I) I have to commission companies to design primers and probes for few known SNPs but they have pre-designed assay probes. Would they work for my population specific diseased samples or should the probes be designed on the basis of local genotypes?
II) For 100 diseased samples, how many control samples should be assayed?
Hello Harendra. I have generated many genotyping assays using xMAP technology. Some of the assays detect up to 5 different SNP linked to different human recessive disorders. First thing to do is to sequence the region you wish to probe for and identify any additional SNP within your target. I can help if you wish. Good luck
Dear Sir, Would you please simplify your answer as I could not get clear in my doubt that
1) Would company pre-designed TAQMAN based assay probes be helpful for my local and ethnically segregated population for identifying SNPs?
2) in case of sequencing the region, which samples I should take? Control or Diseased? I am working on Chronic myeloid leukemia.
3) How many samples I should use for sequencing because I am not sure the same SNP would be present in all diseased samples or not ? And actually due to limited fund, I think it would not be possible to go for sequencing priorly.
4) I mainly want to check the expression level (up or down) of genes based on Taqman probes. And if the genes are expressing significantly, then I want to go for sequencing to find out any probable mutation or SNPs.
Please suggest me as well as help me.
Dear Sir,
My working area is South India so we have a quite different types of samples ethnically, caste wise, religion wise, even tribals who have never mixed with each other i.e. they follow endogamous marriage system so It may be very difficult to find the same SNPs in the different population. In this condition, kindly suggest me the way...........
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