nagnag: Identification and quantification of NAGNAG alternative splicing using RNA-Seq data

作者：Yan, Xiaoyan; Sablok, Gaurav; Feng, Gang; Ma, Jiaxin; Zhao, Hongwei; Sun, Xiaoyong^*

来源：FEBS LETTERS, 2015, 589(15): 1766-1770.

DOI：10.1016/j.febslet.2015.05.029

• Alternative splicing
• NAGNAG motif
• Expression quantification
• Differential splicing

Regulation of proteome diversity by alternative splicing has been widely demonstrated in plants and animals. NAGNAG splicing, which was recently defined as a tissue specific event, results in the production of two distinct isoforms that are distinguished by three nucleotides (NAG) as a consequence of the intron proximal or distal to the splice site. Since the NAGNAG mechanism is not well characterized, tools for the identification and quantification of NAGNAG splicing events remain under-developed. Here we report nagnag, an R-based NAGNAG splicing detection tool, which accurately identifies and quantifies NAGNAG splicing events using RNA-Seq. Overall, nagnag produces user-friendly visualization reports and highlights differences between the DNA/RNA/protein across the identified isoforms of the reported gene.

• 出版日期2015-7-8
• 单位南京农业大学; 西北大学; 山东农业大学; 山东中医药大学