An automated method for efficient, accurate and reproducible construction of RNA-seq libraries

BMC Research Notes

Michael Joseph Buck¹  Norma Nowak¹  Brandon Marzullo¹  Jonathan Bard¹  Sujith Valiyaparambil¹  Maria Tsompana¹ 

[1] Department of Biochemistry and Center of Excellence in Bioinformatics and Life Sciences, State University of New York at Buffalo, 701 Ellicott St., Buffalo, 14203, NY, USA

关键词: Transcription;    Epigenetics;    Chromatin;    Next generation sequencing;    RNA-seq;   

Others  :  1164303
DOI  :  10.1186/s13104-015-1089-9

 received in 2014-06-02, accepted in 2015-03-24,  发布年份 2015

【 摘 要 】

Background

Integration of RNA-seq expression data with knowledge on chromatin accessibility, histone modifications, DNA methylation, and transcription factor binding has been instrumental for the unveiling of cell-specific local and long-range regulatory patterns, facilitating further investigation on the underlying rules of transcription regulation at an individual and allele-specific level. However, full genome transcriptome characterization has been partially limited by the complexity and increased time-requirements of available RNA-seq library construction protocols.

Findings

Use of the SX-8G IP-Star® Compact System significantly reduces the hands-on time for RNA-seq library synthesis, adenylation, and adaptor ligation providing with high quality RNA-seq libraries tailored for Illumina high-throughput next-generation sequencing. Generated data exhibits high technical reproducibility compared to data from RNA-seq libraries synthesized manually for the same samples. Obtained results are consistent regardless the researcher, day of the experiment, and experimental run.

Conclusions

Overall, the SX-8G IP-Star® Compact System proves an efficient, fast and reliable tool for the construction of next-generation RNA-seq libraries especially for trancriptome-based annotation of larger genomes.

【 授权许可】

   
2015 Tsompana et al.; licensee BioMed Central.

【 图 表 】

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