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Clinical Pilot
St. Jude Cloud
Data Resource:  St. Jude Cloud
Point of Contact:  
Clay McLeod ; Jinghui Zhang,  
Project

About This Dataset
Eligible cancer patients treated at St. Jude Children's Research Hospital are offered three-platform next-generation sequencing testing. This testing generally includes whole-genome sequencing (WGS) and whole-exome sequencing (WES) of tumor and normal tissue, as well as RNA sequencing (RNA Sequencing) of their tumor. Many of those patients consent to research data sharing so that their information can be leveraged to find cures for future patients. The Clinical Genomics dataset is comprised of data from these samples and is broken down into three distinct project phases. The Clinical Pilot project was a retrospective study that evaluated the accuracy and demonstrated the feasibility of three-platform sequencing in a CAP/CLIA setting. The findings of this project were published in Nature Communications. The Genomes 4 Kids (G4K) followed the Clinical Pilot. The goal of this prospective study was to determine whether the three-platform sequencing protocol laid out in the Clinical Pilot project could generate results on a clinical timeline in practice and to evaluate the prevalence of actionable findings. The study concluded with just over 300 patients, and the publication is currently in review. After the completion of G4K, clinical genomics became a standard service. Real-time Clinical Genomics (RTCG) is a first of its kind initiative, whereby St. Jude began releasing data from the clinical NGS service consented for research use to St. Jude Cloud in monthly batches to give researchers access to valuable data as quickly as possible. Subsequent publications are expected in the future.
Core Data Elements
Number of Cases
34
Case Sex
Female (6); Male (7); Not Reported (21)
Case Age At Diagnosis
0 to 4 years (1); 5 to 9 years (1); 10 to 14 years (1); 15 to 19 years (1); Pediatric and Young Adult (<40 years) (30)
Case Race
White (9); Not Reported (25)
Case Ethnicity
Not Hispanic or Latino (9); Not Reported (25)
Case Disease Diagnosis
Acute Myeloid Leukemia (1); Ewing Sarcoma (1); Retinoblastoma (1); Not Reported (31)
Case Tumor Site
Not Reported (34)
Number of Samples
155
Sample Assay Method
Multiple (154); RNA Sequencing (312); Whole Exome Sequencing (676); Whole Genome Sequencing (881)
Additional Data Elements
DATA REPOSITORY
Grant Information
P30CA021765
Cancer Center Support Grant
PROGRAM ID
PAR-17-095
Published In
https://doi.org/10.1038/s41467-018-06485-7
SAMPLE TYPE
Autopsy (2);  
Diagnosis (74);  
Germline (78);  
Metastasis (1);  
Charts
Not Reported (21); Male (7); Female (6)
21Not Reported