Citing St. Jude Cloud
The St. Jude Cloud manuscript is currently under review. Until further notice, when St. Jude Cloud or data accessed therein is used in your work, please ensure that you:
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Cite the St. Jude Cloud manuscript preprint on BioRxiv:
St. Jude Cloud - a Pediatric Cancer Genomic Data Sharing Ecosystem
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Cite the relevant paper for each dataset and/or resource that you used in your study (see ‘Dataset’ and ‘Resource’ reference tables below)
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State in the Results and/or Methods section that the relevant data and/or resource was obtained from St. Jude Cloud. Example statement:
"Whole genome sequencing data for relapse tumor samples from 345 pediatric patients were obtained from St. Jude Cloud."
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State in the Data availability section of the manuscript that data and/or resource can be accessed via St. Jude Cloud. Example statement:
"Whole genome sequencing data for pediatric relapse tumor samples used for analysis in this study were obtained from St. Jude Cloud (https://www.stjude.cloud) – a publicly accessible pediatric genomic data resource requiring approval for controlled data access."
Dataset Reference Table¶
Please download the Schedule 1(s) (linked in table below) to find dataset specific wording of acknowledgement(s).
| St. Jude Cloud Dataset | Reference |
|---|---|
| Pediatric Cancer Genome Project (PCGP) dataset | PCGP perspectives paper and the relevant tumor type paper(s); file_download PCGP Schedule 1 |
| St. Jude Lifetime (SJLIFE) dataset | SJLIFE paper; file_download SJLIFE Schedule 1 |
| Clinical Genomics (Clinical Pilot, Genomes for Kids, Real-Time Clinical Genomics) dataset | Clinical Pilot paper; file_download Clinical Genomics Schedule 1 |
| Sickle Cell Genome Project (SGP) dataset | paper in progress; file_download SGP Schedule 1 |
| Childhood Cancer Survivor Study (CCSS) dataset | CCSS study design paper; file_download CCSS Schedule 1 |
Note
If you are unsure what dataset(s) the data that you have been vended belongs to, you can find this information in the sj_datasets column of the SAMPLE_INFO.txt file.
Warning
Publishing using any of the data files before the embargo date has passed is strictly prohibited as outlined in the Data Access Agreement (DAA).
Resource Reference Table¶
| St. Jude Cloud Resource | Reference |
|---|---|
| ProteinPaint | ProteinPaint paper |
| GenomePaint | paper in progress |
| PeCan Pie | PeCan Pie paper |
| NeoepitopePred | NeoepitopePred paper |
| ChIP-Seq Peak Calling | unpublished |
| Rapid RNA-Seq Fusion Detection | paper in progress |
| WARDEN | unpublished |
| Mutational Signatures | Mutational Patterns paper |
| cis-x | paper in progress |
| XenoCP | paper in progress |
Contact Us¶
Any questions, comments, or concerns can be directed to our "Contact Us" form or you can email us directly at support@stjude.cloud.