Journal: Experimental and Therapeutic Medicine

Article Title: Microarray analysis of long non-coding RNA expression profiles in Marfan syndrome

doi: 10.3892/etm.2020.9093

Figure Lengend Snippet: Microarray profiling of lncRNAs in the MFS and NA tissue specimens. (A) Volcano plots, (B) scatter plots and (C) hierarchical clustering showing the lncRNA expression profiling (P<0.05 and fold change ≥1.5). Upregulated lncRNAs are denoted in red and downregulated in green. lncRNA, long noncoding RNA; MFS, Marfan syndrome; NA, normal aorta.

Article Snippet: An Arraystar Human Microarray lncRNA v3.0 (array format: 8 x 60K; Arraystar, Inc.), which can probe more than 30,000 lncRNAs, covering all lncRNAs from authoritative databases RefSeq ( http://www.ncbi.nlm.nih.gov/projects/RefSeq ) , UCSC Known Genes ( http://genome.ucsc.edu ) , LNCipedia ( http://www.lncipedia.org ) , NONCODEv4 ( http://www.noncode.org ) ( ) and Ensembl ( https://asia.ensembl.org ) ( ) and their coding proteins, were used for microarray analysis.

Techniques: Microarray, Expressing

Journal: Experimental and Therapeutic Medicine

Article Title: Microarray analysis of long non-coding RNA expression profiles in Marfan syndrome

doi: 10.3892/etm.2020.9093

Figure Lengend Snippet: The lncRNAs and mRNA co-expression network. The interaction network of differentially expressed genes (lncRNA: uc003jka.1, uc003jox.1, XIST, linc-LPA-1, linc-PPWD1). Round nodes represent protein-coding genes and square nodes represent lncRNAs. Blue nodes represent upregulated genes or lncRNAs, red nodes represent downregulated genes or lncRNAs. The node size represents the connectivity, with larger node showing that more genes or lncRNAs are co-expressed with this gene or lncRNA. Solid lines represent positive correlation and dotted lines negative correlation. lncRNA, long noncoding RNA; XIST, X-inactive specific transcript; linc-LPA-1, linc-lysophosphatidic acid receptor 1; linc-PPWD1, linc-peptidylprolyl isomerase domain and wd repeat containing 1.

Article Snippet: An Arraystar Human Microarray lncRNA v3.0 (array format: 8 x 60K; Arraystar, Inc.), which can probe more than 30,000 lncRNAs, covering all lncRNAs from authoritative databases RefSeq ( http://www.ncbi.nlm.nih.gov/projects/RefSeq ) , UCSC Known Genes ( http://genome.ucsc.edu ) , LNCipedia ( http://www.lncipedia.org ) , NONCODEv4 ( http://www.noncode.org ) ( ) and Ensembl ( https://asia.ensembl.org ) ( ) and their coding proteins, were used for microarray analysis.

Techniques: Expressing

Journal: Experimental and Therapeutic Medicine

Article Title: Microarray analysis of long non-coding RNA expression profiles in Marfan syndrome

doi: 10.3892/etm.2020.9093

Figure Lengend Snippet: Reverse transcription-quantitative PCR validation. Compared to healthy controls, 5 long noncoding RNAs (uc003jka.1, uc003jox.1, XIST, linc-LPA-1, linc-PPWD1) with highest degree were selected. Results were consistent with the findings obtained from the microarray chip analysis (n=6). Data are presented as the mean ± standard deviation. * P<0.05, ** P<0.01 vs. NA samples. MFS, Marfan syndrome; NA, normal aorta; XIST, X-inactive specific transcript; linc-LPA-1, linc-lysophosphatidic acid receptor 1; linc-PPWD1, linc-peptidylprolyl isomerase domain and WD repeat containing 1.

Article Snippet: An Arraystar Human Microarray lncRNA v3.0 (array format: 8 x 60K; Arraystar, Inc.), which can probe more than 30,000 lncRNAs, covering all lncRNAs from authoritative databases RefSeq ( http://www.ncbi.nlm.nih.gov/projects/RefSeq ) , UCSC Known Genes ( http://genome.ucsc.edu ) , LNCipedia ( http://www.lncipedia.org ) , NONCODEv4 ( http://www.noncode.org ) ( ) and Ensembl ( https://asia.ensembl.org ) ( ) and their coding proteins, were used for microarray analysis.

Techniques: Reverse Transcription, Real-time Polymerase Chain Reaction, Biomarker Discovery, Microarray, Standard Deviation

Journal: Journal of Cellular and Molecular Medicine

Article Title: A novel antisense lncRNA NT5E promotes progression by modulating the expression of SYNCRIP and predicts a poor prognosis in pancreatic cancer

doi: 10.1111/jcmm.15718

Figure Lengend Snippet: LncNT5E is up‐regulated in pancreatic cancer (PC) tissues and cell lines. A, The heat map from our previous lncRNA microarray reflected the differentially expressed lncRNAs in PC and normal tissues. T represents PC tissue, and N represents normal pancreatic tissue. ENST00000421594 indicates lncNT5E. B, Relative expression of lncNT5E in 45 paired PC and adjacent normal tissues. LncNT5E expression from all tissues was normalized to 18S expression (ΔCT) and then compared with adjacent normal tissues and converted to the fold change (2 −ΔΔCT ). C, Relative expression of lncNT5E in different cell lines. Data are shown as fold change (2 −ΔΔCT ). * P < .05, ** P < .01, *** P < .001

Article Snippet: We used microarray detection (H1602063, Arraystar Human LncRNA 8 × 60 k v3.0 1‐color) to study lncRNAs in three pairs of PC and adjacent normal tissues.

Techniques: Microarray, Expressing

Journal: Cell Death & Disease

Article Title: ALKBH5 suppresses tumor progression via an m 6 A-dependent epigenetic silencing of pre-miR-181b-1/YAP signaling axis in osteosarcoma

doi: 10.1038/s41419-020-03315-x

Figure Lengend Snippet: A m 6 A-RIP microarray analysis (upper) showing inhibitory effects of ALKBH5 on m 6 A methylation of pre-miRNAs relative to the control group. Two potentially m 6 A sites of pre-miR-181b-1 predicted by SRAMP program (lower). B m 6 A methylation modification of miR-181-5p detected by gene-specific m 6 A assay. C pre-miR-181b-1 and miR-181-5p endogenous levels in osteosarcoma cell lines compared with hOB cells. D qRT-PCR analysis revealed the function of ALKBH5 overexpression or knockdown on pre-miR-18b-1 and miR-181-5p expression. E Wound-healing assay performed at 0 and 24 h, respectively, after transfected with NC or miR-181-5p mimics. Bar graph representing mean relative distance of migrated cells (Bar: 200 μm, n = 4). F Representative images of EdU staining in U2OS cells with or without miR-181-5p mimics. Bar graph quantifying the percentage of EdU-positive cells (Bar: 25 μm, n = 5). G Migration ability of U2OS after transfected with ALKBH5 plasmids and/or co-transfected with miR-181-5p inhibitor (AMO-181-5p) (Bar: 200 μm, n = 4). H EdU staining showing the reversing effects of AMO-181-5p on cell proliferation (Bar: 25 μm, n = 5). Data are expressed as mean ± SEM. * P < 0.05; ** P < 0.01; *** P < 0.001 (vs. the first group). ### P < 0.001 (vs. the second group).

Article Snippet: The cRNAs were combined and hybridized onto Arraystar Mouse Epitranscriptomic Microarray (8×60K, Arraystar).

Techniques: Microarray, Methylation, Modification, Quantitative RT-PCR, Over Expression, Expressing, Wound Healing Assay, Transfection, Staining, Migration