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Title 

Computational analysis of neighboring genes on Arabidopsis thaliana chromosomes 4 and 5: their genomic association as functional subunits

Authors 

Sung-Ho GohTae Hyung KimJee Hyub KimDoug U NamDo Il ChoiCheol-Goo Hur

Publisher 

Korea Genome Organization

Issue Date 

2003

Citation 

Genomics & Informatics, vol. 1, no. 1, pp. 40-49

Keywords 

scaffold/matrix-attached regions# (S/MAR)bigramtrigramweighted random distribution

Abstract 

The genes related to specific events or pathways in bacteria are frequently localized proximate to the genome of their neighbors, as with the structures known as operon, but eukaryotic genes seem to be independent of their neighbors, and are dispersed randomly throughout genomes. Although cases are rare, the findings from structures similar to prokaryotic operons in the nematode genome, and the clustering of housekeeping genes on human genome, lead us to assess the genomic association of genes as functional subunits. We evaluated the genomic association of neighboring genes on chromosomes 4 and 5 of Arabidopsis thaliana with and without respectively consideration of the scaffold/matrixattached regions (S/MAR) loci. The observed number of functionally identical bigrams and trigrams were significantly higher than expected, and these results were verified statistically by calculating p-values for weighted random distributions. The observed frequency of functionally identical bigrams and trigrams were much higher in chromosome 4 than in chromosome 5, but the frequencies with, and without, consideration of the S/MAR in each chromosome were similar. In this study, a genomic association among functionally related neighboring genes in Arabidopsis thaliana was suggested.

ISSN 

1598-866X

Appears in Collections

1. Journal Articles > Journal Articles

Registered Date

2019-05-02


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