A5043696092- Advanced Proteomics Techniques and Applications
- Mass Spectrometry Techniques and Applications
- Pancreatic and Hepatic Oncology Research
- Bladder and Urothelial Cancer Treatments
- Advanced Biosensing Techniques and Applications
- Ferroptosis and cancer prognosis
- RNA modifications and cancer
- Esophageal Cancer Research and Treatment
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Cancer, Lipids, and Metabolism
- Epigenetics and DNA Methylation
- Bioinformatics and Genomic Networks
- Colorectal Cancer Treatments and Studies
- Gene expression and cancer classification
- Metabolomics and Mass Spectrometry Studies
- Coagulation, Bradykinin, Polyphosphates, and Angioedema
- Cancer-related gene regulation
- Genetic factors in colorectal cancer
- Osteoarthritis Treatment and Mechanisms
- Immunotherapy and Immune Responses
- Blood Coagulation and Thrombosis Mechanisms
- HVDC Systems and Fault Protection
- Cell Adhesion Molecules Research
- Adipokines, Inflammation, and Metabolic Diseases
- Peptidase Inhibition and Analysis
Macau University of Science and Technology
2024
Hunan University of Traditional Chinese Medicine
2024
Fudan University
2019-2023
Zhongshan Hospital
2020-2023
State Key Laboratory of Genetic Engineering
2020-2023
Fudan University Shanghai Cancer Center
2023
Institute of Human Sciences
2021
Institute of Biomedical Science
2021
State Key Laboratory of Medical Neurobiology
2019
Huashan Hospital
2019
Abstract Natural killer (NK) cells exert critical roles in anti-tumor immunity but how their functions are regulated by epitranscriptional modification (e.g., N 6 -methyladenosine (m A) methylation) is unclear. Here we report decreased expression of the m A “writer” METTL3 tumor-infiltrating NK cells, and a positive correlation between protein levels effector molecules cells. Deletion Mettl3 alters homeostasis inhibits cell infiltration function tumor microenvironment, leading to accelerated...
Abstract Background Urothelial carcinoma (UC) is the most common pathological type of bladder cancer, a malignant tumor. However, an integrated multi-omics analysis Chinese UC patient cohort lacking. Methods We performed analysis, including whole-exome sequencing, RNA-seq, proteomic, and phosphoproteomic 116 patients, comprising 45 non-muscle-invasive cancer patients (NMIBCs) 71 muscle-invasive (MIBCs). Result Proteogenomic integration indicated that SND1 CDK5 amplifications on chromosome 7q...
Abstract Chemotherapy and targeted therapy are the major treatments for gastric cancer (GC), but drug resistance limits its effectiveness. Here, we profile proteome of 206 tumor tissues from patients with GC undergoing either chemotherapy or anti-HER2-based therapy. Proteome-based classification reveals four subtypes (G-I–G-IV) related to different clinical molecular features. MSI-sig high benefit docetaxel combination treatment, accompanied by anticancer immune response. Further study T...
Abstract Pituitary neuroendocrine tumor (PitNET) is one of the most common intracranial tumors. Due to its extensive heterogeneity and lack high-quality tissues for biomarker discovery, causative molecular mechanisms are far from being fully defined. Therefore, more studies needed improve current clinicopathological classification system, advanced treatment strategies such as targeted therapy immunotherapy yet be explored. Here, we performed largest integrative genomics, transcriptomics,...
Characterization and integration of the genome, epigenome, transcriptome, proteome metabolome different datasets is difficult owing to a lack ground truth. Here we develop characterize suites publicly available multi-omics reference materials matched DNA, RNA, protein metabolites derived from immortalized cell lines family quartet parents monozygotic twin daughters. These references provide built-in truth defined by relationships among members information flow DNA RNA protein. We demonstrate...
Abstract Macrophages are involved in tissue homeostasis and critical for innate immune responses, yet distinct macrophage populations different tissues exhibit diverse gene expression patterns biological processes. While tissue-specific epigenomic transcriptomic profiles have been reported, proteomes of remain poorly characterized. Here we use mass spectrometry bulk RNA sequencing to assess the proteomic patterns, respectively, 10 primary from seven mouse tissues, bone marrow-derived...
Abstract Esophageal squamous cell carcinoma (ESCC) is malignant while the carcinogenesis still unclear. Here, we perform a comprehensive multi-omics analysis of 786 trace-tumor-samples from 154 ESCC patients, covering 9 histopathological stages and 3 phases. Proteogenomics elucidates cancer-driving waves in progression, reveals molecular characterization alcohol drinking habit associated signatures. We discover chromosome 3q gain functions transmit nontumor to intraepithelial neoplasia...
Abstract Background Pancreatic ductal adenocarcinoma (PDAC) is a devastating disease with poor prognosis. Proteogenomic characterization and integrative proteomic analysis provide functional context to annotate genomic abnormalities prognostic value. Methods We performed an integrated multi-omics analysis, including whole-exome sequencing, RNA-seq, proteomic, phosphoproteomic of 217 PDAC tumors paired non-tumor adjacent tissues. In vivo experiments were further illustrate the biological...
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...
The progression of urothelial bladder cancer (UC) is a complicated multi-step process. We perform comprehensive multi-omics analysis 448 samples from 190 UC patients, covering the whole spectrum disease stages and grades. Proteogenomic integration indicates mutations HRAS regulated mTOR signaling to form papilloma rather than papillary (PUC). DNA damage key pathway in carcinoma situ (CIS) related APOBEC signature. Glucolipid metabolism increase lower immune cell infiltration are associated...
Abstract The subtypes of duodenal cancer (DC) are complicated and the carcinogenesis process is not well characterized. We present comprehensive characterization 438 samples from 156 DC patients, covering 2 major 5 rare subtypes. Proteogenomics reveals LYN amplification at chromosome 8q gain functioned in transmit intraepithelial neoplasia phase to infiltration tumor via MAPK signaling, illustrates DST mutation improves mTOR signaling adenocarcinoma stage. Proteome-based analysis elucidates...
Upper tract urothelial carcinoma (UTUC) is often diagnosed late and exhibits poor prognosis. Limited data are available on potential non-invasive biomarkers for disease monitoring. Here, we investigate the proteomic profile of plasma in 362 UTUC patients 239 healthy controls. We present an integrated tissue-plasma approach to infer signature proteins identifying with muscle-invasive UTUC. discover a protein panel that reflects lymph node metastasis, which interest high risk also identify...
Human glandular kallikrein 2 (hK2) is a serine protease expressed mainly by the prostate gland with 80% identity in primary structure to specific antigen (PSA). hK2 has proven be useful marker of cancer which can used combination PSA better discriminate between and benign hyperplasia. The studies on have been hampered its very low phyciological levels (6 µg·mL −1 ), close similarity PSA, expression obtained using recombinant procedures produce (0.7 mg·L ). We now generated propeptide...
Background/Aim: Body fluids are considered to be a rich source of disease biomarkers. Proteins in many body have potential clinical applications for diagnostic and prognostic purposes. The aim this study was establish an in-depth multi-body fluid proteome. Materials Methods: Ten associated with 8 types cancers collected from 23 patients involved 19 common diseases underwent liquid chromatography tandem mass spectrometry (MS) analysis after gel-based protein separation (SDS-PAGE) or...
The emergence of immune checkpoint inhibitors (ICIs) has revolutionized the clinical treatment for tumor. However, low response rate ICIs remains major obstacle curing patients and effective approaches with primary or secondary resistance to remain lacking. In this study, stimulating agent unmethylated CG-enriched (CpG) oligodeoxynucleotide (ODN) was locally injected into tumor trigger a robust eradicate cancer cells, while anti-CD25 antibody applied remove immunosuppressive regulatory T...
Abstract 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. We developed Quartet as proteome material with built-in truths, distributed same aliquots to 15 laboratories nine conventional LC-MS/MS platforms across six cities China. Relative abundance over...
Disc displacement without reduction is a common disorder of the temporomandibular joint, causing clinical symptoms and sometimes condylar degeneration. In some cases, bone regeneration detected following disc-repositioning procedures. Until now, however, systems-wide knowledge protein levels for outcome with disc position still lacking. Here, we performed comprehensive expression profiling synovial fluid from 109 patients using high-resolution data-independent acquisition mass spectrometry...
Abstract Post-translational modification of proteins by the addition small ubiquitin-related modifier (SUMO) is a dynamic process, in which deSUMOylation carried out members Sentrin/SUMO-specific protease (SENP) family. While identification SUMOylation sites at global scale has made great progress, much less effort been on SENP family-dependent deSUMOylation. Here we report dataset 3,763 high confident SUMO1 and their dependence 6 proteins. Interrogation led to discovery that SENP3 regulates...
Abstract We performed a comprehensive genomic, proteomic, and phosphoproteomic analysis of 756 trace-tumor-samples from 124 esophageal cancer (EC) patients, covering 9 major histopathological stages 22 substages. The results revealed significant diversity proteome patterns in the integrated multi-omics data identified genomic-proteomic aberrations revealing association TP53, ATM, EP400 mutations that affected cell cycle, DNA repair, glycolysis, with poor prognosis. Proteome-based elucidated...