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7.5 years ago
Hi every body.......... I am working on some MRGPCR to find variant effect on itch... I have found some SNPs which are missense and also available in public databases..... As i am new in Genetics so how to pick most effective snps...... and its effect on protein structure and function. Any answer will be appreciated...... thanks
Hi, your question lacks context. It might help if you complete the sentences by filling in the information were it is marked missing already by you ;) ..... Also, please consider a more informative title.
Thank you for your suggestion. I have amplified receptors which involve in itch. after sequencing i got some snps in coding region which change amino acid mean messense variants. So after seeing some databases these variants are available whit allele frequency from 0.2 to 0.9. So on which basis i can select these snps to check its effect on protein. I need to select potential ones. so on which basis i have to proceed some snps to identify its effect on protein structure and function.
How did you imagine to establish a link between the few variants you found and a phenotype. In fact it is unclear what the phenotype is. Are your samples from different people with "strong itching" and "mild itching", and how many? If you have enough samples you could maybe do an association analysis. You say you need to select potential candidates, for what purpose? You can use tools like VEP or SnpEff to check for effects, or Mutation Taster http://www.mutationtaster.org/. But if your variants are all already known as disruptive, it will be hard to decide which one is more disruptive.