Import data from Harvard Personal Genome Project (hackathon idea)

[bwalsh]

Download 1 of the 218 public whole genomes available.

For overview see: https://docs.google.com/presentation/d/10wcdBZMn2d66OBJY1cy3PMWeETJrhSXN5DguKkdxMe0/edit

For data download:

https://my.pgp-hms.org/public_genetic_data?utf8=%E2%9C%93&data_type=Complete+Genomics&commit=Search

[jeromekelleher]

Great idea @bwalsh, we should definitely look at this.

[nouyang-curoverse]

Happy to answer any questions about PGP data, and will be at the hackathon.

Also, direct link to the interactive phenotype explorer mentioned in the google presentation: http://curoverse.link/22d61dd43786c65cd175b04ad6954af0+3119/html/index.html

& a cheat sheet about the PGP data: https://github.com/PGPHarvard/data-summary

Thanks for bringing this up @bwalsh!

[nouyang-curoverse]

Additionally, if we wish to select for genomes linked to individuals with cancer, here are the participants who have responded with "yes" to having cancer at some point and have whole genomes https://docs.google.com/spreadsheets/d/1a5SwxjKS0krR0zopW5runpNdRMwbLFA19HnBK_1Qc0g/edit#gid=1782566022

hu43860C https://my.pgp-hms.org/profile_public?hex=hu43860C Squamous Cell Carcinoma hu04FD18 https://my.pgp-hms.org/profile_public?hex=hu04FD18 Basal cell skin cancer hu6E4515 https://my.pgp-hms.org/profile_public?hex=hu6E4515 Colon Cancer hu92C40A https://my.pgp-hms.org/profile_public?hex=hu92C40A Breast Cancer huB1FD55 https://my.pgp-hms.org/profile_public?hex=huB1FD55 Skin Cancer hu26B551 https://my.pgp-hms.org/profile_public?hex=hu26B551 Breast Cancer huFFAD87 https://my.pgp-hms.org/profile_public?hex=huFFAD87 F/H PROSTATE CANCER hu687B6B https://my.pgp-hms.org/profile_public?hex=hu687B6B endometrial cancer hu52B7E5 https://my.pgp-hms.org/profile_public?hex=hu52B7E5 Breast Cancer hu599905 https://my.pgp-hms.org/profile_public?hex=hu599905 Squamous Cell Carcinoma hu8073B9 https://my.pgp-hms.org/profile_public?hex=hu8073B9 Nasal Cancer hu868880 https://my.pgp-hms.org/profile_public?hex=hu868880 Kidney Cancer hu8A5FBF https://my.pgp-hms.org/profile_public?hex=hu8A5FBF Malignant melanoma