the mirvana mirna bioarray system  (Thermo Fisher)

Journal: PLoS ONE

Article Title: Muscarinic receptor activation in colon cancer selectively augments pro-proliferative microRNA-21, microRNA-221 and microRNA-222 expression

doi: 10.1371/journal.pone.0269618

Figure Lengend Snippet: A) miRNA microarray profiles were performed on RNA extracted from HT-29 cells treated with vehicle or 100 μM ACh for 4 h. Data were normalized using the global Lowess regression algorithm and are expressed as log base 2 transformed ratios of the sample signal to the control reference pool signal. miRNAs with statistically significant changes (p<0.05) after ACh treatment are shown in the heat map; red represents increased expression compared to the pooled reference control, and green represents decreased expression. B) Changes in miR-21, miR-221, and miR-222 expression were confirmed by qPCR in HT-29 and H508 human colon cancer cells. Results are means ± SE, n = 4. *, indicates p<0.05 for the test sample compared to control. C) Expression of miR-21, miR-221, and miR-222 in sporadic colonic cancers and adjacent normal-appearing tissue were measured by microarray. Results are means ± SE, n = 4. *, indicates p<0.05 for expression in cancer compared to normal.

Article Snippet: Human miRNA profiles were analyzed using Exiqon miRNA array 7th Gen (Product #208500) for HT-29 cells and mirVana miRNA Bioarrays v. 2 (Thermo Fisher Scientific) for human colon samples according to the manufacturer’s instructions.

Techniques: Microarray, Transformation Assay, Control, Expressing

Journal: PLoS ONE

Article Title: Muscarinic receptor activation in colon cancer selectively augments pro-proliferative microRNA-21, microRNA-221 and microRNA-222 expression

doi: 10.1371/journal.pone.0269618

Figure Lengend Snippet: A) Pri-miR-21 and B) pri-miR-221/222 levels were measured by qPCR in HT-29 cells. Cells were pre-incubated for 45 min with 5 μM atropine to inhibit M 3 R activation, 5 μM Gӧ6976 to inhibit PKC activation, and 10 μM SB203580 (SB203) to inhibit p38 activation. Then, 100 μM ACh was added for an additional 60-min incubation. Bars represent means ± SEM. n = 4. *, indicates p< 0.05 compared to 100 μM ACh alone. C) HT-29 cells were pre-incubated for 45 min with 5 μM atropine before adding 100 μM ACh or transfecting cells with miR-222 mimics for an additional 24 h. Cell proliferation was measured using the WST-1 assay. Bars represent means ± SEM. n = 4 *, P < 0.05 compared to cells without atropine. D) Working model for post-M 3 R signal transduction mediating muscarinic receptor agonist-induced increases in selected miRNAs in colon cancer. The agonists, inhibitors, and miRNA mimics used to test each step in the proposed signaling pathway are shown.

Article Snippet: Human miRNA profiles were analyzed using Exiqon miRNA array 7th Gen (Product #208500) for HT-29 cells and mirVana miRNA Bioarrays v. 2 (Thermo Fisher Scientific) for human colon samples according to the manufacturer’s instructions.

Techniques: Incubation, Activation Assay, WST-1 Assay, Transduction

Journal: Oncotarget

Article Title: Identification of microRNA differentially expressed in three subtypes of non-small cell lung cancer and in silico functional analysis

doi: 10.18632/oncotarget.20218

Figure Lengend Snippet: Heat map of the significantly dysregulated miRNAs between the cancer and normal tissue samples in GSE19945 (A) , GSE51852 (B) and GSE25508 (C) . (D) ( Upper ) Venn diagram between the up-regulated and down-regulated miRNAs from each dataset. ( Lower ) the lists of the common dysregulated miRNAs. Red: up-regulation; blue: down-regulation.

Article Snippet: GSE16025 dataset contained 61 SCC samples and 10 matched normal lung samples and profiled on MirVana miRNA Bioarrays (version 2, Ambio).

Techniques:

Journal: Oncotarget

Article Title: Identification of microRNA differentially expressed in three subtypes of non-small cell lung cancer and in silico functional analysis

doi: 10.18632/oncotarget.20218

Figure Lengend Snippet: (A) Overlapped DEmiRNAs in ADC were presented as Venn diagram. RRA analysis of up-regulated (B) and down-regulated miRNAs (C) to identify common DEmiRNAs in ADC. (D) Overlapped DEmiRNAs in SCC were presented. RRA analysis of up-regulated (E) and down-regulated miRNAs (F) in SCC were listed. (G) Overlapped DEmiRNAs in LCLC were presented. RRA analysis of up-regulated (H) and down-regulated miRNAs (I) in LCLC were listed. For the RRA column diagram, red: crude p-value (up-regulation); Dark red: corrected p-value (up-regulation). Blue: crude p-value (down-regulation); Dark blue: corrected p-value (down-regulation).

Article Snippet: GSE16025 dataset contained 61 SCC samples and 10 matched normal lung samples and profiled on MirVana miRNA Bioarrays (version 2, Ambio).

Techniques:

Journal: Oncotarget

Article Title: Identification of microRNA differentially expressed in three subtypes of non-small cell lung cancer and in silico functional analysis

doi: 10.18632/oncotarget.20218

Figure Lengend Snippet: Venn diagram of overlapped dysregulated miRNAs of SCC vs. LCLC (A) and SCC vs. ADC (C) . Common DEmiRNAs of SCC vs. LCLC (B) and SCC vs. ADC (D) were identified using RRA method. For the RRA column diagram, red: rude p-value; blue: corrected p-value.

Article Snippet: GSE16025 dataset contained 61 SCC samples and 10 matched normal lung samples and profiled on MirVana miRNA Bioarrays (version 2, Ambio).

Techniques:

Journal: Oncotarget

Article Title: Identification of microRNA differentially expressed in three subtypes of non-small cell lung cancer and in silico functional analysis

doi: 10.18632/oncotarget.20218

Figure Lengend Snippet: (A) The interaction between three miRNAs (miR-203, miR-205 and miR-375) and of their predicted target genes. The central yellow circles represented miRNAs. The color of the circles with the names of the target genes on it varies according to their cumulative weighted context++ score. KEGG pathway enrichments of predicted target genes of miR-203 (B) , miR-205 (C) and miR-375 (D) , were presented, respectively. (E) The combinatorial effects of three miRNAs in KEGG pathways were predicted.

Article Snippet: GSE16025 dataset contained 61 SCC samples and 10 matched normal lung samples and profiled on MirVana miRNA Bioarrays (version 2, Ambio).

Techniques:

Journal: Oncotarget

Article Title: Identification of microRNA differentially expressed in three subtypes of non-small cell lung cancer and in silico functional analysis

doi: 10.18632/oncotarget.20218

Figure Lengend Snippet: (A) The expression profile of 3 miRNAs (miR-203, miR-205 and miR-375) and 90 Hippo signaling related genes was presented as heatmap. (B) Pearson correlation for each miRNA and 90 Hippo signaling related genes. The genes which considered to have statistically significant relationship with the miRNA were marked red. (C) The interaction network of the significant couples derived from Pearson correction.

Article Snippet: GSE16025 dataset contained 61 SCC samples and 10 matched normal lung samples and profiled on MirVana miRNA Bioarrays (version 2, Ambio).

Techniques: Expressing, Derivative Assay