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Journal Article 9

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2022 2

2020 1

2017 1

2014 2

2009 1

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proteomics 5

metabolomics 2

transcriptomics 2

2D-DIGE 1

pqqB 1

Adsorption and uptake of hydrocarbons 1

Fc fragment of the IgG-binding protein 1

Functional regulation of membrane protein 1

Polycyclic aromatic hydrocarbons 1

Proteomics 1

RLPS 1

RNA-Seq 1

Single cell analysis technology 1

Transmembrane transport 1

Vitamin C 1

acute promyelocytic leukemia 1

biomarker 1

children 1

cross-sectional correlation network 1

embryonic stem cells 1

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Transcriptomics and proteomics in stem cell research

Hai Wang,Qian Zhang,Xiangdong Fang

Frontiers of Medicine 2014, Volume 8, Issue 4, Pages 433-444 doi: 10.1007/s11684-014-0336-0

Abstract: Multi-omics integrative analysis, such as transcriptomics combined with proteomics, is one of the most

Keywords： embryonic stem cells transcriptomics proteomics

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Application of proteomics in environmental science

Xiaona CHU, Jiangyong HU, Say Leong ONG,

Frontiers of Environmental Science & Engineering 2009, Volume 3, Issue 4, Pages 393-403 doi: 10.1007/s11783-009-0145-x

Abstract: Proteomics involves the separation of proteins, identification of the amino acid sequence of the interested

Keywords： proteomics environmental stress two dimensional (2D) gel electrophoresis mass spectrometry

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Quantitative proteomics revealed extensive microenvironmental changes after stem cell transplantation

Frontiers of Medicine 2022, Volume 16, Issue 3, Pages 429-441 doi: 10.1007/s11684-021-0842-9

Abstract: Quantitative proteomics was employed to investigate the protein expression profiles in iPSCs-transplanted

Keywords： microenvironment induced pluripotent stem cells (iPSCs) positron emission tomography (PET) quantitative proteomics

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Sepsis biomarkers: an omics perspective

Xiao Liu, Hui Ren, Daizhi Peng

Frontiers of Medicine 2014, Volume 8, Issue 1, Pages 58-67 doi: 10.1007/s11684-014-0318-2

Abstract: describes currently available and novel sepsis biomarkers in the context of genomics, transcriptomics, proteomics

Keywords： sepsis biomarker genomics transcriptomics proteomics metabolomics

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Multi-omics joint analysis revealed the metabolic profile of retroperitoneal liposarcoma

Frontiers of Medicine doi: 10.1007/s11684-023-1020-z

Abstract: Retroperitoneal liposarcoma (RLPS) is the main subtype of retroperitoneal soft sarcoma (RSTS) and has a poor prognosis and few treatment options, except for surgery. The proteomic and metabolic profiles of RLPS have remained unclear. The aim of our study was to reveal the metabolic profile of RLPS. Here, we performed proteomic analysis (n = 10), metabolomic analysis (n = 51), and lipidomic analysis (n = 50) of retroperitoneal dedifferentiated liposarcoma (RDDLPS) and retroperitoneal well-differentiated liposarcoma (RWDLPS) tissue and paired adjacent adipose tissue obtained during surgery. Data analysis mainly revealed that glycolysis, purine metabolism, pyrimidine metabolism and phospholipid formation were upregulated in both RDDLPS and RWDLPS tissue compared with the adjacent adipose tissue, whereas the tricarboxylic acid (TCA) cycle, lipid absorption and synthesis, fatty acid degradation and biosynthesis, as well as glycine, serine, and threonine metabolism were downregulated. Of particular importance, the glycolytic inhibitor 2-deoxy-D-glucose and pentose phosphate pathway (PPP) inhibitor RRX-001 significantly promoted the antitumor effects of the MDM2 inhibitor RG7112 and CDK4 inhibitor abemaciclib. Our study not only describes the metabolic profiles of RDDLPS and RWDLPS, but also offers potential therapeutic targets and strategies for RLPS.

Keywords： RLPS proteomics metabolomics lipidomics metabolism

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Proteomics study of Mycoplasma pneumoniae pneumonia reveals the Fc fragment of the IgG-binding protein

Frontiers of Medicine 2022, Volume 16, Issue 3, Pages 378-388 doi: 10.1007/s11684-021-0840-y

Abstract: this study, serum samples were collected from patients with general MPP (GMPP) and SMPP to conduct proteomicsTo our knowledge, this study was the first proteomics-based characterization of patients with SMPP and

Keywords： severe Mycoplasma pneumoniae pneumonia children proteomics Fc fragment of the IgG-binding protein

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Identification of transporter proteins for PQQ-secretion pathways by transcriptomics and proteomics analysis

Hui Wan,Yu Xia,Jianghua Li,Zhen Kang,Jingwen Zhou

Frontiers of Chemical Science and Engineering 2017, Volume 11, Issue 1, Pages 72-88 doi: 10.1007/s11705-016-1580-4

Abstract: Pyrroloquinoline quinone (PQQ) plays a significant role as a redox cofactor in combination with dehydrogenases in bacteria. These dehydrogenases play key roles in the oxidation of important substrates for the biotechnology industry, such as vitamin C production. While biosynthesis of PQQ genes has been widely studied, PQQ-transport mechanisms remain unclear. Herein, we used both two-dimensional fluorescence-difference gel electrophoresis tandem mass spectrometry and RNA sequencing to investigate the effects of overexpression in an industrial strain of WSH-003. We have identified 73 differentially expressed proteins and 99 differentially expressed genes, a majority of which are related to oxidation-reduction and transport processes by gene ontology analysis. We also described several putative candidate effectors that responded to increased PQQ levels resulting from overexpression. Furthermore, quantitative PCR was used to verify five putative PQQ-transport genes among different PQQ producing strains, and the results showed that , and were upregulated in all conditions. Then the three genes were over-expressed in WSH-003 and PQQ production were detected. The results showed that extracellular PQQ of B932_1930 (a transporter) and B932_2186 (an ABC transporter permease) overexpression strains were enhanced by 1.77-fold and 1.67-fold, respectively. The results suggest that the proteins encoded by PqqB, B932_1930 and B932_2186 might enhance the PQQ secretion process.

Keywords： 2D-DIGE pqqB pyrroloquinoline quinone RNA-Seq Vitamin C

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Cross-sectional network analysis of plasma proteins/metabolites correlated with pathogenesis and therapeutic response in acute promyelocytic leukemia

Frontiers of Medicine doi: 10.1007/s11684-023-1022-x

Abstract: The treatment of PML/RARA+ acute promyelocytic leukemia (APL) with all-trans-retinoic acid and arsenic trioxide (ATRA/ATO) has been recognized as a model for translational medicine research. Though an altered microenvironment is a general cancer hallmark, how APL blasts shape their plasma composition is poorly understood. Here, we reported a cross-sectional correlation network to interpret multilayered datasets on clinical parameters, proteomes, and metabolomes of paired plasma samples from patients with APL before or after ATRA/ATO induction therapy. Our study revealed the two prominent features of the APL plasma, suggesting a possible involvement of APL blasts in modulating plasma composition. One was characterized by altered secretory protein and metabolite profiles correlating with heightened proliferation and energy consumption in APL blasts, and the other featured APL plasma-enriched proteins or enzymes catalyzing plasma-altered metabolites that were potential trans-regulatory targets of PML/RARA. Furthermore, results indicated heightened interferon-gamma signaling characterizing a tumor-suppressing function of the immune system at the first hematological complete remission stage, which likely resulted from therapy-induced cell death or senescence and ensuing supraphysiological levels of intracellular proteins. Overall, our work sheds new light on the pathophysiology and treatment of APL and provides an information-rich reference data cohort for the exploratory and translational study of leukemia microenvironment.

Keywords： acute promyelocytic leukemia plasma proteomics plasma metabolomics cross-sectional correlation network

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Transmembrane transport of polycyclic aromatic hydrocarbons by bacteria and functional regulation of membrane proteins

Hongqi Wang, Ruhan Jiang, Dekang Kong, Zili Liu, Xiaoxiong Wu, Jie Xu, Yi Li

Frontiers of Environmental Science & Engineering 2020, Volume 14, Issue 1, doi: 10.1007/s11783-019-1188-2

Abstract: Proteomics technology such as iTRAQ labeling was used to access expressed proteins.Meanwhile, introduce the proteomics and single cell analysis technology used to address these areas of

Keywords： Polycyclic aromatic hydrocarbons Transmembrane transport Adsorption and uptake of hydrocarbons Proteomics