SkewDB

SkewDB catalogs and quantifies nucleotide skews across microbial chromosomes and plasmids to support analysis of genomic strand asymmetries related to DNA replication and evolution.

Key Features:

• Extensive Data Coverage: Contains data for over 28,000 chromosomes and plasmids across microbial genomes.
• Diverse Skew Types: Reports GC skew and ten additional nucleotide skews, including TA skew.
• Detailed Annotations: Includes codon bias, strand bias, strand lengths, and taxonomic data for each entry.
• Quantification of Deviations: Measures strand-specific excesses of G versus C and T versus A to quantify deviations from Chargaff’s second parity rule.

Scientific Applications:

• Chargaff’s second parity rule analysis: Enables analysis of deviations from Chargaff’s second parity rule across genomes.
• Replication and evolutionary dynamics: Supports investigations into bacterial replication mechanisms and evolutionary pressures shaping nucleotide skews.
• Phylum-level pattern comparison: Facilitates comparison of skew patterns and relationships between TA and GC skews across phyla.
• Hypothesis generation and verification: Provides empirical data to generate and test hypotheses about genomic asymmetries.

Methodology:

Systematically analyzes bacterial genomes to quantify nucleotide skews and deviations from Chargaff’s second parity rule across chromosomes and plasmids.