Journal: BioMed Research International

Article Title: MicroRNAs as Salivary Markers for Periodontal Diseases: A New Diagnostic Approach?

doi: 10.1155/2016/1027525

Figure Lengend Snippet: Comparison of methods from current investigations regarding miRNAs in periodontal disease.

Article Snippet: Naqvi et al. 2014 [ ] , Human THP-1-differentiated macrophages , miRNeasy kit (Qiagen) , NanoString nCounter miRNA assay (NanoString Technologies) , Quantitative real-time PCR EvaGreen Master Mix (Biotium) , — , RNU6B , Student's t -test (two-tailed) , miR-29b miR-32 miR-146a miR-891.

Techniques: Comparison, RNA Extraction, Biomarker Discovery, Control, In Vitro, Microarray, Isolation, TaqMan microRNA Assay, SYBR Green Assay, Labeling, Real-time Polymerase Chain Reaction, Virus, Quantitative RT-PCR, In Vivo, Expressing, Mann-Whitney U-Test

Journal: Genes and Immunity

Article Title: Transcriptome characterization of immune suppression from battlefield-like stress

doi: 10.1038/gene.2012.49

Figure Lengend Snippet: Comparison of transcript levels determined by two different assays and comparison of transcript levels with plasma protein levels. ( a ) Correlation of real-time QPCR and cDNA microarray data: real-time PCR reactions for each gene were carried out with three or more replicates. Trizol RNA isolation and cDNA microarrays were used. Significance levels: *0.001⩽ q <0.05, **1.0E-5⩽ q <0.001, *** q <1.0E-5— q stands for P -values after FDR correction. ( b ) Plasma protein concentrations (ELISA) compared with transcript levels (oligo and cDNA microarray): plasma concentrations of PRL, IGF1 and IGF2, TNFα and enzymatic activity of superoxide dismutase 1 (SOD1) assays were performed in triplicate on the plasma of 9 of the 10 soldiers who completed RASP. The IGF-I depletion is consistent with the finding of other investigators who measured its plasma concentration on similar subjects (*0.01⩽ P <0.05, **0.001⩽ P <0.01, *** P <0.001).

Article Snippet: Expression profiles of miRs were assayed using Agilent's human miRNA v3 microarrays (Agilent Technologies Inc.) consisting of 15k targets representing 961 miRs.

Techniques: Microarray, Real-time Polymerase Chain Reaction, Isolation, Enzyme-linked Immunosorbent Assay, Activity Assay, Concentration Assay

Journal: Genes and Immunity

Article Title: Transcriptome characterization of immune suppression from battlefield-like stress

doi: 10.1038/gene.2012.49

Figure Lengend Snippet: Expression of immune response genes in leukocytes exposed ex vivo to SEB. Leukocytes isolated from whole blood were treated with SEB (∼10 6 cells ml −1 in RPMI 1640 and 10% human AB serum at a final concentration of 100 ng ml −1 SEB). Total RNA was isolated using Trizol and expression levels were profiled using cDNA microarrays. Shown here are the 151 RASP-suppressed immune response genes that passed Welch's test and FDR correction ( q <0.05). ( a ) Lanes left to right: pre-RASP samples not exposed to SEB (control), pre-RASP samples exposed to SEB, post-RASP samples not treated with SEB, post-RASP samples exposed to SEB. For comparative visualization purpose, expression values of the other groups were transformed against the pre-RASP control samples (black lane). Heat map of the same data without transformation is given in the supplement . ( b ) Expression values in SEB exposed leukocytes (in both the pre- and post-RASP conditions) were compared with the corresponding SEB untreated groups (pre-RASP control and post-RASP stressed groups). ( c ) Heat map of the 151 immune response genes in SEB treated groups (in both pre- and post-RASP leukocytes) clustered after subtraction of the corresponding baseline responses (cluster after subtraction of their expressions in the corresponding untreated groups shown in Figure 4b). clearly shows poor response of post-RASP leukocytes towards SEB exposure compared with pre-RASP leukocytes.

Article Snippet: Expression profiles of miRs were assayed using Agilent's human miRNA v3 microarrays (Agilent Technologies Inc.) consisting of 15k targets representing 961 miRs.

Techniques: Expressing, Ex Vivo, Isolation, Concentration Assay, Transformation Assay

Journal: Sarcoma

Article Title: miR-125b and miR-100 Are Predictive Biomarkers of Response to Induction Chemotherapy in Osteosarcoma

doi: 10.1155/2016/1390571

Figure Lengend Snippet: Expression of six miRNAs was significantly different between poor and good responders, as measured by microarray analysis of open biopsy samples (a). qRT-PCR (b–g) of these six miRNAs confirmed that miRNA-125b (b) and miR-100 (c) were expressed at significantly higher levels in chemoresistant patients.

Article Snippet: Formalin-fixed paraffin-embedded samples were sectioned at 10 μ m, and total RNA was extracted from several of such slices using the miRNeasy FFPE Kit (Qiagen). miRNA expression profiles of frozen samples were obtained by hybridizing total RNA to the Agilent human miRNA Microarray V3 (021827, 8 × 15 K, v12.0, Agilent Technologies, Santa Clara, CA), following the manufacturer's instructions.

Techniques: Expressing, Microarray, Quantitative RT-PCR