ANUBIS

ANUBIS analyzes transposon sequencing (Tn-seq) data to detect insertion sites, correct technical artifacts, and estimate gene essentiality for applications in microbial genetics, evolutionary biology, and synthetic biology.

Key Features:

• Pipeline Integration: Integrates with FASTQINS to detect transposon insertions from raw FASTQ reads.
• Artifact Correction and Data Curation: Applies algorithms to identify and correct sequencing and processing artifacts in Tn-seq datasets.
• Essentiality Estimation Models: Implements established and novel models for gene essentiality estimation, including approaches that do not require a predefined training set of genes.
• Resolution and Precision: Supports high-resolution analyses, demonstrated at 1.5-bp resolution in Mycoplasma pneumoniae datasets.

Scientific Applications:

• Genome Essentiality Studies: Identifies essential genes to inform genome reduction and synthetic biology strategies.
• Vaccine Design: Supports live attenuated vaccine design by identifying non-essential genes suitable for deletion or modification.
• Growth Optimization: Uses essentiality and insertion-site data to guide optimization of growth conditions in industrial microbiology.

Methodology:

Processes raw sequencing reads with FASTQINS to detect transposon insertions, applies correction algorithms to mitigate artifacts, and uses traditional and novel essentiality-prediction models that can operate without predefined training gene sets.