Full Y Chromosome Sequencing: Phase III Pilot

[warwick]

Hello,

I'm doing a Phase III pilot of our Y Chromosome sequencing via my organization, Full Genomes, Inc. (Per the prior approval of admins I'm announcing it here). We can take a limited number of additional orders as we get going:

You receive:

1. Full Y chromosome sequence
2. 400-600 STRs
3. 9000 snps
4. 14 gigabytes of data
5. the full mtdna sequence can also be produced though we are doing quality control on this in the beta phase

Cost: (not cheap) $1250 raw data (including .bam files); $1350 with interpretation (to yield STRs and SNPs).

Time: 6-8 weeks for data to be analyzed
Total time from order: about 12 weeks (in the pilot phase).

Samples are collected via standard saliva sample collection kits and then analyzed via BGI in Hong Kong.

Emails may be sent to this address (temporarily):
[email protected]

(typo corrected)

[Cofgene]

Note that the value of this effort comes with several individuals at specific y-tree branch points participate. This allows any new y-SNPs to be localized to sections of the y-tree.

[introvert]

Hello!

Thanks for your interesting post. Bit of a newcomer here. I would like to understand what sort of deal this is, relative to getting testing done at some other lab, such as FTDNA.

For example, how much would need to be spent to get an equivalent test made at FTDNA?
Is the beta test described above even available at other labs?
What would be a nice test to do after this test, to get data on mitochondrial and autosomal DNA?

Thank you!

[warwick]

Hello!

Thanks for your interesting post. Bit of a newcomer here. I would like to understand what sort of deal this is, relative to getting testing done at some other lab, such as FTDNA.

For example, how much would need to be spent to get an equivalent test made at FTDNA?
Is the beta test described above even available at other labs?
What would be a nice test to do after this test, to get data on mitochondrial and autosomal DNA?

Thank you!

"equivalent test made at FTDNA?"

There is no full Y chromosome test at FTDNA.

"beta test described above even available at other labs?"

Not to my knowledge.

"autosomal DNA?"

A microarray test for autosomal data is relatively straightforward to do.

[haleaton]

There is no full Y chromosome test at FTDNA.

Looking at the FTDNA's parent company's website, www.genebygene.com, they do have a division "DNA DTC is the RUO division of Gene By Gene and a sister division of Family Tree DNA which pioneered the concept of direct to consumer DNA tests in the field of genetic genealogy." RUO means "Research Use Only" which indicates "the whole genome does not include any analysis or interpretation." "DNA DTC provides sample preparation, QC and sequencing. Customers are provided with their raw data as a fast queue file."
The cost is $6, 995.

[warwick]

Looking at the FTDNA's parent company's website, www.genebygene.com, they do have a division "DNA DTC is the RUO division of Gene By Gene and a sister division of Family Tree DNA which pioneered the concept of direct to consumer DNA tests in the field of genetic genealogy." RUO means "Research Use Only" which indicates "the whole genome does not include any analysis or interpretation." "DNA DTC provides sample preparation, QC and sequencing. Customers are provided with their raw data as a fast queue file."
The cost is $6, 995.

That's not a competitive price quite candidly for a full genome sequence.

[Ann Turner]

You got a lot more STRs than I would have predicted!

Of course, I was also pleasantly surprised to see mtDNA results as well. Some people who did the exome at 23andMe figured out their mtDNA results. The exome data seemed to work quite well except for the poly-C region leading up to 315.1C and around 16189C, possibly because of length heteroplasmies.

What are DYR markers?

[warwick]

You got a lot more STRs than I would have predicted!

Of course, I was also pleasantly surprised to see mtDNA results as well. Some people who did the exome at 23andMe figured out their mtDNA results. The exome data seemed to work quite well except for the poly-C region leading up to 315.1C and around 16189C, possibly because of length heteroplasmies.

What are DYR markers?

I will double-check on the DYR and report back here.

Pretty good work for a grad student still in school, eh?

[Ann Turner]

Justin, I haven't seen you post this elsewhere. Is that deliberate, to avoid being overwhelmed with queries?

[warwick]

Justin, I haven't seen you post this elsewhere. Is that deliberate, to avoid being overwhelmed with queries?

Yes, though at the current price I don't think we'll be overwhelmed, plus qc has to be done as we proceed.