Question: Convert SNPs from GrCh38 to 37
1
gravatar for arronslacey
3.5 years ago by
arronslacey280
United Kingdom
arronslacey280 wrote:

The following SNPs are from the GRCh38 build

1 158766655 158766655 C T
1 162023402 162023402 T C
1 169793666 169793666 T G
1 6554475 6554475 G A
3 179604597 179604597 A C
4 39062542 39062542 A C
5 177089630 177089630 G A
8 142786489 142786489 C T
8 142879785 142879785 C T
10 86654812 86654812 C T

how can I map them to GRCh37 (where possible)?

Thanks

snp mapping grch38 grch37 • 4.9k views
ADD COMMENTlink modified 3.5 years ago by harold.smith.tarheel4.6k • written 3.5 years ago by arronslacey280

I too am planning to do what's asked in the question. However I'm wondering- Is it possible that I may lose variants if I "lift backwards"? Hence is it best to always lift forwards?? Thanks in advance

ADD REPLYlink written 7 months ago by chrisclarkson10090
3
gravatar for harold.smith.tarheel
3.5 years ago by
United States
harold.smith.tarheel4.6k wrote:

Use NCBI's remap or UCSC's LiftOver.

ADD COMMENTlink written 3.5 years ago by harold.smith.tarheel4.6k
1
gravatar for Maxime Lamontagne
3.5 years ago by
Québec
Maxime Lamontagne2.2k wrote:

Try UCSC LiftOver : https://genome.ucsc.edu/cgi-bin/hgLiftOver

ADD COMMENTlink written 3.5 years ago by Maxime Lamontagne2.2k
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