data for cyp2e1  (Pyrosequencing Inc)

Journal: GeroScience

Article Title: DNA methylation and histone acetylation changes to cytochrome P450 2E1 regulation in normal aging and impact on rates of drug metabolism in the liver

doi: 10.1007/s11357-020-00181-5

Figure Lengend Snippet: Illustration showing the transcription start site (TSS) and upstream regulatory regions of the human CYP2E1 and the homologous mouse Cyp2e1 gene. Upstream regulatory element positions were obtained from GeneHancer (Fishilevich et al. 2017) and ORegAnno (Lesurf et al. 2016). DNA methylation assays were conducted in the current study at both the TSS and upstream regulatory region in mouse at positions marked by the arrows. Reference histone 3 lysine 9 acetylation (H3K9ac) and histone 3 lysine 27 acetylation (H3K27ac) in 8-week-old mouse livers are from the ENCODE/LICR track in UCSC Genome Browser. Two loci with high liver histone acetylation levels were chosen for analysis using ChIP-qPCR in the current study, at positions marked by the arrows. For exact assay coordinates, see Supplementary Tables S2 and S3

Article Snippet: The CpG at position 5 (chr7: 147,949,754, mm9) was the most significantly hypermethylated ( p = 0.007) with the largest beta value of 0.84% increase per month of age (Fig. ). fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window Fig. 4 caption a7 Pyrosequencing data for Cyp2e1 . a Scatter plot of percent methylation of cytosine–phosphate–guanine (CpG) and all investigated CpG positions with superimposed line plot for each age group connecting the average methylation percentage at each CpG ( n = 20 per CpG, N = 80 total).

Techniques: DNA Methylation Assay, ChIP-qPCR

Journal: GeroScience

Article Title: DNA methylation and histone acetylation changes to cytochrome P450 2E1 regulation in normal aging and impact on rates of drug metabolism in the liver

doi: 10.1007/s11357-020-00181-5

Figure Lengend Snippet: Box plots with regression line (blue) of age-associated changes to Cyp2e1a 5′UTR percent methylation (n = 19) and b gene expression (n = 20). c Box plot of age-associated changes to Cyp2e1 protein expression with representative western blot (n = 20). Data represent median (middle hinge), 25% (lower hinge), and 75% (upper hinge) quantiles. Data points beyond upper or lower 1.5 × interquantile range are represented as individual black dots

Article Snippet: The CpG at position 5 (chr7: 147,949,754, mm9) was the most significantly hypermethylated ( p = 0.007) with the largest beta value of 0.84% increase per month of age (Fig. ). fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window Fig. 4 caption a7 Pyrosequencing data for Cyp2e1 . a Scatter plot of percent methylation of cytosine–phosphate–guanine (CpG) and all investigated CpG positions with superimposed line plot for each age group connecting the average methylation percentage at each CpG ( n = 20 per CpG, N = 80 total).

Techniques: Methylation, Gene Expression, Expressing, Western Blot

Journal: GeroScience

Article Title: DNA methylation and histone acetylation changes to cytochrome P450 2E1 regulation in normal aging and impact on rates of drug metabolism in the liver

doi: 10.1007/s11357-020-00181-5

Figure Lengend Snippet: Pyrosequencing data for Cyp2e1. a Scatter plot of percent methylation of cytosine–phosphate–guanine (CpG) and all investigated CpG positions with superimposed line plot for each age group connecting the average methylation percentage at each CpG (n = 20 per CpG, N = 80 total). X-axis not drawn to scale. chr 7 chromosome 7, mm9 mouse genome assembly NCBI37/build 9, July 2007. b Scatter plot of CpG methylation and age of individual CpG positions with regression line and statistics under each location. A simple linear regression was performed on all 20 data points for each CpG (n = 20) against each age 4, 18, 24, and 32 months (N = 80). Positions 1–8: chr7: 147,942,492; 147,949,679; 147,949,684; 147,949,743; 147,949,754; 147,949,770; 147,949,791; 147,949,806, mm9

Article Snippet: The CpG at position 5 (chr7: 147,949,754, mm9) was the most significantly hypermethylated ( p = 0.007) with the largest beta value of 0.84% increase per month of age (Fig. ). fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window Fig. 4 caption a7 Pyrosequencing data for Cyp2e1 . a Scatter plot of percent methylation of cytosine–phosphate–guanine (CpG) and all investigated CpG positions with superimposed line plot for each age group connecting the average methylation percentage at each CpG ( n = 20 per CpG, N = 80 total).

Techniques: Methylation, CpG Methylation Assay

Journal: GeroScience

Article Title: DNA methylation and histone acetylation changes to cytochrome P450 2E1 regulation in normal aging and impact on rates of drug metabolism in the liver

doi: 10.1007/s11357-020-00181-5

Figure Lengend Snippet: Chromatin immunoprecipitation quantitative polymerase chain reaction (ChIP-qPCR) data. Box plots with regression line (blue) of age-associated changes to percentage of input occupancy of histone 3 lysine 9 acetylation (H3K9ac) (n = 20 per region), histone 3 lysine 27 acetylation (H3K27ac) (n = 20 per region) at Cyp2e1 intron 1 (region 1, chr7: 147,950,223–147,950,367, mm9) and promoter (region 2, chr7: 147,942,350–147,942,468, mm9). IgG percentage of input shows a low background noise signal for each of the sample’s age groups (n = 20 per region). Data represent median (middle hinge), 25% (lower hinge), and 75% (upper hinge) quantiles. Data points beyond upper or lower 1.5 × interquantile range are represented as individual black dots

Article Snippet: The CpG at position 5 (chr7: 147,949,754, mm9) was the most significantly hypermethylated ( p = 0.007) with the largest beta value of 0.84% increase per month of age (Fig. ). fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window Fig. 4 caption a7 Pyrosequencing data for Cyp2e1 . a Scatter plot of percent methylation of cytosine–phosphate–guanine (CpG) and all investigated CpG positions with superimposed line plot for each age group connecting the average methylation percentage at each CpG ( n = 20 per CpG, N = 80 total).

Techniques: Chromatin Immunoprecipitation, Real-time Polymerase Chain Reaction, ChIP-qPCR

Journal: GeroScience

Article Title: DNA methylation and histone acetylation changes to cytochrome P450 2E1 regulation in normal aging and impact on rates of drug metabolism in the liver

doi: 10.1007/s11357-020-00181-5

Figure Lengend Snippet: Correlation matrix reporting Pearson correlation statistical test result (r). White blank cells indicate non-significant association (p > 0.05). Refer to Supplementary Table S5 for individual p values of each Pearson correlation test of a given pair. Color gradient indicates the direction of effect of the association with dark pink representing the strongest positive association of 1 while dark gray representing the strongest negative association of − 1. Only lower half of the plot is shown to prevent redundancy in reporting the results. Age: chronological age, Pos 1–8: Positions 1–8 chr7: 147,942,492; 147,949,679; 147,949,684; 147,949,743; 147,949,754; 147,949,770; 147,949,791; 147,949,806, mm9. Vmax: maximal rate of hydroxylation reaction of chlorzoxazone by Cyp2e1, Km: chlorzoxazone concentration at half maximal rate, CL.Int: intrinsic clearance, K9: histone 3 lysine 9 acetylation in Cyp2e1 intron 1 (chr7: 147,950,223–147,950,367, mm9), R2K9 histone 3 lysine 9 acetylation in Cyp2e1 promoter (chr7: 147,942,350–147,942,468, mm9)

Article Snippet: The CpG at position 5 (chr7: 147,949,754, mm9) was the most significantly hypermethylated ( p = 0.007) with the largest beta value of 0.84% increase per month of age (Fig. ). fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window Fig. 4 caption a7 Pyrosequencing data for Cyp2e1 . a Scatter plot of percent methylation of cytosine–phosphate–guanine (CpG) and all investigated CpG positions with superimposed line plot for each age group connecting the average methylation percentage at each CpG ( n = 20 per CpG, N = 80 total).

Techniques: Concentration Assay