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Search Results: 1 - 10 of 23938 matches for " Xiaobo Zheng "
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An Integrated Control Strategy Adopting Droop Control with Virtual Inductance in Microgrid  [PDF]
Jianjun Su, Jieyun Zheng, Demin Cui, Xiaobo Li, Zhijian Hu, Chengxue Zhang
Engineering (ENG) , 2013, DOI: 10.4236/eng.2013.51B008
Abstract: As there exists sorts of distributed generators in microgrid, an integrated control strategy containing different control methods against corresponding generators should be applied. The strategy in this paper involves PQ control and droop control methods. The former aims at letting generators like PV output maximum power. The latter stems from inverter parallel technique and applies to controlling generators which can keep the network voltage steady to make the parallel system reach the minimum circulation point. Due to the unworthiness of droop control applied in low-voltage microgrid of which the impedance ratio is rather high, the paper adopts the droop control introducing virtual generator and virtual impedance. Based on theoretical analysis, simulation in Matlab is also implemented to verify the feasibility of the strategy.
NSMAP: A method for spliced isoforms identification and quantification from RNA-Seq
Zheng Xia, Jianguo Wen, Chung-Che Chang, Xiaobo Zhou
BMC Bioinformatics , 2011, DOI: 10.1186/1471-2105-12-162
Abstract: A Nonnegativity and Sparsity constrained Maximum APosteriori (NSMAP) model has been proposed to estimate the expression levels of isoforms from RNA-Seq data without the annotation information. In contrast to previous methods, NSMAP performs identification of the structures of expressed isoforms and estimation of the expression levels of those expressed isoforms simultaneously, which enables better identification of isoforms. In the simulations parameterized by two real RNA-Seq data sets, more than 77% expressed isoforms are correctly identified and quantified. Then, we apply NSMAP on two RNA-Seq data sets of myelodysplastic syndromes (MDS) samples and one normal sample in order to identify differentially expressed known and novel isoforms in MDS disease.NSMAP provides a good strategy to identify and quantify novel isoforms without the knowledge of annotated reference genome which can further realize the potential of RNA-Seq technique in transcriptome analysis. NSMAP package is freely available at https://sites.google.com/site/nsmapforrnaseq. webciteMore than 90% of human genes [1,2] are estimated to be alternatively spliced which leads a single gene to produce multiple proteins with distinct functions and is implicated in many diseases including cancer [3]. In recent years, there is an increasing interest in the use of alternative splicing in developing diagnostic tools and in identifying new therapeutic targets [4]. Microarrays have been widely used to analyze alternative isoforms by combining exon arrays and exon junction arrays to quantify isoform level expression indexes [5,6]. However, array based techniques are encountering several fundamental problems such as cross hybridization and weak signals in junction probes which are difficult to overcome [7]. Ultra high-throughput sequencing of RNA has been developed as an approach for transcriptome analysis in several different species and has offered an attractive approach to measure transcription in a comprehensive
Phytophthora elicitor PB90 induced apoptosis in suspension cultures of tobacco
Rui Ji,Zhengguang Zhang,Yuanchao Wang,Xiaobo Zheng
Chinese Science Bulletin , 2005, DOI: 10.1007/BF02897459
Abstract: The protein elicitor PB90 secreted byPhytophthora boehmeriae is an efficient elicitor inducing the hypersensitive response and systemic acquired resistance in tobacco plants. Here, we observed cell death in suspension-cultured cells ofNicotiana tabacum BY-2 with PB90 treatment using Trypan blue staining method. And this cell death could be suppressed by cycloheximide, an inhibitor of proteins synthesis, which implies that PB90-induced cell death was an active cell death process requiring new protein synthesis. DAPI staining revealed that PB90 induce rapid chromatin condensation, margination, apoptotic bodies’ formation and DNA laddering, further TUNEL assay also observed the specific breakage of 3′-OH ends. All of the above common morphological characteristics indicated that PB90 induced apoptosis in suspension cultures of tobacco, suggesting that hypersensitive response induced by PB90 is an apoptotic process.
Linear sand ridges on the outer shelf of the East China Sea
Ziyin Wu,Xianglong Jin,Jiabiao Li,Yulong Zheng,Xiaobo Wang
Chinese Science Bulletin , 2005, DOI: 10.1007/BF03183643
Abstract: Based on the latest full-coverage high-resolution multi-beam sounding data, the distribution of the linear sand ridges on the outer shelf of the East China Sea (ECS) is studied with quantitative statistical analysis. The study area can be divided into the northeastern part and the southwestern part. Sand ridges in the northeastern area, trending 116°N, show obvious linear character and shrink to the inner shelf. Sand ridges in the southwestern area, trending 120°N–146°N, tend to have net form. Sand ridges gradually become sand sheets in the center part of study area. Sand ridges are distributed landward to the isobath of 60m, distributed seaward to the water depth of 120 m in the northeast and 150 m in the southwest. Immature sand ridges are observed at water depth of 130–180 m in the southwestern depressions. The acoustic reflection properties of the internal high-angle inclined beddings of the sand ridges are analyzed based on the typical seismic profiles close to the research area. Lithological analysis and dating of 4 boreholes and 12 cores indicate that the widely distributed transgressive sand layer with high content of shell debris which was formed in the early-middle Holocene is the main composition of the linear sand ridges on the outer shelf of the ECS. The dominating factor in formation, developing and burying of the sand ridges is the variation of water depth caused by sealevel change and the rate of sediment supply. In 12400 aBP the cotidal lines of the M2 tidal component were closely perpendicular to the strike-directions of the sand ridges in the study area, and the tidal wave system during 12000–8000 aBP might play a key role in the formation of the linear sand ridges which are widely distributed on the outer shelf of the ECS.
Cloning of genes encoding nonhost hypersensitive response-inducing elicitors from Phytophthora boehmeriae
Jun Li,HaiFeng Zhang,ZhengGuang Zhang,YuanChao Wang,XiaoBo Zheng
Chinese Science Bulletin , 2007, DOI: 10.1007/s11434-007-0030-6
Abstract: We have devised a high-throughput functional cloning method to isolate cDNAs from Phytophthora boehmeriae of which the products elicit a hypersensitive response (HR) in tobacco. The cDNAs were cloned into a binary potato virus X (PVX)-based expression vector and transformed into Agrobacterium tumefeciens (Mog101). 4100 colonies were individually toothpick-inoculated onto leaflets of Nicotiana benthamiana. 12 cDNAs were identified whose expression induced formation of a necrotic lesion around the inoculation site. 7 of these clones have different sequences. One of these clones PBC43 encodes specific elicitin. Clone PBC163 encodes a protein highly homologous to Rab; PBC241 encodes a prohibitin protein; PBN62 encodes a Heat Shock Protein 60 (HSP60). The other five cDNAs reveal no homology to known protein and are thus considered novel. These observations suggest that this functional screening method is a versatile strategy to identify cDNAs of pathogens that encode elicitors and other HR-inducing proteins.
A Phytophthora sojae gene of glyceraldehyde-3-phosphate dehydrogenase (GAPDH) induced in host infection and its anti-oxidative function in yeast
Juan Zeng,Yuanchao Wang,Gui Shen,Xiaobo Zheng
Chinese Science Bulletin , 2006, DOI: 10.1007/s11434-006-1316-9
Abstract: Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is a multifunctional protein well defined in eukaryotes, especially in mammalian and Saccharomyces cerevisiae. Using the method of suppression subtractive hybridization (SSH), we identified a Phytophthora sojae cDNA coding GAPDH, which was up-regulated during the early stage of soybean infection. The termed PsGapdh gene possessed three copies in the P. sojae genome. Its amino acid sequence harbored overall conserved domain of GADPH, homologous closest to GapC1 of Achlya bisexualis (oomycete) and adjoined to GapC2s of Odontella sinensis and Phaeodactylum tricornutum (diatom), on the C-II branch of subfamily GapC in phylogeny tree of GAPDH. The transcriptional level of PsGapdh was up-regulated throughout early infection. Heterogenous expression of PsGapdh in the yeast tdh1-deleted mutant could rescue growth arrest under continuous exposure to H2O2. These results indicated active roles of PsGapdh in pathogen-host interaction and anti-oxidation.
Trends in sunshine duration and atmospheric visibility in the Yunnan-Guizhou Plateau, 1961–2005
XiaoBo Zheng,TianLiang Zhao,YuXiang Luo,ChangChun Duan,Juan Chen
寒旱区科学 , 2011,
A Phytophthora sojae gene of glyceraldehyde-3-phosphate dehydrogenase (GAPDH) induced in host infection and its anti-oxidative function in yeast
A Phytophthora sojae gene of glyceraldehyde-3-phosphate dehydrogenase (GAPDH) induced in host infection and its anti-oxidative function in yeast

ZENG Juan,WANG Yuanchao,SHEN Gui,ZHENG Xiaobo,

科学通报(英文版) , 2006,
Prediction of S-Glutathionylation Sites Based on Protein Sequences
Chenglei Sun, Zheng-Zheng Shi, Xiaobo Zhou, Luonan Chen, Xing-Ming Zhao
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0055512
Abstract: S-glutathionylation, the reversible formation of mixed disulfides between glutathione(GSH) and cysteine residues in proteins, is a specific form of post-translational modification that plays important roles in various biological processes, including signal transduction, redox homeostasis, and metabolism inside cells. Experimentally identifying S-glutathionylation sites is labor-intensive and time consuming, whereas bioinformatics methods provide an alternative way to this problem by predicting S-glutathionylation sites in silico. The bioinformatics approaches give not only candidate sites for further experimental verification but also bio-chemical insights into the mechanism of S-glutathionylation. In this paper, we firstly collect experimentally determined S-glutathionylated proteins and their corresponding modification sites from the literature, and then propose a new method for predicting S-glutathionylation sites by employing machine learning methods based on protein sequence data. Promising results are obtained by our method with an AUC (area under ROC curve) score of 0.879 in 5-fold cross-validation, which demonstrates the predictive power of our proposed method. The datasets used in this work are available at http://csb.shu.edu.cn/SGDB.
Using the Support Vector Machine Algorithm to Predict β-Turn Types in Proteins  [PDF]
Xiaobo Shi, Xiuzhen Hu
Engineering (ENG) , 2013, DOI: 10.4236/eng.2013.510B078

The structure and function of proteins are closely related, and protein structure decides its function, therefore protein structure prediction is quite important.β-turns are important components of protein secondary structure. So development of an accurate prediction method ofβ-turn types is very necessary. In this paper, we used the composite vector with position conservation scoring function, increment of diversity and predictive secondary structure information as the input parameter of support vector machine algorithm for predicting theβ-turn types in the database of 426 protein chains, obtained the overall prediction accuracy of 95.6%, 97.8%, 97.0%, 98.9%, 99.2%, 91.8%, 99.4% and 83.9% with the Matthews Correlation Coefficient values of 0.74, 0.68, 0.20, 0.49, 0.23, 0.47, 0.49 and 0.53 for types I, II, VIII, I’, II’, IV, VI and nonturn respectively, which is better than other prediction.

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