Journal: PLoS ONE

Article Title: Study of the Integrated Immune Response Induced by an Inactivated EV71 Vaccine

doi: 10.1371/journal.pone.0054451

Figure Lengend Snippet: A global view of gene modulation in the PBMCs of vaccinated infants (Vac, n = 20), 28 days after the vaccine booster, compared to the placebo cohort (Pla, n = 10) was determined by microarray analysis. The genes were classified according to their function. A heat map representation (a) and principal component analysis (PCA) (b) generated using the significantly modulated genes from at least one comparison versus day 0 are shown. (a) The color scale shows the significantly modulated genes from up- (dark red) to down-regulated (dark blue) to the right of each image. The values are shown on a log 2 scale. (b) The Y value is the log 2 -fold-changes in gene expression of the vaccinated group vs. the placebo group. The up-regulated changes are above the baseline (Y = 0, the same with placebo group), and the down-regulated changes are below the baseline. The bars represent the maximum and minimum. The mean of the fold-changes in gene expression with a 95% CI is shown as the rectangle. The line in the rectangle represents the mean of these fold changes in gene expression. The number of genes that changed after immunization is shown beside the rectangles on the image.

Article Snippet: After hybridization, the microarrays were scanned in the Agilent Microarray Scanner (Cat# G2565CA, Agilent, CA, USA), and the raw data were obtained by Feature Extraction Software 10.7 (Agilent, CA, USA) and normalized using the Quantile algorithm in Gene Spring 11.0 (Agilent, CA, USA).

Techniques: Microarray, Generated, Expressing

Journal: PLoS ONE

Article Title: Study of the Integrated Immune Response Induced by an Inactivated EV71 Vaccine

doi: 10.1371/journal.pone.0054451

Figure Lengend Snippet: Measure of serum proinflammatory cytokines (a) and the modulation of the expression of genes associated with the inflammatory response (b). (a) Levels of serum proinflammatory cytokines in vaccinated and placebo subjects. All cytokine (IL-1b, IL-2, IL-4, IL-5, IL-6, IL-8, IL-10, IL12p70, TNF-α and IFN-γ) levels were measured with an R&D Systems assay kits according to the manufacturer protocol. (b) The genes modulated and associated with the inflammatory response in vaccinated group (Vac) and placebo group (Pla) were classified and fallen under different functional categories: (1) ILs group: IL1A, IL1B, IL2RA, NFKBIZ (activator of IL-6 expression), IL8, IL17C, IL26 and IL32 in the IL group; (2) TNFs group: TNFAIP2 and TNFAIP6; (3) IFNs group: IFNA10 and OAS2 (activator of IFN-γ); (4) chemokines group: CCL3, CCL4, CCL15, CCL23, CCL26, CXCL1, CXCL3 and CXCR7. The levels of gene expression were measured by microarray analysis as described in the Methods. Data are shown in log 2 scale.

Article Snippet: After hybridization, the microarrays were scanned in the Agilent Microarray Scanner (Cat# G2565CA, Agilent, CA, USA), and the raw data were obtained by Feature Extraction Software 10.7 (Agilent, CA, USA) and normalized using the Quantile algorithm in Gene Spring 11.0 (Agilent, CA, USA).

Techniques: Expressing, Functional Assay, Microarray

Journal: PLoS ONE

Article Title: Embryonic MicroRNA-369 Controls Metabolic Splicing Factors and Urges Cellular Reprograming

doi: 10.1371/journal.pone.0132789

Figure Lengend Snippet: A) Mouse genomic regions involving Dlk1 , Meg3 , Rian , Mirg , and Dio3 . miR-369 locations and ChIP-PCR primer positions are shown. B) Microarray analysis of miR expression level in undifferentiated ESCs (WT ES) and differentiated ESCs (WT EB D7). C) H3K4 tri-methylation in ESCs is shown at various time points indicated as: day 0 (Blue), 3 (Red), and 7 (Green). D) H3K9 tri-methylation in ESCs is shown at various time points indicated as: day 0 (Blue), 3 (Red), and 7 (Green). E) H3K27 tri-methylation in ESCs is shown at various time points indicated as: day 0 (Blue), 3 (Red), and 7 (Green). F) H3K79 tri-methylation in ESCs is shown at various time points indicated as: day 0 (Blue), 3 (Red), and 7 (Green). Vertical axis indicates relative amount of DNA.

Article Snippet: The fluorescent signals were then scanned with the Agilent DNA Microarray Scanner (G2565CA) and analyzed using Feature Extraction Software 10.10 (Agilent).

Techniques: Microarray, Expressing, Methylation