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List of databases for oncogenomic research

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Databases for oncogenomic research are biological databases dedicated to cancer data and oncogenomic research. They can be a primary source of cancer data, offer a certain level of analysis (processed data) or even offer online data mining.

List

The table below gives an overview of databases for that serve specifically for oncogenomic research. Note that this is not a comprehensive list and does not contain databases that have a generic focus. You may find databases containing cancer data among the List of biological databases or Microarray databases.

Database Institute / Organization Alteration Types Primary Source Processed Data Organisms Cell lines Public Data Restricted Data
The BioExpress® Oncology Suite from Ocimum Bio Solutions contains gene expression data from primary, metastatic, and benign tumor samples, and normal samples, including matched adjacent controls. (BioExpress Oncology Suite) → Ocimum Bio Solutions, United States Gene Expression Yes Yes Human, Rat and Mouse Yes No Yes
ClinicalTrials.gov contains descriptions and some results from clinical trials, many of which are genomically targeted. → National Institutes of Health, United States Various Yes Yes Human No Yes No
Project Data Sphere from The CEO Life Sciences Consortium allows researchers to share, integrate, and analyze de-identified patient-level, comparator arm, phase III cancer data. → The CEO Life Sciences Consortium, United States Various No Yes Human No Yes Yes
Catalogue Of Somatic Mutations In Cancer (COSMIC) → Wellcome Trust Sanger Institute, UK Mutation No Yes Human Yes Yes Yes
cBio Cancer Genomics Portal → Memorial Sloan-Kettering Cancer Center, United States Copy number, Mutation, Methylation, Gene Expression, miRNA Expression, Protein, Phosphorylation No Yes Human No Yes No
International Cancer Genome Consortium → Worldwide Mutation Yes Yes Human No Yes Yes
Integrative Oncogenomics Cancer Browser (IntOGen) → Universitat Pompeu Fabra, Spain Copy number, Mutation, Gene Expression No Yes Human No Yes No
Mouse Retrovirus Tagged Cancer Gene Database → Institute of Molecular and Cell Biology, Singapore Mutations Yes Yes Mouse No Yes No
Mouse Tumor Biology Database → The Jackson Laboratory, United States Copy number, Mutation, Methylation, Gene Expression No No Mouse No No No
OncoDB.HCC → Academia Sinica, Taiwan Copy number, Gene Expression, QTL No Yes Human, Mouse, Rat No Yes No
Genevestigator → contains data from numerous public repositories including GEO and renowned cancer research projects as TCGA. Nebion AG, Switzerland Gene Expression No Yes Human, Mouse, Rat, Monkey, Dog and others Yes Yes Yes
OncoLand from Omicsoft Corporation contains data from large-scale Genomic projects, include TCGA, ICGC and others] Omicsoft Corporation, United States Copy number, Mutation, Methylation, Gene Expression, miRNA Expression, Protein, Phosphorylation Yes Yes Human, Rat and Mouse Yes Yes Yes
Oncomine → Compendia Bioscience, Inc., United States Gene Expression No Yes Human Yes No Yes
Oncoreveal → Boğaziçi University, Turkey Gene Expression No Yes Human No Yes No
Progenetix → Universität Zürich, Switzerland Copy number No Yes Human Yes Yes No
The Cancer Genome Atlas → National Cancer Institute, United States Copy number, Mutation, Methylation, Gene Expression, miRNA expression Yes Yes Human No Yes Yes
CancerResource → University Medicine Berlin, Germany
Roche Cancer Genome Database (RCGDB) Roche Diagnostics, Penzberg, Germany
Network of Cancer Genes → King's College London, UK Mutation No Yes Human No Yes No
MutaGene NCBI, NIH, USA Mutation No Yes Human No Yes No

See also

Notes

  1. Only contains references to biological data

References

  1. The database is the publication site for (some of) its cancer raw data
  2. The database contains cancer data at a certain level of analysis (non-raw data)
  3. The database also contains cell line data
  4. The database contains cancer data that is available for everyone
  5. The database contains cancer data that is only available under some restriction

External links

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