1,057 results on '"Carlotti, P."'
Search Results
2. METIS high-contrast imaging: from final design to manufacturing and testing
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Absil, Olivier, Kenworthy, Matthew, Delacroix, Christian, de Xivry, Gilles Orban, König, Lorenzo, Pathak, Prashant, Doelman, David, Por, Emiel, Snik, Frans, Born, Joost van den, Cantalloube, Faustine, Carlotti, Alexis, Courtney-Barrer, Benjamin, Forsberg, Pontus, Karlsson, Mikael, Bertram, Thomas, van Boekel, Roy, Dolkens, Dennis, Feldt, Markus, Glauser, Adrian M., Pantin, Eric, Quanz, Sascha P., Bettonvil, Felix, and Brandl, Bernhard
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
The Mid-infrared ELT Imager and Spectrograph (METIS) is one of the first-generation scientific instruments for the ELT, built under the supervision of ESO by a consortium of research institutes across and beyond Europe. Designed to cover the 3 to 13 $\mu$m wavelength range, METIS had its final design reviewed in Fall 2022, and has then entered in earnest its manufacture, assembly, integration, and test (MAIT) phase. Here, we present the final design of the METIS high-contrast imaging (HCI) modes. We detail the implementation of the two main coronagraphic solutions selected for METIS, namely the vortex coronagraph and the apodizing phase plate, including their combination with the high-resolution integral field spectrograph of METIS, and briefly describe their respective backup plans (Lyot coronagraph and shaped pupil plate). We then describe the status of the MAIT phase for HCI modes, including a review of the final design of individual components such as the vortex phase masks, the grayscale ring apodizer, and the apodizing phase plates, as well as a description of their on-going performance tests and of our plans for system-level integration and tests. Using end-to-end simulations, we predict the performance that will be reached on sky by the METIS HCI modes in presence of various environmental and instrumental disturbances, including non-common path aberrations and water vapor seeing, and discuss our strategy to mitigate these various effects. We finally illustrate with mock observations and data processing that METIS should be capable of directly imaging temperate rocky planets around the nearest stars., Comment: 16 pages, paper presented at SPIE Astronomical Telescopes + Instrumentation 2024
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- 2024
3. Learning to Estimate the Pose of a Peer Robot in a Camera Image by Predicting the States of its LEDs
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Carlotti, Nicholas, Nava, Mirko, and Giusti, Alessandro
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Computer Science - Robotics - Abstract
We consider the problem of training a fully convolutional network to estimate the relative 6D pose of a robot given a camera image, when the robot is equipped with independent controllable LEDs placed in different parts of its body. The training data is composed by few (or zero) images labeled with a ground truth relative pose and many images labeled only with the true state (\textsc{on} or \textsc{off}) of each of the peer LEDs. The former data is expensive to acquire, requiring external infrastructure for tracking the two robots; the latter is cheap as it can be acquired by two unsupervised robots moving randomly and toggling their LEDs while sharing the true LED states via radio. Training with the latter dataset on estimating the LEDs' state of the peer robot (\emph{pretext task}) promotes learning the relative localization task (\emph{end task}). Experiments on real-world data acquired by two autonomous wheeled robots show that a model trained only on the pretext task successfully learns to localize a peer robot on the image plane; fine-tuning such model on the end task with few labeled images yields statistically significant improvements in 6D relative pose estimation with respect to baselines that do not use pretext-task pre-training, and alternative approaches. Estimating the state of multiple independent LEDs promotes learning to estimate relative heading. The approach works even when a large fraction of training images do not include the peer robot and generalizes well to unseen environments., Comment: Accepted at International Conference on Intelligent Robots and Systems (IROS) 2024
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- 2024
4. Management of severe traumatic brain injury in pediatric patients: an evidence-based approach
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de Carvalho Panzeri Carlotti, Ana Paula, do Amaral, Vivian Henriques, de Carvalho Canela Balzi, Ana Paula, Johnston, Cintia, Regalio, Fabiane Allioti, Cardoso, Maíra Freire, Ferranti, Juliana Ferreira, Zamberlan, Patrícia, Gilio, Alfredo Elias, Malbouisson, Luiz Marcelo Sá, Delgado, Artur Figueiredo, and de Carvalho, Werther Brunow
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- 2024
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5. Bernardo Dessau, fisico, scienziato, maestro, da Bologna a Perugia tra i marosi del secolo breve
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Carlotti, Giovanni
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Physics - History and Philosophy of Physics ,Physics - Physics and Society - Abstract
Seventy-five years ago, Bernardo Dessau passed away. He had been the sole professor of Physics at the University of Perugia for thirty years. With this brief contribution we intend to repay a debt of gratitude, first of all because his scientific merits were probably underestimated, having spent the first fifteen years of his career under the shadow of the great Augusto Righi in Bologna, where he also witnessed meetings with the young Marconi. He was then relegated to the Faculty of Medicine of Perugia, without a real laboratory, disregarded by the national scientific community and unable to move to better equipped locations. Nevertheless, he proved to be a gifted teacher and popularizer of science. He published a comprehensive three-volume physics textbook that was widely used in Italy and abroad. Despite becoming an Italian citizen in 1894, Dessau's German origins led to his suspension from service during World War I. Furthermore, his Jewish identity made him a target of Nazi-fascist antisemitism. He was dismissed from both the University of Perugia and from the Italian Society of Physics, of which he had been a member since its beginning, fortunately escaping deportation., Comment: in Italian language. Accettato per la pubblicazione e in corso di stampa sulla rivista: Quaderni di Storia della Fisica della Societa' Italiana di Fisica
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- 2024
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6. Self-Supervised Learning of Visual Robot Localization Using LED State Prediction as a Pretext Task
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Nava, Mirko, Carlotti, Nicholas, Crupi, Luca, Palossi, Daniele, and Giusti, Alessandro
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Computer Science - Robotics - Abstract
We propose a novel self-supervised approach for learning to visually localize robots equipped with controllable LEDs. We rely on a few training samples labeled with position ground truth and many training samples in which only the LED state is known, whose collection is cheap. We show that using LED state prediction as a pretext task significantly helps to learn the visual localization end task. The resulting model does not require knowledge of LED states during inference. We instantiate the approach to visual relative localization of nano-quadrotors: experimental results show that using our pretext task significantly improves localization accuracy (from 68.3% to 76.2%) and outperforms alternative strategies, such as a supervised baseline, model pre-training, and an autoencoding pretext task. We deploy our model aboard a 27-g Crazyflie nano-drone, running at 21 fps, in a position-tracking task of a peer nano-drone. Our approach, relying on position labels for only 300 images, yields a mean tracking error of 4.2 cm versus 11.9 cm of a supervised baseline model trained without our pretext task. Videos and code of the proposed approach are available at https://github.com/idsia-robotics/leds-as-pretext
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- 2024
7. Machine learning can reliably predict malignancy of breast lesions based on clinical and ultrasonographic features
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Buzatto, I. P. C., Recife, S. A., Miguel, L., Bonini, R. M., Onari, N., Faim, A. L. P. A., Silvestre, L., Carlotti, D. P., Fröhlich, A., and Tiezzi, D. G.
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- 2024
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8. Exoplanets detection limits using spectral cross-correlation with spectro-imaging. An analytical model applied to the case of ELT-HARMONI
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Bidot, Alexis, Mouillet, David, and Carlotti, Alexis
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
The combination of high-contrast imaging and medium to high spectral resolution spectroscopy offers new possibilities for the detection and characterization of exoplanets. The molecular mapping technique uses the difference between the planetary and stellar spectra. While traditional post-processing techniques are quickly limited by speckle noise at short angular separation, it efficiently suppresses speckles. Its performance depends on multiple parameters such as the star magnitude, the adaptive optics residual halo, the companion spectrum, the telluric absorption, as well as the telescope and instrument properties. Exploring this parameter space through end-to-end simulations to predict potential science cases and to optimize future instrument designs is very time-consuming, making it difficult to draw conclusions. We propose to define an efficient methodology for such an analysis. Explicit expressions of the estimates of signal and noise are derived, and they are validated through comparisons with end-to-end simulations. They provide an understanding of the instrumental dependencies, and help to discuss optimal instrumental choices with regard to the targets of interest. They are applied in the case of ELT/HARMONI, as a tool to predict the contrast performance in various observational cases. We confirm the potential of molecular mapping for high-contrast detections, especially for cool planets at short separations. We provide guidelines based on quantified estimates for design trade-offs of future instruments. We discuss the planet detection performances of HARMONI observing modes. While they nicely cover the appropriate requirements for high detection capability of warm exoplanets, a transmission extended down to J band would be beneficial. A contrast of a few 1E-7 at 50mas should be within reach on bright targets in photon noise regime with molecular mapping., Comment: 19 pages
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- 2023
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9. Progressive hemorrhagic injury and ischemia after severe traumatic brain injury according to hemoglobin transfusion thresholds: a post-hoc analysis of the transfusion requirements after head trauma trial
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Gobatto, André L. N., Solla, Davi, Brasil, Sérgio, Taccone, Fabio S., Carlotti Jr, Carlos G., Malbouisson, Luiz Marcelo S., and Paiva, Wellingson S.
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- 2024
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10. Integrated photonic-based coronagraphic systems for future space telescopes
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Desai, Niyati, König, Lorenzo, Por, Emiel, Juanola-Parramon, Roser, Belikov, Ruslan, Laginja, Iva, Guyon, Olivier, Pueyo, Laurent, Fogarty, Kevin, Absil, Olivier, Altinier, Lisa, Baudoz, Pierre, Bidot, Alexis, Bonse, Markus Johannes, Bott, Kimberly, Brandl, Bernhard, Carlotti, Alexis, Casewell, Sarah L., Choquet, Elodie, Cowan, Nicolas B., Doelman, David, Fowler, J., Gebhard, Timothy D., Gutierrez, Yann, Haffert, Sebastiaan Y., Herscovici-Schiller, Olivier, Hours, Adrien, Kenworthy, Matthew, Kleisioti, Elina, Krasteva, Mariya, Landman, Rico, Leboulleux, Lucie, Mazoyer, Johan, Millar-Blanchaer, Maxwell A., Mouillet, David, NDiaye, Mamadou, Snik, Frans, van Dam, Dirk, van Gorkom, Kyle, van Kooten, Maaike, and Vaughan, Sophia R.
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
The detection and characterization of Earth-like exoplanets around Sun-like stars is a primary science motivation for the Habitable Worlds Observatory. However, the current best technology is not yet advanced enough to reach the 10^-10 contrasts at close angular separations and at the same time remain insensitive to low-order aberrations, as would be required to achieve high-contrast imaging of exo-Earths. Photonic technologies could fill this gap, potentially doubling exo-Earth yield. We review current work on photonic coronagraphs and investigate the potential of hybridized designs which combine both classical coronagraph designs and photonic technologies into a single optical system. We present two possible systems. First, a hybrid solution which splits the field of view spatially such that the photonics handle light within the inner working angle and a conventional coronagraph that suppresses starlight outside it. Second, a hybrid solution where the conventional coronagraph and photonics operate in series, complementing each other and thereby loosening requirements on each subsystem. As photonic technologies continue to advance, a hybrid or fully photonic coronagraph holds great potential for future exoplanet imaging from space., Comment: Conference Proceedings of SPIE: Techniques and Instrumentation for Detection of Exoplanets XI, vol. 12680 (2023)
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- 2023
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11. Visible extreme adaptive optics on extremely large telescopes: Towards detecting oxygen in Proxima Centauri b and analogs
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Fowler, J., Haffert, Sebastiaan Y., van Kooten, Maaike A. M., Landman, Rico, Bidot, Alexis, Hours, Adrien, N'Diaye, Mamadou, Absil, Olivier, Altinier, Lisa, Baudoz, Pierre, Belikov, Ruslan, Bonse, Markus Johannes, Bott, Kimberly, Brandl, Bernhard, Carlotti, Alexis, Casewell, Sarah L., Choquet, Elodie, Cowan, Nicolas B., Desai, Niyati, Doelman, David, Fogarty, Kevin, Gebhard, Timothy D., Gutierrez, Yann, Guyon, Olivier, Herscovici-Schiller, Olivier, Juanola-Parramon, Roser, Kenworthy, Matthew, Kleisioti, Elina, Konig, Lorenzo, Krasteva, Mariya, Laginja, Iva, Leboulleux, Lucie, Mazoyer, Johan, Millar-Blanchaer, Maxwell A., Mouillet, David, Por, Emiel, Pueyo, Laurent, Snik, Frans, van Dam, Dirk, van Gorkom, Kyle, and Vaughan, Sophia R.
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Astrophysics - Earth and Planetary Astrophysics ,Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
Looking to the future of exo-Earth imaging from the ground, core technology developments are required in visible extreme adaptive optics (ExAO) to enable the observation of atmospheric features such as oxygen on rocky planets in visible light. UNDERGROUND (Ultra-fast AO techNology Determination for Exoplanet imageRs from the GROUND), a collaboration built in Feb. 2023 at the Optimal Exoplanet Imagers Lorentz Workshop, aims to (1) motivate oxygen detection in Proxima Centauri b and analogs as an informative science case for high-contrast imaging and direct spectroscopy, (2) overview the state of the field with respect to visible exoplanet imagers, and (3) set the instrumental requirements to achieve this goal and identify what key technologies require further development., Comment: SPIE Proceeding: 2023 / 12680-67
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- 2023
12. Chasing rainbows and ocean glints: Inner working angle constraints for the Habitable Worlds Observatory
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Vaughan, Sophia R., Gebhard, Timothy D., Bott, Kimberly, Casewell, Sarah L., Cowan, Nicolas B., Doelman, David S., Kenworthy, Matthew, Mazoyer, Johan, Millar-Blanchaer, Maxwell A., Trees, Victor J. H., Stam, Daphne M., Absil, Olivier, Altinier, Lisa, Baudoz, Pierre, Belikov, Ruslan, Bidot, Alexis, Birkby, Jayne L., Bonse, Markus J., Brandl, Bernhard, Carlotti, Alexis, Choquet, Elodie, van Dam, Dirk, Desai, Niyati, Fogarty, Kevin, Fowler, J., van Gorkom, Kyle, Gutierrez, Yann, Guyon, Olivier, Haffert, Sebastiaan Y., Herscovici-Schiller, Olivier, Hours, Adrien, Juanola-Parramon, Roser, Kleisioti, Evangelia, König, Lorenzo, van Kooten, Maaike, Krasteva, Mariya, Laginja, Iva, Landman, Rico, Leboulleux, Lucie, Mouillet, David, N'Diaye, Mamadou, Por, Emiel H., Pueyo, Laurent, and Snik, Frans
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Astrophysics - Earth and Planetary Astrophysics - Abstract
NASA is engaged in planning for a Habitable Worlds Observatory (HabWorlds), a coronagraphic space mission to detect rocky planets in habitable zones and establish their habitability. Surface liquid water is central to the definition of planetary habitability. Photometric and polarimetric phase curves of starlight reflected by an exoplanet can reveal ocean glint, rainbows and other phenomena caused by scattering by clouds or atmospheric gas. Direct imaging missions are optimised for planets near quadrature, but HabWorlds' coronagraph may obscure the phase angles where such optical features are strongest. The range of accessible phase angles for a given exoplanet will depend on the planet's orbital inclination and/or the coronagraph's inner working angle (IWA). We use a recently-created catalog relevant to HabWorlds of 164 stars to estimate the number of exo-Earths that could be searched for ocean glint, rainbows, and polarization effects due to Rayleigh scattering. We find that the polarimetric Rayleigh scattering peak is accessible in most of the exo-Earth planetary systems. The rainbow due to water clouds at phase angles of ${\sim}20-60^\circ$ would be accessible with HabWorlds for a planet with an Earth equivalent instellation in ${\sim}{46}$ systems, while the ocean glint signature at phase angles of ${\sim}130-170^\circ$ would be accessible in ${\sim}{16}$ systems, assuming an IWA${=}62$ mas ($3\lambda/D$). Improving the IWA${=}41$ mas ($2\lambda/D$) increases accessibility to rainbows and glints by factors of approximately 2 and 3, respectively. By observing these scattering features, HabWorlds could detect a surface ocean and water cycle, key indicators of habitability., Comment: MNRAS accepted, 9 pages, 8 figures, 3 tables
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- 2023
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13. Suppression of the spin waves nonreciprocity due to interfacial Dzyaloshinskii Moriya interaction by lateral confinement in magnetic nanostructures
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Tacchi, S., Silvani, R., Kuepferling, M., Scarioni, A. Fernandez, Sievers, S., Schumacher, H. W., Darwin, E., Syskaki, M. -A., Jakob, G., Klaui, M., and Carlotti, G.
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Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
Despite the huge recent interest towards chiral magnetism related to the interfacial Dzyaloshinskii Moriya interaction (iDMI) in layered systems, there is a lack of experimental data on the effect of iDMI on the spin waves eigenmodes of laterally confined nanostructures. Here we exploit Brillouin Light Scattering (BLS) to analyze the spin wave eigenmodes of non-interacting circular and elliptical dots, as well as of long stripes, patterned starting from a Pt(3.4 nm)/CoFeB(0.8 nm) bilayer, with lateral dimensions ranging from 100 nm to 400 nm. Our experimental results, corroborated by micromagnetic simulations based on the GPU-accelerated MuMax3 software package, provide evidence for a strong suppression of the frequency asymmetry between counter-propagating spin waves (corresponding to either Stokes or anti-Stokes peaks in BLS spectra), when the lateral confinement is reduced from 400 nm to 100 nm, i.e. when it becomes lower than the light wavelength. Such an evolution reflects the modification of the spin wave character from propagating to stationary and indicates that the BLS based method of quantifying the i-DMI strength from the frequency difference of counter propagating spin waves is not applicable in the case of magnetic elements with lateral dimension below about 400 nm., Comment: Accepted for pubblication by: Physical Review B
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- 2023
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14. On-sky demonstration at Palomar Observatory of the near-IR, high-resolution VIPA spectrometer
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Carlotti, Alexis, Bidot, Alexis, Mouillet, David, Correia, Jean-Jacques, Jocou, Laurent, Curaba, Stéphane, Delboulbé, Alain, Coarer, Etienne Le, Rabou, Patrick, Bourdarot, Guillaume, Forveille, Thierry, Bondils, Xavier, Vasisht, Gautam, Mawet, Dimitri, Burruss, Rick S., Oppenheimer, Rebecca, Doyon, René, Artigau, Etienne, and Vallée, Philippe
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Astrophysics - Instrumentation and Methods for Astrophysics ,Astrophysics - Earth and Planetary Astrophysics - Abstract
A near-IR high-resolution, R=80000 spectrometer has been developed at IPAG to directly characterize the atmosphere of exoplanets using adaptive optics (AO) assisted telescopes, and a single-mode fiber-injection unit. A first technical test with the 200' Hale telescope at Palomar Observatory occurred in March 2022 using the PALM3000 AO system offered by this telescope. Observations have also been made at the same time with the PARVI spectrometer so that a direct comparison can be made between the two instruments. This spectrometer uses a virtually imaged phased array (VIPA) instead of an echelle grating, resulting in a very compact optical layout that fits in a 0.25m3 cryostat. Using a quarter of an H2RG detector, the spectrometer analyses the middle part of the H-band, from 1.57 to 1.7 microns for 2 sources whose light is transferred from the telescope to the spectrometer using single-mode fibers. By design, the transmission of the spectrometer is expected to be 40-50%, which is 2-3 times higher than the transmission of current high-resolution spectrometers such as CRIRES+ and NIRSPEC. A damaged cross-disperser limited it to 21%, however. A replacement grating with a correct, twice as high efficiency has been procured after the on-sky demonstration. In addition to recalling the main specifications of the VIPA spectrometer, this paper presents the control software, the calibration process, and the reduction pipeline that have been developed for the instrument. It also presents the results of the on-sky technical test with the Hale telescope, as well as measurements of the effective resolution and transmission, along with a comparison of a spectrum of the sun obtained with the spectrometer with the BASS2000 reference spectrum. Planned modifications are also discussed. That includes the integration of a new dedicated H2RG detector, and of K-band optics.
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- 2023
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15. 223 IMMUNE CELL PHENOTYPING IN BARRETT'S ESOPHAGUS IN PATIENTS PRIOR AND AT TIME OF PROGRESSION
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Lin, Meng-Lay, Hickey, John W, Schürch, Christian M, Passman, Adam M, Carlotti, Emanuela, Devkumar, Shruthi, Hackett, Richard J, Rodriguez-Justo, Manuel, Novelli, Marco, Jansen, Marnix, Gascard, Philippe D, Tlsty, Thea D, and McDonald, Stuart A
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Biomedical and Clinical Sciences ,Clinical Sciences ,Nutrition and Dietetics ,Neurosciences ,Paediatrics and Reproductive Medicine ,Gastroenterology & Hepatology ,Clinical sciences ,Nutrition and dietetics - Published
- 2023
16. HARMONI at ELT: A Zernike wavefront sensor for the high-contrast module -- Testbed results with realistic observation conditions
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Hours, Adrien, Carlotti, Alexis, Mouillet, David, Delboulbé, Alain, Guieu, Sylvain, Jocou, Laurent, Moulin, Thibaut, Pancher, Fabrice, Rabou, Patrick, Choquet, Elodie, Dohlen, Kjetil, Sauvage, Jean-François, and N'Diaye, Mamadou
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
ELT-HARMONI is the first light visible and near-IR integral field spectrograph (IFS) for the ELT. It covers a large spectral range from 450nm to 2450nm with resolving powers from 3500 to 18000 and spatial sampling from 60mas to 4mas. It can operate in two Adaptive Optics modes - SCAO (including a High Contrast capability) and LTAO - or with NOAO. The project is preparing for Final Design Reviews. The High Contrast Module (HCM) will allow HARMONI to perform direct imaging and spectral analysis of exoplanets up to one million times fainter than their host star. Quasi-static aberrations are a limiting factor and must be calibrated as close as possible to the focal plane masks to reach the specified contrast. A Zernike sensor for Extremely Low-level Differential Aberrations (ZELDA) will be used in real-time and closed-loop operation at 0.1Hz frequency for this purpose. Unlike a Shack-Hartmann, the ZELDA wavefront sensor is sensitive to Island and low-wind effects. The ZELDA sensor has already been tested on VLT-SPHERE and will be used in other instruments. Our objective is to adapt this sensor to the specific case of HARMONI. A ZELDA prototype is being both simulated and experimentally tested at IPAG. Its nanometric precision has first been checked in 2020 in the case of slowly evolving, small wavefront errors, and without dispersion nor turbulence residuals. On this experimental basis, we address the performance of the sensor under realistic operational conditions including residuals, mis-centring, dispersion, sensitivity, etc. Atmospheric refraction residuals were introduced by the use of a prism, and turbulence was introduced by a spatial light modulator which is also used to minimise wavefront residuals in a closed loop in the observing conditions expected with HARMONI., Comment: 14 pages, 13 figures, SPIE Astronomical Telescopes + Instrumentation (AS22)
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- 2022
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17. Experimental Estimation of Heat Release Rate of Burning Luggage
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Carlotti, P. and Suzanne, M.
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- 2024
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18. Apolipoprotein L genes are novel mediators of inflammation in beta cells
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Paz-Barba, Miriam, Muñoz Garcia, Amadeo, de Winter, Twan J. J., de Graaf, Natascha, van Agen, Maarten, van der Sar, Elisa, Lambregtse, Ferdy, Daleman, Lizanne, van der Slik, Arno, Zaldumbide, Arnaud, de Koning, Eelco J. P., and Carlotti, Françoise
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- 2024
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19. First release of the Pelagic Size Structure database: global datasets of marine size spectra obtained from plankton imaging devices
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M. Dugenne, M. Corrales-Ugalde, J. Y. Luo, R. Kiko, T. D. O'Brien, J.-O. Irisson, F. Lombard, L. Stemmann, C. Stock, C. R. Anderson, M. Babin, N. Bhairy, S. Bonnet, F. Carlotti, A. Cornils, E. T. Crockford, P. Daniel, C. Desnos, L. Drago, A. Elineau, A. Fischer, N. Grandrémy, P.-L. Grondin, L. Guidi, C. Guieu, H. Hauss, K. Hayashi, J. A. Huggett, L. Jalabert, L. Karp-Boss, K. M. Kenitz, R. M. Kudela, M. Lescot, C. Marec, A. McDonnell, Z. Mériguet, B. Niehoff, M. Noyon, T. Panaïotis, E. Peacock, M. Picheral, E. Riquier, C. Roesler, J.-B. Romagnan, H. M. Sosik, G. Spencer, J. Taucher, C. Tilliette, and M. Vilain
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Environmental sciences ,GE1-350 ,Geology ,QE1-996.5 - Abstract
In marine ecosystems, most physiological, ecological, or physical processes are size dependent. These include metabolic rates, the uptake of carbon and other nutrients, swimming and sinking velocities, and trophic interactions, which eventually determine the stocks of commercial species, as well as biogeochemical cycles and carbon sequestration. As such, broad-scale observations of plankton size distribution are important indicators of the general functioning and state of pelagic ecosystems under anthropogenic pressures. Here, we present the first global datasets of the Pelagic Size Structure database (PSSdb), generated from plankton imaging devices. This release includes the bulk particle normalized biovolume size spectrum (NBSS) and the bulk particle size distribution (PSD), along with their related parameters (slope, intercept, and R2) measured within the epipelagic layer (0–200 m) by three imaging sensors: the Imaging FlowCytobot (IFCB), the Underwater Vision Profiler (UVP), and benchtop scanners. Collectively, these instruments effectively image organisms and detrital material in the 7–10 000 µm size range. A total of 92 472 IFCB samples, 3068 UVP profiles, and 2411 scans passed our quality control and were standardized to produce consistent instrument-specific size spectra averaged to 1° × 1° latitude and longitude and by year and month. Our instrument-specific datasets span most major ocean basins, except for the IFCB datasets we have ingested, which were exclusively collected in northern latitudes, and cover decadal time periods (2013–2022 for IFCB, 2008–2021 for UVP, and 1996–2022 for scanners), allowing for a further assessment of the pelagic size spectrum in space and time. The datasets that constitute PSSdb's first release are available at https://doi.org/10.5281/zenodo.11050013 (Dugenne et al., 2024b). In addition, future updates to these data products can be accessed at https://doi.org/10.5281/zenodo.7998799.
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- 2024
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20. Coronagraphy for DiRect Imaging of Exoplanets (CIDRE) testbed 1: concept, optical set up, and experimental results of adaptive amplitude apodization
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Leboulleux, Lucie, Carlotti, Alexis, Curaba, Stéphane, Delboulbé, Alain, Jocou, Laurent, Moulin, Thibaut, Gluck, Laurence, and Sztefek, Marie-Hélène
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
Oncoming exoplanet spectro-imagers like the Planetary Camera and Spectrograph (PCS) for the Extremely Large Telescope (ELT) will aim for a new class of exoplanets, including Earth-like planets evolving around M dwarfs i.e., closer than 0.1'' with contrasts around 10^-8. This can be achieved with coronagraphs to modulate the wavefront. Classical coronagraphs are not optimal: 1) they impose a planetary photon loss, which is particularly problematic when the instrument includes a high spectral-resolution spectrograph, 2) some aberrations such as the missing segments of the ELT are dynamic and not compatible with a static coronagraph design, 3) the coupling of the exoplanet image with a fiber for spectroscopy only requires the electric field to be controlled on a small region of the detector. Such instruments would benefit from an adaptive tool to modulate the wavefront in both amplitude and phase. We propose to combine in the pupil plane a deformable mirror (DM) to control the phase and a digital micro-mirror device (DMD) i.e., an array made of 1920*1080 micro-mirrors able to switch between two positions, to control its amplitude. If the DM is already well-known in the field in particular for adaptive optics applications, the DMD has so far not been fully considered. At IPAG, we are currently assembling a testbed called CIDRE (Coronagraphy for DiRect Imaging of Exoplanets) to develop, test, calibrate, and validate the combination of these two components with a Lyot coronagraph. Since March 2022, CIDRE is assembled albeit without the Lyot coronagraph yet. The first few months have been dedicated to the calibration of the DMD. Since May 2022, it is operational and used to test dynamic amplitude apodization coronagraphs (so-called Shaped Pupils). This proceeding presents the set up of the CIDRE testbench and the first experimental results on adaptive Shaped Pupils obtained with the DMD., Comment: 10 pages, 7 figures
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- 2022
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21. Redundant Apodized Pupils (RAP) for high-contrast imagers robust to segmentation-due aberrations and island effects
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Leboulleux, Lucie, Carlotti, Alexis, N'Diaye, Mamadou, Cantalloube, Faustine, Milli, Julien, Bertrou-Cantou, Arielle, Mouillet, David, Pourré, Nicolas, and Vérinaud, Christophe
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
The imaging and characterization of a larger range of exoplanets, down to young Jupiters and exo-Earths will require accessing very high contrasts at small angular separations with an increased robustness to aberrations, three constraints that drive current instrumentation development. This goal relies on efficient coronagraphs set up on extremely large diameter telescopes such as the Thirty Meter Telescope (TMT), the Giant Magellan Telescope (GMT), or the Extremely Large Telescope (ELT). However, they tend to be subject to specific aberrations that drastically deteriorate the coronagraph performance: their primary mirror segmentation implies phasing errors or even missing segments, and the size of the telescope imposes large spiders, generating low-wind effect as already observed on the Very Large Telescope (VLT)/SPHERE instrument or at the Subaru telescope, or adaptive-optics-due petaling, studied in simulations in the ELT case. The ongoing development of coronagraphs has then to take into account their sensitivity to such errors. We propose an innovative method to generate coronagraphs robust to primary mirror phasing errors and low-wind and adaptive-optics-due petaling effect. This method is based on the apodization of the segment or petal instead of the entire pupil, this apodization being then repeated to mimic the pupil redundancy. We validate this so-called Redundant Apodized Pupil (RAP) method on a James Webb Space Telescope-like pupil composed of 18 hexagonal segments segments to align, and on the VLT architecture in the case of residual low-wind effect., Comment: 13 pages, 10 figures
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- 2022
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22. Connecting SPHERE and CRIRES+ for the characterisation of young exoplanets at high spectral resolution: status update of VLT/HiRISE
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Vigan, A., Lopez, M., Morsy, M. El, Muslimov, E., Viret, A., Zins, G., Murray, G., Costille, A., Otten, G. P. P. L., Seemann, U., Anwand-Heerwart, H., Dohlen, K., Blanchard, P., Garcia, J., Charles, Y., Tchoubaklian, N., Ely, T., Phillips, M., Paufique, J., Beuzit, J. -L., Houllé, M., Costes, J., Pourcelot, R., Baraffe, I., Dorn, R., Jaquet, M., Kasper, M., Reiners, A., Smette, A., Blanco, L., Pallanca, L., Carlotti, A., Choquet, É., Mouillet, D., and N'Diaye, M.
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Astrophysics - Instrumentation and Methods for Astrophysics ,Astrophysics - Earth and Planetary Astrophysics - Abstract
New generation exoplanet imagers on large ground-based telescopes are highly optimised for the detection of young giant exoplanets in the near-infrared, but they are intrinsically limited for their characterisation by the low spectral resolution of their integral field spectrographs ($R<100$). High-dispersion spectroscopy at $R \gg 10^4$ would be a powerful tool for the characterisation of these planets, but there is currently no high-resolution spectrograph with extreme adaptive optics and coronagraphy that would enable such characterisation. With project HiRISE we propose to use fiber coupling to combine the capabilities of two flagship instruments at the Very Large Telescope in Chile: the exoplanet imager SPHERE and the high-resolution spectrograph CRIRES+. The coupling will be implemented at the telescope in early 2023. We provide a general overview of the implementation of HiRISE, of its assembly, integration and testing (AIT) phase in Europe, and a brief assessment of its expected performance based on the final hardware., Comment: Submitted to SPIE Astronomical Telescopes + Instrumentation 2022, Adaptive Optics Systems VIII, Paper 12185-27
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- 2022
23. The decadal variability of elemental, isotopic, and biochemical compositions of coastal Mediterranean zooplankton responds to environmental changes
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Garcia, Théo, Carlotti, François, Lepoint, Gilles, Guilloux, Loïc, Tesán-Onrubia, Javier Angel, Grassi, Baptiste, Russias, Victor, and Bănaru, Daniela
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- 2024
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24. Real-world data on adjuvant capecitabine after standard neoadjuvant chemotherapy for triple negative breast cancer
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Maria Fernanda Imperio Pereira, Isabela Panzeri Carlotti Buzatto, Hélio Humberto Angotti Carrara, Fabiana de Oliveira Buono, Jurandyr Moreira de Andrade, Leonardo Fleury Orlandini, and Daniel Guimarães Tiezzi
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Breast neoplasms ,Neoadjuvant therapy ,Triple-negative breast neoplasms ,Capecitabine/therapeutic use ,Gynecology and obstetrics ,RG1-991 - Abstract
Abstract Objective Neoadjuvant chemotherapy (NACT) has become the standard of care for patients with triple-negative breast cancer (TNBC) with tumors > 1 cm or positive axillary nodes. Pathologic complete response (pCR) has been used as an endpoint to select patients for treatment scaling. This study aimed to examine the benefit of adding adjuvant capecitabine for TNBC patients who did not achieve pCR after standard NACT in a real-world scenario. Methods This retrospective cohort study included all patients with TNBC who underwent NACT between 2010 and 2020. Clinicopathological data were obtained from the patient records. Univariate and multivariate analyses were conducted at the 5 years follow-up period. Results We included 153 patients, more than half of whom had stage III (58.2%) and high-grade tumors (60.8%). The overall pCR rate was 34.6%, and 41% of the patients with residual disease received adjuvant capecitabine. Disease-specific survival (DSS) among the patients who achieved pCR was significantly higher (p
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- 2024
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25. Redundant apodization for direct imaging of exoplanets 2: Application to island effects
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Leboulleux, Lucie, Carlotti, Alexis, N'Diaye, Mamadou, Bertrou-Cantou, Arielle, Milli, Julien, Pourré, Nicolas, Cantalloube, Faustine, Mouillet, David, and Vérinaud, Christophe
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
Telescope pupil fragmentation from spiders generates specific aberrations observed at various telescopes and expected on the large telescopes under construction. This so-called island effect induces differential pistons, tips and tilts on the pupil petals, deforming the instrumental PSF, and is one of the main limitations to the detection of exoplanets with high-contrast imaging. These aberrations have different origins such as the low-wind effect or petaling errors in the adaptive-optics reconstruction. In this paper, we propose to alleviate the impact of the aberrations induced by island effects on high-contrast imaging by adapting the coronagraph design in order to increase its robustness to petal-level aberrations. Following a method first developed for errors due to primary mirror segmentation (segment phasing errors, missing segments...), we develop and test Redundant Apodized Pupils (RAP), i.e. apodizers designed at the petal-scale, then duplicated and rotated to mimic the pupil petal geometry. We apply this concept to the ELT architecture, made of six identical petals, to yield a 10^-6 contrast in a dark region from 8 to 40lambda/D. Both amplitude and phase apodizers proposed in this paper are robust to differential pistons between petals, with minimal degradation to their coronagraphic PSFs and contrast levels. In addition, they are also more robust to petal-level tip-tilt errors than apodizers designed for the whole pupil, with which the limit of contrast of 10^-6 in the coronagraph dark zone is achieved for constraints up to 2 rad RMS of these petal-level modes. The RAP concept proves its robustness to island effects (low-wind effect and post-adaptive optics petaling), with an application to the ELT architecture. It can also be considered for other 8- to 30-meter class ground-based units such as VLT/SPHERE, Subaru/SCExAO, GMT/GMagAO-X, or TMT/PSI., Comment: 11 pages, 15 figures, accepted in A&A
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- 2022
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26. Tuning the coexistence regime of incomplete and tubular skyrmions in ferro/ferri/ferromagnetic trilayers
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Yildirim, Oguz, Tomasello, Riccardo, Feng, Yaoxuan, Carlotti, Giovanni, Tacchi, Silvia, Vaghefi, Pegah Mirzadeh, Giordano, Anna, Dutta, Tanmay, Finocchio, Giovanni, Hug, Hans J., and Mandru, Andrada-Oana
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Condensed Matter - Materials Science - Abstract
The development of skyrmionic devices requires a suitable tuning of material parameters in order to stabilize skyrmions and control their density. It has been demonstrated recently that different skyrmion types can be simultaneously stabilized at room temperature in heterostructures involving ferromagnets, ferrimagnets and heavy metals, offering a new platform of coding binary information in the type of skyrmion instead of the presence/absence of skyrmions. Here, we tune the energy landscape of the two skyrmion types in such heterostructures by engineering the geometrical and material parameters of the individual layers. We find that a fine adjustment of the ferromagnetic layer thickness and thus its magnetic anisotropy, allows the trilayer system to support either one of the skyrmion types or the coexistence of both and with varying densities.
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- 2022
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27. Molecular characteristics of early‐onset pancreatic ductal adenocarcinoma
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Silvana Debernardi, Lukasz Liszka, Chara Ntala, Katja Steiger, Irene Esposito, Emanuela Carlotti, Ann‐Marie Baker, Stuart McDonald, Trevor Graham, Branko Dmitrovic, Roger M. Feakins, and Tatjana Crnogorac‐Jurcevic
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early onset pancreatic cancer ,KRAS ,p16 ,p53 ,SMAD4 ,tumour heterogeneity ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
The median age of patients with pancreatic ductal adenocarcinoma (PDAC) at diagnosis is 71 years; however, around 10% present with early‐onset pancreatic cancer (EOPC), i.e., before age 50. The molecular mechanisms underlying such an early onset are unknown. We assessed the role of common PDAC drivers (KRAS, TP53, CDKN2A and SMAD4) and determined their mutational status and protein expression in 90 formalin‐fixed, paraffin‐embedded tissues, including multiple primary and matched metastases, from 37 EOPC patients. KRAS was mutated in 88% of patients; p53 was altered in 94%, and p16 and SMAD4 were lost in 86% and 71% of patients, respectively. Meta‐synthesis showed a higher rate of p53 alterations in EOPC than in late‐onset PDAC (94% vs. 69%, P = 0.0009) and significantly higher loss of SMAD4 (71% vs. 44%, P = 0.0025). The majority of EOPC patients accumulated aberrations in all four drivers; in addition, high tumour heterogeneity was observed across all tissues. The cumulative effect of an exceptionally high rate of alterations in all common PDAC driver genes combined with high tumour heterogeneity suggests an important mechanism underlying the early onset of PDAC.
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- 2024
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28. Redundant apodization for direct imaging of exoplanets I: Robustness to primary mirror segmentation-induced errors outside the segment diffraction limit
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Leboulleux, Lucie, Carlotti, Alexis, and N'Diaye, Mamadou
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
Direct imaging and spectroscopy of Earth-like planets and young Jupiters require contrasts up to 10^6-10^10 at angular separations of a few dozen milliarcseconds. To achieve this goal, one of the most promising approaches consists of using large segmented primary mirror telescopes with coronagraphic instruments. However, coronagraphs are highly sensitive to wavefront errors. The segmentation itself is responsible for phasing errors and segment vibrations to be controlled at a subnanometric accuracy. We propose an innovative method for a coronagraph design that allows a consequent relaxation of the segment phasing constraints for low segment-count mirrors and generates an instrument that is more robust to segment-level wavefront errors. It is based on an optimization of the coronagraph that includes a segment-level apodization. This is repeated over the pupil to match the segmentation redundancy and improves the contrast stability beyond the minimum separation set by the single-segment diffraction limit. We validate this method on a GMT-like pupil for two coronagraph types: apodized pupil Lyot coronagraphs (APLC) and apodizing phase plate coronagraphs (APP). For the APLC, redundant apodization enables releasing the piston phasing constraints by a factor of 5 to 20 compared to classical designs. For the APP, the contrast remains almost constant up to 1 radian RMS of the phasing errors. We also show that redundant apodizations increase the robustness of the coronagraph to segment tip-tilt errors, as well as to missing segments. This method cannot be applied to higher-segment count mirrors such as the ELT or the TMT, but it is particularly suitable for low segment-count mirrors (fewer than 20 segments) such as the GMT aperture. These mirrors aim for high-contrast imaging of debris disks or exoplanets down to 100 mas., Comment: 11 pages, 17 figures
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- 2022
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29. Key points in the determination of the interfacial Dzyaloshinskii-Moriya interaction from asymmetric bubble domain expansion
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Magni, A., Carlotti, G., Casiraghi, A., Darwin, E., Durin, G., Diez, L. Herrera, Hickey, B. J., Huxtable, A., Hwang, C. Y., Jakob, G., Kim, C., Kläui, M., Langer, J., Marrows, C. H., Nembach, H. T., Ravelosona, D., Riley, G. A., Shaw, J. M., Sokalski, V., Tacchi, S., and Kuepferling, M.
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Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
Different models have been used to evaluate the interfacial Dzyaloshinskii-Moriya interaction (DMI) from the asymmetric bubble expansion method using magneto-optics. Here we investigate the most promising candidates over a range of different magnetic multilayers with perpendicular anisotropy. Models based on the standard creep hypothesis are not able to reproduce the domain wall (DW) velocity profile when the DW roughness is high. Our results demonstrate that the DW roughness and the interface roughness of the sample layers are correlated. Furthermore, we give guidance on how to obtain reliable results for the DMI value with this popular method. A comparison of the results with Brillouin light scattering (BLS) measurements on the same samples shows that the BLS approach often results in higher measured values of DMI.
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- 2022
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30. IFNɣ but not IFNα increases recognition of insulin defective ribosomal product-derived antigen to amplify islet autoimmunity
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Thomaidou, Sofia, Munoz Garcia, Amadeo, de Lange, Sabine, Gan, Jin, van der Slik, Arno R., Hoeben, Rob C., Roep, Bart O., Carlotti, Françoise, and Zaldumbide, Arnaud
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- 2023
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31. Musashi-1 regulates cell cycle and confers resistance to cisplatin treatment in Group 3/4 medulloblastomas cells
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Chagas, Pablo Shimaoka, Veronez, Luciana Chain, de Sousa, Graziella Ribeiro, Cruzeiro, Gustavo Alencastro Veiga, Corrêa, Carolina Alves Pereira, Saggioro, Fabiano Pinto, de Paula Queiroz, Rosane Gomes, Marie, Suely Kazue Nagahashi, Brandalise, Silvia Regina, Cardinalli, Izilda Aparecida, Yunes, José Andres, Júnior, Carlos Gilberto Carlotti, Machado, Hélio Rubens, Santos, Marcelo Volpon, Scrideli, Carlos Alberto, Tone, Luiz Gonzaga, and Valera, Elvis Terci
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- 2023
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32. Failure of human rhombic lip differentiation underlies medulloblastoma formation
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Hendrikse, Liam D, Haldipur, Parthiv, Saulnier, Olivier, Millman, Jake, Sjoboen, Alexandria H, Erickson, Anders W, Ong, Winnie, Gordon, Victor, Coudière-Morrison, Ludivine, Mercier, Audrey L, Shokouhian, Mohammad, Suárez, Raúl A, Ly, Michelle, Borlase, Stephanie, Scott, David S, Vladoiu, Maria C, Farooq, Hamza, Sirbu, Olga, Nakashima, Takuma, Nambu, Shohei, Funakoshi, Yusuke, Bahcheli, Alec, Diaz-Mejia, J Javier, Golser, Joseph, Bach, Kathleen, Phuong-Bao, Tram, Skowron, Patryk, Wang, Evan Y, Kumar, Sachin A, Balin, Polina, Visvanathan, Abhirami, Lee, John JY, Ayoub, Ramy, Chen, Xin, Chen, Xiaodi, Mungall, Karen L, Luu, Betty, Bérubé, Pierre, Wang, Yu C, Pfister, Stefan M, Kim, Seung-Ki, Delattre, Olivier, Bourdeaut, Franck, Doz, François, Masliah-Planchon, Julien, Grajkowska, Wieslawa A, Loukides, James, Dirks, Peter, Fèvre-Montange, Michelle, Jouvet, Anne, French, Pim J, Kros, Johan M, Zitterbart, Karel, Bailey, Swneke D, Eberhart, Charles G, Rao, Amulya AN, Giannini, Caterina, Olson, James M, Garami, Miklós, Hauser, Peter, Phillips, Joanna J, Ra, Young S, de Torres, Carmen, Mora, Jaume, Li, Kay KW, Ng, Ho-Keung, Poon, Wai S, Pollack, Ian F, López-Aguilar, Enrique, Gillespie, G Yancey, Van Meter, Timothy E, Shofuda, Tomoko, Vibhakar, Rajeev, Thompson, Reid C, Cooper, Michael K, Rubin, Joshua B, Kumabe, Toshihiro, Jung, Shin, Lach, Boleslaw, Iolascon, Achille, Ferrucci, Veronica, de Antonellis, Pasqualino, Zollo, Massimo, Cinalli, Giuseppe, Robinson, Shenandoah, Stearns, Duncan S, Van Meir, Erwin G, Porrati, Paola, Finocchiaro, Gaetano, Massimino, Maura, Carlotti, Carlos G, Faria, Claudia C, Roussel, Martine F, Boop, Frederick, Chan, Jennifer A, Aldinger, Kimberly A, Razavi, Ferechte, Silvestri, Evelina, McLendon, Roger E, and Thompson, Eric M
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Stem Cell Research ,Brain Disorders ,Neurosciences ,Rare Diseases ,Stem Cell Research - Nonembryonic - Non-Human ,Aetiology ,1.1 Normal biological development and functioning ,Underpinning research ,2.1 Biological and endogenous factors ,Cell Differentiation ,Cell Lineage ,Cerebellar Neoplasms ,Cerebellum ,Core Binding Factor alpha Subunits ,Hedgehog Proteins ,Histone Demethylases ,Humans ,Ki-67 Antigen ,Medulloblastoma ,Metencephalon ,Muscle Proteins ,Mutation ,Otx Transcription Factors ,Repressor Proteins ,T-Box Domain Proteins ,Transcription Factors ,General Science & Technology - Abstract
Medulloblastoma (MB) comprises a group of heterogeneous paediatric embryonal neoplasms of the hindbrain with strong links to early development of the hindbrain1-4. Mutations that activate Sonic hedgehog signalling lead to Sonic hedgehog MB in the upper rhombic lip (RL) granule cell lineage5-8. By contrast, mutations that activate WNT signalling lead to WNT MB in the lower RL9,10. However, little is known about the more commonly occurring group 4 (G4) MB, which is thought to arise in the unipolar brush cell lineage3,4. Here we demonstrate that somatic mutations that cause G4 MB converge on the core binding factor alpha (CBFA) complex and mutually exclusive alterations that affect CBFA2T2, CBFA2T3, PRDM6, UTX and OTX2. CBFA2T2 is expressed early in the progenitor cells of the cerebellar RL subventricular zone in Homo sapiens, and G4 MB transcriptionally resembles these progenitors but are stalled in developmental time. Knockdown of OTX2 in model systems relieves this differentiation blockade, which allows MB cells to spontaneously proceed along normal developmental differentiation trajectories. The specific nature of the split human RL, which is destined to generate most of the neurons in the human brain, and its high level of susceptible EOMES+KI67+ unipolar brush cell progenitor cells probably predisposes our species to the development of G4 MB.
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- 2022
33. Impact of the interfacial Dzyaloshinskii-Moriya interaction on the band structure of one-dimensional artificial magnonic crystals: a micromagnetic study
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Silvania, R., Kuepferling, M., Tacchi, S., and Carlotti, G.
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Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
We present the results of a systematic micromagnetic study of the effect of the Dzyaloshinskii-Moriya interaction (DMI) on the spin wave band structure of two one-dimensional magnonic crystals (MCs), both with the same periodicity p=300 nm, but different implementation of the DMI modulation. In the first system the artificial periodicity was achieved by modulating the interfacial DMI constant D, while in the second system also the sample morphology was modulated. Due to the folding property of the band structure in the dispersion relations of the magnonic crystals it is possible to extend the sensitivity of Brillouin light scattering towards weak DMI strength (D in the range from 0 to 0.5 mJ/m2), by measuring the frequency splitting of folded modes in high-order artificial Brillouin zones, since the splitting increases almost linearly with the band index. For relatively large values of the DMI (D in the range from 1.0 to 2.0 mJ/m2) the spin waves dispersion relations present flat modes for positive wavevectors, separated by forbidden frequency gaps whose amplitude depend on the value of D. These frequency gaps are more pronounced for the sample with morphology modulation. The non-reciprocal, localised, spatial profiles of these modes in both MCs are discussed with reference to spin waves in plain films and in isolated stripes of the same thickness.
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- 2021
34. From the spin eigenmodes of isolated N\'eel skyrmions to the magnonic bands of a skyrmionic crystal: a micromagnetic study as a function of the strength of both the interfacial Dzyaloshinskii-Moriya and the exchange constants
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Bassotti, Mattia, Silvani, Raffaele, and Carlotti, Giovanni
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Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
The presence of interfacial Dzyaloshinskii-Moriya interaction (DMI) may lead to the appearance of N\'eel skyrmions in ferromagnetic films. These topologically protected structures, whose diameter is as small as a few nanometers, can be nowadays stabilized at room temperature and have been proposed for the realization of artificial magnonic crystals and new spintronic devices, such as racetrack memories. In this perspective, it is of utmost importance to analyze their dynamical properties in the GHz range, i.e. in the operation range of current communication devices. Here we exploited the software MuMax3 to calculate the dynamics of N\'eel skyrmions in the range between 1 and 30 GHz, considering first the eigenmodes of an isolated skyrmion, then the case of two interacting skyrmions and finally a linear chain, representing a one-dimensional magnonic crystal, whose magnonic band structure has been calculated as a function of the strength of both the DMI- and the exchange-constants, namely D and A. The magnonic bands can be interpreted as derived from the eigenmodes of isolated skyrmions, even if hybridization and anti-crossing phenomena occur for specific ranges of values of D and A. Therefore, varying the latter parameters, for instance by a proper choice of the materials and thicknesses, may enable one to fine-tune the permitted and forbidden frequency interval of the corresponding magnonic crystal., Comment: 5 pages , 4 figures
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- 2021
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35. Manipulation of magnetic skyrmions in continuous Ir/Co/Pt multilayers
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Cubukcu, M., Pollath, S., Tacchi, S., Stacey, A., Darwin, E., Freeman, C. W. F., Barton, C., Hickey, B. J., Marrows, C. H., Carlotti, G., Back, C. H., and Kazakova, O.
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Condensed Matter - Materials Science - Abstract
We show that magnetic skyrmions can be stabilized at room temperature in continuous Ir/Co/Pt multilayers on SiO2/Si substrate without prior application of electric current or magnetic field. While decreasing the Co thickness, tuning of the magnetic anisotropy gives rise to a transition from worm-like domain patterns to long and separate stripes. The skyrmions are clearly imaged in both states using Magnetic Force Microscopy. The density of skyrmions can be significantly enhanced after applying the in-plane field procedure. In addition, we have investigated the phase diagram of a sample deposited in the same run, but onto a SiNx membrane using Lorentz transmission electron microscopy. Interestingly, this sample shows a different behaviour as function of magnetic field hinting to the influence of strain on the phase diagram of skyrmions in thin film multilayers. Our results provide means to manipulate skyrmion, further allowing for optimized engineering of skyrmion-based devices.
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- 2021
36. A machine learning model for the early diagnosis of bloodstream infection in patients admitted to the pediatric intensive care unit.
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Felipe Liporaci, Danilo Carlotti, and Ana Carlotti
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Medicine ,Science - Abstract
Bloodstream infection (BSI) is associated with increased morbidity and mortality in the pediatric intensive care unit (PICU) and high healthcare costs. Early detection and appropriate treatment of BSI may improve patient's outcome. Data on machine-learning models to predict BSI in pediatric patients are limited and neither study included time series data. We aimed to develop a machine learning model to predict an early diagnosis of BSI in patients admitted to the PICU. This was a retrospective cohort study of patients who had at least one positive blood culture result during stay at a PICU of a tertiary-care university hospital, from January 1st to December 31st 2019. Patients with positive blood culture results with growth of contaminants and those with incomplete data were excluded. Models were developed using demographic, clinical and laboratory data collected from the electronic medical record. Laboratory data (complete blood cell counts with differential and C-reactive protein) and vital signs (heart rate, respiratory rate, blood pressure, temperature, oxygen saturation) were obtained 72 hours before and on the day of blood culture collection. A total of 8816 data from 76 patients were processed by the models. The machine committee was the best-performing model, showing accuracy of 99.33%, precision of 98.89%, sensitivity of 100% and specificity of 98.46%. Hence, we developed a model using demographic, clinical and laboratory data collected on a routine basis that was able to detect BSI with excellent accuracy and precision, and high sensitivity and specificity. The inclusion of vital signs and laboratory data variation over time allowed the model to identify temporal changes that could be suggestive of the diagnosis of BSI. Our model might help the medical team in clinical-decision making by creating an alert in the electronic medical record, which may allow early antimicrobial initiation and better outcomes.
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- 2024
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37. Single-cell transcriptomics reveals a role for pancreatic duct cells as potential mediators of inflammation in diabetes mellitus
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Amadeo Muñoz García, Juri Juksar, Nathalie Groen, Arnaud Zaldumbide, Eelco de Koning, and Françoise Carlotti
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diabetes ,inflammation ,single-cell RNAseq ,duct cells ,beta cells ,Immunologic diseases. Allergy ,RC581-607 - Abstract
IntroductionInflammation of the pancreas contributes to the development of diabetes mellitus. Although it is well-accepted that local inflammation leads to a progressive loss of functional beta cell mass that eventually causes the onset of the disease, the development of islet inflammation remains unclear.MethodsHere, we used single-cell RNA sequencing to explore the cell type-specific molecular response of primary human pancreatic cells exposed to an inflammatory environment.ResultsWe identified a duct subpopulation presenting a unique proinflammatory signature among all pancreatic cell types.DiscussionOverall, the findings of this study point towards a role for duct cells in the propagation of islet inflammation, and in immune cell recruitment and activation, which are key steps in the pathophysiology of diabetes mellitus.
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- 2024
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38. Tu1165: THE IMMUNE CELL MICROENVIRONMENT IS DIFFERENTIALLY-ALTERED ACCORDING TO DIVERSE EPITHELIAL LANDSCAPES IN THE PROGRESSION TO CANCER IN BARRETT OESOPHAGUS
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Lin, Meng-Lay, Hickey, John W, Schürch, Christian M, Carlotti, Emanuela, Passman, Adam M, Hackett, Richard J, Devkumar, Shruthi, Evans, James A, Gascard, Philippe D, Tlsty, Thea D, Ferri, Lorenzo E, Nolan, Garry P, and McDonald, Stuart A
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Clinical Sciences ,Neurosciences ,Paediatrics and Reproductive Medicine ,Gastroenterology & Hepatology - Published
- 2022
39. Development of ‘Core Outcome Sets’ for Meningioma in Clinical Studies (The COSMIC Project): protocol for two systematic literature reviews, eDelphi surveys and online consensus meetings
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Millward, Christopher P, Armstrong, Terri S, Barrington, Heather, Bell, Sabrina, Brodbelt, Andrew R, Bulbeck, Helen, Crofton, Anna, Dirven, Linda, Georgious, Theo, Grundy, Paul L, Islim, Abdurrahman I, Javadpour, Mohsen, Keshwara, Sumirat M, Koszdin, Shelli D, Marson, Anthony G, McDermott, Michael W, Meling, Torstein R, Oliver, Kathy, Plaha, Puneet, Preusser, Matthias, Santarius, Thomas, Srikandarajah, Nisaharan, Taphoorn, Martin JB, Turner, Carole, Watts, Colin, Weller, Michael, Williamson, Paula R, Zadeh, Gelareh, Najafabadi, Amir H Zamanipoor, Jenkinson, Michael D, Aldape, Kenneth, Au, Karolyn, Barnhartz-Sloan, Jill, Bi, Wenya Linda, Behling, Felix, Brastianos, Priscilla K, Brodie, Chaya, Butowski, Nicholas, Carlotti, Carlos, Castro, Ana, Cohen-Gadol, Aaron, Couce, Marta, Cusimano, Michael D, DiMeco, Francesco, Drummond, Katharine, Dunn, Ian F, Erker, Craig, Felicella, Michelle, Fountain, Daniel M, Galanis, Evanthia, Galldiks, Norbert, Giannini, Caterina, Goldbrunner, Roland, Griffith, Brent, Hashizume, Rintaro, Hanemann, C Oliver, Herold-Mende, Christel, Hnenny, Luke, Horbinski, Craig, Huang, Raymond Y, James, David, Jungk, Christine, Jungwirth, Gerhard, Kaufmann, Timothy J, Krischek, Boris, Kurz, Sylvia, Lachance, Daniel, Lafougère, Christian, Lamszus, Katrin, Lee, Ian, Liu, Jeff C, Makarenko, Serge, Malta, Tathiana, Mamatjan, Yasin, Mansouri, Alireza, Mawrin, Christian, McDermott, Michael, Moliterno-Gunel, Jennifer, Morokoff, Andrew, Munoz, David, Nassiri, Farshad, Noushmehr, Houtan, Ng, Ho-Keung, Perry, Arie, Pirouzmand, Farhad, Poisson, Laila M, Pollo, Bianca, Ragunathan, Aditya, Raleigh, David, Renovanz, Mirjam, Ricklefs, Franz, Sahm, Felix, Saladino, Andrea, Santacroce, Antonio, Schittenhelm, Jens, and Schichor, Christian
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Biomedical and Clinical Sciences ,Clinical Sciences ,Neurosciences ,Brain Disorders ,Clinical Research ,Clinical Trials and Supportive Activities ,Cancer ,Consensus ,Delphi Technique ,Humans ,Meningeal Neoplasms ,Meningioma ,Research Design ,Systematic Reviews as Topic ,Treatment Outcome ,EORTC BTG ,ICOM ,EANO ,SNO ,RANO-PRO ,BNOS ,SBNS ,BIMS ,TBTC ,International Brain Tumour Alliance ,Brainstrust ,and Brain Tumour Foundation of Canada ,clinical trial ,core outcome set ,meningioma ,Public Health and Health Services ,Other Medical and Health Sciences ,Biomedical and clinical sciences ,Health sciences ,Psychology - Abstract
IntroductionMeningioma is the most common primary intracranial tumour in adults. The majority are non-malignant, but a proportion behave more aggressively. Incidental/minimally symptomatic meningioma are often managed by serial imaging. Symptomatic meningioma, those that threaten neurovascular structures, or demonstrate radiological growth, are usually resected as first-line management strategy. For patients in poor clinical condition, or with inoperable, residual or recurrent disease, radiotherapy is often used as primary or adjuvant treatment. Effective pharmacotherapy treatments do not currently exist. There is heterogeneity in the outcomes measured and reported in meningioma clinical studies. Two 'Core Outcome Sets' (COS) will be developed: (COSMIC: Intervention) for use in meningioma clinical effectiveness trials and (COSMIC: Observation) for use in clinical studies of incidental/untreated meningioma.Methods and analysisTwo systematic literature reviews and trial registry searches will identify outcomes measured and reported in published and ongoing (1) meningioma clinical effectiveness trials, and (2) clinical studies of incidental/untreated meningioma. Outcomes include those that are clinician reported, patient reported, caregiver reported and based on objective tests (eg, neurocognitive tests), as well as measures of progression and survival. Outcomes will be deduplicated and categorised to generate two long lists. The two long lists will be prioritised through two, two-round, international, modified eDelphi surveys including patients with meningioma, healthcare professionals, researchers and those in caring/supporting roles. The two final COS will be ratified through two 1-day online consensus meetings, with representation from all stakeholder groups.Ethics and disseminationInstitutional review board (University of Liverpool) approval was obtained for the conduct of this study. Participant eConsent will be obtained prior to participation in the eDelphi surveys and consensus meetings. The two systematic literature reviews and two final COS will be published and freely available.Trial registration numberCOMET study ID 1508.
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- 2022
40. Lessons learned from SPHERE for the astrometric strategy of the next generation of exoplanet imaging instruments
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Maire, A. -L., Langlois, M., Delorme, P., Chauvin, G., Gratton, R., Vigan, A., Girard, J. H., Wahhaj, Z., Pott, J. -U., Burtscher, L., Boccaletti, A., Carlotti, A., Henning, T., Kenworthy, M. A., Kervella, P., Rickman, E. L., and Schmidt, T. O. B.
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Astrophysics - Instrumentation and Methods for Astrophysics ,Astrophysics - Earth and Planetary Astrophysics - Abstract
Measuring the orbits of directly-imaged exoplanets requires precise astrometry at the milliarcsec level over long periods of time due to their wide separation to the stars ($\gtrsim$10 au) and long orbital period ($\gtrsim$20 yr). To reach this challenging goal, a specific strategy was implemented for the instrument Spectro-Polarimetric High-contrast Exoplanet REsearch (SPHERE), the first dedicated exoplanet imaging instrument at the Very Large Telescope of the European Southern Observatory (ESO). A key part of this strategy relies on the astrometric stability of the instrument over time. We monitored for five years the evolution of the optical distortion, pixel scale, and orientation to the True North of SPHERE images using the near-infrared instrument IRDIS. We show that the instrument calibration achieves a positional stability of $\sim$1 mas over 2$"$ field of views. We also discuss the SPHERE astrometric strategy, issues encountered in the course of the on-sky operations, and lessons learned for the next generation of exoplanet imaging instruments on the Extremely Large Telescope being built by ESO., Comment: Accepted for publication in JATIS. 38 pages, 12 figures, 8 tables
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- 2021
41. Rapid monitoring of SARS-CoV-2 variants of concern through high-resolution melt analysis
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Aurora Diotallevi, Gloria Buffi, Simone Barocci, Marcello Ceccarelli, Daniela Bencardino, Francesca Andreoni, Chiara Orlandi, Marilisa Ferri, Daniela Vandini, Stefano Menzo, Eugenio Carlotti, Anna Casabianca, Mauro Magnani, and Luca Galluzzi
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Medicine ,Science - Abstract
Abstract The current global pandemic of COVID-19 is characterized by waves of infection due to the emergence of new SARS-CoV-2 variants carrying mutations on the Spike (S) protein gene. Since autumn 2020 many Variants of Concern (VOC) have been reported: Alpha/B.1.1.7, Beta/B.1.351, Gamma/P.1, Delta/B.1.617.2, Omicron/B.1.1.529, and sublineages. Surveillance of genomic variants is currently based on whole-genome sequencing (WGS) of viral genomes on a random fraction of samples positive to molecular tests. WGS involves high costs, extended analysis time, specialized staff, and expensive instruments compared to a PCR-based test. To rapidly identify the VOCs in positive samples, six assays based on real-time PCR and high-resolution melting (HRM) were designed on the S gene and applied to 120 oro/nasopharyngeal swab samples collected from October 2020 to June 2022 (106 positive and 14 negative samples). Overall, the assays showed 100% specificity and sensitivity compared with commercial PCR tests for COVID-19. Moreover, 104 samples out of 106 (98.1%) were correctly identified as follows: 8 Wuhan (wild type), 12 Alpha, 23 Delta, 46 Omicron BA.1/BA.1.1, 15 Omicron BA.2/BA.4/BA.5. With our lab equipment, about 10 samples can be processed every 3 h at the cost of less than € 10 ($ 10.60) per sample, including RNA extraction. The implementation of this approach could help local epidemiological surveillance and clinical decision-making.
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- 2023
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42. Spectral unmixing for exoplanet direct detection in hyperspectral data
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Rameau, Julien, Chanussot, Jocelyn, Carlotti, Alexis, Bonnefoy, Mickael, and Delorme, Philippe
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Astrophysics - Instrumentation and Methods for Astrophysics ,Astrophysics - Earth and Planetary Astrophysics - Abstract
The direct detection of exoplanets with high-contrast instruments can be boosted with high spectral resolution. For integral field spectrographs yielding hyperspectral data, this means that the field of view consists of diffracted starlight spectra and a spatially localized planet. Analysis usually relies on cross-correlation with theoretical spectra. In a purely blind-search context, this supervised strategy can be biased with model mismatch and/or be computationally inefficient. Using an approach that is inspired by the remote-sensing community, we aim to propose an alternative to cross-correlation that is fully data-driven, which decomposes the data into a set of individual spectra and their corresponding spatial distributions. This strategy is called spectral unmixing. We used an orthogonal subspace projection to identify the most distinct spectra in the field of view. Their spatial distribution maps were then obtained by inverting the data. These spectra were then used to break the original hyperspectral images into their corresponding spatial distribution maps via non-negative least squares. The performance of our method was evaluated and compared with a cross-correlation using simulated hyperspectral data with medium resolution from the ELT/HARMONI integral field spectrograph. We show that spectral unmixing effectively leads to a planet detection solely based on spectral dissimilarities at significantly reduced computational cost. The extracted spectrum holds significant signatures of the planet while being not perfectly separated from residual starlight. The sensitivity of the supervised cross-correlation is three to four times higher than with unsupervised spectral unmixing, the gap is biased toward the former because the injected and correlated spectrum match perfectly. The algorithm was furthermore vetted on real data obtained with VLT/SINFONI of the beta Pictoris system., Comment: 13 pages, 8 figures
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- 2021
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43. Tailoring interfacial effect in multilayers with Dzyaloshinskii-Moriya interaction by helium ion irradiation
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Sud, A., Tacchi, S., Sagkovits, D., Barton, C., Sall, M., Diez, L. H., Stylianidis, E., Smith, N., Wright, L., Zhang, S., Zhang, X., Ravelosona, D., Carlotti, G., Kurebayashi, H., Kazakova, O., and Cubukcu, M.
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Condensed Matter - Materials Science ,Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
We show a method to control magnetic interfacial effects in multilayers with Dzyaloshinskii-Moriya interaction (DMI) using helium (He$^{+}$) ion irradiation. We report results from SQUID magnetometry, ferromagnetic resonance as well as Brillouin light scattering results on multilayers with DMI as a function of irradiation fluence to study the effect of irradiation on the magnetic properties of the multilayers. Our results show clear evidence of the He$^{+}$ irradiation effects on the magnetic properties which is consistent with interface modification due to the effects of the He$^{+}$ irradiation. This external degree of freedom offers promising perspectives to further improve the control of magnetic skyrmions in multilayers, that could push them towards integration in future technologies., Comment: 10 pages, 6 figures
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- 2021
44. Direct imaging and spectroscopy of exoplanets with the ELT/HARMONI high-contrast module
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Houllé, Mathis, Vigan, Arthur, Carlotti, Alexis, Choquet, Élodie, Cantalloube, Faustine, Phillips, Mark W., Sauvage, Jean-François, Schwartz, Noah, Otten, Gilles P. P. L., Baraffe, Isabelle, Emsenhuber, Alexandre, and Mordasini, Christoph
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Astrophysics - Earth and Planetary Astrophysics ,Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
Combining high-contrast imaging with medium-resolution spectroscopy has been shown to significantly boost the direct detection of exoplanets. HARMONI, one of the first-light instruments to be mounted on ESO's ELT, will be equipped with a single-conjugated adaptive optics system to reach the diffraction limit of the ELT in H and K bands, a high-contrast module dedicated to exoplanet imaging, and a medium-resolution (up to R = 17 000) optical and near-infrared integral field spectrograph. Combined together, these systems will provide unprecedented contrast limits at separations between 50 and 400 mas. In this paper, we estimate the capabilities of the HARMONI high-contrast module for the direct detection of young giant exoplanets. We use an end-to-end model of the instrument to simulate observations based on realistic observing scenarios and conditions. We analyze these data with the so-called "molecule mapping" technique combined to a matched-filter approach, in order to disentangle the companions from the host star and tellurics, and increase the S/N of the planetary signal. We detect planets above 5-sigma at contrasts up to 16 mag and separations down to 75 mas in several spectral configurations of the instrument. We show that molecule mapping allows the detection of companions up to 2.5 mag fainter compared to state-of-the-art high-contrast imaging techniques based on angular differential imaging. We also demonstrate that the performance is not strongly affected by the spectral type of the host star, and that we reach close sensitivities for the best three quartiles of observing conditions at Armazones, which means that HARMONI could be used in near-critical observations during 60 to 70% of telescope time at the ELT. Finally, we simulate planets from population synthesis models to further explore the parameter space that HARMONI and its high-contrast module will soon open., Comment: Accepted for publication in A&A (14 pages, 9 figures)
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- 2021
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45. Two-step MEMS microfabrication via 3D direct laser lithography
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Tricinci, Omar, Carlotti, Marco, Desii, Andrea, Meder, Fabian, and Mattoli, Virgilio
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Condensed Matter - Materials Science - Abstract
Micro/nano electro-mechanical systems (MEMS/NEMS) are constantly attracting an increasing attention for their relevant technological applications in fields ranging from biology, medicine, ecology, energy to industry. Most of the performances of micro-nanostructured devices rely on both the design and the intrinsic properties of the constituent materials that are processed at such dimensional scale. For this reason, spatial precision, resolution and reproducibility are crucial factors in the micro-fabrication procedure. 3D direct laser lithography (DLL), based on multiphoton absorption, allows to realize outstanding three-dimensional structures with nanoscale features. This technique has recently emerged as a powerful tool for fabricating 3D micro-patterned surfaces for optics, photonics, as well as for bioinspired cell culture scaffold. We propose a method for a two-step fabrication of micro/nanostructured multicomponent systems to be employed as transductors, by means of the integration of 3D DLL and shadowing effects in metal deposition. A z-axis accelerometer is the proof-of-concept for the validation of the proposed transductor. The former is composed of a cantilever patterned with conductive paths which act as a strain gauge. Mechanical stimulation deforms the cantilever and, accordingly, varies its conductive properties. The fabrication of the conductive components is performed using the vacuum evaporation of gold, a traditional microfabrication technique, and exploiting the shadowing effect due to peculiar microstructures on the cantilever., Comment: 7 pages, 4 Figures
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- 2021
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46. Imaging low-mass planets within the habitable zone of {\alpha} Centauri
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Wagner, K., Boehle, A., Pathak, P., Kasper, M., Arsenault, R., Jakob, G., Kaufl, U., Leveratto, S., Maire, A. -L., Pantin, E., Siebenmorgen, R., Zins, G., Absil, O., Ageorges, N., Apai, D., Carlotti, A., Choquet, É., Delacroix, C., Dohlen, K., Duhoux, P., Forsberg, P., Fuenteseca, E., Gutruf, S., Guyon, O., Huby, E., Kampf, D., Karlsson, M., Kervella, P., Kirchbauer, J. -P., Klupar, P., Kolb, J., Mawet, D., N'Diaye, M., de Xivry, G. Orban, Quanz, S. P., Reutlinger, A., Ruane, G., Riquelme, M., Soenke, C., Sterzik, M., Vigan, A., and de Zeeuw, T.
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Astrophysics - Earth and Planetary Astrophysics ,Astrophysics - Solar and Stellar Astrophysics - Abstract
Giant exoplanets on wide orbits have been directly imaged around young stars. If the thermal background in the mid-infrared can be mitigated, then exoplanets with lower masses can also be imaged. Here we present a ground-based mid-infrared observing approach that enables imaging low-mass temperate exoplanets around nearby stars, and in particular within the closest stellar system, Alpha Centauri. Based on 75-80% of the best quality images from 100 hours of cumulative observations, we demonstrate sensitivity to warm sub-Neptune-sized planets throughout much of the habitable zone of Alpha Centauri A. This is an order of magnitude more sensitive than state-of-the-art exoplanet imaging mass detection limits. We also discuss a possible exoplanet or exozodiacal disk detection around Alpha Centauri A. However, an instrumental artifact of unknown origin cannot be ruled out. These results demonstrate the feasibility of imaging rocky habitable-zone exoplanets with current and upcoming telescopes., Comment: 29 pages, 11 figures, published in Nature Communications
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- 2021
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47. Preoperative Cortical Mapping for Brain Tumor Surgery Using Navigated Transcranial Stimulation: Analysis of Accuracy
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Wellingson Silva Paiva, Erich Talamoni Fonoff, Rhuann Pontes dos Santos Silva, Lucas Schiavao, André Russowsky Brunoni, César Cimonari de Almeida, and Carlos Carlotti Júnior
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brain neoplasms ,motor cortex ,transcranial magnetic stimulation ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Transcranial magnetic stimulation (TMS) represents a distinctive technique for non-invasive brain stimulation. Recent advancements in image processing have enabled the enhancement of TMS by integrating magnetic resonance imaging (MRI) modalities with TMS via a neuronavigation system. The aim of this study is to assess the efficacy of navigated TMS for cortical mapping in comparison to surgical mapping using direct electrical stimulation (DES). This study involved 30 neurosurgical procedures for tumors located in or adjacent to the precentral gyrus. The DES points were compared with TMS responses based on the original distances of vectorial modules. There was a notable similarity in the points obtained from the two mapping methods. The distances between the geometric centers of TMS and DCS were 4.85 ± 1.89 mm. A strong correlation was identified between these vectorial points (r = 0.901, p < 0.001). The motor threshold in TMS was highest in the motor cortex adjacent to the tumor compared to the normal cortex (p < 0.001). Patients with deficits exhibited excellent accuracy in both methods. In view of this, TMS demonstrated reliable and precise application in brain mapping, which is a promising method for preoperative functional mapping in motor cortex tumor surgery.
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- 2024
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48. Subgroup and subtype-specific outcomes in adult medulloblastoma.
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Coltin, Hallie, Sundaresan, Lakshmikirupa, Smith, Kyle, Skowron, Patryk, Massimi, Luca, Eberhart, Charles, Schreck, Karisa, Gupta, Nalin, Weiss, William, Tirapelli, Daniela, Carlotti, Carlos, Li, Kay, Ryzhova, Marina, Golanov, Andrey, Zheludkova, Olga, Absalyamova, Oksana, Okonechnikov, Konstantin, Stichel, Damian, von Deimling, Andreas, Giannini, Caterina, Raskin, Scott, Van Meir, Erwin, Chan, Jennifer, Fults, Daniel, Chambless, Lola, Kim, Seung-Ki, Vasiljevic, Alexandre, Faure-Conter, Cecile, Vibhakar, Rajeev, Jung, Shin, Leary, Sarah, Mora, Jaume, McLendon, Roger, Pollack, Ian, Hauser, Peter, Grajkowska, Wieslawa, Rubin, Joshua, van Veelen, Marie-Lise, French, Pim, Kros, Johan, Liau, Linda, Pfister, Stefan, Kool, Marcel, Kijima, Noriyuki, Taylor, Michael, Packer, Roger, Northcott, Paul, Korshunov, Andrey, and Ramaswamy, Vijay
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Adult ,DNA methylation profiling ,Medulloblastoma ,Molecular groups ,Risk stratification ,Adolescent ,Adult ,Biomarkers ,Tumor ,Cerebellar Neoplasms ,Cohort Studies ,Female ,Humans ,Male ,Medulloblastoma ,Progression-Free Survival ,Risk Factors ,Young Adult - Abstract
Medulloblastoma, a common pediatric malignant central nervous system tumour, represent a small proportion of brain tumours in adults. Previously it has been shown that in adults, Sonic Hedgehog (SHH)-activated tumours predominate, with Wingless-type (WNT) and Group 4 being less common, but molecular risk stratification remains a challenge. We performed an integrated analysis consisting of genome-wide methylation profiling, copy number profiling, somatic nucleotide variants and correlation of clinical variables across a cohort of 191 adult medulloblastoma cases identified through the Medulloblastoma Advanced Genomics International Consortium. We identified 30 WNT, 112 SHH, 6 Group 3, and 41 Group 4 tumours. Patients with SHH tumours were significantly older at diagnosis compared to other subgroups (p
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- 2021
49. Presence of immunogenic alternatively spliced insulin gene product in human pancreatic delta cells
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van Tienhoven, René, Kracht, Maria J. L., van der Slik, Arno R., Thomaidou, Sofia, Wolters, Anouk H. G., Giepmans, Ben N. G., Riojas, Juan Pablo Romero, Nelson, Michael S., Carlotti, Françoise, de Koning, Eelco J. P., Hoeben, Rob C., Zaldumbide, Arnaud, and Roep, Bart O.
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- 2023
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50. Detection of diagnostic and prognostic methylation-based signatures in liquid biopsy specimens from patients with meningiomas
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Grayson A. Herrgott, James M. Snyder, Ruicong She, Tathiane M. Malta, Thais S. Sabedot, Ian Y. Lee, Jacob Pawloski, Guilherme G. Podolsky-Gondim, Karam P. Asmaro, Jiaqi Zhang, Cara E. Cannella, Kevin Nelson, Bartow Thomas, Ana C. deCarvalho, Laura A. Hasselbach, Kelly M. Tundo, Rehnuma Newaz, Andrea Transou, Natalia Morosini, Victor Francisco, Laila M. Poisson, Dhananjay Chitale, Abir Mukherjee, Maritza S. Mosella, Adam M. Robin, Tobias Walbert, Mark Rosenblum, Tom Mikkelsen, Steven Kalkanis, Daniela P. C. Tirapelli, Daniel J. Weisenberger, Carlos G. Carlotti, Jack Rock, Ana Valeria Castro, and Houtan Noushmehr
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Science - Abstract
Abstract Recurrence of meningiomas is unpredictable by current invasive methods based on surgically removed specimens. Identification of patients likely to recur using noninvasive approaches could inform treatment strategy, whether intervention or monitoring. In this study, we analyze the DNA methylation levels in blood (serum and plasma) and tissue samples from 155 meningioma patients, compared to other central nervous system tumor and non-tumor entities. We discover DNA methylation markers unique to meningiomas and use artificial intelligence to create accurate and universal models for identifying and predicting meningioma recurrence, using either blood or tissue samples. Here we show that liquid biopsy is a potential noninvasive and reliable tool for diagnosing and predicting outcomes in meningioma patients. This approach can improve personalized management strategies for these patients.
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- 2023
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