Meta-analysis of cancer microarray data reveals signaling pathway hotspots

Pankaj Chopra; Jaewoo Kang; Seung Mo Hong

doi:10.1109/BIBMW.2009.5332097

Meta-analysis of cancer microarray data reveals signaling pathway hotspots

Pankaj Chopra, Jaewoo Kang, Seung Mo Hong

Department of Computer and Radio Communications Engineering

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

Recent studies have shown that the identification of deregulated bio-molecular pathways in cancer may be more important than identification of individual genes through differential expression. Since the same pathway can be deregulated by a different subset of genes, it is critical to study pathways as a whole, rather than focus on individual genes. Most papers on meta-analysis of cancer datasets focus on the identification of a set of individual genes, and not on pathways, protein families and gene ontology terms. We have analyzed data from 87 microarray datasets consisting of 5,126 samples and spanning 25 different types of cancer. We have identified 212 KEGG pathways, 578 protein families and 1,717 gene ontology terms that are statistically significant (p < 0.01), and deregulated in cancer. Many of the top pathways and proteins from our meta-analysis, e.g., Jak-Stat pathway, Annexin proteins etc. are already known to play a pivotal role in carcinogenesis. To the best of our knowledge this is the largest meta analysis of cancer pathways, protein families and gene ontology terms to date.

Original language	English
Title of host publication	Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009
Pages	214-219
Number of pages	6
DOIs	https://doi.org/10.1109/BIBMW.2009.5332097
Publication status	Published - 2009
Event	2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009 - Washington, DC, United States Duration: 2009 Nov 1 → 2009 Nov 4

Publication series

Name	Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009

Other

Other	2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009
Country	United States
City	Washington, DC
Period	09/11/1 → 09/11/4

Keywords

Cancer
GO
Gene expression
KEGG
Meta-analysis
Microarray
PFAM
Pathway
Signaling

ASJC Scopus subject areas

Biomedical Engineering
Health Informatics
Health Information Management

UN SDGs

This output contributes to the following Sustainable Development Goal(s)

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Chopra, P., Kang, J., & Hong, S. M. (2009). Meta-analysis of cancer microarray data reveals signaling pathway hotspots. In Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009 (pp. 214-219). [5332097] (Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009). https://doi.org/10.1109/BIBMW.2009.5332097

Meta-analysis of cancer microarray data reveals signaling pathway hotspots. / Chopra, Pankaj; Kang, Jaewoo; Hong, Seung Mo.

Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009. 2009. p. 214-219 5332097 (Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Chopra, P, Kang, J & Hong, SM 2009, Meta-analysis of cancer microarray data reveals signaling pathway hotspots. in Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009., 5332097, Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009, pp. 214-219, 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009, Washington, DC, United States, 09/11/1. https://doi.org/10.1109/BIBMW.2009.5332097

Chopra P, Kang J, Hong SM. Meta-analysis of cancer microarray data reveals signaling pathway hotspots. In Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009. 2009. p. 214-219. 5332097. (Proceedings - 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2009). https://doi.org/10.1109/BIBMW.2009.5332097

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Meta-analysis of cancer microarray data reveals signaling pathway hotspots

Abstract

Publication series

Other

Keywords

ASJC Scopus subject areas

UN SDGs

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