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.

class="wikitable sortable" style="width:100%; font-size:95%;"

!width="20%"|Database

!width="17%"|Institute / Organization

!width="21%"|Alteration Types

!width="6%"|Primary Source The database is the publication site for (some of) its cancer raw data

!width="6%"|Processed Data The database contains cancer data at a certain level of analysis (non-raw data)

!width="7%"|Organisms

!width="6%"|Cell lines The database also contains cell line data

!width="6%"|Public Data The database contains cancer data that is available for everyone

!width="6%"|Restricted Data The database contains cancer data that is only available under some restriction

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) [http://www.genelogic.com/knowledge-suites/bioexpress-system →]

|Ocimum Bio Solutions, United States

|Gene Expression

|{{yes}}

| Human, Rat and Mouse

|{{yes}}

|{{no}}

|{{yes}}

ClinicalTrials.gov contains descriptions and some results from clinical trials, many of which are genomically targeted. [http://clinicaltrials.gov →]

|National Institutes of Health, United States

|Various

|{{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. [https://www.projectdatasphere.org/projectdatasphere/html/home →]

|The CEO Life Sciences Consortium, United States

|Various

|{{no}}

|{{yes}}

| Human

|{{no}}

|{{yes}}

Catalogue Of Somatic Mutations In Cancer (COSMIC) [http://www.sanger.ac.uk/genetics/CGP/cosmic/ →]

|Wellcome Trust Sanger Institute, UK

|Mutation

|{{no}}

|{{yes}}

|Human

|{{yes}}

cBio Cancer Genomics Portal [http://cbioportal.org/ →]

|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 [http://www.icgc.org/ →]

|Worldwide

|Mutation

|{{yes}}

|Human

|{{no}}

|{{yes}}

Integrative Oncogenomics Cancer Browser (IntOGen) [http://www.intogen.org →]

|Universitat Pompeu Fabra, Spain

|Copy number, Mutation, Gene Expression

|{{no}}

|{{yes}}

|Human

|{{no}}

|{{yes}}

|{{no}}

Mouse Retrovirus Tagged Cancer Gene Database [https://web.archive.org/web/20080303124108/http://rtcgd.abcc.ncifcrf.gov/ →]

|Institute of Molecular and Cell Biology, Singapore

Mutations

|{{yes}}

|Mouse

|{{no}}

|{{yes}}

|{{no}}

Mouse Tumor Biology Database [http://tumor.informatics.jax.org/mtbwi/index.do →]Only contains references to biological data

|The Jackson Laboratory, United States

|Copy number, Mutation, Methylation, Gene Expression

|{{no}}

|Mouse

|{{no}}

OncoDB.HCC [http://oncodb.hcc.ibms.sinica.edu.tw/index.htm →]

|Academia Sinica, Taiwan

|Copy number, Gene Expression, QTL

|{{no}}

|{{yes}}

|Human, Mouse, Rat

|{{no}}

|{{yes}}

|{{no}}

Genevestigator [https://genevestigator.com/gv/ →] contains data from numerous public repositories including [https://www.ncbi.nlm.nih.gov/geo/ GEO] and renowned cancer research projects as TCGA.

|Nebion AG, Switzerland

|Gene Expression

|{{no}}

|{{yes}}

|Human, Mouse, Rat, Monkey, Dog and others

|{{yes}}

[http://www.omicsoft.com/oncoland-service 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}}

| Human, Rat and Mouse

|{{yes}}

Oncomine [https://www.oncomine.org/ →]

|Compendia Bioscience, Inc., United States

|Gene Expression

|{{no}}

|{{yes}}

|Human

|{{yes}}