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Regulatory Sequences, Nucleic Acid (8):
Recent article
Regulatory Sequences, Nucleic Acid
Human Molecular Genetics (20)21 2011
Abstract
We previously found that loss-of-function mutations in the transcription factor GLIS2, a putative vertebrate ortholog of Drosophila Ci, cause nephronophthisis type 7 in humans and mice. Kidney tubular cells in Glis2-knockout mice acquire mesenchymal phenotype, but the cellular mechanisms of this tra...
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PMID: 21816948
PDF is available here.
PDF is available here.
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Abstract
We present a case of a human immunodeficiency virus (HIV)-infected patient with PML and cerebellar atrophy. In addition to a compartmentalization of JCV strains between urine, cerebrospinal fluid, and cerebellum, specific rearrangements in the JCV regulatory region were observed in the cerebellum, r...
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PMID: 21430099
PDF is available here.
PDF is available here.
Abstract
Abstract
We identify molecular events particularly likely to produce significant regulatory changes in humans: complete deletion of sequences otherwise highly conserved between chimpanzees and other mammals. We confirm 510 such deletions in humans, which fall almost exclusively in non-coding regions and are...
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PMID: 21390129
PDF is available here.
PDF is available here.
Abstract
We undertook this research to clone, sequence, and characterize the spatio-temporal expression patterns of chicken TFF2 (ChTFF2) cDNA. Bioinformatics analysis of the promoter region and deduced amino acid sequence demonstrated that ChTFF2 contained unique characteristics; specifically the chicken pr...
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PMID: 21829480
PDF is available here.
PDF is available here.
Abstract
We wanted to uncover adaptive genome differences between the cucumber cultivars and what sort of evolutionary molecular mechanisms regulate genetic adaptation of plants to different ecosystems and organism biodiversity. Here we present the draft genome sequence of the Cucumis sativus genome of the N...
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PMID: 21829493
PDF is available here.
PDF is available here.
American Surgeon (12) 2011
Abstract
Abstract
We also confirmed the gene expression of PgGAD under various abiotic stresses like temperature stress, osmotic stress, anoxia, oxidative stress, and mechanical damage. Temporal analysis of gene expression except exposure of oxidative stress revealed an enhanced expression after each stresses. The en...
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PMID: 19967454
PDF is available here.
PDF is available here.
Abstract
We showed that TCF-1 deficiency limited proliferation of CD8(+) effector T cells and impaired their differentiation toward a central memory phenotype. Moreover, TCF-1-deficient memory CD8(+) T cells were progressively lost over time, exhibiting reduced expression of the antiapoptotic molecule Bcl-2...
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PMID: 20727791
PDF is available here.
PDF is available here.
Abstract
These results indicate that interactions involving distinct cis-elements contribute to the proper integration of pair-rule regulatory information. A model fully accounting for these results proposes that metameric slp1 expression is achieved through the Runt-dependent regulation of interactions betw...
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PMID: 20435028
PDF is available here.
PDF is available here.
Journal of Plant Physiology (167)12 2010
Abstract
We isolated a salt-inducible cDNA coding for the 26S proteasome subunit RPN10, designated DvRPN10. The DvRPN10 cDNA is 1472 bp and encodes a polypeptide of 377 amino acids. The DvRPN10 protein shares a high similarity to orthologs from other species. The function of DvRPN10 was confirmed by compleme...
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PMID: 20430475
PDF is available here.
PDF is available here.
Abstract
We also report a novel transcription module, designated 'chloroplast biogenesis module' (CBM) in the FKBP16-1 promoter of cereals that also appears to be involved in the regulation of additional genes involved in chloroplast biogenesis or other aspects of plant development. The results point to cons...
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PMID: 20570161
PDF is available here.
PDF is available here.
Abstract
We used a combination of comparative genomics, locus-wide chromatin immunoprecipitation assays, functional validation in cell lines, and extensive transgenic mouse assays to identify and characterize the complete ensemble of Gfi1 regulatory elements. This concerted effort identified five distinct re...
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PMID: 20516218
PDF is available here.
PDF is available here.
Brain research (1344) 2010
Abstract
Both over expression of cyclic AMP response element binding protein (CREB) in the nucleus accumbens (NAc), and intra-accumbal injection of cocaine- and amphetamine-regulated transcript (CART) peptides, have been shown to decrease cocaine reward. Also, over expression of CREB in the rat NAc increased...
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PMID: 20451507
PDF is available here.
PDF is available here.
Abstract
Abstract
We performed Brownian dynamics simulations of the R.P(c) --> R.P(o) transition. In the fast trajectories, unwinding of the promoter DNA begins by local melting around the -10 element, which is followed by sequential unzipping of DNA till the +2 site. The R.P(c) --> R.P(o) transition occurs in three...
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PMID: 20615963
PDF is available here.
PDF is available here.
Developmental Biology (343)1-2 2010
Abstract
We characterize the DNA binding activity of Hox transcription factor complexes on eight experimentally verified cis-regulatory elements. Hox factors regulate the activity of each element by forming protein complexes with two cofactor proteins, Extradenticle (Exd) and Homothorax (Hth). Using comparat...
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PMID: 20398649
PDF is available here.
PDF is available here.
Transcriptional regulation of bone sialoprotein gene by Porphyromonas gingivalis lipopolysaccharide.
Abstract
We used rat osteoblast-like ROS17/2.8 cells. BSP mRNA levels were decreased by 0.1 microg/ml and increased by 0.01 microg/ml P. gingivalis LPS at 12 h. Results of luciferase assays showed that 0.1 microg/ml decreased and 0.01 microg/ml P. gingivalis LPS increased BSP transcription in -116 to +60 BSP...
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PMID: 20564183
PDF is available here.
PDF is available here.
Abstract
We previously identified a dinucleotide deletion in the human ankyrin-1 gene (ANK-1) promoter that underlies ankyrin-deficient hereditary spherocytosis. The presence of the deletion was associated with a decrease in promoter function both in vitro and in vivo establishing it as a causative hereditar...
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PMID: 20479128
PDF is available here.
PDF is available here.
Journal of Immunology (184)12 2010
Abstract
We have analyzed the nucleosome organization of accessible and inaccessible Tcrb and Tcra alleles in primary murine thymocytes in vivo. We identified highly positioned arrays of nucleosomes at Dbeta, Jbeta, and Jalpha segments and obtained evidence indicating that positioning is established at least...
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PMID: 20483751
PDF is available here.
PDF is available here.
Abstract
We present the first transcriptional regulatory element found in a PAH gene intron. The element is located in the PAH gene intron 8, acts as an enhancer specifically in the hepatoma cell line, and binds GATA-1 transcription factor. Herein the presented data could unlock a new area for the analysis o...
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PMID: 20599406
PDF is available here.
PDF is available here.
Abstract
We identified 18 cold-responsive rice miRNAs using microarrays. Most were down-regulated. Members of the miR-167 and miR-319 families showed similar profiles. Intriguingly, members of miR-171 family showed diverse expression patterns. Three miRNAs derived from transposable element sequence were clus...
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PMID: 20350593
PDF is available here.
PDF is available here.
Microbiology (156)Pt 6 2010
Abstract
These results suggest that the 5'-region containing the LST segment could function as an mRNA stabilizer that prolongs the lifetime of the transcript to which it is fused....
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PMID: 20185509
PDF is available here.
PDF is available here.
Abstract
We used chromatin immunoprecipitation with high-throughput sequencing (ChIP-seq) to determine experimentally the genome-wide occupancy of two TFs, CCAAT/enhancer-binding protein alpha and hepatocyte nuclear factor 4 alpha, in the livers of five vertebrates. Although each TF displays highly conserved...
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PMID: 20378774
PDF is available here.
PDF is available here.
Clinica Chimica Acta (411)9-10 2010
Abstract
The mtDNA content reduction may be an important genetic event in the carcinogenesis of EWS. This study provides evidence that somatic D-loop mutation is likely one of the key factors contributing to quantitative changes of mtDNA in EWS.
Copyright 2010 Elsevier B.V. All rights reserved....
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PMID: 20123091
PDF is available here.
PDF is available here.
PLoS Biology (8)5 2010
Abstract
We have characterized transcription sites located outside protein-coding genes in a highly regulated response, macrophage activation by endotoxin. Using chromatin signatures, we could unambiguously classify extragenic Pol_II binding sites as belonging to either canonical RNA genes or transcribed enh...
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PMID: 20485488
PDF is available here.
PDF is available here.
Zhonghua er bi yan hou tou jing wai ke za zhi = Chinese journal of otorhinolaryngology head and neck surgery (45)5 2010
Abstract
To construct a modified and enhanced thymidine kinase (TK) vector regulated by human telomerase catalytic subunit promoter (hTERT) promoter and cytomegalovirus (CMV) enhancer and its killing effect on nasopharyngeal carcinoma in vitro and in vivo and its safety in vivo.
The pGL3-basic, as basic vect...
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PMID: 20654181
PDF is available here.
PDF is available here.
Developmental Biology (340)2 2010
Abstract
We used sequence conservation around the Hox4 genes to analyze all fish:human conserved non-coding sequences by reporter assays in stable zebrafish transgenesis. Thirty-four elements were functionally tested in GFP reporter gene constructs and more than 100 F1 lines were analyzed to establish a corr...
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PMID: 20144609
PDF is available here.
PDF is available here.
Abstract
We used human epsilon-globin gene regulatory elements to drive lineage-specific expression of a histone-H2B::EGFP fusion protein, allowing us to label the chromatin of EryP during their development and to track and quantify EryP nuclei following their expulsion from the cell. Using this transgenic f...
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PMID: 20181503
PDF is available here.
PDF is available here.
Trends in Genetics (26)5 2010
Abstract
We posit that discrete DNA sequence motifs position and regulate essentially all recombination across the genome, in much the same way that DNA sites position and regulate transcription. Moreover, we illustrate the use of overlapping mechanisms for the regulation of transcription and meiotic recombi...
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PMID: 20381894
PDF is available here.
PDF is available here.
Plant Physiology (152)4 2010
Abstract
Heterologous regulatory elements and flanking sequences have been used in chloroplast transformation of several crop species, but their roles and mechanisms have not yet been investigated. Nucleotide sequence identity in the photosystem II protein D1 (psbA) upstream region is 59% across all taxa; si...
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PMID: 20130101
PDF is available here.
PDF is available here.
Abstract
The gene coding for rice chloroplastic L-myo-inositol-1-phosphate synthase (MIPS; EC 5.5.1.4) has been identified by matrix-assisted laser desorption time-of-flight mass spectrometry analysis of the purified and immunologically cross-reactive approximately 60 kDa chloroplastic protein following two-...
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PMID: 20213122
PDF is available here.
PDF is available here.
Abstract
We developed a modified yeast one-hybrid system which enables rapid and efficient identification of genomic targets for DNA-binding proteins. The human GR expression vector was transformed into yeast cells containing a library of human genomic fragments cloned upstream of the reporter gene URA3. The...
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PMID: 20163328
PDF is available here.
PDF is available here.
médecine/sciences (26)4 2010
Abstract
Abstract
We examined the evolutionary conservation and enrichment within putative regulatory regions of the binding sequences of a diverse library of 104 nonredundant mouse TFs spanning 22 different DNA-binding domain structural classes. We found that not only high affinity binding sites, but also numerous m...
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PMID: 20079828
PDF is available here.
PDF is available here.
Abstract
We analyzed the complete mitochondrial genome (mitogenome) sequence of the Eurasian otter Lutra lutra. The mitochondrial DNA sequence of the Eurasian otter is 16,505 bp in length and consists of 13 protein-coding genes, 22 tRNAs, 2 rRNAs, and a control region (CR). The CR sequence of otters from Eur...
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PMID: 19757186
PDF is available here.
PDF is available here.
Abstract
We reported previously that the polymorphic polypyrimidine CCTTT-microsatellite in the regulatory region of nitric oxide synthase 2 (NOS2) bound nuclear proteins in vitro. In the present work, we aimed to characterize and investigate a potential regulatory role of the CCTTT-microsatellite in NOS2 ex...
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PMID: 19669598
PDF is available here.
PDF is available here.
Abstract
We term OSK) constitutes the minimal requirement for generating iPS cells from mouse embryonic fibroblasts. These cells are thought to resemble embryonic stem cells (ESCs) on the basis of global gene expression analyses; however, few studies have tested the ability and efficiency of iPS cells to con...
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PMID: 20139965
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
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PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
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PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
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PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
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PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Mutagenesis (25)2 2010
Abstract
We mapped the human NEIL2 transcriptional start site and partially characterized the promoter region of the gene using a luciferase reporter assay. We identified a strong positive regulatory region from nucleotide -206 to +90 and found that expression from this region was contingent on its being iso...
|
PMID: 19945985
PDF is available here.
PDF is available here.
Abstract
We developed a method, composite of multiple signals (CMS), that combines tests for multiple signals of selection and increases resolution by up to 100-fold. By applying CMS to candidate regions from the International Haplotype Map, we localized population-specific selective signals to 55 kilobases...
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PMID: 20056855
PDF is available here.
PDF is available here.
Genes & Genetic Systems (85)1 2010
Alu-derived cis-element regulates tumorigenesis-dependent gastric expression of GASDERMIN B (GSDMB).
Abstract
We investigated the spatiotemporal expression patterns of GSDMB in gastric cancer patients and the 5' regulatory sequences upstream of GSDMB. GSDMB was not expressed in the majority of normal gastric-tissue samples, and the expression level was very low in the few normal samples with GSDMB expressio...
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PMID: 20410667
PDF is available here.
PDF is available here.
Abstract
PPARdelta activation by PLA-LDL does not influence lipid accumulation in PLA-LDL-treated macrophages. However, it attenuates macrophage inflammatory responses, thus contributing to an anti-inflammatory cell phenotype....
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PMID: 19948841
PDF is available here.
PDF is available here.
Abstract
It has been demonstrated that the duplicated carbonic anhydrase is induced by salt in the Dunaliella salina (D. salina) and duplicated carbonic anhydrase 1 (DCA1) is a member of carbonic anhydrase family. The purpose of this study was to identify whether both the DCA1 gene and its promoter from D. s...
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PMID: 19823944
PDF is available here.
PDF is available here.
Tsitologiia (52)6 2010
Abstract
Two DNase I-hypersensitive regions are identified on the regulatory region of the rat tryptophan dioxygenase (tdo) gene which is expressed tissue-specifically under control ofglucocorticoid hormones. DNase I-hypersensitive regions are identified in position -470 and in the vicinity of the first upst...
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PMID: 20737904
PDF is available here.
PDF is available here.
Nature Neuroscience (13)1 2010
Abstract
We have generated a set of Cre reporter mice with strong, ubiquitous expression of fluorescent proteins of different spectra. The robust native fluorescence of these reporters enables direct visualization of fine dendritic structures and axonal projections of the labeled neurons, which is useful in...
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PMID: 20023653
PDF is available here.
PDF is available here.
BMC Genomics (11) 2010
Abstract
We developed a computational method for the entire non-coding regions around human genes that does not rely upon the use of multiple genome alignments. First, we selected orthologous DNA blocks approximately 1-kilobase in length based on discontiguous sequence similarity. Next, we scanned the conser...
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PMID: 20946653
PDF is available here.
PDF is available here.
Molecular Cancer (9) 2010
Abstract
We carried out a deletion analysis of BMI1 to identify its negative regulatory domain.
We report that deletion of the C-terminal domain of BMI1, which is rich in proline-serine (PS) residues and previously described as PEST-like domain, increased the stability of BMI1, and promoted its pro-oncogenic...
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PMID: 20569464
PDF is available here.
PDF is available here.
BMC Medical Genetics (11) 2010
Abstract
This study represents the first genetic evidence of a link between glutamate receptors and migraine....
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PMID: 20579352
PDF is available here.
PDF is available here.
Abstract
We created transgenic zebrafish expressing enhanced green fluorescent protein (EGFP) under the control of lhx1a regulatory regions. Tg(lhx1a:EGFP)(pt303) recapitulates the expression of endogenous lhx1a beginning at early gastrula stages through 72 hours of development with only few exceptions. In a...
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PMID: 20209443
PDF is available here.
PDF is available here.