Next Article in Journal
Chemical Interactions and Their Role in the Microphase Separation of Block Copolymer Thin Films
Previous Article in Journal
Molecular System Bioenergetics—New Aspects of Metabolic Research
Article Menu

Export Article

Open AccessArticle
Int. J. Mol. Sci. 2009, 10(8), 3658-3670; doi:10.3390/ijms10083658

Co-Expression of Neighboring Genes in the Zebrafish (Danio rerio) Genome

1
Institute of Information Science, Academia Sinica, 128 Sec. 2, Academia Rd, Nankang, 115, Taipei, Taiwan
2
Department of Computer Science and Information Engineering, National Taiwan University, Taipei 106, Taiwan
3
Biodiversity Research Center, Academia Sinica, 128 Sec. 2, Academia Rd, Nankang, 115, Taipei, Taiwan
*
Author to whom correspondence should be addressed.
Received: 14 July 2009 / Revised: 11 August 2009 / Accepted: 20 August 2009 / Published: 21 August 2009
(This article belongs to the Section Physical Chemistry, Theoretical and Computational Chemistry)
View Full-Text   |   Download PDF [130 KB, uploaded 19 June 2014]   |  

Abstract

Neighboring genes in the eukaryotic genome have a tendency to express concurrently, and the proximity of two adjacent genes is often considered a possible explanation for their co-expression behavior. However, the actual contribution of the physical distance between two genes to their co-expression behavior has yet to be defined. To further investigate this issue, we studied the co-expression of neighboring genes in zebrafish, which has a compact genome and has experienced a whole genome duplication event. Our analysis shows that the proportion of highly co-expressed neighboring pairs (Pearson’s correlation coefficient R>0.7) is low (0.24% ~ 0.67%); however, it is still significantly higher than that of random pairs. In particular, the statistical result implies that the co-expression tendency of neighboring pairs is negatively correlated with their physical distance. Our findings therefore suggest that physical distance may play an important role in the co-expression of neighboring genes. Possible mechanisms related to the neighboring genes’ co-expression are also discussed.
Keywords: gene expression; co-expression; neighboring genes; promoter; zebrafish gene expression; co-expression; neighboring genes; promoter; zebrafish
This is an open access article distributed under the Creative Commons Attribution License (CC BY 3.0).

Scifeed alert for new publications

Never miss any articles matching your research from any publisher
  • Get alerts for new papers matching your research
  • Find out the new papers from selected authors
  • Updated daily for 49'000+ journals and 6000+ publishers
  • Define your Scifeed now

SciFeed Share & Cite This Article

MDPI and ACS Style

Tsai, H.-K.; Huang, P.-Y.; Kao, C.-Y.; Wang, D. Co-Expression of Neighboring Genes in the Zebrafish (Danio rerio) Genome. Int. J. Mol. Sci. 2009, 10, 3658-3670.

Show more citation formats Show less citations formats

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Int. J. Mol. Sci. EISSN 1422-0067 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top