beadarray specific methods for illumina methylation and expression microarrays  (Illumina Inc)

Journal: Molecular Pain

Article Title: Expression profiling of genes modulated by minocycline in a rat model of neuropathic pain

doi: 10.1186/1744-8069-10-47

Figure Lengend Snippet: Profiling the gene expression alterations following minocycline i.p. administration to CCI - exposed rats. Gene expression changes 7 days after nerve injury and administration of minocycline (30 mg/kg; i.p .; 16 h and 1 h before CCI and then for 7 days twice daily). The statistical analysis was performed at an ANOVA threshold value of p < 0.001 (N vs . V-CCI vs . MC-CCI). The results of the cDNA microarray analysis are presented in the form of a heat map. The individual columns represent the respective microarrays, while the individual rows represent the regulated genes. The intensity of the color reflects the relative abundance of the transcript and is proportional to the standard deviation from the in-row average, as indicated in the legend below the heat map. (A) The gene pattern represents changes in the abundance levels of 54 mRNA transcripts induced in the lumbar spinal segment on day 7 of neuropathic pain; these abundance levels of these genes were not affected by the addition of minocycline (30 mg/kg; 16 h and 1 h before sciatic nerve damage and then twice daily for 7 days). (B) Gene pattern B represents changes in the abundance levels of 39 mRNA transcripts induced in the lumbar spinal segment on day 7 of neuropathic pain; the abundance levels of these genes were modulated by repeated intraperitoneal administration of minocycline (30 mg/kg; 16 h and 1 h before sciatic nerve damage and then twice daily for 7 days). (C) The percentage analysis of the alterations in the CCI-induced gene expression profile in the spinal cord.

Article Snippet: The DNA microarray method (Illumina RatRef-12 V1) was used to analyze the changes in mRNA levels in the lumbar segment of the spinal cord.

Techniques: Gene Expression, Microarray, Standard Deviation

Journal: Molecular Pain

Article Title: Expression profiling of genes modulated by minocycline in a rat model of neuropathic pain

doi: 10.1186/1744-8069-10-47

Figure Lengend Snippet: Genes from the B1 transcription pattern - similarly spinally and DRG regulated by minocycline. Comparison of the CCI-induced changes in transcript levels of genes with expression pattern B1 ( Cd40 , Clec7a and Apobec3b ) in the lumbar spinal cord using microarray (A, D, G) and qPCR (B, E, H) analysis; transcript levels in the DRG (C, F, I) and the modulation by repeated intraperitoneal administration of minocycline (30 mg/kg; i.p. 16 h and 1 h before sciatic nerve damage and then twice daily for 7 days) were also examined. The statistical analysis was performed using an ANOVA and Bonferroni’s test. **p < 0.01 and ***p < 0.001 indicate a significant difference when compared to the control (naïve rats); # p < 0.05, ## p < 0.01 and ### p < 0.001 indicate a significant difference when compared to the V-CCI rats. Naive (N), vehicle (V; water for injection), minocycline (MC).

Article Snippet: The DNA microarray method (Illumina RatRef-12 V1) was used to analyze the changes in mRNA levels in the lumbar segment of the spinal cord.

Techniques: Comparison, Expressing, Microarray, Control, Injection

Journal: Molecular Pain

Article Title: Expression profiling of genes modulated by minocycline in a rat model of neuropathic pain

doi: 10.1186/1744-8069-10-47

Figure Lengend Snippet: Genes from the B1 transcription pattern - differentially spinally and DRG regulated by minocycline. Comparison of the changes in the transcripts levels of genes with expression pattern B1 ( Slc7a7 and Fam22f ) in the lumbar spinal cord using microarray (A, D) and qPCR (B, E) analysis; transcript levels in the DRG (C, F) under neuropathic pain and the modulation by repeated intraperitoneal administration of minocycline (30 mg/kg; i.p. 16 h and 1 h before sciatic nerve damage and then twice daily for 7 days) were also examined using qPCR analysis. The statistical analysis was performed using an ANOVA and Bonferroni’s test. ***p < 0.001 indicates a significant difference when compared to the control (naïve rats); # p < 0.05, ## p < 0.01 and ### p < 0.001 indicate a significant difference when compared to the V-CCI rats. Naive (N), vehicle (V; water for injection), minocycline (MC).

Article Snippet: The DNA microarray method (Illumina RatRef-12 V1) was used to analyze the changes in mRNA levels in the lumbar segment of the spinal cord.

Techniques: Comparison, Expressing, Microarray, Control, Injection

Journal: Molecular Pain

Article Title: Expression profiling of genes modulated by minocycline in a rat model of neuropathic pain

doi: 10.1186/1744-8069-10-47

Figure Lengend Snippet: Genes from the B2 transcription pattern - similarly spinally and DRG regulated by minocycline. Comparison of the changes in the transcript levels of genes with expression pattern B2 ( Rwdd3 and Gimap5 ) in the lumbar spinal cord using microarray (A, D) and qPCR (B, E) analysis; transcript levels in the DRG (C, F) under neuropathic pain and the modulation by repeated intraperitoneal administration of minocycline (30 mg/kg; i.p. 16 h and 1 h before sciatic nerve damage and then twice daily for 7 days) were also examined using qPCR. The statistical analysis was performed using an ANOVA and Bonferroni’s test. **p <0.01 and ***p <0.001 indicate a significant difference when compared to the control (naïve rats); # p < 0.05, ## p < 0.01 and ### p < 0.001 indicate a significant difference when compared to the V-CCI rats. Naive (N), vehicle (V; water for injection), minocycline (MC).

Article Snippet: The DNA microarray method (Illumina RatRef-12 V1) was used to analyze the changes in mRNA levels in the lumbar segment of the spinal cord.

Techniques: Comparison, Expressing, Microarray, Control, Injection