HLA DR in 23andMe Gene Set

[ebethc]

@ebethc - 23andMe still tests for rs8084, but it's now labeled as i5015193 and i5028329 on the V4 chip. If you can post your result for those I might be able to narrow down your second DRA type a bit further.

i5015193 = AC
i5028329 = AC

Thanks!

 

[Valentijn]

i5015193 = AC
i5028329 = AC

In that case you have an A allele at rs8084 which goes with the DRA*010203 type, leaving rs8084 C for your other type. rs8084 C excludes *010102, so your two types should be DRA*010203 and DRA*010101.

 

[ebethc]

In that case you have an A allele at rs8084 which goes with the DRA*010203 type, leaving rs8084 C for your other type. rs8084 C excludes *010102, so your two types should be DRA*010203 and DRA*010101.

So, what does that mean?

 

[Valentijn]

So, what does that mean?

Dunno, there might be some research associating various HLA-DRA types with predispositions to various illnesses But HLA-DRA is generally pretty unexciting, as far as HLA genes go.

 

[ebethc]

Dunno, there might be some research associating various HLA-DRA types with predispositions to various illnesses But HLA-DRA is generally pretty unexciting, as far as HLA genes go.

thanks, @Valentijn .. Where can I learn more about HLA DR? I'd love to know how I test for all of the HLA DR's; is there a way to get that out of 23andme?

https://en.wikipedia.org/wiki/HLA-DR

I'm listening to podcast #126 - Interview w RIchie Shoemaker on Mold toxicity... fascinating! Good discussion..
https://www.bulletproofexec.com/126-dr-ritchie-shoemaker-on-surviving-mold-podcast/
https://www.bulletproofexec.com/wp-content/uploads/2014/06/Transcript-126-Dr.-Ritchie-Shoemaker.pdf

 

[Valentijn]

thanks, @Valentijn .. Where can I learn more about HLA DR? I'd love to know how I test for all of the HLA DR's; is there a way to get that out of 23andme?

No, 23andMe can't handle most HLA testing. The interesting SNPs which determine HLA types on other genes usually have 3-4 alleles, and 23andMe only includes SNPs with 2 alleles.

I'm listening to podcast #126 - Interview w RIchie Shoemaker on Mold toxicity... fascinating! Good discussion..
https://www.bulletproofexec.com/126-dr-ritchie-shoemaker-on-surviving-mold-podcast/
https://www.bulletproofexec.com/wp-content/uploads/2014/06/Transcript-126-Dr.-Ritchie-Shoemaker.pdf

His claims about HLA types are unsubstantiated by proper research. He claims correlations based on comparing the HLA types of his mold patients with international rates of HLA types, but that doesn't work because HLA is closely associated with ethnic origins, and most of his patients have very similar ethnic origins. In fact, if you do the math and compare his "bad" HLA types with HLA prevalence rates in North Americans, approximately 85% of all North Americans are highly susceptible to various substances.

I'd suggest ignoring his claims, and focus on published research in Google Scholar to find actual correlations between HLA types and susceptibilities to illnesses.

 

[Pinchers]

@Valentijn,
Your posts are so helpful! Thank you for being such an amazing resource to all of us.

Can you help me? Here are my SNPs:

rs719259 = CC
rs8084 = CC
rs11544315 = CC
rs3135391 = GG

And here are my daughter's:

rs719259 = CC
rs808421 = CT
rs3135391 = GG

I can't find the rs11544315 on her report. Hers was more recently done with 23andme, whereas mine was done years ago. Did they stop testing that one?

I had my C4a tested in 3/15 and it was 27,317. We found mold in our house and had the landlord remove it.
I was retested in 7/15 and it dropped down to 4,782.
And I was retested again in 2/15 and it's back up to 16,883.

I'm really worried about the impact of mold on my daughter.

Thank you for your help!!

 

[Valentijn]

rs719259 = CC
rs8084 = CC
rs11544315 = CC
rs3135391 = GG

The first SNP is rs7129, not rs719259. If you are GG for rs7129, your HLA DRA type is homozygous for *010101. If you have AA for rs7129, your HLA DRA type is homozygous for *010201. If rs7129 is AG, you're heterozygous for *010201 and *010101.

rs719259 = CC
rs808421 = CT
rs3135391 = GG

The first one needs to show rs7129, and the 2nd one needs to show rs8084. Until then, there's not enough data, except to exclude *010203.

Did they stop testing that one?

I took a look at the position of the SNP on the chromosome and it definitely seems to be missing from the newer V4 chip results.

I'm really worried about the impact of mold on my daughter.

I haven't seen any solid indication that HLA DRA type is associated with mold reactions. But there is a somewhat common missense mutation at rs16910526 on the CLEC7A gene, where AC or CC genotypes result in increased susceptibility to candida, aspergillus, and pneumocystis jirovecii infections.

 

[Pinchers]

@Valentijn ,

Oops, I wasn't paying enough close attention.

Here is the revised list:
rs7192 = GG
rs8084 = CC
rs11544315 = CC
rs3135391 = GG

And my rs16910526 = AA

You rock!

Thanks!

p.s.
(Looks like 3 out of the 4 SNPs are not in my daughter's genome data.)

 

[Valentijn]

Here is the revised list:
rs7192 = GG
rs8084 = CC
rs11544315 = CC
rs3135391 = GG

So you're homozygous for DLA DRA *010101. Your daughter would at least be heterozygous for it as well.

 

[Pinchers]

So you're homozygous for DLA DRA *010101. Your daughter would at least be heterozygous for it as well.

So...what does that mean?

 

[Valentijn]

So...what does that mean?

... not much According to wikipedia, I think they're saying that HLA-DRA type doesn't have any effect, and all types create the same protein:

The DR α-chain is encoded by the HLA-DRA locus. Unlike the other DR loci functional variation in mature DRA gene products is absent.

That would make sense, since the SNPs used to determine HLA-DRA type aren't missense mutations.

 

[tango]

My genes are showing mutations. what does this mean?? Is it significant? Thanks

rs7192 = TT ++
rs8084 = AA ++
rs11544315 = CC --
rs3135391 = GG --

 

[Valentijn]

My genes are showing mutations. what does this mean?? Is it significant? Thanks

rs7192 = TT ++
rs8084 = AA ++
rs11544315 = CC --
rs3135391 = GG --

It means you're homozygous for DRA*010202. DRA types don't seem to be significant.

 

[tango]

It means you're homozygous for DRA*010202. DRA types don't seem to be significant.

Thanks! One less thing to worry about then...

 

[GoAxe32]

@Valentijn,

You are absolutely brilliant. Where can one determine the SNP constituents of a haplotype in order to perform similar calculations with others?

 

[Valentijn]

You are absolutely brilliant. Where can one determine the SNP constituents of a haplotype in order to perform similar calculations with others?

The SNPs for this haplotype are listed above. I'm not sure what you mean by "others": other people? Other haplotypes?

 

[GoAxe32]

The SNPs for this haplotype are listed above. I'm not sure what you mean by "others": other people? Other haplotypes?

The SNP constituents for other haplotypes for other genes. For example, where can you determine that those four SNPs comprise those HLA-DRA haplotypes? Is there a database where haplotypes are defined by their SNP constituents?

 

[Valentijn]

The SNP constituents for other haplotypes for other genes. For example, where can you determine that those four SNPs comprise those HLA-DRA haplotypes? Is there a database where haplotypes are defined by their SNP constituents?

I don't remember where the SNPs were listed. There are databases of HLA haplotypes, but they're pretty useless with 23andMe data since they can't test the important SNPs.

 

[misery guts]

Dunno, there might be some research associating various HLA-DRA types with predispositions to various illnesses But HLA-DRA is generally pretty unexciting, as far as HLA genes go.

Hi @Valentijn
Does that mean the other HLA genes have more meaning??

I was really hoping you could help me with mine:


HLA Typing Results:

HLA-A *01:01:01:01 *02:01:01:01
HLA -B *07:02:01 *08:01:01
HLA-C *07:02:01:03 *07:01:01:01
HLA-DRB1 *15:01:01 *03:01:01
HLA-DRB3 *01:01:02 *01:01:02
HLA -DRB4 (not done)
HLA -DRB5 *01:01:01 *01:01:01
HLA -DQA1 (not done)
HLA-DQB1 *06:02:01 (wrong way round?) *02:01:01 (wrong way round?)
HLA -DPB1 *05:01:01 *09:01:01

I'm really struggling to understand my results! Everywhere seems to refer to one string of results, but mine have two for each gene? So for instance, is the first/last string dominant, or is the correct gene a mixture of the two? :s

You're also referring to a DRA gene. Is that an amalgamation of the ones I have above, or just a different gene that wasn't tested for me?

Thank you for any help!