Dinucleotide relative abundance extremes: a genomic signature.

@article{KB95, abstract = {Early biochemical experiments established that the set of dinucleotide odds ratios or 'general design' is a remarkably stable property of the DNA of an organism, which is essentially the same in protein-coding DNA, bulk genomic DNA, and in different renaturation rate and density gradient fractions of genomic DNA in many organisms. Analysis of currently available genomic sequence data has extended these earlier results, showing that the general designs of disjoint samples of a genome are substantially more similar to each other than to those of sequences from other organisms and that closely related organisms have similar general designs. From this perspective, the set of dinucleotide odds ratio (relative abundance) values constitute a signature of each DNA genome, which can discriminate between sequences from different organisms. Dinucleotide-odds ratio values appear to reflect not only the chemistry of dinucleotide stacking energies and base-step conformational preferences, but also the species-specific properties of DNA modification, replication and repair mechanisms.}, address = {Department of Mathematics, Stanford University, CA 94305-2125, USA.}, author = {Karlin, S. and Burge, C. }, citeulike-article-id = {2942120}, issn = {0168-9525}, journal = {Trends in genetics : TIG}, keywords = {hgt}, month = {July}, number = {7}, pages = {283--290}, posted-at = {2008-06-29 21:55:22}, priority = {2}, title = {Dinucleotide relative abundance extremes: a genomic signature.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/7482779}, volume = {11}, year = {1995} }

TY - JOUR ID - KB95 L3 - citeulike-article-id:2942120 TI - Dinucleotide relative abundance extremes: a genomic signature. JF - Trends in genetics : TIG VL - 11 IS - 7 SP - 283 EP - 290 AD - Department of Mathematics, Stanford University, CA 94305-2125, USA. SN - 0168-9525 N2 - Early biochemical experiments established that the set of dinucleotide odds ratios or 'general design' is a remarkably stable property of the DNA of an organism, which is essentially the same in protein-coding DNA, bulk genomic DNA, and in different renaturation rate and density gradient fractions of genomic DNA in many organisms. Analysis of currently available genomic sequence data has extended these earlier results, showing that the general designs of disjoint samples of a genome are substantially more similar to each other than to those of sequences from other organisms and that closely related organisms have similar general designs. From this perspective, the set of dinucleotide odds ratio (relative abundance) values constitute a signature of each DNA genome, which can discriminate between sequences from different organisms. Dinucleotide-odds ratio values appear to reflect not only the chemistry of dinucleotide stacking energies and base-step conformational preferences, but also the species-specific properties of DNA modification, replication and repair mechanisms. KW - hgt AU - Karlin, S AU - Burge, C PY - 1995/07// UR - http://view.ncbi.nlm.nih.gov/pubmed/7482779 ER -