isochore (EBI)

isochore (EBI) plots potential isochore features and analyzes base composition homogeneity in genomic sequences to support studies of genome organization and evolution.

Key Features:

• Integration with EMBL-EBI resources: Combines sequence data and functional annotations from UniProt, InterPro, ENA, and Ensembl Genomes for joint analyses.
• Isochore plotting: Plots potential isochore features, representing large DNA regions with homogeneous base composition.
• Sequence analysis via Job Dispatcher framework: Leverages the EMBL-EBI Job Dispatcher to run sequence analyses using popular bioinformatics applications.
• Identification and characterization of isochores: Identifies and characterizes isochore structures based on base composition homogeneity.
• Job management enhancements: Utilizes improved job management capabilities within the Job Dispatcher framework to manage analyses.

Scientific Applications:

• Genome structure and evolution: Enables analysis of compositional heterogeneity relevant to genome organization and evolutionary studies.
• Gene regulation and chromatin organization: Provides compositional context that can inform studies of gene regulation and chromatin organization.
• Integration with functional annotation: Supports comprehensive analyses combining sequence composition with UniProt and InterPro functional annotations.

Methodology:

Uses the EMBL-EBI Job Dispatcher framework to perform sequence analyses with popular bioinformatics applications and to identify and characterize isochores based on base composition homogeneity.