270 results on '"Yu, Clare"'
Search Results
2. Monte Carlo Spin Simulations of Magnetic Noise -- The Search for Pivoting
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Mickelsen, D. L., Wu, Ruqian, and Yu, Clare C.
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Condensed Matter - Mesoscale and Nanoscale Physics ,Quantum Physics - Abstract
Superconducting quantum interference devices (SQUIDs) show great promise as quantum bits (qubits) but continue to be hindered by flux noise. The flux noise power spectra of SQUIDs go as $1/f^\alpha$, where $\alpha$ is the temperature-dependent noise exponent. Experiments find $0.5 \lesssim \alpha \lesssim 1$. Furthermore, experiments find that the noise power spectra versus frequency at different temperatures pivot about or cross at a common point for each SQUID. To try to better understand the results and motivated by experimental evidence that magnetic moments on the surface of SQUIDS produce flux noise, we present the results of our Monte Carlo simulations of various spin systems on 2D lattices. We find that only spin glasses produce $\alpha \sim 1$ at low temperature. We find that aliasing of the noise power spectra at high frequencies can lead to spectral pivoting if it is in proximity to a knee at a slightly lower frequency. We show that the pivot frequency depends on the method of site selection and how often the magnetization is recorded. The spectral pivoting that occurs in our simulations is due to aliasing and does not explain the spectral pivoting of experiments., Comment: 16 pages, 14 figures
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- 2024
3. Interacting Two-Level Systems as a Source of 1/f Charge Noise in Quantum Dot Qubits
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Mickelsen, D. L., Carruzzo, Herve M., and Yu, Clare C.
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Condensed Matter - Mesoscale and Nanoscale Physics ,Quantum Physics - Abstract
Charge noise in semiconducting quantum dots has been observed to have a 1/f spectrum. We propose a model in which a pair of quantum dots are coupled to a 2D bath of fluctuating two level systems (TLS) that have electric dipole moments and that interact with each other, i.e., with the other fluctuators. These interactions are primarily via the elastic strain field. We use a 2D nearest-neighbor Ising spin glass to represent these elastic interactions and to simulate the dynamics of the bath of electric dipole fluctuators in the presence of a ground plane representing metal gates above the oxide layer containing the fluctuators. The interactions between the TLS cause the energy splitting of individual fluctuators to change with time. We calculate the resulting fluctuations in the electric potential at the two quantum dots that lie below the oxide layer. We find that 1/f electric potential noise spectra at the quantum dots and cross correlation in the noise between the two quantum dots are in qualitative agreement with experiment. Our simulations find that the cross correlations decrease exponentially with increasing quantum dot separation., Comment: 14 pages, 11 figures
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- 2023
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4. Interacting two-level systems as a source of 1/f charge noise in quantum dot qubits
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Mickelsen, DL, Carruzzo, Hervé M, and Yu, Clare C
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Quantum Physics ,Physical Sciences ,Condensed Matter Physics ,Chemical sciences ,Engineering ,Physical sciences - Published
- 2023
5. Impact of Magnetic Adsorbates on Shallow Nitrogen-Vacancy Centers: Insights from Diamond C(001) Surface Studies
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Zuo, PJ, Wang, Z, Yu, Clare C, and Wu, RQ
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Engineering ,Chemical Sciences ,Technology ,Physical Chemistry ,Chemical sciences - Abstract
Using density functional theory calculations, we investigated the magnetization and magnetic anisotropy of O2, H, and OH adsorbates on diamond surfaces. Our findings reveal that these adsorbates possess significant magnetic moments, with O2 having 2.0 μB and H and OH having 1.0 μB, respectively. Furthermore, they exhibit a non-negligible exchange coupling with the spin of the nitrogen-vacancy (NV) center positioned a few layers beneath the surface. Given the extremely small magnetic anisotropy energies of all of these systems (
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- 2023
6. Development and validation of a health literacy scale for family caregivers of older people with chronic illness
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Kor, Patrick Pui Kin, Yu, Clare Tsz Kiu, Li, Yaqin, Tsang, Alex Pak Lik, Tan, Lexi Han Zhi, Lam, Simon Ching, Lee, Paul Hong, Liu, Justina Yat Wa, Leung, Angela Yee Man, and Lee, Ka Ching
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- 2024
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7. Effects of Temperature Fluctuations on Charge Noise in Quantum Dot Qubits
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Mickelsen, Dan, Carruzzo, Herve M., Coppersmith, Susan N., and Yu, Clare C.
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Condensed Matter - Mesoscale and Nanoscale Physics ,Quantum Physics - Abstract
Silicon quantum dot qubits show great promise but suffer from charge noise with a 1/f^\alpha spectrum, where f is frequency and \alpha \lesssim 1. It has recently been proposed that 1/f^\alpha noise spectra can emerge from a few thermally activated two-level fluctuators in the presence of sub-bath temperature fluctuations associated with a two-dimensional electron gas (2DEG)~\cite{Ahn2021}. We investigate this proposal by doing Monte Carlo simulations of a single Ising spin in a bath with a fluctuating temperature. We find that to obtain noise with a $1/f^\alpha$ spectrum with $alpha \lesssim 1 down to low frequencies, the duration of temperature fluctuations must be comparable to the inverse of the lowest frequency at which the noise is measured. This result is consistent with an analytic calculation in which the fluctuator is a two-state system with dynamics governed by time-dependent switching rates. In this case we find that the noise spectrum follows a Lorentzian at frequencies lower than the inverse of the average duration of the lowest switching rate. We then estimate relaxation times of thermal fluctuations by considering thermal diffusion in an electron gas in a confined geometry. We conclude that temperature fluctuations in a 2DEG sub-bath would require an unphysically long duration to be consistent with experimental measurements of 1/f-like charge noise in quantum dots at frequencies extending well below 1 Hz., Comment: 8 pages, 5 figures
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- 2023
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8. Effects of temperature fluctuations on charge noise in quantum dot qubits
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Mickelsen, DL, Carruzzo, Hervé M, Coppersmith, SN, and Yu, Clare C
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Quantum Physics ,Physical Sciences ,Condensed Matter Physics ,Chemical sciences ,Engineering ,Physical sciences - Abstract
Silicon quantum dot qubits show great promise but suffer from charge noise with a 1/fα spectrum, where f is frequency and α≲1. It has recently been proposed that 1/fα noise spectra can emerge from a few thermally activated two-level fluctuators in the presence of sub-bath temperature fluctuations associated with a two-dimensional electron gas (2DEG). We investigate this proposal by performing Monte Carlo simulations of a single Ising spin in a bath with a fluctuating temperature. We find that to obtain noise with a 1/fα spectrum with α≲1 down to low frequencies, the duration of temperature fluctuations must be comparable to the inverse of the lowest frequency at which the noise is measured. This result is consistent with an analytic calculation in which the fluctuator is a two-state system with dynamics governed by time-dependent switching rates. In this case we find that the noise spectrum follows a Lorentzian at frequencies lower than the inverse of the average duration of the lowest switching rate. We then estimate relaxation times of thermal fluctuations by considering thermal diffusion in an electron gas in a confined geometry. We conclude that temperature fluctuations in a 2DEG sub-bath would require unphysically long durations to be consistent with experimental measurements of 1/f-like charge noise in quantum dots at frequencies extending well below 1 Hz.
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- 2023
9. Effectiveness of a game-based high-intensity interval training on executive function and other health indicators of children with ADHD: A three-arm partially-blinded randomized controlled trial
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Sun, Fenghua, Fang, Yuan, Ho, Ying Fung, Chow, Gary Chi-Ching, Yang, Yaxi, Huang, Kunyi, Yu, Clare Chung-Wah, Liu, Duo, Wong, Stephen Heung-Sang, Siu, Parco Ming-Fai, and Cooper, Simon B.
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- 2024
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10. Effect of wearable activity trackers on physical activity in children and adolescents: a systematic review and meta-analysis
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Au, Whitney W, Recchia, Francesco, Fong, Daniel Y, Wong, Stephen H S, Chan, Derwin K C, Capio, Catherine M, Yu, Clare C W, Wong, Sam W S, Sit, Cindy H P, Ip, Patrick, Chen, Ya-Jun, Thompson, Walter R, and Siu, Parco M
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- 2024
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11. Two-Level Systems and the Tunneling Model: A Critical View
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Yu, Clare C. and Carruzzo, Hervé M.
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Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Soft Condensed Matter - Abstract
The thermal and acoustic properties displayed by a wide variety of glasses at low temperatures are well described by the model of tunneling two level systems (TLS). We review the standard TLS model as well as developments that have occurred since the earlier work. In spite of half a century of effort and impressive successes, mysteries still remain. We discuss some of these longstanding puzzles about glasses at low temperatures and speculate about future directions., Comment: 28 pages, 1 figure, 1 table. To be published as Chapter 5 of the book entitled, "Low-Temperature Thermal and Vibrational Properties of Disordered Solids: A Half-Century of Universal "Anomalies" in Glasses," edited by M. A. Ramos, World Scientific Press
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- 2021
12. Distribution of two-level system couplings to strain and electric fields in glasses at low temperatures
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Carruzzo, Herve M, Bilmes, Alexander, Lisenfeld, Jürgen, Yu, Zheng, Wang, Bu, Wan, Zhongyi, Schmidt, JR, and Yu, Clare C
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Engineering ,Physical Sciences ,Condensed Matter Physics ,Chemical sciences ,Physical sciences - Abstract
The thermal, acoustic, and dielectric properties of glasses below 1 K are dictated by the interaction of two-level systems (TLS) with strain and electric fields. In a previous paper, we proposed a modified TLS model to quantitatively account for the universally small phonon scattering in glasses at low temperatures. A key ingredient of this model was a wide distribution of couplings between TLS and phonons, contrary to the standard model which assumes a single averaged value is sufficient. In this paper, we expand on this view and include couplings to strain as well as electric fields. We then compare our theoretical results to measurements obtained using superconducting qubits. We find that the predictions of the modified TLS model are more consistent with experiments than those of the standard model. For the distribution of couplings between TLS and the strain field, there is a better agreement with experiments if we include a random distribution of local strains. Such a distribution of local strains is consistent with those found from molecular dynamics simulations.
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- 2021
13. Tubulin acetylation promotes penetrative capacity of cells undergoing radial intercalation
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Collins, Caitlin, Kim, Sun K, Ventrella, Rosa, Carruzzo, Herve M, Wortman, Juliana C, Han, Hyebin, Suva, Evelyn E, Mitchell, Jennifer W, Yu, Clare C, and Mitchell, Brian J
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Biochemistry and Cell Biology ,Biological Sciences ,Underpinning research ,1.1 Normal biological development and functioning ,Acetylation ,Animals ,Epithelium ,Female ,Intercalating Agents ,Male ,Microtubules ,Tubulin ,Xenopus laevis ,Xenopus ,acetylation ,apical emergence ,ionocytes ,microtubules ,multiciliated cells ,radial intercalation ,tissue penetration ,vertex number ,vertices ,Medical Physiology ,Biological sciences - Abstract
Post-translational modification of tubulin provides differential functions to microtubule networks. Here, we address the role of tubulin acetylation on the penetrative capacity of cells undergoing radial intercalation, which is the process by which cells move apically, insert between outer cells, and join an epithelium. There are opposing forces that regulate intercalation, namely, the restrictive forces of the epithelial barrier versus the penetrative forces of the intercalating cell. Positively and negatively modulating tubulin acetylation in intercalating cells alters the developmental timing such that cells with more acetylation penetrate faster. We find that intercalating cells preferentially penetrate higher-order vertices rather than the more prevalent tricellular vertices. Differential timing in the ability of cells to penetrate different vertices reveals that lower-order vertices represent more restrictive sites of insertion. We shift the accessibility of intercalating cells toward more restrictive junctions by increasing tubulin acetylation, and we provide a geometric-based mathematical model that describes our results.
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- 2021
14. Spatial distribution of B cells and lymphocyte clusters as a predictor of triple-negative breast cancer outcome.
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Wortman, Juliana C, He, Ting-Fang, Solomon, Shawn, Zhang, Robert Z, Rosario, Anthony, Wang, Roger, Tu, Travis Y, Schmolze, Daniel, Yuan, Yuan, Yost, Susan E, Li, Xuefei, Levine, Herbert, Atwal, Gurinder, Lee, Peter P, and Yu, Clare C
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While tumor infiltration by CD8+ T cells is now widely accepted to predict outcomes, the clinical significance of intratumoral B cells is less clear. We hypothesized that spatial distribution rather than density of B cells within tumors may provide prognostic significance. We developed statistical techniques (fractal dimension differences and a box-counting method 'occupancy') to analyze the spatial distribution of tumor-infiltrating lymphocytes (TILs) in human triple-negative breast cancer (TNBC). Our results indicate that B cells in good outcome tumors (no recurrence within 5 years) are spatially dispersed, while B cells in poor outcome tumors (recurrence within 3 years) are more confined. While most TILs are located within the stroma, increased numbers of spatially dispersed lymphocytes within cancer cell islands are associated with a good prognosis. B cells and T cells often form lymphocyte clusters (LCs) identified via density-based clustering. LCs consist either of T cells only or heterotypic mixtures of B and T cells. Pure B cell LCs were negligible in number. Compared to tertiary lymphoid structures (TLS), LCs have fewer lymphocytes at lower densities. Both types of LCs are more abundant and more spatially dispersed in good outcomes compared to poor outcome tumors. Heterotypic LCs in good outcome tumors are smaller and more numerous compared to poor outcome. Heterotypic LCs are also closer to cancer islands in a good outcome, with LC size decreasing as they get closer to cancer cell islands. These results illuminate the significance of the spatial distribution of B cells and LCs within tumors.
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- 2021
15. Physics approaches to the spatial distribution of immune cells in tumors.
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Yu, Clare C, Wortman, Juliana C, He, Ting-Fang, Solomon, Shawn, Zhang, Robert Z, Rosario, Anthony, Wang, Roger, Tu, Travis Y, Schmolze, Daniel, Yuan, Yuan, Yost, Susan E, Li, Xuefei, Levine, Herbert, Atwal, Gurinder, and Lee, Peter P
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cancer ,tumor microenvironment ,maximum entropy ,fractal dimensions ,spatial distribution ,immune cells ,tumor infiltrating lymphocytes ,Mathematical Sciences ,Physical Sciences ,General Physics - Abstract
The goal of immunotherapy is to mobilize the immune system to kill cancer cells. Immunotherapy is more effective and, in general, the prognosis is better, when more immune cells infiltrate the tumor. We explore the question of whether the spatial distribution rather than just the density of immune cells in the tumor is important in forecasting whether cancer recurs. After reviewing previous work on this issue, we introduce a novel application of maximum entropy to quantify the spatial distribution of discrete point-like objects. We apply our approach to B and T cells in images of tumor tissue taken from triple negative breast cancer patients. We find that the immune cells are more spatially dispersed in good clinical outcome (no recurrence of cancer within at least 5 years of diagnosis) compared to poor clinical outcome (recurrence within 3 years of diagnosis). Our results highlight the importance of spatial distribution of immune cells within tumors with regard to clinical outcome, and raise new questions on their role in cancer recurrence.
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- 2021
16. Physics Approaches to the Spatial Distribution of Immune Cells in Tumors
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Yu, Clare C., Wortman, Juliana C., He, Ting-Fang, Solomon, Shawn, Zhang, Robert Z., Rosario, Anthony, Wang, Roger, Tu, Travis Y., Schmolze, Daniel, Yuan, Yuan, Yost, Susan E., Li, Xuefei, Levine, Herbert, Atwal, Gurinder, and Lee, Peter P.
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Physics - Biological Physics ,Physics - Medical Physics ,Quantitative Biology - Tissues and Organs - Abstract
The goal of immunotherapy is to enhance the ability of the immune system to kill cancer cells. Immunotherapy is more effective and, in general, the prognosis is better, when more immune cells infiltrate the tumor. We explore the question of whether the spatial distribution rather than just the density of immune cells in the tumor is important in forecasting whether cancer recurs. After reviewing previous work on this issue, we introduce a novel application of maximum entropy to quantify the spatial distribution of discrete point-like objects. We apply our approach to B and T cells in images of tumor tissue taken from triple negative breast cancer (TBNC) patients. We find that there is a distinct difference in the spatial distribution of immune cells between good clinical outcome (no recurrence of cancer within at least 5 years of diagnosis) and poor clinical outcome (recurrence within 3 years of diagnosis). Our results highlight the importance of spatial distribution of immune cells within tumors with regard to clinical outcome, and raise new questions on their role in cancer recurrence.
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- 2019
17. Why phonon scattering in glasses is universally small at low temperatures
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Carruzzo, Herve M. and Yu, Clare C.
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Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
We present a novel view of the standard model of tunneling two level systems (TLS) to explain the puzzling universal value of a quantity, $C\sim 3\times 10^{-4}$, that characterizes phonon scattering in glasses below 1 K as reflected in thermal conductivity, ultrasonic attenuation, internal friction, and the change in sound velocity. Physical considerations lead to a broad distribution of phonon-TLS couplings that (1) exponentially renormalize tunneling matrix elements, and (2) reduce the TLS density of states through TLS-TLS interactions. We find good agreement between theory and experiment for a variety of individual glasses., Comment: Resubmission: several typos were corrected and the notation clarified in some places. No major changes
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- 2019
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18. Occupancy and Fractal Dimension Analyses of the Spatial Distribution of Cytotoxic (CD8+) T Cells Infiltrating the Tumor Microenvironment in Triple Negative Breast Cancer
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Wortman, Juliana C, He, Ting-Fang, Rosario, Anthony, Wang, Roger, Schmolze, Daniel, Yuan, Yuan, Yost, Susan E, Li, Xuefei, Levine, Herbert, Atwal, Gurinder, Lee, Peter, and Yu, Clare C
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Other Physical Sciences ,Chemical Physics - Abstract
Favorable outcomes have been associated with high densities of tumor infiltrating lymphocytes (TILs) such as cytotoxic ([Formula: see text]) T cells. However, the clinical significance of the spatial distribution of TILs is less well understood. We have developed novel statistical techniques to characterize the spatial distribution of TILs at various length scales. These include a box counting method that we call “occupancy” and novel applications of fractal dimensions. We apply these techniques to the spatial distribution of [Formula: see text] T cells in the tumor microenvironment of tissue resected from 35 triple negative breast cancer patients. We find that there is a distinct difference in the spatial distribution of [Formula: see text] T cells between good clinical outcome (no recurrence within at least 5 years of diagnosis) and poor clinical outcome (recurrence within 3 years of diagnosis). The statistical significance of the difference between good and poor outcome in the occupancy, fractal dimension (FD), and FD difference of [Formula: see text] T cells is comparable to that of the [Formula: see text] T cell density. Even when we randomly exclude some of the cells so that the images have the same cell density, we still find that the fractal dimension at short length scales is correlated with cancer recurrence, implying that the actual spatial distribution of [Formula: see text] cells, and not just the [Formula: see text] cell density, is associated with clinical outcome. The occupancy and FD difference indicate that the [Formula: see text] T cells are more spatially dispersed in good outcome and more aggregated in poor outcome. We discuss possible interpretations.
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- 2020
19. Why Phonon Scattering in Glasses is Universally Small at Low Temperatures
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Carruzzo, Herve M and Yu, Clare C
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Mathematical Sciences ,Physical Sciences ,Engineering ,General Physics - Abstract
We present a novel view of the standard model of tunneling two level systems (TLSs) to explain the puzzling universal value of a quantity, C∼3×10^{-4}, that characterizes phonon scattering in glasses below 1 K as reflected in thermal conductivity, ultrasonic attenuation, internal friction, and the change in sound velocity. Physical considerations lead to a broad distribution of phonon-TLS couplings that (1) exponentially renormalize tunneling matrix elements, and (2) reduce the TLS density of states through TLS-TLS interactions. We find good agreement between theory and experiment for a variety of individual glasses.
- Published
- 2020
20. Effects of an internationalization at home (IAH) programme on cultural awareness among medical and nursing students in Hong Kong and Indonesia during the COVID-19 pandemic: a mixed-methods study
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Kor, Patrick Pui Kin, Yu, Clare Tsz Kiu, Triastuti, Ida Ayu, Sigilipoe, Mitra Andini, Kristiyanto, Haryo Dimasto, Pratiwi, Johana Puspasari Dwi, Perdamaian, Teguh Kristian, Li, Lisa Mengli, Pang, Phyllis Chui Ping, and Widagdo, The Maria Meiwati
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- 2022
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21. Hydrogen as a Source of Flux Noise in SQUIDs
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Wang, Zhe, Wang, Hui, Yu, Clare C., and Wu, R. Q.
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Condensed Matter - Materials Science - Abstract
Superconducting qubits are hampered by flux noise produced by surface spins from a variety of microscopic sources. Recent experiments indicated that hydrogen (H) atoms may be one of those sources. Using density functional theory calculations, we report that H atoms either embedded in, or adsorbed on, an a-Al2O3(0001) surface have sizeable spin moments ranging from 0.81 to 0.87 uB with energy barriers for spin reorientation as low as ~10 mK. Furthermore, H adatoms on the surface attract gas molecules such as O2, producing new spin sources. We propose coating the surface with graphene to eliminate H-induced surface spins and to protect the surface from other adsorbates., Comment: 12 pages, 4 figures
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- 2017
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22. Hydrogen as a source of flux noise in SQUIDs
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Wang, Zhe, Wang, Hui, Yu, Clare C, and Wu, RQ
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- 2018
23. Non-randomness of the anatomical distribution of tumors
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Yu, Clare and Mitchell, James Kameron
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Biomedical and Clinical Sciences ,Oncology and Carcinogenesis ,Breast Cancer ,Cancer ,Anatomical tumor distribution ,Breast cancer ,Upper outer quadrant ,Vasculature - Abstract
BackgroundWhy does a tumor start where it does within an organ? Location is traditionally viewed as a random event, yet the statistics of the location of tumors argues against this being a random occurrence. There are numerous examples including that of breast cancer. More than half of invasive breast cancer tumors start in the upper outer quadrant of the breast near the armpit, even though it is estimated that only 35 to 40% of breast tissue is in this quadrant. This suggests that there is an unknown microenvironmental factor that significantly increases the risk of cancer in a spatial manner and that is not solely due to genes or toxins. We hypothesize that tumors are more prone to form in healthy tissue at microvascular 'hot spots' where there is a high local concentration of microvessels providing an increased blood flow that ensures an ample supply of oxygen, nutrients, and receptors for growth factors that promote the generation of new blood vessels.ResultsTo show the plausibility of our hypothesis, we calculated the fractional probability that there is at least one microvascular hot spot in each region of the breast assuming a Poisson distribution of microvessels in two-dimensional cross sections of breast tissue. We modulated the microvessel density in various regions of the breast according to the total hemoglobin concentration measured by near infrared diffuse optical spectroscopy in different regions of the breast. Defining a hot spot to be a circle of radius 200 μm with at least 5 microvessels, and using a previously measured mean microvessel density of 1 microvessel/mm2, we find good agreement of the fractional probability of at least one hot spot in different regions of the breast with the observed invasive tumor occurrence. However, there is no reason to believe that the microvascular distribution obeys a Poisson distribution.ConclusionsThe spatial location of a tumor in an organ is not entirely random, indicating an unknown risk factor. Much work needs to be done to understand why a tumor occurs where it does.
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- 2017
24. Expanding signaling-molecule wavefront model of cell polarization in the Drosophila wing primordium.
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Wortman, Juliana C, Nahmad, Marcos, Zhang, Peng Cheng, Lander, Arthur D, and Yu, Clare C
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Animals ,Drosophila ,Myosins ,Membrane Glycoproteins ,Cell Adhesion Molecules ,Cadherins ,Drosophila Proteins ,Cell Polarity ,Gene Expression Regulation ,Developmental ,Organogenesis ,Models ,Biological ,Computer Simulation ,Wings ,Animal ,Gene Expression Regulation ,Developmental ,Models ,Biological ,Wings ,Animal ,Generic Health Relevance ,Bioinformatics ,Biological Sciences ,Information and Computing Sciences ,Mathematical Sciences - Abstract
In developing tissues, cell polarization and proliferation are regulated by morphogens and signaling pathways. Cells throughout the Drosophila wing primordium typically show subcellular localization of the unconventional myosin Dachs on the distal side of cells (nearest the center of the disc). Dachs localization depends on the spatial distribution of bonds between the protocadherins Fat (Ft) and Dachsous (Ds), which form heterodimers between adjacent cells; and the Golgi kinase Four-jointed (Fj), which affects the binding affinities of Ft and Ds. The Fj concentration forms a linear gradient while the Ds concentration is roughly uniform throughout most of the wing pouch with a steep transition region that propagates from the center to the edge of the pouch during the third larval instar. Although the Fj gradient is an important cue for polarization, it is unclear how the polarization is affected by cell division and the expanding Ds transition region, both of which can alter the distribution of Ft-Ds heterodimers around the cell periphery. We have developed a computational model to address these questions. In our model, the binding affinity of Ft and Ds depends on phosphorylation by Fj. We assume that the asymmetry of the Ft-Ds bond distribution around the cell periphery defines the polarization, with greater asymmetry promoting cell proliferation. Our model predicts that this asymmetry is greatest in the radially-expanding transition region that leaves polarized cells in its wake. These cells naturally retain their bond distribution asymmetry after division by rapidly replenishing Ft-Ds bonds at new cell-cell interfaces. Thus we predict that the distal localization of Dachs in cells throughout the pouch requires the movement of the Ds transition region and the simple presence, rather than any specific spatial pattern, of Fj.
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- 2017
25. Axonal Transport: A Constrained System
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Yu, Clare C, Reddy, Babu JN, Wortman, Juliana C, and Gross, Steven P
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Biomedical and Clinical Sciences ,Neurosciences ,1.1 Normal biological development and functioning ,Underpinning research ,Axons ,Dynein ,Kinesin ,Mitochondria ,Molecular motors ,Neurons ,Pain ,Theory ,Transport - Abstract
Long-distance intracellular axonal transport is predominantly microtubule-based, and its impairment is linked to neurodegeneration. Here we review recent theoretical and experimental evidence that suggest that near the axon boundaries (walls), the effective viscosity can become large enough to impede cargo transport in small (but not large) caliber axons. Theoretical work suggests that this opposition to motion increases rapidly as the cargo approaches the wall. However, having parallel microtubules close enough together to enable a cargo to simultaneously engage motors on more than one microtubule dramatically enhances motor activity, and thus decreases the effects due to such opposition. Experimental evidence supports this hypothesis: in small caliber axons, microtubule density is higher, increasing the probability of having parallel microtubules close enough that they can be used simultaneously by motors on a cargo. For transport toward the minus-end of microtubules, e.g., toward the cell body in an axon, a recently discovered force adaptation system can also contribute to overcoming such opposition to motion.
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- 2017
26. Candidate source of flux noise in SQUIDs: adsorbed oxygen molecules
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Wang, Hui, Shi, Chuntai, Hu, Jun, Han, Sungho, Yu, Clare C., and Wu, R. Q.
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Condensed Matter - Superconductivity ,Condensed Matter - Materials Science - Abstract
A major obstacle to using SQUIDs as qubits is flux noise. We propose that the heretofore mysterious spins producing flux noise could be $O_2$ molecules adsorbed on the surface. Using density functional theory calculations, we find that an $O_2$ molecule adsorbed on an {\alpha}-alumina surface has a magnetic moment of ~1.8 {\mu}B. When the spin is oriented perpendicular to the axis of the O-O bond, the barrier to spin rotations is about 10 mK. Monte Carlo simulations of ferromagnetically coupled, anisotropic XY spins on a square lattice find 1/f magnetization noise, consistent with flux noise in Al SQUIDs., Comment: 22 pages include main text plus supplemental material
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- 2015
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27. A Self-Narrative Study: Changes in Physical Ability and Social Communication in Children with Autism through Taekwondo Training with Elements of Music Therapy from the Parents' Perspective.
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Mok, Kam-Ming, Sze, Corliss H. H., Yu, Clare C. W., Mak, Emma, Chan, Dorothy F. Y., and Wong, Simpson W. L.
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PARENT attitudes ,AUTISM spectrum disorders ,MUSIC therapy ,AUTISM in children ,MOTOR ability ,CHILDREN with autism spectrum disorders ,AUTISTIC children - Abstract
Autism spectrum disorder (ASD) significantly affects social and motor skills development in early, middle or even late childhood. To promote social and motor skills development among autistic children, an intervention consisting of Taekwondo and elements of music therapy was designed and implemented in Hong Kong. The objective of the current study is to investigate the effectiveness of this training, based on parents' observations of their children who had completed the key stage of the training. Thirteen parents or caregivers (n = 13) whose children with autism participated in our Taekwondo training for two months were interviewed. Three major themes were identified by thematic analysis: (A) social skills-related change after the intervention, (B) motor skills-related change after the intervention, (C) characteristics of the intervention (i.e., session arrangement, tutor/coach attitude). Our findings show that our training was perceived by parents to have a significant impact on the promotion of physical ability and social communication in autistic children. [ABSTRACT FROM AUTHOR]
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- 2024
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28. The Use of Modified Mindfulness-Based Stress Reduction and Mindfulness-Based Cognitive Therapy Program for Family Caregivers of People Living with Dementia: A Feasibility Study
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Cheung, Daphne Sze Ki, Kor, Patrick Pui Kin, Jones, Cindy, Davies, Nathan, Moyle, Wendy, Chien, Wai Tong, Yip, Annie Lai King, Chambers, Suzanne, Yu, Clare Tsz Kiu, and Lai, Claudia K.Y.
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- 2020
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29. Origin and Reduction of 1/f Magnetic Flux Noise in Superconducting Devices
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Kumar, P, Sendelbach, S, Beck, MA, Freeland, JW, Wang, Zhe, Wang, Hui, Yu, Clare C, Wu, RQ, Pappas, DP, and McDermott, R
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- 2016
30. Publisher’s Note: Candidate Source of Flux Noise in SQUIDs: Adsorbed Oxygen Molecules [Phys. Rev. Lett. 115, 077002 (2015)]
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Wang, Hui, Shi, Chuntai, Hu, Jun, Han, Sungho, Yu, Clare C, and Wu, RQ
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Physical Sciences ,Classical Physics ,Mathematical Sciences ,Engineering ,General Physics ,Mathematical sciences ,Physical sciences - Abstract
This corrects the article DOI: 10.1103/PhysRevLett.115.077002.
- Published
- 2015
31. The Widom line and noise power spectral analysis of a supercritical fluid
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Han, Sungho and Yu, Clare C.
- Subjects
Condensed Matter - Statistical Mechanics ,Condensed Matter - Soft Condensed Matter - Abstract
We have performed extensive molecular dynamics simulations to study noise power spectra of density and potential energy fluctuations of a Lennard-Jones model of a fluid in the supercritical region. Emanating from the liquid-vapor critical point, there is a locus of isobaric specific heat maxima, called the Widom line, which is often regarded as an extension of the liquid-vapor coexistence line. Our simulation results show that the noise power spectrum of the density fluctuations on the Widom line of the liquid-vapor transition exhibits three distinct $1/f^{\gamma}$ behaviors with exponents $\gamma$= 0, 1.2 and 2, depending on the frequency $f$. We find that the intermediate frequency region with an exponent $\gamma \sim$ 1 appears as the temperature approaches the Widom temperature from above or below. On the other hand, we do not find three distinct regions of $1/f^{\gamma}$ in the power spectrum of the potential energy fluctuations on the Widom line. Furthermore, we find that the power spectra of both the density and potential energy fluctuations at low frequency have a maximum on the Widom line, suggesting that the noise power can provide an alternative signature of the Widom line.
- Published
- 2011
- Full Text
- View/download PDF
32. Modeling Flux Noise in SQUIDs Due to Hyperfine Interactions
- Author
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Wu, Jiansheng and Yu, Clare C.
- Subjects
Condensed Matter - Mesoscale and Nanoscale Physics ,Condensed Matter - Other Condensed Matter - Abstract
Recent experiments implicate spins on the surface of metals as the source of flux noise in SQUIDs, and indicate that these spins are able to relax without conserving total magnetization. We present a model of $1/f$ flux noise in which electron spins on the surface of metals can relax via hyperfine interactions. Our results indicate that flux noise would be significantly reduced in superconducting materials where the most abundant isotopes do not have nuclear moments such as zinc and lead., Comment: 4+ pages, no figures
- Published
- 2011
- Full Text
- View/download PDF
33. How Stress Can Reduce Dissipation in Glasses
- Author
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Wu, Jiansheng and Yu, Clare C.
- Subjects
Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Other Condensed Matter - Abstract
We propose that stress can decrease the internal friction of amorphous solids, either by increasing the potential barriers of defects, thus reducing their tunneling and thermal activation that produce loss, or by decreasing the coupling between defects and phonons. This stress can be from impurities, atomic bonding constraints, or externally applied stress. Externally applied stress also reduces mechanical loss through dissipation dilution. Our results are consistent with the experiments, and predict that stress could substantially reduce dielectric loss and increase the thermal conductivity., Comment: 9 pages, 7 figures
- Published
- 2011
- Full Text
- View/download PDF
34. Axonal Transport: How High Microtubule Density Can Compensate for Boundary Effects in Small-Caliber Axons
- Author
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Wortman, Juliana C, Shrestha, Uttam M, Barry, Devin M, Garcia, Michael L, Gross, Steven P, and Yu, Clare C
- Subjects
Biological Sciences ,Chemical Sciences ,Physical Sciences ,Animals ,Axonal Transport ,Axons ,Humans ,Kinesins ,Microtubules ,Models ,Neurological ,Kinesin ,Biophysics ,Biological sciences ,Chemical sciences ,Physical sciences - Abstract
Long-distance intracellular axonal transport is predominantly microtubule-based, and its impairment is linked to neurodegeneration. In this study, we present theoretical arguments that suggest that near the axon boundaries (walls), the effective viscosity can become large enough to impede cargo transport in small (but not large) caliber axons. Our theoretical analysis suggests that this opposition to motion increases rapidly as the cargo approaches the wall. We find that having parallel microtubules close enough together to enable a cargo to simultaneously engage motors on more than one microtubule dramatically enhances motor activity, and thus minimizes the effects of any opposition to transport. Even if microtubules are randomly placed in axons, we find that the higher density of microtubules found in small-caliber axons increases the probability of having parallel microtubules close enough that they can be used simultaneously by motors on a cargo. The boundary effect is not a factor in transport in large-caliber axons where the microtubule density is lower.
- Published
- 2014
35. Saturation of Two Level Systems and Charge Noise in Josephson Junction Qubits
- Author
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Constantin, Magdalena, Yu, Clare C., and Martinis, John M.
- Subjects
Condensed Matter - Superconductivity - Abstract
We study the charge noise $S_Q$ in Josephson qubits produced by fluctuating two level systems (TLS) with electric dipole moments in the substrate. The TLS are driven by an alternating electric field of angular frequency $\Omega$ and electric field intensity $I$. It is not widely appreciated that TLS in small qubits can easily be strongly saturated if $I\gg I_c$, where $I_c$ is the critical electric field intensity. To investigate the effect of saturation on the charge noise, we express the noise spectral density in terms of density matrix elements. To determine the dependence of the density matrix elements on the ratio $I/I_c$, we find the steady state solution for the density matrix using the Bloch-Redfield differential equations. We then obtain an expression for the spectral density of charge fluctuations as a function of frequency $f$ and the ratio $I/I_c$. We find $1/f$ charge noise at low frequencies, and that the charge noise is white (constant) at high frequencies. Using a flat density of states, we find that TLS saturation has no effect on the charge noise at either high or low frequencies., Comment: 13 pages, 9 figures, accepted for publication in Phys. Rev. B
- Published
- 2008
- Full Text
- View/download PDF
36. Noise spectra of stochastic pulse sequences: application to large scale magnetization flips in the finite size 2D Ising model
- Author
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Chen, Zhi and Yu, Clare C.
- Subjects
Condensed Matter - Statistical Mechanics - Abstract
We provide a general scheme to predict and derive the contribution to the noise spectrum of a stochastic sequence of pulses from the distribution of pulse parameters. An example is the magnetization noise spectra of a 2D Ising system near its phase transition. At $T\le T_c$, the low frequency spectra is dominated by magnetization flips of nearly the entire system. We find that both the predicted and the analytically derived spectra fit those produced from simulations. Subtracting this contribution leaves the high frequency spectra which follow a power law set by the critical exponents., Comment: 4 pages, 5 figures. We improved text and included a predicted noise curve in Figure 4. 2 examples from Figure 3 are removed
- Published
- 2008
- Full Text
- View/download PDF
37. Effect of Two Level System Saturation on Charge Noise in Josephson Junction Qubits
- Author
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Yu, Clare C., Constantin, Magdalena, and Martinis, John M.
- Subjects
Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
We show that charge noise $S_Q$ in Josephson qubits can be produced by fluctuating two level systems (TLS) with electric dipole moments in the substrate using a flat density of states. At high frequencies the frequency and temperature dependence of the charge noise depends on the ratio $J/J_c$ of the electromagnetic flux $J$ to the critical flux $J_c$. It is not widely appreciated that TLS in small qubits can easily be strongly saturated with $J/J_c\gg 1$. Our results are consistent with experimental conclusions that $S_Q\sim 1/f$ at low frequencies and $S_Q\sim f$ at high frequencies., Comment: 4 pages
- Published
- 2007
38. Microscopic Model of Critical Current Noise in Josephson Junctions
- Author
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Constantin, Magdalena and Yu, Clare C.
- Subjects
Condensed Matter - Superconductivity ,Condensed Matter - Mesoscale and Nanoscale Physics - Abstract
We present a simple microscopic model to show how fluctuating two--level systems in the Josephson junction tunnel barrier of thickness $L$ can modify the potential energy of the barrier and produce critical current noise spectra. We find low frequency $1/f$ noise that goes as $L^5$. Our values are in good agreement with recent experimental measurements of critical current noise in Al/AlO$_{x}$/Al Josephson junctions. We also investigate the sensitivity of the noise on the nonuniformity of the tunnel barrier., Comment: 4 pages, 3 figures
- Published
- 2006
- Full Text
- View/download PDF
39. Absence of Dipole Glass Transition for Randomly Dilute Classical Ising Dipoles
- Author
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Snider, Joseph and Yu, Clare C.
- Subjects
Condensed Matter - Soft Condensed Matter ,Condensed Matter - Statistical Mechanics - Abstract
Dilute dipolar systems in three dimensions are expected to undergo a spin glass transition as the temperature decreases. Contrary to this, we find from Wang-Landau Monte Carlo simulations that at low concentrations $x$, dipoles randomly placed on a cubic lattice with dipolar interactions do not undergo a phase transition. We find that in the thermodynamic limit the ``glass'' transition temperature $T_g$ goes to zero as $1/\sqrt{N}$ where $N$ is the number of dipoles. The entropy per particle at low temperatures is larger for lower concentrations ($x=4.5%$) than for higher concentrations ($x=20%$).
- Published
- 2005
- Full Text
- View/download PDF
40. Decoherence in Josephson Qubits from Dielectric Loss
- Author
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Martinis, John M., Cooper, K. B., McDermott, R., Steffen, Matthias, Ansmann, Markus, Osborn, K., Cicak, K., Oh, S., Pappas, D. P., Simmonds, R. W., and Yu, clare C.
- Subjects
Condensed Matter - Materials Science - Abstract
Dielectric loss from two-level states is shown to be a dominant decoherence source in superconducting quantum bits. Depending on the qubit design, dielectric loss from insulating materials or the tunnel junction can lead to short coherence times. We show that a variety of microwave and qubit measurements are well modeled by loss from resonant absorption of two-level defects. Our results demonstrate that this loss can be significantly reduced by using better dielectrics and fabricating junctions of small area $\lesssim 10 \mu \textrm{m}^2$. With a redesigned phase qubit employing low-loss dielectrics, the energy relaxation rate has been improved by a factor of 20, opening up the possibility of multi-qubit gates and algorithms., Comment: shortened version submitted to PRL
- Published
- 2005
- Full Text
- View/download PDF
41. Decoherence of a Josephson qubit due to coupling to two level systems
- Author
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Ku, Li-Chung and Yu, Clare C.
- Subjects
Condensed Matter - Superconductivity ,Condensed Matter - Disordered Systems and Neural Networks - Abstract
Noise and decoherence are major obstacles to the implementation of Josephson junction qubits in quantum computing. Recent experiments suggest that two level systems (TLS) in the oxide tunnel barrier are a source of decoherence. We explore two decoherence mechanisms in which these two level systems lead to the decay of Rabi oscillations that result when Josephson junction qubits are subjected to strong microwave driving. (A) We consider a Josephson qubit coupled resonantly to a two level system, i.e., the qubit and TLS have equal energy splittings. As a result of this resonant interaction, the occupation probability of the excited state of the qubit exhibits beating. Decoherence of the qubit results when the two level system decays from its excited state by emitting a phonon. (B) Fluctuations of the two level systems in the oxide barrier produce fluctuations and 1/f noise in the Josephson junction critical current I_o. This in turn leads to fluctuations in the qubit energy splitting that degrades the qubit coherence. We compare our results with experiments on Josephson junction phase qubits., Comment: 23 pages, Latex, 6 encapsulated postscript figures
- Published
- 2004
- Full Text
- View/download PDF
42. Why Study Noise due to Two Level Systems: A Suggestion for Experimentalists
- Author
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Yu, Clare C.
- Subjects
Condensed Matter - Disordered Systems and Neural Networks - Abstract
Noise is often considered to be a nuisance. Here we argue that it can be a useful probe of fluctuating two level systems in glasses. It can be used to: (1) shed light on whether the fluctuations are correlated or independent events; (2) determine if there is a low temperature glass or phase transition among interacting two level systems, and if the hierarchical or droplet model can be used to describe the glassy phase; and (3) find the lower bound of the two level system relaxation rate without going to ultralow temperatures. Finally we point out that understanding noise due to two level systems is important for technological applications such as quantum qubits that use Josephson junctions., Comment: 15 pages, 4 figures, Latex, to be published in J. Low Temp. Phys. issue in honor of S. Hunklinger
- Published
- 2004
- Full Text
- View/download PDF
43. Effect of Increasing Disorder on the Critical Behavior of a Coulomb System
- Author
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Overlin, Michael H., Wong, Lee A., and Yu, Clare C.
- Subjects
Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Statistical Mechanics - Abstract
We have performed a Monte Carlo study of a classical three dimensional Coulomb system in which we systematically increase the positional disorder. We start from a completely ordered system and gradually transition to a Coulomb glass. The phase transition as a function of temperature is second order for all values of disorder. We use finite size scaling to determine the transition temperature T_C and the critical exponent nu. We find that T_C decreases and that nu increases with increasing disorder. We also observe changes in the specific heat, the single particle density of states, and the staggered occupation as a function of disorder and temperature., Comment: 14 pages, Latex, 21 encapsulated postscript figures, to be published in Phys. Rev. B
- Published
- 2004
- Full Text
- View/download PDF
44. Filament-Filament Switching Can Be Regulated by Separation Between Filaments Together with Cargo Motor Number
- Author
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Erickson, Robert P, Gross, Steven P, Yu, Clare C, and Kabla, Alexandre J
- Subjects
Molecular Motors ,Myosin-V ,Actin ,Intersections ,Transport ,Proteins - Published
- 2013
45. Anomalous diffusion on random graphs
- Author
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Snider, Joseph and Yu, Clare C.
- Subjects
Condensed Matter - Soft Condensed Matter - Abstract
We show that anomalous diffusion can result when the steps of a random walk are not statistically independent. We present an algorithm that counts all the possible paths of particles diffusing on random graphs with arbitrary degree distribution. Using this to calculate the mean square displacement, we show that in sharp contrast to continua, random walks on random graphs can exhibit anomalous behavior and yet have well-defined and predictable properties., Comment: 4 pages, 6 figures
- Published
- 2002
46. Influence of the Potential Energy Landscape on the Equilibration and Specific Heat of Glass Forming Liquids
- Author
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Yu, Clare C. and Carruzzo, Herve M.
- Subjects
Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Statistical Mechanics - Abstract
We show that a glass transition, signaled by a peak in the specific heat vs. temperature, can occur because a glassy system that shows no signs of aging progresses so slowly through the energy landscape that the time needed to obtain an accurate estimate of the thermodynamic averages exceeds the observation time. We find that below the glass transition temperature of a three dimensional binary mixture of soft spheres, the specific heat increases with measurement time spans orders of magnitude longer than previously recognized equilibration times., Comment: 4 pages, Latex, 3 encapsulated postscript figures
- Published
- 2002
47. Structural Probe of a Glass Forming Liquid: Generalized Compressibility
- Author
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Carruzzo, Herve M. and Yu, Clare C.
- Subjects
Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Statistical Mechanics - Abstract
We introduce a new quantity to probe the glass transition. This quantity is a linear generalized compressibility which depends solely on the positions of the particles. We have performed a molecular dynamics simulation on a glass forming liquid consisting of a two component mixture of soft spheres in three dimensions. As the temperature is lowered (or as the density is increased), the generalized compressibility drops sharply at the glass transition, with the drop becoming more and more abrupt as the measurement time increases. At our longest measurement times, the drop occurs approximately at the mode coupling temperature $T_C$. The drop in the linear generalized compressibility occurs at the same temperature as the peak in the specific heat. By examining the inherent structure energy as a function of temperature, we find that our results are consistent with the kinetic view of the glass transition in which the system falls out of equilibrium. We find no size dependence and no evidence for a second order phase transition though this does not exclude the possibility of a phase transition below the observed glass transition temperature. We discuss the relation between the linear generalized compressibility and the ordinary isothermal compressibility as well as the static structure factor., Comment: 18 pages, Latex, 26 encapsulated postscript figures, revised paper is shorter, to appear in Phys. Rev. E
- Published
- 2001
- Full Text
- View/download PDF
48. 1/f Noise in Electron Glasses
- Author
-
Shtengel, Kirill and Yu, Clare C.
- Subjects
Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Strongly Correlated Electrons - Abstract
We show that 1/f noise is produced in a 3D electron glass by charge fluctuations due to electrons hopping between isolated sites and a percolating network at low temperatures. The low frequency noise spectrum goes as \omega^{-\alpha} with \alpha slightly larger than 1. This result together with the temperature dependence of \alpha and the noise amplitude are in good agreement with the recent experiments. These results hold true both with a flat, noninteracting density of states and with a density of states that includes Coulomb interactions. In the latter case, the density of states has a Coulomb gap that fills in with increasing temperature. For a large Coulomb gap width, this density of states gives a dc conductivity with a hopping exponent of approximately 0.75 which has been observed in recent experiments. For a small Coulomb gap width, the hopping exponent approximately 0.5., Comment: 8 pages, Latex, 6 encapsulated postscript figures, to be published in Phys. Rev. B
- Published
- 2001
- Full Text
- View/download PDF
49. Douglas Leon Mills
- Author
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Chernyshev, Aleksandr L, Maradudin, Alexei A, White, Steven R, and Yu, Clare
- Subjects
Mathematical Sciences ,Physical Sciences ,General Physics - Published
- 2012
50. Douglas Leon Mills Obituary
- Author
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Chernyshev, Aleksandr L, Maradudin, Alexei A, White, Steven R, and Yu, Clare
- Subjects
General Physics ,Mathematical Sciences ,Physical Sciences - Published
- 2012
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