PLCO SDK (Eric Ruan)

The project

The Prostate, Lung, Colorectal, Ovarian (PLCO) Cancer Screening Study is a large population-based randomized trial designed and sponsored by the National Cancer Institute (NCI) to determine the effects of screening on cancer-related mortality and secondary endpoints in men and women aged 55 to 74. The screening component of the trial was completed in 2006. Existing data from the trial is available and can be obtained from the Cancer Data Access System website. Biological samples are also available to the entire scientific community through a peer-review process.

The cohort of participants has been followed for more than two decades, resulting in a rich collection of anthropometric, lifestyle, and disease information, and includes data from several smaller-scale molecular studies. As costs for the technology have drastically decreased, the NCI Division of Cancer Epidemiology and Genetics, has genotyped 110,000 PLCO participants and by doing so created a new resource for genomic studies. More information at https://exploregwas-dev.cancer.gov/plco-atlas/#/about

The SDK code reference:

• Project page (dev): https://exploregwas-dev.cancer.gov/plco-atlas/#/gwas/summary

• API swagger: https://exploregwas-dev.cancer.gov/plco-atlas/#/api-access

• SDK library: https://github.com/episphere/plco

• SDK explorer: https://episphere.github.io/plco

• Reference Observable notebook testing: https://observablehq.com/@ericr491/plco-sdk

• Other client-side PLCO explorations:
  https://observablehq.com/@episphere/plco ... (add your own)

Eric's presentation was recorded

https://www.youtube.com/watch?v=wtieipSYvTY

...

CBIIT Data Science Codeathon

https://www.training.nih.gov/events/view/_2/4658/Summer_Internship_Codeathon

Connect's QAQC (Lorena)

QAQC functionality is an ongoing process. Once a process is implement, it is run at regular intervals, and must be updated as needed. Lorena is presenting her QAQC solution for connect, based on cloud build and cloud scheduler to run an R script that performs the QAQC.