Comparative assessment of methods for the fusion transcripts detection from RNA-Seq data
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- (rev. 1)
- Hyungyong Kim
Structured data
- About
- Fusion gene
- Date Published
- Publisher
- Scientific Reports
- URL
- http://www.nature.com/articles/srep21597
RNA-seq 데이터로 Fusion gene 탐지하는 도구들 평가
Table of Contents
Summary #
Methods #
Fusion detection software packages #
- Bellerophontes
- BreakFusion
- Chimerascan
- EricScript
- FusionCatcher
- FusionHunter
- JAFFA
- MapSplice
- FusionMap
- nFuse
- TopHat-Fusion
- SOAPfuse
Datasets #
- Positive dataset: FusionMap 개발자들에 의해 만들어짐. 57,209개의 합성 pairs of reads. 158bp fragment length. 50 true fusions.
- Negative dataset: 6 sets of paired-end reads (50nt, 75nt, 100nt)
- Mixed dataset: combining neg and pos
- Test dataset: HiSeq 2000 paired-end RNA-seq reads 6 runs
Data analysis #
- Sensitivity (%) = (TP/TF) * 100
- Positive predictive value (PPV) (%) = (TP/TP+FP) * 100
Results #
Positive datasets #
Mixed dataset #
Test dataset #
Discussion #
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