dorsal/arxiv
View SchemaConspiracy in bacterial genomes
| Authors | Luc Frappat, Antonino Sciarrino |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0507030 |
| URL | https://arxiv.org/abs/q-bio/0507030 |
| DOI | 10.1016/j.physa.2006.02.008 |
Abstract
The rank ordered distribution of the codon usage frequencies for 123 bacteriae is best fitted by a three parameters function that is the sum of a constant, an exponential and a linear term in the rank n. The parameters depend (two parabolically) from the total GC content. The rank ordered distribution of the amino acids is fitted by a straight line. The Shannon entropy computed over all the codons is well fitted by a parabola in the GC content, while the partial entropies computed over subsets of the codons show peculiar different behavior, exhibiting therefore a first conspiracy effect. Moreover the sum of the codon usage frequencies over particular sets, e.g. with C and A (respectively G and U) as i-th nucleotide, shows a clear linear dependence from the GC content, exhibiting another conspiracy effect.
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"abstract": "The rank ordered distribution of the codon usage frequencies for 123\nbacteriae is best fitted by a three parameters function that is the sum of a\nconstant, an exponential and a linear term in the rank n. The parameters depend\n(two parabolically) from the total GC content. The rank ordered distribution of\nthe amino acids is fitted by a straight line. The Shannon entropy computed over\nall the codons is well fitted by a parabola in the GC content, while the\npartial entropies computed over subsets of the codons show peculiar different\nbehavior, exhibiting therefore a first conspiracy effect. Moreover the sum of\nthe codon usage frequencies over particular sets, e.g. with C and A\n(respectively G and U) as i-th nucleotide, shows a clear linear dependence from\nthe GC content, exhibiting another conspiracy effect.",
"arxiv_id": "q-bio/0507030",
"authors": [
"Luc Frappat",
"Antonino Sciarrino"
],
"categories": [
"q-bio.GN"
],
"doi": "10.1016/j.physa.2006.02.008",
"title": "Conspiracy in bacterial genomes",
"url": "https://arxiv.org/abs/q-bio/0507030"
},
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