Integration of Online Omics-Data Resources for Cancer Research

Frontiers in Genetics
Tonmoy DasSajib Chakraborty

Abstract

The manifestations of cancerous phenotypes necessitate alterations at different levels of information-flow from genome to proteome. The molecular alterations at different information processing levels serve as the basis for the cancer phenotype to emerge. To understand the underlying mechanisms that drive the acquisition of cancer hallmarks it is required to interrogate cancer cells using multiple levels of information flow represented by different omics - such as genomics, epigenomics, transcriptomics, and proteomics. The advantage of multi-omics data integration comes with a trade-off in the form of an added layer of complexity originating from inherently diverse types of omics-datasets that may pose a challenge to integrate the omics-data in a biologically meaningful manner. The plethora of cancer-specific online omics-data resources, if able to be integrated efficiently and systematically, may facilitate the generation of new biological insights for cancer research. In this review, we provide a comprehensive overview of the online single- and multi-omics resources that are dedicated to cancer. We catalog various online omics-data resources such as The Cancer Genome Atlas (TCGA) along with various TCGA-associated data portal...Continue Reading

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Citations

Dec 16, 2020·Proteomics·Timothy D Veenstra
Apr 1, 2021·Briefings in Functional Genomics·Harpreet KaurGajendra P S Raghava
Jun 3, 2021·Cancers·Miao SuEdouard C Nice

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Datasets Mentioned

BETA
PRIDE

Methods Mentioned

BETA
ChIP-seq
immunoprecipitation
RNA-seq
Protein Arrays
Protein Array
single-cell sequencing
DNA-seq
xenografts
biopsy
biopsies

Software Mentioned

PCAWG
UCSC Xena
GEO
NEMO
Xena
Wanderer
moCluster
GEPIA
viewGene
TCPA

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