iRO-PsekGCC

iRO-PsekGCC predicts DNA replication origins by modeling Pseudo k-tuple GC Composition to capture GC asymmetry bias for analysis of DNA replication mechanisms.

Key Features:

• Pseudo k-Tuple GC Composition (PseKGC): Integrates GC skew and sequence order effects of k-tuple GC Composition (k-GCC) to capture GC asymmetry bias in DNA sequences.
• Improved predictive performance: Builds on iRO-3wPseKNC and enhances discriminative identification of entire replication origins by more effectively addressing GC skew and sequence order effects.

Scientific Applications:

• Yeast replication-origin mapping: Identification of replication origins in Saccharomyces cerevisiae and Pichia pastoris to inform studies of DNA replication regulation, genomic stability, and cell division.

Methodology:

Applies PseKGC integrating GC skew and sequence order effects of k-GCC and validates performance using jackknife testing on benchmark datasets from Saccharomyces cerevisiae and Pichia pastoris.