Journal: Theranostics

Article Title: A panel of eight microRNAs is a good predictive parameter for triple-negative breast cancer relapse

doi: 10.7150/thno.46142

Figure Lengend Snippet: Clinicopathological characteristics of TNBC patients in this study.

Article Snippet: The GEOD-40525 dataset was based on an Agilent-019118 Human miRNA Microarray 2.0 platform (n=8).

Techniques: Preserving, Sequencing, Microarray

Journal: British Journal of Cancer

Article Title: Dysregulation of miR-106a and miR-591 confers paclitaxel resistance to ovarian cancer

doi: 10.1038/bjc.2013.305

Figure Lengend Snippet: Significantly altered miRNAs by microRNA microarray in PTX-resistant SKpac cells compared with parent SKOV3 cells

Article Snippet: For the selection of the candidate miRNAs, the miRNA expression profiles for four PTX-resistant SKpac cell lines (SKpac-8, -10, -11, and -12) and the parent ovarian cancer cell line (SKOV3) were evaluated and compared using a bead-based miRNA microarray (Human-miRNA-V1 Bead Chips; Illumina, San Diego, CA, USA) containing 739 human precursor and mature miRNA oligonucleotide probes.

Techniques: Microarray

Journal: British Journal of Cancer

Article Title: Dysregulation of miR-106a and miR-591 confers paclitaxel resistance to ovarian cancer

doi: 10.1038/bjc.2013.305

Figure Lengend Snippet: ( A ) Hierarchical clustering of miRNA expression profiles by miRNA microarray. Unsupervised hierarchical clustering analysis of miRNAs that exhibited a statistically significant ( P <0.05) increase or decrease in PTX-resistant SKpac cells compared with PTX-sensitive SKOV3 cells. The level of miRNA expression is color-coded. ( B ) Validation by qRT–PCR of candidate miRNAs that showed significantly different expression by miRNA microarray (see A ). The bar graph shows the expression of each microRNA in SKpac cells (SKpac-8, -10, -11, -12, -16, and -17) relative to the average expression level in SKOV3 cells (* P <0.05). ( C ) Expression of miR-106a by qRT–PCR in chemosensitive and chemoresistant ovarian cancer tissues. Relative expression levels are shown normalised to benign tumours. The inner bar in each graph represents the mean value. The expression level in the chemoresistant ovarian cancers was significantly higher (3.2-fold than that in benign tissue) than in the chemosensitive cancers (1.12-fold than that in benign tissue; P =0.032). ( D ) Kaplan–Meier OS curve. The higher expression group of miR-106a (more than two-fold than that of benign tumour) demonstrated a significantly worse OS ( P =0.007) in patients with ovarian serous carcinomas.

Article Snippet: For the selection of the candidate miRNAs, the miRNA expression profiles for four PTX-resistant SKpac cell lines (SKpac-8, -10, -11, and -12) and the parent ovarian cancer cell line (SKOV3) were evaluated and compared using a bead-based miRNA microarray (Human-miRNA-V1 Bead Chips; Illumina, San Diego, CA, USA) containing 739 human precursor and mature miRNA oligonucleotide probes.

Techniques: Expressing, Microarray, Biomarker Discovery, Quantitative RT-PCR

Journal: British Journal of Cancer

Article Title: Dysregulation of miR-106a and miR-591 confers paclitaxel resistance to ovarian cancer

doi: 10.1038/bjc.2013.305

Figure Lengend Snippet: TUNEL assay in SKpac cells after transfection of anti-miR-106a or pre-miR-591. ( A ) Representative graphs of TUNEL assay. Transfection anti-miR-106a or pre-miR-591 markedly increases apoptosis of PTX-resistant SKpac cells following 80 nℳ PTX treatment. ( B ) The graph represents the mean increase in apoptosis after transfection of each miRNA following PTX treatment compared with PTX-treated, control miRNA-transfected cells (* P <0.05). ( C ) The graph represents the mean decrease in PTX (20 nℳ)-induced apoptosis in chemosensitive parental SKOV3 cells after transfection with pre-miR-106a, or anti-miR-591. The graph represents the mean±standard error of triplicate experiments.

Article Snippet: For the selection of the candidate miRNAs, the miRNA expression profiles for four PTX-resistant SKpac cell lines (SKpac-8, -10, -11, and -12) and the parent ovarian cancer cell line (SKOV3) were evaluated and compared using a bead-based miRNA microarray (Human-miRNA-V1 Bead Chips; Illumina, San Diego, CA, USA) containing 739 human precursor and mature miRNA oligonucleotide probes.

Techniques: TUNEL Assay, Transfection, Control

Journal: British Journal of Cancer

Article Title: Dysregulation of miR-106a and miR-591 confers paclitaxel resistance to ovarian cancer

doi: 10.1038/bjc.2013.305

Figure Lengend Snippet: Cell migration and colony-forming assay. ( A ) Cell migration across collagen-coated wells was assessed using the Oris Cell Migration Assay kit. Migration of PTX-treated (80 nℳ) SKpac cells transfected with pre-miR-591 or anti-miR-106a was markedly decreased compared with that of contol mRNA-transfected cells. The graph represents the mean±standard error of triplicate experiments (* P <0.05). ( B ) The mean number of colonies formed by SKpac cells transfected with anti-miR-106a or pre-miR-591 decreased compared with PTX-treated, control miRNA-transfected cells. The graph represents the mean±standard error of triplicate experiments (* P <0.05). ( C ) Colony formation by PTX-treated SKOV3 cells transfected with pre-miR-106a or anti-miR-591 was markedly increased (4–4.5-fold) compared with PTX-treated, control miRNA-transfected cells (* P <0.05).

Article Snippet: For the selection of the candidate miRNAs, the miRNA expression profiles for four PTX-resistant SKpac cell lines (SKpac-8, -10, -11, and -12) and the parent ovarian cancer cell line (SKOV3) were evaluated and compared using a bead-based miRNA microarray (Human-miRNA-V1 Bead Chips; Illumina, San Diego, CA, USA) containing 739 human precursor and mature miRNA oligonucleotide probes.

Techniques: Migration, Cell Migration Assay, Transfection, Control

Journal: British Journal of Cancer

Article Title: Dysregulation of miR-106a and miR-591 confers paclitaxel resistance to ovarian cancer

doi: 10.1038/bjc.2013.305

Figure Lengend Snippet: Luciferase assays for putative target genes of miR-106a and miR-591. The wild-type or mutated binding sites were cloned separately into the pGL3-control vector. The pGL3-control (100 ng) and pRL-TK plasmids (5 ng) were transfected, and synthetic pre-miR-591 or pre-miR-106a was added into SKpac cells. All experiments were performed in triplicate and normalised to Renilla luciferase activity. ( A ) The luciferase activity of reporter construct containing the wild-type ZEB1 3′-UTR was repressed by pre-miR-591 (50%), whereas this miRNA had no effect on the luciferase activity of reporter constructs containing mutant ZEB1 3′-UTR. ( B ) The luciferase activity of reporter construct containing the wild-type caspase-7 3′-UTR was repressed by pre-miR-106a (42%), whereas this miRNA had no effect on the luciferase activity with mutant caspase7 3′-UTR. ( C ) The luciferase activity of reporter construct containing the wild-type BCL10 3′-UTR was repressed by pre-miR-106a (40%), whereas this miRNA had no effect on the luciferase activity with mutant BCL10 3′-UTR. MT, mutant type; WT, wild type.

Article Snippet: For the selection of the candidate miRNAs, the miRNA expression profiles for four PTX-resistant SKpac cell lines (SKpac-8, -10, -11, and -12) and the parent ovarian cancer cell line (SKOV3) were evaluated and compared using a bead-based miRNA microarray (Human-miRNA-V1 Bead Chips; Illumina, San Diego, CA, USA) containing 739 human precursor and mature miRNA oligonucleotide probes.

Techniques: Luciferase, Binding Assay, Clone Assay, Control, Plasmid Preparation, Transfection, Activity Assay, Construct, Mutagenesis

Journal: Stem Cells International

Article Title: Comparison of the MicroRNA Expression Profiles of Male and Female Avian Primordial Germ Cell Lines

doi: 10.1155/2018/1780679

Figure Lengend Snippet: An overview of the results of LC chicken miRNA microarray analysis. (a) The microarray analysis was performed on 4 PGC lines (2 female and 2 male) (Supplementary Tables – ). On the microarray, 991 chicken-specific miRNAs, 42 plate controls, and 6 gga-5Sb rRNA probes were placed (Supplementary ). From the 991 miRNAs, 27 miRNAs were expressed in all samples and altogether 153 miRNAs were expressed in PGC lines. (b) The Venn diagram introduces the similarities and differences between the cell lines. (c) Paired t -test analysis was conducted between the male (4ZP, FS101) and female (5ZP, FS111) PGC lines by LC Sciences Company. Paired t -test was conducted between the male and female PGC samples at the 0.05 significance level, to analyse the differences in the expression level of all expressing miRNAs in the samples. The heat map represents the result of the analysis. Only 6 differentially expressing miRNAs were found: gga-miR-1354, gga-miR-1767, gga-mir-30c-5p, gga-miR-1584, gga-miR-1599, and gga-miR-2127 (Supplementary , Supplementary Fig. ).

Article Snippet: As microRNAs (miRNAs) have been proved to play a key role in the maintenance of pluripotency and the cell cycle regulation of stem cells, a complex miRNA analysis (microarray-based, μ Paraflo® Microfluidic Biochip Technology, LC Sciences, Houston, Texas, USA) was performed to determine the difference in miRNA expression profile between 2 female and 2 male PGC lines (Supplementary Tables – ).

Techniques: Microarray, Expressing

Journal: Stem Cells International

Article Title: Comparison of the MicroRNA Expression Profiles of Male and Female Avian Primordial Germ Cell Lines

doi: 10.1155/2018/1780679

Figure Lengend Snippet: Expression pattern of miRNAs, identified in all examined samples by LC chicken miRNA microarray analysis. The microarray analysis was performed on 4 PGC lines (2 female (FS111 and 5ZP) and 2 male (FS101 and 4ZP)). (a) The expression values of miRNAs, expressing in all PGC samples, were visualized in a heat map (using GenEx software, complete linkage and Spearman correlation analysis were performed). Simultaneously, cluster analysis was performed. According to the analysis, the male cells were more related to each other. The 5ZP PGC line was the most different from the others. (b), (c) Using GenEx software, we performed a scatterplot analysis to identify the upregulated miRNAs. (b) represents the group of upregulated miRNAs in the 5ZP PGC line. These miRNAs compose cluster 1, while (c) shows the upregulated miRNAs in the highly proliferating PGC lines. These miRNAs formed cluster 2. The results of the clustering analysis highlighted a portion of miRNAs in cluster 2 which belong to the miRNA-302 cluster.

Article Snippet: As microRNAs (miRNAs) have been proved to play a key role in the maintenance of pluripotency and the cell cycle regulation of stem cells, a complex miRNA analysis (microarray-based, μ Paraflo® Microfluidic Biochip Technology, LC Sciences, Houston, Texas, USA) was performed to determine the difference in miRNA expression profile between 2 female and 2 male PGC lines (Supplementary Tables – ).

Techniques: Expressing, Microarray, Software

Journal: Stem Cells International

Article Title: Comparison of the MicroRNA Expression Profiles of Male and Female Avian Primordial Germ Cell Lines

doi: 10.1155/2018/1780679

Figure Lengend Snippet: Expression pattern of stem cell- and germ cell-specific markers in RNA samples examined at LC miRNA microarray analysis. We performed qPCR analysis to check the RNA expression profile in samples sent to LC microarray analysis. We compared one female (5ZP) and one male (4ZP) GFP PGC sample, and one female (FS111) and one male (FS101) PC PGC sample using 3 parallel samples at qPCR analysis. (a), (b) Expression of CVH, cDAZL, cPOUV, and cNANOG (relative to cGAPDH as the reference gene) and gga-miR-302a, gga-miR-302b-3p, and gga-miR-302b-5p (relative to U6 as the reference gene) was analysed. Relative gene expression values were calculated relative to the FS101 sample in each case. (c) The proliferation rate of PGCs was measured on 3 different days using CCK-8 proliferation assay. The doubling time was calculated according to the measured optical densities (OD). (d) The miR-302b-5p/miR-302b-3p ratio was calculated from the average delta Ct values of samples.

Article Snippet: As microRNAs (miRNAs) have been proved to play a key role in the maintenance of pluripotency and the cell cycle regulation of stem cells, a complex miRNA analysis (microarray-based, μ Paraflo® Microfluidic Biochip Technology, LC Sciences, Houston, Texas, USA) was performed to determine the difference in miRNA expression profile between 2 female and 2 male PGC lines (Supplementary Tables – ).

Techniques: Expressing, Microarray, RNA Expression, Gene Expression, CCK-8 Assay, Proliferation Assay

Journal: Stem Cells International

Article Title: Comparison of the MicroRNA Expression Profiles of Male and Female Avian Primordial Germ Cell Lines

doi: 10.1155/2018/1780679

Figure Lengend Snippet: Most important targets of gga-miR-302b-5p and gga-miR-302-3p miRNAs. The main molecular targets for the studied miRNAs have been presented. The molecular pathways and targets for gga-miR-302b-5p are on the left side and for gga-miR-302b-3p on the right side. MAKP signalling is responsible for maintaining pluripotency and proliferation in mammals. It can be activated by a series of intrinsic and extrinsic stimulatory signals. In chickens, gga-miR-302b-5p controls the proliferation rate via MAPK signalling. In the case of low-proliferating PGC cell lines, gga-miR-302b-3p expression was high. It can be assumed that the high gga-miR-302b-3p expression somehow causes downregulation of pathways promoting proliferation, thereby causing cell cycle arrest at the G1 stage. gga-miR-302b-5p was found to be highly expressed in high-proliferating PGC lines. Hence, it can be hypothesized that probably the high expression of gga-miR-302b-5p is contributed in controlling throughout its molecular targets in the MAPK signalling pathway. miR-302b-5p probably by inhibiting the MAPK pathway components can cause high proliferation rate in PGC lines, and miR-302a is responsible for the fast transition from the G1 to S phase in the cell cycle .

Article Snippet: As microRNAs (miRNAs) have been proved to play a key role in the maintenance of pluripotency and the cell cycle regulation of stem cells, a complex miRNA analysis (microarray-based, μ Paraflo® Microfluidic Biochip Technology, LC Sciences, Houston, Texas, USA) was performed to determine the difference in miRNA expression profile between 2 female and 2 male PGC lines (Supplementary Tables – ).

Techniques: Expressing