Hello,
I have a question regarding the SNP array analysis. I am using Human SNP Nsp/Sty 6.0 platform, and I am analyzing using Genotyping Console and Chromosome Analysis Suite.
There are some chromosomes that have many separated segments in the whole chromosome regions. Some segments covered the genes and some are not. I find it difficult to conclude whether it is a chromosome amplification/deletion, or just a region amplification/deletion.
There are segments that covered the whole chromosome and I can make the conclusion easily. But when the segments are separated, I am confused.
Please anyone who have the experience or expert in SNP array analysis guide me through this.
Thank you very much for your help.
Hi Nor,
try to get the file of the sap array describing the design and you'll see that some parts of the genome are not covered, you'll therefore find holes in your data. this can be due to many problems as lack of heterogeneity in the region, duplicated regions, unsequenced parts...
no way to worry
fred
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