Vertaisarvioitu alkuperäisartikkeli tai data-artikkeli tieteellisessä aikakauslehdessä (A1)

A harmonized resource of integrated prostate cancer clinical, -omic, and signature features

Julkaisun tekijätLaajala Teemu D., Sreekanth Varsha, Soupir Alex C., Creed Jordan H., Halkola Anni S., Calboli Federico C. F., Singaravelu Kalaimathy, Orman Michael V., Colin-Leitzinger Christelle, Gerke Travis, Fridley Brooke L., Tyekucheva Svitlana, Costello James C.



JournalScientific Data

Tietokannassa oleva lehden nimiSCIENTIFIC DATA

Lehden akronyymiSCI DATA

Artikkelin numero 430



Sivujen määrä13




Rinnakkaistallenteen osoite


Genomic and transcriptomic data have been generated across a wide range of prostate cancer (PCa) study cohorts. These data can be used to better characterize the molecular features associated with clinical outcomes and to test hypotheses across multiple, independent patient cohorts. In addition, derived features, such as estimates of cell composition, risk scores, and androgen receptor (AR) scores, can be used to develop novel hypotheses leveraging existing multi-omic datasets. The full potential of such data is yet to be realized as independent datasets exist in different repositories, have been processed using different pipelines, and derived and clinical features are often not provided or not standardized. Here, we present the curatedPCaData R package, a harmonized data resource representing >2900 primary tumor, >200 normal tissue, and >500 metastatic PCa samples across 19 datasets processed using standardized pipelines with updated gene annotations. We show that meta-analysis across harmonized studies has great potential for robust and clinically meaningful insights. curatedPCaData is an open and accessible community resource with code made available for reproducibility.

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Last updated on 2023-30-08 at 11:46