keyword
https://read.qxmd.com/read/38493338/effective-multi-modal-clustering-method-via-skip-aggregation-network-for-parallel-scrna-seq-and-scatac-seq-data
#1
JOURNAL ARTICLE
Dayu Hu, Ke Liang, Zhibin Dong, Jun Wang, Yawei Zhao, Kunlun He
In recent years, there has been a growing trend in the realm of parallel clustering analysis for single-cell RNA-seq (scRNA) and single-cell Assay of Transposase Accessible Chromatin (scATAC) data. However, prevailing methods often treat these two data modalities as equals, neglecting the fact that the scRNA mode holds significantly richer information compared to the scATAC. This disregard hinders the model benefits from the insights derived from multiple modalities, compromising the overall clustering performance...
January 22, 2024: Briefings in Bioinformatics
https://read.qxmd.com/read/38493258/state-of-the-art-mobile-head-ct-scanner-delivers-nearly-the-same-image-quality-as-a-conventional-stationary-ct-scanner
#2
JOURNAL ARTICLE
Lukas Goertz, Yosef Al-Sewaidi, Mahmoud Habib, David Zopfs, Benjamin Reichardt, Alexander Ranft, Christoph Kabbasch
The use of mobile head CT scanners in the neurointensive care unit (NICU) saves time for patients and NICU staff and can reduce transport-related mishaps, but the reduced image quality of previous mobile scanners has prevented their widespread clinical use. This study compares the image quality of SOMATOM On.Site (Siemens Healthineers, Erlangen, Germany), a state-of-the-art mobile head CT scanner, and a conventional 64-slice stationary CT scanner. The study included 40 patients who underwent head scans with both mobile and stationary scanners...
March 16, 2024: Scientific Reports
https://read.qxmd.com/read/38493227/a-robust-ultrasensitive-transcriptional-switch-in-noisy-cellular-environments
#3
JOURNAL ARTICLE
Eui Min Jeong, Jae Kyoung Kim
Ultrasensitive transcriptional switches enable sharp transitions between transcriptional on and off states and are essential for cells to respond to environmental cues with high fidelity. However, conventional switches, which rely on direct repressor-DNA binding, are extremely noise-sensitive, leading to unintended changes in gene expression. Here, through model simulations and analysis, we discovered that an alternative design combining three indirect transcriptional repression mechanisms, sequestration, blocking, and displacement, can generate a noise-resilient ultrasensitive switch...
March 16, 2024: NPJ Systems Biology and Applications
https://read.qxmd.com/read/38493174/animal-borne-soundscape-logger-as-a-system-for-edge-classification-of-sound-sources-and-data-transmission-for-monitoring-near-real-time-underwater-soundscape
#4
JOURNAL ARTICLE
Takuji Noda, Takuya Koizumi, Naoto Yukitake, Daisuke Yamamoto, Tetsuro Nakaizumi, Kotaro Tanaka, Junichi Okuyama, Kotaro Ichikawa, Takeshi Hara
The underwater environment is filled with various sounds, with its soundscape composed of biological, geographical, and anthropological sounds. Our work focused on developing a novel method to observe and classify these sounds, enriching our understanding of the underwater ecosystem. We constructed a biologging system allowing near-real-time observation of underwater soundscapes. Utilizing deep-learning-based edge processing, this system classifies the sources of sounds, and upon the tagged animal surfacing, it transmits positional data, results of sound source classification, and sensor readings such as depth and temperature...
March 16, 2024: Scientific Reports
https://read.qxmd.com/read/38492787/diffgan-an-adversarial-diffusion-model-with-local-transformer-for-mri-reconstruction
#5
JOURNAL ARTICLE
Xiang Zhao, Tiejun Yang, Bingjie Li, Aolin Yang, Yanghui Yan, Chunxia Jiao
Magnetic resonance imaging (MRI) is non-invasive and crucial for clinical diagnosis, but it has long acquisition time and aliasing artifacts. Accelerated imaging techniques can effectively reduce the scanning time of MRI, thereby decreasing the anxiety and discomfort of patients. Vision Transformer (ViT) based methods have greatly improved MRI image reconstruction, but their computational complexity and memory requirements for the self-attention mechanism grow quadratically with image resolution, which limits their use for high resolution images...
March 14, 2024: Magnetic Resonance Imaging
https://read.qxmd.com/read/38492568/sound-elicits-stereotyped-facial-movements-that-provide-a-sensitive-index-of-hearing-abilities-in-mice
#6
JOURNAL ARTICLE
Kameron K Clayton, Kamryn S Stecyk, Anna A Guo, Anna R Chambers, Ke Chen, Kenneth E Hancock, Daniel B Polley
Sound elicits rapid movements of muscles in the face, ears, and eyes that protect the body from injury and trigger brain-wide internal state changes. Here, we performed quantitative facial videography from mice resting atop a piezoelectric force plate and observed that broadband sounds elicited rapid and stereotyped facial twitches. Facial motion energy (FME) adjacent to the whisker array was 30 dB more sensitive than the acoustic startle reflex and offered greater inter-trial and inter-animal reliability than sound-evoked pupil dilations or movement of other facial and body regions...
March 6, 2024: Current Biology: CB
https://read.qxmd.com/read/38492498/the-abc-of-mobility
#7
JOURNAL ARTICLE
Rafael Prieto-Curiel, Juan P Ospina
The use of cars in cities has many negative impacts, including pollution, noise and the use of space. Yet, detecting factors that reduce the use of cars is a serious challenge, particularly across different regions. Here, we model the use of various modes of transport in a city by aggregating Active mobility (A), Public Transport (B) and Cars (C), expressing the modal share of a city by its ABC triplet. Data for nearly 800 cities across 61 countries is used to model car use and its relationship with city size and income...
March 2, 2024: Environment International
https://read.qxmd.com/read/38492447/noise-sensitivity-or-hyperacusis-comparing-the-weinstein-and-khalfa-questionnaires-in-a-community-and-a-clinical-samples
#8
REVIEW
Charlotte Bigras, Sarah M Theodoroff, Emily J Thielman, Sylvie Hébert
Noise sensitivity and hyperacusis are decreased sound tolerance conditions that are not well delineated or defined. This paper presents the correlations and distributions of the Noise Sensitivity Scale (NSS) and the Hyperacusis Questionnaire (HQ) scores in two distinct large samples. In Study 1, a community-based sample of young healthy adults (n = 103) exhibited a strong correlation (r = 0.74) between the two questionnaires. The mean NSS and HQ scores were 54.4 ± 16.9 and 12.5 ± 7.5, respectively...
March 8, 2024: Hearing Research
https://read.qxmd.com/read/38492346/a-generic-optimization-based-enhancement-method-for-trajectory-data-two-plus-one
#9
JOURNAL ARTICLE
Feng Zhu, Cheng Chang, Zhiheng Li, Boqi Li, Li Li
Trajectory data play a vital role in the field of traffic research such as vehicle safety, traffic flow, and intelligent vehicles. The quality of trajectory data will determine the safety effectiveness of both research and practical applications. Effectively filtering out noise and errors from trajectory data is crucial for improving data quality and further research. However, most enhancement methods only focus on the smoothness of trajectory but overlook abrupt changes. The processed trajectory still exist issues such as incomplete elimination of inconsistency and loss of driving characteristics...
March 15, 2024: Accident; Analysis and Prevention
https://read.qxmd.com/read/38491980/accurate-temperature-reconstruction-in-radiofrequency-ablation-for-atherosclerotic-plaques-based-on-inverse-heat-transfer-analysis
#10
JOURNAL ARTICLE
Shuang Shu, Guoliang Yang, Hengxin Han, Taijie Zhan, Hangyu Dang, Yi Xu
Radiofrequency ablation has emerged as a widely accepted treatment for atherosclerotic plaques. However, monitoring the temperature field distribution in the blood vessel wall during this procedure presents challenges. This limitation increases the risk of endothelial cell damage and inflammatory responses, potentially leading to lumen restenosis. The aim of this study is to accurately reconstruct the transient temperature distribution by solving a stochastic heat transfer model with uncertain parameters using an inverse heat transfer algorithm and temperature measurement data...
March 16, 2024: Journal of Biomechanical Engineering
https://read.qxmd.com/read/38491754/deep-learning-based-super-resolution-for-accelerating-chemical-exchange-saturation-transfer-mri
#11
JOURNAL ARTICLE
Rohith Saai Pemmasani Prabakaran, Se Weon Park, Joseph H C Lai, Kexin Wang, Jiadi Xu, Zilin Chen, Abdul-Mojeed Olabisi Ilyas, Huabing Liu, Jianpan Huang, Kannie W Y Chan
Chemical exchange saturation transfer (CEST) MRI is a molecular imaging tool that provides physiological information about tissues, making it an invaluable tool for disease diagnosis and guided treatment. Its clinical application requires the acquisition of high-resolution images capable of accurately identifying subtle regional changes in vivo, while simultaneously maintaining a high level of spectral resolution. However, the acquisition of such high-resolution images is time consuming, presenting a challenge for practical implementation in clinical settings...
March 15, 2024: NMR in Biomedicine
https://read.qxmd.com/read/38491707/barkhausen-noise-in-disordered-striplike-ferromagnets-experiment-versus-simulations
#12
JOURNAL ARTICLE
Djordje Spasojević, Miloš Marinković, Dragutin Jovković, Sanja Janićević, Lasse Laurson, Antonije Djordjević
In this work, we present a systematic comparison of the results obtained from the low-frequency Barkhausen noise recordings in nanocrystalline samples with those from the numerical simulations of the random-field Ising model systems. We performed measurements at room temperature on a field-driven metallic glass stripe made of VITROPERM 800 R, a nanocrystalline iron-based material with an excellent combination of soft and magnetic properties, making it a cutting-edge material for a wide range of applications...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491692/near-critical-behavior-of-the-zhong-zhang-model
#13
JOURNAL ARTICLE
J H Lowenstein
The Zhong-Zhang (ZZ) model is a one-degree-of-freedom dynamical system describing the motion of an insulating plate of length d floating on the upper surface of a convecting fluid, with locking at the boundaries. In the absence of noise, the system away from the boundaries is described by linear differential equations with a delay time τ. The d,τ plane consists of two domains separated by a critical curve. For asymptotically long times, subcritical orbits approach a nontrivial periodic attractor, while the supercritical ones tend to a stationary state at the origin...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491679/coalescence-of-limit-cycles-in-the-presence-of-noise
#14
JOURNAL ARTICLE
Sergei Shmakov, Peter B Littlewood
Complex dynamical systems may exhibit multiple steady states, including time-periodic limit cycles, where the final trajectory depends on initial conditions. With tuning of parameters, limit cycles can proliferate or merge at an exceptional point. Here we ask how dynamics in the vicinity of such a bifurcation are influenced by noise. A pitchfork bifurcation can be used to induce bifurcation behavior. We model a limit cycle with the normal form of the Hopf oscillator, couple it to the pitchfork, and investigate the resulting dynamical system in the presence of noise...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491669/collective-self-optimization-of-binary-mixed-heterogeneous-populations
#15
JOURNAL ARTICLE
Zhao-Sha Tang, Jia-Jian Li, Wei-Jing Zhu, Bao-Quan Ai
To maximize the survival chances of society members, collective self-organization must balance individual interests with promoting the collective welfare. Although situations where group members have equal optimal values are clear, how varying optimal values impacts group dynamics remains unclear. To address this gap, we conducted a self-optimization study of a binary system incorporating communication-enabled active particles with distinct optimal values. We demonstrate that similar particles will spontaneously aggregate and separate from each other to maximize their individual benefits during the process of self-optimization...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491665/brownian-motion-of-droplets-induced-by-thermal-noise
#16
JOURNAL ARTICLE
Haodong Zhang, Fei Wang, Lorenz Ratke, Britta Nestler
Brownian motion (BM) is pivotal in natural science for the stochastic motion of microscopic droplets. In this study, we investigate BM driven by thermal composition noise at submicro scales, where intermolecular diffusion and surface tension both are significant. To address BM of microscopic droplets, we develop two stochastic multiphase-field models coupled with the full Navier-Stokes equation, namely, Allen-Cahn-Navier-Stokes and Cahn-Hilliard-Navier-Stokes. Both models are validated against capillary-wave theory; the Einstein's relation for the Brownian coefficient D^{*}∼k_{B}T/r at thermodynamic equilibrium is recovered...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491664/linear-and-nonlinear-integrate-and-fire-neurons-driven-by-synaptic-shot-noise-with-reversal-potentials
#17
JOURNAL ARTICLE
Magnus J E Richardson
The steady-state firing rate and firing-rate response of the leaky and exponential integrate-and-fire models receiving synaptic shot noise with excitatory and inhibitory reversal potentials is examined. For the particular case where the underlying synaptic conductances are exponentially distributed, it is shown that the master equation for a population of such model neurons can be reduced from an integrodifferential form to a more tractable set of three differential equations. The system is nevertheless more challenging analytically than for current-based synapses: where possible, analytical results are provided with an efficient numerical scheme and code provided for other quantities...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491662/approximate-master-equations%C3%A2-for-the-spatial-public-goods-game
#18
JOURNAL ARTICLE
Yu Takiguchi, Koji Nemoto
The spatial public goods game has been used to examine factors that promote cooperation. Owing to the complexity of the dynamics of this game, previous studies on this model neglected analytical approaches and relied entirely on numerical calculations using the Monte Carlo (MC) simulations. In this paper, we present the approximate master equations (AMEs) for this model. We report that the results obtained by the AMEs are mostly qualitatively consistent with those obtained by the MC simulations. Furthermore, we show that it is possible to obtain phase boundaries analytically in certain parameter regions...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491648/how-do-cicadas-emerge-together-thermophysical-aspects-of-their-collective-decision-making
#19
JOURNAL ARTICLE
Raymond E Goldstein, Robert L Jack, Adriana I Pesci
Periodical cicadas exhibit life cycles with durations of 13 or 17 years, and it is now accepted that large prime cycles arose to avoid synchrony with predators. Less well explored is how, in the face of intrinsic biological and environmental noise, insects within a brood emerge together in large successive swarms from underground during springtime warming. Here, we consider the decision-making process of underground cicadas experiencing random, spatially correlated thermal microclimates such as those in nature...
February 2024: Physical Review. E
https://read.qxmd.com/read/38491635/path-integration-method-for-stochastic-responses-of-differential-equations-under-l%C3%A3-vy-white-noise
#20
JOURNAL ARTICLE
Jiahui Peng, Liang Wang, Bochen Wang, Wei Xu
A path integration (PI) approach that is progressive for studying the stochastic response driven by Lévy white noise is presented. First, a probability mapping is constructed, which decouples the domain of interest for the system state and the probability space derived from the randomness of Lévy white noise within a short time interval. Then, solving the probability mapping yields the short-time response of the system. Finally, the stochastic evolution of the system can be grasped in a stepwise manner based on the fundamental concept of the PI method...
February 2024: Physical Review. E
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