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Epigenetic dysregulation in hepatocellular carcinoma: focus on polycomb group proteins

null

《医学前沿（英文）》 2013年 第7卷 第2期   页码 231-241 doi: 10.1007/s11684-013-0253-7

摘要：

Hepatocellular carcinoma (HCC) development is characterized by the presence of epigenetic alterations, including promoter DNA hypermethylation and post-translational modifications of histone, which profoundly affect expression of a wide repertoire of genes critical for cancer development. Emerging data suggest that deregulation of polycomb group (PcG) proteins, which are key chromatin modifiers repressing gene transcription during developmental stage, plays a causative role in oncogenesis. PcG proteins assemble into polycomb repressive complex 1 (PRC1) and polycomb repressive complex 2 (PRC2) to impose the histone H3 lysine 27 trimethylation (H3K27me3) modification for repression. In this review, we will first recapitulate the mechanisms of two key epigenetic pathways: DNA methylation and histone modifications. Specifically, we will focus our discussion on the molecular roles of PcG proteins. Next, we will highlight recent findings on PcG proteins, their clinicopathological implication and their downstream molecular consequence in hepatocarcinogenesis. Last but not least, we will consider the therapeutic potential of targeting enhancer of zeste homolog 2 (EZH2) as a possible treatment for HCC. Improving our understanding on the roles of PcG proteins in hepatocarcinogenesis can benefit the development of epigenetic-based therapy.

关键词： liver cancer     epigenetics     histone modifications     polycomb group proteins     enhancer of zeste homolog 2 (EZH2)    

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Novel engineered proteins for mechanomaterials

Giuseppe Portale

《化学科学与工程前沿（英文）》 2020年 第14卷 第6期   页码 1122-1123 doi: 10.1007/s11705-020-1941-x

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Paradoxical role of Id proteins in regulating tumorigenic potential of lymphoid cells

null

《医学前沿（英文）》 2018年 第12卷 第4期   页码 374-386 doi: 10.1007/s11684-018-0652-x

摘要：

A family of transcription factors known as Id proteins, or inhibitor of DNA binding and differentiation, is capable of regulating cell proliferation, survival and differentiation, and is often upregulated in multiple types of tumors. Due to their ability to promote self-renewal, Id proteins have been considered as oncogenes, and potential therapeutic targets in cancer models. On the contrary, certain Id proteins are reported to act as tumor suppressors in the development of Burkitt’s lymphoma in humans, and hepatosplenic and innate-like T cell lymphomas in mice. The contexts and mechanisms by which Id proteins can serve in such contradictory roles to determine tumor outcomes are still not well understood. In this review, we explore the roles of Id proteins in lymphocyte development and tumorigenesis, particularly with respect to inhibition of their canonical DNA binding partners known as E proteins. Transcriptional regulation by E proteins, and their antagonism by Id proteins, act as gatekeepers to ensure appropriate lymphocyte development at key checkpoints. We re-examine the derailment of these regulatory mechanisms in lymphocytes that facilitate tumor development. These mechanistic insights can allow better appreciation of the context-dependent roles of Id proteins in cancers and improve considerations for therapy.

关键词： Id proteins     lymphoma     leukemia     T cells     B cells     tumor suppressor     oncogene    

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Caveolin proteins: a molecular insight into disease

null

《医学前沿（英文）》 2016年 第10卷 第4期   页码 397-404 doi: 10.1007/s11684-016-0483-6

摘要：

Caveolae are a kind of specific cystic structures of lipid rafts in the cytoplasmic membrane and are rich in cholesterol and sphingolipids. In recent years, many researchers have found that both caveolins and caveolae play a role in the development of various human diseases, including coronary heart disease, hypertension, and nervous system disorders. The specific mechanisms by which caveolins induce diseases have been a topic of interest. However, a number of detailed molecular mechanisms remain poorly understood. This article focuses on the relationship between caveolin proteins and human diseases and reviews the molecular mechanisms of caveolins in disease networks.

关键词： caveolin     caveolae     microRNA     disease     signaling pathway     heart     tumor    

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A review of intelligent optimization for group scheduling problems in cellular manufacturing

《工程管理前沿（英文）》   页码 406-426 doi: 10.1007/s42524-022-0242-0

摘要： Given that group technology can reduce the changeover time of equipment, broaden the productivity, and enhance the flexibility of manufacturing, especially cellular manufacturing, group scheduling problems (GSPs) have elicited considerable attention in the academic and industry practical literature. There are two issues to be solved in GSPs: One is how to allocate groups into the production cells in view of major setup times between groups and the other is how to schedule jobs in each group. Although a number of studies on GSPs have been published, few integrated reviews have been conducted so far on considered problems with different constraints and their optimization methods. To this end, this study hopes to shorten the gap by reviewing the development of research and analyzing these problems. All literature is classified according to the number of objective functions, number of machines, and optimization algorithms. The classical mathematical models of single-machine, permutation, and distributed flowshop GSPs based on adjacent and position-based modeling methods, respectively, are also formulated. Last but not least, outlooks are given for outspread problems and problem algorithms for future research in the fields of group scheduling.

关键词： cellular manufacturing     group scheduling     flowshop     literature review    

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Changes in structure and functional properties of whey proteins induced by high hydrostatic pressure:

Xiaoming LIU, Jia NING, Stephanie CLARK,

《化学科学与工程前沿（英文）》 2009年 第3卷 第4期   页码 436-442 doi: 10.1007/s11705-009-0251-0

摘要： High hydrostatic pressure (HHP) is an alternative technology to heat processing for food product modifications. It does not cause environmental pollution and eliminates the use of chemical additives in food products. This review covers the research conducted to understand the effect of HHP on structure and functional properties of whey proteins. In this paper, the mechanism underlying pressure-induced changes in -lactoglobulin and -lactabumin is also discussed and how they related to functional properties such as hydrophobicity, foam stability, and flavor-binding capacity.

关键词： -lactoglobulin     processing     functional     alternative technology     environmental    

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Cross-sectional network analysis of plasma proteins/metabolites correlated with pathogenesis and therapeutic

《医学前沿（英文）》 doi: 10.1007/s11684-023-1022-x

摘要： 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.

关键词： acute promyelocytic leukemia     plasma proteomics     plasma metabolomics     cross-sectional correlation network     pathogenesis     treatment    

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Emergence mechanisms of group consensus in social networks

《工程管理前沿（英文）》 doi: 10.1007/s42524-023-0277-x

摘要： Reaching consensus within larger social network groups has emerged as a pivotal concern in the digital age of connectivity. This article redefines group consensus as the emergence of collective intelligence resulting from self-organizing actions and interactions of individuals within a social network group. In our exploration of extant research on group consensus, we illuminate two frequently underestimated, yet noteworthy facets: Dynamism and emergence. In contrast to the conventional perspective of consensus as a mere outcome, we perceive it as an ongoing, dynamic process. This process encompasses self-organized communication and interaction among group members, collectively guiding the group towards cognitive convergence and viewpoint integration. Consequently, it is imperative to redirect our focus from the outcomes of group interactions to an examination of the relationships and processes underpinning consensus formation, thus elucidating the mechanisms responsible for the generation of group consensus. The amalgamation of cognitive contexts and accurate simplification of real-world scenarios for simulation and experimental analysis offers a pragmatic operational approach. This study contributes novel theoretical underpinnings and quantitative insights for establishing and sustaining group consensus within the realm of engineering management practices. Concurrently, it holds substantial importance for advancing the broader research landscape pertaining to social consensus.

关键词： group consensus     social network     collective intelligence    

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Proteome comparisons reveal influence of different dietary proteins on the development of rat jejunum

Mengjie LI, Chunbao LI, Shangxin SONG, Xinglian XU, Guanghong ZHOU

《农业科学与工程前沿（英文）》 2018年 第5卷 第3期   页码 362-372 doi: 10.15302/J-FASE-2018206

摘要：

This study compared proteome profiles and morphological changes of rat jejunum in response to different dietary proteins. Fifty male Sprague-Dawley rats were fed with casein (control), and isolated beef, pork, fish and chicken proteins for 14 days. Proteome analysis, histological observation and PEPT1 quantification of the jejunum were performed. The results indicated that rats fed with chicken proteins had higher PEPT1 mRNA and protein levels (P<0.05) but lower villus height and ratio of villus height to crypt depth (V/C ratio, P<0.05) than those fed with casein and pork protein. Label-free LC-MS/MS indicated that, as compared to casein, intake of chicken protein can regulate oligopeptide transport mainly by upregulating PEPT1 protein expression and reducing dipeptidyl-peptidase activity related to biological oxidation, and can reduce oligopeptide absorption capacity by regulating Hippo signaling pathway. Although intake of beef and fish proteins had no significant effect on PEPT1 expression, they altered several signaling pathways.

关键词： Hippo signaling pathway     meat protein     PEPT1     proteome analysis     rat jejunum    

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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

《化学科学与工程前沿（英文）》 2017年 第11卷 第1期   页码 72-88 doi: 10.1007/s11705-016-1580-4

摘要： 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.

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

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Fate of proteins of waste activated sludge during thermal alkali pretreatment in terms of sludge protein

Xiaoli Song, Zhenghua Shi, Xiufen Li, Xinhua Wang, Yueping Ren

《环境科学与工程前沿（英文）》 2019年 第13卷 第2期 doi: 10.1007/s11783-019-1114-7

摘要：

Maillard reaction between reducing sugars and amides happened during pretreatment.

Over 90 min of TAH at the optimal condition, 67.59% sludge proteins was solubilized.

15.84% soluble proteins broke down to materials with small molecular weight.

关键词： Sludge flocs     Microbial cells     Hydrolysate     Protein breakdown     Melanoidin    

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reduces IgE binding ability of allergenic egg white proteins

Sen LI, Marina OFFENGENDEN, Michael G. GÄNZLE, Jianping WU

《农业科学与工程前沿（英文）》 2018年 第5卷 第3期   页码 373-381 doi: 10.15302/J-FASE-2018210

摘要：

Egg white proteins are one of the major allergens. The objective of this study was to investigate the effect of Aspergillus oryzae cultivation on IgE binding ability of egg white proteins. Effect of A. oryzae on egg white proteins was determined using ninhydrin method, SDS-PAGE, ELISA, fluorescence FITC labeling, MALDI-TOF-MS and LC-MS/MS analysis. Adding mycelium of A. oryzae ATCC 1011 and 16868 substantially reduced the IgE binding ability of acidified egg white after 24 h incubation. The binding capacity of egg white proteins to IgE in plasma from four egg allergy patients was almost completely lost after incubation with mycelium of ATCC 16868. Results from SDS-PAGE, free amino acid analysis, MALDI-TOF-MS and LC-MS/MS indicated that there was no substantial protein degradation during incubation. Therefore, the reduction of IgE binding ability of egg white proteins during A. oryzae treatment was probably due to a loss of ~1700 Da mass including a fragment of the ovomucoid N terminus.

关键词： Aspergillus oryzae     egg allergy     egg white proteins     IgE-binding ability     ovomucoid    

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Spatiotemporal expression of Ezh2 in the developing mouse cochlear sensory epithelium

null

《医学前沿（英文）》 2016年 第10卷 第3期   页码 330-335 doi: 10.1007/s11684-016-0459-6

摘要：

The enhancer of zeste 2 polycomb repressive complex 2 subunit (Ezh2) is a histone-lysine N-methyltransferase enzyme that participates in DNA methylation. Ezh2 has also been reported to play crucial roles in stem cell proliferation and differentiation. However, the detailed expression profile of Ezh2 during mouse cochlear development has not been investigated. Here, we examined the spatiotemporal expression of Ezh2 in the cochlea during embryonic and postnatal development. Ezh2 expression began to be observed in the whole otocyst nuclei at embryonic day 9.5 (E9.5). At E12.5, Ezh2 was expressed in the nuclei of the cochlear prosensory epithelium. At E13.5 and E15.5, Ezh2 was expressed from the apical to the basal turns in the nuclei of the differentiating cochlear epithelium. At postnatal day (P) 0 and 7, the Ezh2 expression was located in the nuclei of the cochlear epithelium in all three turns and could be clearly seen in outer and inner hair cells, supporting cells, the stria vascularis, and spiral ganglion cells. Ezh2 continued to be expressed in the cochlear epithelium of adult mice. Our results provide the basic Ezh2 expression pattern and might be useful for further investigating the detailed role of Ezh2 during cochlear development.

关键词： polycomb repressive complex     Ezh2     expression     inner ear     cochlea     development    

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Tribological mechanism of carbon group nanofluids on grinding interface under minimum quantity lubrication

《机械工程前沿（英文）》 2023年 第18卷 第1期 doi: 10.1007/s11465-022-0733-z

摘要： Carbon group nanofluids can further improve the friction-reducing and anti-wear properties of minimum quantity lubrication (MQL). However, the formation mechanism of lubrication films generated by carbon group nanofluids on MQL grinding interfaces is not fully revealed due to lack of sufficient evidence. Here, molecular dynamic simulations for the abrasive grain/workpiece interface were conducted under nanofluid MQL, MQL, and dry grinding conditions. Three kinds of carbon group nanoparticles, i.e., nanodiamond (ND), carbon nanotube (CNT), and graphene nanosheet (GN), were taken as representative specimens. The [BMIM]BF4 ionic liquid was used as base fluid. The materials used as workpiece and abrasive grain were the single-crystal Ni–Fe–Cr series of Ni-based alloy and single-crystal cubic boron nitride (CBN), respectively. Tangential grinding force was used to evaluate the lubrication performance under the grinding conditions. The abrasive grain/workpiece contact states under the different grinding conditions were compared to reveal the formation mechanism of the lubrication film. Investigations showed the formation of a boundary lubrication film on the abrasive grain/workpiece interface under the MQL condition, with the ionic liquid molecules absorbing in the groove-like fractures on the grain wear’s flat face. The boundary lubrication film underwent a friction-reducing effect by reducing the abrasive grain/workpiece contact area. Under the nanofluid MQL condition, the carbon group nanoparticles further enhanced the tribological performance of the MQL technique that had benefited from their corresponding tribological behaviors on the abrasive grain/workpiece interface. The behaviors involved the rolling effect of ND, the rolling and sliding effects of CNT, and the interlayer shear effect of GN. Compared with the findings under the MQL condition, the tangential grinding forces could be further reduced by 8.5%, 12.0%, and 14.1% under the diamond, CNT, and graphene nanofluid MQL conditions, respectively.

关键词： grinding     minimum quantity lubrication     carbon group nanofluid     tribological mechanism    

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iTRAQ-based quantitative proteomic analysis on differentially expressed proteins of rat mandibular condylar

null

《医学前沿（英文）》 2017年 第11卷 第1期   页码 97-109 doi: 10.1007/s11684-016-0496-1

摘要：

As muscle activity during growth is considerably important for mandible quality and morphology, reducing dietary loading directly influences the development and metabolic activity of mandibular condylar cartilage (MCC). However, an overall investigation of changes in the protein composition of MCC has not been fully described in literature. To study the protein expression and putative signaling in vivo, we evaluated the structural changes of MCC and differentially expressed proteins induced by reducing functional loading in rat MCC at developmental stages. Isobaric tag for relative and absolute quantitation-based 2D nano-high performance liquid chromatography (HPLC) and matrix-assisted laser desorption/ionization time-of-flight/ time-of-flight (MALDI-TOF/TOF) technologies were used. Global protein profiling, KEGG and PANTHER pathways, and functional categories were analyzed. Consequently, histological and tartrate-resistant acid phosphatase staining indicated the altered histological structure of condylar cartilage and increased bone remodeling activity in hard-diet group. A total of 805 differentially expressed proteins were then identified. GO analysis revealed a significant number of proteins involved in the metabolic process, cellular process, biological regulation, localization, developmental process, and response to stimulus. KEGG pathway analysis also suggested that these proteins participated in various signaling pathways, including calcium signaling pathway, gap junction, ErbB signaling pathway, and mitogen-activated protein kinase signaling pathway. Collagen types I and II were further validated by immunohistochemical staining and Western blot analysis. Taken together, the present study provides an insight into the molecular mechanism of regulating condylar growth and remodeling induced by reducing dietary loading at the protein level.

关键词： condylar cartilage     mechanical loading     proteomic analysis     iTRAQ     bioinformatics analysis    

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标题 作者 时间 类型 操作

Epigenetic dysregulation in hepatocellular carcinoma: focus on polycomb group proteins

null

期刊论文

Novel engineered proteins for mechanomaterials

Giuseppe Portale

期刊论文

Paradoxical role of Id proteins in regulating tumorigenic potential of lymphoid cells

null

期刊论文

Caveolin proteins: a molecular insight into disease

null

期刊论文

A review of intelligent optimization for group scheduling problems in cellular manufacturing

期刊论文

Changes in structure and functional properties of whey proteins induced by high hydrostatic pressure:

Xiaoming LIU, Jia NING, Stephanie CLARK,

期刊论文

Cross-sectional network analysis of plasma proteins/metabolites correlated with pathogenesis and therapeutic

期刊论文

Emergence mechanisms of group consensus in social networks

期刊论文

Proteome comparisons reveal influence of different dietary proteins on the development of rat jejunum

Mengjie LI, Chunbao LI, Shangxin SONG, Xinglian XU, Guanghong ZHOU

期刊论文

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

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

期刊论文

Fate of proteins of waste activated sludge during thermal alkali pretreatment in terms of sludge protein

Xiaoli Song, Zhenghua Shi, Xiufen Li, Xinhua Wang, Yueping Ren

期刊论文

reduces IgE binding ability of allergenic egg white proteins

Sen LI, Marina OFFENGENDEN, Michael G. GÄNZLE, Jianping WU

期刊论文

Spatiotemporal expression of Ezh2 in the developing mouse cochlear sensory epithelium

null

期刊论文

Tribological mechanism of carbon group nanofluids on grinding interface under minimum quantity lubrication

期刊论文

iTRAQ-based quantitative proteomic analysis on differentially expressed proteins of rat mandibular condylar

null

期刊论文