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Search Results: 1 - 10 of 27765 matches for " Yuting Hu "
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Microarray Meta-Analysis of RNA-Binding Protein Functions in Alternative Polyadenylation
Wenchao Hu, Yuting Liu, Jun Yan
PLOS ONE , 2014, DOI: 10.1371/journal.pone.0090774
Abstract: Alternative polyadenylation (APA) is a post-transcriptional mechanism to generate diverse mRNA transcripts with different 3′UTRs from the same gene. In this study, we systematically searched for the APA events with differential expression in public mouse microarray data. Hundreds of genes with over-represented differential APA events and the corresponding experiments were identified. We further revealed that global APA differential expression occurred prevalently in tissues such as brain comparing to peripheral tissues, and biological processes such as development, differentiation and immune responses. Interestingly, we also observed widespread differential APA events in RNA-binding protein (RBP) genes such as Rbm3, Eif4e2 and Elavl1. Given the fact that RBPs are considered as the main regulators of differential APA expression, we constructed a co-expression network between APAs and RBPs using the microarray data. Further incorporation of CLIP-seq data of selected RBPs showed that Nova2 represses and Mbnl1 promotes the polyadenylation of closest poly(A) sites respectively. Altogether, our study is the first microarray meta-analysis in a mammal on the regulation of APA by RBPs that integrated massive mRNA expression data under a wide-range of biological conditions. Finally, we present our results as a comprehensive resource in an online website for the research community.
Literature Review of Strategic Transformation—Based on the Literature Supported by the National Natural Science Fund and the National Social Science Fund of China  [PDF]
Yuting Wu
American Journal of Industrial and Business Management (AJIBM) , 2018, DOI: 10.4236/ajibm.2018.82015
Abstract: Chinese enterprises have entered to the speed competition instead of the scale competition; the enterprises can match with the dynamic environment better through strategic transformation. In this paper, we selected 51 literatures about enterprise strategic transformation from the “national natural science fund” and “national social science fund”, and based on this 51 literatures, we analyze these literatures in terms of the concept, motivation, transformation process and the result of strategic transformation, analyze the current research situation and research deficiencies of the existing research, prospect the future research, in order to provide guidance to Chinese enterprises and scholars.
PARP-1 Val762Ala Polymorphism Is Associated with Risk of Cervical Carcinoma
Feng Ye, Qi Cheng, Yuting Hu, Jing Zhang, Huaizeng Chen
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0037446
Abstract: PARP-1 is a nuclear enzyme that plays an important role in DNA repair, recombination, proliferation and the genome stability. The PARP-1 Val762Ala polymorphism has been associated with increased risk of developing cancers of the prostate, esophagus and lung. The aim of this study was to determine whether the PARP-1 Val762Ala polymorphism is associated with the risk of cervical carcinoma. MA-PCR was used to genotype the PARP-1 Val762Ala polymorphism in 539 women with cervical carcinoma, 480 women with CIN and 800 controls. The genotyping method was confirmed by the DNA sequencing analysis. The PARP-1 Val762Ala polymorphism was not associated with the risk of CIN. However, women carrying the PARP-1 Ala762Ala genotype were significantly susceptible to cervical carcinoma (OR: 2.70, 95% CI: 1.47–3.70), and the similar results were also found in squamous cell carcinoma (OR: 2.56, 95% CI: 1.47–3.70). In HPV positive population, the PARP-1 Ala762Ala genotype was also associated with increased risk of cervical carcinoma (OR: 5.56, 95% CI: 2.08–14.3). Our results indicate that the PARP-1 Ala762Ala genotype increases the risk of cervical carcinoma.
Alterations of dendritic cell subsets in the peripheral circulation of patients with cervical carcinoma
Feng Ye, Yan Yu, Yuting Hu, Weiguo Lu, Xing Xie
Journal of Experimental & Clinical Cancer Research , 2010, DOI: 10.1186/1756-9966-29-78
Abstract: Cervical carcinoma (CC) is the second most common cancer among women worldwide. Approximately 371,200 new cases are diagnosed each year, and nearly 200,000 deaths are attributable to the disease [1-4]. Cervical carcinoma and its precursor lesions, cervical intraepithelial neoplasia (CIN), are virus-related neoplasms. As such, their initiation and promotion is associated with persistent infection by oncogenic human papillomavirus (HPV) [5,6]. Although early stage cervical carcinoma can be cured by radical surgery or radiotherapy with similar effectiveness [7], up to 35% of patients will develop advanced metastatic disease [8] for which treatment results are poor. Immunotherapeutic agents may provide a novel therapeutic strategy for the treatment of recurrent and metastatic disease. Cervical carcinoma patients obviously fail to mount an efficient cytotoxic T cell response against HPV antigens. This is probably due to low expression levels of both viral protein and MHC molecules [9,10] as well as to lack of costimulatory molecules crucial for naive T cell priming by the tumor cells [11]. For these reasons, current research aims to develop more efficient immunotherapy to stimulate an antitumor immune response. In this context, one approach toward developing an effective immunotherapeutic regime for cervical carcinoma may be through the manipulation of antigen-presenting cells, such as dendritic cells (DCs). DCs are potent, professional antigen-presenting cells which can initiate a primary immune response to antigens by naive T cells [12]. Several lines of evidence suggest that DCs loaded with various tumor antigens, such as tumor fragments or antigen peptides, or with antigen genes by way of retrovirus or adenovirus vectors, are capable of activation and expansion of tumor-specific T cells in vitro [5,13-15]. To date, only a few clinical trials of DC vaccination have been reported in cancer patients, with disappointing results. In addition to the immunodeficiency of the
Degradation of pyrene and characterization ofSaccharothrix sp. PYX-6 from the oligotrophic Tianchi Lake in Xinjiang Uygur Autonomous Region, China
Yuting Hu,Fenghua Ren,Peijin Zhou,Min Xia,Shuangjiang Liu
Chinese Science Bulletin , 2003, DOI: 10.1007/BF03182854
Abstract: Bacterial strain PYX-6 that utilizes anthracene, phenanthrene, or pyrene for carbon and energy sources for growth was isolated from a non-polluted lake (Tianchi Lake) in Xinjiang Uygur Autonomons Region of China. Its morphology, physiological and biochemical properties, cell wall pattern and G+C mol% content of DNA molecules were characterized. The 16S rRNA gene of strain PYX-6 was sequenced and analyzed for similarities to related bacterial species. Results indicated that strain PYX-6 is a member of the GenusSaccharothrix, and the strain was namedSaccharothrix sp. PYX-6. When pyrene was the sole carbon source in cultural medium, the strain PYX-6 assimilated pyrene for growth and 0.005% of yeast extract stimulated pyrene degradation and assimilation. The optimal pH of cultural medium and the optimal shaking frequency during cultivation were 6–8 and 200 r/m, respectively. It was found that the disappearance of pyrene in medium occurred before significant growth of strain PYX-6 took place. Phthalic acid, benzylacetic acid, and benzylpropenoic acid were detected as catabolic intermediates during pyrene degradation with mass spectroscopy and this result indicated thatSaccharothrix sp. PYX-6 adopted a pathway that is different from the pathway of the previously reported pyrene-degradingMycobacterium sp. PYR-1.
Ground State Degeneracy in the Levin-Wen Model for Topological Phases
Yuting Hu,Spencer D. Stirling,Yong-Shi Wu
Physics , 2011, DOI: 10.1103/PhysRevB.85.075107
Abstract: We study properties of topological phases by calculating the ground state degeneracy (GSD) of the 2d Levin-Wen (LW) model. Here it is explicitly shown that the GSD depends only on the spatial topology of the system. Then we show that the ground state on a sphere is always non-degenerate. Moreover, we study an example associated with a quantum group, and show that the GSD on a torus agrees with that of the doubled Chern-Simons theory, consistent with the conjectured equivalence between the LW model associated with a quantum group and the doubled Chern-Simons theory.
Emergent Exclusion Statistics of Fibonacci Anyons in 2D Topological Phases
Yuting Hu,Spencer D. Stirling,Yong-Shi Wu
Physics , 2013, DOI: 10.1103/PhysRevB.89.115133
Abstract: We demonstrate how the generalized Pauli exclusion principle emerges for quasiparticle excitations in 2d topological phases. As an example, we examine the Levin-Wen model with the Fibonacci data (specified in the text), and construct the number operator for fluxons living on plaquettes. By numerically counting the many-body states with fluxon number fixed, the matrix of exclusion statistics parameters is identified and is shown to depend on the spatial topology (sphere or torus) of the system. Our work reveals the structure of the (many-body) Hilbert space and some general features of thermodynamics for quasiparticle excitations in topological matter.
Twisted Quantum Double Model of Topological Phases in Two--Dimension
Yuting Hu,Yidun Wan,Yong-Shi Wu
Physics , 2012, DOI: 10.1103/PhysRevB.87.125114
Abstract: We propose a new discrete model---the twisted quantum double model---of 2D topological phases based on a finite group $G$ and a 3-cocycle $\alpha$ over $G$. The detailed properties of the ground states are studied, and we find that the ground--state subspace can be characterized in terms of the twisted quantum double $D^{\alpha}(G)$ of $G$. When $\alpha$ is the trivial 3-cocycle, the model becomes Kitaev's quantum double model based on the finite group $G$, in which the elementary excitations are known to be classified by the quantum double $D(G)$ of $G$. Our model can be viewed as a Hamiltonian extension of the Dijkgraaf--Witten topological gauge theories to the discrete graph case with gauge group being a finite group. We also demonstrate a duality between a large class of Levin-Wen string-net models and certain twisted quantum double models, by mapping the string--net 6j symbols to the corresponding 3-cocycles. The paper is presented in a way such that it is accessible to a wide range of physicists.
Full Dyon Excitation Spectrum in Generalized Levin-Wen Models
Yuting Hu,Nathan Geer,Yong-Shi Wu
Mathematics , 2015,
Abstract: In Levin-Wen (LW) models, a wide class of exactly solvable discrete models, for two dimensional topological phases, it is relatively easy to describe single fluxon excitations, but not the charge and dyonic as well as many-fluxon excitations. To incorporate charged and dyonic excitations in (doubled) topological phases, a generalization of the LW models is proposed in this paper. We first enlarge the Hilbert space with adding a tail on one of the edges of each trivalent vertex, to describe its internal charge degrees of freedom. Then we study the full dyon spectrum of generalized LW models, including both quantum numbers and wave functions for dyonic quasiparticle excitations. The local operators associated with the dyonic excitations are shown to form the so-called Tube algebra, whose representations (modules) form the quantum double (categoric center) of the input data (unitary fusion category). In physically relevant cases, the input data is from a finite or quantum group (with braiding $R$-matrices), we find that the elementary excitations (or dyon species), as well as any localized/isolated excited states, are characterized by three quantum numbers: charge, fluxon type, and twist. They provide a "complete basis" for many-body states in the enlarged Hilbert space. Concrete examples are presented and the relevance of our results to the electric-magnetic duality is discussed.
Matrix Inversion-Less Signal Detection Using SOR Method for Uplink Large-Scale MIMO Systems
Xinyu Gao,Linglong Dai,Yuting Hu,Zhongxu Wang,Zhaocheng Wang
Mathematics , 2015,
Abstract: For uplink large-scale MIMO systems, linear minimum mean square error (MMSE) signal detection algorithm is near-optimal but involves matrix inversion with high complexity. In this paper, we propose a low-complexity signal detection algorithm based on the successive overrelaxation (SOR) method to avoid the complicated matrix inversion. We first prove a special property that the MMSE filtering matrix is symmetric positive definite for uplink large-scale MIMO systems, which is the premise for the SOR method. Then a low-complexity iterative signal detection algorithm based on the SOR method as well as the convergence proof is proposed. The analysis shows that the proposed scheme can reduce the computational complexity from O(K3) to O(K2), where K is the number of users. Finally, we verify through simulation results that the proposed algorithm outperforms the recently proposed Neumann series approximation algorithm, and achieves the near-optimal performance of the classical MMSE algorithm with a small number of iterations.
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