MAF vs VAF
Hi all.. Anyone can help explaining the difference between MAF (mutant allele) and VAF (variant allele) frequency? Thanks
• 17,398 views
•
link
updated
by
AshleeThomson •
•
written
by
lauren.wahyudi •
•
written
by
lauren.wahyudi •
1 answer
I know this post is really old, but I was wondering the same thing, and this recent paper gave a great explaination.
... in the literature, VAF is often substituted by mutant allele frequency (MAF), which carries the same meaning. However, the term MAF may also be used as minor allele frequency and refers to the frequency of germline alleles in large cohorts analyzed by genome-wide association studies (GWASs) [52]. For this reason, a good practice is to use VAF as a metric of cancerous variants.
• 0 views
•
link
written
by
AshleeThomson •
Log in to answer this question.
More posts like this
-
What is gnomAD allele frequency
written by Eric Wang •
-
Inserting Variant allele frequency to VCF file
written by parvathi.sudha •
-
Is this range of VAF is ordinary?
written by zizigolu
-
Some interpretation of Strelka output
written by zizigolu
-
How to understand the mutant allele frequency
written by 18982289189 •
-
Single Sample Tumour/Neoantigen Heterogeneity/Clonal Analysis & Phylogenetic Trees
written by TLOA3 •
-
Calculation of VAF (variant allele frequency)
written by JJ
-
somaticsniper VAF calclulation
written by jarod_v6 •
-
Can anyone tell me the frequency percentage given by varscan2 is for individual or global?
written by ivivek_ngs
-
How To Cluster Data That Contains Minor Allele, Somatic And Germline Frequencies
written by lo.hope81 •
As far as I know the 'M' in MAF means
minorand notmutant. I think VAF and MAF are the same.Looks like the MAF acronym is being repeatedly hijacked!
There is:
Edit: As per Wouter's ultimate conclusion, you can consider mutant allele fraction and VAF as the same. Minor allele frequency is more used in GWAS studies.
Don't forget the Multiple Alignment Format.
Note that even "minor allele frequency" is overloaded here. In a traditional sense, minor allele frequency refers to the frequency of an allele in a population of patients from a germline sampling. The variant allele frequency is typically used in a cancer setting to describe the proportion of reads with the variant allele within a single patient. The best option is to define what you mean very specifically; use in the literature is not a good guide, as is evidenced by the comments here.
Yes, and I would favour the term Variant Allele Fraction (or Variant Allelic Fraction) rather than Variant Allele Frequency for this reason too!
Could be Multiple Ambiguous Formats ...
Yet there is a gene called MAF