Journal: PLoS ONE

Article Title: The Quorum Sensing Peptides PhrG, CSP and EDF Promote Angiogenesis and Invasion of Breast Cancer Cells In Vitro

doi: 10.1371/journal.pone.0119471

Figure Lengend Snippet: Transcriptome alterations after EDF, PhrG or CSP quorum sensing peptide addition to MCF-7/AZ cells.

Article Snippet: Cells treated with either EDF, PhrG or CSP were analyzed in duplicate (independent treatment and analysis) for whole transcriptome expression using Affymetrix GeneChip Human Transcriptome Array 2.0. by AROS Applied Biotechnology A/S (Aarhus, Denmark); RNA expression was compared with placebo treated samples.

Techniques:

Journal: International Journal of Biological Sciences

Article Title: Exposure to Concentrated Ambient Fine Particulate Matter Induces Vascular Endothelial Dysfunction via miR-21

doi: 10.7150/ijbs.19868

Figure Lengend Snippet: miR-21 is involved in the PM 2.5 -induced increase in vascular endothelial cell permeability. Total RNAs were extracted from NS- or PM 2.5 -treated HUVECs and aortic arches of SD rats. (A) Affymetrix GeneChip miRNA 1.0 Array analysis of the differential expression miRNAs in NS or PM 2.5 treated HUVECs. Hierarchical clustering was performed using 84 miRNAs selected from among 2,536 miRNAs. Each row corresponds to one miRNA, and the two columns correspond to the NC and PM 2.5 groups. (B) Volcano plot of miRNA analysis. Plots of log P value versus log 2 fold change for HUVECs treated and untreated with PM 2.5 . The two vertical lines in each panel mark twofold changes. Red spots indicate miRNAs with highly significant fold changes. Labels indicate miR-21. (C) miR-21 expression was verified using qRT-PCR from HUVECs treated or untreated with PM 2.5 (80 µg/mL) for 24 h. (D) The expression of miR-21 in the aortic arches of rats treated with NS or PM 2.5 was measured using qRT-PCR. (E) Effect of PM 2.5 on HUVEC monolayer permeability. Cells were cultured until confluent in transwell inserts and incubated with or without the miR-21 inhibitor for 24 h and then stimulated with PM 2.5 (80 µg/mL) or left untreated for 24 h, and then FITC-dextran was added to the top chamber. Samples were removed from the bottom chamber 24 h later and analyzed with a fluorometer.* P < 0.05, *** P < 0.001.

Article Snippet: The miRNA expression was analyzed using the Affymetrix GeneChip miRNA 1.0 Array (RiboBio Co., Ltd., China).The data analysis was carried out according to previously reported procedures .

Techniques: Permeability, Expressing, Quantitative RT-PCR, Cell Culture, Incubation

Journal: BMC Microbiology

Article Title: Gene expression changes in Porphyromonas gingivalis W83 after inoculation in rat oral cavity

doi: 10.1186/s12866-015-0438-0

Figure Lengend Snippet: Pathogenic effects of P.gingivalis W83 on rat oral cavity. (A) The gingival tissues were inflammatory and bleeding after P.gingivalis W83 inoculation in rat oral cavity for 8 weeks. (B) Severe alveolar bone losses were found in rats with P.gingivalis W83 inoculation. Left: control groups. Right: rats inoculated with P.gingivalis W83 intraorally for 8 weeks

Article Snippet: The commercial GeneChip P.gingivalis W83 Genome Array used here was provided by CapitalBio Corporation ( http://www.capitalbio.com/ , Beijing, China), a service provider authorized by Roche NimbleGen (Wisconsin, USA).

Techniques: Control

Journal: BMC Microbiology

Article Title: Gene expression changes in Porphyromonas gingivalis W83 after inoculation in rat oral cavity

doi: 10.1186/s12866-015-0438-0

Figure Lengend Snippet: Isolation and identification of inoculated P.gingivalis W83. (A) Some suspicious black colonies were found from plaque mixture. (B) Suspious black colonies were pure cultured. (C) Gram staining proved the pure culture as gram-negative brevibacterium (×400). (D) Agarose gel electrophoresis proved that PCR fragment length was 857 bp. 1 and 2: Wild type P.gingivalis W83; 3–8: three inoculated P.gingivalis W83 samples for microarray analysis (two columns for each sample)

Article Snippet: The commercial GeneChip P.gingivalis W83 Genome Array used here was provided by CapitalBio Corporation ( http://www.capitalbio.com/ , Beijing, China), a service provider authorized by Roche NimbleGen (Wisconsin, USA).

Techniques: Isolation, Cell Culture, Staining, Agarose Gel Electrophoresis, Microarray

Journal: BMC Microbiology

Article Title: Gene expression changes in Porphyromonas gingivalis W83 after inoculation in rat oral cavity

doi: 10.1186/s12866-015-0438-0

Figure Lengend Snippet: Genes upregulated in the inoculated P.gingivalis W83

Article Snippet: The commercial GeneChip P.gingivalis W83 Genome Array used here was provided by CapitalBio Corporation ( http://www.capitalbio.com/ , Beijing, China), a service provider authorized by Roche NimbleGen (Wisconsin, USA).

Techniques: Binding Assay

Journal: BMC Microbiology

Article Title: Gene expression changes in Porphyromonas gingivalis W83 after inoculation in rat oral cavity

doi: 10.1186/s12866-015-0438-0

Figure Lengend Snippet: Genes analyzed by microarray in the inoculated P.gingivalis W83. Fluorescence signal strength values in X axes and Y axes represent control groups and experimental groups, respectively. Each data point was behalf of a gene chip hybridization signal. Red marking data points were T/C value ≥2, representing upregulated genes, and green marking data points were T/C value ≤0.5, representing downregulated genes

Article Snippet: The commercial GeneChip P.gingivalis W83 Genome Array used here was provided by CapitalBio Corporation ( http://www.capitalbio.com/ , Beijing, China), a service provider authorized by Roche NimbleGen (Wisconsin, USA).

Techniques: Microarray, Fluorescence, Control, Hybridization

Journal: BMC Microbiology

Article Title: Gene expression changes in Porphyromonas gingivalis W83 after inoculation in rat oral cavity

doi: 10.1186/s12866-015-0438-0

Figure Lengend Snippet: Genes downregulated in the inoculated P.gingivalis W83

Article Snippet: The commercial GeneChip P.gingivalis W83 Genome Array used here was provided by CapitalBio Corporation ( http://www.capitalbio.com/ , Beijing, China), a service provider authorized by Roche NimbleGen (Wisconsin, USA).

Techniques: Binding Assay, Modification, CRISPR