Rnnotator

Rnnotator performs de novo assembly of high-throughput mRNA sequencing (RNA-Seq) data to generate reference-free transcript models for annotation and quantification of transcriptomes.

Key Features:

• De Novo Assembly: Performs de novo assembly of RNA-Seq data to construct transcript models independently of reference genome sequences.
• Annotation and Quantification: Generates transcript models suitable for transcriptome annotation and quantification from high-throughput mRNA sequencing (RNA-Seq) data.
• High Accuracy and Completeness: Produces contigs with approximately 95% accuracy in reconstructed transcript sequences and reconstructs full-length genes for about 54.3% of existing gene models.
• Novel Transcript Discovery: Identifies novel transcribed regions that are not represented in well-annotated genomes.

Scientific Applications:

• Non-model Organisms: Enables transcriptome assembly and annotation for species lacking well-characterized reference genomes.
• Comparative Genomics: Provides assembled transcriptomes for comparative analyses across different organisms.
• Novel Transcript Discovery: Facilitates identification of new genes and regulatory elements absent from reference-based annotations.

Methodology:

Integrates RNA-Seq data and performs systematic de novo assembly to construct transcript models, then compares assembled transcripts with existing gene catalogs to assess accuracy and completeness.