A5041872254- Advanced Proteomics Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Mass Spectrometry Techniques and Applications
- Genomics and Phylogenetic Studies
- Machine Learning in Bioinformatics
- Bioinformatics and Genomic Networks
- Gene expression and cancer classification
- Glycosylation and Glycoproteins Research
- Microbial Metabolic Engineering and Bioproduction
- Cancer, Lipids, and Metabolism
- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- Video Surveillance and Tracking Methods
- Lipoproteins and Cardiovascular Health
- Cholesterol and Lipid Metabolism
- Cancer, Hypoxia, and Metabolism
- Endoplasmic Reticulum Stress and Disease
- vaccines and immunoinformatics approaches
- Mathematical Dynamics and Fractals
- Biomedical Text Mining and Ontologies
- Radiomics and Machine Learning in Medical Imaging
- Peptidase Inhibition and Analysis
- Angiogenesis and VEGF in Cancer
- Advanced Topology and Set Theory
- Congenital heart defects research
Beijing Proteome Research Center
2016-2025
China Medical University
2020-2025
Qilu Hospital of Shandong University
2025
Hefei CAS Ion Medical and Technical Devices (China)
2025
Monash University Malaysia
2025
University of Washington
2024-2025
Henan Normal University
2025
Tsinghua–Berkeley Shenzhen Institute
2024
Southwest Jiaotong University
2024
Tsinghua University
2024
The mechanistic target of rapamycin (mTOR) signaling pathway plays a major role in key cellular processes including metabolism and differentiation; however, the mTOR microglia its importance Alzheimer9s disease (AD) have remained largely uncharacterized. We report that selective loss <i>Tsc1</i>, negative regulator mTOR, mice both sexes, caused activation upregulation Trem2 with enhanced β-Amyloid (Aβ) clearance, reduced spine loss, improved cognitive function <i>5XFAD</i> AD mouse model....
Abstract De novo peptide sequencing is a promising approach for novel discovery, highlighting the performance improvements state-of-the-art models. The quality of mass spectra often varies due to unexpected missing certain ions, presenting significant challenge in de sequencing. Here, we use concept complementary enhance ion information experimental spectrum and demonstrate it through conceptual practical analyses. Afterward, design suitable encoders encode corresponding propose model...
Abstract Oxidative stress-induced lipid accumulation is mediated by droplets (LDs) homeostasis, which sequester vulnerable unsaturated triglycerides into LDs to prevent further peroxidation. Here we identify the upregulation of lipopolysaccharide-binding protein (LBP) and its trafficking through as a mechanism for modulating LD homeostasis in response oxidative stress. Our results suggest that LBP induces controlling lipid-redox lipid-capture activity, sorting LDs. N-acetyl-L-cysteine...
A new particle filter-the Kernel Particle Filter (KPF)-is proposed for visual tracking in image sequences. The KPF invokes kernels to form a continuous estimate of the posterior density function. Particles are allocated based on gradient information estimated from kernel posterior. Results simulations and experiments with real video data show improved performance algorithm when compared that standard filter. superior is evident scenarios small system noise or weak dynamic models where filter...
Tumor-associated macrophages (TAMs) are major components of the tumor microenvironment. Although a role for TAMs in promoting progression has been revealed, differentiation mechanisms and intrinsic signals regulated by microenvironment remain unclear. Here we constructed an vitro cell model, TES-TAMs, which is from tumor-extract-stimulated bone-marrow-derived macrophages. We performed comparative proteomics analysis indicated that TES-TAMs possessed characteristic molecular expression TAMs....
The current in-depth proteomics makes use of long chromatography gradient to get access more peptides for protein identification, resulting in covering as many 8000 mammalian gene products 3 days mass spectrometer running time. Here we report a fast sequencing (Fast-seq) workflow the dual reverse phase high performance liquid - spectrometry (HPLC-MS) with short achieve same proteome coverage 0.5 day. We adapted this quantitative version (Fast quantification, Fast-quan) that was compatible...
Serum and plasma contain abundant biological information that reflect the body's physiological pathological conditions are therefore a valuable sample type for disease biomarkers. However, comprehensive profiling of serological proteome is challenging due to wide range protein concentrations in serum. Methods: To address this challenge, we developed novel in-depth serum proteomics platform capable analyzing across ~10 orders or magnitude by combining data obtained from Data Independent...
This study investigates the probabilistic constitutive model of corroded structural steel based on stochastic characteristics corrosion pits extracted from real surfaces. Accelerated tests are conducted plate specimens in general atmosphere and offshore atmosphere, pit like depth, aspect ratio, shape, density, studied through surface morphology scanning. The depths ratios follow logarithmic normal distribution, with greater variability dimensions exhibited atmosphere. A simulation method a...
Abstract Background Bladder cancer (BCa) ranks among the predominant malignancies affecting urinary system. Cisplatin (CDDP) remains a cornerstone therapeutic agent for BCa management. Recent insights suggest pivotal roles of circular RNA (circRNA) and N 6 -methyladenosine (m6A) in modulating CDDP resistance BCa, emphasizing importance elucidating these pathways to optimize cisplatin-based treatments. Methods Comprehensive bioinformatics assessments were undertaken discern circ_104797...
Exosomes are secreted small vesicles that mediate various biological processes, such as tumorigenesis and immune response. However, whether the inflammasome signaling leads to change of constituent exosomes its roles in response remains be determined. We isolated from macrophages with treatment mock, endotoxin, or endotoxin/nigericin. A label-free quantification method by MS/MS was used identify components exosomes. In total, 2331 proteins were identified 513 exclusively detected endotoxin...
Hepatocellular carcinoma (HCC) takes the predominant malignancy of hepatocytes with bleak outcomes owing to high heterogeneity among patients. Personalized treatments based on molecular profiles will better improve patients’ prognosis. Lysozyme (LYZ), a secretory protein antibacterial function generally expressed in monocytes/macrophages, has been observed for prognostic implications different types tumors. However, studies about explicit applicative scenarios and mechanisms tumor...
Retention time (RT) alignment is a crucial step in liquid chromatography-mass spectrometry (LC-MS)-based proteomic and metabolomic experiments, especially for large cohort studies. The most popular tools are based on warping function method direct matching method. However, existing can hardly handle monotonic non-monotonic RT shifts simultaneously. Here, we develop deep learning-based tool, DeepRTAlign, LC-MS data analysis. DeepRTAlign has been demonstrated to have improved performances by...
De novo peptide sequencing from mass spectrometry (MS) data is a critical task in proteomics research. Traditional de algorithms have encountered bottleneck accuracy due to the inherent complexity of data. While deep learning-based methods shown progress, they reduce problem translation task, potentially overlooking nuances between spectra and peptides. In our research, we present ContraNovo, pioneering algorithm that leverages contrastive learning extract relationship peptides incorporates...
To estimate the potential of state-of-the-art proteomics technologies on full coverage encoding gene products, Chinese Human Chromosome Proteome Consortium (CCPC) applied a multiomics strategy to systematically analyze transciptome, translatome, and proteome same cultured hepatoma cells with varied metastatic qualitatively quantitatively. The results provide global view expression profiles. 9064 identified high confident proteins covered 50.2% all products in translatome. Those function...
Precise detection and localization of learners' engagement levels are useful for monitoring their learning quality. In the emotiW Challenge's task, we proposed a series novel improvements, including (a) cluster-based framework fast level predictions, (b) neural network using attention pooling mechanism, (c) heuristic rules body posture information, (d) model ensemble more accurate robust predictions. Our experimental results suggest that our methods effectively improved performance. On...
Abstract Several groups of bacteria have complex life cycles involving cellular differentiation and multicellular structures. For example, actinobacteria the genus Streptomyces form vegetative hyphae, aerial spores. However, similar not yet been described for archaea. Here, we show that several haloarchaea family Halobacteriaceae display a cycle resembling bacteria. Strain YIM 93972 (isolated from salt marsh) undergoes into mycelia Other closely related strains are also able to mycelia,...