Research
CpG island density and its correlations with genomic features in mammalian genomes
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* Corresponding author: Zhongming Zhao zzhao@vcu.edu
1 Department of Psychiatry, Virginia Commonwealth University, Richmond, VA 23298, USA
2 State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
3 Graduate School, Chinese Academy of Sciences, Beijing 100039, China
4 Kunming Primate Research Center, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
5 Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
6 Department of Human Genetics and Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond, VA 23284, USA
Genome Biology 2008, 9:R79 doi:10.1186/gb-2008-9-5-r79
Published: 13 May 2008Additional files
Additional file 1:
Numbers of genes estimated in mammalian genomes.
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Additional file 2:
Correlations between CGI density and genomic features in ten mammalian genomes (including platypus).
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Additional file 3:
Correlations between intergenic CGI density and genomic features in nine mammalian genomes.
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Additional file 4:
Correlations between CGI density and average recombination rate (cM/Mb) in the human, mouse and rat genomes.
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Additional file 5:
Comparison of CpG islands and other genomic features between mammalian and non-mammalian genomes.
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Additional file 6:
Correlations between CGI density and genomic features in mammalian genomes using the Gardiner-Garden and Frommer algorithm in the non-repeat portions of genomes. In both Additional data files 6 and 7, the platypus chromosomes were excluded because of incomplete genome sequence data and chromosome data. The conclusion would be the same when the platypus data were included.
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Additional file 7:
Correlations between CGI density and genomic features in mammalian genomes using the CpGcluster algorithm. In both Additional data files 6 and 7, the platypus chromosomes were excluded because of incomplete genome sequence data and chromosome data. The conclusion would be the same when the platypus data were included.
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Additional file 8:
The first sheet ('overview') summarizes the total number of CGIs in each genome identified by each algorithm. The length distribution of CGIs in each genome is shown in each additional sheet.
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Additional file 9:
Body temperature and lifespan for each species.
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