dna methylation genotype and gene expression

... both methylation and expression To better understand the role of genetic variation in controlling DNA methylation variation, and its resulting effects on gene expression variation, we studied DNA ... 13 Gene expession Methylation 0.5 0.0 TT (c) Methylation and expression (d) Controlling for methylation −2 GT GG rs8133082 TT GT GG rs8133082 Gene expression methylation residuals (b) eQTL Gene expession ... (b) Methylation at the TSS 1.0 Lowest gene expression quartile Second gene expression quartile Third gene expression quartile Highest gene expression quartile Methylation 0.8 0.6 0.4 0.2 0.0 −1.5...

Ngày tải lên: 09/08/2014, 22:23

Ngày tải lên: 09/08/2014, 23:20

... localizes in the nucleus and binds to and regulates basal expression via HSEs of target genes [26] Deletion of the HSF gene is lethal to cells, even at physiological temperatures The genes targeted by ... levels of gene expression and probably in distinguishing target genes by mammalian HSFs In response to stress, yeast HSF bound to an HSE recruits the general transcription factors and Pol II ... of the chicken HSF3 gene; however, the human HSF3 gene is a pseudogene [41] Mouse HSF3 translocates into the nucleus upon heat shock and may activate nonclassical heat shock genes, but does not...

Ngày tải lên: 18/02/2014, 04:20

... of gene expression of a certain gene (X) normalized to the mean of the control gene PDI1 and the steady-state sample of the chemostat culture (Eqns and 7) We have normalized to steady state and ... versus gene expression before examining specific metabolites Earlier regulation analysis studies of nitrogen starvation in yeast revealed mixed and diverse regulation [9] Both gene expression and ... subtle and cannot be attributed to a single process in the gene expression cascade Discussion Time-dependent regulation analysis quantifies the relative importance of metabolism and gene expression...

Ngày tải lên: 18/02/2014, 06:20

... oxidative stress and alterations of mitochondria and gene expression in brown and white adipose tissues Particle and Fibre Toxicology 2011 8:20 Submit your next manuscript to BioMed Central and take ... family of genes, and it is recognized as WAT-specific marker in primary adipocyte cultures [29] DPT serves as a good gene marker for white adipogenesis and can be seen as a reference gene for ... differences in the gene expressions of Hoxc9 or Igfbp3 in the WAT, neither was the gene expression of Dpt in BAT or WAT Xu et al Particle and Fibre Toxicology 2011, 8:20 http://www.particleandfibretoxicology.com/content/8/1/20...

Ngày tải lên: 06/03/2014, 19:20

... and hnRNP U Moreover, it has been shown that actin, hnRNP U and PCAF associate with the Ser2 ⁄ 5and Ser2-phosphorylated Pol II C-terminal domain hnRNP U and PCAF are present at the promoter and ... activation and actin polymerization [55] Recently, MRTF-A and -B were shown to serve as a link between STARS and SRF In NIH 3T3 cells cotransfected with expression plasmids encoding MRTFs and STARS, ... includes lung and liver [58] Both ABLIM-2 and -3 strongly bind F-actin and colocalize with actin stress fibers The interaction of STARS with ABLIM-2 and -3 was confirmed by coimmunoprecipitation and further...

Ngày tải lên: 07/03/2014, 01:20

... NODAL, and ACVR2B [32-35] The node containing genes upregulated in EB (node C) included the genes HAND1, HOXA1, HOXB2, MSX1, MSX2, MEIS1, FGF9 and FREM1 which are involved in morphogenesis and development ... miR-130a and miR-190, the difference in their expression between EB and hES cells and between EB and adult cells were significant (P < 0.05) The difference in expression of miR-17-5p between EB and ... differences in expression of these miRNA expression between adult cells and hES cells and between adult cells and EB were significant (P < 0.05) Of note, the expression levels of let-7b and let-7i...

Ngày tải lên: 18/06/2014, 15:20

... copy number changes and gene expression profiles in a cohort of AA and CA PCa patients using BAC-based array comparative genomic hybridization (aCGH), oligo-based aCGH, and gene expression array ... positive rates Correlation of DNA copy number and gene expression data enables one to filter out many false positive results and provides a basis for correlating gene expression changes with a specific ... BAC-array, μg of gDNA was labeled and hybridized to the array using the standard oligonucleotide aCGH protocol as per the manufacturer Gene expression profiling RNA was isolated from 19 AA and 14 CA...

Ngày tải lên: 18/06/2014, 16:20

... several reports about gene- expression profiles in rheumatoid synovitis The analysis by Zanders and colleagues [16] showed an overall increased expression of inflammationrelated genes in synovial ... could be separated into two patterns of gene expression The first one had a gene- expression profile consistent with inflammation and active immunity, and the second, which was histopathologically ... candidate gene for progressive arthritis [30] This was highly expressed in group I in this study Itgb2 was a candidate gene for enthesopathy [31] and coincidentally for sialoadenitis [32], and...

Ngày tải lên: 09/08/2014, 06:23

... between congenic strains and control strain, from the gene lists of both standard and alternative analyses Primers and probes were purchased as TaqMan® Assays-on-Demand™ Gene Expression Products (ABI) ... expressed genes or on genes implicated beforehand) In order to look for more subtle gene expression changes than the highest ranking differentially expressed genes, and to identify molecular and biological ... of gene expression for Ifnγ and several interferoninduced genes and transcription factors, including Stat1, and Irf1, Irf7, Irf2 and Irf8 in the NOD congenic mice A study conducted by Cha and...

Ngày tải lên: 09/08/2014, 10:21

... ranging from general defence-related genes (metallothioneins, thaumatin and universal stress genes) to more specific oomycete defence-related genes (pathogenesis related protein PR10 and the oxysterolbinding ... Quantitative gene expression analysis Expression analyses of nine genes were conducted at 0, 3, 6, 12, 24 and 48 hours post infection (hpi) to validate if the pyrosequencing data reflected their gene expression ... pyrosequencing data and gene expression profiles of defence-related genes Sequence ID GenBank accession number cDNA Library Max qRT-PCR expression Similarities between 454 and qRTPCR Thaumatin...

Ngày tải lên: 11/08/2014, 11:21

... abundance for MYB genes and secondary cell-wall-related genes in differentiating secondary xylem and in primary Transcript abundance for MYB genes and secondary cell-wall-related genes in differentiating ... accumulation for MYB genes and secondary cell-wall-related genes in differentiating compression wood and oppoTranscript accumulation for MYB genes and secondary cell-wall-related genes in differentiating ... GT and AG represent the beginning and the end of the introns, respectively; and underlined nucleotides are conserved splice-site sequences Expression of P glauca MYB genes in tissues of young and...

Ngày tải lên: 12/08/2014, 05:20

Ngày tải lên: 12/08/2014, 18:22

... between the gene- gene and gene- metabolite links and associated functions (Figure 6a) by assuming that the more similar the expression pattern is, the shorter is the distance between genes and/ or metabolites ... galactose); MGAdp and DHAdp (MG1655 and DH10B adapted about 1,000 generations in glucose); MGAdpGal and DHAdpGal (MGAdp and DHAdp [the glucose evolved strains] grown in galactose); and MGStat and DHStat ... versus DHGal/DHAdpGal comparison of 4,126 genes, we observed there to be a 5% (206 genes) and 16% (674 genes) change, respectively, and 4% (35 genes) of these genes were common to both strains Likewise,...

Ngày tải lên: 14/08/2014, 08:21

... between gene sets and the metabolic trait The significance and FDR of the associations were determined by 1000 permutations [10] Weighted gene co -expression network analysis The gene expression ... regard to gene expression is defined as N1 N2 i=1 j=1 aij , where i and j correspond to probesets in N1 N2 tissue and tissue 2, and N1 and N2 are the number of probesets in tissue and tissue ... data were corrected for sex and breed effects, and corresponding residuals were used to build up a weighted gene co -expression network using R package weighted gene co -expression network analysis...

Ngày tải lên: 14/08/2014, 13:21

... gyrase inhibition has on DNA supercoiling - that is, chromosomal relaxation reviews DNA supercoiling and gene expression Willenbrock and Ussery 252.3 comment expressed genes was postulated a very ... two studies on gene expression in human chromosomes that showed clustering of highly expressed genes [6,7] The topic of chromatin structure and gene expression in eukaryotes has generated considerably ... factor’ and that it can have either a negative or a positive effect on the transcription of a specific gene They identified 306 ‘supercoiling-sensitive genes’, and the expression of most of these genes...

Ngày tải lên: 14/08/2014, 14:21

... 26,260 different genes (see Materials and methods) To explore the relationship among samples and underlying features of gene expression, we applied an unsupervised twoway (that is, genes against ... vesicle and salivary gland), and female genitourinary tissues (ovary, fallopian tube, uterus, cervix and bladder) Brain and testis were also found to cluster together, largely because genes encoding ... see Materials and methods) Tissue-specific genes were identified for all tissues analyzed, and included named genes with known tissue-specific functions, as well as named genes and anonymous...

Ngày tải lên: 14/08/2014, 14:21

... Prostate-specific gene expression cluster, extracted from the hierarchical cluster shown in Figure 1a, displayed as mean-centered relative gene expression (ratio-fold change scale indicated) (c) The same gene ... 0782 Prostate 1045 Breast, lactating 0162 Salivary gland, parotid 0506 Salivary gland, parotid 0493 Salivary gland, parotid 0396 Salivary gland, parotid 1762 Epididymus 2125 Parathyroid 2995 Parathyroid ... female genomic DNA, or indirectly by multiplying the ratio of prostate sample mRNA versus common reference mRNA by the ratio of common reference mRNA versus normal female genomic DNA The correlation...

Ngày tải lên: 14/08/2014, 14:22

... correlation between the ER and gene expression levels in each region, and the median ER of its over-expressed genes (see Figures and for the ER of each tissue separately, and gene expression in the prefrontal ... gene set and the more stringent SCS gene set, both in their ER (with both the mammalian and human estimators) and in gene age Evolutionary rate, gene age and gene expression in cortical vs sub-cortical ... housekeeping genes tend to evolve more slowly than tissue-specific genes [17] Gene expression across brain tissues manifests a similar region-specificity relation between gene expression and ER; genes...

Ngày tải lên: 14/08/2014, 21:20

... proteins and miRNA targeting Finally, correlations between ubiquitination sites and protein disorder levels were investigated Protein disorder and gene expression Protein disorder and absolute gene expression ... in the down-regulation of gene expression The absolute gene expression levels and the predicted miRNA regulation are anti-correlated The overall decrease in the gene expression of the transcripts ... disordered proteins This aim was achieved and we discuss our findings in the following sections Protein disorder and gene expression On consideration of the gene expression levels for transcripts encoding...

Ngày tải lên: 14/08/2014, 21:20