Strand asymmetries

Transcription-Coupled Strand Asymmetries in the Human Genome... 

C. A Model for Transcription-Coupled TA and GC Skews Replication-Associated Strand Asymmetries in the Human Genome... 

A. Replication-Associated Strand Asymmetries in Prokaryotic Genomes The Replicon model... 

C. Conservation of Replication-Associated Strand Asymmetries in Mammalian Genomes... 

Strand Asymmetries. The TA and GC skews were calculated in nonoverlapping windows of size 1-kbp as... 

IV. TRANSCRIPTION-COUPLED STRAND ASYMMETRIES IN THE HUMAN GENOME... 

We have started examining nucleotide compositional strand asymmetries in transcribed regions of human sequences [36]. We have computed the 5ta and 5gc skews [Eq. (1)] for intron sequences since, in contrast to exonic sequences, they can be considered as weakly selected sequences. For each gene, we have concatenated all the introns in a unique sequence (see Section II.A). The distributions of the TA and GC skews, computed on the 14,854 intro-containing... 

More recently, we have extended this study of strand asymmetries in intron sequences to evolutionarily distant eukaryotes [37]. When appropriately examined, all genomes present transcription-coupled excess of T over A ( TA > 0) in the coding strand. In contrast, GC skew is found positive in... 

B. Analysis of Strand Asymmetries Around Experimentally Determined... 

Strand Asymmetries Associated with Human Replication Origins [38] ... 

For more details on the existence and modehng of replication associated strand asymmetries in mammalian genomes, we refer the reader to the Ph.D. thesis manuscripts of E. B. Brodie of Brodie [96], S. Nicolay [97], and M. Touchon [109]. 

M. Touchon, S. Nicolay, A. Arneodo, Y. d Aubenton-Carafa, and C. Thermes, Transcription-coupled TA and GC strand asymmetries in the human genome. FEES Lett. 555, 579-582... 

C. Shioiri, and N. Takahata, Skew of mononucleotide frequencies, relative abundance of dinucleotides, and DNA strand asymmetry. J. Mol. Evol. 53, 364—376 (2001). 

P. Lopez, and H. Philippe, Composition strand asymmetries in prokaryotic genomes mutational bias and biased gene orientation. C. R. Acad. Sci. HI 324, 201-208 (2001). 

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