The expression of NCR genes has been studied - in M. truncatula mostly but also in some other IRLC legumes - at the level of individual genes by RT-PCR, in situ hybridization, immuno-localization and promoter-marker gene fusions or at the family level by EST-analysis, macroarrays, dedicated microarrays or whole-genome microarrays [ 8, 10, 14, 16, 18, 19, 31, 53].
Therefore, methods addressing DNAm at a single-site resolution, such as pyrosequencing, MassArray, microarray technology, or whole-genome bisulfite sequencing, may be superior for tracking of specific senescence-associated CpGs.
This is crucial in a scenario where researchers want to perform the same functional genomic analysis (e.g. microarray or whole genome sequencing) on DNA or RNA extracted from two different samples (e.g. lymphocytes and tumour tissue) belonging to the same patient, to compare the genomic profile of sane and diseased cells.
The availability of genomic tools such as high density arrays or whole-genome microarrays has led to an increasing number of studies examining drought-induced transcriptional remodelling [ 8- 15].
Recent genome-wide profiling studies of DNA methylation within the Arabidopsis genome utilizing either microarrays or whole genome shotgun bisulfite sequencing have revealed key aspects of DNA methylation patterning [32], [36] [40].
Using cDNA microarrays or whole genome arrays, the abiotic stress responses of Arabidopsis and other plants have been widely analyzed.
For these hypothesis-generating studies, DNA microarrays or whole genome sequencing are often used because high throughput is feasible, and a priori selection of specific SNPs is not required.
Protein and mRNA isolated from the exposed and unexposed control nematodes were analyzed by mass spectrometry or whole genome microarray, respectively.
Transcriptome profiling is traditionally done using either quantitative RT-PCR (reviewed in [ 1]) to interrogate a few genes, or microarrays (cDNA array [ 2] or whole genome tiling array [ 3- 5]) to investigate genome-wide transcriptional activity.
Nowadays the microarray technology allows whole-genome analysis with a high resolution and performance for the genetic diagnosis in any patient with intellectual disability or autism spectrum disorder.
