Circular RNA identification based on multiple seed matching

• Published in: Briefings in bioinformatics Vol. 19; no. 5; pp. 803 - 810
• Main Authors: Gao, Yuan, Zhang, Jinyang, Zhao, Fangqing
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 28.09.2018; Oxford Publishing Limited (England)
• Subjects: Algorithms; biogenesis; Circular RNA; Circularity; Computational Biology - methods; Computer applications; Humans; Identification methods; Likelihood Functions; Mapping; Matching; Maximum likelihood estimation; repetitive sequences; Reproducibility of Results; Ribonuclease; ribonucleases; Ribonucleic acid; RNA; RNA - genetics; RNA Splicing; Sequence Alignment - methods; Sequence Alignment - statistics & numerical data; Sequence Analysis, RNA - methods; Sequence Analysis, RNA - statistics & numerical data; Software; statistical analysis; circRNA; maximum likelihood estimation; multiple threads; multiple seed matching

Abstract Computational detection methods have been widely used in studies on the biogenesis and the function of circular RNAs (circRNAs). However, all of the existing tools showed disadvantages on certain aspects of circRNA detection. Here, we propose an improved multithreading detection tool, CIRI2...