HiTRACE-Web

HiTRACE-Web performs automated analysis of high-throughput capillary electrophoresis (HTCE) data to quantify electrophoretic bands and support RNA and DNA structural mapping and contact inference.

Key Features:

• Automated Band Annotation: Automated identification and scoring of electrophoretic peaks in HTCE traces.
• Adjustable Annotations: Manual adjustment and flexible refinement of annotations to correct or tailor automated peak assignments.
• Parallelized Processing: Parallel computation to accelerate processing of large HTCE datasets.
• HiTRACE-derived Quantitation Algorithms: Implements analytical quantitation and interpretation algorithms originating from the HiTRACE command-line MATLAB scripts.
• Accurate Quantitation and Interpretation: Algorithms for quantifying capillary electrophoresis signal intensities and supporting downstream interpretation.

Scientific Applications:

• RNA and DNA Structure Mapping: Quantitation of HTCE data for experiments that probe nucleic acid structure.
• Mutate-and-Map Contact Inference: Analysis of HTCE datasets used to infer contact points within mutated sequences.
• Chromatin Footprinting: Mapping protein–DNA interactions via capillary electrophoresis signal analysis.
• Eterna RNA Design Project: Support for projects that measure and analyze HTCE data for designed RNA structures.

Methodology:

Processes HTCE data using HiTRACE-derived command-line MATLAB algorithms with automated band annotation, adjustable annotations, quantitation and interpretation methods, and parallelized computation.