S-MART

S-MART processes and analyzes mapped RNA-Seq data to identify biologically relevant loci and support interpretation of high-throughput sequencing experiments.

Key Features:

• Comprehensive analysis capabilities: Processes mapped reads to perform the range of analyses required for RNA-Seq data from read-level processing to locus identification.
• Mapped-read and assay support: Operates on mapped RNA-Seq datasets and is applicable to related high-throughput assays such as ChIP-seq.
• Integrated workflow: Combines multiple analytical tasks into a single pipeline to reduce the need for ad hoc scripting.
• Efficient performance: Capable of processing large datasets (gigabytes) with results reported within approximately an hour on conventional hardware.

Scientific Applications:

• Gene expression profiling: Identification and quantification of expressed loci from mapped RNA-Seq reads.
• Regulatory element and locus discovery: Detection of biologically relevant loci and regulatory features from RNA-Seq and ChIP-seq mapped data.
• High-throughput data interpretation: Facilitates extraction of biologically meaningful signals from large mapped sequencing datasets.

Methodology:

Streamlined handling of mapped RNA-Seq reads through integration of various analytical tasks into a single platform.