So far, research has mainly focused on gene expression profiling or alterations in oncogenes, even though DNA microarray platforms would allow for high-throughput analyses of copy number alterations (CNAs).
It is interesting that the TCGA and KFSYSCC data sets show very similar patterns of global metasignatures even though the studies used various microarray platforms.
A pathway-based analysis thus can reveal biologically relevant similarity between results of different microarray studies even though the gene contents of the microarray platforms used do not match exactly.
There are two major microarray platforms that have been widely used: cDNA microarrays and oligonucleotide microarrays.
Tan, P. K. et al. Evaluation of gene expression measurements from commercial microarray platforms.
Tan, P.K. et al. Evaluation of gene expression measurements from commercial microarray platforms.
Hester, S.D. et al. Comparison of comparative genomic hybridization technologies across microarray platforms.
Because we used two different microarray platforms to study mouse and human HCC, we selected orthologous genes that were present in both microarrays by using curated mammalian orthology from The Jackson Laboratory.
The US Food and Drug Administration (FDA -led community-wide Microarray Quality Control (MAQC) study generates a large amount oFDA -ledrray data with implementation of ERCs across several commercial microarray platforMicroarray
The technical reproducibility of microarray platforms is well established.
