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In conclusion, we developed a new output value for microarray analysis suitable for quantitative assessment of DNA methylation levels.
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These results support that our microarray analysis is a suitable technique to access methylation changes in repetitive elements.
Microarray analysis might not be suitable for studying lowly expressed genes, such as Or genes, which are lowly expressed because one OSN expresses only 1 3 Or genes, including the universally expressed olfactory receptor co-receptor gene (Orco).
Microarray analysis is not a suitable method for studying miRNAs expression in biofluids because of insufficient sensitivity which cannot ensure reproducible detection of samples with low miRNA levels [ 18].
Compared to other transcript detection methods, microarray analysis is more sensitive and suitable for highthroughput analysis.
On that basis we chose which RNA samples were most suitable for microarray analysis.
Only samples with RIN scores of 6 and above were considered suitable for microarray analysis.
All samples with an RNA integrity number (RIN) ≥ 8.0 and A260/A280 ratio 1.8-2.1 1.8-2.1nsidered suitable for microarray analysis.
We suggest that accounting for known or unknown sources of variation, such as variable RNA integrity and batch, by implementing ComBat or Surrogate Variable Analysis for analysis of differential gene expression enables robust analysis of microarray datasets derived from variable and low quality RNA, thereby extending the range of clinical samples that are suitable for microarray analysis.
While there are a growing number of articles on the subject of LCM, few have reported optimized conditions and detailed hands-on procedures to obtain high-quality RNA suitable for microarray analysis from rodent MG that yields a high percent call rate when the RNA is arrayed on commercially available microarrays such as the Affymetrix platform [ 13, 18- 23].
While there are several reliable amplification methods available, most amplify an antisense RNA which is suitable for cDNA microarray analysis.
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