Open-source human genomes

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8 Responses to “Open-source human genomes”

  1. z_o_m_g says:

    There is also http://opensnp.org , where 23andMe and deCODEme customers can upload their genotyping data for open-sciency research.

  2. gedankenstuecke says:

    Another openSNP-guy here. 

    By now you can also upload your FamilyTreeDNA-genotyping data as well as your Exome if you’re one of 23andMe-early-exome-adopters.

    And can provide phenotypic information (hair/eye colour, genetic diseases you might have et al.) about yourself as well. The data gets also published under CC Zero :-)

  3. Hi — Great to see the Personal Genome Project mentioned, thank you! 

    A key distinction about PGP data is that we don’t consider genomes to be truly “anonymizable”, especially not when combined with other data like health information. (This is broadly held to be true in research; for this reason, most genetic data from studies that gets collected these days is only shared in a controlled-access manner, e.g. through “dbGaP”.)

    So, I hesitate to use the term “anonymized” to refer to anything in our project — especially when many participants choose to be explicitly public about which account belongs to them (although this is not required). Among other things, our “open consent” process involves understanding the risk of re-identification. It’s not for everyone, but through this process researchers can take advantage of people willing to donate their data — and privacy, potentially — to science. You can read more about it on our study guide: http://www.personalgenomes.org/exam/v20120430-study-guide.pdf
    Currently, if you’re looking for the data you can genome and genotyping files linked on personal genome reports here: http://evidence.personalgenomes.org/genomes and linked to participant profiles here: https://my.personalgenomes.org/users (The first link is limited to genome & exome data.)With respect to things like opensnp.org: one key element for use of data by researchers is that the data is collected under an IRB-approved process. People who join the PGP can also upload and donate their 23andme & deCODEme data & etc., with the benefit of it being very “kosher” for researchers to use — if anyone has uploaded to other sites, I suggest they also consider enrolling in the PGP.  :-)

  4. gt bear says:

    good post. i signed up for  PGP today.

    - arbitrary aardvark

    • Antinous / Moderator says:

      Why are you using a different name? Did you lose access to your BB account during the switch?

  5. Guan Yang says:

    Don’t forget GenBank, which claims to contains all publicly available DNA sequences and is the largest such database. Publicly funded labs around the world generally upload to GenBank within 24 hours of sequencing. http://www.ncbi.nlm.nih.gov/genbank/

  6. Yeah, Dan Vorhaus is adamantly against us risking dealing with the legal landscape of other countries (e.g. http://www.genomicslawreport.com/index.php/2012/02/06/big-changes-coming-in-eu-privacy-law/ ). Hard enough to struggle with what happens in the US (I wonder if California’s Genetic Information Privacy Act will be a problem for us).

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