mouse m 6 a-mrna and lncrna epitranscriptomic microarray arrays (8 × 60 k)  (Arraystar inc)

Journal: Journal of Neuroinflammation

Article Title: HIV-1 Nef-induced lncRNA AK006025 regulates CXCL9/10/11 cluster gene expression in astrocytes through interaction with CBP/P300

doi: 10.1186/s12974-018-1343-x

Figure Lengend Snippet: Analysis of differentially expressed lncRNAs in primary mouse astrocytes treated with Nef protein. a Heatmap of lincRNAs significantly changed upon Nef (50 ng/ml) stimulation of astrocytes. b , c , d Scatter plot compared global lncRNA expression profiles in Nef-treated astrocytes. The values of X-axis and Y-axis in the scatter plot were the normalized signal values of each sample (log2 scaled). The green lines are fold change (the default fold change value given is 2.0). The mRNAs above the top green line and below the bottom green line indicate more than 2.0-fold change, compared to the control. e Analysis of numbers of significantly expressed lncRNAs. f Overlapped and differentially expressed lncRNAs

Article Snippet: Primary mouse astrocytes treated with 50 ng/ml Nef protein (Abcam, ab90462) were detected using Mouse LncRNA Microarray v2.0 (8 × 60 K, Arraystar) by Kangchen Bio-tech (Shanghai, China) that designed for the global profiling of mouse LncRNAs and protein-coding transcripts.

Techniques: Expressing, Control

Journal: Journal of Neuroinflammation

Article Title: HIV-1 Nef-induced lncRNA AK006025 regulates CXCL9/10/11 cluster gene expression in astrocytes through interaction with CBP/P300

doi: 10.1186/s12974-018-1343-x

Figure Lengend Snippet: Real-time PCR verification of differentially co-expressed lncRNAs in astrocytes stimulated with Nef. Ten lncRNAs were randomly chosen for real-time PCR validation. a The expressions of lncRNA Gm16685, Gm12250, AK151815, AK139352, and Gm8773 were significantly increased in astrocytes stimulated with Nef protein (50 ng/ml) with 0 h, 6 h, and 12 h. b The expressions of lncRNA AK038606, Gm12326, AK039511, Gm13484, and AK043126 were markedly downregulated in astrocytes. * P < 0.05, ** P < 0.01, *** P < 0.001, vs 0 h. Error bars represent means ± SEM. These data are from three independent experiments

Article Snippet: Primary mouse astrocytes treated with 50 ng/ml Nef protein (Abcam, ab90462) were detected using Mouse LncRNA Microarray v2.0 (8 × 60 K, Arraystar) by Kangchen Bio-tech (Shanghai, China) that designed for the global profiling of mouse LncRNAs and protein-coding transcripts.

Techniques: Real-time Polymerase Chain Reaction, Biomarker Discovery

Journal: Journal of Neuroinflammation

Article Title: HIV-1 Nef-induced lncRNA AK006025 regulates CXCL9/10/11 cluster gene expression in astrocytes through interaction with CBP/P300

doi: 10.1186/s12974-018-1343-x

Figure Lengend Snippet: Verification of lncRNA location at two terminals of CXCL9/10/11 gene cluster on the mouse chromosome 5. a Schematic diagram of lncRNA location at two terminals of CXCL9/10/11 gene cluster. b Real-time PCR assay detection of lncRNA expression in astrocytes treated with Nef protein (50 ng/ml) with 0 h, 6 h, and 12 h. * P < 0.05, ** P < 0.01, *** P < 0.001, vs 0 h. Error bars represent means ± SEM. These data are from three independent experiments

Article Snippet: Primary mouse astrocytes treated with 50 ng/ml Nef protein (Abcam, ab90462) were detected using Mouse LncRNA Microarray v2.0 (8 × 60 K, Arraystar) by Kangchen Bio-tech (Shanghai, China) that designed for the global profiling of mouse LncRNAs and protein-coding transcripts.

Techniques: Real-time Polymerase Chain Reaction, Expressing

Journal: Journal of Neuroinflammation

Article Title: HIV-1 Nef-induced lncRNA AK006025 regulates CXCL9/10/11 cluster gene expression in astrocytes through interaction with CBP/P300

doi: 10.1186/s12974-018-1343-x

Figure Lengend Snippet: Knockdown of lncRNA AK006025 reduced CXCL9/10/11 cluster gene expression in astrocytes treated with Nef. a Real-time PCR assay detection of lncRNA expression in astrocytes transfected siRNAs for 48 h, followed by treatment with Nef protein for 6 h and 12 h. b Real-time PCR assay analysis of CXCL9, CXCL10, and CXCL11 mRNA transcriptional level in astrocytes transfected siRNAs for 48 h, followed by treatment with Nef protein for 12 h. c ELISA analysis of CXCL9, CXCL10, and CXCL11 secretion in astrocytes transfected siRNAs for 48 h, followed by treatment with Nef protein for 24 h. * P < 0.05, ** P < 0.01, *** P < 0.001, vs 0 h. Error bars represent means ± SEM. These data are from three independent experiments

Article Snippet: Primary mouse astrocytes treated with 50 ng/ml Nef protein (Abcam, ab90462) were detected using Mouse LncRNA Microarray v2.0 (8 × 60 K, Arraystar) by Kangchen Bio-tech (Shanghai, China) that designed for the global profiling of mouse LncRNAs and protein-coding transcripts.

Techniques: Knockdown, Gene Expression, Real-time Polymerase Chain Reaction, Expressing, Transfection, Enzyme-linked Immunosorbent Assay

Journal: Journal of Neuroinflammation

Article Title: HIV-1 Nef-induced lncRNA AK006025 regulates CXCL9/10/11 cluster gene expression in astrocytes through interaction with CBP/P300

doi: 10.1186/s12974-018-1343-x

Figure Lengend Snippet: Analysis of lncRNA AK006025 interaction with CBP/P300 to regulate CXCL9/10/11 cluster gene expression in astrocytes treated with Nef. a RIP assay analysis of the interaction of AK006025 with NF-κB p65 and CBP/P300 in astrocytes treatment with Nef protein for 3 h. NC: natural control. *** P < 0.001, vs NC. These data are from three independent experiments. b ChIP assay analysis of NF-κB p65, CBP/P300, RNA Pol II, and H3K27ac enrichment on the promoter of CXCL9/10/11 gene cluster in astrocytes treatment with Nef protein for 3 h. ** P < 0.01, *** P < 0.001, vs NC. Error bars represent means ± SEM. These data are from three independent experiments. c ChIP assay analysis of NF-κB p65, CBP/P300, and H3K27ac enrichment on the promoter of CXCL9/10/11 gene cluster in astrocytes transfected siRNAs for 48 h, followed by treatment with Nef protein for 3 h. si-AK: si-AK006025. * P < 0.05, ** P < 0.01, *** P < 0.001, vs his-Ctrl. Error bars represent means ± SEM. These data are from three independent experiments

Article Snippet: Primary mouse astrocytes treated with 50 ng/ml Nef protein (Abcam, ab90462) were detected using Mouse LncRNA Microarray v2.0 (8 × 60 K, Arraystar) by Kangchen Bio-tech (Shanghai, China) that designed for the global profiling of mouse LncRNAs and protein-coding transcripts.

Techniques: Gene Expression, Control, Transfection