human lncrna/mrna microarray (v5.0  (Arraystar inc)

Journal: International Journal of Molecular Medicine

Article Title: Comprehensive analysis of long non-coding RNA-messenger RNA-microRNA co-expression network identifies cell cycle-related lncRNA in hepatocellular carcinoma

doi: 10.3892/ijmm.2019.4323

Figure Lengend Snippet: Overview of the study design for lncRNA-mRNA-miRNA co-expression network in HCC. HCC, hepatocellular carcinoma; miRNA, microRNA; lnc, long noncoding RNA; KEGG, Kyoto Encyclopedia of Genes and Genomes; GO, gene ontology; q, quantitative.

Article Snippet: Two microarrays, including human lncRNA plus mRNA microarray v5.0 (4x180 K) and human miRNA microarray v21.0 (Agilent Technologies, Inc.), were used for detection of differential expression of lncRNAs plus mRNAs, and miRNAs, respectively.

Techniques: Expressing

Journal: International Journal of Molecular Medicine

Article Title: Comprehensive analysis of long non-coding RNA-messenger RNA-microRNA co-expression network identifies cell cycle-related lncRNA in hepatocellular carcinoma

doi: 10.3892/ijmm.2019.4323

Figure Lengend Snippet: GO and KEGG pathway analysis for differentially expressed mRNAs from microarray test. GO analysis consisted of three aspects, including (A) molecular functions, (B) cellular components, (C) biological processes and (D) KEGG pathway. The green binding network enriched the upregulated DEGs while the blue binding network gathered the downregulated ones. Every red spot in the separated networks represented each of the involved GO analysis pathways. The number of red spots a network possessed reflects associations with the number of DEGs related to the binding circle. Meanwhile, the thickness of binding lines indicated the binding intensity of the DEGs from the two connected red spots. The major pathways are provided in text as examples of possible molecular interactions for which non-coding RNAs may have regulatory effects. For full spectrum of GO and KEGG pathway analysis information, please refer to Table SV and SVI, respectively. DEG, differential expressed genes; KEGG, Kyoto Encyclopedia of Genes and Genomes; GO, gene ontology.

Article Snippet: Two microarrays, including human lncRNA plus mRNA microarray v5.0 (4x180 K) and human miRNA microarray v21.0 (Agilent Technologies, Inc.), were used for detection of differential expression of lncRNAs plus mRNAs, and miRNAs, respectively.

Techniques: Microarray, Binding Assay

Journal: International Journal of Molecular Medicine

Article Title: Comprehensive analysis of long non-coding RNA-messenger RNA-microRNA co-expression network identifies cell cycle-related lncRNA in hepatocellular carcinoma

doi: 10.3892/ijmm.2019.4323

Figure Lengend Snippet: Construction of the lncRNA-mRNA-miRNA co-expression network. All RNAs in this plot were screened out from the genes in association with the cell cycle after validation. The red spots stood for upregulated genes and blue ones for downregulated. The bigger circle (left) is composed of 95 lncRNAs and the smaller one (right) contains 36 mRNAs. One downregulated miRNA (blue) and four upregulated miRNA (red) are shown in the upper part. The red lines are applied for the binding relationship between miRNAs and lncRNAs and mRNA. The green lines show the associations between mRNAs and lncRNAs. miRNA, microRNA; lnc, long noncoding RNA.

Article Snippet: Two microarrays, including human lncRNA plus mRNA microarray v5.0 (4x180 K) and human miRNA microarray v21.0 (Agilent Technologies, Inc.), were used for detection of differential expression of lncRNAs plus mRNAs, and miRNAs, respectively.

Techniques: Expressing, Binding Assay

Journal: International Journal of Molecular Medicine

Article Title: Comprehensive analysis of long non-coding RNA-messenger RNA-microRNA co-expression network identifies cell cycle-related lncRNA in hepatocellular carcinoma

doi: 10.3892/ijmm.2019.4323

Figure Lengend Snippet: Distribution diagram of lncRNAs, mRNAs and miRNAs in the four phases of the cell cycle. At first, 36 mRNAs of cell cycle-related genes were distributed into four visual stages of cell cycle. They were displayed in the relevant cycle parts, indicating possible target labeled genes. A total of five miRNAs are presented in the middle of the circle for that they were predicted to be associated with all phases of cell cycle. The categorization of lncRNAs was based on their predicted relationship with 36 cell cycle-related mRNAs. Similarly, they were labeled as lncRNA including in their own cycle phase. The lncRNA, mRNA and miRNAs that had been cited in previous studies are underlined and labelled with the references. miRNA, microRNA; lnc, long noncoding RNA.

Article Snippet: Two microarrays, including human lncRNA plus mRNA microarray v5.0 (4x180 K) and human miRNA microarray v21.0 (Agilent Technologies, Inc.), were used for detection of differential expression of lncRNAs plus mRNAs, and miRNAs, respectively.

Techniques: Labeling

Journal: BMC Genomics

Article Title: Effect of berberine on global modulation of lncRNAs and mRNAs expression profiles in patients with stable coronary heart disease

doi: 10.1186/s12864-022-08641-2

Figure Lengend Snippet: Construction of the ceRNA network of 8 DE lncRNAs. Red and green diamond represents up-regulated and down-regulated DE lncRNAs, respectively. Blue V represents microRNA. Red and green ellipse represent up-regulated and down-regulated DE mRNAs associate with CHD; Red and green rectangle represent up-regulated and down-regulated transcription factor associate with CHD. Red solid lines represent positive relationship and lncRNA-mRNA coexpression. Green solid represent negative relationship and lncRNA-mRNA coexpression. Line thickness represents combine score. Dash dot represent lncRNA-microRNA-mRNA competitive combination

Article Snippet: Human lncRNA plus mRNA microarray v5.0 (Arraystar, 8 × 60 K, USA) was used for detection of differential expression of lncRNAs and mRNAs.

Techniques: