A5012587136- Advanced Thermodynamics and Statistical Mechanics
- Gene Regulatory Network Analysis
- stochastic dynamics and bifurcation
- Statistical Mechanics and Entropy
- Stochastic processes and statistical mechanics
- Evolution and Genetic Dynamics
- Renal Diseases and Glomerulopathies
- Model Reduction and Neural Networks
- Markov Chains and Monte Carlo Methods
- Computational Drug Discovery Methods
- Theoretical and Computational Physics
- Chemistry and Stereochemistry Studies
- Receptor Mechanisms and Signaling
- Protein Structure and Dynamics
- Spectroscopy and Quantum Chemical Studies
- Muscle Physiology and Disorders
- Pulmonary Hypertension Research and Treatments
- Circular RNAs in diseases
- Cell death mechanisms and regulation
- T-cell and B-cell Immunology
- Quantum many-body systems
- Pain Mechanisms and Treatments
- Neurotransmitter Receptor Influence on Behavior
- Mitochondrial Function and Pathology
- Cellular Mechanics and Interactions
University of Electronic Science and Technology of China
2024-2025
Beijing Normal University
2022-2024
Sun Yat-sen University
2012-2024
Zhongda Hospital Southeast University
2024
University of South China
2024
Huashan Hospital
2023
Fudan University
2023
Shenzhen Third People’s Hospital
2023
Shenzhen University
2023
Shantou University
2023
Estimating free energy is a fundamental problem in statistical mechanics. Recently, machine-learning-based methods, particularly the variational autoregressive networks (VANs) have been proposed to minimize and approximate Boltzmann distribution. VAN enjoys notable advantages, including exact computation of normalized joint distribution fast sampling, which are critical features often missing Markov chain Monte Carlo algorithms. However, also faces significant computational challenges. These...
Abstract Pulmonary inflammation, which is characterized by the presence of perivascular macrophages, has been proposed as a key pathogenic driver pulmonary hypertension (PH), vascular disease with increasing global significance. However, mechanisms expansion lung macrophages and role blood-borne monocytes in PH are poorly understood. Using multicolor flow cytometric analysis blood mouse rat models patients PH, an increase was observed. In parallel, tissue displayed increased chemokine...
Abstract Nonequilibrium statistical mechanics exhibit a variety of complex phenomena far from equilibrium. It inherits challenges equilibrium, including accurately describing the joint distribution large number configurations, and also poses new as evolves over time. Characterizing dynamical phase transitions an emergent behavior further requires tracking nonequilibrium systems under control parameter. While methods have been proposed, such tensor networks for one-dimensional lattices, we...
Abstract Organizing single cells along a developmental trajectory has emerged as powerful tool for understanding how gene regulation governs cell fate decisions. However, learning the structure of complex single-cell trajectories with two or more branches remains challenging computational problem. We present Monocle 2, which uses reversed graph embedding to reconstruct in fully unsupervised manner. 2 learns an explicit principal describe data, greatly improving robustness and accuracy its...
The dynamic regulation of endothelial pathophenotypes in pulmonary hypertension (PH) remains undefined. Cellular senescence is linked to PH with intracardiac shunts; however, its across subtypes unknown. Since deficiency iron-sulfur (Fe-S) clusters pathogenic PH, we hypothesized that a Fe-S biogenesis protein, frataxin (FXN), controls senescence. An subpopulation rodent and patient lungs exhibited reduced FXN elevated In vitro, hypoxic inflammatory abrogated activity Fe-S-containing...
Abstract Networks in nature have complex interactions among agents. One significant phenomenon induced by is synchronization of coupled agents, and the interactive network topology can be tuned to optimize synchronization. Previous studies showed that optimized conventional with pairwise favors a homogeneous degree distribution nodes for undirected interactions, always structurally asymmetric directed interactions. However, optimal control on prevailing higher-order less explored. Here,...
Abstract Duchenne muscular dystrophy (DMD) is a degenerative muscle disorder characterized by the lack of dystrophin expression at sarcolemma fibers. In addition, DMD patients acquire osteopenia, fragility fractures, and scoliosis indicating that deficiency in skeletal homeostasis coexists but little known about effects on bone other connective tissues within musculoskeletal system. Recent evidence has emerged implicating adult stem cell dysfunction myopathogenesis. Given common mesenchymal...
Abstract Combinatorial optimization problems and ground state of spin glasses are crucial in various fields science technology. However, they often belong to the computational class NP-hard, presenting significant challenges. Traditional algorithms inspired by statistical physics like simulated annealing(SA) have been widely adopted. Recently, advancements Ising machines, such as Quantum Annealers (QA) Coherent Machines (CIM), offer new paradigms for solving these efficiently embedding them...
Abstract Cellular responses to environmental changes are encoded in the complex temporal patterns of signaling proteins. However, quantifying accumulation information over time direct cellular decision-making remains an unsolved challenge. This is, part, due combinatorial explosion possible configurations that need be evaluated for time-course measurements. Here, we develop a quantitative framework, based on inferred trajectory probabilities, calculate mutual dynamics while accounting...
The serum immunoglobulin A (IgA)/C3 ratio has been shown to be a good predictor of histological lesions and prognosis for patients with IgA nephropathy (IgAN) in Japanese. But its validity the Chinese population is unclear. We sought explore long-term outcomes IgAN, clinical histopathological predictors patients. In particular, role IgA/C3 course IgAN was addressed.A total 217 biopsy-diagnosed were recruited into this prospective cohort mean follow-up 36 months (25-75th percentile, 27-48)....
Quantifying stochastic processes is essential to understand many natural phenomena, particularly in biology, including the cell-fate decision developmental as well genesis and progression of cancers. While various attempts have been made construct potential landscape high dimensional systems estimate transition rates, they are practically limited cases where either noise small or detailed balance condition holds. A general practical approach investigate real-world nonequilibrium systems,...
Abstract Noise is usually regarded as adversarial to extracting effective dynamics from time series, such that conventional approaches aim at learning by mitigating the noisy effect. However, noise can have a functional role in driving transitions between stable states underlying many stochastic dynamics. We find leveraging machine model, reservoir computing, learn noise-induced transitions. propose concise training protocol with focus on pivotal hyperparameter controlling scale. The...
Dynamical behaviors of the competitive Lotka-Volterra system even for 3 species are not fully understood. In this paper, we study problem from perspective Lyapunov function. We construct explicitly function using three examples whole state space: (1) general 2-species case, (2) a 3-species model, and (3) model May-Leonard. The basins attraction these demonstrated, including cases with bistability cyclical behavior. first two generalized gradient system, where energy dissipation may follow...
We demonstrate that previous path integral formulations for the general stochastic interpretation generate incomplete results exemplified by geometric Brownian motion. thus develop a novel formulation overdamped Langevin equation with multiplicative noise. The present leads to corresponding Fokker-Planck equation, and naturally generates normalized transition probability in examples. Our result solves inconsistency of interpretation, can have wide applications chemical physical processes.
A network dependency platform was generated to define a landscape of cancer drug mechanisms in pulmonary hypertension.
Background: Podocyte injury plays an important role in glomerulosclerosis IgA nephropathy (IgAN). Eepithelial-to-mesenchymal transition (EMT) caused by different factors is the main reason for podocyte damage. This study hypothesized that conditioned mesangial medium may induced EMT process of podocytes and thereby lead to glomerular or sclerosis. Materials Methods: Podocytes were incubated from cells with aggregated IgA1(aIgA1) isolated IgAN patients. Wortmannin used inhibit...
Interfaces between materials and cells play a critical role in cell biomedical applications. Here, simple, robust, cost-effective method is developed to fabricate patterned thermoresponsive poly(N-isopropylacrylamide-co-styrene) microgel strips on polyethyleneimine-precoated, non-thermoresponsive cell-adherent glass coverslip. The aim investigate whether sheets could be harvested from these surfaces with comprised of the microgels. We hypothesize that if cell-to-cell interaction strong...