Detecting anomalous gene clusters and pathogenicity islands in diverse bacterial genomes.

@article{Karlin2001DetectingAG,
  title={Detecting anomalous gene clusters and pathogenicity islands in diverse bacterial genomes.},
  author={Samuel Karlin},
  journal={Trends in microbiology},
  year={2001},
  volume={9 7},
  pages={335-43}
}
A gene in a genome is defined as putative alien (pA) if its codon usage difference from the average gene exceeds a high threshold and codon usage differences from ribosomal protein genes, chaperone genes and protein-synthesis-processing factors are also high. pA gene clusters in bacterial genomes are relevant for detecting genomic islands (GIs), including pathogenicity islands (PAIs). Four other analyses appropriate to this task are G+C genome variation (the standard method); genomic signature… CONTINUE READING
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