TSSr

TSSr identifies and characterizes transcription start sites (TSSs) and infers core promoters from TSS sequencing data for genome-wide analysis of transcription initiation.

Key Features:

• Accurate Mapping of Transcription Start Sites (TSSs): Incorporates newly developed algorithms to identify TSSs from mapped sequencing reads with enhanced precision.
• Core Promoter Inference: Infers and characterizes core promoter regions to delineate promoter structures and transcription initiation activities.
• Genome-wide Processing: Processes and analyzes TSS sequencing data on a genome-wide scale.
• Data Export for Genome Browsers: Exports multiple types of TSS data compatible with genome browsers.
• Visualization and Figure Generation: Generates publication-ready graphs for inspection and visualization of promoter activities and TSS distributions.

Scientific Applications:

• Transcription initiation mapping: Mapping and quantification of TSSs to study transcription initiation patterns and regulated transcription.
• Core promoter studies: Characterization of core promoter structures and their roles in transcription regulation.
• Gene regulation and disease research: Investigating how TSS selection and promoter architecture contribute to gene regulation, cellular processes, and disease mechanisms.

Methodology:

Applies newly developed bioinformatics algorithms to map and identify TSSs from mapped sequencing reads of high-throughput TSS sequencing data, infer and characterize core promoters, perform genome-wide processing and analysis, export data compatible with genome browsers, and generate publication-ready visualizations.