing CD4 T cells display progenitor-like properties during chronic visceral leishmaniasis

Author

Sharada Swaminathan, Linh Thuy Mai, Alexandre P. Meli, Liseth Carmona-Pérez, Tania Charpentier, Alain Lamarre, Irah L. King, and Simona Stäger

Subjects
CP: Immunology, CP: Cell biology, Biology (General), QH301-705.5
Abstract

Summary: Maintenance of CD4 T cells during chronic infections is vital for limiting pathogen burden and disease recrudescence. Although inhibitory receptor expression by CD4 T cells is commonly associated with immune suppression and exhaustion, such cell-intrinsic mechanisms that control activation are also associated with cell survival. Using a mouse model of visceral leishmaniasis (VL), we discovered a subset of lymphocyte activation gene 3 (LAG-3)-expressing CD4 T cells that co-express CXCR5. Although LAG3+CXCR5+ CD4 T cells are present in naive mice, they expand during VL. These cells express gene signatures associated with self-renewal capacity, suggesting progenitor-like properties. When transferred into Rag1−/− mice, these LAG3+CXCR5+ CD4 T cells differentiated into multiple effector types upon Leishmania donovani infection. The transcriptional repressor B cell lymphoma-6 was partially required for their maintenance. Altogether, we propose that the LAG3+CXCR5+ CD4 T cell subset could play a role in maintaining CD4 T cell responses during persistent infections.

Published
2024
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48. Cellular arrangement impacts metabolic activity and antibiotic tolerance in Pseudomonas aeruginosa biofilms.

Author

Hannah Dayton, Julie Kiss, Mian Wei, Shradha Chauhan, Emily LaMarre, William Cole Cornell, Chase J Morgan, Anuradha Janakiraman, Wei Min, Raju Tomer, Alexa Price-Whelan, Jasmine A Nirody, and Lars E P Dietrich

Subjects
Biology (General), QH301-705.5
Abstract

Cells must access resources to survive, and the anatomy of multicellular structures influences this access. In diverse multicellular eukaryotes, resources are provided by internal conduits that allow substances to travel more readily through tissue than they would via diffusion. Microbes growing in multicellular structures, called biofilms, are also affected by differential access to resources and we hypothesized that this is influenced by the physical arrangement of the cells. In this study, we examined the microanatomy of biofilms formed by the pathogenic bacterium Pseudomonas aeruginosa and discovered that clonal cells form striations that are packed lengthwise across most of a mature biofilm's depth. We identified mutants, including those defective in pilus function and in O-antigen attachment, that show alterations to this lengthwise packing phenotype. Consistent with the notion that cellular arrangement affects access to resources within the biofilm, we found that while the wild type shows even distribution of tested substrates across depth, the mutants show accumulation of substrates at the biofilm boundaries. Furthermore, we found that altered cellular arrangement within biofilms affects the localization of metabolic activity, the survival of resident cells, and the susceptibility of subpopulations to antibiotic treatment. Our observations provide insight into cellular features that determine biofilm microanatomy, with consequences for physiological differentiation and drug sensitivity.

Published
2024
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49. KPZ equation with a small noise, deep upper tail and limit shape

Author

Lamarre, Pierre Yves Gaudreau, Lin, Yier, and Tsai, Li-Cheng

Subjects
Mathematics - Probability, Mathematical Physics
Abstract

In this paper, we consider the KPZ equation under the weak noise scaling. That is, we introduce a small parameter $\sqrt{\varepsilon}$ in front of the noise and let $\varepsilon \to 0$. We prove that the one-point large deviation rate function has a $\frac{3}{2}$ power law in the deep upper tail. Furthermore, by forcing the value of the KPZ equation at a point to be very large, we prove a limit shape of the KPZ equation as $\varepsilon \to 0$. This confirms the physics prediction in Kolokolov and Korshunov (2007), Kolokolov and Korshunov (2009), Meerson, Katzav, and Vilenkin (2016), Kamenev, Meerson, and Sasorov (2016), and Le Doussal, Majumdar, Rosso, and Schehr (2016)., Comment: 23 pages, 1 figure. An error in Lemma 3.1 in the first version of the paper is corrected

Published
2021
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