Table 4 Data resources and models for translational PCa informatics
From: Data-driven translational prostate cancer research: from biomarker discovery to clinical decision
Name | Description | PMID |
|---|---|---|
Databases and knowledge bases | ||
 DDPC | Dragon Database of Genes associated with Prostate Cancer: an integrated knowledge base of genes experimentally supported for PCa | 20880996 |
 PCP | Prostate cancer proteomics: a database created by the results from proteomic studies of human PCa | 22649669 |
 Pancanmet | Pan-cancer metabolites: A web resource for metabolites and associated clinical significance across cancers | 29396322 |
 TCIA | The Cancer Imaging Archive: a data platform for advanced medical imaging of cancers | 23884657 |
 PCaLiStDB | Prostate Cancer Lifestyle Database: a database for lifestyle-wide association studies of PCa http://www.sysbio.org.cn/pcalistdb/ | 31950190 |
 CaPSURE | Cancer of the Prostate Strategic Urologic Research Endeavor: documenting the impact of PCa, including resource utilization, clinical outcomes, health-related quality of life, etc. | 8911524 |
 PCaO | Prostate Cancer Ontology: a data resource for providing the standardized concepts and knowledge for PCa precision study | N/A |
Computational models and tools | ||
 PPI-based network model | miRNAs regulating hub genes in PPI network are identified for predicting high-grade PCa | 30367364 |
 PCa-specific PPI network model | Identifying module biomarkers for PCa progression based on gene expression and PPI data | 25080090 |
 Network vulnerability-based model | miRNAs with stronger single-line regulatory power are identified for predicting PCa metastasis | 29784056 |
 WGCNA-based model | Identifying lincRNA module biomarkers for PCa diagnosis and prognosis | 26100580 |
 RF-based classification model | Predicting aggressive behavior of PCa based on DNA methylation data and RF modeling | 31640781 |
 CCI-reinforced SVM and RF models | Predicting the recurrence-associated death from localized PCa | 31428684 |
 CNN-based model | A computer-aided diagnosis system for automatically detecting PCa using MRI data | 29772101 |
 Deep learning model | Dividing patients with PCa into clinically meaningful groups | 31238766 |
 Integrated network and SVM model | Prioritizing PCa-associated miRNAs based on miRNA target-dysregulated network analysis and SVM classification | 21768329 |