Journal: Cancers

Article Title: Circular RNAs in Clear Cell Renal Cell Carcinoma: Their Microarray-Based Identification, Analytical Validation, and Potential Use in a Clinico-Genomic Model to Improve Prognostic Accuracy

doi: 10.3390/cancers11101473

Figure Lengend Snippet: Microarray analysis results of matched clear cell renal cell carcinoma (ccRCC) tissue samples. ( A ) Number of circular RNAs (circRNAs) expressed per host gene in 7 matched ccRCC tissue samples. ( B ) Genomic origin of the detected circRNAs. ( C ) Volcano plot showing the up- and down-regulated circRNAs in malignant vs. adjacent normal tissue samples. Vertical and horizontal dashed lines indicate the thresholds of the 1.5-fold changes and the p -values of 0.05 in the t -test. The positions of the three detailed examined circRNAs in this study are marked. ( D ) Principal component analysis with the left cluster of tumor samples (C1–C7) and the right cluster with the paired adjacent normal tissue samples (N1–N7). (A and B adapted from ).

Article Snippet: Microarray analyses were performed as custom order by ArrayStar Inc. (Rockville, MD, USA) using extracted total RNA from seven paired tissue samples of non-metastasized clear cell renal cell carcinomas (ccRCC: all patients with negative lymph nodes and negative surgical margin; 1× pT1 with Fuhrman grade 2, 1× pT2 with grade 2, 3× pT3 with grade 2, 2× pT3 with grade 3).

Techniques: Microarray

Journal: Cancers

Article Title: Circular RNAs in Clear Cell Renal Cell Carcinoma: Their Microarray-Based Identification, Analytical Validation, and Potential Use in a Clinico-Genomic Model to Improve Prognostic Accuracy

doi: 10.3390/cancers11101473

Figure Lengend Snippet: List of circular RNAs (circRNAs) with at least a fourfold differential expression between the matched malignant vs. adjacent normal tissue samples ( n = 7) in the microarray discovery study phase. The three circRNAs selected for further examination in this study are marked in bold letters.

Article Snippet: Microarray analyses were performed as custom order by ArrayStar Inc. (Rockville, MD, USA) using extracted total RNA from seven paired tissue samples of non-metastasized clear cell renal cell carcinomas (ccRCC: all patients with negative lymph nodes and negative surgical margin; 1× pT1 with Fuhrman grade 2, 1× pT2 with grade 2, 3× pT3 with grade 2, 2× pT3 with grade 3).

Techniques: Quantitative Proteomics, Microarray, Expressing

Journal: Molecular Human Reproduction

Article Title: Immune cell and transcriptomic analysis of the human decidua in term and preterm parturition

doi: 10.1093/molehr/gax038

Figure Lengend Snippet: Sample–sample network graph of microarray data. Normalized expression data for the top up-and down-regulated genes ( P < 0.05, fold change ≥ 1.2) identified by microarray analysis were visualized using BioLayout Express 3D . Each node represents a different patient sample and edges are coloured to reflect the Pearson correlation that they represent. Red edges indicate high correlation, and blue edges represent low correlation. The same data set is used for each graph. ( A ) unbiased MCL cluster (MCLi = 20). ( B ) Nodes are coloured by gestation and labour status into our four sample groups: TNL ( n = 11), TL ( n = 9), PTNL ( n = 7) and PTL ( n = 8).

Article Snippet: Microarray data analysis was performed by Fios Genomics Ltd (Bioquarter, Edinburgh, UK).

Techniques: Microarray, Expressing

Journal: Molecular Human Reproduction

Article Title: Immune cell and transcriptomic analysis of the human decidua in term and preterm parturition

doi: 10.1093/molehr/gax038

Figure Lengend Snippet: QRT-PCR validations of gene expression changes in TL decidua samples. Decidual expression of selected genes identified as significantly elevated in TL in the microarray analysis was examined across our four sample groups by qRT-PCR [TNL ( n = 11), TL ( n = 9), PTNL ( n = 7) and PTL ( n = 10)]. ( A ) IL-6 expression, ( B ) PTGS2 expression, ( C ) IER3 expression, ( D ) TNFAIP3 expression and ( E ) ATF3 expression. Data are presented as mean fold change ± SEM. Data were analysed by one-way ANOVA followed by Tukey post hoc test. * P < 0.05, *** P < 0.001.

Article Snippet: Microarray data analysis was performed by Fios Genomics Ltd (Bioquarter, Edinburgh, UK).

Techniques: Quantitative RT-PCR, Gene Expression, Expressing, Microarray

Journal: Molecular Human Reproduction

Article Title: Immune cell and transcriptomic analysis of the human decidua in term and preterm parturition

doi: 10.1093/molehr/gax038

Figure Lengend Snippet: QRT-PCR validations of gene expression changes in PTL decidua samples. Decidual gene expression of selected genes identified as significantly elevated in PTL samples in the microarray analysis was examined across our four sample groups by qRT-PCR [TNL ( n = 11), TL ( n = 9), PTNL ( n = 7), PTL ( n = 10)]. ( A ) CXCL8 expression, ( B ) MARCO expression, ( C ) LILRA3 expression, ( D ) FGA expression, ( E ) FGB expression, ( F ) FGG expression, ( G ) PLAT expression and ( H ) PLAU expression. Data are presented as mean fold change ± SEM. Data were analysed by one-way ANOVA followed by Tukey post hoc test. * P < 0.05, ** P < 0.01.

Article Snippet: Microarray data analysis was performed by Fios Genomics Ltd (Bioquarter, Edinburgh, UK).

Techniques: Quantitative RT-PCR, Gene Expression, Microarray, Expressing