A5063320195- Bacteriophages and microbial interactions
- Traditional Chinese Medicine Analysis
- Gut microbiota and health
- Genomics and Phylogenetic Studies
- Plant Virus Research Studies
- Microbial infections and disease research
- Ginseng Biological Effects and Applications
- SARS-CoV-2 and COVID-19 Research
- Pharmacological Effects of Natural Compounds
- COVID-19 diagnosis using AI
- Respiratory viral infections research
- Advanced Control Systems Optimization
- Traditional Chinese Medicine Studies
- Chemotherapy-induced cardiotoxicity and mitigation
- Iterative Learning Control Systems
- Cancer-related molecular mechanisms research
- Pregnancy and preeclampsia studies
- Adaptive Control of Nonlinear Systems
- Saffron Plant Research Studies
- Biological and pharmacological studies of plants
- Otolaryngology and Infectious Diseases
- Metabolomics and Mass Spectrometry Studies
- Analytical Methods in Pharmaceuticals
- Dietary Effects on Health
- Data-Driven Disease Surveillance
Peking University
1996-2025
Center for Life Sciences
2025
Taiyuan University of Technology
2024
Northeastern University
2024
Beijing Institute of Genomics
2024
Chinese Academy of Sciences
2024
King University
2023
State Key Laboratory of Turbulence and Complex Systems
2019-2022
Eastern Hepatobiliary Surgery Hospital
2010-2019
Second Military Medical University
2010-2019
Prokaryotic viruses referred to as phages can be divided into virulent and temperate phages. Distinguishing phage-derived sequences in metavirome data is important for elucidating their different roles interactions with bacterial hosts regulation of microbial communities. However, there no experimental or computational approach effectively classify culture-independent metavirome. We present a new method, DeePhage, which directly rapidly judge each read contig fragment.
Acute ischemic stroke (AIS) is a major cause of acquired adult disability and death. Our previous studies proved the efficacy effectiveness Tanhuo decoction (THD) on AIS. However, therapeutic mechanism remains unclear. We recruited 49 AIS patients 30 healthy people to explore effects THD+basic treatment poststroke gut microbiota using 16S rRNA sequencing, in which 23 received basic (control group) 26 (THD group). By comparing data before after treatments, we found THD group better outcome...
As a life-threatening disease, stroke is the leading cause of death and also induces adult disability worldwide. To investigate efficacy integrated traditional Chinese medicine (ITCM) on therapeutic effects acute ischemic (AIS) patients, we enrolled 26 patients in ITCM [Tanhuo decoction (THD) + Western (WM)] group 23 WM group. Thirty healthy people were included control (HC) achieved better functional outcomes than WM, including significant reduction phlegm-heat syndrome neurological...
Naoxintong capsule (NXT) is a commercial medicinal product approved by the China Food and Drug Administration which used in treatment of stroke coronary heart disease. However, research on composition mechanism NXT still lacking. Our aimed to identify absorbable components, potential targets, associated pathways with network pharmacology method. We explored chemical compositions based UPLC/Q‐TOF‐MS. Then, we five principles drug absorption ingredients. The databases PharmMapper, Universal...
Emerging human infectious viruses originating from animals continue to pose a persistent threat global public health. Understanding the host range of animal is crucial for identifying potential spillover pathways and mitigating risk future pandemics. Here, we present VirHRanger, prediction method that integrates foundation models trained on viral genome protein sequences, alongside genomic compositional traits, phylogeny, protein-protein interactions. To systematically predict range,...
In recent decades, Acinetobacter baumannii has become a major global nosocomial pathogen, with bloodstream infections (BSIs) exhibiting mortality rates exceeding 60% and imposing substantial economic burdens. However, limited large-scale genomic epidemiology hindered understanding of its population dynamics. Here, we analyzed 1506 non-repetitive BSI-causing A. isolates from 76 Chinese hospitals over decade (2011-2021). We identified 149 sequence types (STs) 101 K-locus (KLs), revealing...
Abstract Exploring the mechanisms of maintaining microbial community structure is important to understand biofilm development or microbiota dysbiosis. In this paper, we propose a functional gene-based composition prediction (FCP) model predict population within community. The predicts well in both low-complexity as acid mine drainage (AMD) microbiota, and complex human gut microbiota. Furthermore, define shaping (CSS) genes crucial for We have identified CSS AMD samples with FCP find that...
Abstract Summary We present HoPhage (Host of Phage) to identify the host a given phage fragment from metavirome data at genus level. integrates two modules using deep learning algorithm and Markov chain model, respectively. achieves 47.90% 82.47% mean accuracy phylum levels for ∼1-kb long artificial fragments when predicting among 50 genera, representing 7.54–20.22% 13.55–24.31% improvement, By testing on three real virome samples, yields 81.11% level within much broader candidate range....
Heterogeneity in host and gut microbiota hampers microbial precision intervention of type 2 diabetes mellitus (T2DM). Here, we investigated novel features for patient stratification bacterial modulators intervention, using cross-sectional cohorts animal experiments. We collected stool, blood, urine samples from 103 patients with recent-onset T2DM 25 healthy control subjects (HCs), performed composition metabolite profiling, combined it transcriptome, metabolome, cytokine, clinical data....
Summary. Current options for the treatment of hepatitis B virus (HBV) infections, a common liver cancer risk factor, are limited. While RNA interference (RNAi) technologies have been shown to inhibit HBV replication, consequent effects on hepatocellular carcinoma (HCC) cell growth not fully understood. The aim this study was evaluate effect RNAi-mediated decrease in surface antigen (HBsAg) gene replication and HCC growth. A lentiviral microRNA-based system expressing siRNAs targeting HBsAg...
The SARS-CoV-2 pandemic has raised concerns in the identification of hosts virus since early stages outbreak. To address this problem, we proposed a deep learning method, DeepHoF, based on extracting viral genomic features automatically, to predict host likelihood scores five types, including plant, germ, invertebrate, non-human vertebrate and human, for novel viruses. DeepHoF made up lack an accurate tool, reaching satisfactory AUC 0.975 five-classification, could make reliable prediction...
Viruses are increasingly viewed as vital components of the human gut microbiota, while their roles in health and diseases remain incompletely understood. Here, we first sequenced analyzed 37 metagenomic 18 host metabolomic samples related to irritable bowel syndrome (IBS) found that some shifted viruses between IBS controls covaried with bacteria metabolites. Especially, phages infect beneficial lactic acid depleted hosts. We also retrieved public whole-genome datasets another four (type 2...
Abstract Ginseng, a popular herbal remedy, is often used in combination with other drugs to achieve the maximum therapeutic response. Shenfu (SFI) and Shenmai injection (SMI) have been widely treat cardiovascular disease China. Our study explored protection of SFI SMI eNOS knockout mice investigate differences similarities two ginseng-combinations. Transthoracic echocardiography was performed evaluate left ventricular structure function at baseline 3, 7, 14 days after drug administration....
We propose and demonstrate a 1times2 thermooptic digital optical switch with variable attenuators that are integrated the S-bend waveguides connecting output of Y-switch standard fiber array. With total heating power 140 mW applied to switch, we have achieved less than -42-dB crosstalk. The wavelength response is flat across entire C-band. average polarization-dependent loss about 0.49 dB
Abstract Background The virome obtained through virus-like particle enrichment contains a mixture of prokaryotic and eukaryotic virus-derived fragments. Accurate identification classification these elements are crucial to understanding their roles functions in microbial communities. However, the rapid mutation rates viral genomes pose challenges developing high-performance tools for classification, potentially limiting downstream analyses. Findings We present IPEV, novel method distinguish...
Abstract Background The virome obtained through virus-like particle enrichment contain a mixture of prokaryotic and eukaryotic virus-derived fragments. Accurate identification classification these elements are crucial for understanding their roles functions in microbial communities. However, the rapid mutation rates viral genomes pose challenges developing high-performance tools classification, potentially limiting downstream analyses. Findings We present IPEV, novel method that combines...