Combination of the QCM and microarray methods that utilize the same assay chemistry on gold are useful for overcoming clinical sample matrix effects and achieving ultra-low detection of small nucleotide biomarkers with quantitative insights.
Loess normalization is a standard microarray normalization method that removes non-linear intensity-dependent artifacts from the data by iteratively fitting a series of local piecewise curves to the log-mean-difference plots of each pair of arrays, and effectively subtracting the curve from the data[25].
This report documents the feasibility of genotyping complex genomes via a microarray-based method that does not require the use of methods to reduce genome complexity prior to hybridization.
The HELP assay is a microarray-based method that detects the subset of unmethylated HpaII fragments in the genome and uses the corresponding, methylation-insensitive MspI representations as a control.
In addition to the single gene analyses, we used Gene Set Enrichment Analysis (GSEA) algorithm, which is a microarray data analysis method that uses predefined gene sets to identify significant biological changes in microarray data sets [21].
As described in the Methods section, in addition to the single gene analyses we used the GSEA algorithm, which is a microarray data analysis method that uses predefined gene sets and ranks of genes to identify significant biological changes in microarray data sets [21].
We have developed a new microarray-based method that detects simultaneously and discriminates four orthopoxvirus (OPV) species pathogenic for humans (variola, monkeypox, cowpox, and vaccinia viruses) and distinguishes them from chickenpox virus (varicella-zoster virus or VZV).
The approach should thus be used with caution and as a complement to classical microarray normalization methods that do not involve correction for histone density, which are also used in this study.
We report on a high density oligo microarray and statistical analysis method that has detected viral and bacterial sequences from single DNA and RNA viruses and mixtures thereof, various clinical samples, and blinded cell culture samples provided to us by our collaborators.
