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Proteomics

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
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Cancer-Critical Genes I: Proto-oncogenes

Cancer-Critical Genes I: Proto-oncogenes

Genes usually encode proteins necessary for the proper functioning of a healthy cell. Mutations can often cause changes to the gene expression pattern, thereby altering the phenotype.
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Mouse Models of Cancer Study

Mouse Models of Cancer Study

Mice have long served as models for studying human biology and pathology because of their phylogenetic and physiological similarity with humans. They are also easy to maintain and breed in the laboratory, and hence, many inbred strains are now available for research. Studies on mice have contributed immeasurably to our understanding of cancer biology.
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Updated: Jun 17, 2026

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

CanProVar: a human cancer proteome variation database.

Jing Li¹, Dexter T Duncan, Bing Zhang

¹Department of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, Tennessee 37232, USA.

|January 7, 2010

Summary

The Cancer Proteome Variation Database (CanProVar) integrates cancer-specific protein variations to aid oncogenesis research. This resource reveals functional insights into cancer-related variations (crVARs) and their protein interactions.

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Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

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Quantitative Mass Spectrometric Profiling of Cancer-cell Proteomes Derived From Liquid and Solid Tumors

Quantitative Mass Spectrometric Profiling of Cancer-cell Proteomes Derived From Liquid and Solid Tumors

Published on: February 27, 2015

Area of Science:

Genomics
Proteomics
Bioinformatics

Background:

Identifying genetic mutations in oncogenesis and tumor progression is vital for cancer research and clinical treatment.
Existing databases often lack comprehensive, integrated data on cancer-specific protein variations.

Purpose of the Study:

To develop a centralized, user-friendly database (CanProVar) for human cancer proteome variations.
To provide functional annotations and facilitate analysis of cancer-related variations (crVARs).

Main Methods:

Integrated protein sequence variation data from public resources, focusing on cancer-related variations (crVARs).
Developed a web-based interface for database querying.
Annotated crVARs with functional information including Gene Ontology (GO) terms, protein domains, and interaction partners.

Main Results:

The CanProVar database currently contains 8,570 crVARs in 2,921 proteins and 41,541 non-cancer specific variations (ncsVARs).
Analysis revealed enrichment of crVARs in specific protein domains.
Proteins with crVARs showed a higher likelihood of interacting within the protein interaction network.

Conclusions:

CanProVar offers valuable insights into the functional characteristics of cancer-related protein variations.
The database serves as a crucial resource for advancing cancer biology and identifying potential therapeutic targets.