WAR

WAR performs simultaneous multiple sequence alignment and secondary structure prediction of non-coding RNA sequences to support comparative and functional analyses.

Key Features:

• Multiple alignment and secondary structure prediction: Integrates several advanced algorithms to perform simultaneous multiple sequence alignment and secondary structure prediction of non-coding RNA sequences.
• Integration of multiple algorithms: Combines outputs from different prediction programs to incorporate complementary computational methods.
• Program-specific metrics: Calculates additional metrics for each employed program to aid assessment of individual predictions.
• Consensus prediction: Synthesizes outputs from all employed methods into a consensus prediction of secondary structure and alignment.

Scientific Applications:

• Non-coding RNA research: Facilitates analysis of sequence and structural features of non-coding RNAs.
• Comparative genomics: Supports comparative analyses of RNA sequence conservation and structural conservation across species.
• Transcriptome analysis: Aids interpretation of RNA structural elements within transcriptome data.
• Molecular biology studies of RNA function: Informs investigations linking RNA secondary structure to functional roles.

Methodology:

Leverages multiple computational algorithms to perform multiple sequence alignment and secondary structure prediction, computes program-specific metrics, and synthesizes program outputs into a consensus prediction.