A Novel Approach for Discovering Condition-Specific Correlations of Gene Expressions within Biological Pathways by Using Cloud Computing Technology

Joint Authors

Wang, Wei-Jen
Wu, Shih-Lin
Chang, Tzu-Hao
Chang, Cheng-Wei
Horng, Jorng-Tzong

Source

BioMed Research International

Issue

Vol. 2014, Issue 2014 (31 Dec. 2014), pp.1-8, 8 p.

Publisher

Hindawi Publishing Corporation

Publication Date

2014-01-22

Country of Publication

Egypt

No. of Pages

8

Main Subjects

Medicine

Abstract EN

Microarrays are widely used to assess gene expressions.

Most microarray studies focus primarily on identifying differential gene expressions between conditions (e.g., cancer versus normal cells), for discovering the major factors that cause diseases.

Because previous studies have not identified the correlations of differential gene expression between conditions, crucial but abnormal regulations that cause diseases might have been disregarded.

This paper proposes an approach for discovering the condition-specific correlations of gene expressions within biological pathways.

Because analyzing gene expression correlations is time consuming, an Apache Hadoop cloud computing platform was implemented.

Three microarray data sets of breast cancer were collected from the Gene Expression Omnibus, and pathway information from the Kyoto Encyclopedia of Genes and Genomes was applied for discovering meaningful biological correlations.

The results showed that adopting the Hadoop platform considerably decreased the computation time.

Several correlations of differential gene expressions were discovered between the relapse and nonrelapse breast cancer samples, and most of them were involved in cancer regulation and cancer-related pathways.

The results showed that breast cancer recurrence might be highly associated with the abnormal regulations of these gene pairs, rather than with their individual expression levels.

The proposed method was computationally efficient and reliable, and stable results were obtained when different data sets were used.

The proposed method is effective in identifying meaningful biological regulation patterns between conditions.

American Psychological Association (APA)

Chang, Tzu-Hao& Wu, Shih-Lin& Wang, Wei-Jen& Horng, Jorng-Tzong& Chang, Cheng-Wei. 2014. A Novel Approach for Discovering Condition-Specific Correlations of Gene Expressions within Biological Pathways by Using Cloud Computing Technology. BioMed Research International،Vol. 2014, no. 2014, pp.1-8.
https://search.emarefa.net/detail/BIM-496871

Modern Language Association (MLA)

Chang, Tzu-Hao…[et al.]. A Novel Approach for Discovering Condition-Specific Correlations of Gene Expressions within Biological Pathways by Using Cloud Computing Technology. BioMed Research International No. 2014 (2014), pp.1-8.
https://search.emarefa.net/detail/BIM-496871

American Medical Association (AMA)

Chang, Tzu-Hao& Wu, Shih-Lin& Wang, Wei-Jen& Horng, Jorng-Tzong& Chang, Cheng-Wei. A Novel Approach for Discovering Condition-Specific Correlations of Gene Expressions within Biological Pathways by Using Cloud Computing Technology. BioMed Research International. 2014. Vol. 2014, no. 2014, pp.1-8.
https://search.emarefa.net/detail/BIM-496871

Data Type

Journal Articles

Language

English

Notes

Includes bibliographical references

Record ID

BIM-496871