Analysis and Visualization of Longitudinal Genomic and Clinical Data from the AACR Project GENIE Biopharma Collaborative in cBioPortal.
Journal
Cancer research
ISSN: 1538-7445
Titre abrégé: Cancer Res
Pays: United States
ID NLM: 2984705R
Informations de publication
Date de publication:
01 Dec 2023
01 Dec 2023
Historique:
received:
30
03
2023
revised:
24
05
2023
accepted:
30
08
2023
medline:
4
12
2023
pubmed:
5
9
2023
entrez:
5
9
2023
Statut:
ppublish
Résumé
International cancer registries make real-world genomic and clinical data available, but their joint analysis remains a challenge. AACR Project GENIE, an international cancer registry collecting data from 19 cancer centers, makes data from >130,000 patients publicly available through the cBioPortal for Cancer Genomics (https://genie.cbioportal.org). For 25,000 patients, additional real-world longitudinal clinical data, including treatment and outcome data, are being collected by the AACR Project GENIE Biopharma Collaborative using the PRISSMM data curation model. Several thousand of these cases are now also available in cBioPortal. We have significantly enhanced the functionalities of cBioPortal to support the visualization and analysis of this rich clinico-genomic linked dataset, as well as datasets generated by other centers and consortia. Examples of these enhancements include (i) visualization of the longitudinal clinical and genomic data at the patient level, including timelines for diagnoses, treatments, and outcomes; (ii) the ability to select samples based on treatment status, facilitating a comparison of molecular and clinical attributes between samples before and after a specific treatment; and (iii) survival analysis estimates based on individual treatment regimens received. Together, these features provide cBioPortal users with a toolkit to interactively investigate complex clinico-genomic data to generate hypotheses and make discoveries about the impact of specific genomic variants on prognosis and therapeutic sensitivities in cancer. Enhanced cBioPortal features allow clinicians and researchers to effectively investigate longitudinal clinico-genomic data from patients with cancer, which will improve exploration of data from the AACR Project GENIE Biopharma Collaborative and similar datasets.
Identifiants
pubmed: 37668528
pii: 728880
doi: 10.1158/0008-5472.CAN-23-0816
pmc: PMC10690089
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
3861-3867Subventions
Organisme : NCI NIH HHS
ID : U24 CA274633
Pays : United States
Organisme : NCI NIH HHS
ID : P30 CA008748
Pays : United States
Organisme : NCRR NIH HHS
ID : P41 RR031228
Pays : United States
Organisme : NCI NIH HHS
ID : U24 CA233243
Pays : United States
Organisme : NCI NIH HHS
ID : U24 CA264028
Pays : United States
Organisme : NCI NIH HHS
ID : U24 CA143840
Pays : United States
Informations de copyright
©2023 The Authors; Published by the American Association for Cancer Research.
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