A5101557867- Advanced Proteomics Techniques and Applications
- Gut microbiota and health
- Metabolomics and Mass Spectrometry Studies
- RNA and protein synthesis mechanisms
- Epigenetics and DNA Methylation
- Genomics and Phylogenetic Studies
- Molecular Biology Techniques and Applications
- Mass Spectrometry Techniques and Applications
- Ferroptosis and cancer prognosis
- Cancer, Lipids, and Metabolism
- Reproductive tract infections research
- Genomics and Chromatin Dynamics
- Glycosylation and Glycoproteins Research
- Peptidase Inhibition and Analysis
- Seed Germination and Physiology
- Liver Disease Diagnosis and Treatment
- Cancer Mechanisms and Therapy
- RNA modifications and cancer
- Ginseng Biological Effects and Applications
- Antimicrobial Peptides and Activities
- Neonatal Respiratory Health Research
- Diet and metabolism studies
- Pancreatic and Hepatic Oncology Research
- RNA Research and Splicing
- Ubiquitin and proteasome pathways
Shenyang Fifth People Hospital
2019-2025
Shanghai Sunshine Rehabilitation Center
2024
BGI Group (China)
2015-2024
Hangzhou Medical College
2021-2024
China Agricultural University
2012-2023
Chinese Academy of Sciences
2012-2023
Yangtze University
2023
Shenyang Normal University
2023
Sanya University
2023
Zhejiang Cancer Hospital
2023
INTRODUCTION Although much effort has been devoted to studying yeast in the past few decades, our understanding of this model organism is still limited. Rapidly developing DNA synthesis techniques have made a “build-to-understand” approach feasible reengineer on genome scale. Here, we report completion 770-kilobase synthetic chromosome II (synII). SynII was characterized using extensive Trans-Omics tests. Despite considerable sequence alterations, synII virtually indistinguishable from wild...
The gut microbiota plays important roles in modulating host metabolism. Previous studies have demonstrated differences the microbiome of T2D and prediabetic individuals compared to healthy individuals, with distinct disease-related microbial profiles being reported groups different age ethnicity. However, confounding factors such as anti-diabetic medication hamper identification changes disease development.We used a combination in-depth metagenomics metaproteomics analyses faecal samples...
With the development of global social economy and deepening aging population, diseases related to have received increasing attention. The pathogenesis many respiratory remains unclear, lung is an independent risk factor for diseases. mechanism may be involved in occurrence Aging-induced immune, oxidative stress, inflammation, telomere changes can directly induce promote aging. Meanwhile, also further aggravates immune stress inflammatory response diseases; two mutually affect each other...
The oral microbiome has been implicated in a growing number of diseases; however, determinants the and their roles remain elusive. Here, we investigated (saliva tongue dorsum) metagenome, whole genome, other omics data total 4,478 individuals demonstrated that composition its major contributing host factors significantly differed between sexes. We thus conducted sex-stratified metagenome-genome-wide-association study (M-GWAS) identified 11 differential genetic associations with...
Quantitative proteomics is an indispensable tool in life science research. However, there a lack of reference materials for evaluating the reproducibility label-free liquid chromatography-tandem mass spectrometry (LC-MS/MS)-based measurements among different instruments and laboratories.Here, we develop Quartet standard as proteome material with built-in truths, distribute same aliquots to 15 laboratories nine conventional LC-MS/MS platforms across six cities China. Relative abundance over...
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...
More than a decade of gut microbiome studies have common goal improving human health. However, while most the disease focused on elderly or middle-aged, reference cohort for in young individuals has been lacking. It is also not clear what other omics data need to be measured better understand microbiome. Here, we present including 2183 adults with high-depth metagenomic shotgun sequencing fecal and data. In this multiomic cohort, observe number vitamins, hormones, amino acids, trace elements...
Investigations of missing proteins (MPs) are being endorsed by many bioanalytical strategies. We proposed that proteogenomics testis tissue was a feasible approach to identify more MPs because tissues have higher gene expression levels. Here we combined proteomics and transcriptomics survey in human from three post-mortem individuals. Proteins were extracted separated with glycine- tricine-SDS-PAGE. A total 9597 protein groups identified; these, 166 listed as MPs, including 138 (83.1%)...
We propose an efficient integration of SWATH with MRM for biomarker discovery and verification when the corresponding ion library is well established. strictly controlled false positive rate associated MS signals carefully selected target peptides coupled MRM. collected 10 samples esophageal squamous cell carcinoma (ESCC) tissues paired tumors adjacent regions quantified 1758 unique proteins FDR 1% at protein level using SWATH, in which 467 were abundance-dependent ESCC. After evaluating...
Abstract The relationship between dyslipidemia and type 2 diabetes mellitus (T2D) has been extensively reported, but the global lipid profiles, especially in East Asia population, associated with development of T2D remain to be characterized. Liquid chromatography coupled tandem mass spectrometry was applied detect lipidome fasting plasma 293 Chinese individuals, including 114 patients, 81 prediabetic subjects, 98 individuals normal glucose tolerance (NGT). Both qualitative quantitative...
With the proposal of "biological-psychological-social" model, clinical decision-makers and researchers have paid more attention to bidirectional interactive effects between psychological factors diseases. The brain-gut-microbiota axis, as an important pathway for communication brain gut, plays role in occurrence development inflammatory bowel disease. This article reviews mechanism by which disorders mediate disease affecting axis. Research progress on causing "comorbidities mind body"...
Embryogenesis is the initial step in a plant's life, and molecular changes that occur during embryonic development are largely unknown. To explore relevant events, we used isobaric tags for relative absolute quantification (iTRAQ) coupled with shotgun proteomics technique (iTRAQ/Shotgun) to study proteomic of rice embryos embryogenesis. For first time, total 2 165 unique proteins were identified embryos, abundances 867 actively changed based on statistical evaluation quantitative MS/MS...
The strategy of sequential window acquisition all theoretical fragment ion spectra (SWATH) is emerging in the field label-free proteomics. A critical consideration for processing SWATH data quality library (or mass spectrometric reference map). As availability open spectral libraries that can be used to process limited, most users currently create their in-house. Herein, we propose an approach construct expanded using data-dependent (DDA) generated by fractionation We identified three...
Currently, the commercial reagents for isobaric peptides labeling (TMT and iTRAQ) have some drawbacks, such as high cost in experiments, especially quantitation modified peptides, inconvenient handling variable sizes of samples. Herein, we developed a set 10-plex tags (IBT) with stability low cost. The labeled were sensitively detected on Orbitrap Q Exactive MS an MS2 resolution 35 000 at 30% NCE, while efficiently over 97% by IBT ratio 10:1 reagent/peptide (w/w) 200 mM TEAB buffer 2 h. was...
The vagina contains at least a billion microbial cells, dominated by lactobacilli. Here we perform metagenomic shotgun sequencing on cervical and fecal samples from cohort of 516 Chinese women reproductive age, as well cervical, fecal, salivary second 632 women. Factors such pregnancyhistory, delivery history, cesarean section, breastfeeding were all more important than menstrual cycle in shaping the microbiome, information would be necessary before trying to interpret differences between...
Background: NOS3 (endothelial NOS, eNOS ) is a member of the nitric oxide synthase (NOS) enzyme family, mainly participating in (NO) generation. has been reported to inhibit apoptosis and promote angiogenesis, proliferation, invasiveness. However, expression pattern its diagnostic prognostic potential not investigated pan-cancer perspective. Methods: Data from Genotype-Tissue Expression (GTEx), Cancer Genome Atlas (TCGA), Cell Line Encyclopedia (CCLE), Therapeutics Response Portal (CTRP)...
The molecular mechanism associated with mammalian meiosis has yet to be fully explored, and one of the main reasons for this lack exploration is that some meiosis-essential genes are still unknown. profiling gene expression during spermatogenesis been performed in previous studies, few studies have aimed find new functional genes. Since there a huge gap between number able quantified can characterized by phenotype screening assay, an efficient method rank according phenotypic relevance great...
Abstract Objective To define the lipidomic profile in plasma across pregnancy, and identify lipid biomarkers for gestational diabetes mellitus (GDM) prediction early pregnancy. Design Case–control study. Setting Tertiary referral maternity unit. Population or Sample Plasma samples from 100 GDM normal glucose tolerance (NGT) women, divided into a training set (GDM first trimester = 50, second 40, NGT 50) validation 45, 34, 44, 40). Methods were collected (11 +0 to 13 +6 weeks), (19 24 third...
Members of human aldo-keto reductase (AKR) superfamily have been reported to be involved in cancer progression, whereas the final conclusion is not generally accepted. Herein, we propose a quantitative method measure AKR proteins cells using mTRAQ-based multiple reaction monitoring (MRM). peptides with transitions were carefully selected upon tryptic digestion recombinant proteins, while identified by SDS-PAGE fractionation coupled LC–MS/MS. Utilizing mTRAQ triplex labeling produce...
Mitochondria are the primary organelles that consume oxygen and provide energy for cellular activities. To investigate mitochondrial mechanisms underlying adaptation to extreme conditions, we generated Drosophila strains could survive in low- or high-oxygen environments (LOF HOF, respectively), examined their mitochondria at ultrastructural level via transmission electron microscopy, studied activity of respiratory chain complexes, quantitatively analyzed protein abundance responses...