Tong Ye
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View article: A fully open structure-guided RNA foundation model for robust structural and functional inference
A fully open structure-guided RNA foundation model for robust structural and functional inference Open
RNA language models have achieved strong performances across diverse downstream tasks by leveraging large-scale sequence data. However, RNA function is fundamentally shaped by its hierarchical structure, making the integration of structura…
View article: Metagenomic analysis of vitamins B and K2 biosynthesis in chicken gut microbiota across laying periods
Metagenomic analysis of vitamins B and K2 biosynthesis in chicken gut microbiota across laying periods Open
View article: Analysis of key parameters influencing performance for assembled aluminum alloy buckling-restrained braces
Analysis of key parameters influencing performance for assembled aluminum alloy buckling-restrained braces Open
View article: A fully-open structure-guided RNA foundation model for robust structural and functional inference
A fully-open structure-guided RNA foundation model for robust structural and functional inference Open
RNA language models have achieved strong performances across diverse down-stream tasks by leveraging large-scale sequence data. However, RNA function is fundamentally shaped by its hierarchical structure, making the integration of structur…
View article: Hybrid Laser Cleaning of Carbon Deposits on N52B30 Engine Piston Crowns: Multi-Objective Optimization via Response Surface Methodology
Hybrid Laser Cleaning of Carbon Deposits on N52B30 Engine Piston Crowns: Multi-Objective Optimization via Response Surface Methodology Open
Carbon deposits on the crown of engine pistons can markedly reduce combustion efficiency and shorten service life. Conventional cleaning techniques often fail to simultaneously ensure a high carbon removal efficiency and maintain optimal s…
View article: PIEZO2 is the underlying mediator for precise magnetic stimulation of PVN to improve autism-like behavior in mice
PIEZO2 is the underlying mediator for precise magnetic stimulation of PVN to improve autism-like behavior in mice Open
View article: Mitochondrial Genome-Based Phylogeny of Turbellarians and Evidence for Accelerated Mitochondrial Evolution in Symbiotic Species
Mitochondrial Genome-Based Phylogeny of Turbellarians and Evidence for Accelerated Mitochondrial Evolution in Symbiotic Species Open
Background Flatworms are a highly diverse phylum with over 26,500 predominantly parasitic species. A minor portion of this diversity comprise predominantly free-living “turbellarians” Phylogenetic relationships within turbellarian orders r…
View article: Ultrasound-Assisted Immunoregulation: A Rising Star in Antibiofilm Therapeutics
Ultrasound-Assisted Immunoregulation: A Rising Star in Antibiofilm Therapeutics Open
View article: The evolution of mitogenomic architecture in Bilateria
The evolution of mitogenomic architecture in Bilateria Open
We used a dataset comprising over ten thousand bilaterian mitogenomes to address multiple open questions regarding the evolution of mitogenomic architecture. Double-stranded architecture is the most likely ancestral state for all major rad…
View article: Characterization of the Biological Effect Mediated by Mycobacterial Kinase PknG on Protein Phosphorylation and Acetylation
Characterization of the Biological Effect Mediated by Mycobacterial Kinase PknG on Protein Phosphorylation and Acetylation Open
Tuberculosis (TB) remains a significant global public health challenge, with post-translational modifications (PTMs) in mycobacteria being integral to physiological processes, pathogenesis, and drug resistance mechanisms. Protein kinase G …
View article: Investigating the profile of patients with idiopathic inflammatory myopathies in the post-COVID-19 period
Investigating the profile of patients with idiopathic inflammatory myopathies in the post-COVID-19 period Open
The 2019 coronavirus disease (COVID-19) pandemic has changed the characteristics of many diseases. It remains unclear whether idiopathic inflammatory myopathies (IIMs) exhibit distinct phenotypes in the context of COVID-19. This retrospect…
View article: Promoting cytidine biosynthesis by modulating pyrimidine metabolism and carbon metabolic regulatory networks in Bacillus subtilis
Promoting cytidine biosynthesis by modulating pyrimidine metabolism and carbon metabolic regulatory networks in Bacillus subtilis Open
These results indicate that PyrR knockdown can enhance pyrimidine metabolic pathway and promote cytidine synthesis. CcpA mutation can reprogram the central carbon-nitrogen metabolic network, change the metabolic flow to de novo synthesis p…
View article: 63MO Rechallenge of anlotinib in patients with advanced soft tissue sarcoma after progression on prior anlotinib treatment: A multicenter retrospective study
63MO Rechallenge of anlotinib in patients with advanced soft tissue sarcoma after progression on prior anlotinib treatment: A multicenter retrospective study Open
View article: LLM4EFFI: Leveraging Large Language Models to Enhance Code Efficiency and Correctness
LLM4EFFI: Leveraging Large Language Models to Enhance Code Efficiency and Correctness Open
Large Language Models (LLMs), particularly Code LLMs, have demonstrated impressive performance in code generation. Current research primarily focuses on the correctness of generated code, while efficiency remains less explored. Recent work…
View article: Increased distribution of carbon metabolic flux during de novo cytidine biosynthesis via attenuation of the acetic acid metabolism pathway in Escherichia coli
Increased distribution of carbon metabolic flux during de novo cytidine biosynthesis via attenuation of the acetic acid metabolism pathway in Escherichia coli Open
Acetic acid, a by-product of cytidine synthesis, competes for carbon flux from central metabolism, which may be directed either to the tricarboxylic acid (TCA) cycle for cytidine synthesis or to overflow metabolites, such as acetic acid. I…
View article: A novel dual fixation method for improving the reliable assessment of pulmonary vascular morphology in pulmonary hypertension rats
A novel dual fixation method for improving the reliable assessment of pulmonary vascular morphology in pulmonary hypertension rats Open
View article: Phasor-FSTM: a new paradigm for multicolor super-resolution imaging of living cells based on fluorescence modulation and lifetime multiplexing
Phasor-FSTM: a new paradigm for multicolor super-resolution imaging of living cells based on fluorescence modulation and lifetime multiplexing Open
View article: Data Assetization and High-Quality Corporate Development——An Empirical Analysis Based on Total Factor Productivity
Data Assetization and High-Quality Corporate Development——An Empirical Analysis Based on Total Factor Productivity Open
View article: Evaluating the Impact of Landscape Patterns and Climate Change on Runoff in the Beijing Section of the North Canal Using a Comprehensive Runoff Prediction Framework Under Shrinkage Development Goals
Evaluating the Impact of Landscape Patterns and Climate Change on Runoff in the Beijing Section of the North Canal Using a Comprehensive Runoff Prediction Framework Under Shrinkage Development Goals Open
View article: An Acoustofluidic Device for Sample Preparation and Detection of Small Extracellular Vesicles
An Acoustofluidic Device for Sample Preparation and Detection of Small Extracellular Vesicles Open
Small extracellular vesicles (sEVs) have emerged as powerful vectors for liquid biopsy, offering a noninvasive window into the dynamic physiological and pathological states of the body. However, to fully leverage the clinical potential of …
View article: Characterization of acidic lysine acylations in mycobacteria
Characterization of acidic lysine acylations in mycobacteria Open
Introduction Protein acetylation is an extensively investigated post-translational modification (PTM). In addition to lysine acetylation, three new types of lysine acylations characterized by the presence of an acidic carboxylic group have…
View article: Increased distribution of carbon metabolic flux during de novo cytidine biosynthesis via attenuation of the acetic acid metabolism pathway in Escherichia coli
Increased distribution of carbon metabolic flux during de novo cytidine biosynthesis via attenuation of the acetic acid metabolism pathway in Escherichia coli Open
Acetic acid, a by-product of cytidine synthesis, competes for carbon flux from central metabolism, which may be directed either to the tricarboxylic acid (TCA) cycle for cytidine synthesis or to overflow metabolites, such as acetic acid. I…
View article: Evaluating spatiotemporal variations and exposure risk of ground-level ozone concentrations across China from 2000 to 2020 using satellite-derived high-resolution data
Evaluating spatiotemporal variations and exposure risk of ground-level ozone concentrations across China from 2000 to 2020 using satellite-derived high-resolution data Open
Understanding the spatiotemporal characteristics of long- and short-term exposure to ground ozone is crucial for improving environmental management and health studies. However, such studies have been constrained by the availability of high…
View article: Supplementary material to "Evaluating spatiotemporal variations and exposure risk of ground-level ozone concentrations across China from 2000 to 2020 using satellite-derived high-resolution data"
Supplementary material to "Evaluating spatiotemporal variations and exposure risk of ground-level ozone concentrations across China from 2000 to 2020 using satellite-derived high-resolution data" Open
View article: Effect of cigarette smoke exposure and cessation on regional diffusion properties in rat intervertebral discs
Effect of cigarette smoke exposure and cessation on regional diffusion properties in rat intervertebral discs Open
Background Cigarette smoking is a recognized risk factor for orthopedic disorders, particularly intervertebral disc (IVD) degenerative disease. However, the IVD pathophysiology, especially the spatial–temporal remodeling progression in the…
View article: Investigating the Profile of Patients with Idiopathic Inflammatory Myopathies in the Post-COVID-19 Period: Emphasizing Myocardial Injury
Investigating the Profile of Patients with Idiopathic Inflammatory Myopathies in the Post-COVID-19 Period: Emphasizing Myocardial Injury Open
Introduction: The 2019 coronavirus disease (COVID-19) pandemic has changed the characteristics of many diseases. It remains unclear whether idiopathic inflammatory myopathies (IIMs) exhibit distinct phenotypes in the context of COVID-19. M…
View article: Activating Wnt1/β-Catenin signaling pathway to restore Otx2 expression in the dopaminergic neurons of ventral midbrain
Activating Wnt1/β-Catenin signaling pathway to restore Otx2 expression in the dopaminergic neurons of ventral midbrain Open
Parkinson’s disease (PD) is the world’s second most prevalent neurodegenerative disease. Currently, aside from levodopa, there are no other effective drugs clinically available to slow its progression. Otx2 plays a critical role in the dif…
View article: Complete mitochondrial genome and phylogenetic analysis of Dollfustrema vaneyi (Trematoda: Bucephalidae)
Complete mitochondrial genome and phylogenetic analysis of Dollfustrema vaneyi (Trematoda: Bucephalidae) Open
View article: The Phylogeny and the Evolution of Parasitic Strategies in Trematoda
The Phylogeny and the Evolution of Parasitic Strategies in Trematoda Open
View article: The Phylogeny and the Evolution of Parasitic Strategies in Trematoda
The Phylogeny and the Evolution of Parasitic Strategies in Trematoda Open
Trematodes are obligatory parasites that generally must transmit between hosts to complete their life cycle. They parasitize varying numbers of intermediate hosts (0, 1 or 2), but the evolutionary history of these strategies and the ancest…