I want to get data about different SNPs i am working on. especially their role in change in structure and function of gene and regulatory regions. What are different tools available for this type of analysis?
Hi,
If you are talking about the sequencing technology, PacBio is the best for the SNP detection. Oxford nanopore is also offering fast and high-throughput sequencing for the SNP genotyping. Another advanced method in SNP genotyping is the SNP microarray, which uses thousands of probes. In comparison to the sequncing, other methods may or may not be well established, since SNP analysis is largely dependent on the suitable probes/primers/troubleshooting/previous studies available. There are a bunch of methods available which can be used as per the resources available.
Since SNP detection from the known SNPs and SNP discovery are two different things, there is some brainstorming needed before choosing for the method of analysis.
Hi shayaq, you can use dbSNP. PROVEAN, SIFT, IMUTANT, SNP-VISTA, SNPANALYZER for SNP analysis. It is easy to handle and interpretation. So, try it.
Hi,
http://sift.bii.a-star.edu.sg/
http://genetics.bwh.harvard.edu/pph2/
http://www.mutationtaster.org/
https://omictools.com/mutationassessor-tool
http://cadd.gs.washington.edu/
Best of Luck
Umair
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