TASE

TASE performs rapid tag-counting and annotation of Illumina CASAVA sequencing datasets to quantify sequence tags for gene expression and genomic feature analysis.

Key Features:

• Rapid Tag-Counting: Performs rapid counting of sequence tags to quantify tag abundance in large Illumina CASAVA datasets.
• Annotation Capability: Maps sequence tags to known genomic elements and annotations to support biological interpretation.
• Optimized for Illumina CASAVA Datasets: Processes datasets produced by Illumina's CASAVA pipeline for compatibility and efficient analysis.

Scientific Applications:

• Gene Expression Quantification: Quantifies gene or transcript expression levels from sequencing tag counts.
• Differential Expression Analysis: Supports detection of differential gene expression across samples via comparative tag-counting.
• Novel Transcript Identification: Assists in identifying novel transcripts by providing tag distribution together with annotation context.
• Genetic Variation Investigation: Enables investigation of genetic variation signals across samples through analysis of tag-count patterns.
• Application Domains: Applicable to genomics, transcriptomics, and personalized medicine studies using Illumina CASAVA data.

Methodology:

Integrates Illumina CASAVA high-throughput sequencing data with existing genomic annotations and applies algorithmic tag-counting methods to map and annotate sequence tags to known genomic elements.