Question

Can Y chromosome be imputed?

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9.8 years ago

iphoenix2100 ▴ 50

Dear all,

I am new to imputation and just got to know the imputation method for autosomes using MINIMAC (SHAPEit)....

There seems to be an option in minimac to impute the x Chromosome... but could not find any reference pertaining to Y chromosome. Which makes me wonder can Y be imputed - if so what are the available options.

For referece.

working on unrelated individuals, using 1000g panel for imputation.

I am curious because certain arterial disease shows an interesting bias towards men than woman....

thanks

M

gwas sequencing • 3.0k views

ADD COMMENT • link updated 2.5 years ago by Ram 44k • written 9.8 years ago by iphoenix2100 ▴ 50

Ram · Answer 1 · 2015-02-20

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9.8 years ago

gaurav.singh ▴ 10

You can provide Number I guess Like chr23

ADD COMMENT • link 9.8 years ago by gaurav.singh ▴ 10

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Thanks for the comment... so you mean 24 in this case,,,,... I think there is some option for such imputation in PLINK... But how accurate they are (heard from a recent conference of to use superior prog/ or dedicated prog. such as IMPUTE2.)

Any ideas. Thanks in advance

ADD REPLY • link 9.8 years ago by iphoenix2100 ▴ 50

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It should be accurate

ADD REPLY • link updated 2.5 years ago by Ram 44k • written 9.7 years ago by gaurav.singh ▴ 10