Human coding and noncoding DNA: Compositional correlations

Molecular Phylogenetics and Evolution

Volumn 5, Issue 1, 1996, Pages 2-12

  Clay, Oliver ^a   Cacciò, Simone ^a   Zoubak, Serguei ^a,c   Mouchiroud, Dominique ^b   Bernardi, Giorgio ^a  

^a INSTITUT JACQUES MONOD   (France)

^b UNIVERSITÉ LYON 1   (France)

^c INSTITUTE OF MOLECULAR BIOLOGY AND GENETICS   (Ukraine)

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

ARTICLE; CHEMISTRY; CODON; CPG ISLAND; DNA BASE COMPOSITION; EXON; FACTUAL DATABASE; GENETICS; GENOME; HUMAN; INTRON; REGRESSION ANALYSIS;

BASE COMPOSITION; CODON; CPG ISLANDS; DATABASES, FACTUAL; DNA; EXONS; GENOME, HUMAN; HUMANS; INTRONS; REGRESSION ANALYSIS;

EID: 0030077335     PISSN: 10557903     EISSN: None     Source Type: Journal    
DOI: 10.1006/mpev.1996.0002     Document Type: Article

References (24)

1. Aïssani, B., and Bernardi, G. (1991a). CpG islands: Features and distribution in the genomes of vertebrates. Gene 106: 173-183.
2. Aïssani, B., and Bernardi, G. (1991b). CpG islands, genes and isochores in the genome of vertebrates. Gene 106: 185-195.
3. Aïssani, B., D'Onofrio, G., Mouchiroud, D., Gardiner, K., Gauthier, C., and Bernardi, G. (1991). The Compositional Properties of Human Genes. J. Mol. Evol. 32: 493-503.
4. Aota, S., and Ikemura, T. (1986). Diversity in G+C content at the third position of codons in vertebrate genes and its cause. Nucleic Acids Res. 14: 6345-6355.
5. Benson, D. A., Boguski, M., Lipman, D. J., and Ostell, J. (1994). GenBank. Nucleic Acids Res. 22: 3441-3444.
6. Bernardi, G. (1995). The human genome: Organization and evolutionary history. Annu. Rev. Genet. 29: 445-476.
7. Bernardi, G., Olofsson, B., Filipski, J., Zerial, M., Salinas, J., Cuny, G., Meunier-Rotival, M., and Kodier, F. (1985). The mosaic genome of warm-blooded vertebrates. Science 228: 953-958.
8. DeSario, A., Geigl, E. M., Palmieri, G., D'Urso, M., and Bernardi, G. (1995a). A compositional map of human Xq28. Proc. Natl. Acad. Sci. USA, in press.
9. DeSario, A., Geigl, E. M., and Bernardi, G. (1995b). A rapid procedure for the compositional analysis of yeast artificial chromosomes. Nucleic Acids Res. 23: 4013-4014.
10. Dessen, P., Fondrat, C., Valencien, C., Mugnier, C. (1990). BISANCE: A French service for access to biomolecular sequence databases. CABIOS 6: 355-356.
11. Devereux, J., Haeberli, P., and Smithies, O. (1984). A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12: 387-395.
12. D'Onofrio, G., Mouchiroud, D., Aïssani, B., Gautìer, C., and Bernardi, G. (1991). Correlations between the compositional properties of human genes, codon usage, and amino acid composition of proteins. J. Mol. Evol. 32: 504-510.
13. Duret, L., Dorkeld, F., and Gautier, C. (1993). Strong conservation of non-coding sequences during vertebrate evolution: Potential involvement of post-transcriptional regulation of gene expression. Nucleic Acid Res. 21: 2315-2322.
14. Gouy, M., Gautier, C., Attimonelli, N., Lanave, C., and Di Paola, G. (1985). ACNUC - Portable retrieval system for nucleic acid sequence database: Logical and physical design and usage. CABIOS 1:167-172.
15. Larsen, F., Gundersen, G., Lopez, R., and Prydz, H. (1992). CpG islands as gene markers in the human genome. Genomics 13:1095-1107.
16. Montero, L. M., Salinas, J., Matassi, C., and Bernardi, G. (1990). Gene distribution and isochore organization in the nuclear genomes of plants. Nucleic Acids Res. 18: 1859-1867.
17. Mouchiroud, D., D'Onofrio, G., Aïssani, B., Macaya, G., Gautier, C., and Bernardi, G. (1991). The distribution of genes in the human genome. Gene 100: 181-187.
18. Pesole, G., Fiormarino, C., and Saccone, C. (1994). Sequence analysis and compositional properties of untranslated regions of human mRNAs. Gene 140: 219-225.
19. Saccone, S., De Sario, A., Della Valle, G., and Bernardi, G. (1992). The highest gene concentrations in the human genome are in T-bands of metaphase chromosomes. Proc. Natl. Acad. Sci. USA 89: 4913-4917.
20. Saccone, S., De Sario, A., Wiegant, J., Raap, A. K., Della Valle, G., and Bernardi, G. (1993). Correlations between isochores and chromosomal bands in the human genome. Proc. Natl. Acad. Sci. USA 90: 11929-11933.
21. Salinas, J., Matassi, C., Montero, L. M., and Bernardi, G. (1988). Compositional compartmentalization and compositional patterns in the nuclear genomes of plants. Nucleic Acids Res. 16: 4269-4285.
22. Sambrook, J., Fritsch, E. F., and Maniatis, T. (1989). "Molecular Cloning: A Laboratory Manual," 2nd ed., Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
23. Wright, S. (1932). The roles of mutation, inbreeding, crossbreeding and selection in evolution. Proc. 6th Int. Congr. Genetics 1: 356-366. Reprinted in: "Evolution: Selected Papers of Sewall Wright" (W. B. Provine, Ed.), Univ. of Chicago Press, Chicago and London, 1986.
24. Zerial, M., Salinas, J., Filipski, J., and Bernardi, G. (1986). Gene distribution and nucleotide sequence organization in the human genome. Eur. J. Biochem. 160: 479-485.