Journal: Cell Death & Disease

Article Title: Long intergenic non-coding RNA APOC1P1-3 inhibits apoptosis by decreasing α -tubulin acetylation in breast cancer

doi: 10.1038/cddis.2016.142

Figure Lengend Snippet: LncRNA microarray screening and qPCR validation for differentially expressed lncRNAs in breast cancer. The microarray results in five pairs of fresh breast cancer tissues and corresponding para-cancer normal tissues were shown in ( a , b , and c ). ( a ) Quality assessment of lncRNA data after filtering using box plot. The box plot is a convenient way to quickly visualize the distributions of a data set. It is commonly used for comparing the distributions of the intensities from all samples. After normalization, the distributions of log2 ratios among all tested samples are nearly the same. Red bars indicate abnormal values. Blue boxes, the bottom and top of the box are the first and third quartiles, and the band inside the box is the median. ( b ) The scatter plot for assessing the lncRNA expression variation between cancer and para-cancer tissues. The values of X and Y axes in the scatter plot are the normalized signal values of the samples (log2 scaled) or the averaged normalized signal values of groups of samples (log2 scaled). The green lines are fold change lines (the default fold change value given is 1.5). The lncRNAs above the top green line and below the bottom green line indicated >1.5-fold change of lncRNAs between the two compared samples or the two compared groups of samples. ( c ) Hierarchical clustering for ‘differentially expressed lncRNAs for cancer versus para-cancer'. ‘Red' indicates high relative expression, and ‘blue' indicates low relative expression. The result from hierarchical clustering shows a distinguishable lncRNA expression profiling among samples. ( d ) qPCR detection showed all breast cancer cell lines bear higher expression level of APOC1P1-3 than non-tumoral mammary epithelial cell line MCF10A. Data are shown as the mean±S.D. Error bars indicate S.D. ** P <0.01 versus control (MCF10A). ( e ) qPCR detection in 25 pairs of fresh tissues showed APOC1P1-3 was highly expressed in breast cancer tissues. ΔΔCt=ΔCt (cancer)−ΔCt (normal), ΔCt=Ct ( APOC1P1-3 )−Ct ( GAPDH )

Article Snippet: After hybridization, using Human LncRNA Microarray v2.0 (Arraystar, Rockville, MD, USA), slides were scanned with the Agilent DNA Microarray Scanner (Agilent p/n G2565BA) and analyzed with Agilent Feature Extraction software v. 11.5.1.1.

Techniques: Microarray, Biomarker Discovery, Expressing, Control