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GeXP analysis

Hui Xie, Yao-Qin Xue, Peng Liu, Peng-Jun Zhang, Sheng-Tao Tian, Zhao Yang, Zhi Guo, Hua-Ming Wang
AIM: In our previous study, we have built a nine-gene ( GPC3 , HGF , ANXA1 , FOS , SPAG9 , HSPA1B , CXCR4 , PFN1 , and CALR ) expression detection system based on the GeXP system. Based on peripheral blood and GeXP, we aimed to analyze the results of genes expression by different multi-parameter analysis methods and build a diagnostic model to classify hepatocellular carcinoma (HCC) patients and healthy people. METHODS: Logistic regression analysis, discriminant analysis, classification tree analysis, and artificial neural network were used for the multi-parameter gene expression analysis method...
January 21, 2018: World Journal of Gastroenterology: WJG
Qing Fan, Zhixun Xie, Zhiqin Xie, Xianwen Deng, Liji Xie, Li Huang, Sisi Luo, Jiaoling Huang, Yanfang Zhang, Tingting Zeng, Sheng Wang, Jiabo Liu, Yaoshan Pang
Foot-and-mouth disease virus (FMDV), Bluetongue virus (BTV), Vesicular stomatitis Virus (VSV), Bovine viral diarrheal (BVDV), Bovine rotavirus (BRV), and Bovine herpesvirus 1 (IBRV) are common cattle infectious viruses that cause a great economic loss every year in many parts of the world. A rapid and high-throughput GenomeLab Gene Expression Profiler (GeXP) analyzer-based multiplex PCR assay was developed for the simultaneous detection and differentiation of these six cattle viruses. Six pairs of chimeric primers consisting of both the gene-specific primer and a universal primer were designed and used for amplification...
2017: PloS One
Jinjin Guo, Shaohui Wang, Wanbang Sun, Yanli Tang, Guangbin Jiang, Mingying Song
Objective To investigate the changes of apoptosis-associated genes in human lung adenocarcinoma cell line A549 after treated by the recombinant human interleukin-24 (rhIL-24) combined with cisplatin (DDP). Methods The mRNA levels of Bax, Bcl-2, survivin, caspase-3, retinoblastoma (Rb) gene, p53 were analyzed by GenomeLab(TM) GeXP genetic analysis system after A549 cells were treated with 160 ng/mL rhIL-24 or 3 μg/mL DDP or 160 ng/mL rhIL-24 combined with 3 μg/mL DDP. Results The rhIL-24 up-regulated the levels of Bax, Rb, caspase-3 mRNAs and down-regulated Bcl-2, survivin mRNAs, but the change of p53 mRNA was not regular...
January 2017: Xi Bao Yu Fen Zi Mian Yi Xue za Zhi, Chinese Journal of Cellular and Molecular Immunology
Alexander S Mikherdov, Mikhail A Kinzhalov, Alexander S Novikov, Vadim P Boyarskiy, Irina A Boyarskaya, Dmitry V Dar'in, Galina L Starova, Vadim Yu Kukushkin
The reaction of cis-[PdCl2(CNXyl)2] (Xyl = 2,6-Me2C6H3) with various 1,3-thiazol- and 1,3,4-thiadiazol-2-amines in chloroform gives a mixture of two regioisomeric binuclear diaminocarbene complexes. For 1,3-thiazol-2-amines the isomeric ratio depends on the reaction conditions and kinetically (KRs) or thermodynamically (TRs) controlled regioisomers were obtained at room temperature and on heating, respectively. In CHCl3 solutions, the isomers are subject to reversible isomerization accompanied with the cleavage of Pd-N and С-N bonds in the carbene fragment XylNCN(R)Xyl...
October 4, 2016: Journal of the American Chemical Society
Ivan Kutyrev, Beth Cleveland, Timothy Leeds, Gregory D Wiens
Flavobacterium psychrophilum (Fp) is the causative agent of bacterial cold water disease (BCWD) which causes appreciable economic losses in rainbow trout aquaculture. We previously reported development of a genetic line, designated ARS-Fp-R that exhibits higher survival relative to a susceptible line, designated ARS-Fp-S, following either laboratory or natural on-farm challenge. The objectives of this study were to determine the temporal kinetics of gene expression between experimentally-challenged ARS-Fp-R and ARS-Fp-S fish and the correlation between gene expression and pathogen load...
November 2016: Fish & Shellfish Immunology
Le Wang, Mengchuan Zhao, Zhongren Shi, Zhishan Feng, Weiwei Guo, Shuo Yang, Lanping Liu, Guixia Li
The GeXP-based assay has recently been developed for simultaneous detection of multiple pathogens. So far, the application of the GeXP assay to test larger clinical samples has hardly been reported. Community-acquired pneumonia (CAP) is the leading cause of death in children worldwide and a substantial proportion of childhood CAP is caused by viruses. Rapid and accurate diagnosis of virus infection is important for the clinical management of CAP. In this study, we explored the GeXP assay for simultaneous detection of 20 types/subtypes of viruses in hospitalized children with CAP...
2016: PloS One
A G Tochilina, I V Belova, I V Solovieva, I S Gorlova, T P Ivanova, V A Zhirnov
AIM: Confirmation of taxonomic position of Lactobacillus fermentum 90 TC-4 strain using phenotypic (classic microbiological, MALDI TOF mass-spectrometry) and genetic (16S rRNA gene segment sequencing and full genome sequencing) methods. MATERIALS AND METHODS: Object of the study--Lactobacillus fermentum 90 TC-4 strains from various collections. Mass-spectrometric analysis was carried out using Autoflex MALDI TOF mass-spectrometer (Bruker Daltonics, Germany), study of biochemical properties of the strain was carried out using API 50 CHL strips (Biomerueux, France), "DNA-sorb B" kitwas used for isolation ofgenome DNA (CRIE, Moscow)...
March 2016: Zhurnal Mikrobiologii, Epidemiologii, i Immunobiologii
Jhi Biau Foo, Latifah Saiful Yazan, Yin Sim Tor, Agustono Wibowo, Norsharina Ismail, Nurdin Armania, Yoke Kqueen Cheah, Rasedee Abdullah
ETHNOPHARMACOLOGICAL RELEVANCE: Dillenia suffruticosa is traditionally used for treatment of cancerous growth including breast cancer in Malaysia. AIM OF THE STUDY: Dillenia suffruticosa is a well-known medicinal plant in Malaysia for the treatment of cancer. Nevertheless, no study has been reported the cytotoxicity of this plant towards MDA-MB-231 triple-negative breast cancer cells. The present study was designed to investigate the mode of cell death and signalling pathways of MDA-MB-231 cells treated with dichloromethane Dillenia suffruticosa root extract (DCM-DS)...
July 1, 2016: Journal of Ethnopharmacology
Chi Young Ok, Rajesh R Singh, Alaa A Salim
Tissues are heterogeneous in their components. If cells of interest are a minor population of collected tissue, it would be difficult to obtain genetic or genomic information of the interested cell population with conventional genomic DNA extraction from the collected tissue. Single-cell DNA analysis is important in the analysis of genetics of cell clonality, genetic anticipation, and single-cell DNA polymorphisms. Single-cell PCR using Single Cell Ampligrid/GeXP platform is described in this chapter.
2016: Methods in Molecular Biology
Takashi Morimoto, Gouranga Biswas, Tomoya Kono, Masahiro Sakai, Jun-Ichi Hikima
Studies on immune response to crystal silica in mammals indicate immune stimulation effect of environmental parameters including silica or asbestos, but there is no information on this aspect in lower vertebrates. Therefore, we examined expression of cytokine genes related to innate immunity in the Japanese pufferfish, Fugu (Takifugu rubripes) head kidney (HK) cells stimulated with particulate silica at 10 and 50 μg mL(-1). Expression of eleven cytokine genes was analyzed by the multiplex RT-PCR method (GenomeLab Genetic Analysis System, GeXPS; Beckman Coulter Inc...
February 2016: Fish & Shellfish Immunology
Meng Li, Zhixun Xie, Zhiqin Xie, Jiabo Liu, Liji Xie, Xianwen Deng, Sisi Luo, Qing Fan, Li Huang, Jiaoling Huang, Yanfang Zhang, Tingting Zeng, Jiaxun Feng
OBJECTIVES: In order to develop a multiplex RT-PCR assay using the GeXP analyser for the simultaneous detection of four different NA serotypes of H5-subtype AIVs, effective to control and reduce H5 subtype of avian influenza outbreak. DESIGN: Six pairs of primers were designed using conserved and specific sequences of the AIV subtypes H5, N1, N2, N6 and N8 in GenBank. Each gene-specific primer was fused at the 5' end to a universal sequence to generate six pairs of chimeric primers, and one pair of universal primers was used for RT-PCR, and PCR product separation and detection were performed by capillary electrophoresis using the GenomeLab GeXP genetic analysis system...
March 2016: Influenza and Other Respiratory Viruses
Hengyun Guan, Ji Wang, Chunrong Wang, Mengjie Yang, Lanzheng Liu, Guoliang Yang, Xuejun Ma
Hand, foot, and mouth disease (HFMD) is an infectious disease caused by human enterovirus 71 (EV71), coxsackievirus A16 (CVA16) and other enteroviruses. It is of interest that other enteroviruses associated with HFMD in Jinan have been rarely reported. The aim of the present study is to detect and characterize the circulating serotypes of non-EV71 and non-CVA16 enteroviruses associated with HFMD in Jinan city, Shandong province, China. A total of 400 specimens were collected from clinically diagnosed HFMD cases in Jinan from January 2009 to June 2013...
2015: PloS One
Minxiu Zhang, Zhixun Xie, Liji Xie, Xianwen Deng, Zhiqin Xie, Sisi Luo, Jiabo Liu, Yaoshan Pang, Mazhar I Khan
A new high-throughput GenomeLab Gene Expression Profiler (GeXP) analyser-based multiplex PCR assay was developed for the detection of eight reproductive and respiratory pathogens in swine. The reproductive and respiratory pathogens include North American porcine reproductive and respiratory syndrome virus (PRRSV-NA), classical swine fever virus (CSFV), porcine circovirus 2 (PCV-2), swine influenza virus (SIV) (including H1 and H3 subtypes), porcine parvovirus (PPV), pseudorabies virus (PRV) and Japanese encephalitis virus (JEV)...
November 2015: Journal of Virological Methods
Ibai López-de-Uralde-Villanueva, Daniel Muñoz-García, Alfonso Gil-Martínez, Joaquín Pardo-Montero, Rosa Muñoz-Plata, Santiago Angulo-Díaz-Parreño, Miguel Gómez-Martínez, Roy La Touche
OBJECTIVE: Our aim was to systematically review and meta-analyze the effectiveness of graded activity (GA) or graded exposure (GEXP) for chronic nonspecific low back pain (CNSLBP). METHODS: A literature search of multiple databases (MEDLINE, EMBASE, PEDro, CINAHL, and PsychINFO) was conducted to identify randomized control trials (RCTs). Standardized mean difference (SMD) and 95% confidence intervals (CI) were calculated for relevant outcome measures (pain intensity, disability, quality of life, and catastrophizing)...
January 2016: Pain Medicine: the Official Journal of the American Academy of Pain Medicine
Yin Sim Tor, Latifah Saiful Yazan, Jhi Biau Foo, Agustono Wibowo, Norsharina Ismail, Yoke Kqueen Cheah, Rasedee Abdullah, Maznah Ismail, Intan Safinar Ismail, Swee Keong Yeap
Dillenia suffruticosa, which is locally known as Simpoh air, has been traditionally used to treat cancerous growth. The ethyl acetate extract of D. suffruticosa (EADs) has been shown to induce apoptosis in MCF-7 breast cancer cells in our previous study. The present study aimed to elucidate the molecular mechanisms involved in EADs-induced apoptosis and to identify the major compounds in the extract. EADs was found to promote oxidative stress in MCF-7 cells that led to cell death because the pre-treatment with antioxidants α-tocopherol and ascorbic acid significantly reduced the cytotoxicity of the extract (P<0...
2015: PloS One
Jhi Biau Foo, Latifah Saiful Yazan, Yin Sim Tor, Agustono Wibowo, Norsharina Ismail, Chee Wun How, Nurdin Armania, Su Peng Loh, Intan Safinar Ismail, Yoke Kqueen Cheah, Rasedee Abdullah
ETHNOPHARMACOLOGICAL RELEVANCE: Dillenia suffruticosa (Family: Dilleniaceae) or commonly known as "Simpoh air" in Malaysia, is traditionally used for treatment of cancerous growth including breast cancer. AIM OF THE STUDY: D. suffruticosa root dichloromethane extract (DCM-DS) has been reported to induce G0/G1 phase cell cycle arrest and apoptosis in caspase-3 deficient MCF-7 breast cancer cells. The present study was designed to investigate the involvement of p53/p21 and mitochondrial pathway in DCM-DS-treated MCF-7 cells as well as to identify the bioactive compounds responsible for the cytotoxicity of DCM-DS...
May 26, 2015: Journal of Ethnopharmacology
S A Gehrke, R De Carvalho Serra
AIM: The objective was to evaluate the mechanical behavior and the effects of interface abutment/implant on implants with Morse taper connections after the application of cyclic loads. METHODS: A total of 30 implants with Morse taper diameters of 4 mm and lengths of 11 mm with 30 straight solid pillars were divided into two groups. The control group (Gcon) (N.=15) was evaluated after receiving only 25 N of torque. The experimental group (Gexp) (N.=15) was subjected to torque and 360,000 cycles of mechanical fatigue at a load of 100 N and a frequency of 4 Hz...
February 2015: Minerva Stomatologica
Janice E Drew, Andrew J Farquharson, Graham W Horgan, Susan J Duthie, Garry G Duthie
SCOPE: Cell defenses regulating homeostatic control of postprandial stress are influenced by interindividual variation, food composition and health status. This study investigates effects of food composition on individual postprandial responses and associations with health. METHODS AND RESULTS: Volunteers (n = 16) consumed four food formulations (50% unsaturated/saturated fat, with/without beetroot extract 10 g/100 g) on separate occasions. GeXP assay measured whole blood postprandial gene expression profiles of 28 cell defense markers at baseline and postprandial time points 1, 2, 4, 6, 24 h...
October 2014: Molecular Nutrition & Food Research
Jhi Biau Foo, Latifah Saiful Yazan, Yin Sim Tor, Nurdin Armania, Norsharina Ismail, Mustapha Umar Imam, Swee Keong Yeap, Yoke Kqueen Cheah, Rasedee Abdullah, Maznah Ismail
BACKGROUND: Dillenia suffruticosa root dichloromethane extract (DCM-DS) has been reported to exhibit strong cytotoxicity towards breast cancer cells. The present study was designed to investigate the cell cycle profile, mode of cell death and signalling pathways of DCM-DS-treated human caspase-3 deficient MCF-7 breast cancer cells. METHODS: Dillenia suffruticosa root was extracted by sequential solvent extraction. The anti-proliferative activity of DCM-DS was determined by using MTT assay...
2014: BMC Complementary and Alternative Medicine
Soner Bilen, Gouranga Biswas, Shohei Otsuyama, Tomoya Kono, Masahiro Sakai, Jun-ichi Hikima
A cytosolic receptor complex called inflammasome is responsible for mounting inflammatory response by releasing pro-inflammatory cytokines, interleukin (IL)-1β and IL-18. However, inflammatory cascades mediated by the inflammasome are unknown in a lower vertebrate like fish. Therefore, in an in vitro experiment, in order to obtain a preliminary information, we conducted transcriptomic analysis of 18 cytokines including pro-inflammatory cytokines in the Japanese pufferfish (Takifugu rubripes) head kidney (HK) cells stimulated with an inflammasome-inducing agent, nigericin, and a combination of nigericin and LPS by a multiplex RT-PCR assay (GenomeLab Genetic Analysis System, GeXPS; Beckman Coulter Inc...
October 2014: Developmental and Comparative Immunology
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