Therefore, we have developed an exon junction-array focused on the human CIZ1 gene that is capable of detecting all known variants and hypothetical variants of CIZ1.
Owing to the strong association between methylation of CpGs around the transcriptional start site (TSS) and gene silencing, our analytic strategy for the HM450K arrays focused on this region to assess the methylation status of 84 735 CpG oligonucleotide probes within 200 bp 5′ of the TSS and extending through the 5′-untranslated region (X and Y chromosome and imprinted genes excluded).
For example, one might wish to design an array focused on specific candidate variants or regions, while also providing a backbone for genome-wide imputation, such as the existing HumanCore or Biobank variant set.
Figure 6 incorporates the line plotting option (−C) with base-pair position information to display the coverage of genotyping for the custom Immunochip genotyping array, an array focused on autoimmune and immune system related genetic variants [ 6].
Additionally, we used a genotyping array focused on rare exonic variants to identify three independent rare variants in the ADAMTS13 gene associated with ADAMTS13 activity [ 80].
Computational CNV predictions were then tested using a custom CGH array focused on exonic regions.
For an array focused on Ewing sarcoma, probes designed to detect EWS/ETV1, EWS/ETV4, EWS/FEV, TLS/ERG or TLS/FEV would need to be included.
To investigate these alternative mechanisms, we analyzed mRNA from OPG- and control shRNA-treated cells using a quantitative reverse transcription PCR (qRT-PCR) array focused on genes involved in breast cancer.
In this paper we review a 5-year effort to develop compact, computer controlled low-noise processing electronics for STJ detector arrays, focusing on the major issues encountered and our solutions to them.
This array is an expansion of the bovine macrophage (BoMP) specific cDNA array focusing on immune response [ 45], including a BoMP library generated from stimulated bovine myeloid cells.
