## 5 Conclusions and Future Work
The following are available at [[http://www.mdpi.com/2076-3417/10/18/6367/](http://www.mdpi.com/2076-3417/10/18/6367/)]([http://www.mdpi.com/2076-3417/10/18/6367/](http://www.mdpi.com/2076-3417/10/18/6367/)), Supplementary File 1--OpenGDC_format_definition.pdf, PDF file that contains, for each considered data types included in OpenGDC: the format definition, the format conversion details from the GDC original TCGA format into OpenGDC format, and external database integration specifications. (Available at [http://www.bioinformatics.deib.polimi.it/opengdc/](http://www.bioinformatics.deib.polimi.it/opengdc/); Supplementary File 2--OpenGDC_User_Guide.pdf, PDF file that contains a practical guide to introduce OpenGDC software use; Supplementary File 3--OpenGDC_readme.txt, Text file that includes installation and execution details of the OpenGDC software package; Supplementary File 4--OpenGDC_repository_description.txt, Text file that details the content and the structure of the OpenGDC data repository; Supplementary File 5--OpenGDC_statistics.xlsx, Spreadsheet file that contains 3 sheets: (i) _All, statistics_, including patient, sample and aliquot counts for each tumor and experiment type; (ii) _Counts_for_each_experiment_, including the occurrences of the patients, samples and aliquots for each experiment; (iii) _Total_counts_for_each_tumor_, including the occurrences of the patients, samples and aliquots for each tumor; Supplementary File 6--OpenGDC_GMQL_queries.txt, Text file including the ready-to-run GMQL queries described in Section 4 to reproduce the experiments on [52]. [PERSON], [PERSON], and [PERSON] directed the work. [PERSON], [PERSON], [PERSON], [PERSON], [PERSON], and [PERSON] wrote the manuscript. [PERSON] and [PERSON] performed software and F.T.P. server design and implementation. [PERSON] analyzed and structured the metadata. [PERSON] and [PERSON] downloaded, converted and processed the data. [PERSON], [PERSON], and [PERSON] conceived the research. All authors have read and agreed to the published version of the manuscript. This work has been supported by the ERC Advanced Grant 693174 \"Data-Driven Genomic Computing (GeCo)\" project (2016-2021), funded by the European Research Council, which covered also the publication costs. The results reported here are based upon the data maintained by the National Cancer Institute's Genomic Data Commons: [[https://gdc.cancer.gov/](https://gdc.cancer.gov/)]([https://gdc.cancer.gov/](https://gdc.cancer.gov/)). The following abbreviations are used in this manuscript:  
API Application Programming Interface  
BED Browser Extensible Data format  
BCR Biospecimen Core Repository  
CGC Cancer Genomics Cloud  
CNV copy number variation  
GDC Genomic Data Commons  
GDM Genomic Data Model  
GMQL GenoMetric Query Language  
ICD-O International Classification of Diseases for Oncology  
ICGC International Cancer Genome Consortium  
KICH Kidney Chromophone  
KIRK Kidney Renal Clear Cell Carcinoma  
KIRP Kidney Renal Papillary Cell Carcinoma  
MAF Mutation Annotation Format  
MVC Model-View-Controller  
NCI National Cancer Institute  
NGS Next Generation Sequencing  
TCGA The Cancer Genome Atlas  
TSS transcription start site  
UUID Universal Unique Identifier  
WHO World Health Organization.