RASP

RNA Secondary Structure Probing Database: Integrated transcriptome-wide RNA structure datasets

RASP (RNA Atlas of Structure Probing) Database aggregates 161 deduplicated transcriptome-wide RNA secondary structure probing datasets from 38 publications, integrating data across multiple species and experimental methodologies.

Key Features:

• Extensive Dataset Collection: Contains 161 deduplicated transcriptome-wide RNA secondary structure probing datasets curated from 38 distinct studies.
• Broad Species Coverage: Includes datasets from animals, plants, bacteria, fungi, viruses, and the RNA genome of SARS-CoV-2.
• Diverse Experimental Methods: Categorizes data from 18 probing methodologies, including DMS-seq, SHAPE-Seq, SHAPE-MaP, and icSHAPE, employing nucleases and chemical modifiers to interrogate RNA secondary structures.

Scientific Applications:

• RNA Structure–Function Analysis: Enables investigation of RNA folding patterns underlying gene regulation, RNA function, and therapeutic targeting of RNA-based mechanisms.

Methodology:

Compiles and standardizes transcriptome-wide RNA structure probing datasets generated by chemical modification- and nuclease-based technologies, integrating results from multiple experimental approaches to provide comparative analysis of RNA secondary structures across species and conditions.