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Articles by Yan Zhang
Total Records ( 14 ) for Yan Zhang
  Benjamin F. Tracy and Yan Zhang
  Integrated crop–livestock systems directly link crop and livestock production together to generate positive economic and environmental outcomes. Some methods used in integrated systems, like winter grazing on cropland, could negatively affect soil properties and crop productivity. We compared soil compaction, corn (Zea mays L.) yield, and soil nutrient pools between an integrated crop–livestock system and continuous corn system to address this issue. The study was conducted near Pana, IL, between 2002 and 2006. Soil compaction was evaluated indirectly by measuring soil penetration resistance (PR) and surface CO2 effluxes. Total soil C, N, and microbial biomass C, were measured from 2002 to 2005. Soil PR and CO2 effluxes showed inconsistent trends related to soil compaction and cattle presence. Corn yield from 2004 to 2006 was higher (P = 0.01) in the integrated system (11.6 Mg ha–1) compared with continuous corn (10.6 Mg ha–1). Total soil C concentration increased significantly from 2002 to 2005 within components of the integrated system but remained unchanged in continuous corn. Microbial biomass C was also higher in the integrated system but only in 2005. The study determined that integration of crops with livestock had generally positive effects on crop yield and soil organic matter despite the potential for livestock to compact soil during winter grazing.
  Mayuresh M. Abhyankar , Amelia E. Hochreiter , Jessica Hershey , Clive Evans , Yan Zhang , Oswald Crasta , Bruno W. S. Sobral , Barbara J. Mann , William A. Petri Jr. and Carol A. Gilchrist
  The unicellular eukaryote Entamoeba histolytica is a human parasite that causes amebic dysentery and liver abscess. A genome-wide analysis of gene expression modulated by intestinal colonization and invasion identified an upregulated transcript that encoded a putative high-mobility-group box (HMGB) protein, EhHMGB1. We tested if EhHMGB1 encoded a functional HMGB protein and determined its role in control of parasite gene expression. Recombinant EhHMGB1 was able to bend DNA in vitro, a characteristic of HMGB proteins. Core conserved residues required for DNA bending activity in other HMGB proteins were demonstrated by mutational analysis to be essential for EhHMGB1 activity. EhHMGB1 was also able to enhance the binding of human p53 to its cognate DNA sequence in vitro, which is expected for an HMGB1 protein. Confocal microscopy, using antibodies against the recombinant protein, confirmed its nuclear localization. Overexpression of EhHMGB1 in HM1:IMSS trophozoites led to modulation of 33 transcripts involved in a variety of cellular functions. Of these, 20 were also modulated at either day 1 or day 29 in the mouse model of intestinal amebiasis. Notably, four transcripts with known roles in virulence, including two encoding Gal/GalNAc lectin light chains, were modulated in response to EhHMGB1 overexpression. We concluded that EhHMGB1 was a bona fide HMGB protein with the capacity to recapitulate part of the modulation of parasite gene expression seen during adaptation to the host intestine.
  Yan-Chao Zhao , Jian-Feng Wu , Yan Zhang and Bin Zhou
  With the rapid development of Intelligent Transportation Systems (ITS), traffic controlling and traffic guidance have become a hot research issue. Better traffic controlling can reduce the cost and pollution efficiently. This study researches traffic flow forecasting in Sensornets. First, some observation nodes are proper set and the traffic flow data can be collected. Then wavelet is introduced to reduce the noise of the traffic flow data. Kalman filter is also introduced to forecast the next traffic flow and the result will be more advantageous for traffic controlling. The efficiency and the accuracy of the proposed model are shown in presented numerical examples.
  Yan Zhang , Qingzhong Li , Rui Zhang and Peiguang Lin
  With the fast increasing number of Web databases (WDBs), it is core issue in the study of Web data integration that we should select the most appropriate composition of databases to query and obtain more targeted data at a smaller cost. In this study, in order to reduce redundant data from different sources, we propose a novel method of Web databases redundancy computing to select proper Web data sources for given keywords. To solve the problem, we propose a web database feature representation model, and based on sample data from the sources, we put forward the deep web redundancy computing method considering three different data types: text attribute, numeric attribute and categorical attribute. Experiments show that this method can achieve the desired objectives and can meet the demand to the integrated system very well.
  Yan Zhang , Baoguo Wu and Danjv Lv
  How to leverage the abundant unlabeled data with a few labeled training examples to construct a strong classification system is a focus issue. Both semi-supervised learning and active learning attempt to exploit the unlabeled data to improve the recognition rate of supervised learning algorithms and minimize the cost of data labeling. This paper proposed two approaches,Entropy Priority Sampling (EPS) and Simple Disagreement Sampling (SDS),to select samples in active learning , which are applied into the Tri-Training algorithm as Tri-EPS and Tri-SDS methods. Several experiments with these approaches on the UCI, remote sensing image and environmental audio datasets are carried out in order to illustrate the results of the proposed methods and compare their performance with that of Tri-Training algorithm. Experimental results show that the active learning combined with semi-supervised learning can effectively improve the performance.
  Hong Lin , Yan Zhang , Ming Hou and Yue-lan Wang
  Background: Tetracaine hydrochloride is a topical local anaesthetics used in the treatment of pain associated with minor surgical procedures it also gives relief from pain associated with various localized muscle, joint, post-herpetic neuralgia, arthritis and haemorrhoids. Objective: The present study is designed to prepare and evaluate transdermal patches of tetracaine hydrochloride to deliver drug for a longer period of time to circumvent severe pain after surgical procedures. Methodology: Transdermal patches of tetracaine hydrochloride were prepared by solvent casting method. The prepared patches were evaluated for the various evaluation parameters like thickness, surface pH, weight uniformity, content uniformity, folding endurance, swelling index, in vitro drug release study, in vitro test for mucoadhesion and in vivo studies. Results: All the formulations exhibited acceptable physical properties. In ex vivo drug diffusion study the patches exhibited controlled release upto 24 h. The formulation Th3 (containing EC, SCMC and PVP) showed the best performance in the ex vivo drug diffusion with 92.02±1.21% drug release after 24 h. In the clinical study on the patients suffering from the post operative pain it was observed that the Th3 decreased the pain score from 9.89±0.08 to 4.05±0.21 while the gel could decrease the same from 9.80±0.01 to 7.09±1.10 at the end of 24 h post application. Conclusion: It was concluded that the prepared transdermal patches of the tetracaine were having significant effect as compared to the tetracaine gel used conventionally.
  Ge Yang , Zi Wang , Shen Ren , Xiao-tong Yan , Xing-yue Xu , Jun-nan Hu , Yan Zhang and Wei Li
  Background and Objective: Acetaminophen (APAP)-induced hepatotoxicity is a severe public health problem in western countries. Current treatment methods for poisoning are limited and novel therapeutic strategies are needed. The aim of the present study was to investigate the protective effect of ginsenosides from the fruits of Panax ginseng (GFG)against APAP-induced liver injury in mice and its potential molecular mechanisms of action. Materials and Methods: In this study, mice were orally administered with 150 or 300 mg kg–1 of GFG for 7 consecutive days, followed by a single injection of APAP (250 mg kg–1). Severe liver injury was observed after 24 h APAP injection and the protective effect of GFG was assessed. Results: The results showed that pre-treatment with GFG reduced the levels of serum aspartate aminotransferase (AST) and alanine aminotransferase (ALT). Moreover, GFG showed anti-oxidant activities characterized by reducing hepatic MDA contents and increasing hepatic SOD and GSH levels, accompanied by inhibiting expression level of 4-HNE. Likewise, GFG decreased APAP-induced the expression of cytochrome P450 E1 (CYP2E1). Pre-treatment with GFG significantly inhibited pro-inflammatory factors tumor necrosis factor α (TNF-α), interleukin-1β (IL-1β), Bax, Bcl-2 and cyclooxygenase-2 (COX-2) levels expression of which contributed to ameliorating APAP caused hepatotoxicity. Furthermore, liver histopathological observation provided further evidence that GFG pretreatment significantly inhibited APAP-induced hepatocyte necrosis, inflammatory cell infiltration. Conclusion: The present study clearly showed that GFG exerted a protective effect against APAP-induced hepatotoxicity due to its anti-oxidant, anti-apoptotic and anti-inflammatory effects.
  Boyang Yu , Fenhua Luo , Taodi Liu , Daiyan Liu , Linhong Liu , Yan Zhang and Yingji Wu
  Successful spermatogonial stem cells transplantation is largely dependent on the preparation of the recipient. In the present study, to acquire more efficient rat recipients, the response of pregnant female rats to treatment with 7.5-12.5 mg busulfan per kg of body weight was determined in terms of the birth rate, survival rate, body weight, testicular mass, histology, expression of certain germ cell genes as measured by real time PCR and fertility rate of male offspring. The analysis suggested that a dosage of 10 mg busulfan per kg administered to pregnant female rats at 13.5 day post pregnancy effectively prepares male pups to be recipients because it leads to the maximal deletion of endogenous spermatogonial stem cells with minimal effects on the recipientsí health.
  Yan Zhang , Cheng-Gang Zhu , Rui-Xia Xu , Sha Li , Yuan-Lin Guo , Jing Sun and Jian-Jun Li


Both proprotein convertase subtilisin/kexin type 9 (PCSK9) and fibrinogen have been established as novel markers for atherosclerotic diseases. However, no data are available regarding the relationship between circulating PCSK9 and fibrinogen concentration up to now.


To explore the potential link of the circulating PCSK9 concentration to fibrinogen in patients with stable coronary artery disease (CAD).


We studied 219 eligible consecutive patients with angiographically proven stable CAD. Baseline clinical and laboratory data were collected. Plasma PCSK9 concentration was measured by enzyme-linked immunosorbent assay. High-sensitivity C-reactive protein (hs-CRP), erythrocyte sedimentation rate, D-dimer, and albumin were also measured in all subjects as inflammatory markers. The relation of the circulating PCSK9 concentration to fibrinogen was evaluated.


The data indicated that the patients with high PCSK9 concentration tended to have higher fibrinogen levels according to PCSK9 tertiles (P = .037). Spearman correlation analysis revealed a positive relation between plasma PCSK9 concentration and fibrinogen (r = 0.211, P = .002). Additionally, the circulating PCSK9 concentration also correlated positively with total cholesterol, low-density lipoprotein cholesterol, and hs-CRP levels (r = 0.333, P < .001; r = 0.302, P < .001; r = 0.153, P = .023, respectively). In the stepwise multivariate regression analysis, the association between PCSK9 and fibrinogen remained significant (β = 0.168, P = .011) after adjustment for conventional cardiovascular risk factors including lipid profiles, hs-CRP, and D-dimer.


The present study first demonstrated that the circulating PCSK9 concentration was positively associated with fibrinogen in patients with stable CAD, suggesting that the interactions of PCSK9 and fibrinogen in the status of atherosclerosis may need further investigation.

  Yan Zhang , Elise R. Lyver , Eiko Nakamaru-Ogiso , Heeyong Yoon , Boominathan Amutha , Dong- Woo Lee , Erfei Bi , Tomoko Ohnishi , Fevzi Daldal , Debkumar Pain and Andrew Dancis
  In a forward genetic screen for interaction with mitochondrial iron carrier proteins in Saccharomyces cerevisiae, a hypomorphic mutation of the essential DRE2 gene was found to confer lethality when combined with Δmrs3 and Δmrs4. The dre2 mutant or Dre2-depleted cells were deficient in cytosolic Fe/S cluster protein activities while maintaining mitochondrial Fe/S clusters. The Dre2 amino acid sequence was evolutionarily conserved, and cysteine motifs (CX2CXC and twin CX2C) in human and yeast proteins were perfectly aligned. The human Dre2 homolog (implicated in blocking apoptosis and called CIAPIN1 or anamorsin) was able to complement the nonviability of a Δdre2 deletion strain. The Dre2 protein with triple hemagglutinin tag was located in the cytoplasm and in the mitochondrial intermembrane space. Yeast Dre2 overexpressed and purified from bacteria was brown and exhibited signature absorption and electron paramagnetic resonance spectra, indicating the presence of both [2Fe-2S] and [4Fe-4S] clusters. Thus, Dre2 is an essential conserved Fe/S cluster protein implicated in extramitochondrial Fe/S cluster assembly, similar to other components of the so-called CIA (cytoplasmic Fe/S cluster assembly) pathway although partially localized to the mitochondrial intermembrane space.
  Jun-Qiang Zheng , Shi-Jie Han , Yu-Mei Zhou , Fei-Rong Ren , Li-Hua Xin and Yan Zhang
  Microorganisms play a key role in the response of soil ecosystems to the rising atmospheric carbon dioxide (CO2) as they mineralize organic matter and drive nutrient cycling. To assess the effects of elevated CO2 on soil microbial C and N immobilization and on soil enzyme activities, in years 8 (2006) and 9 (2007) of an open-top chamber experiment that begun in spring of 1999, soil was sampled in summer, and microbial biomass and enzyme activity related to the carbon(C), nitrogen (N) and phosphorus (P) cycling were measured. Although no effects on microbial biomass C were detected, changes in microbial biomass N and metabolic activity involving C, N and P were observed under elevated CO2. Invertase and dehydrogenase activities were significantly enhanced by different degrees of elevated CO2. Nitrifying enzyme activity was significantly (P < 0.01) increased in the August 2006 samples that received the elevated CO2 treatment, as compared to the samples that received the ambient treatment. Denitrifying enzyme activity was significantly (P < 0.04) decreased by elevated CO2 treatments in the August 2006 and June 2007 (P < 0.09) samples. β-N-acetylglucosaminidase activity was increased under elevated CO2 by 7% and 25% in June and August 2006, respectively, compared to those under ambient CO2. The results of June 2006 samples showed that acid phosphatase activity was significantly enhanced under elevated CO2. Overall, these results suggested that elevated CO2 might cause changes in the belowground C, N and P cycling in temperate forest soils.
  Guangming Nie , Yan Zhang , Qingfu Guo and Shusheng Zhang
  A simple and label-free electrochemical sensor for detection of DNA hybridization event was obtained based on a novel nanostructured conducting polymer, poly(indole-6-carboxylic acid). This precursor polymer with high electroactivity can be easily prepared by direct electrochemical polymerization of indole-6-carboxylic acid in acetonitrile containing tetrabutylammonium tetrafluoroborate. An 18-mer amino-substituted oligonucleotide (ODN) probe was covalently grafted onto the polymer in a one-step procedure. The performance of this label-free electrochemical DNA sensor was investigated by using cyclic voltammetry (CV) as a readout method. This simple sensor can discriminate one-base mismatched and non-complementary ODN sequences and can be regenerated after a dehybridization step. The dynamic determination range for complementary target ODN was from 3.5 x 10–10 mol L–1 to 2.0 x 10–8 mol L–1 and the corresponding detection limit was 5.79 pmol L–1.
  Yan Zhang , You Zhou , Ulrich Schweizer , Nicolai E. Savaskan , Deame Hua , Jonathan Kipnis , Dolph L. Hatfield and Vadim N. Gladyshev
  Although dietary selenium (Se) deficiency results in phenotypes associated with selenoprotein depletion in various organs, the brain is protected from Se loss. To address the basis for the critical role of Se in brain function, we carried out comparative gene expression analyses for the complete selenoproteome and associated biosynthetic factors. Using the Allen Brain Atlas, we evaluated 159 regions of adult mouse brain and provided experimental analyses of selected selenoproteins. All 24 selenoprotein mRNAs were expressed in the mouse brain. Most strikingly, neurons in olfactory bulb, hippocampus, cerebral cortex, and cerebellar cortex were exceptionally rich in selenoprotein gene expression, in particular in GPx4, SelK, SelM, SelW, and Sep15. Over half of the selenoprotein genes were also expressed in the choroid plexus. A unique expression pattern was observed for one of the highly expressed selenoprotein genes, SelP, which we suggest to provide neurons with Se. Cluster analysis of the expression data linked certain selenoproteins and selenocysteine machinery genes and suggested functional linkages among selenoproteins, such as that between SelM and Sep15. Overall, this study suggests that the main functions of selenium in mammals are confined to certain neurons in the brain.
  Daohong Lin , Erik-Jan Kamsteeg , Yan Zhang , Yan Jin , Hyacinth Sterling , Peng Yue , Marcel Roos , Amy Duffield , Joanna Spencer , Michael Caplan and Wen-Hui Wang
  In the present study, we tested the role of CD63 in regulating ROMK1 channels by protein-tyrosine kinase (PTK). Immunocytochemical staining shows that CD63 and receptor-linked tyrosine phosphatase α (RPTPα) are expressed in the cortical collecting duct and outer medulla collecting duct. Immunoprecipitation of tissue lysates from renal cortex and outer medulla or 293T cells transfected with CD63 reveals that CD63 was associated with RPTPα both in situ and in transfected cells. Expression of CD63 in 293T cells stimulated the phosphorylation of tyrosine residue 416 of c-Src but decreased the phosphorylation of tyrosine residue 527, indicating that expression of CD63 stimulates the activity of c-Src. Furthermore, c-Src was coimmunoprecipitated with RPTPα and CD63 both in 293T cells transfected with CD63 and in lysates prepared from native rat kidney. Potassium restriction had no effect on the expression of RPTPα, but it increased the association between c-Src and RPTPα in the renal cortex and outer medulla. We also used two-electrode voltage clamp to study the effect of CD63 on ROMK channels in Xenopus oocytes. Expression of CD63 had no significant effect on potassium currents in oocytes injected with ROMK1; however, it significantly enhanced the c-Src-induced inhibition of ROMK channels in oocytes injected with ROMK1+c-Src. The effect of CD63 on the c-Src-induced inhibition was not due to a decreased expression of ROMK1 channels, because blocking PTK with herbimycin A abolished the inhibitory effect of c-Src on ROMK channels in oocytes injected with ROMK1+c-Src+CD63. Furthermore, coexpression of CD63 enhanced tyrosine phosphorylation of ROMK1. We conclude that CD63 plays a role in the regulation of ROMK channels through its association with RPTPα, which in turn interacts with and activates Src family PTK, thus reducing ROMK activity.
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