ccmGDB: a database for cancer cell metabolism genes

Area of Science:

• Oncology
• Bioinformatics
• Genomics

Background:

• Metabolic reprogramming is a key hallmark of cancer.
• Metabolic disorders contribute to approximately 30% of advanced-stage cancer patient mortality.
• Systematic annotation of cancer cell metabolism genes is crucial for understanding and targeting cancer.

Purpose of the Study:

• To introduce ccmGDB, a comprehensive database for cancer cell metabolism genes.
• To provide integrated genetic, genomic, transcriptomic, proteomic, network, and functional data for over 2000 metabolism genes across more than 30 cancer types.
• To offer a user-friendly portal for accessing and analyzing cancer metabolism information.

Main Methods:

• Assembled, curated, and integrated diverse data types including genetic, genomic, transcriptomic, and proteomic information.
• Incorporated over 260,000 somatic alterations (mutations, CNVs, structural variants).
• Developed cancer-specific gene co-expression and drug-target interaction networks.

Main Results:

• ccmGDB contains data for over 2000 cell metabolism genes in more than 30 cancer types.
• Integrated data includes >260,000 somatic alterations, RNA-Seq, microarray, and protein expression data.
• The database provides access to gene summary, phenotype, mutation, expression, network, and drug information.

Conclusions:

• ccmGDB serves as a valuable, comprehensive resource for the cancer research community.
• The database facilitates systematic analysis of cancer cell metabolism.
• ccmGDB supports the identification of novel therapeutic targets and strategies in oncology.