ArticleEvolutionary bioinformatics online2007
The GC skew index: a measure of genomic compositional asymmetry and the degree of replicational selection.
Article in Evolutionary bioinformatics online, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 38 citations in OpenAlex.
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- Comparative mitochondrial genomics in Nematoda reveal astonishing variation in compositional biases and substitution rates indicative of multi-level selection.BMC genomics · 2024Article
- Inference of gene regulatory networks based on directed graph convolutional networks.Briefings in bioinformatics · 2024Article
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- Delineation of the Ancestral Tus-Dependent Replication Fork Trap.International journal of molecular sciences · 2021Article
- Whole Genome Sequencing and TnInternational journal of molecular sciences · 2020Article
- Characterization and genomic analysis of a diesel-degrading bacterium, Acinetobacter calcoaceticus CA16, isolated from Canadian soil.BMC biotechnology · 2020Article
- Evolutionary Changes in DnaA-Dependent Chromosomal Replication in Cyanobacteria.Frontiers in microbiology · 2020Article
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- Codon Adaptation of Plastid Genes.PloS one · 2016Article
- Global insights into acetic acid resistance mechanisms and genetic stability of Acetobacter pasteurianus strains by comparative genomics.Scientific reports · 2015Article
- Environmentally co-occurring mercury resistance plasmids are genetically and phenotypically diverse and confer variable context-dependent fitness effects.Environmental microbiology · 2015Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Circular bacterial chromosomes have highly polarized nucleotide composition in the two replichores, and this genomic strand asymmetry can be visualized using GC skew graphs. Here we propose and discuss the GC skew index (GCSI) for the quantification of genomic compositional skew, which combines a normalized measure of fast Fourier transform to capture the shape of the skew graph and Euclidean distance between the two vertices in a cumulative skew graph to represent the degree of skew. We calculated GCSI for all available bacterial genomes, and GCSI correlated well with the visibility of GC skew. This novel index is useful for estimating confidence levels for the prediction of replication origin and terminus by methods based on GC skew and for measuring the strength of replicational selection in a genome.
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Identifiers
19461976PMC2684130W1637201493What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.