Oncogenomic portals for the visualization and analysis of genome-wide cancer data

  • Klonowska K
  • Czubak K
  • Wojciechowska M
  • et al.
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Abstract

Somatically acquired genomic alterations that drive oncogenic cellular processes are of great scientific and clinical interest. Since the initiation of large-scale cancer genomic projects (e.g., the Cancer Genome Project, The Cancer Genome Atlas, and the International Cancer Genome Consortium cancer genome projects), a number of web-based portals have been created to facilitate access to multidimensional oncogenomic data and assist with the interpretation of the data. The portals provide the visualization of small-size mutations, copy number variations, methylation, and gene/protein expression data that can be correlated with the available clinical, epidemiological, and molecular features. Additionally, the portals enable to analyze the gathered data with the use of various user-friendly statistical tools. Herein, we present a highly illustrated review of seven portals, i.e., Tumorscape, UCSC Cancer Genomics Browser, ICGC Data Portal, COSMIC, cBioPortal, IntOGen, and BioProfiling. de. All of the selected portals are user-friendly and can be exploited by scientists from different cancer-associated fields, including those without bioinformatics background. It is expected that the use of the portals will contribute to a better understanding of cancer molecular etiology and will ultimately accelerate the translation of genomic knowledge into clinical practice.

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Klonowska, K., Czubak, K., Wojciechowska, M., Handschuh, L., Zmienko, A., Figlerowicz, M., … Kozlowski, P. (2015). Oncogenomic portals for the visualization and analysis of genome-wide cancer data. Oncotarget, 7(1). https://doi.org/10.18632/oncotarget.6128

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