I have 9 VCF files for individuals i need some publications or tools to know more about:-
- Disease risk calculations.
- Disease identification.
- Drug response.
- Antibiotic resistance.
- Dealing with novel SNPs
- Fitness and Nutrition genes
Also if sample contain gene related to specific disease Is this means that this person suffer from this disease or this person suspected to be patient in the future. (How to know if gene is active or not?)
Waiting your replies with publications, tools and recommendations
Thanks
elsayed
Hi,
I hope below given links will give you some leads to work further. A lot of tools have been mentioned in the papers https://www.researchgate.net/post/Plz_suggest_me_How_to_analysis_vcf_file_obtained_from_next_gen_sequencing_gene_paneling
Article VCF-Miner: GUI-based application for mining variants and ann...
https://academic.oup.com/bib/article/18/5/774/2562769
Hi,
From your question, I understand that you might not be very comfortable with linux and command line based tools. I would suggest you to visit wAnnovar (http://wannovar.wglab.org/). Make sure you provide same genome build and gene definition as used for NGS analysis. Another good option is Variant Effect Predictor (https://asia.ensembl.org/info/docs/tools/vep/index.html). Both are very comprehensive variant annotation tools.
I hope this suggestion helps you with your analysis.
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