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  • 1
    Language: English
    In: Journal of Infectious Diseases, Sept 1, 2013, Vol.208(5), p.720(8)
    Keywords: Haemophilus Influenzae -- Genetic Aspects ; Haemophilus Influenzae -- Research ; Genetic Variation -- Research
    ISSN: 0022-1899
    Source: Cengage Learning, Inc.
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  • 2
    Language: English
    In: PLoS ONE, 01 January 2013, Vol.8(3), p.e58657
    Description: Glaucoma and age-related macular degeneration (AMD) are the two leading causes of visual loss in the United States. We utilized a novel study design to perform a genome-wide association for both primary open angle glaucoma (POAG) and AMD. This study design utilized a two-stage process for hypothesis generation and validation, in which each disease cohort was utilized as a control for the other. A total of 400 POAG patients and 400 AMD patients were ascertained and genotyped at 500,000 loci. This study identified a novel association of complement component 7 (C7) to POAG. Additionally, an association of central corneal thickness, a known risk factor for POAG, was found to be associated with ribophorin II (RPN2). Linked monogenic loci for POAG and AMD were also evaluated for evidence of association, none of which were found to be significantly associated. However, several yielded putative associations requiring validation. Our data suggest that POAG is more genetically complex than AMD, with no common risk alleles of large effect.
    Keywords: Sciences (General)
    E-ISSN: 1932-6203
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  • 3
    In: Journal of Bacteriology, May, 1994, Vol.176(9-10), p.2763(4)
    Description: The E. coli lacZ reporter gene and a vector scheme identify and study mycoplasma gene regulators in Acholeplasma oculi. The analysis yielded seven fragments containing promoters and beta-galactosidase levels and mapped transcriptional initiation sites.
    Keywords: Bacteria -- Genetic Aspects ; Genetic Regulation -- Analysis ; Gene Fusion -- Usage
    ISSN: 0021-9193
    Source: Cengage Learning, Inc.
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  • 4
    Language: English
    In: Proceedings of the National Academy of Sciences of the United States of America, 26 September 2006, Vol.103(39), pp.14429-34
    Description: We used expression quantitative trait locus mapping in the laboratory rat (Rattus norvegicus) to gain a broad perspective of gene regulation in the mammalian eye and to identify genetic variation relevant to human eye disease. Of 〉31,000 gene probes represented on an Affymetrix expression microarray, 18,976 exhibited sufficient signal for reliable analysis and at least 2-fold variation in expression among 120 F(2) rats generated from an SR/JrHsd x SHRSP intercross. Genome-wide linkage analysis with 399 genetic markers revealed significant linkage with at least one marker for 1,300 probes (alpha = 0.001; estimated empirical false discovery rate = 2%). Both contiguous and noncontiguous loci were found to be important in regulating mammalian eye gene expression. We investigated one locus of each type in greater detail and identified putative transcription-altering variations in both cases. We found an inserted cREL binding sequence in the 5' flanking sequence of the Abca4 gene associated with an increased expression level of that gene, and we found a mutation of the gene encoding thyroid hormone receptor beta2 associated with a decreased expression level of the gene encoding short-wavelength sensitive opsin (Opn1sw). In addition to these positional studies, we performed a pairwise analysis of gene expression to identify genes that are regulated in a coordinated manner and used this approach to validate two previously undescribed genes involved in the human disease Bardet-Biedl syndrome. These data and analytical approaches can be used to facilitate the discovery of additional genes and regulatory elements involved in human eye disease.
    Keywords: Gene Expression Regulation ; Eye -- Metabolism ; Eye Diseases -- Genetics
    ISSN: 0027-8424
    E-ISSN: 10916490
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  • 5
    Language: English
    In: Journal of Biological Chemistry, 10/22/1999, Vol.274(43), pp.30858-30863
    Description: Endotoxin-induced cytokine gene transcription in monocytes and macrophages is regulated in part by NF- Kappa B. We have previously shown that the p38 mitogen-activated protein (MAP) kinase is necessary for endotoxin-induced cytokine gene transcription. Due to the fact that most cytokine promoter sequences have active NF- Kappa B sites, we hypothesized that the p38 MAP kinase was necessary for NF- Kappa B-dependent gene expression. We found that NF- Kappa B-dependent gene expression was reduced to near control levels with either SB 203580 or a dominant-negative p38 MAP kinase expression vector. Inhibition of the p38 MAP kinase did not alter NF- Kappa B activation at any level, but it significantly reduced the DNA binding of TATA-binding protein (TBP) to the TATA box. The dominant-negative p38 MAP kinase expression vector interfered with the direct interaction of native TFIID (TBP) with a co-transfected p65 fusion protein. Likewise, this dominant-negative plasmid also interfered with the direct interaction of a co-transfected TBP fusion protein with the native p65 subunit. The p38 kinase also phosphorylated TFIID (TBP) in vitro, and SB 203580 inhibited phosphorylation of TFIID (TBP) in vivo. Thus, the p38 MAP kinase regulates NF- Kappa B-dependent gene transcription, in part, by modulating activation of TFIID (TBP).
    Keywords: Transcription Factors ; Tata-Binding Protein ; MAP Kinase ; Endotoxins ; Cytokines ; Gene Regulation ; Transcription Initiation Factor Tfiid ; P38 Protein ; Nf-^Kb Protein ; P65 Protein ; Transcription Factors ; Nf- Kappa B Protein ; P38 Protein ; P65 Protein;
    ISSN: 0021-9258
    E-ISSN: 1083-351X
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  • 6
    In: Open Forum Infectious Diseases, 2018, Vol. 5(6)
    Description: Abstract Background The infectious cycle of varicella-zoster virus (VZV) after reactivation from the dorsal root ganglia includes replication and assembly of complete enveloped virions in the human skin to cause the characteristic herpes zoster (shingles). Methods To pursue studies of innate immunity to VZV infection, we have adapted a fetal skin organ culture model to a human neonatal foreskin explant model. Results Abundant expression of VZV IE62, gE, and gC was visualized by confocal microscopy while numerous enveloped virions were observed by electron microscopy in infected skin organ cultures. Microarray experiments demonstrated that the patterns of upregulated transcripts differed between VZV-infected cells and VZV-infected skin explants. One result stood out, namely a 〉30-fold elevated interleukin (IL)-6 level in the infected skin explant that was not present in the infected monolayer culture. The IL-6 results in the polyermase chain reaction (PCR) assay were reproduced by quantitative PCR testing with newly designed primers. To determine if increased transcription was accompanied by increased IL-6 expression, we quantitated the levels of IL-6 protein in the explant media at increasing intervals after infection. We found a statistically significant increase in IL-6 protein levels secreted into the media from VZV-infected skin explants as compared with mock-infected explants. Conclusions The cellular stress response to VZV infection in neonatal skin explants included highly elevated levels of IL-6 transcription and expression. This skin organ model could be adapted to other viruses with a skin tropism, such as herpes simplex virus.
    Keywords: Autophagy ; Cytokines ; Herpes Virus ; Human Skin ; Tocilizumab
    E-ISSN: 2328-8957
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  • 7
    Language: English
    In: Journal of Biological Chemistry, 11/23/2001, Vol.276(47), pp.44137-44145
    Description: Infertility and spontaneous pregnancy losses are an enduring problem to women's health. The establishment of pregnancy depends on successful implantation, where a complex series of interactions occurs between the heterogeneous cell types of the uterus and blastocyst. Although a number of genes are implicated in embryo-uterine interactions during implantation, genetic evidence suggests that only a small number of them are critical to this process. To obtain a global view and identify novel pathways of implantation, we used a dual screening strategy to analyze the expression of nearly 10,000 mouse genes by microarray analysis. Comparison of implantation and interimplantation sites by a conservative statistical approach revealed 36 up-regulated genes and 27 down-regulated genes at the implantation site. We also compared the uterine gene expression profile of progesterone-treated, delayed implanting mice to that of mice in which delayed implantation was terminated by estrogen. The results show up-regulation of 128 genes and down-regulation of 101 genes after termination of the delayed implantation. A combined analysis of these experiments showed specific up-regulation of 27 genes both at the implantation site and during uterine activation, representing a broad diversity of molecular functions. In contrast, the majority of genes that were decreased in the combined analysis were related to host immunity or the immune response, suggesting the importance of these genes in regulating the uterine environment for the implanting blastocyst. Collectively, we identified genes with recognized roles in implantation, genes with potential roles in this process, and genes whose functions have yet to be defined in this event. The identification of unique genetic markers for the onset of implantation signifies that genome-wide analysis coupled with functional assays is a promising approach to resolve the molecular pathways required for successful implantation.
    Keywords: Biomarkers ; Gene Expression Profiling ; Embryo Implantation -- Genetics ; Uterus -- Physiology;
    ISSN: 0021-9258
    E-ISSN: 1083-351X
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  • 8
    In: Journal of Biomolecular Techniques : JBT, 7/2015, p.jbt.15-2602-007
    Keywords: Biology;
    ISSN: 1524-0215
    E-ISSN: 1943-4731
    Source: CrossRef
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  • 9
    In: Journal of Biomolecular Techniques : JBT, 7/2012, Vol.23(2), pp.83-83
    Description: With the continuing mission of providing significant educational opportunities to the Association of Biomolecular Resource Facilities (ABRF) membership, the Education Committee (EdComm) has a proud heritage of overseeing the Waters Research Poster Competition for the annual meeting. The competition is open to all and includes scientific reports from academia, as well as cutting-edge research from core facilities and corporate R&D groups. The goal of offering the awards is to elicit the highest level of information on techniques, applications, and technologies and share knowledge pertinent to further excellence in core facility services.
    Keywords: Biology;
    ISSN: 1524-0215
    E-ISSN: 1943-4731
    Source: CrossRef
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  • 10
    Language: English
    In: The Journal of infectious diseases, 01 September 2013, Vol.208(5), pp.720-7
    Description: Studies of nontypeable Haemophilus influenzae (NTHi) have demonstrated that a number of genes associated with infectivity have long repeat regions associated with phase variation in expression of the respective gene. The purpose of this study was to determine the genes that underwent phase variation during a 6-day period of experimental human nasopharyngeal colonization. Strain NTHi 2019Str(R)1 was used to colonize the nasopharynx of human subjects in a study of experimental colonization. Thirteen phase-variable genes were analyzed in NTHi 2019Str(R)1. Samples of NTHi 2019Str(R)1 were cultured from subjects during the 6-day colonization period. We used capillary electrophoresis and Roche 454 pyrosequencing to determine the number of repeats in each gene from each sample. A significant number of samples switched licA and igaB from phase off in the inoculated strain to phase on during the 4-day period of observation. lex2A also showed variability as compared to baseline, but the differences were not significant. The remaining genes showed no evidence of phase variation. Our studies suggest that the phase-on genotypes of licA and igaB are important for early human nasopharynx colonization. lex2A showed a trend from phase off to phase on, suggesting a potentially important role in the colonization process.
    Keywords: Haemophilus Influenzae ; Igab ; Lex2a Nasopharyngeal Colonization ; Lica ; Phase Variation ; Antigenic Variation ; Gene Expression Profiling ; Antigens, Bacterial -- Biosynthesis ; Carrier State -- Microbiology ; Haemophilus Infections -- Microbiology ; Haemophilus Influenzae -- Genetics ; Nasopharynx -- Microbiology
    ISSN: 00221899
    E-ISSN: 1537-6613
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