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检索条件"主题词=protein-protein interaction"

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The Cablesl protein complex couples survival signaling to cell death machinery

The Cablesl protein complex couples survival signaling to ce...

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细胞—生命的基础——中国细胞生物学学会2013年全国学术大会·武汉

作者：石智程科军 Haian Fu Fadlo RKhuri 暨南大学生命科学技术学院细胞生物系/生物医药研究院丽水市农业科学研究院化学生物学中心 Emory大学医学院药理系/血液及医学肿瘤科

Cables 1 is a candidate tumor suppressor and functions as a negative regulator of cell growth through inhibition of ***,loss of Cables 1 expression has been observed with high frequency in many ***,little is known about how Cables 1 itself is *** we report that Cables1 is regulated by a phosphorylation-dependent,14-3-3-mediated *** studies

关键词： Tumor protein-protein interaction Cables1 14-3-3 Akt

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Identification of potential crucial genes associated with WNT-activity of colorectal cancer based on gene expression profile

Identification of potential crucial genes associated with WN...

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2018年浙江省医学遗传学学术年会

作者： Xuezi Tu Shuwei Ren Xuejian Tu Zhenyu Wang Lingjun Zhang Huanli Wang Longjin Jin Wenzhou Medical University School of Laboratory Medicine and Life Sciences Wenzhou City Third People's Hospital Shandong Qianfoshan Hospital People's Hospital of Ningyang County

Purpose:Wnt signaling is closely related to colorectal cancer,high Wnt activity sustains colorectal cancer stem cell(CSC) precursors during the transition from colitis to cancer,leading the development and progression of colorectal ***,it’ s necessary to identify differentially expressed genes(DEGs) of different Wnt activity and to find the potential targets of colorectal CSCs for overcoming colorectal ***:DEGs of different Wnt activity were screened out by GE02 ***,gene ontology(GO) and pathway enrichment analysis were carried out by DAVID ***,the protein-protein interaction network was constructed by STRING *** plug-in Cyto-hubba was used to get the algorithms of PPI network in *** then chose proteins with higher algorithm scores among 12 algorithms and use Funrich to get the common hub genes including FGA,A2 M,IGF1,TGFB2,PDGFB,and ***,by different analysis between colorectal cancer and normal tissues,we got the common genes relative mRNA expression from Oncomine ***:Among three databases GSE32408,GSE17375 and GSE33112,a total of 102 common DEGs,such as TIAM1,A2 M and MMP13 were screened *** functional enrichment analysis showed that the genes were associated with immunity,extracellular items,and binding-related *** pathway analysis was related to Pathways in cancer,Gap junction,and Proteoglycans in ***-protein interaction network construction revealed that common hub genes,including FGA,A2 M,IGF1,TGFB2,PDGFB,and *** their mRNA expression levels were significantly higher in colorectal cancer than in normal colon tissues,which revealed they may play important role in the progression of colorectal ***:In summary,we found 102 DEGs and hub genes that might explain the mechanisms of different Wnt activity as well as the characteristics of CSCs,which may play important role in the progression of colorectal cancer.

关键词： Wnt activity Differentially expressed genes Function enrichment analysis protein-protein interaction Colorectal cancer

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An algorithm to measuring protein curvature based on the protein SES atoms

An algorithm to measuring protein curvature based on the pro...

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第五届全国生物信息学与系统生物学学术大会暨国际生物信息学前沿研讨会高通量时代的生物信息学与系统生物学

作者： Yujiao Yan Xiaofeng Song Department of Biomedical Engineering Nanjing University of Aeronautics and Astronautics

Molecular surface plays an important role in analyzing protein molecular structure and *** of protein-protein interaction sites using surface curvature and shape index is an important method to study the protein function based on molecular structure. Therefore,accurate calculations of molecular curvature are *** paper presents an algorithm to measuring protein surface curvature based on the protein molecular surface *** calculates the normal vectors of surface atoms through the rational modeling from the SES,and then obtains the curvature and shape index of the molecular surface *** these parameters,we can identify the convex surfaces and concave *** results can be directly displayed on the SES model and colored according to shape index values,we can intuitively observe the protein-protein interaction sites and the shape of ligands binding to the *** provides the key clues to predicting the protein docking and new drugs research.

关键词： protein molecular surface curvature shape index protein-protein interaction docking

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Discovery of novel Toll-like Receptor (TLR) 8 antagonists

Discovery of novel Toll-like Receptor (TLR) 8 antagonists

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第十届全国化学生物学学术会议

作者： Shuangshuang Jiang Shuting Zhang Kejun Yin Yi Yang Hang Yin Center of Basic Molecular Science (CBMS) Department of Chemistry Tsinghua University

Toll-like receptors(TLRs) arc highly conserved transmembrane proteins which detect pathogen-associated molecular patterns(PAMPs) and danger-associated molecular patterns(DAMPs),and they play a vital role in the innate immune *** dysregulation of toll-like receptor signaling pathway can lead to various diseases,and TLR8 antagonists can potentially be used in the treatment of rheumatoid arthritis(RA)and systemic lupus erythematosus(SLE).However,no specific small molecule of TLR8 antagonist have been reported yet since TLR7 and TLRS proteins belong to a subfamily with highly similar structure,which results in the great challenges in the development of selective *** this study,we discover a potent,specific TLRS small molecule antagonist with an IC of 0.29 μM in HEK-Blue hTLRS cell,further structure-activity relationships(SAR) study leading to the identification of compound TH-48 with an ICof 38 ***,we demonstrate that compound TH-48 can inhibit R848-induced production of die pro-inflammatory cytokines(TNF-α,IL-6 and IL-1β) in a dose dependent manner in THP-1 *** conclusion,we have successfully developed a series of novel TLR8 small molecule antagonists with high inhibitory activity and selectivity which not only provides a much-needed molecular probe for studying protein-protein interaction,but also could be potential pharmaceutical candidates for treatment of TLR8-related inflammatory diseases.

关键词： TLR8 antagonist protein-protein interaction inflammatory diseases

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A knowledge-based approach for KEGG pathway expansion by enrichment analysis of GO terms

A knowledge-based approach for KEGG pathway expansion by enr...

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第五届全国生物信息学与系统生物学学术大会暨国际生物信息学前沿研讨会高通量时代的生物信息学与系统生物学

作者： Xiaolei Zhao Shaoqi Rao Institute of Medical Systems Biology and School of Public Health Guangdong Medical College

Background:Pathway databases,especially KEGG,have been widely used as a reference knowledge base for biomedical scientists to interpret their experimental ***, our knowledge about the existing biological pathways is incomplete and a large number of pathways have to be further *** pathway expansion offers us a cheap and reliable way to take the challenging *** developed approaches,which rely on analysis of large-scale datasets generated by genome sequencing and other high-throughput experiments, are limited by across-studies variations and information provided by single *** this study,we proposed a pathway expansion algorithm by systematic learning of functional knowledge bases(PPI and GO) for genes(their products) and their relations with others. Methods:In essence,pathway expansion is equivalent to test whether a target gene belongs to a specific pathway(s) or ***,we identified all the interacting genes with the target gene,by using two large protein-protein interaction databases,HPRD and BioGRID. Then,we identified all the candidate KEGG pathways that these interacting genes belong to. Finally,for each candidate pathway,all the contained genes and the target gene were subject to enrichment analysis at each GO term of the target *** claimed that the target gene belongs to the candidate pathway if all GO terms of the target gene were enriched with the genes of this pathway. Results:The proposed knowledge-based approach achieved excellent performance in predicting a gene’s pathway,based on either of two PPI *** average consistent rate (defined as the proportion of the right predicted pathways in the total annotated pathways) was increased with the number of interacting genes,and reached to the highest value of 0.95 when the number of interacting genes was ***,the relative precision rates(RP,defined as the proportion of genes which all the annotated pathway(s) of them are right predict

关键词： protein-protein interaction pathway prediction gene ontology enrichment analysis

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Molecular regulation of ZmMs7 required for maize male fertility and development of a dominant male-sterility system in multiple species

Molecular regulation of ZmMs7 required for maize male fertil...

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第十九届中国作物学会学术年会

作者： Xueli An Biao Ma Meijuan Duan Zhenying Dong Dingyang Yuan Quancan Hou Suowei Wu Danfeng Zhang Dongcheng Liu Dong Yu Yuwen Zhang Ke Xie Taotao Zhu Ziwen Li Simiao Zhang Youhui Tian Chang Liu Jinping Li Longping Yuan Xiangyuan Wan Zhongzhi International Institute of agricultural Biosciences Biology and Agriculture Research Center University of Science and Technology Beijing State Key Laboratory of Hybrid Rice Hunan Hybrid Rice Research Centre

【Background】Heterosis is a phenomenon in which heterozygous hybrid progeny are superior to both homozygous parents and can offer 20% to over 50% yield increases in various crops. Understanding the molecular basis of male sterility and developing practical male-sterility systems are essential for heterosis utilization and commercial hybrid seed production in crops. The male gamete development is a well-orchestrated process;any disturbance may thus lead to male sterility. Genic male sterility(GMS) is caused by nuclear genes alone and more than 100 GMS genes have been identified in plants now. Zm Ms7 is a GMS gene and encodes a PHD-finger transcription factor(TF);is a key regulator of postmeiotic anther development in maize. The precise molecular mechanism of transcriptional regulation by ZmMs7 remains unknown. Here, we investigate molecular mechanism of Zm Ms7 for regulating anther and pollen development, and construct a dominant male-sterility(DMS) system that is proved to be effective in maize, rice, and Arabidopsis. 【Method】We used an integrated approach of cytological observation, RNA-seq, lipidomic analysis, gene expression analysis, dual-luciferase assay, subcellular localization, protein-protein interaction, protein-DNA interaction assays and plant transformation to characterize the function of Zm Ms7 and develop a dominant male-sterility system in multiple species. 【Results】Zm Ms7 is specifically expressed in maize anthers, encodes a plant homeodomain(PHD) finger protein that functions as a transcriptional activator, and plays a key role in tapetal development and pollen exine formation. ZmMs7 can interact with maize nuclear factor Y(NF-Y) subunits to form ZmMs7-NF-YA6-YB2-YC9/12/15 protein complexes that activate target genes by directly binding to CCAAT box in their promoter regions. Premature expression of Zm Ms7 in maize by an anther-specific promoter p5126 results in dominant and complete male sterility but normal vegetative growth and female fertility. E

关键词： Zm Ms7 PHD finger protein-protein interaction dominant male-sterility system

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Analysis of differentially expressed microR NAs and genes in cervical cancer using an integrated bioinformatics analysis

Analysis of differentially expressed microR NAs and genes in...

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中国生物化学与分子生物学会2016年全国学术会议

作者： Zhanzhan Xu Yu Zhou Min Zhao Department of Biomedical Engineering School of Basic Medical Sciences Wuhan University

To identify micro RNAs and m RNA associated with carcinogenesis of cervical cancer and investigate the molecular mechanisms of cervical cancer,a micro RNA microarray GSE30656 and three m RNA microarrays GSE63514,GSE39... 详细信息

关键词： cervical cancer differentially expressed genes protein-protein interaction enrichment analysis

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Angiogenin Enhances Cell Migration by Regulating Stress Fiber Assembly and Focal Adhesion Dynamics

Angiogenin Enhances Cell Migration by Regulating Stress Fibe...

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第七届全国医学生物化学与分子生物学和第四届全国临床应用生物化学与分子生物学联合学术研讨会暨医学生化分会会员代表大会

作者： Saisai Wei Xiangwei Gao Juan Du Jinfeng Su Zhengping Xu Research Center for Environmental Genomics Zhejiang University School of Medicine College of Life Science Zhejiang University

Angiogenin(ANG) is an angiogenic factor which also promotes tumor cell proliferation ***, the underlying molecular mechanisms remain ***-protein interactions play crucial roles in biological processes,therefore,we reason that identifying ANG-ineracting proteins is a feasible way to elucidate ANG’s biological functions and mechanism of action. We have identified ANG-interacting proteins in HeLa cells using co-immunoprecipitation(Co-IP) coupled with mass spectrum(MS) *** results showed 14 potential ANG-binding partners,two of which had been *** annotation revealed non-muscle myosin heavy chain 9(MYH9),a-actinin 4 (ACTN4),and P-actin(ACTB) to be involved in actin cytoskeleton regulations and cell *** interactions between these three proteins and ANG were confirmed by immunoprecipitation assay,and suggest the possibility that ANG is involved in the *** the coordination of cytoskeleton dynamics and cell-matrix adhesion is particularly important for cell migration,potential ANG functions in the two processes may explain how the protein promotes cell *** verify this hypothesis,we first identified the co-localization of ANG with actin cytoskeleton proteins and found that ANG bond to actin cytoskeleton proteins at the leading edges of migrating ***,we stained F-actin with TRITC-conjugated phalloidin,focal adhesion with paxillin antibody,and detected phosphorylated-FAK levels using Western-blot when ANG was *** showed that the formation of stress fibres was enhanced,focal adhesions were enlarged,and *** was inhibited in ANG down-regulated *** last,we used wound healing assay and time-lapse videomicroscopy to determine the migration speed,and found that migration was retarded in ANG down-regulated ***,our data suggested that ANG might regulate actin cytoskeleton dynamics and cell adhesion through interacting with cytoskeleton proteins,thus promote cell

关键词： Angiogenin protein-protein interaction stress fiber focal adhesion cell migration

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Development of a Refined Benchmark for Assessing Scoring Functions Used in protein-protein Docking

Development of a Refined Benchmark for Assessing Scoring Fun...

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中国化学会-生物物理化学专业委员会第四届全国生物物理化学会议

作者：韩莉刘志海李嫣李婕王任小 State Key Laboratory of Bioorganic and Natural Products Chemistry Shanghai Institute of Organic ChemistryChinese Academy of Sciences

Scoring functions are dispensable for the success of protein-protein docking methods. They need to be evaluated on some high-quality benchmarks to recognize their strength and weakness. Current benchmarks for evaluating protein-protein docking protocols have certain limitations for this purpose. We thus aimed at establishing a new refined benchmark particularly for evaluating protein-protein scoring functions. Our benchmark, namely CASF-PPI-2015, is based on a non-redundant set of 273 protein-protein complexes. These complexes were selected through a systematic sampling of the entire protein Data Bank. Experimentally measured binding data of these complexes were all curated from original references. A series of quality-control checks were conducted in selection of these complexes to ensure that their structures and binding data do not have obvious problems. By our evaluation methods, the performance of a scoring function is measured in two basic aspects, i.e. "docking power" and "scoring power". Four composite scoring functions, including ATTRACT, dDFIRE, FASTCONTACT and ZRANK, were tested on our benchmark as examples. ATTRACT and ZRANK exhibited promising performance in the docking power test. However, all four scoring functions failed badly in the scoring power test. Our benchmark is freely available to the public. We hope that it will become a valuable community resource.

关键词： protein-protein interaction Scoring function protein-protein benchmark

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Unfolding and Refolding Details of Lysozyme in the Presence of β-Casein Micelles

Unfolding and Refolding Details of Lysozyme in the Presence ...

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第一届全国生物物理化学会议暨生物物理化学发展战略研讨会

作者：吴富根罗俊杰尉志武 Department of Chemistry Tsinghua University

＜正＞We are interested in understanding the role electrostatics play in the self-assembly of protein complexes. Specifically,under what conditions and at which strength do the electrostatics affect the protein-protein interactions? To this end,we selected a small globular protein,lysozyme,to study how it unfolds and refolds in the presence of micelles composed of the unstructuredβ-casein proteins by using

关键词： lysozyme β-casein electrostatics unfolding/refolding protein-protein interaction

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