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1. Error mitigation, optimization, and extrapolation on a trapped ion testbed

Author

Maupin, Oliver G., Burch, Ashlyn D., Ruzic, Brandon, Yale, Christopher G., Russo, Antonio, Lobser, Daniel S., Revelle, Melissa C., Chow, Matthew N., Clark, Susan M., Landahl, Andrew J., and Love, Peter J.

Subjects
Quantum Physics
Abstract

Current noisy intermediate-scale quantum (NISQ) trapped-ion devices are subject to errors which can significantly impact the accuracy of calculations if left unchecked. A form of error mitigation called zero noise extrapolation (ZNE) can decrease an algorithm's sensitivity to these errors without increasing the number of required qubits. Here, we explore different methods for integrating this error mitigation technique into the Variational Quantum Eigensolver (VQE) algorithm for calculating the ground state of the HeH+ molecule at 0.8 Angstrom in the presence of realistic noise. Using the Quantum Scientific Computing Open User Testbed (QSCOUT) trapped-ion device, we test three methods of scaling noise for extrapolation: time-stretching the two-qubit gates, scaling the sideband amplitude parameter, and inserting two-qubit gate identity operations into the ansatz circuit. We find time-stretching and sideband amplitude scaling fail to scale the noise on our particular hardware in a way that can be directly extrapolated to zero noise. Scaling our noise with global gate identity insertions and extrapolating after variational optimization, we achieve an estimate of the ground state energy within -0.004 +- 0.04 Hartree; outside chemical accuracy, but greatly improved over our non-error-mitigated estimate with error 0.127 +- 0.008 Hartree. Our results show that the efficacy of this error mitigation technique depends on choosing the correct implementation for a given device architecture., Comment: 21 pages, 13 figures

Published
2023
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2. JaqalPaw: A Guide to Defining Pulses and Waveforms for Jaqal

Author

Lobser, Daniel, Goldberg, Joshua, Landahl, Andrew J., Maunz, Peter, Morrison, Benjamin C. A., Rudinger, Kenneth, Russo, Antonio, Ruzic, Brandon, Stick, Daniel, Van Der Wall, Jay, and Clark, Susan M.

Subjects
Quantum Physics, Physics - Instrumentation and Detectors
Abstract

One of the many challenges of developing an open user testbed such as QSCOUT is providing an interface that maintains simplicity without compromising expressibility or control. This interface comprises two distinct elements: a quantum assembly language designed for specifying quantum circuits at the gate level, and a low-level counterpart used for describing gates in terms of waveforms that realize specific quantum operations. Jaqal, or "Just another quantum assembly language," is the language used in QSCOUT for gate-level descriptions of quantum circuits. JaqalPaw, or "Jaqal pulses and waveforms," is its pulse-level counterpart. This document concerns the latter, and presents a description of the tools needed for precisely defining the underlying waveforms associated with a gate primitive., Comment: Originally published April 2021 at qscout.sandia.gov

Published
2023

3. Mrs4 loss of function in fungi during adaptation to the cystic fibrosis lung

Author

Murante, Daniel, Demers, Elora G, Kurbessoian, Tania, Ruzic, Marina, Ashare, Alix, Stajich, Jason E, and Hogan, Deborah A

Subjects
Biological Sciences, Biomedical and Clinical Sciences, Genetics, Microbiology, Medical Microbiology, Rare Diseases, Infectious Diseases, Lung, Human Genome, Cystic Fibrosis, 2.1 Biological and endogenous factors, 2.2 Factors relating to the physical environment, Aetiology, Congenital, Infection, cystic fibrosis, fungi, iron, Mrs4, Clavispora lusitaniae, Exophiala dermatitidis, Candida albicans, Biochemistry and cell biology, Medical microbiology
Abstract

The genetic disease cystic fibrosis (CF) frequently leads to chronic lung infections by bacteria and fungi. We identified three individuals with CF with persistent lung infections dominated by Clavispora (Candida) lusitaniae. Whole-genome sequencing analysis of multiple isolates from each infection found evidence for selection for mutants in the gene MRS4 in all three distinct lung-associated populations. In each population, we found one or two unfixed, non-synonymous mutations in MRS4 relative to the reference allele found in multiple environmental and clinical isolates including the type strain. Genetic and phenotypic analyses found that all evolved alleles led to loss of function (LOF) of Mrs4, a mitochondrial iron transporter. RNA-seq analyses found that Mrs4 variants with decreased activity led to increased expression of genes involved in iron acquisition mechanisms in both low iron and replete iron conditions. Furthermore, surface iron reductase activity and intracellular iron were much higher in strains with Mrs4 LOF variants. Parallel studies found that a subpopulation of a CF-associated Exophiala dermatitidis infection also had a non-synonymous LOF mutation in MRS4. Together, these data suggest that MRS4 mutations may be beneficial during chronic CF lung infections in diverse fungi, perhaps, for the purposes of adaptation to an iron-restricted environment with chronic infections. IMPORTANCE The identification of MRS4 mutations in Clavispora (Candida) lusitaniae and Exophiala dermatitidis in individuals with cystic fibrosis (CF) highlights a possible adaptive mechanism for fungi during chronic CF lung infections. The findings of this study suggest that loss of function of the mitochondrial iron transporter Mrs4 can lead to increased activity of iron acquisition mechanisms, which may be advantageous for fungi in iron-restricted environments during chronic infections. This study provides valuable information for researchers working toward a better understanding of the pathogenesis of chronic lung infections and more effective therapies to treat them.

Published
2023

6. Assessing and Promoting Data Fragility in Schools: Open Questionnaires for Auto-evaluation in Educational Roles

Author

Amo-Filva, Daniel, Escudero, David Fonseca, Sanchez-Sepulveda, Mónica V., Hasti, Henry, García-Holgado, Alicia, García-Holgado, Lucía, Verdugo-Castro, Sonia, García-Peñalvo, Francisco José, Orehovački, Tihomir, Krašna, Marjan, Pesek, Igor, Marchetti, Emanuela, Valente, Andrea, Witfelt, Claus, Ružić, Ivana, Fraoua, Karim Elia, Moreira, Fernando, Pereira, Carla Santos, Paes, Cristina, Nikolic, Petar, Huang, Ronghuai, Series Editor, Kinshuk, Series Editor, Jemni, Mohamed, Series Editor, Chen, Nian-Shing, Series Editor, Spector, J. Michael, Series Editor, Gonçalves, José Alexandre de Carvalho, editor, Lima, José Luís Sousa de Magalhães, editor, Coelho, João Paulo, editor, García-Peñalvo, Francisco José, editor, and García-Holgado, Alicia, editor

Published
2024
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7. Empowering Student Data Privacy in Schools Through Open Educational Resources

Author

Amo-Filva, Daniel, Mauri, Sofia Aguayo, Escudero, David Fonseca, Sanchez-Sepulveda, Mónica V., Hasti, Henry, García-Holgado, Alicia, García-Holgado, Lucía, Vázquez-Ingelmo, Andrea, García-Peñalvo, Francisco José, Orehovački, Tihomir, Krašna, Marjan, Pesek, Igor, Marchetti, Emanuela, Valente, Andrea, Witfelt, Claus, Ružić, Ivana, Fraoua, Karim Elia, Moreira, Fernando, Pereira, Carla Santos, Paes, Cristina, Huang, Ronghuai, Series Editor, Kinshuk, Series Editor, Jemni, Mohamed, Series Editor, Chen, Nian-Shing, Series Editor, Spector, J. Michael, Series Editor, García-Peñalvo, Francisco José, editor, Sein-Echaluce, María Luisa, editor, and Fidalgo-Blanco, Ángel, editor

Published
2024
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8. Teachers’ Perspective on the Implementation of GDPR in Schools – A Design-Oriented Case Study

Author

Marchetti, Emanuela, Valente, Andrea, Witfelt, Claus, Amo-Filva, Daniel, Garcia-Holgado, Alicia, Garcia-Holgado, Lucia, Vidotto, Elisabetta, Garzotto, Maria Elena, García-Peñalvo, Francisco José, Escudero, David Fonseca, Orehovacki, Tihomir, Krasna, Marjan, Pesek, Igor, Ruzic, Ivana, Fraoua, Karim Elia, Moreira, Fernando, Goos, Gerhard, Series Editor, Hartmanis, Juris, Founding Editor, van Leeuwen, Jan, Series Editor, Hutchison, David, Editorial Board Member, Kanade, Takeo, Editorial Board Member, Kittler, Josef, Editorial Board Member, Kleinberg, Jon M., Editorial Board Member, Kobsa, Alfred, Series Editor, Mattern, Friedemann, Editorial Board Member, Mitchell, John C., Editorial Board Member, Naor, Moni, Editorial Board Member, Nierstrasz, Oscar, Series Editor, Pandu Rangan, C., Editorial Board Member, Sudan, Madhu, Series Editor, Terzopoulos, Demetri, Editorial Board Member, Tygar, Doug, Editorial Board Member, Weikum, Gerhard, Series Editor, Vardi, Moshe Y, Series Editor, Bertino, Elisa, Editorial Board Member, Gao, Wen, Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Yung, Moti, Editorial Board Member, Woeginger, Gerhard, Editorial Board Member, Zaphiris, Panayiotis, editor, and Ioannou, Andri, editor

Published
2024
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9. High-fidelity trapped-ion qubit operations with scalable photonic modulators

Author

Hogle, Craig W., Dominguez, Daniel, Dong, Mark, Leenheer, Andrew, McGuinness, Hayden J., Ruzic, Brandon P., Eichenfield, Matt, and Stick, Daniel

Subjects
Quantum Physics
Abstract

Experiments with trapped ions and neutral atoms typically employ optical modulators in order to control the phase, frequency, and amplitude of light directed to individual atoms. These elements are expensive, bulky, consume substantial power, and often rely on free-space I/O channels, all of which pose scaling challenges. To support many-ion systems like trapped-ion quantum computers or miniaturized deployable devices like clocks and sensors, these elements must ultimately be microfabricated, ideally monolithically with the trap to avoid losses associated with optical coupling between physically separate components. In this work we design, fabricate, and test an optical modulator capable of monolithic integration with a surface-electrode ion trap. These devices consist of piezo-optomechanical photonic integrated circuits configured as multi-stage Mach-Zehnder modulators that are used to control the intensity of light delivered to a single trapped ion on a separate chip. We use quantum tomography employing hundreds of multi-gate sequences to enhance the sensitivity of the fidelity to the types and magnitudes of gate errors relevant to quantum computing and better characterize the performance of the modulators, ultimately measuring single qubit gate fidelities that exceed 99.7%.

Published
2022
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10. Frequency-robust M{\o}lmer-S{\o}rensen gates via balanced contributions of multiple motional modes

Author

Ruzic, Brandon P., Chow, Matthew N. H., Burch, Ashlyn D., Lobser, Daniel, Revelle, Melissa C., Wilson, Joshua M., Yale, Christopher G., and Clark, Susan M.

Subjects
Quantum Physics
Abstract

In this work, we design and implement frequency-robust Molmer-Sorensen gates on a linear chain of trapped ions, using Gaussian amplitude modulation and a constant laser frequency. We select this frequency to balance the entanglement accumulation of all motional modes during the gate to produce a strong robustness to frequency error, even for long ion chains. We demonstrate this technique on a three-ion chain, achieving $<\,1\%$ reduction from peak fidelity over a $20\,$kHz range of frequency offset, and we analyze the performance of this gate design through numerical simulations on chains of two to 33 ions.

Published
2022

16. Entangling-gate error from coherently displaced motional modes of trapped ions

Author

Ruzic, B. P., Barrick, T. A., Hunker, J. D., Law, R. J., McFarland, B. K., McGuinness, H. M., Parazzoli, L. P., Sterk, J. D., Van Der Wall, J. W., and Stick, D.

Subjects
Quantum Physics
Abstract

Entangling gates in trapped-ion quantum computing have primarily targeted stationary ions with initial motional distributions that are thermal and close to the ground state. However, future systems will likely incur significant non-thermal excitation due to, e.g., ion transport, longer operational times, and increased spatial extent of the trap array. In this paper, we analyze the impact of such coherent motional excitation on entangling-gate error by performing simulations of Molmer-Sorenson (MS) gates on a pair of trapped-ion qubits with both thermal and coherent excitation present in a shared motional mode at the start of the gate. We discover that a small amount of coherent displacement dramatically erodes gate performance in the presence of experimental noise, and we demonstrate that applying only limited control over the phase of the displacement can suppress this error. We then use experimental data from transported ions to analyze the impact of coherent displacement on MS-gate error under realistic conditions.

Published
2021
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17. Semaglutide and cardiovascular outcomes in patients with obesity and prevalent heart failure: a prespecified analysis of the SELECT trial

Author

Abe, Mitsunori, Abhaichand, Rajpal K, Abhayaratna, Walter P, Abhyankar, Atul, Abidin, Imran B Zainal, Abou Assi, Hiba, Accini Mendoza, Jose L, Adas, Mine, Agaiby, John M, Agarwal, Devendra K, Agha, Maher, Ahmed, Azazuddin, Ahtiainen, Petteri, Aigner, Elmar, Ajay, Naik, Ali, Norsiah, Al-Karadsheh, Amer, Allison, Roy, Allison, Dale C, Alpenidze, Diana, Altuntas, Yuksel, Al-Zoebi, Ayham, Ambuj, Roy, Amerena, John, Anderson, Robert J, Ando, Toshiaki, Andrews, Robert, Antonova, Elizaveta, Appel, Karl-Friedrich, Arantes, Flávia B, Araz, Mustafa, Arbel, Yaron, Arenas León, José L, Argyrakopoulou, Georgia, Ariani, Mehrdad, Arias Mendoza, Maria A, Arif, Ahmed A, Arneja, Jaspal, Aroda, Vanita R, Aronne, Louis J, Arstall, Margaret, Asamoah, Njaimeh, Asanin, Milika, Audish, Hanid, Avram, Rodica, Badat, Aysha, Badiu, Corin V, Bakdash, Wa'el, Bakiner, Okan S, Bandezi, Vuyokazi N, Bang, Liew H, Bansal, Sandeep, Baranyai, Marietta, Barbarash, Olga, Barber, Mark, Barnum, Otis, Barone Rochette, Gilles, Bashkin, Amir, Baum, Seth, Bays, Harold E, Bazzoni Ruiz, Alberto E, Beckowski, Maciej, Beerachee, Yaswin, Bellary, Srikanth, Belousova, Lidia, Berk, Martin, Bernstein, Marc, Berra, Cesare, Beshay, Isaac, Bhagwat, Ajit, Bhan, Arti, Biggs, William C, Billings, Liana, Bitar, Fahed, Block, Bradley, Bo, Simona, Bogdanski, Pawel, Bolshakova, Olga O, Boshchenko, Alla A, Bosworth, Hayden, Botero Lopez, Rodrigo, Bôttcher, Morten, Bourgeois, Ronald, Brautigam, Donald, Breton, Cristian F, Broadley, Andrew, Brockmyre, Andrew P, Brodie, Steven K, Bucci, Marco, Budincevic, Hrvoje, Budoff, Matthew J, Buffman, Barry, Buljubasic, Nediljka, Buranapin, Supawan, Burgess, Lesley, Burguera, Bartolomé, Buriakovska, Olena, Buscemi, Silvio, Busch, Robert, Buse, John B, Buynak, Robert, Byrne, Maria, Caceaune, Elena, Cadena Bonfanti, Alberto J, Calinescu, Cornell V, Call, Robert S, Canecki Varzic, Silvija, Cannon, Kevin, Capehorn, Matt, Cariou, Bertrand, Carr, Jeffrey, Carrillo-Jimenez, Rodolfo, Casas, Marcelo, Castro, Almudena, Celik, Ahmet, Cercato, Cintia, Cermak, Ondrej, Cha, James Y, Chacon, Carolina, Chaicha-Brom, Tira, Chandra, Sandeep, Chettibi, Mohamed, Chevts, Julia, Christopher, Johann, Chrustowski, Witold, Cif, Adriana, Clark, Rebecca, Clark, Wayne, Clifford, Piers, Coetzee, Kathleen, Cogni, Giulia, Colao, Anna Maria, Colquhoun, David M, Concha, Mauricio, Condit, Jonathan, Constance, Christian, Constantin, Ciprian, Constantinescu, Silviana, Corbett, Clive, Cornett, George M, Correia, Marcelo, Cortinovis, Fiorenzo, Cosma, Dana, Creely, Steven, Cross, David, Curtis, Brian, Czochra, Wojciech, Daboul, Nizar Y, Dagdelen, Selcuk, D'agostino, Ronald, Dang, Cuong, Datta, Sudip, Davuluri, Ashwini K, Dawood, Saleem Y, De Jong, Douwe M, De La Cuesta, Carmen, De Los Rios Ibarra, Manuel O, De Pablo, Carmen, De Pauw, Michel, Dela Llana, Alexander, Delibasic, Maja, Delic-Brkljacic, Diana, Demicheli, Thibaud, Denger, Ralf J, Desai, Devang, Desai, Piyush, Desouza, Cyrus V, Dicker, Dror, Djenic, Nemanja, Dobson, Simon, Doi, Masayuki, Doran, Jesse A, Dorman, Reinhart, Dotta, Francesco, Dukes, Carl E, Duronto, Ernesto, Durst, Ronen, Dvoryashina, Irina V, Ebrahim, Iftikhar O, Eggebrecht, Holger, Egstrup, Kenneth, Ekinci, Elif I, Eliasson, Björn, Eliasson, Ken, Enache, Georgiana, Enculescu, Dan, English, Patrick, Ermakova, Polina, Ershova, Olga, Ezaki, Hirotaka, Ezhov, Marat, Farias, Eduardo, Farias, Javier M, Farsky, Pedro S, Ferreira, Daniel, Filteau, Pierre, Finneran, Matthew P, Folkens, Eric M, Fonseca, Alberto G, Fonseca, Luisa, Fordan, Steven, Fourie, Nyda, França, Sara, Franco, Denise R, Franek, Edward, Friedman, Keith, Frittitta, Lucia, Froer, Michael, Fuckar, Krunoslav, Fujii, Kenshi, Fujita, Ryoko, Fukushima, Yasushi, Fulat, Mohamed, Fulwani, Mahesh, Gajos, Grzegorz, Galyavich, Albert, Gambill, Michael L, Gandotra, Dheeraj, Winston, Gandy, Jr., Garcia Hernandez, Pedro A, García Reza, Raymundo, Garg, Naveen, Garg, Sandeep, Garvey, William T, Garza, Juan C, Gatta-Cherifi, Blandine, Gelev, Valeri, Geller, Steven A, Geohas, Jeffrey G, Georgiev, Borislav, Ghazi, Adline, Gilbert, Matthew P, Gilinskaya, Olga, Gislason, Gunnar, Gogas Yavuz, Dilek, González Albarrán, Olga, Gordeev, Ivan G, Gorton, Sidney C, Goudev, Assen, Gretland Valderhaug, Tone, Groenemeijer, Bjorn, Gul, Ibrahim, Gullestad, Lars, Gurieva, Irina, Guseva, Galina N, Hagenow, Andreas, Haluzik, Martin, Halvorsen, Sigrun, Hammoudi, Naima, Hanaoka, Keiichi, Hancu, Nicolae, Hanusch, Ursula, Harris, Kathleen, Harris, Barry, Hartleib, Michael, Hartman, Aaron N, Hata, Yoshiki, Heimer, Brian, Herman, Lee, Herzog, William, Hewitt, Eric, Heymer, Peter, Hiremath, Shirish, Hjelmesaeth, Joeran, Høgalmen, Rasmus Geir, Høivik, Hans Olav, Holmer, Helene, Horoshko, Olha, Houser, Patricia M, Hove, Jens D, Hsieh, I-Chang, Hulot, Jean-Sébastien, Hussein, Zanariah, Ilashchuk, Tetiana, Ilveskoski, Erkki, Ipatko, Irina, Iranmanesh, Ali, Isawa, Tsuyoshi, Issa, Moises, Iteld, Bruce, Iwasawa, Takamasa, Jabbar, Danish, Jackson, Richard A, Jackson-Voyzey, Ewart, Jacob, Stephan, Jaffrani, Naseem A, Jardula, Michael F, Jastreboff, Ania, Jensen, Svend E, Jerkins, Terri, Jimenez-Ramos, Silvia A, Jitendra Pal Singh, Sawhney, Johnson, Wallace, Joyce, John M, Jozefowska, Malgorzata, Jugnundan, Prakash, Jungmair, Wolfgang, Jurowiecki, Jaroslaw, Kadokami, Toshiaki, Kahali, Dhiman, Kahrmann, Gerd, Kaiser, Sergio E, Kalmucki, Piotr, Kanadasi, Mehmet, Kandath, David, Kania, Grzegorz, Kannan, J, Kapp, Cornelia, Karczmarczyk, Agnieszka, Kartalis, Athanasios, Kaser, Susanne, Kasim, Sazzli Shahlan, Kastelic, Richard, Kato, Toshiaki, Katova, Tzvetana, Kaul, Upendra, Kautzky-Willer, Alexandra, Kawanishi, Masahiro, Kayikcioglu, Meral, Kazakova, Elena E, Keeling, Philip, Kempe, Hans-Peter, Kereiakes, Dean J, Kerneis, Mathieu, Keski-Opas, Tiina, Khadra, Suhail, Khaisheva, Larisa, Kharakhulakh, Marina, Khlevchuk, Tatiana, Khoo, Jeffrey, Kiatchoosakun, Songsak, Kinoshita, Noriyuki, Kinoshita, Masaharu, Kitamura, Ryoji, Kiyosue, Arihiro, Klavina, Irina, Klein, Eric J, Klimsa, Zdenek, Klonoff, David, Klug, Eric, Kobalava, Zhanna, Kodera, Satoshi, Koga, Tokushi, Kokkinos, Alexander, Koleckar, Pavel, Könyves, László, Koren, Michael J, Kormann, Adrian P, Kostner, Karam, Kreutzmann, Kristin, Krishinan, Saravanan, Krishnasamy, Sathya S, Krivosheeva, Inga, Kruljac, Ivan, Kubicki, Ted, Kuchar, Ladislav, Kujawiak, Monika, Kunishige, Hideyuki, Kurtinecz, Melinda, Kurtz Lisboa, Hugo R, Kushnir, Mykola, Kyyak, Yulian, Lace, Arija, Lakka, Timo, Lalic, Nebojsa, Lalic, Katarina, Lambadiari, Vaia, Lanaras, Leonidas, Lang, Chim, Langlois, Marie-France, Lash, Joseph, Latkovskis, Gustavs, Lau, David, Lazcano Soto, José Roberto, Le Roux, Carel, Ledesma, Gilbert N, Lee, Li Yuan, Lee, Thung-Lip, Lee, Kelvin, Lehrke, Michael, Leite, Silmara O, Leksycka, Agata, Lenzmeier, Thomas, Leonetti, Frida, Leonidova, Viktoriia, Lepor, Norman, Leung, Melissa, Levchenko, Olena, Levins, Peter, Levy, Louis J, Lewis, Matthew, Liberopoulos, Evangelos, Liberty, Idit, Lindholm, Carl-Johan, Lingvay, Ildiko, Linhart, Ales, Liu, Ming-En, Liu, Jenny, Lofton, Holly, Logemann, Timothy, Lombaard, Johannes J, Lombard, Landman, Lorraine, Richard, Lovell, Charles F, Ludvik, Bernhard, Lukaszewicz, Monika, Lupkovics, Géza, Lupovitch, Steven, Lupu, Sirona, Lynch, Mary, Lysak, Zoreslava, Lysenko, Tatyana A, Maeda, Hajime, Maeda, Itaru, Mæng, Michael, Mahajan, Ajay U, Maher, Vincent, Maia, Lilia N, Makotoko, Ellen M, Malavazos, Alexis, Malecha, Jan, Malicherova, Emilia, Manita, Mamoru, Mannucci, Edoardo, Mareev, Viacheslav, Marin, Liliana, Markova, Tatiana, Marso, Steven P, Martens, F.M.A.C., Martinez, Cuper, Martinez Cano, Carlos A, Martins, Cristina, Masmiquel Comas, Luis, Matsumoto, Takashi, Mcdonald, Kenneth, Mcgowan, Barbara, Mcgrew, Frank, Mclean, Barry K, Mcpherson, David D, Merino Torres, Juan Francisco, Meyers, Peter, Meyhöfer, Sebastian, Mezquita Raya, Pedro, Milanova, Maria, Milicic, Davor, Miller, Gary, Mills, Richard E, Mîndrescu, Nicoleta M, Mingrone, Geltrude, Minkova, Dotska A, Mirani, Marco, Miras, Alexander, Mistodie, Cristina V, Mitomo, Satoru, Mittal, Sanjay, Miyake, Taiji, Miyamoto, Naomasa, Molony, David, Monteiro, Pedro, Mooe, Thomas, Moosa, Naeem, Morales Portillo, Cristobal, Morales Villegas, Enrique C, Morawski, Emily J, Morbey, Claire, Morin, Robert P, Morisaki, Kuniaki, Morosanu, Magdalena, Mosenzon, Ofri, Mostovoy, Yuriy, Munir, Iqbal, Muratori, Fabrizio, Murray, Ryan, Murthy, Avinash, Myint, Min, Myshanych, Galyna, Nafornita, Valerica, Nagano, Takuya, Nair, Sunil, Nakhle, Samer N, Natsuaki, Masahiro, Nayak, Bindu M, Nibouche, Djamel Eddine, Nicholls, Stephen, Nicolau, José C, Nicolescu, Georgiana, Nierop, Peter, Niskanen, Leo, Ntaios, George, Nygård, Ottar Kjell, Oaks, Joshua B, Obrezan, Andrey, O'donnell, Philip, Oguri, Mitsutoshi, Oguzhan, Abdurrahman, Oh, Fumiki, Ohsugi, Mitsuru, Okada, Yoshio, Okayama, Hideki, Onaca, Adriana, Onaka, Haruhiko, Oneil, Patrick, Ong, Tiong Kiam, Ong, Stephen, Ono, Yasuhiro, Opsahl, Paul J, Ostrowska, Lucyna, Oviedo, Alejandra, Ozdogan, Oner, Ozpelit, Ebru, Pagkalos, Emmanouil, Pagotto, Uberto, Páll, Dénes, Pandey, Amritanshu- Shekhar, Parkhomenko, Oleksandr, Parvathareddy, Krishna Malakondareddy, Patel, Minesh B, Patsilinakos, Sotirios, Paul, Neil, Pedersen, Sue, Pereira, Isabel, Pereira, Edward Scott, Perez Terns, Paula, Perez-Vargas, Elba A, Pergaeva, Yulia, Perkelvald, Alexander, Peskov, Andrey B, Peter, Jonathan, Peters, Karina, Petit, Catherine, Petrov, Ivo, Philis-Tsimikas, Athena, Pietilä, Mikko, Pinto, Fausto, Piros, Annamária, Piyayotai, Dilok, Platonov, Dmitriy, Poirier, Paul, Pop, Lavinia, Popa, Bogdan, Pop-Busui, Rodica, Poremba, John, Porto, Alejandro, Postadzhiyan, Arman, Pothineni, Ramesh B, Potu, Ranganatha P, Powell, Talessa, Prafulla, Kerkar G, Prager, Rudolf, Prakova-Teneva, Zhulieta R, Pratley, Richard E, Price, Hermione, Pulka, Grazyna, Pullman, John, Punt, Zelda E, Purighalla, Raman S, Purnell, Peter, Qureshi, Mansoor, Rabasa-Lhoret, Remi, Raikhel, Marina A, Rancane, Gita, Randeva, Harpal, Rasouli, Neda, Reurean Pintilei, Delia V, Reyes, Ciro R, Rezgale, Inga, Rice, Eva, Riley, Thaddeus H, Risser, Joseph A, Ristic, Arsen, Rivas Fernández, Margarita, Robbins, David, Robitaille, Yves, Rodbard, Helena W, Rodriguez Plazas, Jaime A, Römer, T.J., Rosen, Glenn, Rosman, Dr Azhari, Rossi, Paulo, Rudenko, Leonid, Ruffin, Omari, Ruhani, Anwar Irawan, Runev, Nikolay, Ruyatkin, Dmitriy, Ruzic, Alen, Ryabov, Vyacheslav V, Rydén, Lars, Saggar, Suraj, Sakamoto, Tomohiro, Salter, Tim, Samal, Aditya K, Samoilova, Yulia, Sanabria, Hugo D, Sancak, Seda, Sangrigoli, Renee, Sansanayudh, Nakarin, Santini, Ferruccio, Saraiva, José F, Sardinov, Ruslan, Sargeant, William, Sari, Ramazan, Sathananthan, Airani, Sathyapalan, Thozhukat, Sato, Atsushi, Sauter, Joachim, Sbraccia, Paolo, Schaap, J., Schaum, Thomas, Schiele, François, Scott, John, Segal Lieberman, Gabriella, Segner, Alexander, Senior, Roxy, Sergeeva-Kondrachenko, Marina Y, Serota, Harvey, Serusclat, Pierre, Sethi, Rishi, Shah, Manoj K, Shah, Neerav, Shalaev, Sergey, Sharma, Raj, Sharma, Sumeet, Shaydyuk, Oksana, Shea, Heidi C, Shechter, Michael, Shehadeh, Naim, Shirazi, Mitra, Shlesinger, Yshay, Shneker, Ayham, Shutemova, Elena, Siasos, Gerasimos, Siddiqui, Imran A, Sidey, Jennifer, Sigal, Felix, Sime, Iveta, Singh, Narendra, Siraj, Elias, Sivalingam, Kanagaratnam, Skoczylas, Grzegorz, Smith, Stephen K, Smolenskaya, Olga, Snyder, Brian, Sofer, Yael, Sofley, C.W., Solano, Royce, Sonmez, Yusuf A, Sorokin, Maxim, Soto González, Alfonso, Sotolongo, Carlos, Soufer, Joseph, Soyluk Selcukbiricik, Ozlem, Spaic, Tamara, Spriggs, Douglas, Sreenan, Seamus, Stahl, Hans-Detlev, Stamatelopoulos, Kimon, Stanislavchuk, Mykola, Stankovic, Goran, Stasek, Josef, Steg, Gabriel, Steindorf, Joerg, Stephan, Dominique, Stewart, John, Still, Christopher, St-Maurice, Francois, Stogowska-Nikiciuk, Barbara, Stoker, Jeff, Stokic, Edita, Strzelecka, Anna, Sturm, Kerstin, Sueyoshi, Atsushi, Sugiura, Toshiyuki, Sultan, Senan, Suplotova, Lyudmila A, Suwanagool, Arisara, Suwanwalaikorn, Sompongse, Sveklina, Tatiana, Swanson, Neil, Swart, Henk, Swenson, Bradley P, Szyprowska, Ewa, Tait, Graeme, Takács, Róbert, Takeuchi, Yuzo, Tamirisa, Aparna, Tanaka, Hideki, Tatovic, Danijela, Tellier, Guy, Teragawa, Hiroki, Teterovska, Dace, Thomas, Nihal, Thuan, Jean-Francois, Tinahones, Francisco, Tisheva-Gospodinova, Snezhanka, Toarba, Cristina, Todoriuk, Liudmyla, Tokmakova, Mariya, Tonstad, Serena, Toplak, Hermann, Tran, Henry, Tripathy, Devjit, Trusau, Aliaksandr, Tsabedze, Nqoba, Tsougos, Elias, Tsoukas, George M, Tuccinardi, Dario, Tuna, Mazhar M, Turatti, Luiz A, Tziomalos, Konstantinos, Udommongkol, Chesda, Ueda, Osamu, Ukkola, Olavi, Unubol, Mustafa, Urbach, Dorothea, Urina Triana, Miguel A, Usdan, Lisa, Vaidya, Bijay, Vale, Noah, Vallieres, Gerald, Van Beek, Andre P, Van De Borne, Philippe, Van Der Walt, Eugene, Van Der Zwaan, C., Van Nieuwenhuizen, Elane, Van Zyl, Louis, Vanduynhoven, Philippe, Varghese, Kiron, Vasileva, Svetla P, Vassilev, Dobrin, Vathesatogkit, Prin, Velychko, Valentyna, Vercammen, Chris, Verges, Bruno, Verma, Subodh, Verwerft, Jan, Vesela, Alica, Veselovskaya, Nadezhda G, Vettor, Roberto, Veze, Irina, Vijan, Vinod, Vijayaraghavan, Ram, Villarino, Adriana, Vincent, Royce, Vinogradova, Oksana, Vishlitzky, Victor, Vlad, Adrian, Vladu, Ionela Mihaela, Vo, Anthony, Von Engelhardt, Charlotte, Von Münchhausen, Candy, Vorobyeva, Olga, Vossenberg, T., Vrolix, Mathias, Vukicevic, Marjana, Vyshnyvetskyy, Ivan, Wadvalla, Shahid, Wagner, Jan, Wakeling, John, Wallace, James, Wan Mohamed, Wan Mohd Izani, Wander, Gurpreet S, Ward, Kathleen, Warren, Mark L, Watanabe, Atsuyuki, Weber, Bruce, Weintraub, Howard, Weisnagel, John, Welker, James, Wendisch, Ulrich, Wenocur, Howard S, Wierum, Craig, Wilding, John, William, Maged, Wilson, Pete, Wilson, Jonathan P, Wong, Yuk-Ki, Wongcharoen, Wanwarang, Wozniak, Iwona, Wu, Chau-Chung, Wyatt, Nell, Wynne, Alan, Yamaguchi, Hiroshi, Yamasaki, Masahiro, Yazici, Dilek, Yeh, Hung-I, Yotov, Yoto, Yuan, Qingyang, Zacher, Jeffrey, Zagrebelnaya, Olga, Zaidman, Cesar J, Zalevskaya, Alsu, Zarich, Stuart, Zatelli, Maria Chiara, Zeller, Helga, Zhdanova, Elena A, Zornitzki, Taiba, Zrazhevskiy, Konstantin, Zykov, Mikhail, Lincoff, A Michael, Ryan, Donna H, Colhoun, Helen M, Deanfield, John E, Emerson, Scott S, Kahn, Steven E, Kushner, Robert F, Plutzky, Jorge, Brown-Frandsen, Kirstine, Hovingh, G Kees, Hardt-Lindberg, Soren, Tornøe, Christoffer W, Deanfield, John, Scirica, Benjamin M, Ryan, Donna, Kosiborod, Mikhail N, Hardt-Lindberg, Søren, Frenkel, Ofir, Weeke, Peter E, Rasmussen, Søren, Lang, Chim C, and Urina-Triana, Miguel

Published
2024
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19. Management and outcomes of adolescent and young adult sarcoma patients: results from the French nationwide database NETSARC

Author

Kubicek, Pierre, Cesne, Axel Le, Lervat, Cyril, Toulmonde, Maud, Chevreau, Christine, Duffaud, Florence, Le Nail, Louis-Romée, Morelle, Magali, Gaspar, Nathalie, Vérité, Cécile, Castex, Marie-Pierre, Penel, Nicolas, Saada, Esma, Causeret, Sylvain, Bertucci, François, Perrin, Christophe, Bompas, Emmanuelle, Orbach, Daniel, Laurence, Valérie, Piperno-Neumann, Sophie, Anract, Philippe, Rios, Maria, Gentet, Jean-Claude, Mascard, Éric, Pannier, Stéphanie, Blouin, Pascale, Carrère, Sébastien, Chaigneau, Loïc, Soibinet-Oudot, Pauline, Corradini, Nadège, Boudou-Rouquette, Pascaline, Ruzic, Jean-Christophe, Lebrun-Ly, Valérie, Dubray-Longeras, Pascale, Varatharajah, Sharmini, Lebbe, Céleste, Ropars, Mickaël, Kurtz, Jean-Emmanuel, Guillemet, Cécile, Lotz, Jean-Pierre, Berchoud, Juliane, Cherrier, Grégory, Ducimetière, Françoise, Chemin, Claire, Italiano, Antoine, Honoré, Charles, Desandes, Emmanuel, Blay, Jean-Yves, Gouin, François, and Marec-Bérard, Perrine

Published
2023
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21. Improved nationwide survival of sarcoma patients with a network of reference centers

Author

Blay, J.Y., Penel, N., Valentin, T., Anract, P., Duffaud, F., Dufresne, A., Verret, B., Cordoba, A., Italiano, A., Brahmi, M., Henon, C., Amouyel, T., Ray-Coquard, I., Ferron, G., Boudou-Rouquette, P., Tlemsani, C., Salas, S., Rochwerger, R., Faron, M., Bompas, E., Ducassou, A., Gangloff, D., Gouin, F., Firmin, N., Piperno-Neumann, S., Rios, M., Ropars, M., Kurtz, J.E., Le Nail, L.R., Bertucci, F., Carrere, S., Llacer, C., Watson, S., Bonvalot, S., Leroux, A., Perrin, C., Gantzer, J., Pracht, M., Narciso, B., Monneur, A., Lebbe, C., Hervieu, A., Saada-Bouzid, E., Dubray-Longeras, P., Fiorenza, F., Chaigneau, L., Nevieres, Z.-M., Soibinet, P., Bouché, O., Guillemet, C., Spano, J.P., Ruzic, J.C., Isambert, N., Vaz, G., Meeus, P., Karanian, M., Ngo, C., Coindre, J.M., De Pinieux, G., Le Loarer, F., Ducimetiere, F., Chemin, C., Morelle, M., Toulmonde, M., and Le Cesne, A.

Published
2024
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24. Security and Privacy in Academic Data Management at Schools: SPADATAS Project

Author

Amo-Filva, Daniel, Escudero, David Fonseca, Sanchez-Sepulveda, Mónica V., García-Holgado, Alicia, García-Holgado, Lucía, García-Peñalvo, Francisco José, Orehovački, Tihomir, Krašna, Marjan, Pesek, Igor, Marchetti, Emanuela, Valente, Andrea, Witfelt, Claus, Ružić, Ivana, Fraoua, Karim Elia, Moreira, Fernando, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Bertino, Elisa, Editorial Board Member, Gao, Wen, Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Yung, Moti, Editorial Board Member, Zaphiris, Panayiotis, editor, and Ioannou, Andri, editor

Published
2023
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26. High-fidelity trapped-ion qubit operations with scalable photonic modulators

Author

C. W. Hogle, D. Dominguez, M. Dong, A. Leenheer, H. J. McGuinness, B. P. Ruzic, M. Eichenfield, and D. Stick

Subjects
Physics, QC1-999, Electronic computers. Computer science, QA75.5-76.95
Abstract

Abstract Experiments with trapped ions and neutral atoms typically employ optical modulators in order to control the phase, frequency, and amplitude of light directed to individual atoms. These elements are expensive, bulky, consume substantial power, and often rely on free-space I/O channels, all of which pose scaling challenges. To support many-ion systems like trapped-ion quantum computers or miniaturized deployable devices like clocks and sensors, these elements must ultimately be microfabricated, ideally monolithically with the trap to avoid losses associated with optical coupling between physically separate components. In this work we design, fabricate, and test an optical modulator capable of monolithic integration with a surface-electrode ion trap. These devices consist of piezo-optomechanical photonic integrated circuits configured as multi-stage Mach-Zehnder modulators that are used to control the intensity of light delivered to a single trapped ion on a separate chip. We use quantum tomography employing hundreds of multi-gate sequences to enhance the sensitivity of the fidelity to the types and magnitudes of gate errors relevant to quantum computing and better characterize the performance of the modulators, ultimately measuring single qubit gate fidelities that exceed 99.7%.

Published
2023
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27. Characterization of Errors in Interferometry with Entangled Atoms

Author

Brif, Constantin, Ruzic, Brandon P., and Biedermann, Grant W.

Subjects
Quantum Physics
Abstract

Recent progress in generating entangled spin states of neutral atoms provides opportunities to advance quantum sensing technology. In particular, entanglement can enhance the performance of accelerometers and gravimeters based on light-pulse atom interferometry. We study the effects of error sources that may limit the sensitivity of such devices, including errors in the preparation of the initial entangled state, imperfections in the laser pulses, momentum spread of the initial atomic wave packet, measurement errors, spontaneous emission, and atom loss. We determine that, for each of these errors, the expectation value of the parity operator $\Pi$ has the general form, $\overline{\langle \Pi \rangle} = \Pi_0 \cos( N \phi )$, where $\phi$ is the interferometer phase and $N$ is the number of atoms prepared in the maximally entangled Greenberger--Horne--Zeilinger state. Correspondingly, the minimum phase uncertainty has the general form, $\Delta\phi = (\Pi_0 N)^{-1}$. Each error manifests itself through a reduction of the amplitude of the parity oscillations, $\Pi_0$, below the ideal value of $\Pi_0 = 1$. For each of the errors, we derive an analytic result that expresses the dependence of $\Pi_0$ on error parameter(s) and $N$, and also obtain a simplified approximate expression valid when the error is small. Based on the performed analysis, entanglement-enhanced atom interferometry appears to be feasible with existing experimental capabilities.

Published
2020
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28. Data analytics approach to predict the hardness of the copper matrix composites

Author

Bhattacharya, Somesh Kr., Sahara, Ryoji, Bozic, Dusan, and Ruzic, Jovana

Subjects
Physics - Applied Physics, Condensed Matter - Materials Science
Abstract

Copper matrix composite materials have exhibited a high potential in applications where excellent conductivity and mechanical properties are required. In this study, the machine learning models have been applied to predict the hardness of the copper matrix composite materials produced via powder metallurgy technique. Two particular composites were considered in this work. From experiments, we extracted the independent variables (features) like the milling time (MT, Hours), dislocation density (DD, 1/m2 ), average particle size (PS,nm), density (gm/cm3 ) and yield stress (MPa) while the Vickers Hardness (MPa) was used as the dependent variable. Feature selection was performed by calculation the Pearson correlation coefficient (PCC) between the independent and dependent variables. We employed six different machine learning regression models to predict the hardness for the two matrix composites., Comment: 9 pages, 3 figures, 2 tables

Published
2020

29. Assessment of Sea-Level Rise Impacts on Salt-Wedge Intrusion in Idealized and Neretva River Estuary

Author

Krvavica, Nino and Ružić, Igor

Subjects
Physics - Atmospheric and Oceanic Physics
Abstract

Understanding the response of estuaries to sea-level rise is crucial in developing a suitable mitigation and climate change adaptation strategy. This study investigates the impacts of rising sea levels on salinity intrusion in salt-wedge estuaries. The sea-level rise impacts are assessed in idealized estuaries using simple expressions derived from a two-layer hydraulic theory, and in the Neretva River Estuary in Croatia using a two-layer time-dependent model. The assessment is based on three indicators - the salt-wedge intrusion length, the seawater volume, and the river inflows needed to restore the baseline intrusion. The potential SLR was found to increase all three considered indicators. Theoretical analysis in idealized estuaries suggests that shallower estuaries are more sensitive to SLR. Numerical results for the Neretva River Estuary showed that SLR may increase salt-wedge intrusion length, volume, and corrective river inflow. However, the results are highly non-linear because of the channel geometry, especially for lower river inflows. A theoretical assessment of channel bed slope impacts on limiting a potential intrusion is therefore additionally discussed. This findings emphasize the need to use several different indicators when assessing SLR impacts.

Published
2020

30. Alginate Cryogels as a Template for the Preparation of Edible Oleogels

Author

Sladjana Meseldzija, Jovana Ruzic, Jelena Spasojevic, Milan Momcilovic, Arash Moeini, Gustavo Cabrera-Barjas, and Aleksandra Nesic

Subjects
oleogels, alginate, freeze-drying, edible oils, functional food, Chemical technology, TP1-1185
Abstract

A high consumption of solid fats is linked to increased inflammation and a risk of cardiovascular diseases. Hence, in recent years, there has been increasing interest in the development of oleogels as a fat substitute in food products. Oleogels are edible gels that contain a large amount of liquid oils entrapped in a 3D network and that can potentially be applied to spreads, bakery goods, meat, and dairy products in order to lower their saturated fat content while maintaining a desirable food texture and mouthfeel. In this work, alginate cryogels were studied as templates for three different edible oils in the process of oleogel formation. Two different freezing regimes to obtain cryogels were employed in order to evaluate better the textural and morphological capabilities of cryogels to adsorb and retain edible oils. It was shown that rapid freezing in liquid nitrogen produces alginate cryogels with a lower density, higher porosity, and a greater ability to adsorb the tested oils. The highest uptake and holding oil capacity was achieved for olive oil, which reached a value of 792% and 82%, respectively. The best chewiness was found for an oleogel containing olive oil, whereas oleogels with the other two tested oils showed better springiness. Hence, the results presented in this work demonstrated that alginate-based cryogels can be effectively used as templates for oleogels and potentially find applications in the food industry.

Published
2024
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31. Time-dependent numerical model for simulating internal oscillations in a sea organ

Author

Krvavica, Nino, Peroli, Gabrijel, Ružić, Igor, and Ožanić, Nevenka

Subjects
Physics - Fluid Dynamics
Abstract

This paper presents a one-dimensional time-dependent numerical model of a sea organ, which generates music driven by the motion of the sea. The governing equations are derived by coupling hydrodynamic and thermodynamic equations for water level and air pressure oscillations in a sea organ pipe system forced by irregular waves. The model was validated by comparing numerical results to experimental data obtained from a scaled physical model. Furthermore, the models' capabilities are presented by simulating internal oscillations in the Sea Organ in Zadar, Croatia. The response of the Sea Organ varies between segments and for different wave conditions. The strongest air pressure and water level response is found near resonance frequencies.

Published
2019

33. Management and outcomes of adolescent and young adult sarcoma patients: results from the French nationwide database NETSARC

Author

Pierre Kubicek, Axel Le Cesne, Cyril Lervat, Maud Toulmonde, Christine Chevreau, Florence Duffaud, Louis-Romée Le Nail, Magali Morelle, Nathalie Gaspar, Cécile Vérité, Marie-Pierre Castex, Nicolas Penel, Esma Saada, Sylvain Causeret, François Bertucci, Christophe Perrin, Emmanuelle Bompas, Daniel Orbach, Valérie Laurence, Sophie Piperno-Neumann, Philippe Anract, Maria Rios, Jean-Claude Gentet, Éric Mascard, Stéphanie Pannier, Pascale Blouin, Sébastien Carrère, Loïc Chaigneau, Pauline Soibinet-Oudot, Nadège Corradini, Pascaline Boudou-Rouquette, Jean-Christophe Ruzic, Valérie Lebrun-Ly, Pascale Dubray-Longeras, Sharmini Varatharajah, Céleste Lebbe, Mickaël Ropars, Jean-Emmanuel Kurtz, Cécile Guillemet, Jean-Pierre Lotz, Juliane Berchoud, Grégory Cherrier, Françoise Ducimetière, Claire Chemin, Antoine Italiano, Charles Honoré, Emmanuel Desandes, Jean-Yves Blay, François Gouin, and Perrine Marec-Bérard

Subjects
Adolescents and young adults, AYAs, Sarcoma, Management, Multidisciplinary tumor board, Reference centers, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282
Abstract

Abstract Background The initial management of patients with sarcoma is a critical issue. We used the nationwide French National Cancer Institute-funded prospective sarcoma database NETSARC to report the management and oncologic outcomes in adolescents and young adults (AYAs) patients with sarcoma at the national level. Patients and methods NETSARC database gathers regularly monitored and updated data from patients with sarcoma. NETSARC was queried for patients (15–30 years) with sarcoma diagnosed from 2010 to 2017 for whom tumor resection had been performed. We reported management, locoregional recurrence-free survival (LRFS), progression-free survival (PFS), and overall survival (OS) in AYA treated in French reference sarcoma centers (RSC) and outside RSC (non-RSC) and conducted multivariable survival analyses adjusted for classical prognostic factors. Results Among 3,227 patients aged 15–30 years with sarcoma diagnosed between 2010 and 2017, the study included 2,227 patients with surgery data available, among whom 1,290 AYAs had been operated in RSC, and 937 AYAs in non-RSC. Significant differences in compliance to guidelines were observed including pre-treatment biopsy (RSC: 85.9%; non-RSC 48.1%), pre-treatment imaging (RSC: 86.8%; non-RSC: 56.5%) and R0 margins (RSC 57.6%; non-RSC: 20.2%) (p

Published
2023
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36. Geometrical Considerations of Air-Conditioner Vent Arrangement in a Farm Tractor Cab

Author

Ružić, Dragan, Jojić, Tanasije, Ceccarelli, Marco, Series Editor, Agrawal, Sunil K., Advisory Editor, Corves, Burkhard, Advisory Editor, Glazunov, Victor, Advisory Editor, Hernández, Alfonso, Advisory Editor, Huang, Tian, Advisory Editor, Jauregui Correa, Juan Carlos, Advisory Editor, Takeda, Yukio, Advisory Editor, Rackov, Milan, editor, Mitrović, Radivoje, editor, and Čavić, Maja, editor

Published
2022
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37. Overall survival in patients with re-excision of positive microscopic margins of limb and trunk wall soft tissue sarcoma operated outside of a reference center: a nationwide cohort analysis

Author

Francois Gouin, Eberhard Stoeckle, Charles Honoré, Mickael Ropars, Mehrdad Jafari, Jean Camille Mattei, Alexandre Rochwerger, Sébastien Carrere, Denis Waast, Gwenaël Ferron, Jean-Christophe Machiavello, Philippe Anract, Frédéric Marchal, François Sirveaux, Oren Marco, Jérôme Guiramand, Brice Paquette, Antonio Di Marco, Sylvain Causeret, Jean-Marc Guilloit, Pauline Soibinet, Dimitri Tzanis, Pierre Gimbergues, Fabrice Fiorenza, Franck Dujardin, Louis R. Le Nail, Jean-Christophe Ruzic, Claire Chemin-Airiau, Magali Morelle, Pierre Meeus, Marie Karanian, François Le Loarer, Gualter Vaz, Jean-Yves Blay, and on behalf of the NETSARC/RREPS and French Sarcoma Group-Groupe d’Etude des Tumeurs Osseuses (GSF-GETO) networks

Subjects
Soft tissue sarcoma, Surgery, Relapse, Reference center, Multidisciplinary tumor board resection margins, Survival, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282
Abstract

Abstract Background This French nationwide NETSARC exhaustive prospective cohort aims to explore the impact of systematic re-excision (RE) as adjuvant care on overall survival (OS), local recurrence free survival (LRFS), and local and distant control (RFS) in patients with soft tissue sarcoma (STS) with positive microscopic margins (R1) after initial resection performed outside of a reference center. Methods Eligible patients had experienced STS surgery outside a reference center from 2010 to 2017, and had R1 margins after initial surgery. Characteristics and treatment comparisons used chi-square for categorical variables and Kruskall-Wallis test for continuous data. Survival distributions were compared in patients reexcised (RE) or not (No-RE) using a log-rank test. A Cox proportional hazard model was used for subgroup analysis. Results A total of 1,284 patients had experienced initial STS surgery outside NETSARC with R1 margins, including 1,029 patients with second operation documented. Among the latter, 698 patients experienced re-excision, and 331 were not re-excised. Characteristics were significantly different regarding patient age, tumor site, tumor size, tumor depth, and histotype in the population of patients re-excised (RE) or not (No-RE). The study identified RE as an independent favorable factor for OS (HR 0.36, 95%CI 0.23–0.56, p

Published
2022
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38. Mrs4 loss of function in fungi during adaptation to the cystic fibrosis lung

Author

Daniel Murante, Elora G. Demers, Tania Kurbessoian, Marina Ruzic, Alix Ashare, Jason E. Stajich, and Deborah A. Hogan

Subjects
cystic fibrosis, fungi, iron, Mrs4, Clavispora lusitaniae, Exophiala dermatitidis, Microbiology, QR1-502
Abstract

ABSTRACT The genetic disease cystic fibrosis (CF) frequently leads to chronic lung infections by bacteria and fungi. We identified three individuals with CF with persistent lung infections dominated by Clavispora (Candida) lusitaniae. Whole-genome sequencing analysis of multiple isolates from each infection found evidence for selection for mutants in the gene MRS4 in all three distinct lung-associated populations. In each population, we found one or two unfixed, non-synonymous mutations in MRS4 relative to the reference allele found in multiple environmental and clinical isolates including the type strain. Genetic and phenotypic analyses found that all evolved alleles led to loss of function (LOF) of Mrs4, a mitochondrial iron transporter. RNA-seq analyses found that Mrs4 variants with decreased activity led to increased expression of genes involved in iron acquisition mechanisms in both low iron and replete iron conditions. Furthermore, surface iron reductase activity and intracellular iron were much higher in strains with Mrs4 LOF variants. Parallel studies found that a subpopulation of a CF-associated Exophiala dermatitidis infection also had a non-synonymous LOF mutation in MRS4. Together, these data suggest that MRS4 mutations may be beneficial during chronic CF lung infections in diverse fungi, perhaps, for the purposes of adaptation to an iron-restricted environment with chronic infections. IMPORTANCE The identification of MRS4 mutations in Clavispora (Candida) lusitaniae and Exophiala dermatitidis in individuals with cystic fibrosis (CF) highlights a possible adaptive mechanism for fungi during chronic CF lung infections. The findings of this study suggest that loss of function of the mitochondrial iron transporter Mrs4 can lead to increased activity of iron acquisition mechanisms, which may be advantageous for fungi in iron-restricted environments during chronic infections. This study provides valuable information for researchers working toward a better understanding of the pathogenesis of chronic lung infections and more effective therapies to treat them.

Published
2023
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39. Differences in ACTN3, ACE, and ADBR3 polymorphisms between Croatian National Team and non-national team elite soccer players

Author

Lana Ruzic, Ivan Radman, and Branka R. Matkovic

Subjects
ctn3, ace, adrb3, soccer players, national team, Sports, GV557-1198.995
Abstract

Introduction: This study investigated the differences in ACTN3, ACE and ADRB3 variants in top-level soccer players who entered the Croatian National Team and the ones who did not but played for two best Croatian teams. Material and Methods: The buccal swabs were collected from 56 soccer players playing for the Croatian National Team (N = 31) and/or for one of the two most prestigious Croatian soccer clubs (N = 25). Each participant’s genotype was determined by analyzing the single-nucleotide polymorphism. The ACTN3 gene (rs1815739) on chromosome 11 and the ACE (rs1799752) gene on chromosome 17 were determined. Results: No significant differences between the players who entered the national team and the ones who did not were found in ACTN3 R577X (p = 0.437) and ADRB3 (p = 0.202) polymorphism distribution, while the differences existed in ACE (p = 0.044). The significant differences were determined in the “Athletic index” between the national-team and non-national-team players (p = 0.023). Regarding the position, the “Athletic index” was significantly higher only in national team midfielders (2.50 ±1.08 points vs. 1.38 ±1.06; p = 0.034). Conclusion: It seems that the soccer players with a favorable genetic combination on the ACTN3 gene and ACE gene might have had a better chance to enter the National Team.

Published
2023
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40. Thyroid Stimulating Hormone as a Possible Additional COVID-19 Outcome Marker

Author

Anamarija Zrilic Vrkljan, Ana Majic Tengg, Tanja Palaversa, Srecko Marusic, Lana Ruzic, Ines Bilic-Curcic, and Maja Cigrovski Berkovic

Subjects
SARS-CoV-2, COVID-19, TSH, outcomes, Medicine (General), R5-920
Abstract

Background and Objectives: The interaction between thyroid and SARS-CoV-2 is complex and not yet fully understood. This study aimed to identify a predictive value of serum TSH levels on the short-term and middle-term outcomes of patients hospitalized for COVID-19. Materials and Methods: We retrospectively analyzed electronic records (ERs) data for hospitalized COVID-19 patients between March 2020 and June 2021 and their ERs during outpatient visits, 6–8 weeks post-discharge, in cases of known serum TSH levels and no previous thyroid disorder. The short-term (length of hospital stay, MSCT findings of lung involvement, required level of oxygen supplementation, admission to the ICU, and death) and middle-term outcomes after 6 to 8 weeks post-discharge (MSCT findings of lung involvement) were analyzed. Results: There were 580 patients included: 302 males and 278 females, average age of 66.39 ± 13.31 years, with no known thyroid disease (TSH mean 1.16 ± 1.8; median 0.80; no value higher than 6.0 mIU/L were included). Higher TSH was observed in patients with less severe outcomes and was associated with significantly higher SpO2 during hospitalization. Patients who required overall more oxygen supplementation or HFOT, mechanical ventilation, and patients who were more frequently admitted to the ICU or were more often treated with corticosteroids had lower TSH than those who did not show these indicators of disease severity. Lower TSH was also present in non-survivors when compared to survivors (all p < 0.01). Patients with low TSH during hospitalization more often had persistent lung involvement during the post-COVID-19 period (p = 0.028). In the post-COVID-19 period, there was an overall, statistically significant increase in the TSH levels when compared to TSH during hospitalization (p < 0.001). Conclusions: Low/suppressed serum TSH levels during acute COVID-19 may be an additional laboratory test that should be included in the prediction of unfavorable short- and middle-term outcomes.

Published
2024
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41. Narrow-line photoassociation spectroscopy and mass-scaling of bosonic strontium

Author

Reschovsky, B. J., Ruzic, B. P., Miyake, H., Pisenti, N. C., Julienne, P. S., and Campbell, G. K.

Subjects
Physics - Atomic Physics, Condensed Matter - Quantum Gases, Quantum Physics
Abstract

Using new experimental measurements of photoassociation resonances near the $^1\mathrm{S}_0 \rightarrow \phantom{ }^3\mathrm{P}_1$ intercombination transition in $^{84}$Sr and $^{86}$Sr, we present an updated study into the mass-scaling behavior of bosonic strontium dimers. A previous mass-scaling model [Borkowski et al., Phys. Rev. A 90, 032713 (2014)] was able to incorporate a large number of photoassociation resonances for $^{88}$Sr, but at the time only a handful of resonances close to the dissociation limit were known for $^{84}$Sr and $^{86}$Sr. In this work, we perform a more thorough measurement of $^{84}$Sr and $^{86}$Sr bound states, identifying multiple new resonances at deeper binding energies out to $E/h=-5$ GHz. We also identify several previously measured resonances that cannot be experimentally reproduced and provide alternative binding energies instead. With this improved spectrum, we develop a mass-scaled model that reproduces the observed binding energies of $^{86}$Sr and $^{88}$Sr to within 1 MHz. In order to accurately reproduce the deeper bound states, our model includes a second $1_u$ channel and more faithfully reproduces the depth of the potential. As determined by the previous mass-scaling study, $^{84}$Sr $0_u^+$ levels are strongly perturbed by the avoided crossing between the $^1\mathrm{S}_0 + \phantom{ }^3\mathrm{P}_1$ $0_u^+$ $(^3\Pi_u)$ and $^1\mathrm{S}_0 + \phantom{ }^1\mathrm{D}_2$ $0_u^+$ $(^1\Sigma_u^+)$ potential curves and therefore are not included in this mass-scaled model, but are accurately reproduced using an isotope-specific model with slightly different quantum defect parameters. In addition, the optical lengths of the $^{84}$Sr $0_u^+,\ \nu=-2$ to $\nu=-5$ states are measured and compared to numerical estimates to characterize their use as optical Feshbach resonances., Comment: Corrected typo in metadata 9 pages, 3 figures

Published
2018

42. RTMS AND H7-COIL IN THE TREATMENT OF TINNITUS; MODIFIED PROTOCOL PRELIMINARY RESULTS

Author

N. Geres, M. Celic Ruzic, V. Grosic, and I. Filipcic

Subjects
Psychiatry, RC435-571
Abstract

Introduction A relatively large number of studies of the efficacy of rTMS on tinnitus have been conducted. LF stimulation of the auditory cortex in combination with HF stimulation of the DLPFC, has shown efficacy in reduction of symptoms (especially loudness and anxiety). Objectives To launch a protocol to examine the efficacy of Cool-B65 coil LF rTMS combined with H7-deep coil HF rTMS, in the treatment of idiopathic, chronic, normo-acoustic tinnitus disorder, informed by the assessment of efficacy of rTMS on idiopathic, chronic tinnitus disorder. Preliminary results will be presented. Methods We first conducted a meta-analysis of randomized sham-controlled, double-blind trials to access the efficacy of rTMS on idiopathic, chronic tinnitus disorder. We are now planning an industry-independent, single-center, prospective, randomized sham-controlled, two-arms, double-blind superiority clinical trial with concealed allocation and masked independent outcome assessment. Population of this study will include Outpatients diagnosed for ≥ 12 months and ≤ 5 years with persistent, subjective, normo-acoustic tinnitus disorder of at least moderate severity defined by the THI score ≥ 38, both unilateral and bilateral, both genders, and with no hearing loss, age 18-65 years, with the tinnitus treatment unchanged for at least one months. Exclusion criteria will be: organically caused tinnitus and organic brain lesion, objective tinnitus, severe hearing loss or Menier’s disease, middle ear disease, diagnosed mental disorder, suicidality, alcohol or drugs addictions, clinically relevant neurological disorder and standard rTMS exclusion criteria. Population will include 52 in HR rTMS H7-coil arm, and 52 in sham control arm. Adjusted median of differences in instruments measuring tinnitus, annoyance, distress, anxiety, and depression will be used as an outcome. Results The Cool-B65 coil LF rTMS (1Hz) placed over the auditory cortex combined with H7-deep coil HF rTMS (10Hz) placed over mPFC, applied for 15 days, is expected to have superior efficacy on tinnitus symptoms measured by the overall THI score, then the SHAM passive coil. Conclusions We are conducting a theoretically founded study, with an empirically founded patient-oriented approach. We are expecting that H7-coil in stimulating auditory cortex and mPFC may be a possible alternative target for HF rTMS of the DLPFC. Disclosure of Interest None Declared

Published
2023
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45. Overall survival in patients with re-excision of positive microscopic margins of limb and trunk wall soft tissue sarcoma operated outside of a reference center: a nationwide cohort analysis

Author

Gouin, Francois, Stoeckle, Eberhard, Honoré, Charles, Ropars, Mickael, Jafari, Mehrdad, Mattei, Jean Camille, Rochwerger, Alexandre, Carrere, Sébastien, Waast, Denis, Ferron, Gwenaël, Machiavello, Jean-Christophe, Anract, Philippe, Marchal, Frédéric, Sirveaux, François, Marco, Oren, Guiramand, Jérôme, Paquette, Brice, Di Marco, Antonio, Causeret, Sylvain, Guilloit, Jean-Marc, Soibinet, Pauline, Tzanis, Dimitri, Gimbergues, Pierre, Fiorenza, Fabrice, Dujardin, Franck, Le Nail, Louis R., Ruzic, Jean-Christophe, Chemin-Airiau, Claire, Morelle, Magali, Meeus, Pierre, Karanian, Marie, Le Loarer, François, Vaz, Gualter, and Blay, Jean-Yves

Published
2022
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47. Efimov States of Strongly Interacting Photons

Author

Gullans, M. J., Diehl, S., Rittenhouse, S. T., Ruzic, B. P., D'Incao, J. P., Julienne, P., Gorshkov, A. V., and Taylor, J. M.

Subjects
Physics - Atomic Physics, Condensed Matter - Quantum Gases, Quantum Physics
Abstract

We demonstrate the emergence of universal Efimov physics for interacting photons in cold gases of Rydberg atoms. We consider the behavior of three photons injected into the gas in their propagating frame, where a paraxial approximation allows us to consider them as massive particles. In contrast to atoms and nuclei, the photons have a large anisotropy between their longitudinal mass, arising from dispersion, and their transverse mass, arising from diffraction. Nevertheless, we show that in suitably rescaled coordinates the effective interactions become dominated by s-wave scattering near threshold and, as a result, give rise to an Efimov effect near unitarity. We show that the three-body loss of these Efimov trimers can be strongly suppressed and determine conditions under which these states are observable in current experiments. These effects can be naturally extended to probe few-body universality beyond three bodies, as well as the role of Efimov physics in the non-equilbrium, many-body regime., Comment: 7 pages, 3 figures, main text, 3 pages, 3 figures, supplement

Published
2017
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48. State-to-state chemistry at ultra-low temperature

Author

Wolf, Joschka, Deiß, Markus, Krükow, Artjom, Tiemann, Eberhard, Ruzic, Brandon P., Wang, Yujun, D'Incao, José P., Julienne, Paul S., and Denschlag, Johannes Hecker

Subjects
Condensed Matter - Quantum Gases, Physics - Atomic Physics
Abstract

Fully understanding a chemical reaction on the quantum level is a long-standing goal in physics and chemistry. Experimental investigation of such state-to-state chemistry requires both the preparation of the reactants and the detection of the products in a quantum state resolved way, which has been a long term challenge. Using the high level control in the ultracold domain, we prepare a few-body quantum state of reactants and demonstrate state-to-state chemistry with unprecedented resolution. We present measurements and accompanying theoretical analysis for the recombination of three spin-polarized ultracold Rb atoms forming a weakly bound Rb$_2$ dimer. Detailed insights of the reaction process are obtained that suggest propensity rules for the distribution of reaction products. The scheme can readily be adapted to other species and opens a door to detailed investigations of inelastic or reactive processes in domains never before accessible., Comment: 27 pages, 11 figures, including Supplementary Information

Published
2017
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49. F-TRIDYN: A Binary Collision Approximation Code for Simulating Ion Interactions with Rough Surfaces

Author

Drobny, Jon, Curreli, Davide, Hayes, Alyssa, and Ruzic, David N.

Subjects
Physics - Computational Physics, Physics - Plasma Physics
Abstract

Fractal TRIDYN (F-TRIDYN) is a modified version of the widely used Monte Carlo, Binary Collision Approximation code TRIDYN that includes an explicit model of surface roughness and additional output modes for coupling to plasma edge and material codes. Surface roughness plays an important role in ion irradiation processes such as sputtering; roughness can significantly increase the angle of maximum sputtering and change the maximum observed sputtering yield by a factor of 2 or more. The complete effect of surface roughness on sputtering and other ion irradiation phenomena is not completely understood. Many rough surfaces can be consistently and realistically modeled by fractals, using the fractal dimension and fractal length scale as the sole input parameters. F-TRIDYN includes a robust fractal surface algorithm that is more computationally efficient than those in previous fractal codes and which reproduces available experimental sputtering data from rough surfaces. Fractals provide a compelling path toward a complete and concise understanding of the effect that surface geometry plays on the behavior of plasma-facing materials. F-TRIDYN is a flexible code for simulating ion-solid interactions and coupling to plasma and material codes for multiscale modeling., Comment: Submitted to Journal of Nuclear Materials

Published
2017
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50. Targeting Histone Deacetylases 6 in Dual-Target Therapy of Cancer

Author

Milan Beljkas, Aleksandra Ilic, Alen Cebzan, Branko Radovic, Nemanja Djokovic, Dusan Ruzic, Katarina Nikolic, and Slavica Oljacic

Subjects
histone deacetylases, kinases, inhibitors, epigenetics, cancer, dual-target therapy, Pharmacy and materia medica, RS1-441
Abstract

Histone deacetylases (HDACs) are the major regulators of the balance of acetylation of histone and non-histone proteins. In contrast to other HDAC isoforms, HDAC6 is mainly involved in maintaining the acetylation balance of many non-histone proteins. Therefore, the overexpression of HDAC6 is associated with tumorigenesis, invasion, migration, survival, apoptosis and growth of various malignancies. As a result, HDAC6 is considered a promising target for cancer treatment. However, none of selective HDAC6 inhibitors are in clinical use, mainly because of the low efficacy and high concentrations used to show anticancer properties, which may lead to off-target effects. Therefore, HDAC6 inhibitors with dual-target capabilities represent a new trend in cancer treatment, aiming to overcome the above problems. In this review, we summarize the advances in tumor treatment with dual-target HDAC6 inhibitors.

Published
2023
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