三代全长转录本分析工具汇总

生信人 · 公众号 · 生物 · 2017-07-13 06:49

正文

三代全长转录本在辅助基因注释，可变剪接分析，融合基因检测方面可以说大显身手，下面小编列了几个工具及对应的下载地址，供大家参考。大家有好的最新的工具欢迎留言补充！

1. 可变剪接鉴定（3个工具）

1)网址： https://github.com/liuxiaoxian/IsoSeq_AS_de_novo

Liu X, Mei W, Soltis P S, et al. Detecting Alternatively Spliced Transcript Isoforms from Single‐Molecule Long‐Read Sequences without a Reference Genome[J]. Molecular Ecology Resources, 2017.

2)网址： http://splic egrapher.sou rceforge.net /

Rogers M F, Thomas J, Reddy A S N, et al. SpliceGrapher: detecting patterns of alternative splicing from RNA-Seq data in the context of gene models and EST data[J]. Genome biology, 2012, 13(1): R4.

3)网址：https://sourceforge.net/projects/cash-program/

Wu W, Zong J, Wei N, et al. CASH: a constructing comprehensive splice site method for detecting alternative splicing events[J]. Briefings in Bioinformatics, 2017: bbx034.

2. 多平台结合分析高基因密度基因组

网址： https://gith ub.com/flemi ngtonlab/pub lic

O’Grady T, Wang X, Höner Zu Bentrup K, Baddoo M, Concha M, Flemington EK. Global transcript structure resolution of high gene density genomes through multi-platform data integration. Nucleic A cids Res. 2016 Jul 12; PMID: 27407110 .

3. 全长转录本分析流程TAPIS