4 ms·

Mine are here, free: https://my.pgp-hms.org/profile/hu80855C https://my.pgp-hms.org/profile/hu80855C (I had this done when I was launching Google Cloud Genomic

by dekhn 2y ago

Mine are here, free: https://my.pgp-hms.org/profile/hu80855C https://my.pgp-hms.org/profile/hu80855C (I had this done when I was launching Google Cloud Genomics so I had some data that I could work with without any restrictions. Illumina's genetic counselors told me "you have no genetic risk factors that we can detect" which is more or less what I expected (not that I don't have any- just that Illumina's genetic counselors weren't very good).

arjie 2y ago
That's terrific. Here is mine https://my.pgp-hms.org/profile/hu81A8CC https://my.pgp-hms.org/profile/hu81A8CC (created now in response to your comment) FASTQs are much larger (being raw reads) so I'll leave them available via personal contact but this is a good place to host the VCFs. I'll answer the questions etc. as time goes by. Quite a few screenings have revealed a GJB2 variant in my genome, but I don't know if the Nebula sequencing was good enough to detect. Also TIL about Google Cloud's stuff for this. Seems like it's been subsumed into a more general SKU for now https://cloud.google.com/life-sciences/docs/process-genomic-data https://cloud.google.com/life-sciences/docs/process-genomic-...
- swyx 2y ago
  excellent, i was giong to ask if you're going to test it anyway why not make it free. and now you have. nice. i'm really curious what the attack vector is here. i try to take privacy guys seriously but sometimes theres definitely just fearmongering
  - arjie 2y ago
    Yeah, it's just 100 GiB for the FASTQs. I just don't want to have my personal Cloudflare account upgraded to Pro just to host a bunch of DNA reads. If you'd like I'll give them to you and you can host them, though. I'm not charging for access so much as making sure not to get whacked with a bill myself. The VCFs are much smaller but if you think you have a better variant-calling flow you'll want the FASTQs. I guess I could upload the FASTQs to PGP too, but it doesn't seem right you know (it's going to cost them to store it).
vl 2y ago
What service did you use/would recommend for sequencing?

by dekhn 2y ago

arjie 2y ago

That's terrific. Here is mine https://my.pgp-hms.org/profile/hu81A8CC https://my.pgp-hms.org/profile/hu81A8CC (created now in response to your comment) FASTQs are much larger (being raw reads) so I'll leave them available via personal contact but this is a good place to host the VCFs. I'll answer the questions etc. as time goes by. Quite a few screenings have revealed a GJB2 variant in my genome, but I don't know if the Nebula sequencing was good enough to detect. Also TIL about Google Cloud's stuff for this. Seems like it's been subsumed into a more general SKU for now https://cloud.google.com/life-sciences/docs/process-genomic-data https://cloud.google.com/life-sciences/docs/process-genomic-...

swyx 2y ago
excellent, i was giong to ask if you're going to test it anyway why not make it free. and now you have. nice. i'm really curious what the attack vector is here. i try to take privacy guys seriously but sometimes theres definitely just fearmongering
- arjie 2y ago
  Yeah, it's just 100 GiB for the FASTQs. I just don't want to have my personal Cloudflare account upgraded to Pro just to host a bunch of DNA reads. If you'd like I'll give them to you and you can host them, though. I'm not charging for access so much as making sure not to get whacked with a bill myself. The VCFs are much smaller but if you think you have a better variant-calling flow you'll want the FASTQs. I guess I could upload the FASTQs to PGP too, but it doesn't seem right you know (it's going to cost them to store it).

vl 2y ago

What service did you use/would recommend for sequencing?