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Low-cost, Low-bias and Low-input RNA-seq with High Experimental Verifiability based on Semiconductor Sequencing

Authors :
Chuan-Le Xiao
Jingjie Jin
Zhibiao Mai
Gong Zhang
Source :
Scientific Reports, Vol 7, Iss 1, Pp 1-10 (2017), Scientific Reports
Publication Year :
2017
Publisher :
Springer Science and Business Media LLC, 2017.

Abstract

Low-input RNA-seq is powerful to represent the gene expression profiles with limited number of cells, especially when single-cell variations are not the aim. However, pre-amplification-based and molecule index-based library construction methods boost bias or require higher throughput. Here we demonstrate a simple, low-cost, low-bias and low-input RNA-seq with ion torrent semiconductor sequencing (LIEA RNA-seq). We also developed highly accurate and error-tolerant spliced mapping algorithm FANSe2splice to accurately map the single-ended reads to the reference genome with better experimental verifiability than the previous spliced mappers. Combining the experimental and computational advancements, our solution is comparable with the bulk mRNA-seq in quantification, reliably detects splice junctions and minimizes the bias with much less mappable reads.

Details

ISSN :
20452322
Volume :
7
Database :
OpenAIRE
Journal :
Scientific Reports
Accession number :
edsair.doi.dedup.....69bd2dd874ac0c66395c5200fcb1e39a