seekCRIT

seekCRIT identifies differentially expressed circular RNAs (circRNAs) between two biological conditions using rRNA-depleted high-throughput RNA-seq data to characterize expression changes of circRNAs present in both conditions.

Key Features:

• Identification of Differentially Expressed CircRNAs (DECs): seekCRIT detects DECs between two biological conditions from RNA-seq data, focusing on circRNAs expressed in both conditions.
• High Validation Rate: Validation reported a quantitative PCR (qPCR) success rate of 90% with a false discovery rate (FDR) of less than 5%.
• Compatibility with rRNA-depleted RNA-seq Data: The method is optimized for ribosomal RNA-depleted RNA sequencing data.

Scientific Applications:

• CircRNA differential expression studies: Identification of DECs to investigate circRNA roles in biological processes and disease mechanisms.
• Comparative condition analysis (example): Applied to rat retina RNA-seq comparing ischemic and normal states, identifying over 40 DECs and detecting over 74% of circRNAs expressed in both conditions in the validation study.

Methodology:

Analyzes rRNA-depleted high-throughput RNA-seq data to quantify circRNA expression across two conditions and identify differentially expressed circRNAs.